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Conserved domains on  [gi|446616740|ref|WP_000694086|]
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MULTISPECIES: response regulator transcription factor [Bacillus]

Protein Classification

response regulator transcription factor( domain architecture ID 11450879)

response regulator transcription factor with a signal receiver (REC) domain and a LuxR family helix-turn-helix (HTH) domain that may be part of a two-component regulatory system; similar to Staphylococcus aureus response regulator VraR

CATH:  1.10.10.10
Gene Ontology:  GO:0000160|GO:0006355|GO:0003677
PubMed:  10966457
SCOP:  3001179

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 5-120 4.34e-43

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: 140.73  E-value: 4.34e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEET-KTKPLILTT 83
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYpDLKVIVLTA 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYN 120
Cdd:cd17535   81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
GerE super family cl47465
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 149-212 2.44e-17

Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell division, chromosome partitioning, Transcription];


The actual alignment was detected with superfamily member COG5905:

Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 73.07  E-value: 2.44e-17
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446616740 149 KSLFTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIYYL-TGKVD 212
Cdd:COG5905   10 PSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALrLGLLS 74
 
Name Accession Description Interval E-value
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 5-120 4.34e-43

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: 140.73  E-value: 4.34e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEET-KTKPLILTT 83
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYpDLKVIVLTA 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYN 120
Cdd:cd17535   81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 5-212 5.40e-42

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 141.32  E-value: 5.40e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICE-ETKTKPLILTT 83
Cdd:PRK10651   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREkSLSGRIVVFSV 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYNGQTVMQDVILDKIKSNLMESKEEECKIDKSLfTERELSIIALI 163
Cdd:PRK10651  89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRANRATTERDVNQL-TPRERDILKLI 167

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 446616740 164 AKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIYYLTGKVD 212
Cdd:PRK10651 168 AQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 2-207 6.00e-36

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: 123.08  E-value: 6.00e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   2 KIKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFIceetktkplil 81
Cdd:COG2197    1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL----------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  82 ttfdddeyildavkngakgyllknndperirdaikgvyngqtvmqdvildkiksnlmeskeeeckidkslFTERELSIIA 161
Cdd:COG2197   70 ----------------------------------------------------------------------LTPREREVLR 79

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 446616740 162 LIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIYYL 207
Cdd:COG2197   80 LLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLAL 125
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 5-116 4.59e-26

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: 96.84  E-value: 4.59e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740    5 ILIADDNSFIREGMKIILNtYEEFdVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LILTT 83
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLE-KEGY-VVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPvIILTA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 446616740   84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:pfam00072  79 HGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 149-212 2.44e-17

Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell division, chromosome partitioning, Transcription];


Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 73.07  E-value: 2.44e-17
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446616740 149 KSLFTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIYYL-TGKVD 212
Cdd:COG5905   10 PSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALrLGLLS 74
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 152-205 9.49e-17

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 71.02  E-value: 9.49e-17
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 446616740   152 FTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIY 205
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 152-205 2.56e-13

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental nitrate or nitrite is present under anerobic conditions. FixJ is involved in the transcriptional activation of nitrogen fixation genes. The group also includes small proteins which lack an N-terminal signaling domain, such as Bacillus subtilis GerE. GerE is dimeric and acts in conjunction with sigmaK as an activator or a repressor modulating the expression of various genes in particular those encoding the spore-coat. These LuxR family regulators may share a similar organization of their target binding sites. For example the LuxR dimer binds the lux box, a 20bp inverted repeat, GerE dimers bind two 12bp consensus sequences in inverted orientation having the central four bases overlap, and the NarL dimer binds two 7bp inverted repeats separated by 2 bp.


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 62.17  E-value: 2.56e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 446616740 152 FTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIY 205
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAY 54
GerE pfam00196
Bacterial regulatory proteins, luxR family;
150-205 2.58e-13

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 62.22  E-value: 2.58e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 446616740  150 SLFTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIY 205
Cdd:pfam00196   1 DSLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRM 56
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 3-59 5.23e-12

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: 58.73  E-value: 5.23e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 446616740     3 IKILIADDNSFIREGMKIILNtyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMP 59
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLE--KEGYEVDEATDGEEALELLKEEKPDLILLDIMMP 55
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
147-199 2.92e-03

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 38.00  E-value: 2.92e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 446616740 147 IDKSLFTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHR 199
Cdd:PRK04841 834 IRTSPLTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHR 886
 
Name Accession Description Interval E-value
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 5-120 4.34e-43

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: 140.73  E-value: 4.34e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEET-KTKPLILTT 83
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYpDLKVIVLTA 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYN 120
Cdd:cd17535   81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 5-212 5.40e-42

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 141.32  E-value: 5.40e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICE-ETKTKPLILTT 83
Cdd:PRK10651   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREkSLSGRIVVFSV 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYNGQTVMQDVILDKIKSNLMESKEEECKIDKSLfTERELSIIALI 163
Cdd:PRK10651  89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRANRATTERDVNQL-TPRERDILKLI 167

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 446616740 164 AKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIYYLTGKVD 212
Cdd:PRK10651 168 AQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 2-207 6.00e-36

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: 123.08  E-value: 6.00e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   2 KIKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFIceetktkplil 81
Cdd:COG2197    1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL----------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  82 ttfdddeyildavkngakgyllknndperirdaikgvyngqtvmqdvildkiksnlmeskeeeckidkslFTERELSIIA 161
Cdd:COG2197   70 ----------------------------------------------------------------------LTPREREVLR 79

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 446616740 162 LIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIYYL 207
Cdd:COG2197   80 LLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLAL 125
PRK09483 PRK09483
response regulator; Provisional
 3-206 2.79e-31

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 113.66  E-value: 2.79e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICE-ETKTKPLIL 81
Cdd:PRK09483   2 INVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRyTPDVKIIML 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  82 TTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYNGQTVMQDVILDKIKSNLMESKEEEckiDKSLFTERELSIIA 161
Cdd:PRK09483  82 TVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQIEPATEN---PFASLSERELQIML 158

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 446616740 162 LIAKGFSNKEISKQLFISEGTIANY---ITSVLGKTGLEHRTQIAIYY 206
Cdd:PRK09483 159 MITKGQKVNEISEQLNLSPKTVNSYryrMFSKLNISGDVELTHLAIRH 206
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
4-207 3.63e-31

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 113.41  E-value: 3.63e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILTT 83
Cdd:PRK10403   8 QVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTAQIIILT 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  84 FDD---DEYIL-DAvknGAKGYLLKNNDPERIRDAIKGVYNGqtvmQDVILDKIKSNLMESKEEECKIDK-SLFTERELS 158
Cdd:PRK10403  88 VSDassDVFALiDA---GADGYLLKDSDPEVLLEAIRAGAKG----SKVFSERVNQYLREREMFGAEEDPfSVLTERELD 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 446616740 159 IIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIYYL 207
Cdd:PRK10403 161 VLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAATILFL 209
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 4-104 3.49e-30

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: 107.17  E-value: 3.49e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEE-TKTKPLILT 82
Cdd:COG4753    1 KVLIVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELdPDTKIIILS 80

                         90       100
                 ....*....|....*....|..
gi 446616740  83 TFDDDEYILDAVKNGAKGYLLK 104
Cdd:COG4753   81 GYSDFEYAQEAIKLGADDYLLK 102
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 5-118 5.28e-28

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: 102.03  E-value: 5.28e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYE-EFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEE-TKTKPLILT 82
Cdd:cd17536    1 VLIVDDEPLIREGLKKLIDWEElGFEVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELyPDIKIIILS 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 446616740  83 TFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGV 118
Cdd:cd17536   81 GYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKA 116
PRK15369 PRK15369
two component system response regulator;
1-183 5.46e-28

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 104.78  E-value: 5.46e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   1 MKIKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEE-TKTKPL 79
Cdd:PRK15369   2 KNYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRwPAMNIL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  80 ILTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYNGQTVMqDVILDkikSNLMESKEEECKIDKSLFTERELSI 159
Cdd:PRK15369  82 VLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYI-DPALN---REAILALLNADDTNPPLLTPRERQI 157

                        170       180
                 ....*....|....*....|....
gi 446616740 160 IALIAKGFSNKEISKQLFISEGTI 183
Cdd:PRK15369 158 LKLITEGYTNRDIAEQLSISIKTV 181
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 5-120 1.84e-26

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: 98.11  E-value: 1.84e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEE-TKTKPLILTT 83
Cdd:cd19930    1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREElPDTKVLIVTT 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYN 120
Cdd:cd19930   81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVHA 117
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 1-116 2.05e-26

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: 98.38  E-value: 2.05e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   1 MKIKILIADDNSFIREGMKIILNT--YEefdvVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP 78
Cdd:COG0784    4 GGKRILVVDDNPDNRELLRRLLERlgYE----VTTAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIRALPRLPD 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 446616740  79 L---ILTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:COG0784   80 IpiiALTAYADEEDRERALEAGADDYLTKPVDPEELLEALR 120
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 5-116 4.59e-26

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: 96.84  E-value: 4.59e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740    5 ILIADDNSFIREGMKIILNtYEEFdVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LILTT 83
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLE-KEGY-VVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPvIILTA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 446616740   84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:pfam00072  79 HGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-116 5.87e-25

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 95.04  E-value: 5.87e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   1 MKIKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVE-ATKFICEETKTKPL 79
Cdd:COG4565    2 KMIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLElLRELRARGPDVDVI 81

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 446616740  80 ILTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:COG4565   82 VITAARDPETVREALRAGVVDYLIKPFTFERLREALE 118
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 2-116 1.16e-24

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 96.81  E-value: 1.16e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   2 KIKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLIL 81
Cdd:COG3279    1 MMKILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPPPPIIF 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 446616740  82 TTfDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:COG3279   81 TT-AYDEYALEAFEVNAVDYLLKPIDEERLAKALE 114
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-116 3.62e-24

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: 98.50  E-value: 3.62e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   1 MKIKILIADDNSFIREGMKIILnTYEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLI 80
Cdd:COG2204    1 SMARILVVDDDPDIRRLLKELL-ERAGYEVE-TAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDPDLPVI 78

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 446616740  81 L-TTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:COG2204   79 LlTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVE 115
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 2-115 2.39e-23

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: 91.89  E-value: 2.39e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   2 KIKILIADDNSFIREGMKIILNTyEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTK--PL 79
Cdd:COG3706    1 PARILVVDDDPTNRKLLRRLLEA-AGYEVV-EAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLRADPRTAdiPI 78

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 446616740  80 I-LTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAI 115
Cdd:COG3706   79 IfLTALDDEEDRARALEAGADDYLTKPFDPEELLARV 115
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 6-104 2.19e-22

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: 86.90  E-value: 2.19e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   6 LIADDNSFIREGMKIILNtyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLI-LTTF 84
Cdd:cd00156    1 LIVDDDPAIRELLKSLLE--REGYEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIvLTAK 78

                         90       100
                 ....*....|....*....|
gi 446616740  85 DDDEYILDAVKNGAKGYLLK 104
Cdd:cd00156   79 ADEEDAVRALELGADDYLVK 98
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 3-118 2.30e-22

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: 87.72  E-value: 2.30e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILnTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETK-TKPLIL 81
Cdd:cd17542    1 KKVLIVDDAAFMRMMLKDIL-TKAGYEVVGEAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIDPnAKVIMC 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 446616740  82 TTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGV 118
Cdd:cd17542   80 SAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKV 116
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 1-116 1.01e-21

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: 88.68  E-value: 1.01e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   1 MKIKILIADDNSFIREGMKIILNTyEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTK--P 78
Cdd:COG3437    5 QAPTVLIVDDDPENLELLRQLLRT-LGYDVV-TAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLRADPSTRdiP 82

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 446616740  79 LI-LTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:COG3437   83 VIfLTALADPEDRERALEAGADDYLTKPFDPEELLARVR 121
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 3-115 1.32e-21

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: 85.54  E-value: 1.32e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILnTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILT 82
Cdd:cd19932    1 VRVLIAEDEALIRMDLREML-EEAGYEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENIAPIVLLT 79

                         90       100       110
                 ....*....|....*....|....*....|...
gi 446616740  83 TFDDDEYILDAVKNGAKGYLLKnndPERIRDAI 115
Cdd:cd19932   80 AYSQQDLVERAKEAGAMAYLVK---PFSESDLI 109
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 3-104 2.91e-21

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: 84.75  E-value: 2.91e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILT 82
Cdd:cd17541    1 IRVLIVDDSAVMRKLLSRILESDPDIEVVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAERPTPVVMVS 80

                         90       100
                 ....*....|....*....|....
gi 446616740  83 TFDDD--EYILDAVKNGAKGYLLK 104
Cdd:cd17541   81 SLTEEgaEITLEALELGAVDFIAK 104
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 5-115 4.09e-20

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: 81.36  E-value: 4.09e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYeeFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFI--CEETKTKPLI-- 80
Cdd:cd17546    1 VLVVDDNPVNRKVLKKLLEKL--GYEVDVAENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIreLEGGGRRTPIia 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 446616740  81 LTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAI 115
Cdd:cd17546   79 LTANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-115 4.40e-20

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: 83.85  E-value: 4.40e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   1 MKIKILIADDNSFIREGMKIILnTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLI 80
Cdd:COG3707    2 RGLRVLVVDDEPLRRADLREGL-REAGYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERPAPVIL 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 446616740  81 LTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAI 115
Cdd:COG3707   81 LTAYSDPELIERALEAGVSAYLVKPLDPEDLLPAL 115
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 2-116 5.91e-20

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: 83.47  E-value: 5.91e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   2 KIKILIADDNSFIREGMKIILnTYEEFDVvDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LI 80
Cdd:COG0745    1 MPRILVVEDDPDIRELLADAL-EREGYEV-DTAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDIPiIM 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 446616740  81 LTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:COG0745   79 LTARDDEEDRVRGLEAGADDYLTKPFDPEELLARIR 114
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
1-135 2.04e-19

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 84.82  E-value: 2.04e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   1 MKIKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLI 80
Cdd:PRK00742   2 MKIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLNPDVITLDVEMPVMDGLDALEKIMRLRPTPVVM 81

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 446616740  81 LT--TFDDDEYILDAVKNGAKGYLLKNNdpERIRDAIKGVyngqtvmQDVILDKIKS 135
Cdd:PRK00742  82 VSslTERGAEITLRALELGAVDFVTKPF--LGISLGMDEY-------KEELAEKVRA 129
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 5-116 2.50e-19

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: 79.50  E-value: 2.50e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEEtKTKPLILTTF 84
Cdd:cd17532    1 ALIVDDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSKL-AKPPLIVFVT 79

                         90       100       110
                 ....*....|....*....|....*....|..
gi 446616740  85 DDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:cd17532   80 AYDEYAVEAFELNAVDYLLKPFSEERLAEALA 111
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
5-205 3.74e-19

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 81.85  E-value: 3.74e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICE-ETKTKPLILTT 83
Cdd:PRK09935   6 VIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQiQSTVKVLFLSS 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYNGQTVMQDVILDKIKSNlmesKEEECKIDKSLFTERELSIIALI 163
Cdd:PRK09935  86 KSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSETLNYIKSN----KCSTNSSTDTVLSNREVTILRYL 161

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 446616740 164 AKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIY 205
Cdd:PRK09935 162 VSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDY 203
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 5-116 5.94e-18

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: 76.23  E-value: 5.94e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEE-TKTKPLILTT 83
Cdd:cd19931    1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEgVSARIVILTV 80

                         90       100       110
                 ....*....|....*....|....*....|...
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:cd19931   81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALK 113
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 149-212 2.44e-17

Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell division, chromosome partitioning, Transcription];


Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 73.07  E-value: 2.44e-17
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446616740 149 KSLFTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIYYL-TGKVD 212
Cdd:COG5905   10 PSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALrLGLLS 74
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 3-116 4.80e-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: 73.60  E-value: 4.80e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMP-NMNGVEATKFICEETKTkPLI- 80
Cdd:cd17534    1 KKILIVEDEAIIALDLKEILES-LGYEVVGIADSGEEAIELAEENKPDLILMDINLKgDMDGIEAAREIREKFDI-PVIf 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 446616740  81 LTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:cd17534   79 LTAYSDEETLERAKETNPYGYLVKPFNERELKAAIE 114
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 152-205 9.49e-17

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 71.02  E-value: 9.49e-17
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 446616740   152 FTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIY 205
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
3-83 2.26e-16

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 76.07  E-value: 2.26e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILT 82
Cdd:PRK12555   1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMDGVEATRRIMAERPCPILIVT 80


                 .
gi 446616740  83 T 83
Cdd:PRK12555  81 S 81
PRK10360 PRK10360
transcriptional regulator UhpA;
3-203 3.30e-16

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 73.47  E-value: 3.30e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTkpLILT 82
Cdd:PRK10360   2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPKGMAT--IMLS 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  83 TFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYNGQTVMQDVILDKIKSNLMESkeeeckidkslFTERELSIIAL 162
Cdd:PRK10360  80 VHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLASGRQDP-----------LTKRERQVAEK 148

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 446616740 163 IAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIA 203
Cdd:PRK10360 149 LAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELA 189
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 4-104 2.45e-15

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: 68.68  E-value: 2.45e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILnTYEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTK--PLI- 80
Cdd:cd17538    1 KILVVDDEPANRELLEALL-SAEGYEVL-TADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKEDPETRhiPVIm 78

                         90       100
                 ....*....|....*....|....
gi 446616740  81 LTTFDDDEYILDAVKNGAKGYLLK 104
Cdd:cd17538   79 ITALDDREDRIRGLEAGADDFLSK 102
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 6-104 3.61e-15

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: 68.20  E-value: 3.61e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   6 LIADDNSFIREGMKIILnTYEEFDVvDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LILTTF 84
Cdd:cd17574    1 LVVEDDEEIAELLSDYL-EKEGYEV-DTAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPiIMLTAK 78

                         90       100
                 ....*....|....*....|
gi 446616740  85 DDDEYILDAVKNGAKGYLLK 104
Cdd:cd17574   79 DEEEDKVLGLELGADDYITK 98
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
4-128 4.73e-15

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 72.96  E-value: 4.73e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILnTYEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLIL-T 82
Cdd:PRK11361   6 RILIVDDEDNVRRMLSTAF-ALQGFETH-CANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILmT 83

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 446616740  83 TFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYNGQTVMQDV 128
Cdd:PRK11361  84 AYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQLQSMKKEI 129
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 4-118 9.78e-15

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: 67.71  E-value: 9.78e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNTyEEFDVVDTVnDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKficeETKTKP----- 78
Cdd:cd17562    2 KILAVDDSASIRQMVSFTLRG-AGYEVVEAA-DGRDALSKAQSKKFDLIITDQNMPNMDGIELIK----ELRKLPaykft 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 446616740  79 --LILTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGV 118
Cdd:cd17562   76 piLMLTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKV 117
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 2-104 1.52e-13

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: 64.17  E-value: 1.52e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   2 KIKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGV---EATKFICEETKTKP 78
Cdd:cd17561    1 KIKVLIADDNREFVQLLEEYLNSQPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMPHLDGIgvlEKLRRMRLEKRPKI 80

                         90       100
                 ....*....|....*....|....*.
gi 446616740  79 LILTTFDDDEYILDAVKNGAKGYLLK 104
Cdd:cd17561   81 IMLTAFGQEDITQRAVELGASYYILK 106
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
152-207 1.55e-13

DNA-binding transcriptional regulator, CsgD family [Transcription];


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 66.32  E-value: 1.55e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 446616740 152 FTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIYYL 207
Cdd:COG2771  128 LTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALAL 183
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 4-116 2.17e-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: 64.36  E-value: 2.17e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNS----FIREGMKIILNTYEefdvVDTVNDGEEAVAYCKKHE-------VDIALLDVRMPNMNGVEATKFICE 72
Cdd:cd17557    1 TILLVEDNPgdaeLIQEAFKEAGVPNE----LHVVRDGEEALDFLRGEGeyadaprPDLILLDLNMPRMDGFEVLREIKA 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446616740  73 ETKTKPL---ILTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:cd17557   77 DPDLRRIpvvVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIR 123
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 152-205 2.56e-13

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental nitrate or nitrite is present under anerobic conditions. FixJ is involved in the transcriptional activation of nitrogen fixation genes. The group also includes small proteins which lack an N-terminal signaling domain, such as Bacillus subtilis GerE. GerE is dimeric and acts in conjunction with sigmaK as an activator or a repressor modulating the expression of various genes in particular those encoding the spore-coat. These LuxR family regulators may share a similar organization of their target binding sites. For example the LuxR dimer binds the lux box, a 20bp inverted repeat, GerE dimers bind two 12bp consensus sequences in inverted orientation having the central four bases overlap, and the NarL dimer binds two 7bp inverted repeats separated by 2 bp.


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 62.17  E-value: 2.56e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 446616740 152 FTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIY 205
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAY 54
GerE pfam00196
Bacterial regulatory proteins, luxR family;
150-205 2.58e-13

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 62.22  E-value: 2.58e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 446616740  150 SLFTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQIAIY 205
Cdd:pfam00196   1 DSLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRM 56
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 5-183 2.98e-13

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: 65.51  E-value: 2.98e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTyEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLI-LTT 83
Cdd:COG4566    2 VYIVDDDEAVRDSLAFLLES-AGLRVE-TFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIfLTG 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKgvyngQTVMQDVILDKIKSNLMESKEeecKIDkSLfTERELSIIALI 163
Cdd:COG4566   80 HGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVR-----RALARDRARRAERARRAELRA---RLA-SL-TPREREVLDLV 149

                        170       180
                 ....*....|....*....|
gi 446616740 164 AKGFSNKEISKQLFISEGTI 183
Cdd:COG4566  150 VAGLSNKQIARELGISPRTV 169
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 3-119 5.46e-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: 63.13  E-value: 5.46e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIRegmKIILNTYEE--FDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFI--CEETKTKP 78
Cdd:cd19923    1 MKVLVVDDFSTMR---RIIKNLLKElgFNNVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLELLKTIraDGALSHLP 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 446616740  79 LIL-TTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVY 119
Cdd:cd19923   78 VLMvTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKIF 119
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 4-112 1.36e-12

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: 62.07  E-value: 1.36e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNTYEEFDVVDTvNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEatkFIcEETKTKP----- 78
Cdd:cd17551    2 RILIVDDNPTNLLLLEALLRSAGYLEVVSF-TDPREALAWCRENPPDLILLDYMMPGMDGLE---FI-RRLRALPgledv 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 446616740  79 --LILTTFDDDEYILDAVKNGAKGYLLKNNDPE----RIR 112
Cdd:cd17551   77 piVMITADTDREVRLRALEAGATDFLTKPFDPVellaRVR 116
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 4-116 2.16e-12

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: 61.08  E-value: 2.16e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNtyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILTT 83
Cdd:cd17554    2 KILVVDDEENIRELYKEELE--DEGYEVVTAGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKPDLPVIICT 79

                         90       100       110
                 ....*....|....*....|....*....|...
gi 446616740  84 fDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:cd17554   80 -AYSEYKSDFSSWAADAYVVKSSDLTELKETIK 111
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 3-115 4.45e-12

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: 60.72  E-value: 4.45e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILT 82
Cdd:cd19925    1 INVLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVV 80

                         90       100       110
                 ....*....|....*....|....*....|....
gi 446616740  83 TFDDD-EYILDAVKNGAKGYLLKNNDPERIRDAI 115
Cdd:cd19925   81 TAANDvETVREALRLGVVDYLIKPFTFERLRQRL 114
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 3-59 5.23e-12

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: 58.73  E-value: 5.23e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 446616740     3 IKILIADDNSFIREGMKIILNtyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMP 59
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLE--KEGYEVDEATDGEEALELLKEEKPDLILLDIMMP 55
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 4-116 5.33e-12

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: 60.25  E-value: 5.33e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNTYEeFDVVDTVnDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTK--PLI- 80
Cdd:cd17548    1 KILIVEDNPLNMKLARDLLESAG-YEVLEAA-DGEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKEDPATRdiPVIa 78

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 446616740  81 LTTF---DDDEYILDAvknGAKGYLLKNNDPERIRDAIK 116
Cdd:cd17548   79 LTAYamkGDREKILEA---GCDGYISKPIDTREFLETVA 114
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 5-113 8.16e-12

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: 59.95  E-value: 8.16e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEefDVVDTVNDGEEAVAYC--KKHEVDIALLDVRMPNMNGVEATKFICEEtKTKPLIL- 81
Cdd:cd17584    1 VLVVDDDPTCLAILKRMLLRCG--YQVTTCTDAEEALSMLreNKDEFDLVITDVHMPDMDGFEFLELIRLE-MDLPVIMm 77

                         90       100       110
                 ....*....|....*....|....*....|..
gi 446616740  82 TTFDDDEYILDAVKNGAKGYLLKNNDPERIRD 113
Cdd:cd17584   78 SADGSTSTVMKGLAHGACDYLLKPVSIEDLKN 109
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 4-115 9.11e-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: 61.09  E-value: 9.11e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDN---------SFIREGmkiilntYEefdvVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICE-E 73
Cdd:COG4567    6 SLLLVDDDeafarvlarALERRG-------FE----VTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRErD 74

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 446616740  74 TKTKPLILTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAI 115
Cdd:COG4567   75 PDARIVVLTGYASIATAVEAIKLGADDYLAKPADADDLLAAL 116
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 5-117 2.85e-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: 58.92  E-value: 2.85e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNtyEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEatkFICEETKTKP----LI 80
Cdd:cd17596    3 ILVVDDEVRSLEALRRTLE--EDFDVL-TAASAEEALAILEEEWVQVILCDQRMPGTTGVE---FLKEVRERWPevvrII 76

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 446616740  81 LTTFDDDEYILDAVKN-GAKGYLLKNNDPERIRDAIKG 117
Cdd:cd17596   77 ISGYTDSEDIIAGINEaGIYQYLTKPWHPDQLLLTVRN 114
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 4-104 3.48e-11

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: 57.98  E-value: 3.48e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREgmkiILNTYEE---FDVVDtVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLI 80
Cdd:cd17555    2 TILVIDDDEVVRE----SIAAYLEdsgFQVLQ-AADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTPVI 76

                         90       100
                 ....*....|....*....|....*...
gi 446616740  81 LTT----FDDdeyILDAVKNGAKGYLLK 104
Cdd:cd17555   77 VVSgagvMSD---AVEALRLGAWDYLTK 101
PRK11697 PRK11697
two-component system response regulator BtsR;
3-110 5.00e-11

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 59.86  E-value: 5.00e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILT 82
Cdd:PRK11697   2 IKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRLKPDVVFLDIQMPRISGLELVGMLDPEHMPYIVFVT 81

                         90       100
                 ....*....|....*....|....*...
gi 446616740  83 TFddDEYILDAVKNGAKGYLLKNNDPER 110
Cdd:PRK11697  82 AF--DEYAIKAFEEHAFDYLLKPIDPAR 107
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 3-116 7.59e-11

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: 57.03  E-value: 7.59e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTyEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEET-KTKPLIL 81
Cdd:cd17569    1 PTILLVDDEPNILKALKRLLRR-EGYEVL-TATSGEEALEILKQEPVDVVISDQRMPGMDGAELLKRVRERYpDTVRILL 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 446616740  82 TTFDDDEYILDAVKNGA-KGYLLKNNDPERIRDAIK 116
Cdd:cd17569   79 TGYADLDAAIEAINEGEiYRFLTKPWDDEELKETIR 114
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 5-81 3.56e-10

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: 55.20  E-value: 3.56e-10
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446616740   5 ILIADDNSFIREGMKIILNtyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLIL 81
Cdd:cd17550    1 ILIVDDEEDIRESLSGILE--DEGYEVDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIM 75
orf27 CHL00148
Ycf27; Reviewed
 2-118 6.79e-10

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 57.03  E-value: 6.79e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   2 KIKILIADDNSFIREgmkiILNT------YEefdvVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEatkfICEETK 75
Cdd:CHL00148   6 KEKILVVDDEAYIRK----ILETrlsiigYE----VITASDGEEALKLFRKEQPDLVILDVMMPKLDGYG----VCQEIR 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 446616740  76 TK---PLILTTFDDDeyILDAVKN---GAKGYLLKNNDPERIRDAIKGV 118
Cdd:CHL00148  74 KEsdvPIIMLTALGD--VSDRITGlelGADDYVVKPFSPKELEARIRSV 120
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 5-112 9.25e-10

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: 54.23  E-value: 9.25e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREgmkiILNTY---EEFDVvDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLIL 81
Cdd:cd17623    1 ILLIDDDRELTE----LLTEYlemEGFNV-RAAHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELRKTSQVPVLML 75

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 446616740  82 TTFDDDeyiLDAV---KNGAKGYLLKNNDPE----RIR 112
Cdd:cd17623   76 TARGDD---IDRIlglELGADDYLPKPFNPRelvaRIR 110
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 5-104 9.42e-10

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: 54.31  E-value: 9.42e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILnTYEEFDVvDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LILTT 83
Cdd:cd17627    1 ILVVDDDRAVRESLRRSL-RFEGYEV-ETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPiLVLTA 78

                         90       100
                 ....*....|....*....|....
gi 446616740  84 FD--DDEYI-LDAvknGAKGYLLK 104
Cdd:cd17627   79 RDsvSDRVAgLDA---GADDYLVK 99
pleD PRK09581
response regulator PleD; Reviewed
 1-84 1.84e-09

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 56.45  E-value: 1.84e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   1 MKIKILIADDnsfIREGMKII----LNTYeeFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEatkfICEETKT 76
Cdd:PRK09581   1 MTARILVVDD---IPANVKLLeaklLAEY--YTVL-TASSGAEAIAICEREQPDIILLDVMMPGMDGFE----VCRRLKS 70


                 ....*...
gi 446616740  77 KPliLTTF 84
Cdd:PRK09581  71 DP--ATTH 76
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 4-87 1.93e-09

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: 53.51  E-value: 1.93e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNtYEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILTT 83
Cdd:cd17615    1 RVLVVDDEPNITELLSMALR-YEGWDVE-TAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLFLT 78


                 ....
gi 446616740  84 FDDD 87
Cdd:cd17615   79 AKDS 82
PRK10841 PRK10841
two-component system sensor histidine kinase RcsC;
3-80 2.31e-09

two-component system sensor histidine kinase RcsC;


Pssm-ID: 182772 [Multi-domain]  Cd Length: 924  Bit Score: 56.52  E-value: 2.31e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNT--YEefdvVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLI 80
Cdd:PRK10841 802 MMILVVDDHPINRRLLADQLGSlgYQ----CKTANDGVDALNVLSKNHIDIVLTDVNMPNMDGYRLTQRLRQLGLTLPVI 877
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 5-104 2.60e-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: 52.83  E-value: 2.60e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTyEEFDVvDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILTTF 84
Cdd:cd19936    1 IALVDDDRNILTSVSMALEA-EGFSV-ETYTDGASALDGLNARPPDLAILDIKMPRMDGMELLQRLRQKSTLPVIFLTSK 78

                         90       100
                 ....*....|....*....|
gi 446616740  85 DDDEYILDAVKNGAKGYLLK 104
Cdd:cd19936   79 DDEIDEVFGLRMGADDYITK 98
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 4-112 4.28e-09

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: 52.47  E-value: 4.28e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNTyEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILTT 83
Cdd:cd17626    2 RILVVDDDAALAEMIGIVLRG-EGFDPA-FCGDGTQALAAFREVRPDLVLLDLMLPGIDGIEVCRQIRAESGVPIVMLTA 79

                         90       100       110
                 ....*....|....*....|....*....|...
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPE----RIR 112
Cdd:cd17626   80 KSDTVDVVLGLESGADDYVAKPFKPKelvaRIR 112
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 5-116 4.87e-09

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: 52.59  E-value: 4.87e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIRegmkiILNTY---EEFDVvDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICE-ETKTKPLI 80
Cdd:cd17572    2 LLVEDSPSLAA-----LYQEYlsdEGYKV-THVETGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQErSLPTSVIV 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 446616740  81 LTTFDDDEYILDAVKNGAKGYLLKNNDPER----IRDAIK 116
Cdd:cd17572   76 ITAHGSVDIAVEAMRLGAYDFLEKPFDADRlrvtVRNALK 115
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
161-201 7.20e-09

ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 53.17  E-value: 7.20e-09
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 446616740 161 ALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQ 201
Cdd:COG2909  132 RLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTE 172
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
6-195 7.67e-09

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 53.36  E-value: 7.67e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   6 LIADDNSFIREGMKIILNTyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILTTFD 85
Cdd:PRK09958   4 IIIDDHPLAIAAIRNLLIK-NDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVSAK 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  86 DDE-YILDAVKNGAKGYLLKNNDPERIRDAIKGVYNGQTVMQdVILDKIKSNLMESKEeecKIDKslFTERELSIIALIA 164
Cdd:PRK09958  83 NDHfYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFP-FSLNRFVGSLTSDQQ---KLDS--LSKQEISVMRYIL 156

                        170       180       190
                 ....*....|....*....|....*....|.
gi 446616740 165 KGFSNKEISKQLFISEGTIANYITSVLGKTG 195
Cdd:PRK09958 157 DGKDNNDIAEKMFISNKTVSTYKSRLMEKLE 187
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
2-116 8.15e-09

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 54.65  E-value: 8.15e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   2 KIKILIADDNSFIREGMKIILNTYEeFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LI 80
Cdd:PRK10365   5 NIDILVVDDDISHCTILQALLRGWG-YNVA-LANSGRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAIPvLI 82

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 446616740  81 LTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:PRK10365  83 MTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLE 118
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 5-65 8.98e-09

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: 51.30  E-value: 8.98e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446616740   5 ILIADDNSFIREGMKIILntYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVE 65
Cdd:cd17580    1 ILVVDDNEDAAEMLALLL--ELEGAEVTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYE 59
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 5-116 1.03e-08

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: 51.72  E-value: 1.03e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILnTYEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILTT- 83
Cdd:cd17549    1 VLLVDDDADVREALQQTL-ELAGFRVR-AFADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIRELDPDLPVILITg 78

                         90       100       110
                 ....*....|....*....|....*....|...
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:cd17549   79 HGDVPMAVEAMRAGAYDFLEKPFDPERLLDVVR 111
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 5-104 2.01e-08

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: 50.79  E-value: 2.01e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTyEEFDVVDTVNdGEEAVAYCKKHEVDIALLDVRMPNMNGVEatkfICEETKTKP------ 78
Cdd:cd17598    1 ILIVEDSPTQAEQLKHILEE-QGYKVQVARN-GREALAMLAEHRPTLVISDIVMPEMDGYE----LCRKIKSDPdlkdip 74

                         90       100
                 ....*....|....*....|....*..
gi 446616740  79 -LILTTFDDDEYILDAVKNGAKGYLLK 104
Cdd:cd17598   75 vILLTTLSDPRDVIRGLECGADNFITK 101
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 6-104 2.05e-08

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: 50.68  E-value: 2.05e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   6 LIADDNSFIREGMKIILNtYEEFDVvDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEE-TKTKPLILTTF 84
Cdd:cd17625    1 LVVEDEKDLSEAITKHLK-KEGYTV-DVCFDGEEGLEYALSGIYDLIILDIMLPGMDGLEVLKSLREEgIETPVLLLTAL 78

                         90       100
                 ....*....|....*....|
gi 446616740  85 DDDEYILDAVKNGAKGYLLK 104
Cdd:cd17625   79 DAVEDRVKGLDLGADDYLPK 98
PRK11107 PRK11107
hybrid sensory histidine kinase BarA; Provisional
 3-70 2.87e-08

hybrid sensory histidine kinase BarA; Provisional


Pssm-ID: 236848 [Multi-domain]  Cd Length: 919  Bit Score: 53.31  E-value: 2.87e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446616740   3 IKILIADDNSfirEGMKII---LNtyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFI 70
Cdd:PRK11107 668 LTVMAVDDNP---ANLKLIgalLE--EQVEHVVLCDSGHQAVEQAKQRPFDLILMDIQMPGMDGIRACELI 733
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 2-198 3.63e-08

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 51.76  E-value: 3.63e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   2 KIKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPN---MNGVEATKFICEETKTKP 78
Cdd:PRK10840   3 NMNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMPGdkyGDGITLIKYIKRHFPSLS 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  79 LILTTFDDDEYILDAVKN-GAKGYLLKNNDPERIRDAIKGVYNGQTVMQDVIldkikSNLMESKEEECKIDKSLfTEREL 157
Cdd:PRK10840  83 IIVLTMNNNPAILSAVLDlDIEGIVLKQGAPTDLPKALAALQKGKKFTPESV-----SRLLEKISAGGYGDKRL-SPKES 156

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 446616740 158 SIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEH 198
Cdd:PRK10840 157 EVLRLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVEN 197
PRK10610 PRK10610
chemotaxis protein CheY;
3-104 6.29e-08

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 49.59  E-value: 6.29e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIRegmKIILNTYEE--FDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEE---TKTK 77
Cdd:PRK10610   6 LKFLVVDDFSTMR---RIVRNLLKElgFNNVEEAEDGVDALNKLQAGGFGFVISDWNMPNMDGLELLKTIRADgamSALP 82

                         90       100
                 ....*....|....*....|....*..
gi 446616740  78 PLILTTFDDDEYILDAVKNGAKGYLLK 104
Cdd:PRK10610  83 VLMVTAEAKKENIIAAAQAGASGYVVK 109
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 5-104 8.19e-08

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: 48.70  E-value: 8.19e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNT--YEefdvVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILT 82
Cdd:cd17620    1 ILVIEDEPQIRRFLRTALEAhgYR----VFEAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRLREWSAVPVIVLS 76

                         90       100
                 ....*....|....*....|..
gi 446616740  83 TFDDDEYILDAVKNGAKGYLLK 104
Cdd:cd17620   77 ARDEESDKIAALDAGADDYLTK 98
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 5-104 1.33e-07

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: 47.82  E-value: 1.33e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDN----SFIREGMKiilntyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-L 79
Cdd:cd19935    1 ILVVEDEkklaEYLKKGLT------EEGYAVDVAYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAAGKQTPvL 74

                         90       100
                 ....*....|....*....|....*...
gi 446616740  80 ILTTFDDDEYI---LDAvknGAKGYLLK 104
Cdd:cd19935   75 MLTARDSVEDRvkgLDL---GADDYLVK 99
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 5-104 1.62e-07

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: 47.89  E-value: 1.62e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNT--YEefdvVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTK--PLI 80
Cdd:cd19920    1 ILIVDDVPDNLRLLSELLRAagYR----VLVATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLKADPATRhiPVI 76

                         90       100
                 ....*....|....*....|....*
gi 446616740  81 -LTTFDDDEYILDAVKNGAKGYLLK 104
Cdd:cd19920   77 fLTALTDTEDKVKGFELGAVDYITK 101
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 4-83 2.29e-07

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: 47.93  E-value: 2.29e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNTYEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTK--PLIL 81
Cdd:cd17552    3 RILVIDDEEDIREVVQACLEKLAGWEVL-TASSGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQANPETQsiPVIL 81


                 ..
gi 446616740  82 TT 83
Cdd:cd17552   82 LT 83
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
4-112 2.45e-07

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 49.42  E-value: 2.45e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNTyEEFDVVdTVNDGEEAVAYCKKhEVDIALLDVRMPNMNGVEATKFICEETKTkPLILTT 83
Cdd:PRK10955   3 KILLVDDDRELTSLLKELLEM-EGFNVI-VAHDGEQALDLLDD-SIDLLLLDVMMPKKNGIDTLKELRQTHQT-PVIMLT 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 446616740  84 FDDDEyiLDAV---KNGAKGYLLKN-NDPE---RIR 112
Cdd:PRK10955  79 ARGSE--LDRVlglELGADDYLPKPfNDRElvaRIR 112
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 5-112 2.86e-07

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: 47.48  E-value: 2.86e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNtyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LILTT 83
Cdd:cd17624    1 ILLVEDDALLGDGLKTGLR--KAGYAVDWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQSLPvLILTA 78

                         90       100       110
                 ....*....|....*....|....*....|...
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPE----RIR 112
Cdd:cd17624   79 RDGVDDRVAGLDAGADDYLVKPFALEellaRLR 111
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 4-104 3.00e-07

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: 47.44  E-value: 3.00e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDN---------SFIREGmkiilntYEefdvVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEET 74
Cdd:cd17563    2 SLLLVDDDevfaerlarALERRG-------FE----VETAHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQ 70

                         90       100       110
                 ....*....|....*....|....*....|....
gi 446616740  75 -KTKPLILTTFDDdeyI---LDAVKNGAKGYLLK 104
Cdd:cd17563   71 pDARIVVLTGYAS---IataVEAIKLGADDYLAK 101
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 5-104 3.27e-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: 47.28  E-value: 3.27e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNtyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LILTT 83
Cdd:cd19934    1 LLLVEDDALLAAQLKEQLS--DAGYVVDVAEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPvLILTA 78

                         90       100
                 ....*....|....*....|.
gi 446616740  84 FDDDEYILDAVKNGAKGYLLK 104
Cdd:cd19934   79 RDSWQDKVEGLDAGADDYLTK 99
fixJ PRK09390
response regulator FixJ; Provisional
 55-193 3.74e-07

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 48.85  E-value: 3.74e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  55 DVRMPNMNGVEATKFICEETKTKP-LILTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYN-------GQTVMQ 126
Cdd:PRK09390  54 DVRMPGIDGIELLRRLKARGSPLPvIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAqapeaakSEAVAA 133

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446616740 127 DvILDKIKSnlmeskeeeckidkslFTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGK 193
Cdd:PRK09390 134 D-IRARIAS----------------LSERERQVMDGLVAGLSNKVIARDLDISPRTVEVYRANVMTK 183
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 4-116 4.25e-07

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: 47.16  E-value: 4.25e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNT--YEEFDVVDtvndGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICE-ETKTKPLI 80
Cdd:cd17553    2 KILIVDDQYGIRILLNEVFNKegYQTFQAAN----GLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKViDENIRVII 77

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 446616740  81 LTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:cd17553   78 MTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVK 113
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 4-112 4.44e-07

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: 46.99  E-value: 4.44e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNTYEeFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEatkfICEETKTK---P-L 79
Cdd:cd17622    2 RILLVEDDPKLARLIADFLESHG-FNVV-VEHRGDRALEVIAREKPDAVLLDIMLPGIDGLT----LCRDLRPKyqgPiL 75

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 446616740  80 ILTTFDDDEYILDAVKNGAKGYLLKNNDPE----RIR 112
Cdd:cd17622   76 LLTALDSDIDHILGLELGADDYVVKPVEPAvllaRLR 112
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 3-104 6.14e-07

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: 46.74  E-value: 6.14e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTYEeFDVVDtVNDGEEAVAYCKKH-EVDIALLDVRMPNMNGVEATKFICEETKTKPL-I 80
Cdd:cd17544    1 IKVLVVDDSATSRNHLRALLRRHN-FQVLE-AANGQEALEVLEQHpDIKLVITDYNMPEMDGFELVREIRKKYSRDQLaI 78

                         90       100
                 ....*....|....*....|....*.
gi 446616740  81 LTTFDDDEYILDA--VKNGAKGYLLK 104
Cdd:cd17544   79 IGISASGDNALSArfIKAGANDFLTK 104
PRK10100 PRK10100
transcriptional regulator CsgD;
77-201 9.95e-07

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 47.56  E-value: 9.95e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  77 KPLILTTFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVYNGQTVMQDVILDKIKSNLMESKEEECkiDKSLFTERE 156
Cdd:PRK10100  83 KILLLNTPEDYPYREIENWPHINGVFYAMEDQERVVNGLQGVLRGECYFTQKLASYLITHSGNYRYNST--ESALLTHRE 160

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 446616740 157 LSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHRTQ 201
Cdd:PRK10100 161 KEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQ 205
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 5-104 1.96e-06

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: 45.09  E-value: 1.96e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTyEEFdVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATK-FICEETKTKPLILTT 83
Cdd:cd17616    1 VLLIEDDSATAQSIELMLKS-EGF-NVYTTDLGEEGLDLGKLYDYDIILLDLNLPDMSGYEVLRtLRLAKVKTPILILSG 78

                         90       100
                 ....*....|....*....|.
gi 446616740  84 FDDDEYILDAVKNGAKGYLLK 104
Cdd:cd17616   79 LADIEDKVKGLGFGADDYMTK 99
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 5-104 4.96e-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: 43.95  E-value: 4.96e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTyEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICeETKTKPLILTTF 84
Cdd:cd17614    1 ILVVDDEKPISDILKFNLTK-EGYEVV-TAYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCREVR-KTSNVPIIMLTA 77

                         90       100
                 ....*....|....*....|...
gi 446616740  85 DDDEyiLDAV---KNGAKGYLLK 104
Cdd:cd17614   78 KDSE--VDKVlglELGADDYVTK 98
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 3-65 5.68e-06

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: 44.06  E-value: 5.68e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446616740   3 IKILIADDNSFIREGMKIILNTYEEFDVVDTVNdGEEAVAYCKKHEVDIALLDVRMPNMNGVE 65
Cdd:cd17593    1 MKVLICDDSSMARKQLARALPADWDVEITFAEN-GEEALEILREGRIDVLFLDLTMPVMDGYE 62
PRK15347 PRK15347
two component system sensor kinase;
2-68 9.43e-06

two component system sensor kinase;


Pssm-ID: 237951 [Multi-domain]  Cd Length: 921  Bit Score: 45.79  E-value: 9.43e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446616740   2 KIKILIADDNSFIREGMKIILNtyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATK 68
Cdd:PRK15347 690 QLQILLVDDVETNRDIIGMMLV--ELGQQVTTAASGTEALELGRQHRFDLVLMDIRMPGLDGLETTQ 754
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 4-116 9.79e-06

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: 43.42  E-value: 9.79e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIR---------EGMkiilnTYEEFDvvdtvnDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEET 74
Cdd:cd19919    2 TVWIVDDDSSIRwvleralagAGL-----TVTSFE------NAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQRH 70

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 446616740  75 KTKP-LILTTFDDDEYILDAVKNGAKGYLLKnndPERIRDAIK 116
Cdd:cd19919   71 PDLPvIIMTAHSDLDSAVSAYQGGAFEYLPK---PFDIDEAVA 110
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 4-81 1.34e-05

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: 43.20  E-value: 1.34e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446616740   4 KILIADDNSFIREGMKIILNTYEEfDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLIL 81
Cdd:cd17530    2 RVLVLDDDPFQCMMAATILEDLGP-GNVDEADDGREALVILLCNAPDIIICDLKMPDMDGIEFLRHLAESHSNAAVIL 78
PRK11517 PRK11517
DNA-binding response regulator HprR;
3-104 2.04e-05

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 43.73  E-value: 2.04e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNtyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILT 82
Cdd:PRK11517   1 MKILLIEDNQRTQEWVTQGLS--EAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLT 78

                         90       100
                 ....*....|....*....|..
gi 446616740  83 TFDDDEYILDAVKNGAKGYLLK 104
Cdd:PRK11517  79 ARDSVDDRVRGLDSGANDYLVK 100
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 5-104 2.07e-05

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: 42.37  E-value: 2.07e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILnTYEEFDVVDTvNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILTTF 84
Cdd:cd17619    3 ILIVEDEPVTRATLKSYF-EQEGYDVSEA-GDGEEMRQILARQDIDLVLLDINLPGKDGLSLTRELREQSEVGIILVTGR 80

                         90       100
                 ....*....|....*....|
gi 446616740  85 DDDEYILDAVKNGAKGYLLK 104
Cdd:cd17619   81 DDEVDRIVGLEIGADDYVTK 100
PRK09959 PRK09959
acid-sensing system histidine kinase EvgS;
2-79 2.30e-05

acid-sensing system histidine kinase EvgS;


Pssm-ID: 182169 [Multi-domain]  Cd Length: 1197  Bit Score: 44.73  E-value: 2.30e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446616740    2 KIKILIADDNSFIREGMKIILNTYEeFDVvDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPL 79
Cdd:PRK09959  958 KLSILIADDHPTNRLLLKRQLNLLG-YDV-DEATDGVQALHKVSMQHYDLLITDVNMPNMDGFELTRKLREQNSSLPI 1033
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 4-104 4.70e-05

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: 41.47  E-value: 4.70e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILnTYEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTK--PLIL 81
Cdd:cd17618    2 TILIVEDEPAIREMIAFNL-ERAGFDVV-EAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLKRDEMTRdiPIIM 79

                         90       100
                 ....*....|....*....|....*..
gi 446616740  82 TTFDDDEYI----LDAvknGAKGYLLK 104
Cdd:cd17618   80 LTARGEEEDkvrgLEA---GADDYITK 103
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 6-88 9.28e-05

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: 40.33  E-value: 9.28e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   6 LIADDNSFIREGMKIILNTyEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFI--CEETKTKPLILTT 83
Cdd:cd19937    1 LVVDDEEDIVELLKYNLEK-EGYEVV-TAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILrsDPKTSSIPIIMLT 78


                 ....*
gi 446616740  84 FDDDE 88
Cdd:cd19937   79 AKGEE 83
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 31-108 9.37e-05

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: 40.43  E-value: 9.37e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446616740  31 VDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLILTTFDDDEYILDAVKNGAKGYLLKNNDP 108
Cdd:cd19939   26 VSVFTDGQRAVRRIIDEQPSLVVLDIMLPGMDGLTVCREVREHSHVPILMLTARTEEMDRVLGLEMGADDYLCKPFSP 103
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 5-83 9.75e-05

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: 40.05  E-value: 9.75e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILnTYEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETK--TKPLILT 82
Cdd:cd19927    1 ILLVDDDPGIRLAVKDYL-EDQGFTVI-AASNGLEALDLLNQYIPDLIISDIIMPGVDGYSLLGKLRKNADfdTIPVIFL 78


                 .
gi 446616740  83 T 83
Cdd:cd19927   79 T 79
PRK10643 PRK10643
two-component system response regulator PmrA;
3-104 1.47e-04

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 41.17  E-value: 1.47e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTyeEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LIL 81
Cdd:PRK10643   1 MKILIVEDDTLLLQGLILALQT--EGYACDCASTAREAEALLESGHYSLVVLDLGLPDEDGLHLLRRWRQKKYTLPvLIL 78

                         90       100
                 ....*....|....*....|....*.
gi 446616740  82 T---TFDDDEYILDAvknGAKGYLLK 104
Cdd:PRK10643  79 TardTLEDRVAGLDV---GADDYLVK 101
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 5-104 1.71e-04

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: 39.49  E-value: 1.71e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTyEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEatkfICEETKTK---PLIL 81
Cdd:cd17621    1 VLVVEDEESFSDPLAYLLRK-EGFEVT-VATDGPAALAEFDRAGADIVLLDLMLPGLSGTE----VCRQLRARsnvPVIM 74

                         90       100
                 ....*....|....*....|....*.
gi 446616740  82 TTFDDDEyiLDAV---KNGAKGYLLK 104
Cdd:cd17621   75 VTAKDSE--IDKVvglELGADDYVTK 98
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 9-104 1.80e-04

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: 39.27  E-value: 1.80e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   9 DDNSFIREGMKIILNTyEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFI--CEETKTKPLILTTFDD 86
Cdd:cd17602    5 DDRPSIQKMIEYFLEK-QGFRVV-VIDDPLRALTTLLNSKPDLILIDIDMPDLDGYELCSLLrkSSALKDTPIIMLTGKD 82

                         90       100
                 ....*....|....*....|.
gi 446616740  87 DeyILDAVKN---GAKGYLLK 104
Cdd:cd17602   83 G--LVDRIRAkmaGASGYLTK 101
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 4-104 1.98e-04

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: 39.35  E-value: 1.98e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILNTYEEFDVVDTvnDGEEAVAYCKKHEVDIALLDVRMPNMNGVEatkfICEETKTK---PLI 80
Cdd:cd17594    1 HVLVVDDDAAMRHLLILYLRERGFDVTAAA--DGAEEARLMLHRRVDLVLLDLRLGQESGLD----LLRTIRARsdvPII 74

                         90       100
                 ....*....|....*....|....*.
gi 446616740  81 LTTFDDDEYILDAV--KNGAKGYLLK 104
Cdd:cd17594   75 IISGDRRDEIDRVVglELGADDYLAK 100
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 5-116 3.17e-04

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: 39.11  E-value: 3.17e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEeFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLI-LTT 83
Cdd:cd17537    3 VYVVDDDEAVRDSLAFLLRSVG-LAVK-TFTSASAFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGSNIPIIfITG 80

                         90       100       110
                 ....*....|....*....|....*....|...
gi 446616740  84 FDDDEYILDAVKNGAKGYLLKNNDPERIRDAIK 116
Cdd:cd17537   81 HGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIE 113
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 5-104 4.67e-04

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: 38.51  E-value: 4.67e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIRegmKIILNTYEEFDV-VDTVNDGEEAVAYCKK---------HEVDIALLDVRMPNMNGVEATKFICEET 74
Cdd:cd19924    1 ILVVDDSPTAR---KQLRDLLKNLGFeIAEAVDGEEALNKLENlakegndlsKELDLIITDIEMPKMDGYELTFELRDDP 77

                         90       100       110
                 ....*....|....*....|....*....|...
gi 446616740  75 KTK--PLILTTFDDDEYILDAVKN-GAKGYLLK 104
Cdd:cd19924   78 RLAniPVILNSSLSGEFSRARGKKvGADAYLAK 110
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 5-104 4.84e-04

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: 38.29  E-value: 4.84e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIREGMKIILNTYEeFDVVDTVNDgEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPL-ILTT 83
Cdd:cd19926    1 VLVVDDEPDIRELLEITLGRMG-LDVRSARNV-KEARELLASEPYDLCLTDMRLPDGSGLELVQHIQQRLPQTPVaVITA 78

                         90       100
                 ....*....|....*....|.
gi 446616740  84 FDDDEYILDAVKNGAKGYLLK 104
Cdd:cd19926   79 YGSLDTAIEALKAGAFDFLTK 99
PRK10336 PRK10336
two-component system response regulator QseB;
3-104 6.02e-04

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 39.49  E-value: 6.02e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTYEeFDVvDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LIL 81
Cdd:PRK10336   1 MRILLIEDDMLIGDGIKTGLSKMG-FSV-DWFTQGRQGKEALYSAPYDAVILDLTLPGMDGRDILREWREKGQREPvLIL 78

                         90       100
                 ....*....|....*....|...
gi 446616740  82 TTFDDDEYILDAVKNGAKGYLLK 104
Cdd:PRK10336  79 TARDALAERVEGLRLGADDYLCK 101
PRK10693 PRK10693
two-component system response regulator RssB;
36-115 6.78e-04

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 39.59  E-value: 6.78e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  36 DGEEAVAYCKKHEVDIALLDVRMPNMNGVEatkFIC----EETKTKPLILTTFDDDEYILDAVKNGAKGYLLKN-NDPER 110
Cdd:PRK10693   5 NGVDALELLGGFTPDLIICDLAMPRMNGIE---FVEhlrnRGDQTPVLVISATENMADIAKALRLGVQDVLLKPvKDLNR 81


                 ....*
gi 446616740 111 IRDAI 115
Cdd:PRK10693  82 LREMV 86
PRK10816 PRK10816
two-component system response regulator PhoP;
3-104 7.16e-04

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 39.34  E-value: 7.16e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNtyEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LIL 81
Cdd:PRK10816   1 MRVLVVEDNALLRHHLKVQLQ--DAGHQVDAAEDAKEADYYLNEHLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPiLVL 78

                         90       100
                 ....*....|....*....|...
gi 446616740  82 TTFDDDEYILDAVKNGAKGYLLK 104
Cdd:PRK10816  79 TARESWQDKVEVLSAGADDYVTK 101
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 4-115 7.35e-04

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 39.85  E-value: 7.35e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIR---------EGMKIIlntyeefdvvdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEET 74
Cdd:PRK10923   5 IVWVVDDDSSIRwvleralagAGLTCT-----------TFENGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRH 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 446616740  75 KTKP-LILTTFDDDEYILDAVKNGAKGYLLKnndPERIRDAI 115
Cdd:PRK10923  74 PMLPvIIMTAHSDLDAAVSAYQQGAFDYLPK---PFDIDEAV 112
REC_TrxB cd17595
phosphoacceptor receiver (REC) domain a fused response regulator with a thioredoxin reductase ...
 26-108 8.52e-04

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: 38.09  E-value: 8.52e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  26 EEFDVV--DTVNDGEEAVAYCKKHEVDIALL--DVRMPNMNGVEatkFIcEETKT-----KPLILTTFDDDEYILDAVkN 96
Cdd:cd17595   26 KDYRVLraDSGAEALDALKELKLRGEAVALFlvDQRMPEMDGVE---FL-EKAMElfpeaKRVLLTAYADTDAAIRAI-N 100

                         90
                 ....*....|....
gi 446616740  97 GAK--GYLLKNNDP 108
Cdd:cd17595  101 DVQldYYLLKPWDP 114
PRK14084 PRK14084
DNA-binding response regulator;
3-162 1.29e-03

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 38.58  E-value: 1.29e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFIcEETKTKPLILT 82
Cdd:PRK14084   1 MKALIVDDEPLARNELTYLLNEIGGFEEINEAENVKETLEALLINQYDIIFLDINLMDESGIELAAKI-QKMKEPPAIIF 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740  83 TFDDDEYILDAVKNGAKGYLLKNNDPERIRDAIKGVynGQTVMQDVILDKIKSNLMESKEEEC---KIDKSLFTERELSI 159
Cdd:PRK14084  80 ATAHDQFAVKAFELNATDYILKPFEQKRIEQAVNKV--RATKAKDDNNASAIANDMSANFDQSlpiEIDDKIHMLNQQDI 157


                 ...
gi 446616740 160 IAL 162
Cdd:PRK14084 158 IAI 160
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
147-199 2.92e-03

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 38.00  E-value: 2.92e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 446616740 147 IDKSLFTERELSIIALIAKGFSNKEISKQLFISEGTIANYITSVLGKTGLEHR 199
Cdd:PRK04841 834 IRTSPLTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHR 886
PRK15115 PRK15115
response regulator GlrR; Provisional
 5-115 3.02e-03

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 37.89  E-value: 3.02e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   5 ILIADDNSFIRE-GMKIilnTYEEFDVVdTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEatkFICEETKTKP----L 79
Cdd:PRK15115   9 LLVDDDPGLLKLlGMRL---TSEGYSVV-TAESGQEALRVLNREKVDLVISDLRMDEMDGMQ---LFAEIQKVQPgmpvI 81

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 446616740  80 ILTTFDDdeyILDAV---KNGAKGYLLKNNDPERIRDAI 115
Cdd:PRK15115  82 ILTAHGS---IPDAVaatQQGVFSFLTKPVDRDALYKAI 117
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 3-104 3.61e-03

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 37.21  E-value: 3.61e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   3 IKILIADDNsfIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKP-LIL 81
Cdd:PRK09836   1 MKLLIVEDE--KKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTGDYDLIILDIMLPDVNGWDIVRMLRSANKGMPiLLL 78

                         90       100
                 ....*....|....*....|...
gi 446616740  82 TTFDDDEYILDAVKNGAKGYLLK 104
Cdd:PRK09836  79 TALGTIEHRVKGLELGADDYLVK 101
REC_TPR cd17589
phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR) ...
 5-55 4.44e-03

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: 35.70  E-value: 4.44e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 446616740   5 ILIADDNSFIREGMKIILNTYEeFDVVDTVNDGEEAVAYCKKHEVDIALLD 55
Cdd:cd17589    1 FLIVDDQPTFRSMLKSMLRSLG-VTRIDTASSGEEALRMCENKTYDIVLCD 50
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 4-104 6.76e-03

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: 35.17  E-value: 6.76e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   4 KILIADDNSFIREGMKIILnTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKficEETKTKP----L 79
Cdd:cd18160    1 TILLADDEPSVRKFIVTTL-KKAGYAVTEAESGAEALEKLQQGKDIDIVVTDIVMPEMDGIELAR---EARKIDPdvkiL 76

                         90       100
                 ....*....|....*....|....*
gi 446616740  80 ILTTFDDDEYILDAVKNGAKGYLLK 104
Cdd:cd18160   77 FISGGAAAAPELLSDAVGDNATLKK 101
psREC_PRR cd17582
pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response ...
 31-104 7.30e-03

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: 35.07  E-value: 7.30e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446616740  31 VDTVNDGEEAVAY--CKKHEVDIALLDVRMPNMNGVEATKFICEETKTK--PLILTTFDDD-EYILDAVKNGAKGYLLK 104
Cdd:cd17582   25 VTAASDGLQAWDVleDEQNEIDLILTEVDLPVSSGFKLLSYIMRHKICKniPVIMMSSQDSvGVVFKCLSKGAADYLVK 103
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 1-104 7.75e-03

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 36.09  E-value: 7.75e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446616740   1 MKIKILIADDNSFIREGMKIILNTyEEFdVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVEATKFICEETKTKPLI 80
Cdd:PRK11083   2 QQPTILLVEDEQAIADTLVYALQS-EGF-TVEWFERGLPALDKLRQQPPDLVILDVGLPDISGFELCRQLLAFHPALPVI 79

                         90       100
                 ....*....|....*....|....*..
gi 446616740  81 LTTFDDDEyiLDAV---KNGAKGYLLK 104
Cdd:PRK11083  80 FLTARSDE--VDRLvglEIGADDYVAK 104
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 5-65 8.23e-03

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: 34.56  E-value: 8.23e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446616740   5 ILIADDNSFIREGMKIILNTYEEFDVVDTVNDGEEAVAYCKKHEVDIALLDVRMPNMNGVE 65
Cdd:cd17565    1 FYIVDDDKNIIKILSDIIEDDDLGEVVGEADNGAQAYDEILFLQPDIVLIDLLMPGMDGIQ 61
 
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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