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Conserved domains on  [gi|2679286041|ref|WP_333553059|]
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response regulator [Clostridium thermosuccinogenes]

Protein Classification

response regulator transcription factor( domain architecture ID 14435958)

response regulator transcription factor with a signal receiver (REC) domain and an AraC family helix-turn-helix (HTH) domain that may be part of a two-component regulatory system

CATH:  3.40.50.2300
Gene Ontology:  GO:0000160|GO:0000156|GO:0006355|GO:0003677|GO:0003700|GO:0007165
PubMed:  15808743|19076237|10473770|8831795|10966457|20226724|33837749
SCOP:  4003632

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 4-123 8.88e-60

phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators; This family is composed of uncharacterized response regulators that contain a REC domain and a AraC family helix-turn-helix (HTH) DNA-binding output domain, including Bacillus subtilis uncharacterized transcriptional regulatory protein YesN and Staphylococcus aureus uncharacterized response regulatory protein SAR0214. YesN is a member of the two-component regulatory system YesM/YesN and SAR0214 is a member of the probable two-component regulatory system SAR0215/SAR0214. Also included in this family is the AlgR-like group of LytTR/AlgR family response, which includes Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR and Bacillus subtilis sensory transduction protein LytT, among others. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


:

Pssm-ID: 381091 [Multi-domain]  Cd Length: 121  Bit Score: 190.63  E-value: 8.88e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGL-FAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:cd17536     1 VLIVDDEPLIREGLkKLIDWEELGFEVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYPDIKIIILS 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLE 123
Cdd:cd17536    81 GYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKEELD 121
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
349-430 1.60e-28

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 107.25  E-value: 1.60e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  349 ITLREVADHVYISPSHLSALFKR-NGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKKNVGMTPN 427
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKeTGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 2679286041  428 EYR 430
Cdd:smart00342  82 EYR 84
 
Name Accession Description Interval E-value
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 4-123 8.88e-60

phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators; This family is composed of uncharacterized response regulators that contain a REC domain and a AraC family helix-turn-helix (HTH) DNA-binding output domain, including Bacillus subtilis uncharacterized transcriptional regulatory protein YesN and Staphylococcus aureus uncharacterized response regulatory protein SAR0214. YesN is a member of the two-component regulatory system YesM/YesN and SAR0214 is a member of the probable two-component regulatory system SAR0215/SAR0214. Also included in this family is the AlgR-like group of LytTR/AlgR family response, which includes Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR and Bacillus subtilis sensory transduction protein LytT, among others. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381091 [Multi-domain]  Cd Length: 121  Bit Score: 190.63  E-value: 8.88e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGL-FAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:cd17536     1 VLIVDDEPLIREGLkKLIDWEELGFEVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYPDIKIIILS 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLE 123
Cdd:cd17536    81 GYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKEELD 121
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 5-105 1.74e-41

Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443786 [Multi-domain]  Cd Length: 103  Bit Score: 142.61  E-value: 1.74e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAW-PWKDlNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSG 83
Cdd:COG4753     3 LIVDDEPLIREGLKRIlEWEA-GFEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDPDTKIIILSG 81

                          90       100
                  ....*....|....*....|..
gi 2679286041  84 YSDFEYARKALQLGAVDYILKP 105
Cdd:COG4753    82 YSDFEYAQEAIKLGADDYLLKP 103
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
349-430 1.60e-28

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 107.25  E-value: 1.60e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  349 ITLREVADHVYISPSHLSALFKR-NGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKKNVGMTPN 427
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKeTGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 2679286041  428 EYR 430
Cdd:smart00342  82 EYR 84
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 5-113 1.05e-27

Response regulator receiver domain; This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain.


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 106.08  E-value: 1.05e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWpwkdLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:pfam00072   2 LIVDDDPLIRELLRQL----LEKEgyVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEMIQ 113
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLA 108
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
349-434 1.31e-25

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 104.86  E-value: 1.31e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 349 ITLREVADHVYISPSHLSALFKRN-GITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKKNVGMTPN 427
Cdd:COG2207   169 LTLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                  ....*..
gi 2679286041 428 EYRKHLR 434
Cdd:COG2207   249 EYRKRLR 255
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
337-431 4.17e-23

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 98.51  E-value: 4.17e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 337 AKQFIKNNYNRSITLREVADHVYISPSHLSALFKRN-GITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFS 415
Cdd:PRK10572  188 ACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQlGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFS 267

                          90
                  ....*....|....*.
gi 2679286041 416 ELFKKNVGMTPNEYRK 431
Cdd:PRK10572  268 RVFKKCTGASPSEFRA 283
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
4-125 1.06e-22

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 99.92  E-value: 1.06e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLFAWPWKDlNIETVgCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSG 83
Cdd:PRK11361    7 ILIVDDEDNVRRMLSTAFALQ-GFETH-CANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMTA 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2679286041  84 YSDFEYARKALQLGAVDYILKPIVFEEM---------IQCMKKLTAHLEEE 125
Cdd:PRK11361   85 YAEVETAVEALRCGAFDYVIKPFDLDELnlivqralqLQSMKKEIRHLHQA 135
HTH_18 pfam12833
Helix-turn-helix domain;
354-431 1.70e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 90.73  E-value: 1.70e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 354 VADHVYISPSHLSALFKRN-GITFLKYLTDIRIKHARELLGDL-KYSIYEVGEKVGYSDPAYFSELFKKNVGMTPNEYRK 431
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLLEDtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
HpaA TIGR02297
4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional ...
 325-430 5.98e-11

4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.


Pssm-ID: 131350 [Multi-domain]  Cd Length: 287  Bit Score: 62.90  E-value: 5.98e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 325 MEENGDSLTLAKAKQFIKNNYNRSITLREVADHVYISPSHLSALFKRNGITFLKYLTDIR-IKHARELLGDLKYSIYEVG 403
Cdd:TIGR02297 179 SPRNNELYLFNRFNFLIEENYKQHLRLPEYADRLGISESRLNDICRRFSALSPKRLIIERvMQEARRLLLFTQHSINQIA 258

                          90       100
                  ....*....|....*....|....*..
gi 2679286041 404 EKVGYSDPAYFSELFKKNVGMTPNEYR 430
Cdd:TIGR02297 259 YDLGYKDPAYFARFFQKETGLSPSAFR 285
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 5-58 7.28e-08

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues.


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 48.72  E-value: 7.28e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 2679286041    5 LIVDDEKEIREGLfawpwKDLNIE---TVGCCSHGLEALQFLANNPVDIVLTDIRMP 58
Cdd:smart00448   4 LVVDDDPLLRELL-----KALLEKegyEVDEATDGEEALELLKEEKPDLILLDIMMP 55
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 4-106 4.57e-05

PEP-CTERM-box response regulator transcription factor; Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see SP|Q06065). These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158). [Regulatory functions, DNA interactions]


Pssm-ID: 274348 [Multi-domain]  Cd Length: 445  Bit Score: 45.51  E-value: 4.57e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLfAWPWKDLNIETVGccsHGLEALQFLANNPVDIVLTDIRMP-----FMDGLELMEVLKRQYPFIHV 78
Cdd:TIGR02915   1 LLIVEDDLGLQKQL-KWSFADYELAVAA---DRESAIALVRRHEPAVVTLDLGLPpdadgASEGLAALQQILAIAPDTKV 76

                          90       100
                  ....*....|....*....|....*...
gi 2679286041  79 IILSGYSDFEYARKALQLGAVDYILKPI 106
Cdd:TIGR02915  77 IVITGNDDRENAVKAIGLGAYDFYQKPI 104
 
Name Accession Description Interval E-value
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 4-123 8.88e-60

phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators; This family is composed of uncharacterized response regulators that contain a REC domain and a AraC family helix-turn-helix (HTH) DNA-binding output domain, including Bacillus subtilis uncharacterized transcriptional regulatory protein YesN and Staphylococcus aureus uncharacterized response regulatory protein SAR0214. YesN is a member of the two-component regulatory system YesM/YesN and SAR0214 is a member of the probable two-component regulatory system SAR0215/SAR0214. Also included in this family is the AlgR-like group of LytTR/AlgR family response, which includes Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR and Bacillus subtilis sensory transduction protein LytT, among others. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381091 [Multi-domain]  Cd Length: 121  Bit Score: 190.63  E-value: 8.88e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGL-FAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:cd17536     1 VLIVDDEPLIREGLkKLIDWEELGFEVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYPDIKIIILS 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLE 123
Cdd:cd17536    81 GYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKEELD 121
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 5-105 1.74e-41

Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443786 [Multi-domain]  Cd Length: 103  Bit Score: 142.61  E-value: 1.74e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAW-PWKDlNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSG 83
Cdd:COG4753     3 LIVDDEPLIREGLKRIlEWEA-GFEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDPDTKIIILSG 81

                          90       100
                  ....*....|....*....|..
gi 2679286041  84 YSDFEYARKALQLGAVDYILKP 105
Cdd:COG4753    82 YSDFEYAQEAIKLGADDYLLKP 103
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-147 1.69e-31

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];


Pssm-ID: 441806 [Multi-domain]  Cd Length: 418  Bit Score: 124.69  E-value: 1.69e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREgLFAWPWKDLNIETVgCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVII 80
Cdd:COG2204     2 MARILVVDDDPDIRR-LLKELLERAGYEVE-TAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDPDLPVIL 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLEEEKQIEKRVNFLqHRAQQLSRVLR 147
Cdd:COG2204    80 LTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRRLRRENAEDSGLI-GRSPAMQEVRR 145
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 1-137 1.62e-30

DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction mechanisms];


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 117.61  E-value: 1.62e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLfawpwKDL-----NIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPF 75
Cdd:COG3279     1 MMKILIVDDEPLARERL-----ERLlekypDLEVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPP 75

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2679286041  76 IHVIILSGYSdfEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLEEEKQIEKRVNFLQH 137
Cdd:COG3279    76 PPIIFTTAYD--EYALEAFEVNAVDYLLKPIDEERLAKALEKAKERLEAKAAAEASPEEKDR 135
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 5-105 1.13e-29

phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response regulators (PRRs); Two-component systems (TCSs) involving a sensor and a response regulator are used by bacteria to adapt to changing environments. Processes regulated by two-component systems in bacteria include sporulation, pathogenicity, virulence, chemotaxis, and membrane transport. Response regulators (RRs) share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. Response regulators regulate transcription, post-transcription or post-translation, or have functions such as methylesterases, adenylate or diguanylate cyclase, c-di-GMP-specific phosphodiesterases, histidine kinases, serine/threonine protein kinases, and protein phosphatases, depending on their output domains. The function of some output domains are still unknown. TCSs are found in all three domains of life - bacteria, archaea, and eukaryotes, however, the presence and abundance of particular RRs vary between the lineages. Archaea encode very few RRs with DNA-binding output domains; most are stand-alone REC domains. Among eukaryotes, TCSs are found primarily in protozoa, fungi, algae, and green plants. REC domains function as phosphorylation-mediated switches within RRs, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381085 [Multi-domain]  Cd Length: 99  Bit Score: 110.78  E-value: 1.13e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWPwKDLNIEtVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGY 84
Cdd:cd00156     1 LIVDDDPAIRELLKSLL-EREGYE-VDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAK 78

                          90       100
                  ....*....|....*....|.
gi 2679286041  85 SDFEYARKALQLGAVDYILKP 105
Cdd:cd00156    79 ADEEDAVRALELGADDYLVKP 99
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
349-430 1.60e-28

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 107.25  E-value: 1.60e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  349 ITLREVADHVYISPSHLSALFKR-NGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKKNVGMTPN 427
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKeTGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 2679286041  428 EYR 430
Cdd:smart00342  82 EYR 84
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 4-113 1.76e-28

phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family response regulators; The NarL family is one of the more abundant families of DNA-binding response regulators (RRs). Members of the NarL family contain a REC domain and a helix-turn-helix (HTH) DNA-binding output domain, with a majority of members containing a LuxR-type HTH domain. They function as transcriptional regulators. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381090 [Multi-domain]  Cd Length: 117  Bit Score: 108.37  E-value: 1.76e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSG 83
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                          90       100       110
                  ....*....|....*....|....*....|
gi 2679286041  84 YSDFEYARKALQLGAVDYILKPIVFEEMIQ 113
Cdd:cd17535    81 HDDPEYVLRALKAGAAGYLLKDSSPEELIE 110
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-130 1.77e-28

DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal transduction mechanisms];


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 108.90  E-value: 1.77e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVII 80
Cdd:COG4565     3 MIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGPDVDVIV 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLEEEKQIEK 130
Cdd:COG4565    83 ITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLLREDQE 132
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 5-113 1.05e-27

Response regulator receiver domain; This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain.


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 106.08  E-value: 1.05e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWpwkdLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:pfam00072   2 LIVDDDPLIRELLRQL----LEKEgyVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEMIQ 113
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLA 108
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 5-121 3.22e-27

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator Spo0F [Signal transduction mechanisms];


Pssm-ID: 440547 [Multi-domain]  Cd Length: 128  Bit Score: 105.32  E-value: 3.22e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIRE---GLFawpwKDLNIETVgCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKR--QYPFIHVI 79
Cdd:COG0784     9 LVVDDNPDNREllrRLL----ERLGYEVT-TAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIRAlpRLPDIPII 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2679286041  80 ILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAH 121
Cdd:COG0784    84 ALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLAR 125
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 5-140 1.09e-26

Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains [Signal transduction mechanisms];


Pssm-ID: 442663 [Multi-domain]  Cd Length: 224  Bit Score: 106.79  E-value: 1.09e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWpWKDLNIETVgCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPF--IHVIILS 82
Cdd:COG3437    10 LIVDDDPENLELLRQL-LRTLGYDVV-TAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLRADPSTrdIPVIFLT 87

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLEEEKQIEKRVNFLQHRAQ 140
Cdd:COG3437    88 ALADPEDRERALEAGADDYLTKPFDPEELLARVRNALELRRLQRELDDLVLYLKLAAP 145
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
349-434 1.31e-25

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 104.86  E-value: 1.31e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 349 ITLREVADHVYISPSHLSALFKRN-GITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKKNVGMTPN 427
Cdd:COG2207   169 LTLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                  ....*..
gi 2679286041 428 EYRKHLR 434
Cdd:COG2207   249 EYRKRLR 255
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 5-113 3.59e-25

Two-component response regulator, PleD family, consists of two REC domains and a diguanylate cyclase (GGDEF) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 442920 [Multi-domain]  Cd Length: 179  Bit Score: 101.52  E-value: 3.59e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIRE---GLFawpwKDLNIETVgCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKR--QYPFIHVI 79
Cdd:COG3706     5 LVVDDDPTNRKllrRLL----EAAGYEVV-EAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLRAdpRTADIPII 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2679286041  80 ILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQ 113
Cdd:COG3706    80 FLTALDDEEDRARALEAGADDYLTKPFDPEELLA 113
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-112 9.68e-24

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 440508 [Multi-domain]  Cd Length: 204  Bit Score: 98.10  E-value: 9.68e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLFAWpwkdLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHV 78
Cdd:COG0745     1 MPRILVVEDDPDIRELLADA----LEREgyEVDTAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDIPI 76

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2679286041  79 IILSGYSDFEYARKALQLGAVDYILKPIVFEEMI 112
Cdd:COG0745    77 IMLTARDDEEDRVRGLEAGADDYLTKPFDPEELL 110
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 333-437 4.01e-23

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 99.08  E-value: 4.01e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 333 TLAKAKQFIKNNYNRSITLREVADHVYISPSHLSALFKRN-GITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDP 411
Cdd:COG4977   211 RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAAtGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSA 290

                          90       100
                  ....*....|....*....|....*.
gi 2679286041 412 AYFSELFKKNVGMTPNEYRKHLRLSA 437
Cdd:COG4977   291 SHFRRAFRRRFGVSPSAYRRRFRARA 316
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
337-431 4.17e-23

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 98.51  E-value: 4.17e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 337 AKQFIKNNYNRSITLREVADHVYISPSHLSALFKRN-GITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFS 415
Cdd:PRK10572  188 ACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQlGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFS 267

                          90
                  ....*....|....*.
gi 2679286041 416 ELFKKNVGMTPNEYRK 431
Cdd:PRK10572  268 RVFKKCTGASPSEFRA 283
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
4-125 1.06e-22

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 99.92  E-value: 1.06e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLFAWPWKDlNIETVgCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSG 83
Cdd:PRK11361    7 ILIVDDEDNVRRMLSTAFALQ-GFETH-CANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMTA 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2679286041  84 YSDFEYARKALQLGAVDYILKPIVFEEM---------IQCMKKLTAHLEEE 125
Cdd:PRK11361   85 YAEVETAVEALRCGAFDYVIKPFDLDELnlivqralqLQSMKKEIRHLHQA 135
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 5-113 1.12e-22

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar domains; This family is composed of mostly uncharacterized response regulators with similarity to the REC domains of response regulator components of two-component systems that regulates hydrogenase activity, including HupR and HoxA. HupR is part of the HupT/HupR system that controls the synthesis of the membrane-bound [NiFe]hydrogenase, HupSL, of the photosynthetic bacterium Rhodobacter capsulatus. It contains an N-terminal REC domain, a central sigma-54 interaction domain that lacks ATPase activity, and a C-terminal DNA-binding domain. Members of this family contain a REC domain and various output domains including the cyclase homology domain (CHD) and the c-di-GMP phosphodiesterase domains, HD-GYP and EAL. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381113 [Multi-domain]  Cd Length: 118  Bit Score: 92.47  E-value: 1.12e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGL----FAWPWKdlnietVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVII 80
Cdd:cd17569     4 LLVDDEPNILKALkrllRREGYE------VLTATSGEEALEILKQEPVDVVISDQRMPGMDGAELLKRVRERYPDTVRIL 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2679286041  81 LSGYSDFEYARKALQLGAVD-YILKPIVFEEMIQ 113
Cdd:cd17569    78 LTGYADLDAAIEAINEGEIYrFLTKPWDDEELKE 111
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 5-117 1.38e-22

phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and similar proteins; C4-dicarboxylic acid transport protein D (DctD) is part of the two-component regulatory system DctB/DctD, which regulates C4-dicarboxylate transport via regulation of expression of the dctPQM operon and dctA. It is an activator of sigma(54)-RNA polymerase holoenzyme that uses the energy released from ATP hydrolysis to stimulate the isomerization of a closed promoter complex to an open complex capable of initiating transcription. DctD is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381101 [Multi-domain]  Cd Length: 130  Bit Score: 92.55  E-value: 1.38e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWpwkdLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:cd17549     2 LLVDDDADVREALQQT----LELAgfRVRAFADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIRELDPDLPVILIT 77

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKK 117
Cdd:cd17549    78 GHGDVPMAVEAMRAGAYDFLEKPFDPERLLDVVRR 112
HTH_18 pfam12833
Helix-turn-helix domain;
354-431 1.70e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 90.73  E-value: 1.70e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 354 VADHVYISPSHLSALFKRN-GITFLKYLTDIRIKHARELLGDL-KYSIYEVGEKVGYSDPAYFSELFKKNVGMTPNEYRK 431
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLLEDtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 6-147 4.68e-22

DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443623 [Multi-domain]  Cd Length: 196  Bit Score: 93.24  E-value: 4.68e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   6 IVDDEKEIREGLFAWpwkdlnIETVG----CCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIIL 81
Cdd:COG4566     4 IVDDDEAVRDSLAFL------LESAGlrveTFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFL 77

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  82 SGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLEEEKQIEKRVNFLQHRAQQLSR----VLR 147
Cdd:COG4566    78 TGHGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAELRARLASLTPrereVLD 147
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 4-106 6.65e-22

phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and similar proteins; NtrX is part of the two-component regulatory system NtrY/NtrX that is involved in the activation of nitrogen assimilatory genes such as Gln. It is phosphorylated by the histidine kinase NtrY and interacts with sigma-54. NtrX is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. NtrC family response regulators are sigma54-dependent transcriptional activators. Also included in this subfamily is Aquifex aeolicus NtrC4. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381102 [Multi-domain]  Cd Length: 115  Bit Score: 90.25  E-value: 6.65e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIRE---GLFawpwKDLNIETVGCCShGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVII 80
Cdd:cd17550     1 ILIVDDEEDIREslsGIL----EDEGYEVDTAAD-GEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIM 75

                          90       100
                  ....*....|....*....|....*.
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPI 106
Cdd:cd17550    76 ISGHGTIETAVKATKLGAYDFIEKPL 101
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 3-117 7.78e-22

phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; DNA-binding transcriptional regulator NtrC is also called nitrogen regulation protein NR(I) or nitrogen regulator I (NRI). It contains an N-terminal receiver (REC) domain, followed by a sigma-54 interaction domain, and a C-terminal helix-turn-helix DNA-binding domain. It is part of the two-component regulatory system NtrB/NtrC, which controls expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. DNA-binding response regulator NtrC is phosphorylated by NtrB; phosphorylation of the N-terminal REC domain activates the central sigma-54 interaction domain and leads to the transcriptional activation from promoters that require sigma(54)-containing RNA polymerase. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381146 [Multi-domain]  Cd Length: 116  Bit Score: 90.02  E-value: 7.78e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   3 QMLIVDDEKEIR---EGLFA---WPWKdlnietvgCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFI 76
Cdd:cd19919     2 TVWIVDDDSSIRwvlERALAgagLTVT--------SFENAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQRHPDL 73

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2679286041  77 HVIILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKK 117
Cdd:cd19919    74 PVIIMTAHSDLDSAVSAYQGGAFEYLPKPFDIDEAVALVER 114
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 5-107 1.29e-21

phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; Pseudomonas aeruginosa RssB is an orphan atypical response regulator containing a REC domain and a PP2C-type protein phosphatase output domain. Its function is still unknown. Escherichia RssB, which is not included in this subfamily, is a ClpX adaptor protein which alters ClpX specificity by mediating a specific interaction between ClpX and the substrates such as RpoS, an RNA polymerase sigma factor. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381107 [Multi-domain]  Cd Length: 116  Bit Score: 89.57  E-value: 1.29e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWpwkdlnIETVGC----CSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVII 80
Cdd:cd17555     4 LVIDDDEVVRESIAAY------LEDSGFqvlqAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTPVIV 77

                          90       100
                  ....*....|....*....|....*..
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPIV 107
Cdd:cd17555    78 VSGAGVMSDAVEALRLGAWDYLTKPIE 104
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 5-120 2.03e-21

phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; Members of the LytTR/AlgR family of response regulators contain a REC domain and a unique LytTR DNA-binding output domain that lacks the helix-turn-helix motif and consists mostly of beta-strands. Transcriptional regulators with the LytTR-type output domains are involved in biosynthesis of extracellular polysaccharides, fimbriation, expression of exoproteins, including toxins, and quorum sensing. Included in this AlgR-like group of LytTR/AlgR family response regulators are Streptococcus agalactiae sensory transduction protein LytR, Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR, Bacillus subtilis sensory transduction protein LytT, and Escherichia coli transcriptional regulatory protein BtsR, which are members of two-component regulatory systems. LytR and LytT are components of regulatory systems that regulate genes involved in cell wall metabolism. AlgR positively regulates the algD gene, which codes for a GDP-mannose dehydrogenase, a key enzyme in the alginate biosynthesis pathway. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381087 [Multi-domain]  Cd Length: 118  Bit Score: 89.13  E-value: 2.03e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLfAWPWKDLN-IETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSG 83
Cdd:cd17532     2 LIVDDEPLAREEL-RYLLEEHPdIEIVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSKLAKPPLIVFVTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2679286041  84 YSdfEYARKALQLGAVDYILKPIVFEEMIQCMKKLTA 120
Cdd:cd17532    81 YD--EYAVEAFELNAVDYLLKPFSEERLAEALAKLRK 115
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 5-105 4.15e-20

phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins are one of the most widespread transcriptional regulators. OmpR family members contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domain. They are involved in the control of environmental stress tolerance (such as the oxidative, osmotic and acid stress response), motility, virulence, outer membrane biogenesis and other processes. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381116 [Multi-domain]  Cd Length: 99  Bit Score: 84.77  E-value: 4.15e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFawpwKDLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:cd17574     1 LVVEDDEEIAELLS----DYLEKEgyEVDTAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLT 76

                          90       100
                  ....*....|....*....|...
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKP 105
Cdd:cd17574    77 AKDEEEDKVLGLELGADDYITKP 99
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 5-105 6.74e-20

phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate methylesterase CheB and similar chemotaxis proteins; Methylesterase CheB is a chemotaxis response regulator with an N-terminal REC domain and a C-terminal methylesterase domain. Chemotaxis is a behavior known in motile bacteria that directs their movement in response to chemical gradients. CheB is a phosphorylation-activated response regulator involved in the reversible modification of bacterial chemotaxis receptors. It catalyzes the demethylation of specific methylglutamate residues introduced into the chemoreceptors (methyl-accepting chemotaxis proteins) by CheR. The CheB REC domain packs against the active site of the C-terminal domain and inhibits methylesterase activity by directly restricting access to the active site. Also included in this family is chemotaxis response regulator CheY, which contains a stand-alone REC domain, and an uncharacterized subfamily composed of proteins containing an N-terminal REC domain and a C-terminal CheY-P phosphatase (CheC) domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381096 [Multi-domain]  Cd Length: 125  Bit Score: 85.14  E-value: 6.74e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLfawpwKDL-----NIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPfIHVI 79
Cdd:cd17541     4 LIVDDSAVMRKLL-----SRIlesdpDIEVVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAERP-TPVV 77

                          90       100
                  ....*....|....*....|....*...
gi 2679286041  80 ILSGYS--DFEYARKALQLGAVDYILKP 105
Cdd:cd17541    78 MVSSLTeeGAEITLEALELGAVDFIAKP 105
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 5-106 5.11e-19

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator RpfG and similar proteins; Cyclic di-GMP phosphodiesterase response regulator RpfG, together with sensory/regulatory protein RpfC, constitute a two-component system implicated in sensing and responding to the diffusible signal factor (DSF) that is essential for cell-cell signaling. RpfC is a hybrid sensor/histidine kinase that phosphorylates and activates RpfG, which degrades cyclic di-GMP to GMP, leading to the activation of Clp, a global transcriptional regulator that regulates a large set of genes in the DSF pathway. RpfG contains a CheY-like receiver domain attached to a histidine-aspartic acid-glycine-tyrosine-proline (HD-GYP) cyclic di-GMP phosphodiesterase domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381103 [Multi-domain]  Cd Length: 118  Bit Score: 82.10  E-value: 5.11e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEK---EIREGLFawpwKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQ--YPFIHVI 79
Cdd:cd17551     4 LIVDDNPtnlLLLEALL----RSAGYLEVVSFTDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRLRALpgLEDVPIV 79

                          90       100
                  ....*....|....*....|....*..
gi 2679286041  80 ILSGYSDFEYARKALQLGAVDYILKPI 106
Cdd:cd17551    80 MITADTDREVRLRALEAGATDFLTKPF 106
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 6-127 1.70e-18

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 87.23  E-value: 1.70e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   6 IVDDEKEIReglfawpW---KDLNIETVGCCS--HGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVII 80
Cdd:PRK10923    8 VVDDDSSIR-------WvleRALAGAGLTCTTfeNGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVII 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLEEEKQ 127
Cdd:PRK10923   81 MTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISHYQEQQQ 127
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-130 2.12e-18

Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding antiterminator (ANTAR) domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 442921 [Multi-domain]  Cd Length: 194  Bit Score: 82.70  E-value: 2.12e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLFAwPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPfIHVII 80
Cdd:COG3707     3 GLRVLVVDDEPLRRADLRE-GLREAGYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERP-APVIL 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPI--------------VFEEMIQCMK---KLTAHLEEEKQIEK 130
Cdd:COG3707    81 LTAYSDPELIERALEAGVSAYLVKPLdpedllpalelalaRFRELRALRRelaKLREALEERKLIER 147
PRK10371 PRK10371
transcriptional regulator MelR;
309-431 2.43e-18

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 85.26  E-value: 2.43e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 309 RNLAKDDI------YSFDKGEDMEEN----GDSLTLAKAKQ--------FIKNNYNRSITLREVADHVYISPSHLSALFK 370
Cdd:PRK10371  150 RQLAIDEIglmlkrFSLSGWEPILVNktsrTHKNSVSRHAQfyvsqmlgFIAENYDQALTINDVAEHVKLNANYAMGIFQ 229

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2679286041 371 R-NGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKKNVGMTPNEYRK 431
Cdd:PRK10371  230 RvMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSSRFYSTFGKYVGMSPQQYRK 291
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 333-438 3.19e-18

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 85.49  E-value: 3.19e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 333 TLAKAKQFIKNNYNRSITLREVADHVYISPSHLSALFKRN-GITFLKYLTDIRIKHARELLG-DLkySIYEVGEKVGYSD 410
Cdd:COG2169    85 LVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHtGVTPKAYARARRLLRARQLLQtGL--SVTDAAYAAGFGS 162

                          90       100
                  ....*....|....*....|....*...
gi 2679286041 411 PAYFSELFKKNVGMTPNEYRKHLRLSAY 438
Cdd:COG2169   163 LSRFYEAFKKLLGMTPSAYRRGGAGAAI 190
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 5-88 3.05e-17

phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and similar domains; Thermotoga maritima contains a two-component signal transduction system (TCS) composed of the ThkA sensory histidine kinase (HK) and its cognate response regulator (RR) TrrA; the specific function of the system is unknown. TCSs couple environmental stimuli to adaptive responses. TrrA is a stand-alone RR containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381106 [Multi-domain]  Cd Length: 113  Bit Score: 77.26  E-value: 3.05e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREgLFAWPWKDLNIEtVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGY 84
Cdd:cd17554     4 LVVDDEENIRE-LYKEELEDEGYE-VVTAGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKPDLPVIICTAY 81


                  ....
gi 2679286041  85 SDFE 88
Cdd:cd17554    82 SEYK 85
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 5-106 4.16e-17

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar domains; Pseudomonas aeruginosa cyclic di-GMP phosphodiesterase PA4781 contains an N-terminal REC domain and a C-terminal catalytic HD-GYP domain, characteristics of RpfG family response regulators. PA4781 is involved in cyclic di-3',5'-GMP (c-di-GMP) hydrolysis/degradation in a two-step reaction via the linear intermediate pGpG to produce GMP. Its unphosphorylated REC domain prevents accessibility of c-di-GMP to the active site. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381147 [Multi-domain]  Cd Length: 103  Bit Score: 76.40  E-value: 4.16e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKE----IREGLFAWPWKdlnietVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLK-----RQYPf 75
Cdd:cd19920     2 LIVDDVPDnlrlLSELLRAAGYR------VLVATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLKadpatRHIP- 74

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2679286041  76 ihVIILSGYSDFEYARKALQLGAVDYILKPI 106
Cdd:cd19920    75 --VIFLTALTDTEDKVKGFELGAVDYITKPF 103
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 5-106 6.82e-17

phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; This groups includes a modulated diguanylate cyclase containing a PAS sensor domain from Desulfovibrio desulfuricans G20. Members of this group contain N-terminal REC domains and various output domains including the GGDEF, histidine kinase, and helix-turn-helix (HTH) DNA binding domains. Also included in this family is Mycobacterium tuberculosis PdtaR, a transcriptional antiterminator that contains a REC domain and an ANTAR RNA-binding output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381089 [Multi-domain]  Cd Length: 117  Bit Score: 76.29  E-value: 6.82e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDE----KEIREGLfawpwKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMP-FMDGLELMEVLKRQYPfIHVI 79
Cdd:cd17534     4 LIVEDEaiiaLDLKEIL-----ESLGYEVVGIADSGEEAIELAEENKPDLILMDINLKgDMDGIEAAREIREKFD-IPVI 77

                          90       100
                  ....*....|....*....|....*..
gi 2679286041  80 ILSGYSDFEYARKALQLGAVDYILKPI 106
Cdd:cd17534    78 FLTAYSDEETLERAKETNPYGYLVKPF 104
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 23-106 2.20e-16

phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex aeolicus and similar NtrC family response regulators; NtrC family proteins are transcriptional regulators that have REC, AAA+ ATPase/sigma-54 interaction, and DNA-binding output domains. This subfamily of NtrC proteins include Aquifex aeolicus NtrC1 and Vibrio quorum-sensing signal integrator LuxO. The N-terminal REC domain of NtrC proteins regulate the activity of the protein and its phosphorylation controls the AAA+ domain oligomerization, while the central AAA+ domain participates in nucleotide binding, hydrolysis, oligomerization, and sigma54 interaction. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381114 [Multi-domain]  Cd Length: 121  Bit Score: 74.93  E-value: 2.20e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  23 KDLNIETVGCcshGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGYSDFEYARKALQLGAVDYI 102
Cdd:cd17572    21 EGYKVTHVET---GKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERSLPTSVIVITAHGSVDIAVEAMRLGAYDFL 97


                  ....
gi 2679286041 103 LKPI 106
Cdd:cd17572    98 EKPF 101
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
2-126 4.05e-16

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 80.07  E-value: 4.05e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKE---IREGLF-AWPWKdlnietVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIH 77
Cdd:PRK10365    6 IDILVVDDDIShctILQALLrGWGYN------VALANSGRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAIP 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2679286041  78 VIILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLEEEK 126
Cdd:PRK10365   80 VLIMTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALAHTHSID 128
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 2-111 8.72e-16

phosphoacceptor receiver (REC) domain of citrate family two-component system response regulators; This family includes Lactobacillus paracasei MaeR, Escherichia coli DcuR and DpiA, Klebsiella pneumoniae CitB, as well as Bacillus DctR, MalR, and CitT. These are all response regulators of two-component systems (TCSs) from the citrate family, and are involved in the transcriptional regulation of genes associated with L-malate catabolism (MaeRK), citrate-specific fermentation (DpiAB, CitAB), plasmid inheritance (DpiAB), anaerobic fumarate respiratory system (DcuRS), and malate transport/utilization (MalKR). REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381152 [Multi-domain]  Cd Length: 118  Bit Score: 73.05  E-value: 8.72e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIIL 81
Cdd:cd19925     1 INVLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVV 80

                          90       100       110
                  ....*....|....*....|....*....|
gi 2679286041  82 SGYSDFEYARKALQLGAVDYILKPIVFEEM 111
Cdd:cd19925    81 TAANDVETVREALRLGVVDYLIKPFTFERL 110
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 5-115 1.25e-15

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators similar to Arabidopsis thaliana CKI1 and Escherichia coli RcsC; This family is composed of hybrid sensor histidine kinases/response regulators that are sensor histidine kinases (HKs) fused with a REC domain, similar to the sensor histidine kinase CKI1 from Arabidopsis thaliana, which is involved in multi-step phosphorelay (MSP) signaling that mediates responses to a variety of important stimuli in plants. MSP involves a signal being transferred from HKs via histidine phosphotransfer proteins (AHP1-AHP5) to nuclear response regulators. The CKI1 REC domain specifically interacts with the downstream signaling protein AHP2, AHP3 and AHP5. The plant MSP system has evolved from the prokaryotic two-component system (TCS), which allows organisms to sense and respond to changes in environmental conditions. This family also includes bacterial hybrid sensor HKs such as Escherichia coli RcsC, which is a component of the Rcs signalling pathway that controls a variety of physiological functions like capsule synthesis, cell division, and motility. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381099 [Multi-domain]  Cd Length: 113  Bit Score: 72.50  E-value: 1.25e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLfawpwKDLnIETVGC----CSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPF---IH 77
Cdd:cd17546     2 LVVDDNPVNRKVL-----KKL-LEKLGYevdvAENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIRELEGGgrrTP 75

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2679286041  78 VIILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCM 115
Cdd:cd17546    76 IIALTANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 5-105 2.39e-15

phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the phosphorelay system in the early stage of spore formation. It may be an element of the effector pathway responsible for the activation of sporulation genes in response to nutritional stress and may act in the with sigma factor spo0H to control the expression of some genes that are critical to the sporulation process. Spo0A contains a regulatory N-terminal REC domain and a C-terminal DNA-binding transcription activation domain as its effector/output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381109 [Multi-domain]  Cd Length: 108  Bit Score: 71.49  E-value: 2.39e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVL--KRQYPFIHVIILS 82
Cdd:cd17561     5 LIADDNREFVQLLEEYLNSQPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMPHLDGIGVLEKLrrMRLEKRPKIIMLT 84

                          90       100
                  ....*....|....*....|...
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKP 105
Cdd:cd17561    85 AFGQEDITQRAVELGASYYILKP 107
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 5-114 4.14e-15

second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal transduction histidine kinase D and similar domains; Dictyostelium discoideum hybrid signal transduction histidine kinase D (DhkD) is a large protein that contains two histidine kinase (HK) and two REC domains on the intracellular side of a single pass transmembrane domain, and extracellular PAS and PAC domains that likely are involved in ligand binding. This model represents the second REC domain and similar domains. DhkD activates the cAMP phosphodiesterase RegA to ensure proper prestalk and prespore patterning, tip formation, and the vertical elongation of the mound into a finger, in Dictyostelium discoideum. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381118 [Multi-domain]  Cd Length: 112  Bit Score: 70.95  E-value: 4.14e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWpwkdlnIETVGC----CSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHV-- 78
Cdd:cd17580     2 LVVDDNEDAAEMLALL------LELEGAevttAHSGEEALEAAQRFRPDVILSDIGMPGMDGYELARRLRELPWLANTpa 75

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2679286041  79 IILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQC 114
Cdd:cd17580    76 IALTGYGQPEDRERALEAGFDAHLVKPVDPDELIEL 111
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 5-112 7.62e-15

phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a OmpR/PhoB homolog from Thermotoga maritima whose function is not yet known. This subfamily also includes Streptococcus agalactiae transcriptional regulatory protein DltR, part of the DltS/DltR two-component system (TCS), and Pseudomonas aeruginosa transcriptional activator protein PfeR, part of the PfeR/PfeS TCS, which activates expression of the ferric enterobactin receptor. The DltS/DltR TCS regulates the expression of the dlt operon, which comprises four genes (dltA, dltB, dltC, and dltD) that catalyze the incorporation of D-alanine residues into the lipoteichoic acids. Members of this subfamily belong to the OmpR/PhoB family, which comprises of two domains, an N-terminal receiver domain and a C-terminal DNA-binding winged helix-turn-helix effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381140 [Multi-domain]  Cd Length: 115  Bit Score: 70.33  E-value: 7.62e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFawpwKDLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:cd17625     1 LVVEDEKDLSEAIT----KHLKKEgyTVDVCFDGEEGLEYALSGIYDLIILDIMLPGMDGLEVLKSLREEGIETPVLLLT 76

                          90       100       110
                  ....*....|....*....|....*....|
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEMI 112
Cdd:cd17625    77 ALDAVEDRVKGLDLGADDYLPKPFSLAELL 106
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 6-110 9.40e-15

phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response regulators contain an N-terminal receiver domain (REC) and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. The Sinorhizobium meliloti two-component system FixL/FixJ regulates nitrogen fixation in response to oxygen during symbiosis. Under microaerobic conditions, the kinase FixL phosphorylates the response regulator FixJ resulting in the regulation of nitrogen fixation genes such as nifA and fixK. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381092 [Multi-domain]  Cd Length: 116  Bit Score: 70.32  E-value: 9.40e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   6 IVDDEKEIREGLfAWPWK--DLNIETVGCcshgleALQFLANNPVDI---VLTDIRMPFMDGLELMEVLKRQYPFIHVII 80
Cdd:cd17537     5 VVDDDEAVRDSL-AFLLRsvGLAVKTFTS------ASAFLAAAPPDQpgcLVLDVRMPGMSGLELQDELLARGSNIPIIF 77

                          90       100       110
                  ....*....|....*....|....*....|
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPivFEE 110
Cdd:cd17537    78 ITGHGDVPMAVEAMKAGAVDFLEKP--FRD 105
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-69 4.99e-14

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 68.77  E-value: 4.99e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2679286041   1 MLQMLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVL 69
Cdd:COG2197     1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL 69
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 3-118 5.17e-14

phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response regulator CheY contains a stand-alone REC domain. Chemotaxis is a behavior known for motile bacteria that directs their movement in response to chemical gradients. CheY is involved in transmitting sensory signals from chemoreceptors to the flagellar motors. Phosphorylated CheY interacts with the flagella switch components FliM and FliY, which causes counterclockwise rotation of the flagella, resulting in smooth swimming. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381097 [Multi-domain]  Cd Length: 117  Bit Score: 68.07  E-value: 5.17e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   3 QMLIVDDEKEIREGLfawpwKDL----NIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHV 78
Cdd:cd17542     2 KVLIVDDAAFMRMML-----KDIltkaGYEVVGEAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIDPNAKV 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 2679286041  79 IILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKL 118
Cdd:cd17542    77 IMCSAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKV 116
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 4-118 5.27e-14

phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The Mycobacterium tuberculosis PrrA is part of the PrrA/PrrB two-component system (TCS) that has been implicated in early intracellular multiplication and is essential for viability. Also included in this subfamily is Mycobacterium tuberculosis MprA, part of the MprAB TCS that regulates EspR, a key regulator of the ESX-1 secretion system, and is required for establishment and maintenance of persistent infection in a tissue- and stage-specific fashion. PrrA and MprA belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381142 [Multi-domain]  Cd Length: 116  Bit Score: 68.18  E-value: 5.27e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLfawpWKDLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIIL 81
Cdd:cd17627     1 ILVVDDDRAVRESL----RRSLRFEgyEVETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVL 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2679286041  82 SGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKL 118
Cdd:cd17627    77 TARDSVSDRVAGLDAGADDYLVKPFALEELLARVRAL 113
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 5-112 5.31e-14

phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus subtilis PhoP (BsPhoP) is part of the PhoPR two-component system that participates in a signal transduction network that controls adaptation of the bacteria to phosphate deficiency by regulating (activating or repressing) genes of the Pho regulon upon phosphorylation by PhoR. When activated, PhoPR directs expression of phosphate scavenging enzymes, lowers synthesis of the phosphate-rich wall teichoic acid (WTA) and initiates synthesis of teichuronic acid, a non-phosphate containing replacement anionic polymer. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381164 [Multi-domain]  Cd Length: 116  Bit Score: 68.07  E-value: 5.31e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLfawpwkDLNIE----TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPF--IHV 78
Cdd:cd19937     1 LVVDDEEDIVELL------KYNLEkegyEVVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILRSDPKTssIPI 74

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2679286041  79 IILSGYSDfEYAR-KALQLGAVDYILKPIVFEEMI 112
Cdd:cd19937    75 IMLTAKGE-EFDKvLGLELGADDYITKPFSPRELL 108
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 5-111 7.37e-14

phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and similar domains; Type-B ARRs (Arabidopsis response regulators) are a class of MYB-type transcription factors that act as major players in the transcriptional activation of cytokinin-responsive genes. They directly regulate the expression of type-A ARR genes and other downstream target genes. Cytokinin is a plant hormone implicated in many growth and development processes including shoot organogenesis, leaf senescence, sink/source relationships, vascular development, lateral bud release, and photomorphogenic development. Cytokinin signaling involves a phosphorelay cascade by histidine kinase receptors (AHKs), histidine phosphotransfer proteins (AHPs) and downstream ARRs. ARRs are divided into two groups, type-A and -B, according to their sequence and domain structure. Type-B ARRs contain a receiver (REC) domain and a large C-terminal extension that has characteristics of an effector or output domain, with a Myb-like DNA binding domain referred to as the GARP domain. The GARP domain is a motif specific to plant transcription factors. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381121 [Multi-domain]  Cd Length: 115  Bit Score: 67.65  E-value: 7.37e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWPWKdLNIEtVGCCSHGLEALQFLANNP--VDIVLTDIRMPFMDGLELMEVLkRQYPFIHVIILS 82
Cdd:cd17584     2 LVVDDDPTCLAILKRMLLR-CGYQ-VTTCTDAEEALSMLRENKdeFDLVITDVHMPDMDGFEFLELI-RLEMDLPVIMMS 78

                          90       100
                  ....*....|....*....|....*....
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEM 111
Cdd:cd17584    79 ADGSTSTVMKGLAHGACDYLLKPVSIEDL 107
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 5-110 1.09e-13

phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This subfamily contains various OmpR family response regulators including PmrA, BasR, QseB, tctD, and RssB, which are components of two-component regulatory systems (TCSs). The PmrA/PmrB TCS controls transcription of genes that are involved in lipopolysaccharide modification in the outer membrane of bacteria, increasing bacterial resistance to host-derived antimicrobial peptides. The BasS/BasR TCS functions as an iron- and zinc-sensing transcription regulator. The QseB/QseC TCS activates the flagella regulon by activating transcription of FlhDC. The RssA/RssB TCS regulates swarming behavior in Serratia marcescens. OmpR family DNA-binding response regulators contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381139 [Multi-domain]  Cd Length: 115  Bit Score: 67.12  E-value: 1.09e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFawpwKDLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:cd17624     2 LLVEDDALLGDGLK----TGLRKAgyAVDWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILT 77

                          90       100
                  ....*....|....*....|....*...
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEE 110
Cdd:cd17624    78 ARDGVDDRVAGLDAGADDYLVKPFALEE 105
PRK11697 PRK11697
two-component system response regulator BtsR;
1-106 2.22e-13

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 69.49  E-value: 2.22e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVL-KRQYPfiHVI 79
Cdd:PRK11697    1 MIKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRLKPDVVFLDIQMPRISGLELVGMLdPEHMP--YIV 78

                          90       100
                  ....*....|....*....|....*..
gi 2679286041  80 ILSGYSdfEYARKALQLGAVDYILKPI 106
Cdd:PRK11697   79 FVTAFD--EYAIKAFEEHAFDYLLKPI 103
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 5-118 2.63e-13

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY family proteins; CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY4 and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381110 [Multi-domain]  Cd Length: 118  Bit Score: 66.17  E-value: 2.63e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREgLFAWPWKDLNIETVGCCShGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQ--YPFIHVIILS 82
Cdd:cd17562     4 LAVDDSASIRQ-MVSFTLRGAGYEVVEAAD-GRDALSKAQSKKFDLIITDQNMPNMDGIELIKELRKLpaYKFTPILMLT 81

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKL 118
Cdd:cd17562    82 TESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKV 117
fixJ PRK09390
response regulator FixJ; Provisional
 6-143 4.45e-13

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 67.72  E-value: 4.45e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   6 IVDDEKEIREGL-FAWPWKDLNIETVGCCSHGLEALQFLANNpvdIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGY 84
Cdd:PRK09390    8 VVDDDEAMRDSLaFLLDSAGFEVRLFESAQAFLDALPGLRFG---CVVTDVRMPGIDGIELLRRLKARGSPLPVIVMTGH 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2679286041  85 SDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLEEEKQIEKRVNFLQHRAQQLS 143
Cdd:PRK09390   85 GDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPEAAKSEAVAADIRARIASLS 143
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 2-105 4.85e-13

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY family proteins; CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY3, Escherichia coli CheY, and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381150 [Multi-domain]  Cd Length: 119  Bit Score: 65.44  E-value: 4.85e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKE----IREGLfawpwKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIH 77
Cdd:cd19923     1 MKVLVVDDFSTmrriIKNLL-----KELGFNNVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLELLKTIRADGALSH 75

                          90       100       110
                  ....*....|....*....|....*....|
gi 2679286041  78 --VIILSGYSDFEYARKALQLGAVDYILKP 105
Cdd:cd19923    76 lpVLMVTAEAKKENVIAAAQAGVNNYIVKP 105
PRK10693 PRK10693
two-component system response regulator RssB;
32-147 6.42e-13

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 69.25  E-value: 6.42e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  32 CCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGYSDFEYARKALQLGAVDYILKPIV---- 107
Cdd:PRK10693    2 LAANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLKPVKdlnr 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 2679286041 108 FEEM-IQCM--KKLTAHLEEEKQIEKRVNFLQHRAQQLSRVLR 147
Cdd:PRK10693   82 LREMvFACLypSMFNSRVEEEERLFRDWDALVDNPAAAAKLLK 124
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 5-118 9.87e-13

phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and similar domains; This family is composed of response regulators (RRs) that are members of phytochrome-associated, light-sensing two-component signal transduction pathways such as Synechocystis sp. Rcp1, Tolypothrix sp. RcpA, and Agrobacterium tumefaciens bacteriophytochrome response regulator AtBRR. They are stand-alone RRs containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. Also included in this family us Methanosaeta harundinacea methanogenesis regulatory protein FilR2, also a stand-alone RR. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381108 [Multi-domain]  Cd Length: 129  Bit Score: 64.74  E-value: 9.87e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKE----IREGLfawpwKDLNIE-TVGCCSHGLEALQFL------ANNPV-DIVLTDIRMPFMDGLELMEVLKR- 71
Cdd:cd17557     3 LLVEDNPGdaelIQEAF-----KEAGVPnELHVVRDGEEALDFLrgegeyADAPRpDLILLDLNMPRMDGFEVLREIKAd 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2679286041  72 -QYPFIHVIILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKL 118
Cdd:cd17557    78 pDLRRIPVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSL 125
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 5-106 1.25e-12

first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar domains; PleD contains a REC domain (D1) with the phosphorylatable aspartate, a REC-like adaptor domain (D2), and the enzymatic diguanylate cyclase (DGC) domain, also called the GGDEF domain according to a conserved sequence motif, as its output domain. The GGDEF-containing PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes D1 of PleD and similar domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381093 [Multi-domain]  Cd Length: 104  Bit Score: 63.67  E-value: 1.25e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREgLFAWPWKDLNIETVGCCShGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLK--RQYPFIHVIILS 82
Cdd:cd17538     3 LVVDDEPANRE-LLEALLSAEGYEVLTADS-GQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKedPETRHIPVIMIT 80

                          90       100
                  ....*....|....*....|....
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPI 106
Cdd:cd17538    81 ALDDREDRIRGLEAGADDFLSKPI 104
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 2-106 1.30e-12

phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC domain; This subfamily is composed of uncharacterized proteins containing an N-terminal REC domain and a C-terminal CheC domain that may function as the output/effector domain of a response regulator. CheC is a CheY-P phosphatase, affecting the level of phosphorylated CheY which controls the sense of flagella rotation and determine swimming behavior of chemotactic bacteria. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381124 [Multi-domain]  Cd Length: 117  Bit Score: 64.10  E-value: 1.30e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEIREGLFAWPWKDLNIEtVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLK-RQYPfIHVII 80
Cdd:cd17593     1 MKVLICDDSSMARKQLARALPADWDVE-ITFAENGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPvEQLE-TKVIV 78

                          90       100
                  ....*....|....*....|....*.
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPI 106
Cdd:cd17593    79 VSGDVQPEAKERVLELGALAFLKKPF 104
PRK09483 PRK09483
response regulator; Provisional
 1-120 1.33e-12

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 66.67  E-value: 1.33e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVII 80
Cdd:PRK09483    1 MINVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIM 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTA 120
Cdd:PRK09483   81 LTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHS 120
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 5-105 1.35e-12

phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR and similar proteins; Pseudomonas aeruginosa PilR is the response regulator of the PilS/PilR two-component regulatory system (PilSR TCS) that acts in conjunction with sigma-54 to regulate the expression of type 4 pilus (T4P) major subunit PilA. In addition, the PilSR TCS regulates flagellum-dependent swimming motility and pilus-dependent twitching motility. PilR contains an N-terminal REC domain, a central sigma-54 interaction domain, and a C-terminal Fis-type helix-turn-helix DNA-binding domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381153 [Multi-domain]  Cd Length: 100  Bit Score: 63.71  E-value: 1.35e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREgLFAWPWKDLNIETVGCcSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGY 84
Cdd:cd19926     2 LVVDDEPDIRE-LLEITLGRMGLDVRSA-RNVKEARELLASEPYDLCLTDMRLPDGSGLELVQHIQQRLPQTPVAVITAY 79

                          90       100
                  ....*....|....*....|.
gi 2679286041  85 SDFEYARKALQLGAVDYILKP 105
Cdd:cd19926    80 GSLDTAIEALKAGAFDFLTKP 100
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 2-115 1.40e-12

phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes Mycobacterium tuberculosis PdtaR, also called Rv1626, and similar proteins containing a REC domain and an ANTAR (AmiR and NasR transcription antitermination regulators) RNA-binding output domain. PdtaR is a response regulator that acts at the level of transcriptional antitermination and is a member of the PdtaR/PdtaS two-component regulatory system. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381159 [Multi-domain]  Cd Length: 118  Bit Score: 63.97  E-value: 1.40e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEIREGLfawpwKDL----NIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPfIH 77
Cdd:cd19932     1 VRVLIAEDEALIRMDL-----REMleeaGYEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENI-AP 74

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2679286041  78 VIILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCM 115
Cdd:cd19932    75 IVLLTAYSQQDLVERAKEAGAMAYLVKPFSESDLIPAI 112
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 5-104 1.65e-12

phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of Bacillus subtilis DesR, Streptococcus pneumoniae response regulator spr1814, and similar proteins, all containing an N-terminal REC domain and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. DesR is a response regulator that, together with its cognate sensor kinase DesK, comprises a two-component regulatory system that controls membrane fluidity. Phosphorylation of the REC domain of DesR is allosterically coupled to two distinct exposed surfaces of the protein, controlling noncanonical dimerization/tetramerization, cooperative activation, and DesK binding. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381157 [Multi-domain]  Cd Length: 117  Bit Score: 63.83  E-value: 1.65e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGY 84
Cdd:cd19930     2 LIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREELPDTKVLIVTTF 81

                          90       100
                  ....*....|....*....|
gi 2679286041  85 SDFEYARKALQLGAVDYILK 104
Cdd:cd19930    82 GRPGYFRRALAAGVDGYVLK 101
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 6-106 2.45e-12

phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar proteins; Bacillus subtilis GlnL is part of the GlnK-GlnL (formerly YcbA-YcbB) two-component system that positively regulates the expression of the glsA-glnT (formerly ybgJ-ybgH) operon in response to glutamine. It contains a REC domain and a DNA-binding output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381112 [Multi-domain]  Cd Length: 103  Bit Score: 63.06  E-value: 2.45e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   6 IVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGYS 85
Cdd:cd17565     3 IVDDDKNIIKILSDIIEDDDLGEVVGEADNGAQAYDEILFLQPDIVLIDLLMPGMDGIQLVRKLKDTGSNGKFIMISQVS 82

                          90       100
                  ....*....|....*....|.
gi 2679286041  86 DFEYARKALQLGAVDYILKPI 106
Cdd:cd17565    83 DKEMIGKAYQAGIEFFINKPI 103
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 5-110 3.08e-12

DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443624 [Multi-domain]  Cd Length: 177  Bit Score: 64.94  E-value: 3.08e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGL--------FawpwkdlnieTVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFI 76
Cdd:COG4567     8 LLVDDDEAFARVLaralerrgF----------EVTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDPDA 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2679286041  77 HVIILSGYSDFEYARKALQLGAVDYILKPIVFEE 110
Cdd:COG4567    78 RIVVLTGYASIATAVEAIKLGADDYLAKPADADD 111
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 5-105 3.26e-12

phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This subfamily includes the REC domains of Bacillus subtilis chemotaxis protein CheV, Myxococcus xanthus gliding motility regulatory protein FrzE, and similar proteins. CheV is a hybrid protein with an N-terminal CheW-like domain and a C-terminal CheY-like REC domain. The CheV pathway is one of three systems employed by B. subtilis for sensory adaptation that contribute to chemotaxis. It is involved in the transmission of sensory signals from chemoreceptors to flagellar motors. Together with CheW, it is involved in the coupling of methyl-accepting chemoreceptors to the central two-component histidine kinase CheA. FrzE is a hybrid sensor histidine kinase/response regulator that is part of the Frz pathway that controls cell reversal frequency to support directional motility during swarming and fruiting body formation. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381151 [Multi-domain]  Cd Length: 111  Bit Score: 62.78  E-value: 3.26e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAwPWKDLNIEtVGCCSHGLEALQFLAN---------NPVDIVLTDIRMPFMDGLELMEVLKRQYPF 75
Cdd:cd19924     2 LVVDDSPTARKQLRD-LLKNLGFE-IAEAVDGEEALNKLENlakegndlsKELDLIITDIEMPKMDGYELTFELRDDPRL 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2679286041  76 --IHVIILSGYSDFEYARKALQLGAVDYILKP 105
Cdd:cd19924    80 anIPVILNSSLSGEFSRARGKKVGADAYLAKF 111
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 3-117 5.23e-12

phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone response regulator containing only a REC domain with no output/effector domain, controls sporulation in Bacillus subtilis through the exchange of a phosphoryl group. Bacillus subtilis forms spores when conditions for growth become unfavorable. The initiation of sporulation is controlled by a phosphorelay (an expanded version of the two-component system) that consists of four main components: a histidine kinase (KinA), a secondary messenger (Spo0F), a phosphotransferase (Spo0B), and a transcription factor (Spo0A). REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381105 [Multi-domain]  Cd Length: 117  Bit Score: 62.57  E-value: 5.23e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   3 QMLIVDDEKEIREgLFAWPWKDLNIETVGCcSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:cd17553     2 KILIVDDQYGIRI-LLNEVFNKEGYQTFQA-ANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIMT 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKK 117
Cdd:cd17553    80 AYGELDMIQESKELGALTHFAKPFDIDEIRDAVKK 114
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 4-105 7.12e-12

phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; Rhodobacter sphaeroides RegA, also called response regulator PrrA, is the DNA binding regulatory protein of a redox-responsive two-component regulatory system RegB/RegA that is involved in transactivating anaerobic expression of the photosynthetic apparatus. It contains a REC domain and a DNA-binding helix-turn-helix output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381111 [Multi-domain]  Cd Length: 112  Bit Score: 61.69  E-value: 7.12e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLfAWPWKDLNIETVGCCSHGlEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSG 83
Cdd:cd17563     3 LLLVDDDEVFAERL-ARALERRGFEVETAHSVE-EALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQPDARIVVLTG 80

                          90       100
                  ....*....|....*....|..
gi 2679286041  84 YSDFEYARKALQLGAVDYILKP 105
Cdd:cd17563    81 YASIATAVEAIKLGADDYLAKP 102
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 5-105 7.78e-12

phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; Escherichia coli CusR is part of the CusS/CusR two-component system (TCS) that is involved in response to copper and silver. Other members of this subfamily include Escherichia coli PcoR, Pseudomonas syringae CopR, and Streptomyces coelicolor CutR, which are all transcriptional regulatory proteins and components of TCSs that regulate genes involved in copper resistance and/or metabolism. member of the subfamily is Escherichia coli HprR (hydrogen peroxide response regulator), previously called YdeW, which is part of the HprSR (or YedVW) TCS involved in stress response to hydrogen peroxide, as well as Cupriavidus metallidurans CzcR, which is part of the CzcS/CzcR TCS involved in the control of cobalt, zinc, and cadmium homeostasis. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381162 [Multi-domain]  Cd Length: 100  Bit Score: 61.30  E-value: 7.78e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFawpwKDLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:cd19935     2 LVVEDEKKLAEYLK----KGLTEEgyAVDVAYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAAGKQTPVLMLT 77

                          90       100
                  ....*....|....*....|...
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKP 105
Cdd:cd19935    78 ARDSVEDRVKGLDLGADDYLVKP 100
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 4-105 8.77e-12

phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a probable response regulator of a two-component system (TCS), typically consisting a sensor and a response regulator, that functions in adaptation to changing environments. Processes regulated by TCSs in bacteria include sporulation, pathogenicity, virulence, chemotaxis, and membrane transport. Ycf29 contains an N-terminal REC domain and a LuxR-type helix-turn-helix DNA-binding output domain. REC domains function as phosphorylation-mediated switches within RRs, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381154 [Multi-domain]  Cd Length: 102  Bit Score: 61.24  E-value: 8.77e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLFAW-PWKDLNIETVGCcshGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIH--VII 80
Cdd:cd19927     1 ILLVDDDPGIRLAVKDYlEDQGFTVIAASN---GLEALDLLNQYIPDLIISDIIMPGVDGYSLLGKLRKNADFDTipVIF 77

                          90       100
                  ....*....|....*....|....*
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKP 105
Cdd:cd19927    78 LTAKGMTSDRIKGYNAGCDGYLSKP 102
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 1-105 8.87e-12

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 64.60  E-value: 8.87e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGL-FAwpwkdLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIH 77
Cdd:PRK11083    3 QPTILLVEDEQAIADTLvYA-----LQSEgfTVEWFERGLPALDKLRQQPPDLVILDVGLPDISGFELCRQLLAFHPALP 77

                          90       100
                  ....*....|....*....|....*....
gi 2679286041  78 VIILSGYSDfEYAR-KALQLGAVDYILKP 105
Cdd:PRK11083   78 VIFLTARSD-EVDRlVGLEIGADDYVAKP 105
PRK10430 PRK10430
two-component system response regulator DcuR;
1-144 1.85e-11

two-component system response regulator DcuR;


Pssm-ID: 182454 [Multi-domain]  Cd Length: 239  Bit Score: 63.97  E-value: 1.85e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREglfawpwkdLN------IETVGCC---SHGLEALQFLANN--PVDIVLTDIRMPFMDGLELMEVL 69
Cdd:PRK10430    1 MINVLIVDDDAMVAE---------LNrryvaqIPGFQCCgtaSTLEQAKEIIFNSdtPIDLILLDIYMQQENGLDLLPVL 71

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2679286041  70 KRQYPFIHVIILSGYSDFEYARKALQLGAVDYILKPIV---FEEmiqcmkKLTAHLEEEKQIEKRVNFLQHRAQQLSR 144
Cdd:PRK10430   72 HEAGCKSDVIVISSAADAATIKDSLHYGVVDYLIKPFQasrFEE------ALTGWRQKKMALEKHQYYDQAELDQLIH 143
PRK15369 PRK15369
two component system response regulator;
2-104 2.04e-11

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 63.17  E-value: 2.04e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEIREGL--FAWPWKDLNIetVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVI 79
Cdd:PRK15369    4 YKILLVDDHELIINGIknMLAPYPRYKI--VGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNIL 81

                          90       100
                  ....*....|....*....|....*
gi 2679286041  80 ILSGYSDFEYARKALQLGAVDYILK 104
Cdd:PRK15369   82 VLTARQEEHMASRTLAAGALGYVLK 106
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 4-105 2.33e-11

phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is part of the CpxA/CpxR two-component regulatory system that mediates envelope stress responses that is key for virulence and antibiotic resistance in several Gram negative pathogens. CpxR is a transcription factor/response regulator that controls the expression of numerous genes, including those of the classical porins OmpF and OmpC. It belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381138 [Multi-domain]  Cd Length: 115  Bit Score: 60.40  E-value: 2.33e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLFAWpwkdLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLkRQYPFIHVIIL 81
Cdd:cd17623     1 ILLIDDDRELTELLTEY----LEMEgfNVRAAHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKEL-RKTSQVPVLML 75

                          90       100
                  ....*....|....*....|....*
gi 2679286041  82 SGYSDfEYAR-KALQLGAVDYILKP 105
Cdd:cd17623    76 TARGD-DIDRiLGLELGADDYLPKP 99
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 4-112 3.22e-11

phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; Mycobacterium tuberculosis PhoP (MtPhoP) is part of the PhoP/PhoR two-component system that is involved in phosphate control by stimulating expression of genes involved in scavenging, transport and mobilization of phosphate, and repressing the utilization of nitrogen sources. Also included in this subfamily is Mycobacterium tuberculosis transcriptional regulatory protein TcrX, part of the two-component regulatory system TcrY/TcrX that may be involved in virulence. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381131 [Multi-domain]  Cd Length: 118  Bit Score: 60.06  E-value: 3.22e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGL-FAWPWKDLNIETVGccsHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:cd17615     2 VLVVDDEPNITELLsMALRYEGWDVETAA---DGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLFLT 78

                          90       100       110
                  ....*....|....*....|....*....|
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKPIVFEEMI 112
Cdd:cd17615    79 AKDSVEDRIAGLTAGGDDYVTKPFSLEEVV 108
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 5-105 4.28e-11

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of this subfamily are response regulator components of two-component systems that regulates hydrogenase activity, including HupR and HoxA. HupR is part of the HupT/HupR system that controls the synthesis of the membrane-bound [NiFe]hydrogenase, HupSL, of the photosynthetic bacterium Rhodobacter capsulatus. It belongs to the nitrogen regulatory protein C (NtrC) family of response regulators, which activate transcription by RNA polymerase (RNAP) in response to a change in the environment. HupR is an unusual member of this family as it activates transcription when unphosphorylated, and transcription is inhibited by phosphorylation. Proteins in this subfamily contain an N-terminal REC domain, a central sigma-54 interaction domain that lacks ATPase activity, and a C-terminal DNA-binding domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381127 [Multi-domain]  Cd Length: 133  Bit Score: 60.46  E-value: 4.28e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWPWKDLNIETVgccSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGY 84
Cdd:cd17596     4 LVVDDEVRSLEALRRTLEEDFDVLTA---ASAEEALAILEEEWVQVILCDQRMPGTTGVEFLKEVRERWPEVVRIIISGY 80

                          90       100
                  ....*....|....*....|..
gi 2679286041  85 SDFEYARKALQLGAV-DYILKP 105
Cdd:cd17596    81 TDSEDIIAGINEAGIyQYLTKP 102
HpaA TIGR02297
4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional ...
 325-430 5.98e-11

4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.


Pssm-ID: 131350 [Multi-domain]  Cd Length: 287  Bit Score: 62.90  E-value: 5.98e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 325 MEENGDSLTLAKAKQFIKNNYNRSITLREVADHVYISPSHLSALFKRNGITFLKYLTDIR-IKHARELLGDLKYSIYEVG 403
Cdd:TIGR02297 179 SPRNNELYLFNRFNFLIEENYKQHLRLPEYADRLGISESRLNDICRRFSALSPKRLIIERvMQEARRLLLFTQHSINQIA 258

                          90       100
                  ....*....|....*....|....*..
gi 2679286041 404 EKVGYSDPAYFSELFKKNVGMTPNEYR 430
Cdd:TIGR02297 259 YDLGYKDPAYFARFFQKETGLSPSAFR 285
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
1-105 6.41e-11

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 63.63  E-value: 6.41e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEAL-QFLANNPvDIVLTDIRMPFMDGLELMEVLKRQYPfIHVI 79
Cdd:PRK00742    3 KIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAReKIKKLNP-DVITLDVEMPVMDGLDALEKIMRLRP-TPVV 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2679286041  80 ILS-----GysdfeyAR---KALQLGAVDYILKP 105
Cdd:PRK00742   81 MVSslterG------AEitlRALELGAVDFVTKP 108
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 4-112 6.67e-11

phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; This subfamily includes Escherichia coli TorR and ArcA, both OmpR family response regulators that mediate adaptation to changes in various respiratory growth conditions. The TorS-TorR two-component system (TCS) is responsible for the tight regulation of the torCAD operon, which encodes the trimethylamine N-oxide (TMAO) reductase respiratory system in response to anaerobic conditions and the presence of TMAO. The ArcA-ArcB TCS is involved in cell growth during anaerobiosis. ArcA is a global regulator that controls more than 30 operons involved in redox regulation (the Arc modulon). OmpR family DNA-binding response regulators are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381134 [Multi-domain]  Cd Length: 113  Bit Score: 59.32  E-value: 6.67e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLFAWPWKDLNieTVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLkRQYPFIHVIILSG 83
Cdd:cd17619     3 ILIVEDEPVTRATLKSYFEQEGY--DVSEAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTREL-REQSEVGIILVTG 79

                          90       100
                  ....*....|....*....|....*....
gi 2679286041  84 YSDFEYARKALQLGAVDYILKPIVFEEMI 112
Cdd:cd17619    80 RDDEVDRIVGLEIGADDYVTKPFNPRELL 108
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 34-114 1.13e-10

second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This family is composed of uncharacterized PleD-like response regulators that contain two N-terminal REC domains and a C-terminal diguanylate cyclase output domain with the characteristic GGDEF motif at the active site. Unlike PleD which contains a REC-like adaptor domain, the second REC domain of these uncharacterized GGDEF domain proteins, described in this model, contains characteristic metal-binding and active site residues. PleD response regulators are global regulators of cell metabolism in some important human pathogens. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381098 [Multi-domain]  Cd Length: 122  Bit Score: 58.68  E-value: 1.13e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  34 SHGLEALQFLANNP-VDIVLTDIRMPFMDGLELMEVLKRQYPF--IHVIILSGYSDFEYARKALQLGAVDYILKPIVFEE 110
Cdd:cd17544    31 ANGQEALEVLEQHPdIKLVITDYNMPEMDGFELVREIRKKYSRdqLAIIGISASGDNALSARFIKAGANDFLTKPFLPEE 110


                  ....
gi 2679286041 111 mIQC 114
Cdd:cd17544   111 -FYC 113
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 5-105 1.97e-10

phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a component of the KdpD/KdpE two-component system (TCS) and is activated when histidine kinase KdpD senses a drop in external K+ concentration or upshift in ionic osmolarity, resulting in the expression of a heterooligomeric transporter KdpFABC. In addition, the KdpD/KdpE TCS is also an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. KdpE is a member of the OmpR family of DNA-binding response regulators that contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381135 [Multi-domain]  Cd Length: 99  Bit Score: 57.56  E-value: 1.97e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLfawpwkDLNIETVGC----CSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLkRQYPFIHVII 80
Cdd:cd17620     2 LVIEDEPQIRRFL------RTALEAHGYrvfeAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRL-REWSAVPVIV 74

                          90       100
                  ....*....|....*....|....*
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKP 105
Cdd:cd17620    75 LSARDEESDKIAALDAGADDYLTKP 99
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 29-105 2.16e-10

phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase/response regulators; Typically, two-component regulatory systems (TCSs) consist of a sensor (histidine kinase) that responds to specific input(s) by modifying the output of a cognate response regulator (RR). TCSs allow organisms to sense and respond to changes in environmental conditions. Hybrid sensor histidine kinase/response regulators contain all the elements of a classical TCS in a single polypeptide chain. RRs share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381128 [Multi-domain]  Cd Length: 118  Bit Score: 57.72  E-value: 2.16e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2679286041  29 TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPF--IHVIILSGYSDFEYARKALQLGAVDYILKP 105
Cdd:cd17598    24 KVQVARNGREALAMLAEHRPTLVISDIVMPEMDGYELCRKIKSDPDLkdIPVILLTTLSDPRDVIRGLECGADNFITKP 102
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 5-117 2.86e-10

phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is part of the VirA/VirG two-component system that regulates the expression of virulence (vir) genes. The histidine kinase VirA senses a phenolic wound response signal, undergoes autophosphorylation, and phosphorelays to the VirG response regulator, which induces transcription of the vir regulon. VirG belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381125 [Multi-domain]  Cd Length: 113  Bit Score: 57.46  E-value: 2.86e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALqfLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPfIHVIILSGY 84
Cdd:cd17594     3 LVVDDDAAMRHLLILYLRERGFDVTAAADGAEEARL--MLHRRVDLVLLDLRLGQESGLDLLRTIRARSD-VPIIIISGD 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2679286041  85 SDFEYARK-ALQLGAVDYILKPIVFEEMIQCMKK 117
Cdd:cd17594    80 RRDEIDRVvGLELGADDYLAKPFGLRELLARVRA 113
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 4-105 3.21e-10

phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; Two-component systems (TCSs), consisting of a sensor and a response regulator, are used by bacteria to adapt to changing environments. Processes regulated by TCSs in bacteria include sporulation, pathogenicity, virulence, chemotaxis and membrane transport. Response regulators share the common phosphoacceptor REC domain and differ output domains such as DNA, RNA, ligand, and protein-binding, or enzymatic domain. CpdR is a stand-alone REC protein. CckA is a sensor histidine kinase containing N-terminal PAS domains and a C-terminal REC domain. CpdR and CckA are components of a regulatory phosphorelay system (composed of CckA, ChpT, CtrA and CpdR) that controls Brucella abortus cell growth, division, and intracellular survival inside mammalian host cells. CckA autophosphorylates in the presence of ATP and transfers a phosphoryl group to the conserved aspartic acid residue on its C-terminal REC domain, which is relayed to the ChpT phosphotransferase. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381144 [Multi-domain]  Cd Length: 103  Bit Score: 57.13  E-value: 3.21e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGlFAWPWKDLNIeTVGCCSHGLEALQFL-ANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:cd18160     2 ILLADDEPSVRKF-IVTTLKKAGY-AVTEAESGAEALEKLqQGKDIDIVVTDIVMPEMDGIELAREARKIDPDVKILFIS 79

                          90       100
                  ....*....|....*....|...
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKP 105
Cdd:cd18160    80 GGAAAAPELLSDAVGDNATLKKP 102
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 6-105 1.01e-09

phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; Sinorhizobium meliloti ChvI is part of the ExoS/ChvI two-component regulatory system (TCS) that is required for nitrogen-fixing symbiosis and exopolysaccharide synthesis. ExoS/ChvI also play important roles in regulating biofilm formation, motility, nutrient utilization, and the viability of free-living bacteria. ChvI belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381163 [Multi-domain]  Cd Length: 99  Bit Score: 55.53  E-value: 1.01e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   6 IVDDEKEIREGL-FAWPWKDLNIETVgccSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLkRQYPFIHVIILSGY 84
Cdd:cd19936     3 LVDDDRNILTSVsMALEAEGFSVETY---TDGASALDGLNARPPDLAILDIKMPRMDGMELLQRL-RQKSTLPVIFLTSK 78

                          90       100
                  ....*....|....*....|.
gi 2679286041  85 SDFEYARKALQLGAVDYILKP 105
Cdd:cd19936    79 DDEIDEVFGLRMGADDYITKP 99
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 3-118 1.41e-09

phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The transcription factor PhoB is a component of the PhoR/PhoB two-component system, a key regulatory protein network that facilitates response to inorganic phosphate (Pi) starvation conditions by turning on the phosphate (pho) regulon whose products are involved in phosphorus uptake and metabolism. PhoB is a member of the OmpR family of DNA-binding response regulators that contains REC and winged helix-turn-helix (wHTH) DNA-binding output effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381133 [Multi-domain]  Cd Length: 118  Bit Score: 55.72  E-value: 1.41e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   3 QMLIVDDEKEIREGLfawpwkDLNIETVG----CCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPF--I 76
Cdd:cd17618     2 TILIVEDEPAIREMI------AFNLERAGfdvvEAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLKRDEMTrdI 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2679286041  77 HVIILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKL 118
Cdd:cd17618    76 PIIMLTARGEEEDKVRGLEAGADDYITKPFSPRELVARIKAV 117
PRK15115 PRK15115
response regulator GlrR; Provisional
 29-106 3.51e-09

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 58.31  E-value: 3.51e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2679286041  29 TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGYSDFEYARKALQLGAVDYILKPI 106
Cdd:PRK15115   31 SVVTAESGQEALRVLNREKVDLVISDLRMDEMDGMQLFAEIQKVQPGMPVIILTAHGSIPDAVAATQQGVFSFLTKPV 108
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 341-430 5.56e-09

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 56.86  E-value: 5.56e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 341 IKNNYNRSITLREVADHVYISPSHLSALFKRNGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKK 420
Cdd:PRK09978  151 INNNIAHEWTLARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRN 230

                          90
                  ....*....|
gi 2679286041 421 NVGMTPNEYR 430
Cdd:PRK09978  231 YYGMTPTEYQ 240
PRK15479 PRK15479
transcriptional regulator TctD;
2-111 5.78e-09

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 56.27  E-value: 5.78e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEiregLFAWPWKDLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVI 79
Cdd:PRK15479    1 MRLLLAEDNRE----LAHWLEKALVQNgfAVDCVFDGLAADHLLQSEMYALAVLDINMPGMDGLEVLQRLRKRGQTLPVL 76

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2679286041  80 ILSGYSDFEYARKALQLGAVDYILKPIVFEEM 111
Cdd:PRK15479   77 LLTARSAVADRVKGLNVGADDYLPKPFELEEL 108
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 3-105 6.86e-09

phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and similar domains; Thermotoga maritima RR468 (encoded by gene TM0468) is the cognate response regulator (RR) of the class I histidine kinase HK853 (product of gene TM0853). HK853/RR468 comprise a two-component system (TCS) that couples environmental stimuli to adaptive responses. This subfamily also includes Fremyella diplosiphon complementary adaptation response regulator homolog RcaF, a small RR that is involved in four-step phosphorelays of the complementary chromatic adaptation (CCA) system that occurs in many cyanobacteria. Both RR468 and RcaF are stand-alone RRs containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381104 [Multi-domain]  Cd Length: 121  Bit Score: 53.71  E-value: 6.86e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   3 QMLIVDDEKEIREGLfawpwkDLNIETVG-----CCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQyPF-- 75
Cdd:cd17552     3 RILVIDDEEDIREVV------QACLEKLAgwevlTASSGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQAN-PEtq 75

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2679286041  76 -IHVIILSGYSDFEYARKALQLGAVDYILKP 105
Cdd:cd17552    76 sIPVILLTAKAQPSDRQRFASLGVAGVIAKP 106
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 334-434 7.49e-09

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 56.58  E-value: 7.49e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 334 LAKAKQFIknnyNRSIT---LREV--ADHVYISPSHLSALFKRNGITFLKYLTDIRIKH-ARELLGDLK-YSIYEVGEKV 406
Cdd:PRK09685  199 FQKVVALI----DQSIQeeiLRPEwiAGELGISVRSLYRLFAEQGLVVAQYIRNRRLDRcADDLRPAADdEKITSIAYKW 274

                          90       100
                  ....*....|....*....|....*...
gi 2679286041 407 GYSDPAYFSELFKKNVGMTPNEYRKHLR 434
Cdd:PRK09685  275 GFSDSSHFSTAFKQRFGVSPGEYRRKFR 302
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 3-105 8.60e-09

phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is part of the BaeSR two-component system that is involved in regulating genes that confer multidrug and metal resistance. In Salmonella, BaeSR induces AcrD and MdtABC drug efflux systems, increasing multidrug and metal resistance. In Escherichia coli, BaeR stimulates multidrug resistance via mdtABC (multidrug transporter ABC, formerly known as yegMNO) genes, which encode a resistance-nodulation-cell division (RND) drug efflux system. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381165 [Multi-domain]  Cd Length: 114  Bit Score: 53.15  E-value: 8.60e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   3 QMLIVDDEKEIREGLFAWpwkdLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLkRQYPFIHVII 80
Cdd:cd19938     1 RILIVEDEPKLAQLLIDY----LRAAgyAPTLLAHGDQVLPYVRHTPPDLILLDLMLPGTDGLTLCREI-RRFSDVPIIM 75

                          90       100
                  ....*....|....*....|....*.
gi 2679286041  81 LSGYSDfEYARK-ALQLGAVDYILKP 105
Cdd:cd19938    76 VTARVE-EIDRLlGLELGADDYICKP 100
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 341-438 1.86e-08

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 55.46  E-value: 1.86e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 341 IKNNYNRSITLREVADHVYISPSHLSALFKRNGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKK 420
Cdd:PRK15186  190 IISDISRKWALKDISDSLYMSCSTLKRKLKQENTSFSEVYLNARMNKATKLLRNSEYNITRVAYMCGYDSASYFTCVFKK 269

                          90
                  ....*....|....*...
gi 2679286041 421 NVGMTPNEYRKHLRLSAY 438
Cdd:PRK15186  270 HFKTTPSEFLAFLSSSRH 287
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 328-438 2.35e-08

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 54.71  E-value: 2.35e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 328 NGDSLTLAKAKQFIKNNYNRSITLREVADHVYISPSHLSALFKRNGITFLKYLTDIRIKHARELLgDLKYSIYEVGEKVG 407
Cdd:PRK09940  130 NGVLSVSGKVRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQEQTTFSQILLDARMQHAKNLI-RVEGSVNKIAEQCG 208

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2679286041 408 YSDPAYFSELFKKNVGMTPNEYRKHLRLSAY 438
Cdd:PRK09940  209 YASTSYFIYAFRKHFGNSPKRVSKEYRCQRH 239
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
5-105 2.47e-08

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 55.27  E-value: 2.47e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGL---FAwpwKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIIL 81
Cdd:PRK12555    4 GIVNDSPLAVEALrraLA---RDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMDGVEATRRIMAERPCPILIVT 80

                          90       100
                  ....*....|....*....|....*....
gi 2679286041  82 SGYSD-----FEyarkALQLGAVDYILKP 105
Cdd:PRK12555   81 SLTERnasrvFE----AMGAGALDAVDTP 105
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 5-105 2.74e-08

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators similar to Pseudomonas savastanoi blue-light-activated histidine kinase; Typically, two-component regulatory systems (TCSs) consist of a sensor (histidine kinase) that responds to specific input(s) by modifying the output of a cognate response regulator (RR). TCSs allow organisms to sense and respond to changes in environmental conditions. Hybrid sensor histidine kinase (HK)/response regulators contain all the elements of a classical TCS in a single polypeptide chain. Pseudomonas savastanoi blue-light-activated histidine kinase is a photosensitive HK and RR that is involved in increased bacterial virulence upon exposure to light. RRs share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381145 [Multi-domain]  Cd Length: 102  Bit Score: 51.58  E-value: 2.74e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWpwkdlnIETVGCCSH----GLEALQFLANNP-VDIVLTDIRMP-FMDGLELMEVLKRQYPFIHV 78
Cdd:cd18161     2 LVVEDDPDVRRLTAEV------LEDLGYTVLeaasGDEALDLLESGPdIDLLVTDVIMPgGMNGSQLAEEARRRRPDLKV 75

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2679286041  79 IILSGysdfeYARKALQLG----AVDYILKP 105
Cdd:cd18161    76 LLTSG-----YAENAIEGGdlapGVDVLSKP 101
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 34-106 2.80e-08

phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; Klebsiella pneumoniae RstA (kpRstA) is part of the RstA/RstB two-component regulatory system that may play a regulatory role in virulence. It belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381137 [Multi-domain]  Cd Length: 116  Bit Score: 51.61  E-value: 2.80e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2679286041  34 SHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQY--PfihVIILSGYSDFEYARKALQLGAVDYILKPI 106
Cdd:cd17622    31 HRGDRALEVIAREKPDAVLLDIMLPGIDGLTLCRDLRPKYqgP---ILLLTALDSDIDHILGLELGADDYVVKPV 102
pleD PRK09581
response regulator PleD; Reviewed
 29-106 2.97e-08

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 55.68  E-value: 2.97e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  29 TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQY--PFIHVIILSGYSDFEYARKALQLGAVDYILKPI 106
Cdd:PRK09581   28 TVLTASSGAEAIAICEREQPDIILLDVMMPGMDGFEVCRRLKSDPatTHIPVVMVTALDDPEDRVRGLEAGADDFLTKPI 107
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 1-112 4.99e-08

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 53.27  E-value: 4.99e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLfawpwkDLNIETVGCCSHGLEALQF----LANNPVDIVLTDIRMPFMDGLELMEVLkRQYPFI 76
Cdd:PRK10529    1 MTNVLIVEDEQAIRRFL------RTALEGDGMRVFEAETLQRglleAATRKPDLIILDLGLPDGDGIEFIRDL-RQWSAI 73

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2679286041  77 HVIILSGYSDFEYARKALQLGAVDYILKPIVFEEMI 112
Cdd:PRK10529   74 PVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQ 109
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 2-120 5.45e-08

phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR from some pathogens contains an N-terminal phosphoreceiver (REC) domain and a C-terminal EAL domain that possesses c-di-GMP specific phosphodiesterase activity. The RocR REC domain is phosphorylated and modulates its EAL domain enzymatic activity, regulating the local level of c-di-GMP. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381086 [Multi-domain]  Cd Length: 123  Bit Score: 51.29  E-value: 5.45e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEIREgLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIIL 81
Cdd:cd17530     1 LRVLVLDDDPFQCM-MAATILEDLGPGNVDEADDGREALVILLCNAPDIIICDLKMPDMDGIEFLRHLAESHSNAAVILM 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2679286041  82 SGYSD--FEYARK---ALQLGAVDYILKPIVFEEMIQCMKKLTA 120
Cdd:cd17530    80 SGLDGgiLESAETlagANGLNLLGTLSKPFSPEELTELLTKYTA 123
REC_RcNtrC-like cd19928
phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...
 4-105 6.08e-08

phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C (NtrC) and similar NtrC family response regulators; NtrC family proteins are transcriptional regulators that have REC, AAA+ ATPase/sigma-54 interaction, and DNA-binding output domains. This subfamily of NtrC proteins include NtrC, also called nitrogen regulator I (NRI), from Rhodobacter capsulatus, Azospirillum brasilense, and Azorhizobium caulinodans. NtrC is part of the NtrB/NtrC two-component system that controls the expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. The N-terminal REC domain of NtrC proteins regulate the activity of the protein and its phosphorylation controls the AAA+ domain oligomerization, while the central AAA+ domain participates in nucleotide binding, hydrolysis, oligomerization, and sigma54 interaction. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381155 [Multi-domain]  Cd Length: 100  Bit Score: 50.20  E-value: 6.08e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLfawpwkDLNIETVGC----CSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVI 79
Cdd:cd19928     1 ILVADDDRAIRTVL------TQALGRAGYevrtTGNAATLWRWVEEGEGDLVITDVVMPDENGLDLIPRIKKARPDLPII 74

                          90       100
                  ....*....|....*....|....*.
gi 2679286041  80 ILSGYSDFEYARKALQLGAVDYILKP 105
Cdd:cd19928    75 VMSAQNTLMTAVKAAERGAFEYLPKP 100
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 5-58 7.28e-08

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues.


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 48.72  E-value: 7.28e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 2679286041    5 LIVDDEKEIREGLfawpwKDLNIE---TVGCCSHGLEALQFLANNPVDIVLTDIRMP 58
Cdd:smart00448   4 LVVDDDPLLRELL-----KALLEKegyEVDEATDGEEALELLKEEKPDLILLDIMMP 55
REC_TrxB cd17595
phosphoacceptor receiver (REC) domain a fused response regulator with a thioredoxin reductase ...
 4-105 8.00e-08

phosphoacceptor receiver (REC) domain a fused response regulator with a thioredoxin reductase output domain; This family is composed of uncharacterized fusion proteins containing a REC domain and a thioredoxin reductase domain. Thioredoxin reductase catalyzes the reduction of thioredoxin and is thus a central component in the thioredoxin system. Fusion proteins containing REC and thioredoxin reductase domains could play an important role in the environmental regulation of the cellular dithiol-disulfide ratio. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381126 [Multi-domain]  Cd Length: 135  Bit Score: 50.80  E-value: 8.00e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREG----LFAWPWKDLNIETVGCCSHGLEALQFLA--NNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIH 77
Cdd:cd17595     3 ILTVDDDPQVLRAvardLRRQYGKDYRVLRADSGAEALDALKELKlrGEAVALFLVDQRMPEMDGVEFLEKAMELFPEAK 82

                          90       100
                  ....*....|....*....|....*....
gi 2679286041  78 VIILSGYSDFEYARKALQLGAVD-YILKP 105
Cdd:cd17595    83 RVLLTAYADTDAAIRAINDVQLDyYLLKP 111
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 4-117 1.14e-07

phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate/nitrite response regulator protein NarL contains an N-terminal REC domain and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. Escherichia coli NarL activates the expression of the nitrate reductase (narGHJI) and formate dehydrogenase-N (fdnGHI) operons, and represses the transcription of the fumarate reductase (frdABCD) operon in response to a nitrate/nitrite induction signal. Phosphorylation of the NarL REC domain releases the C-terminal HTH output domain that subsequently binds specific DNA promoter sites to repress or activate gene expression. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381158 [Multi-domain]  Cd Length: 117  Bit Score: 50.04  E-value: 1.14e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSG 83
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILTV 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2679286041  84 YSDFEYARKALQLGAVDYILKPIVFEEMIQCMKK 117
Cdd:cd19931    81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQ 114
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 2-118 1.23e-07

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 52.23  E-value: 1.23e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEIREGLFawpwKDLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVI 79
Cdd:PRK09836    1 MKLLIVEDEKKTGEYLT----KGLTEAgfVVDLADNGLNGYHLAMTGDYDLIILDIMLPDVNGWDIVRMLRSANKGMPIL 76

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2679286041  80 ILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKL 118
Cdd:PRK09836   77 LLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTL 115
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 49-112 1.33e-07

phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is part of the CckA-ChpT-CtrA phosphorelay that is conserved in alphaproteobacteria and is important in orchestrating the cell cycle, polar development, and flagellar biogenesis. CtrA is the master regulator of flagella synthesis genes and also regulates genes involved in the cell cycle, exopolysaccharide synthesis, and cyclic-di-GMP signaling. CtrA is active as a transcription factor when phosphorylated. It is a member of the OmpR family of DNA-binding response regulators, characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381132 [Multi-domain]  Cd Length: 114  Bit Score: 49.72  E-value: 1.33e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2679286041  49 DIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGYSDFEYARKALQLGAVDYILKPIVFEEMI 112
Cdd:cd17616    44 DIILLDLNLPDMSGYEVLRTLRLAKVKTPILILSGLADIEDKVKGLGFGADDYMTKPFHKDELV 107
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 36-117 1.51e-07

phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus DivK is an essential response regulator that is involved in the complex phosphorelay pathways controlling both cell division and motility. It localizes cell cycle regulators to specific poles of the cell during division. DivK contains a stand-alone REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381100 [Multi-domain]  Cd Length: 115  Bit Score: 49.46  E-value: 1.51e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  36 GLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKR--QYPFIHVIILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQ 113
Cdd:cd17548    32 GEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKEdpATRDIPVIALTAYAMKGDREKILEAGCDGYISKPIDTREFLE 111


                  ....
gi 2679286041 114 CMKK 117
Cdd:cd17548   112 TVAK 115
PRK10610 PRK10610
chemotaxis protein CheY;
2-105 1.58e-07

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 49.97  E-value: 1.58e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEIREgLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKR--QYPFIHVI 79
Cdd:PRK10610    6 LKFLVVDDFSTMRR-IVRNLLKELGFNNVEEAEDGVDALNKLQAGGFGFVISDWNMPNMDGLELLKTIRAdgAMSALPVL 84

                          90       100
                  ....*....|....*....|....*.
gi 2679286041  80 ILSGYSDFEYARKALQLGAVDYILKP 105
Cdd:PRK10610   85 MVTAEAKKENIIAAAQAGASGYVVKP 110
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
370-433 1.65e-07

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 52.36  E-value: 1.65e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2679286041 370 KRNGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKKNVGMTPNEYRkHL 433
Cdd:PRK13502  215 AQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWR-HL 277
PRK10841 PRK10841
two-component system sensor histidine kinase RcsC;
36-78 2.03e-07

two-component system sensor histidine kinase RcsC;


Pssm-ID: 182772 [Multi-domain]  Cd Length: 924  Bit Score: 53.44  E-value: 2.03e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2679286041  36 GLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQ---YPFIHV 78
Cdd:PRK10841  834 GVDALNVLSKNHIDIVLTDVNMPNMDGYRLTQRLRQLgltLPVIGV 879
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
360-431 3.28e-07

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 51.83  E-value: 3.28e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2679286041 360 ISPSHLSALFKRN-GITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKKNVGMTPNEYRK 431
Cdd:PRK13501  204 LVERSLKQLFRQQtGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQ 276
PRK10643 PRK10643
two-component system response regulator PmrA;
2-111 3.36e-07

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 50.80  E-value: 3.36e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEIREGLFawpwkdLNIETVG----CCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIH 77
Cdd:PRK10643    1 MKILIVEDDTLLLQGLI------LALQTEGyacdCASTAREAEALLESGHYSLVVLDLGLPDEDGLHLLRRWRQKKYTLP 74

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2679286041  78 VIILSGYSDFEYARKALQLGAVDYILKPIVFEEM 111
Cdd:PRK10643   75 VLILTARDTLEDRVAGLDVGADDYLVKPFALEEL 108
psREC_PRR cd17582
pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response ...
 30-105 4.02e-07

pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response regulators (PRRs), also called APRRs, comprise a core group of clock components that controls the pace of the central oscillator of the circadian clock, an endogenous time-keeping mechanism that enables organisms to adapt to external daily cycles. The coordinated sequential expression of PRR9 (APRR9), PRR7 (APRR7), PRR5 (APRR5), PRR3 (APRR3), and PRR1 (APRR1) results in circadian waves that may be at the basis of the endogenous circadian clock. PRRs contain an N-terminal pseudo receiver (psREC) domain that resembles the receiver domain of a two-component response regulator, but lacks an aspartate residue that accepts a phosphoryl group from the sensor kinase, and a CCT motif at the C-terminus that contains a putative nuclear localization signal. The psREC domain is involved in protein-protein interactions.


Pssm-ID: 381120 [Multi-domain]  Cd Length: 104  Bit Score: 48.17  E-value: 4.02e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  30 VGCCSHGLEALQFL--ANNPVDIVLTDIRMPFMDGLELM------EVLKRqypfIHVIILSGYSDFEYARKALQLGAVDY 101
Cdd:cd17582    25 VTAASDGLQAWDVLedEQNEIDLILTEVDLPVSSGFKLLsyimrhKICKN----IPVIMMSSQDSVGVVFKCLSKGAADY 100


                  ....
gi 2679286041 102 ILKP 105
Cdd:cd17582   101 LVKP 104
REC_TPR cd17589
phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR) ...
 5-113 6.56e-07

phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR)-containing response regulators; Response regulators share the common phosphoacceptor REC domain and different output domains. This subfamily contains uncharacterized response regulators with TPR repeats as the effector or output domain, which might contain between 3 to 16 TPR repeats (each about 34 amino acids). TPR-containing proteins occur in all domains of life and the abundance of TPR-containing proteins in a bacterial proteome is not indicative of virulence. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Some members in this subfamily may contain inactive REC domains lacking canonical metal-binding and active site residues.


Pssm-ID: 381123 [Multi-domain]  Cd Length: 115  Bit Score: 47.64  E-value: 6.56e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWpWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRM-PFMDGLELMEVLKRQY---PFIHVII 80
Cdd:cd17589     2 LIVDDQPTFRSMLKSM-LRSLGVTRIDTASSGEEALRMCENKTYDIVLCDYNLgKGKNGQQLLEELRHKKlisPSTVFIM 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPIVFEEMIQ 113
Cdd:cd17589    81 VTGESSRAMVLSALELEPDDYLLKPFTVSELRE 113
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 4-112 6.69e-07

phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; Escherichia coli PhoP (EcPhoP) is part of the PhoQ/PhoP two-component system (TCS) that regulates virulence genes and plays an essential role in the response of the bacteria to the environment of their mammalian hosts, sensing several stimuli such as extracellular magnesium limitation, low pH, the presence of cationic antimicrobial peptides, and osmotic upshift. This subfamily also includes Brucella suis FeuP, part of the FeuPQ TCS that is involved in the regulation of iron uptake, and Microchaete diplosiphon RcaC, which is required for chromatic adaptation. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381161 [Multi-domain]  Cd Length: 117  Bit Score: 48.05  E-value: 6.69e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLFAwpwkDLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIIL 81
Cdd:cd19934     1 LLLVEDDALLAAQLKE----QLSDAgyVVDVAEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPVLIL 76

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2679286041  82 SGYSDFEYARKALQLGAVDYILKPIVFEEMI 112
Cdd:cd19934    77 TARDSWQDKVEGLDAGADDYLTKPFHIEELL 107
REC_ETR-like cd19933
phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and ...
 2-111 6.93e-07

phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and similar proteins; Plant ethylene receptors contain N-terminal transmembrane domains that contain an ethylene binding site and also serve in localization of the receptor to the endoplasmic reticulum or the Golgi apparatus and a C-terminal histidine kinase (HK)-like domain. There are five ethylene receptors (ETR1, ERS1, ETR2, ERS2, and EIN4) in Arabidopsis thaliana. ETR1, ETR2, and EIN4 also contain REC domains C-terminal to the HK domain. ETR1 and ERS1 belong to subfamily 1, and have functional HK domains while ETR2, ERS2, and EIN4 belong to subfamily 2, and lack the necessary residues for HK activity and may function as serine/threonine kinases. The plant hormone ethylene plays an important role in plant growth and development. It regulates seed germination, seedling growth, leaf and petal abscission, fruit ripening, organ senescence, and pathogen responses. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381160 [Multi-domain]  Cd Length: 117  Bit Score: 47.78  E-value: 6.93e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDE---KEIREGLfawpwkdlnIETVGC----CSHGLEALQFLANNPVD--IVLTDIRMPFMDGLEL-MEVLK- 70
Cdd:cd19933     1 LKVLLVDDNavnRMVTKGL---------LEKLGCevttVSSGEECLNLLASAEHSfqLVLLDLCMPEMDGFEVaLRIRKl 71

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2679286041  71 ---RQYPFIhvIILSGYSDFEYARKALQLGAVDYILKPIVFEEM 111
Cdd:cd19933    72 fgrRERPLI--VALTANTDDSTREKCLSLGMNGVITKPVSLHAL 113
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
4-104 8.91e-07

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 49.49  E-value: 8.91e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSG 83
Cdd:PRK09935    6 VIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVLFLSS 85

                          90       100
                  ....*....|....*....|.
gi 2679286041  84 YSDFEYARKALQLGAVDYILK 104
Cdd:PRK09935   86 KSECFYAGRAIQAGANGFVSK 106
REC_typeA_ARR cd17581
phosphoacceptor receiver (REC) domain of type A Arabidopsis response regulators (ARRs) and ...
 36-106 1.13e-06

phosphoacceptor receiver (REC) domain of type A Arabidopsis response regulators (ARRs) and similar proteins; Type-A response regulators of Arabidopsis (ARRs) are involved in cytokinin signaling, which involves a phosphorelay cascade by histidine kinase receptors (AHKs), histidine phosphotransfer proteins (AHPs) and downstream ARRs. Cytokinin is a plant hormone implicated in many growth and development processes including shoot organogenesis, leaf senescence, sink/source relationships, vascular development, lateral bud release, and photomorphogenic development. Type-A ARRs function downstream of and are regulated by type-B ARRs, which are a class of MYB-type transcription factors. As primary cytokinin response genes, type-A ARRs act as redundant negative feedback regulators of cytokinin signaling by inactivating the phosphorelay. ARRs are divided into two groups, type-A and -B, according to their sequence and domain structure. Type-A ARRs are similar in domain structure to CheY, in that they lack a typical output domain and only contain a stand-alone receiver (REC) domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381119 [Multi-domain]  Cd Length: 122  Bit Score: 47.36  E-value: 1.13e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  36 GLEALQFL----------ANNP-VDIVLTDIRMPFMDGLELMEVLKRQYPF--IHVIILSGYSDFEYARKALQLGAVDYI 102
Cdd:cd17581    31 GKRALEFLgledeedssnFNEPkVNMIITDYCMPGMTGYDLLKKVKESSALkeIPVVIMSSENIPTRISRCLEEGAEDFL 110


                  ....
gi 2679286041 103 LKPI 106
Cdd:cd17581   111 LKPV 114
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 336-431 1.21e-06

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 49.99  E-value: 1.21e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 336 KAKQFIKNNYNRSITLREVADHVYISPSHLSALFKRNGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFS 415
Cdd:PRK15185  210 RVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKLAEEGTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFI 289

                          90
                  ....*....|....*.
gi 2679286041 416 ELFKKNVGMTPNEYRK 431
Cdd:PRK15185  290 QCFKKYFKTTPSTFIK 305
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
370-433 1.21e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 50.10  E-value: 1.21e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2679286041 370 KRNGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKKNVGMTPNEYRkHL 433
Cdd:PRK13500  245 QQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSNYFSVVFTRETGMTPSQWR-HL 307
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 4-122 1.23e-06

phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF appears to play an important role in cell wall integrity in a wide range of gram-positive bacteria, and may also modulate cell membrane integrity. It functions as part of a phosphotransfer system that ultimately controls the levels of competence within the bacteria. YycF belongs to the OmpR family of response regulators, which are characterized by a REC domain and a winged helix-turn-helix effector domain involved in DNA binding. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381130 [Multi-domain]  Cd Length: 115  Bit Score: 47.03  E-value: 1.23e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLfawpwkDLNIETVG----CCSHGLEAL-QFLANNPvDIVLTDIRMPFMDGLELMEVLKRQYPfIHV 78
Cdd:cd17614     1 ILVVDDEKPISDIL------KFNLTKEGyevvTAYDGREALeKVEEEQP-DLILLDLMLPEKDGLEVCREVRKTSN-VPI 72

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2679286041  79 IILSGySDFEYARK-ALQLGAVDYILKPIVFEEMIQCMKkltAHL 122
Cdd:cd17614    73 IMLTA-KDSEVDKVlGLELGADDYVTKPFSNRELLARVK---ANL 113
PRK10701 PRK10701
DNA-binding transcriptional regulator RstA; Provisional
 1-141 1.25e-06

DNA-binding transcriptional regulator RstA; Provisional


Pssm-ID: 236738 [Multi-domain]  Cd Length: 240  Bit Score: 49.25  E-value: 1.25e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLFAWPWK---DLNIEtvgccSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIH 77
Cdd:PRK10701    1 MNKIVFVEDDAEVGSLIAAYLAKhdiDVTVE-----PRGDRAEATILREQPDLVLLDIMLPGKDGMTICRDLRPKWQGPI 75

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2679286041  78 VIILSGYSDFEYARkALQLGAVDYILK---PIVfeemiqcmkkLTAHLeeekqiekRVNFLQHRAQQ 141
Cdd:PRK10701   76 VLLTSLDSDMNHIL-ALEMGACDYILKttpPAV----------LLARL--------RLHLRQNEQAT 123
orf27 CHL00148
Ycf27; Reviewed
 3-111 1.82e-06

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 48.94  E-value: 1.82e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   3 QMLIVDDEKEIREGLfawpWKDLNI--ETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPfIHVII 80
Cdd:CHL00148    8 KILVVDDEAYIRKIL----ETRLSIigYEVITASDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEIRKESD-VPIIM 82

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPIVFEEM 111
Cdd:CHL00148   83 LTALGDVSDRITGLELGADDYVVKPFSPKEL 113
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 4-112 1.95e-06

phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; Acinetobacter baumannii BfmR is part of the BfmR/S two-component system that functions as the master regulator of biofilm initiation. BfmR confers resistance to complement-mediated bactericidal activity, independent of capsular polysaccharide, and also increases resistance to the clinically important antimicrobials meropenem and colistin, making it a potential antimicrobial target. Its inhibition would have the dual benefit of significantly decreasing in vivo survival and increasing sensitivity to selected antimicrobials. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381166 [Multi-domain]  Cd Length: 116  Bit Score: 46.60  E-value: 1.95e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLFAWPWKdlNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPfIHVIILSG 83
Cdd:cd19939     2 ILIVEDELELARLTRDYLIK--AGLEVSVFTDGQRAVRRIIDEQPSLVVLDIMLPGMDGLTVCREVREHSH-VPILMLTA 78

                          90       100
                  ....*....|....*....|....*....
gi 2679286041  84 YSDFEYARKALQLGAVDYILKPIVFEEMI 112
Cdd:cd19939    79 RTEEMDRVLGLEMGADDYLCKPFSPRELL 107
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 375-433 2.11e-06

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 48.99  E-value: 2.11e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2679286041 375 TFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFKKNVGMTPNEYRKHL 433
Cdd:PRK10296  216 TPMQIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRKKL 274
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 4-105 4.21e-06

phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is a member of the SenX3-RegX3 two-component system that is involved in phosphate-sensing signal transduction. Phosphorylated RegX3 functions as a transcriptional activator of phoA. It induces transcription in phosphate limiting environment and also controls expression of several critical metabolic enzymes in aerobic condition. RegX3 belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381136 [Multi-domain]  Cd Length: 99  Bit Score: 45.27  E-value: 4.21e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLfAWPWKDLNIEtVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLkRQYPFIHVIILSG 83
Cdd:cd17621     1 VLVVEDEESFSDPL-AYLLRKEGFE-VTVATDGPAALAEFDRAGADIVLLDLMLPGLSGTEVCRQL-RARSNVPVIMVTA 77

                          90       100
                  ....*....|....*....|..
gi 2679286041  84 YSDFEYARKALQLGAVDYILKP 105
Cdd:cd17621    78 KDSEIDKVVGLELGADDYVTKP 99
PRK13856 PRK13856
two-component response regulator VirG; Provisional
 1-112 4.78e-06

two-component response regulator VirG; Provisional


Pssm-ID: 172377 [Multi-domain]  Cd Length: 241  Bit Score: 47.50  E-value: 4.78e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLFAWpwkdLNIET--VGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPfIHV 78
Cdd:PRK13856    1 MKHVLVIDDDVAMRHLIVEY----LTIHAfkVTAVADSQQFNRVLASETVDVVVVDLNLGREDGLEIVRSLATKSD-VPI 75

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2679286041  79 IILSGySDFEYARK--ALQLGAVDYILKPIVFEEMI 112
Cdd:PRK13856   76 IIISG-DRLEEADKvvALELGATDFIAKPFGTREFL 110
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
1-127 5.89e-06

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 47.10  E-value: 5.89e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLfawpwKDL-NIE--TVGCCSHGLEALQFLaNNPVDIVLTDIRMPFMDGLELMEVLkRQYPFIH 77
Cdd:PRK10955    1 MNKILLVDDDRELTSLL-----KELlEMEgfNVIVAHDGEQALDLL-DDSIDLLLLDVMMPKKNGIDTLKEL-RQTHQTP 73

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2679286041  78 VIILSGY-SDFEYARkALQLGAVDYILKPIVFEEMIQCMKKL--TAHLEEEKQ 127
Cdd:PRK10955   74 VIMLTARgSELDRVL-GLELGADDYLPKPFNDRELVARIRAIlrRSHWSEQQQ 125
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 341-381 6.27e-06

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 42.91  E-value: 6.27e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2679286041 341 IKNNYNRSITLREVADHVYISPSHLSALFKRN-GITFLKYLT 381
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYtGVTPSQYRH 42
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 5-120 7.35e-06

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 46.95  E-value: 7.35e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGY 84
Cdd:PRK10651   10 LLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVS 89

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2679286041  85 SDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTA 120
Cdd:PRK10651   90 NHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAA 125
PRK11517 PRK11517
DNA-binding response regulator HprR;
2-112 7.92e-06

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 46.82  E-value: 7.92e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEIREglfaWPWKDLNIE--TVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLK--RQYPfih 77
Cdd:PRK11517    1 MKILLIEDNQRTQE----WVTQGLSEAgyVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRtaKQTP--- 73

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2679286041  78 VIILSGYSDFEYARKALQLGAVDYILKPIVFEEMI 112
Cdd:PRK11517   74 VICLTARDSVDDRVRGLDSGANDYLVKPFSFSELL 108
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
27-104 1.03e-05

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 46.04  E-value: 1.03e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2679286041  27 IETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVL-KRQYPFIhVIILSGYSDFEYARKALQLGAVDYILK 104
Cdd:PRK09958   25 IEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLrKRQYSGI-IIIVSAKNDHFYGKHCADAGANGFVSK 102
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
341-430 1.10e-05

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 46.98  E-value: 1.10e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 341 IKNNYNRSITLREVADHVYISPSHLSALFK-RNGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSELFK 419
Cdd:PRK13503  180 LEDHFAEEVNWEALADQFSLSLRTLHRQLKqQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFR 259

                          90
                  ....*....|.
gi 2679286041 420 KNVGMTPNEYR 430
Cdd:PRK13503  260 REFSWSPRDIR 270
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 396-431 1.17e-05

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 42.14  E-value: 1.17e-05
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 2679286041 396 KYSIYEVGEKVGYSdPAYFSELFKKNVGMTPNEYRK 431
Cdd:pfam00165   8 NLTIADIADELGFS-RSYFSRLFKKYTGVTPSQYRH 42
PRK13557 PRK13557
histidine kinase; Provisional
 5-105 1.29e-05

histidine kinase; Provisional


Pssm-ID: 237425 [Multi-domain]  Cd Length: 540  Bit Score: 47.36  E-value: 1.29e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREgLFAWPWKDLNIeTVGCCSHGLEALQFLANNP-VDIVLTDIRMP-FMDGLELMEVLKRQYPFIHVIILS 82
Cdd:PRK13557  419 LIVDDRPDVAE-LARMILEDFGY-RTLVASNGREALEILDSHPeVDLLFTDLIMPgGMNGVMLAREARRRQPKIKVLLTT 496

                          90       100
                  ....*....|....*....|...
gi 2679286041  83 GYSDFEYARKALQLGAVDYILKP 105
Cdd:PRK13557  497 GYAEASIERTDAGGSEFDILNKP 519
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
364-435 1.30e-05

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 46.70  E-value: 1.30e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2679286041 364 HLSALFKRNGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSdPAYFSELFKKNVGMTPNEYRKHLRL 435
Cdd:COG2207   136 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLS-PRTLSRLFKEETGTSPKQYLRELRL 206
PRK14084 PRK14084
DNA-binding response regulator;
2-130 2.06e-05

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 45.90  E-value: 2.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIIL 81
Cdd:PRK14084    1 MKALIVDDEPLARNELTYLLNEIGGFEEINEAENVKETLEALLINQYDIIFLDINLMDESGIELAAKIQKMKEPPAIIFA 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2679286041  82 SGYSDFeyARKALQLGAVDYILKPIVFEEMIQCMKKLTAHLEEEKQIEK 130
Cdd:PRK14084   81 TAHDQF--AVKAFELNATDYILKPFEQKRIEQAVNKVRATKAKDDNNAS 127
PRK10360 PRK10360
transcriptional regulator UhpA;
1-120 2.13e-05

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 45.35  E-value: 2.13e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   1 MLQMLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQypfIHVII 80
Cdd:PRK10360    1 MITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPKG---MATIM 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKLTA 120
Cdd:PRK10360   78 LSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVAT 117
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 3-112 2.16e-05

phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is part of MtrA/MtrB (or MtrAB), a highly conserved two-component system (TCS) implicated in the regulation of cell division in the actinobacteria. In unicellular Mycobacterium tuberculosis, MtrAB coordinates DNA replication with cell division and regulates the transcription of resuscitation-promoting factor B. In filamentous Streptomyces venezuelae, it links antibiotic production to sporulation. MtrA belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381141 [Multi-domain]  Cd Length: 115  Bit Score: 43.61  E-value: 2.16e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   3 QMLIVDDEKEIREGLfawpwkDLNIETVG----CCSHGLEALQ-FLANNPvDIVLTDIRMPFMDGLELMEVLkRQYPFIH 77
Cdd:cd17626     2 RILVVDDDAALAEMI------GIVLRGEGfdpaFCGDGTQALAaFREVRP-DLVLLDLMLPGIDGIEVCRQI-RAESGVP 73

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2679286041  78 VIILSGYSDFEYARKALQLGAVDYILKPIVFEEMI 112
Cdd:cd17626    74 IVMLTAKSDTVDVVLGLESGADDYVAKPFKPKELV 108
REC_OmpR_NsrR-like cd18159
phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...
 4-122 2.60e-05

phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family response regulators; Streptococcus agalactiae NsrR is a lantibiotic resistance-associated response regulator and is part of the nisin resistance operon. It is a member of the NsrRK two-component system (TCS) that is involved in the regulation of lantibiotic resistance genes such as a membrane-associated lipoprotein of LanI, and the nsr gene cluster which encodes for the resistance protein NSR and the ABC transporter NsrFP, both conferring resistance against nisin. This subfamily also includes Staphylococcus epidermidis GraR, part of the GraR/GraS TCS involved in resistance against cationic antimicrobial peptides, and Bacillus subtilis BceR, part of the BceS/BceR TCS involved in the regulation of bacitracin resistance. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381143 [Multi-domain]  Cd Length: 113  Bit Score: 43.04  E-value: 2.60e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDE---KEIREGLFAWpwkDLNIETVGCCSHGLEalQFLANNPvDIVLTDIRMPFMDGLELMEVLKRQYPfIHVII 80
Cdd:cd18159     2 LIVEDDEtiaSLLKKHLEKW---GYEVVLIEDFEDVLE--EFLQFKP-DLVLLDINLPYFDGFYWCREIRQISN-VPIIF 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2679286041  81 LSGYSDFEYARKALQLGAVDYILKPIVFEEMiqcMKKLTAHL 122
Cdd:cd18159    75 ISSRDDNMDQVMAINMGGDDYITKPFDLDVL---LAKIKAIL 113
PRK10336 PRK10336
two-component system response regulator QseB;
2-111 3.05e-05

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 44.89  E-value: 3.05e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   2 LQMLIVDDEKEIREGL--------FAWPWkdlnietvgcCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQY 73
Cdd:PRK10336    1 MRILLIEDDMLIGDGIktglskmgFSVDW----------FTQGRQGKEALYSAPYDAVILDLTLPGMDGRDILREWREKG 70

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2679286041  74 PFIHVIILSGYSDFEYARKALQLGAVDYILKPIVFEEM 111
Cdd:PRK10336   71 QREPVLILTARDALAERVEGLRLGADDYLCKPFALIEV 108
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
3-138 3.06e-05

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 44.84  E-value: 3.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   3 QMLIVDDEKEIREGLFAWPWKDLNIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILS 82
Cdd:PRK10403    8 QVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTAQIIILT 87

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2679286041  83 gYSDFEYARKAL-QLGAVDYILKPIVFEEMIQCMKKLTAhleEEKQIEKRVN-FLQHR 138
Cdd:PRK10403   88 -VSDASSDVFALiDAGADGYLLKDSDPEVLLEAIRAGAK---GSKVFSERVNqYLRER 141
PRK10766 PRK10766
two-component system response regulator TorR;
5-118 3.29e-05

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 45.03  E-value: 3.29e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDEKEIREGLFAWPWKDLNieTVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLkRQYPFIHVIILSGY 84
Cdd:PRK10766    6 LVVEDEPVTRARLQGYFEQEGY--TVSEAASGAGMREIMQNQHVDLILLDINLPGEDGLMLTREL-RSRSTVGIILVTGR 82

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2679286041  85 SDFEYARKALQLGAVDYILKPIVFEEMIQCMKKL 118
Cdd:PRK10766   83 TDSIDRIVGLEMGADDYVTKPLELRELLVRVKNL 116
REC_HP-RR-like cd17573
phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; ...
 49-112 4.01e-05

phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; Helicobacter pylori response regulator hp1043 (HP-RR) is an orphan response regulator which is phosphorylation-independent and is essential for growth. HP-RR functions as a cell growth-associated regulator in the absence of post-translational modification. Members of this subfamily contain REC and DNA-binding output domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381115 [Multi-domain]  Cd Length: 110  Bit Score: 42.80  E-value: 4.01e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2679286041  49 DIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGYSDFEYARKALQLGAVDYILKPIVFEEMI 112
Cdd:cd17573    44 DLVLVSDKLPDGNGLSIVSRIKEKHPSIVVIVLSDNPKTEQEIEAFKEGADDYIAKPFDFKVLV 107
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 4-106 4.57e-05

PEP-CTERM-box response regulator transcription factor; Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see SP|Q06065). These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158). [Regulatory functions, DNA interactions]


Pssm-ID: 274348 [Multi-domain]  Cd Length: 445  Bit Score: 45.51  E-value: 4.57e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   4 MLIVDDEKEIREGLfAWPWKDLNIETVGccsHGLEALQFLANNPVDIVLTDIRMP-----FMDGLELMEVLKRQYPFIHV 78
Cdd:TIGR02915   1 LLIVEDDLGLQKQL-KWSFADYELAVAA---DRESAIALVRRHEPAVVTLDLGLPpdadgASEGLAALQQILAIAPDTKV 76

                          90       100
                  ....*....|....*....|....*...
gi 2679286041  79 IILSGYSDFEYARKALQLGAVDYILKPI 106
Cdd:TIGR02915  77 IVITGNDDRENAVKAIGLGAYDFYQKPI 104
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
396-436 6.29e-05

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 41.38  E-value: 6.29e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 2679286041  396 KYSIYEVGEKVGYSdPAYFSELFKKNVGMTPNEYRKHLRLS 436
Cdd:smart00342   1 PLTLEDLAEALGVS-PRHLQRLFKKETGTTPKQYLRDRRLE 40
ftrA PRK09393
transcriptional activator FtrA; Provisional
 330-431 6.34e-05

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 44.57  E-value: 6.34e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 330 DSLTLAKAKQFIKNNYNRSITLREVADHVYISPSHLSALFKR-NGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGY 408
Cdd:PRK09393  216 ESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAaTGMTPAEWLLRERLARARDLLESSALSIDQIAERAGF 295

                          90       100
                  ....*....|....*....|...
gi 2679286041 409 SDPAYFSELFKKNVGMTPNEYRK 431
Cdd:PRK09393  296 GSEESLRHHFRRRAATSPAAYRK 318
dpiA PRK10046
two-component response regulator DpiA; Provisional
 50-133 7.00e-05

two-component response regulator DpiA; Provisional


Pssm-ID: 182208 [Multi-domain]  Cd Length: 225  Bit Score: 43.85  E-value: 7.00e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  50 IVLTDIRMPFMDGLELM-EVLKRQYPFiHVIILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCM------KKLTAHL 122
Cdd:PRK10046   53 LILLDNYLPDGRGINLLhELVQAHYPG-DVVFTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTLtrfrqrKHMLESI 131

                          90
                  ....*....|...
gi 2679286041 123 E--EEKQIEKRVN 133
Cdd:PRK10046  132 DsaSQKQIDEMFN 144
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 37-105 7.69e-05

phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) PatA is necessary for proper patterning of heterocysts along filaments. PatA contains phosphoacceptor REC domain at its C-terminus and an N-terminal PATAN (PatA N-terminus) domain, which was proposed in a bioinformatics study to mediate protein-protein interactions. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Some members of this group may have an inactive REC domain, lacking canonical metal-binding and active site residues.


Pssm-ID: 381129 [Multi-domain]  Cd Length: 102  Bit Score: 41.59  E-value: 7.69e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2679286041  37 LEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPF--IHVIILSGYSDFEYARKALQLGAVDYILKP 105
Cdd:cd17602    32 LRALTTLLNSKPDLILIDIDMPDLDGYELCSLLRKSSALkdTPIIMLTGKDGLVDRIRAKMAGASGYLTKP 102
REC_LytTR_AgrA-like cd17533
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AgrA; ...
 26-110 1.09e-04

phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AgrA; Members of the LytTR/AlgR family of response regulators contain a REC domain and a unique LytTR DNA-binding output domain that lacks the helix-turn-helix motif and consists mostly of beta-strands. Transcriptional regulators with the LytTR-type output domains are involved in biosynthesis of extracellular polysaccharides, fimbriation, expression of exoproteins, including toxins, and quorum sensing. Included in this AgrA-like group of LytTR/AlgR family response regulators are Staphylococcus aureus accessory gene regulator protein A (AgrA) and Streptococcus pneumoniae response regulator ComE, which are members of two-component regulatory systems. AgrA is a global regulator that controls the synthesis of virulence factors and other exoproteins. ComE is part of the ComD-ComE system that is part of a quorum-sensing signaling pathway that controls the development of competence, a physiological state required for genetic transformation. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381088 [Multi-domain]  Cd Length: 131  Bit Score: 41.84  E-value: 1.09e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  26 NIETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGYSDFEYARKALQLGAVDYILKP 105
Cdd:cd17533    32 VIELTGKTEELLEKIKERGKNGIYFLDIDIKMEEKNGLEVAQKIRKYDPYAIIIFVTTHSEFAPLTFEYKVAALDFILKP 111


                  ....*
gi 2679286041 106 IVFEE 110
Cdd:cd17533   112 LKLEE 116
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
339-433 1.54e-04

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 41.06  E-value: 1.54e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 339 QFIKNNYNRSITLREVADHVYISPSHLSALFKR-NGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPAYFSEL 417
Cdd:PRK10219   12 AWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTvTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRV 91

                          90
                  ....*....|....*.
gi 2679286041 418 FKKNVGMTPNEYRKHL 433
Cdd:PRK10219   92 FRRQFDRTPSDYRHRL 107
PRK11107 PRK11107
hybrid sensory histidine kinase BarA; Provisional
 27-113 1.97e-04

hybrid sensory histidine kinase BarA; Provisional


Pssm-ID: 236848 [Multi-domain]  Cd Length: 919  Bit Score: 43.68  E-value: 1.97e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  27 IETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLK-----RQYPFI----HVIilSGYSDfeyarKALQLG 97
Cdd:PRK11107  691 VEHVVLCDSGHQAVEQAKQRPFDLILMDIQMPGMDGIRACELIRqlphnQNTPIIavtaHAM--AGERE-----RLLSAG 763

                          90
                  ....*....|....*.
gi 2679286041  98 AVDYILKPIVfEEMIQ 113
Cdd:PRK11107  764 MDDYLAKPID-EAMLK 778
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 333-426 2.22e-04

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 43.10  E-value: 2.22e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 333 TLAKAKQFIKNNYNRSITLREVADHVYISPSHLSALFKRNGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKVGYSDPA 412
Cdd:PRK15044  193 TKEKVYNIIISDLTRKWSQAEVAGKLFMSVSSLKRKLAAEEVSFSKIYLDARMNQAIKLLRMGAGNISQVATMCGYDTPS 272

                          90
                  ....*....|....
gi 2679286041 413 YFSELFKKNVGMTP 426
Cdd:PRK15044  273 YFIAIFKRHFKITP 286
PRK10816 PRK10816
two-component system response regulator PhoP;
38-118 2.51e-04

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 42.42  E-value: 2.51e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  38 EALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVIILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKK 117
Cdd:PRK10816   35 EADYYLNEHLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQA 114


                  .
gi 2679286041 118 L 118
Cdd:PRK10816  115 L 115
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 34-118 2.58e-04

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 42.36  E-value: 2.58e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041  34 SHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLkRQYPFIHVIILSGYSDfEYAR-KALQLGAVDYILKPIVFEEMI 112
Cdd:PRK10710   41 SHGDEVLPYVRQTPPDLILLDLMLPGTDGLTLCREI-RRFSDIPIVMVTAKIE-EIDRlLGLEIGADDYICKPYSPREVV 118


                  ....*.
gi 2679286041 113 QCMKKL 118
Cdd:PRK10710  119 ARVKTI 124
PRK11173 PRK11173
two-component response regulator; Provisional
 3-105 2.77e-04

two-component response regulator; Provisional


Pssm-ID: 183013 [Multi-domain]  Cd Length: 237  Bit Score: 42.31  E-value: 2.77e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   3 QMLIVDDEKEIREGLfawpwKDLnIETVGC----CSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLkRQYPFIHV 78
Cdd:PRK11173    5 HILIVEDELVTRNTL-----KSI-FEAEGYdvfeATDGAEMHQILSENDINLVIMDINLPGKNGLLLAREL-REQANVAL 77

                          90       100
                  ....*....|....*....|....*...
gi 2679286041  79 IILSGySDFEYAR-KALQLGAVDYILKP 105
Cdd:PRK11173   78 MFLTG-RDNEVDKiLGLEIGADDYITKP 104
HTH_18 pfam12833
Helix-turn-helix domain;
404-435 1.01e-03

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 37.95  E-value: 1.01e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 2679286041 404 EKVGYSdPAYFSELFKKNVGMTPNEYRKHLRL 435
Cdd:pfam12833   3 AALGMS-PRTLSRLFKRELGLSPKEYLRRLRL 33
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
328-430 1.37e-03

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 38.54  E-value: 1.37e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041 328 NGDSLTLAKAKQFIKNNYNRSITLREVADHVYISPSHLSALFKR-NGITFLKYLTDIRIKHARELLGDLKYSIYEVGEKV 406
Cdd:PRK11511    5 NTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKeTGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERY 84

                          90       100
                  ....*....|....*....|....
gi 2679286041 407 GYSDPAYFSELFKKNVGMTPNEYR 430
Cdd:PRK11511   85 GFESQQTLTRTFKNYFDVPPHKYR 108
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
3-118 1.95e-03

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 39.70  E-value: 1.95e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   3 QMLIVDDEKEIREgLFAWPWKDLNIETVGCCSHGLEALQFlaNNP-VDIVLTDIRMPFMDGLELMEVLKRQYPF--IHVI 79
Cdd:PRK10161    4 RILVVEDEAPIRE-MVCFVLEQNGFQPVEAEDYDSAVNQL--NEPwPDLILLDWMLPGGSGIQFIKHLKRESMTrdIPVV 80

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2679286041  80 ILSGYSDFEYARKALQLGAVDYILKPIVFEEMIQCMKKL 118
Cdd:PRK10161   81 MLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAV 119
REC_WspR-like cd17575
phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...
 5-104 5.24e-03

phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The GGDEF response regulator WspR is part of the Wsp system that is homologous to chemotaxis systems and also includes the membrane-bound receptor protein WspA. In response to growth on surfaces, WspR is phosphorylated by the Wsp signal transduction complex and is activated, functioning as a diguanylate cyclase (DGC) that catalyzes c-di-GMP synthesis. WspR is a hybrid response regulator-diguanylate cyclase, containing an N-terminal REC domain and a C-terminal GGDEF domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381117 [Multi-domain]  Cd Length: 128  Bit Score: 37.00  E-value: 5.24e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041   5 LIVDDE----KEIREGLFAWPWKDLNIetvgcCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLK-----RQYPf 75
Cdd:cd17575     4 LLVDDQaiigEAVRRALADEEDIDFHY-----CSDPTEAIEVASQIKPTVILQDLVMPGVDGLTLVRFFRanpatRDIP- 77

                          90       100
                  ....*....|....*....|....*....
gi 2679286041  76 ihVIILSGYSDFEYARKALQLGAVDYILK 104
Cdd:cd17575    78 --IIVLSTKEEPEVKSEAFALGANDYLVK 104
PRK09959 PRK09959
acid-sensing system histidine kinase EvgS;
2-137 5.74e-03

acid-sensing system histidine kinase EvgS;


Pssm-ID: 182169 [Multi-domain]  Cd Length: 1197  Bit Score: 39.33  E-value: 5.74e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2679286041    2 LQMLIVDDEKEIREGLfawpWKDLNI--ETVGCCSHGLEALQFLANNPVDIVLTDIRMPFMDGLELMEVLKRQYPFIHVI 79
Cdd:PRK09959   959 LSILIADDHPTNRLLL----KRQLNLlgYDVDEATDGVQALHKVSMQHYDLLITDVNMPNMDGFELTRKLREQNSSLPIW 1034

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 2679286041   80 ILSGYSDFEYARKALQLGAVDYILKPIVFEemiqcmkKLTAHLEEEKQIEKRVNFLQH 137
Cdd:PRK09959  1035 GLTANAQANEREKGLSCGMNLCLFKPLTLD-------VLKTHLSQLHQVAHIAPQYRH 1085
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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