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Conserved domains on  [gi|495165828|ref|WP_007890626|]
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response regulator transcription factor [Pantoea sp. GM01]

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
PRK09935 super family cl32434
fimbriae biosynthesis transcriptional regulator FimZ;
2-194 9.54e-28

fimbriae biosynthesis transcriptional regulator FimZ;


The actual alignment was detected with superfamily member PRK09935:

Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 103.80  E-value: 9.54e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   2 ASLLLIDDHPLVAVALEA---ASAHAPIPLKihaAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPV 78
Cdd:PRK09935   4 ASVIIMDTHPIIRMSIEVllqKNSELQIVLK---TDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  79 LIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFP------------PLPERIELPLTEKEQQIVAL 146
Cdd:PRK09935  81 LFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPsetlnyiksnkcSTNSSTDTVLSNREVTILRY 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 495165828 147 LVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIELAELWKAQQ 194
Cdd:PRK09935 161 LVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAKLHE 208
 
Name Accession Description Interval E-value
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
2-194 9.54e-28

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 103.80  E-value: 9.54e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   2 ASLLLIDDHPLVAVALEA---ASAHAPIPLKihaAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPV 78
Cdd:PRK09935   4 ASVIIMDTHPIIRMSIEVllqKNSELQIVLK---TDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  79 LIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFP------------PLPERIELPLTEKEQQIVAL 146
Cdd:PRK09935  81 LFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPsetlnyiksnkcSTNSSTDTVLSNREVTILRY 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 495165828 147 LVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIELAELWKAQQ 194
Cdd:PRK09935 161 LVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAKLHE 208
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-187 1.54e-24

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: 93.03  E-value: 1.54e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLEllrrlrlrnqqcpvli 80
Cdd:COG2197    1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLE---------------- 64

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  81 ysaqqsrhtllsavslgaagyvvksqsmaqLLSAILavlggqqafpplperielplTEKEQQIVALLVKGLSNLQIGEQL 160
Cdd:COG2197   65 ------------------------------ALRRLL--------------------TPREREVLRLLAEGLSNKEIAERL 94

                        170       180
                 ....*....|....*....|....*..
gi 495165828 161 HISNKTVSTHKKNILEKTGVQSVIELA 187
Cdd:COG2197   95 GISERTVKTHVSNILRKLGVRNRTELV 121
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 5-120 4.41e-20

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: 81.02  E-value: 4.41e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHPLVAVALEAASAHAPiPLKIHA-AGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:cd17535    2 LIVDDHPLVREGLRRLLESEP-DIEVVGeAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLG 120
Cdd:cd17535   81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 135-187 5.39e-18

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 74.10  E-value: 5.39e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 495165828   135 PLTEKEQQIVALLVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIELA 187
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAV 55
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 5-115 3.25e-17

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: 73.34  E-value: 3.25e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828    5 LLIDDHPLVAVALEAASAHAPIplKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQ 84
Cdd:pfam00072   2 LIVDDDPLIRELLRQLLEKEGY--VVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAH 79

                          90       100       110
                  ....*....|....*....|....*....|.
gi 495165828   85 QSRHTLLSAVSLGAAGYVVKSQSMAQLLSAI 115
Cdd:pfam00072  80 GDEDDAVEALEAGADDFLSKPFDPDELLAAI 110
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 136-177 8.77e-04

RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 38.31  E-value: 8.77e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 495165828  136 LTEKEQQIVAL-LVKGLSNLQIGEQLHISNKTVSTHKKNILEK 177
Cdd:TIGR02985 114 LPEQCREIFILsRFEGLSNKEIAEELGISVKTVEYHITKALKF 156
 
Name Accession Description Interval E-value
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
2-194 9.54e-28

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 103.80  E-value: 9.54e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   2 ASLLLIDDHPLVAVALEA---ASAHAPIPLKihaAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPV 78
Cdd:PRK09935   4 ASVIIMDTHPIIRMSIEVllqKNSELQIVLK---TDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  79 LIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFP------------PLPERIELPLTEKEQQIVAL 146
Cdd:PRK09935  81 LFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPsetlnyiksnkcSTNSSTDTVLSNREVTILRY 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 495165828 147 LVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIELAELWKAQQ 194
Cdd:PRK09935 161 LVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAKLHE 208
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
5-186 6.90e-25

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 96.12  E-value: 6.90e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHPLVAVALEAASAHAPIPLkIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQ 84
Cdd:PRK09958   4 IIIDDHPLAIAAIRNLLIKNDIEI-LAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVSAK 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  85 QSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPPLPERIELPLTEKEQQIVAL----------LVKGLSNL 154
Cdd:PRK09958  83 NDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFPFSLNRFVGSLTSDQQKLDSLskqeisvmryILDGKDNN 162

                        170       180       190
                 ....*....|....*....|....*....|..
gi 495165828 155 QIGEQLHISNKTVSTHKKNILEKTGVQSVIEL 186
Cdd:PRK09958 163 DIAEKMFISNKTVSTYKSRLMEKLECKSLMDL 194
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-187 1.54e-24

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: 93.03  E-value: 1.54e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLEllrrlrlrnqqcpvli 80
Cdd:COG2197    1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLE---------------- 64

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  81 ysaqqsrhtllsavslgaagyvvksqsmaqLLSAILavlggqqafpplperielplTEKEQQIVALLVKGLSNLQIGEQL 160
Cdd:COG2197   65 ------------------------------ALRRLL--------------------TPREREVLRLLAEGLSNKEIAERL 94

                        170       180
                 ....*....|....*....|....*..
gi 495165828 161 HISNKTVSTHKKNILEKTGVQSVIELA 187
Cdd:COG2197   95 GISERTVKTHVSNILRKLGVRNRTELV 121
PRK15369 PRK15369
two component system response regulator;
3-186 2.14e-22

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 89.75  E-value: 2.14e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   3 SLLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYS 82
Cdd:PRK15369   5 KILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNILVLT 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  83 AQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPPLPERIELP------------LTEKEQQIVALLVKG 150
Cdd:PRK15369  85 ARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILallnaddtnpplLTPRERQILKLITEG 164

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 495165828 151 LSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIEL 186
Cdd:PRK15369 165 YTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAEL 200
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 6-190 5.37e-22

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


Pssm-ID: 443623 [Multi-domain]  Cd Length: 196  Bit Score: 88.23  E-value: 5.37e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   6 LIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARqlLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQ 85
Cdd:COG4566    4 IVDDDEAVRDSLAFLLESAGLRVETFASAEAFLAA--LDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLTGHG 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  86 SRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLG-GQQAFPPLPERIEL-----PLTEKEQQIVALLVKGLSNLQIGEQ 159
Cdd:COG4566   82 DVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALArDRARRAERARRAELrarlaSLTPREREVLDLVVAGLSNKQIARE 161

                        170       180       190
                 ....*....|....*....|....*....|.
gi 495165828 160 LHISNKTVSTHKKNILEKTGVQSVIELAELW 190
Cdd:COG4566  162 LGISPRTVEVHRANVMEKLGARSLAELVRLA 192
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 2-194 4.47e-21

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 86.24  E-value: 4.47e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   2 ASLLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIY 81
Cdd:PRK10651   7 ATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVF 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  82 SAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPPL---------------PERIELPLTEKEQQIVAL 146
Cdd:PRK10651  87 SVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEAltpvlaaslranratTERDVNQLTPRERDILKL 166

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 495165828 147 LVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIElAELWKAQQ 194
Cdd:PRK10651 167 IAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVE-AAVWVHQE 213
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 5-120 4.41e-20

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: 81.02  E-value: 4.41e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHPLVAVALEAASAHAPiPLKIHA-AGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:cd17535    2 LIVDDHPLVREGLRRLLESEP-DIEVVGeAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLG 120
Cdd:cd17535   81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-177 2.35e-19

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: 81.54  E-value: 2.35e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDDHP----LVAVALEAASAHapiplkIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQC 76
Cdd:COG0745    1 MPRILVVEDDPdireLLADALEREGYE------VDTAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDI 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  77 PVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPPLPERI-------------ELPLTEKEQQI 143
Cdd:COG0745   75 PIIMLTARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRAAEVLRVGDLldlaarevtrdgePVELTPKEFRL 154

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 495165828 144 VALLV----KGLSNLQIGEQL----HISNKTVSTHKKNILEK 177
Cdd:COG0745  155 LELLMrnpgRVVSREQLLEEVwgydYGDDRTVDVHISRLRKK 196
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-125 4.80e-19

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 78.86  E-value: 4.80e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLI 80
Cdd:COG4565    3 MIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGPDVDVIV 82

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 495165828  81 YSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAF 125
Cdd:COG4565   83 ITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLL 127
PRK10360 PRK10360
transcriptional regulator UhpA;
1-187 6.50e-19

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 80.41  E-value: 6.50e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLrrlrlrnQQCP--- 77
Cdd:PRK10360   1 MITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELL-------SQLPkgm 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  78 -VLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPP-----LPERIELPLTEKEQQIVALLVKGL 151
Cdd:PRK10360  74 aTIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPdiaikLASGRQDPLTKRERQVAEKLAQGM 153

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 495165828 152 SNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIELA 187
Cdd:PRK10360 154 AVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELA 189
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-124 3.55e-18

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: 81.16  E-value: 3.55e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDDHPLVAVALEAASAHAPIplKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLI 80
Cdd:COG2204    2 MARILVVDDDPDIRRLLKELLERAGY--EVETAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDPDLPVIL 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 495165828  81 YSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQA 124
Cdd:COG2204   80 LTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRRL 123
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 135-187 5.39e-18

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 74.10  E-value: 5.39e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 495165828   135 PLTEKEQQIVALLVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIELA 187
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAV 55
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
4-182 2.18e-17

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 76.43  E-value: 2.18e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:PRK10403   9 VLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTAQIIILTV 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPP-----LPERI-----ELP---LTEKEQQIVALLVKG 150
Cdd:PRK10403  89 SDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSErvnqyLREREmfgaeEDPfsvLTERELDVLHELAQG 168

                        170       180       190
                 ....*....|....*....|....*....|..
gi 495165828 151 LSNLQIGEQLHISNKTVSTHKKNILEKTGVQS 182
Cdd:PRK10403 169 LSNKQIASVLNISEQTVKVHIRNLLRKLNVRS 200
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 5-115 3.25e-17

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: 73.34  E-value: 3.25e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828    5 LLIDDHPLVAVALEAASAHAPIplKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQ 84
Cdd:pfam00072   2 LIVDDDPLIRELLRQLLEKEGY--VVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAH 79

                          90       100       110
                  ....*....|....*....|....*....|.
gi 495165828   85 QSRHTLLSAVSLGAAGYVVKSQSMAQLLSAI 115
Cdd:pfam00072  80 GDEDDAVEALEAGADDFLSKPFDPDELLAAI 110
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 5-104 2.56e-16

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: 70.72  E-value: 2.56e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHPLVAVALEaaSAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQ 84
Cdd:cd00156    1 LIVDDDPAIRELLK--SLLEREGYEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAK 78

                         90       100
                 ....*....|....*....|
gi 495165828  85 QSRHTLLSAVSLGAAGYVVK 104
Cdd:cd00156   79 ADEEDAVRALELGADDYLVK 98
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 136-187 5.75e-16

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: 68.72  E-value: 5.75e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 495165828 136 LTEKEQQIVALLVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIELA 187
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLV 52
PRK09483 PRK09483
response regulator; Provisional
 1-189 1.39e-15

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 71.68  E-value: 1.39e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDDHPLVAVA----LEAASAhapipLKIHA-AGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQ 75
Cdd:PRK09483   1 MINVLLVDDHELVRAGirriLEDIKG-----IKVVGeACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPD 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  76 CPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPP----------LPERIELP---LTEKEQQ 142
Cdd:PRK09483  76 VKIIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASdiaqqmalsqIEPATENPfasLSERELQ 155

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 495165828 143 IVALLVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIELAEL 189
Cdd:PRK09483 156 IMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTHL 202
GerE pfam00196
Bacterial regulatory proteins, luxR family;
135-187 3.62e-15

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 66.45  E-value: 3.62e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 495165828  135 PLTEKEQQIVALLVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIELA 187
Cdd:pfam00196   2 SLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELV 54
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 5-124 3.08e-14

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: 66.03  E-value: 3.08e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHPLVAVALEAAsahapipLK-----IHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRR--LRLRNQQCP 77
Cdd:COG0784    9 LVVDDNPDNRELLRRL-------LErlgyeVTTAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRirALPRLPDIP 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 495165828  78 VLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQA 124
Cdd:COG0784   82 IIALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLARASA 128
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 135-189 5.20e-14

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: 64.21  E-value: 5.20e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 495165828 135 PLTEKEQQIVALLVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGV----QSVIELAEL 189
Cdd:COG5905   12 LLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVrnrvQAVVWALRL 70
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 1-121 2.49e-13

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: 64.93  E-value: 2.49e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDDHPLVAVALEAASAHAPIplKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRR--LRLRNQQCPV 78
Cdd:COG3706    1 PARILVVDDDPTNRKLLRRLLEAAGY--EVVEAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRlrADPRTADIPI 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 495165828  79 LIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAI--LAVLGG 121
Cdd:COG3706   79 IFLTALDDEEDRARALEAGADDYLTKPFDPEELLARVdlVARYGG 123
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-125 1.43e-12

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: 63.05  E-value: 1.43e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDDHPLVAVALEAASAHAPIPLkIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNqQCPVLI 80
Cdd:COG3707    3 GLRVLVVDDEPLRRADLREGLREAGYEV-VAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEER-PAPVIL 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 495165828  81 YSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAF 125
Cdd:COG3707   81 LTAYSDPELIERALEAGVSAYLVKPLDPEDLLPALELALARFREL 125
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 4-119 3.61e-12

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


Pssm-ID: 381131 [Multi-domain]  Cd Length: 118  Bit Score: 60.44  E-value: 3.61e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHP----LVAVALEAASahapipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVL 79
Cdd:cd17615    2 VLVVDDEPniteLLSMALRYEG------WDVETAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVL 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 495165828  80 IYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:cd17615   76 FLTAKDSVEDRIAGLTAGGDDYVTKPFSLEEVVARLRALL 115
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 3-104 5.82e-12

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: 59.40  E-value: 5.82e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   3 SLLLIDDHPLVAVALEAA-SAHAPIpLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIY 81
Cdd:COG4753    1 KVLIVDDEPLIREGLKRIlEWEAGF-EVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDPDTKIIIL 79

                         90       100
                 ....*....|....*....|...
gi 495165828  82 SAQQSRHTLLSAVSLGAAGYVVK 104
Cdd:COG4753   80 SGYSDFEYAQEAIKLGADDYLLK 102
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
9-189 6.35e-12

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 61.70  E-value: 6.35e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   9 DHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRH 88
Cdd:COG2771    1 LLLLALALLLLALLLLLLALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  89 TLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPPLPERIELPLTEKEQQIVALLVKGLSNLQIGEQLHISNKTVS 168
Cdd:COG2771   81 LLALLLLLALLALLAALLARLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVR 160

                        170       180
                 ....*....|....*....|.
gi 495165828 169 THKKNILEKTGVQSVIELAEL 189
Cdd:COG2771  161 THLKRIYRKLGVSSRAELVAL 181
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 4-104 6.63e-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: 59.57  E-value: 6.63e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:cd19925    3 VLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVVTA 82

                         90       100
                 ....*....|....*....|.
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVK 104
Cdd:cd19925   83 ANDVETVREALRLGVVDYLIK 103
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 4-119 1.22e-11

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: 59.04  E-value: 1.22e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPIplKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:cd17624    1 ILLVEDDALLGDGLKTGLRKAGY--AVDWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILTA 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:cd17624   79 RDGVDDRVAGLDAGADDYLVKPFALEELLARLRALL 114
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 1-134 2.13e-11

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: 60.56  E-value: 2.13e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDDHPLVAVALEAASAHAPIplKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRR--LRLRNQQCPV 78
Cdd:COG3437    6 APTVLIVDDDPENLELLRQLLRTLGY--DVVTAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLlrADPSTRDIPV 83

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 495165828  79 LIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPPLPERIEL 134
Cdd:COG3437   84 IFLTALADPEDRERALEAGADDYLTKPFDPEELLARVRNALELRRLQRELDDLVLY 139
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 3-138 1.34e-10

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: 57.62  E-value: 1.34e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   3 SLLLI-DDHPLVAV---ALEAASAHapiplkIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPV 78
Cdd:COG4567    6 SLLLVdDDEAFARVlarALERRGFE------VTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDPDARI 79

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 495165828  79 LIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPPLP--------ERIELPLTE 138
Cdd:COG4567   80 VVLTGYASIATAVEAIKLGADDYLAKPADADDLLAALERAEGDAPAPPENPmsldrlewEHIQRVLAE 147
PRK10643 PRK10643
two-component system response regulator PmrA;
33-119 1.42e-10

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 58.12  E-value: 1.42e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  33 AGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLL 112
Cdd:PRK10643  30 ASTAREAEALLESGHYSLVVLDLGLPDEDGLHLLRRWRQKKYTLPVLILTARDTLEDRVAGLDVGADDYLVKPFALEELH 109


                 ....*..
gi 495165828 113 SAILAVL 119
Cdd:PRK10643 110 ARIRALI 116
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 5-104 1.64e-10

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: 55.49  E-value: 1.64e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHP----LVAVALEAASahapipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLI 80
Cdd:cd17574    1 LVVEDDEeiaeLLSDYLEKEG------YEVDTAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIM 74

                         90       100
                 ....*....|....*....|....
gi 495165828  81 YSAQQSRHTLLSAVSLGAAGYVVK 104
Cdd:cd17574   75 LTAKDEEEDKVLGLELGADDYITK 98
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 2-104 9.31e-09

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: 51.29  E-value: 9.31e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   2 ASLLLIDDHPLVAVALEAASAHAPIpLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRR--LRLRNQQCPVL 79
Cdd:cd17551    1 MRILIVDDNPTNLLLLEALLRSAGY-LEVVSFTDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRlrALPGLEDVPIV 79

                         90       100
                 ....*....|....*....|....*
gi 495165828  80 IYSAQQSRHTLLSAVSLGAAGYVVK 104
Cdd:cd17551   80 MITADTDREVRLRALEAGATDFLTK 104
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 33-115 9.39e-09

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: 51.07  E-value: 9.39e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  33 AGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSavSLGAAGYVVKSQSMAQLL 112
Cdd:cd17554   30 AGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKPDLPVIICTAYSEYKSDFS--SWAADAYVVKSSDLTELK 107


                 ...
gi 495165828 113 SAI 115
Cdd:cd17554  108 ETI 110
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 2-115 9.83e-09

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: 51.05  E-value: 9.83e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   2 ASLLLIDDHPLV----AVALEAASAhapiplKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCP 77
Cdd:cd17555    1 ATILVIDDDEVVresiAAYLEDSGF------QVLQAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTP 74

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 495165828  78 VLIYSAQQSRHTLLSAVSLGAAGYVVKS-QSMAQLLSAI 115
Cdd:cd17555   75 VIVVSGAGVMSDAVEALRLGAWDYLTKPiEDLAVLEHAV 113
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
4-111 1.21e-08

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 53.70  E-value: 1.21e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPIplKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:PRK11361   7 ILIVDDEDNVRRMLSTAFALQGF--ETHCANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMTA 84

                         90       100
                 ....*....|....*....|....*...
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQL 111
Cdd:PRK11361  85 YAEVETAVEALRCGAFDYVIKPFDLDEL 112
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 4-104 1.65e-08

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: 50.20  E-value: 1.65e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPL-VAVALEAASAHapiPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLEL--LRRLRLRNQQCPVLI 80
Cdd:cd19920    1 ILIVDDVPDnLRLLSELLRAA---GYRVLVATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVcrRLKADPATRHIPVIF 77

                         90       100
                 ....*....|....*....|....
gi 495165828  81 YSAQQSRHTLLSAVSLGAAGYVVK 104
Cdd:cd19920   78 LTALTDTEDKVKGFELGAVDYITK 101
fixJ PRK09390
response regulator FixJ; Provisional
 50-189 2.38e-08

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 51.54  E-value: 2.38e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  50 VIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLggQQAFPPLP 129
Cdd:PRK09390  50 CVVTDVRMPGIDGIELLRRLKARGSPLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERAL--AQAPEAAK 127

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 495165828 130 E---------RIElPLTEKEQQIVALLVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIELAEL 189
Cdd:PRK09390 128 SeavaadiraRIA-SLSERERQVMDGLVAGLSNKVIARDLDISPRTVEVYRANVMTKMQAGSLSELVRM 195
PRK15479 PRK15479
transcriptional regulator TctD;
4-119 2.62e-08

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 52.03  E-value: 2.62e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPIPLKIhaAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:PRK15479   3 LLLAEDNRELAHWLEKALVQNGFAVDC--VFDGLAADHLLQSEMYALAVLDINMPGMDGLEVLQRLRKRGQTLPVLLLTA 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:PRK15479  81 RSAVADRVKGLNVGADDYLPKPFELEELDARLRALL 116
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 33-120 2.98e-08

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: 49.96  E-value: 2.98e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  33 AGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLL 112
Cdd:cd19930   30 ASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREELPDTKVLIVTTFGRPGYFRRALAAGVDGYVLKDRPIEELA 109


                 ....*...
gi 495165828 113 SAILAVLG 120
Cdd:cd19930  110 DAIRTVHA 117
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 4-119 4.10e-08

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: 49.59  E-value: 4.10e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:cd19934    1 LLLVEDDALLAAQLKEQLSDAG--YVVDVAEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPVLILTA 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:cd19934   79 RDSWQDKVEGLDAGADDYLTKPFHIEELLARLRALI 114
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 4-115 7.74e-08

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: 48.87  E-value: 7.74e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAAsahapIPLK------IHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCP 77
Cdd:cd17536    1 VLIVDDEPLIREGLKKL-----IDWEelgfevVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYPDIK 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 495165828  78 VLIYS-------AQQsrhtllsAVSLGAAGYVVKSQSMAQLLSAI 115
Cdd:cd17536   76 IIILSgyddfeyAQK-------AIRLGVVDYLLKPVDEEELEEAL 113
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 4-104 9.33e-08

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: 48.73  E-value: 9.33e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEaaSAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:cd17572    1 VLLVEDSPSLAALYQ--EYLSDEGYKVTHVETGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERSLPTSVIVITA 78

                         90       100
                 ....*....|....*....|.
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVK 104
Cdd:cd17572   79 HGSVDIAVEAMRLGAYDFLEK 99
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 29-115 1.07e-07

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: 48.26  E-value: 1.07e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  29 KIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSM 108
Cdd:cd17550   24 EVDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIMISGHGTIETAVKATKLGAYDFIEKPLSL 103


                 ....*..
gi 495165828 109 AQLLSAI 115
Cdd:cd17550  104 DRLLLTI 110
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 3-115 1.18e-07

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: 48.57  E-value: 1.18e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   3 SLLLIDDHP----LVAVALEAASahapIPLKIHAAGDEAQARQLLQLH-------HIDVIVLDIGLPDCDGLELLRRLRL 71
Cdd:cd17557    1 TILLVEDNPgdaeLIQEAFKEAG----VPNELHVVRDGEEALDFLRGEgeyadapRPDLILLDLNMPRMDGFEVLREIKA 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 495165828  72 RNQQC--PVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAI 115
Cdd:cd17557   77 DPDLRriPVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAI 122
PRK10610 PRK10610
chemotaxis protein CheY;
30-120 1.40e-07

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 48.43  E-value: 1.40e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  30 IHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQ--QCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQS 107
Cdd:PRK10610  33 VEEAEDGVDALNKLQAGGFGFVISDWNMPNMDGLELLKTIRADGAmsALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 112

                         90
                 ....*....|....*.
gi 495165828 108 MAQL---LSAILAVLG 120
Cdd:PRK10610 113 AATLeekLNKIFEKLG 128
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 33-119 1.47e-07

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: 48.04  E-value: 1.47e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  33 AGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLL 112
Cdd:cd17542   31 AANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIDPNAKVIMCSAMGQEEMVKEAIKAGAKDFIVKPFQPERVL 110


                 ....*..
gi 495165828 113 SAILAVL 119
Cdd:cd17542  111 EAVEKVL 117
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 4-119 2.58e-07

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: 47.38  E-value: 2.58e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:cd17627    1 ILVVDDDRAVRESLRRSLRFEG--YEVETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLTA 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:cd17627   79 RDSVSDRVAGLDAGADDYLVKPFALEELLARVRALL 114
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 2-113 4.50e-07

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: 46.61  E-value: 4.50e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   2 ASLLLIDDHPLVAVALEA---ASAHApiplkIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLeLLRRLRLRNQQCPV 78
Cdd:cd17619    1 PHILIVEDEPVTRATLKSyfeQEGYD-----VSEAGDGEEMRQILARQDIDLVLLDINLPGKDGL-SLTRELREQSEVGI 74

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 495165828  79 LIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLS 113
Cdd:cd17619   75 ILVTGRDDEVDRIVGLEIGADDYVTKPFNPRELLV 109
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 5-104 5.31e-07

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: 46.00  E-value: 5.31e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHP----LVAVALEAASahapipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLElLRRLRLRNQQCPVLI 80
Cdd:cd17620    2 LVIEDEPqirrFLRTALEAHG------YRVFEAETGQEGLLEAATRKPDLIILDLGLPDMDGLE-VIRRLREWSAVPVIV 74

                         90       100
                 ....*....|....*....|....
gi 495165828  81 YSAQQSRHTLLSAVSLGAAGYVVK 104
Cdd:cd17620   75 LSARDEESDKIAALDAGADDYLTK 98
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 49-130 5.80e-07

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 48.00  E-value: 5.80e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  49 DVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVLggQQAFPPL 128
Cdd:PRK09836  46 DLIILDIMLPDVNGWDIVRMLRSANKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLL--RRGAAVI 123


                 ..
gi 495165828 129 PE 130
Cdd:PRK09836 124 IE 125
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 4-104 5.91e-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: 45.89  E-value: 5.91e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAA---SAHApiplkIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLI 80
Cdd:cd19935    1 ILVVEDEKKLAEYLKKGlteEGYA-----VDVAYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAAGKQTPVLM 75

                         90       100
                 ....*....|....*....|....
gi 495165828  81 YSAQQSRHTLLSAVSLGAAGYVVK 104
Cdd:cd19935   76 LTARDSVEDRVKGLDLGADDYLVK 99
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 49-119 7.88e-07

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: 46.06  E-value: 7.88e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 495165828  49 DVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:cd17625   43 DLIILDIMLPGMDGLEVLKSLREEGIETPVLLLTALDAVEDRVKGLDLGADDYLPKPFSLAELLARIRALL 113
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 4-119 1.10e-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: 45.48  E-value: 1.10e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQarQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:cd17616    1 VLLIEDDSATAQSIELMLKSEGFNVYTTDLGEEGL--DLGKLYDYDIILLDLNLPDMSGYEVLRTLRLAKVKTPILILSG 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:cd17616   79 LADIEDKVKGLGFGADDYMTKPFHKDELVARIHAIV 114
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 4-115 1.29e-06

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: 45.48  E-value: 1.29e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLV----AVALEAASAHApiplkIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNqQCPVL 79
Cdd:cd19932    3 VLIAEDEALIrmdlREMLEEAGYEV-----VGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSEN-IAPIV 76

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 495165828  80 IYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAI 115
Cdd:cd19932   77 LLTAYSQQDLVERAKEAGAMAYLVKPFSESDLIPAI 112
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
145-192 1.39e-06

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 46.62  E-value: 1.39e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 495165828 145 ALLVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQSVIELAELWKA 192
Cdd:COG2909  132 RLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARE 179
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 5-64 1.50e-06

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: 45.14  E-value: 1.50e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 495165828   5 LLIDDHP----LVAVALEAASAHapiplkIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLE 64
Cdd:cd17580    2 LVVDDNEdaaeMLALLLELEGAE------VTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYE 59
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 4-119 2.13e-06

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: 44.99  E-value: 2.13e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDH----PLVAVALEAASahapipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLElLRRLRLRNQQCPVL 79
Cdd:cd17623    1 ILLIDDDreltELLTEYLEMEG------FNVRAAHDGEQGLAALLEGSPDLVVLDVMLPKMNGLD-VLKELRKTSQVPVL 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 495165828  80 IYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:cd17623   74 MLTARGDDIDRILGLELGADDYLPKPFNPRELVARIRAIL 113
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 5-119 3.65e-06

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: 44.16  E-value: 3.65e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHP----LVAVALEAASahapipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRN--QQCPV 78
Cdd:cd17618    4 LIVEDEPaireMIAFNLERAG------FDVVEAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLKRDEmtRDIPI 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 495165828  79 LIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:cd17618   78 IMLTARGEEEDKVRGLEAGADDYITKPFSPRELVARIKAVL 118
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 3-114 3.80e-06

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: 43.97  E-value: 3.80e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   3 SLLLIDDHPLVAVALEAA-SAHApipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIY 81
Cdd:cd17563    2 SLLLVDDDEVFAERLARAlERRG---FEVETAHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQPDARIVVL 78

                         90       100       110
                 ....*....|....*....|....*....|...
gi 495165828  82 SAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSA 114
Cdd:cd17563   79 TGYASIATAVEAIKLGADDYLAKPADADEILAA 111
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 5-104 6.62e-06

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: 43.30  E-value: 6.62e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHPLVAVALEAASAHapIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQ 84
Cdd:cd19926    2 LVVDDEPDIRELLEITLGR--MGLDVRSARNVKEARELLASEPYDLCLTDMRLPDGSGLELVQHIQQRLPQTPVAVITAY 79

                         90       100
                 ....*....|....*....|
gi 495165828  85 QSRHTLLSAVSLGAAGYVVK 104
Cdd:cd19926   80 GSLDTAIEALKAGAFDFLTK 99
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 3-58 6.93e-06

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: 41.79  E-value: 6.93e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 495165828     3 SLLLIDDHPLVAVALEAASAHAPIplKIHAAGDEAQARQLLQLHHIDVIVLDIGLP 58
Cdd:smart00448   2 RILVVDDDPLLRELLKALLEKEGY--EVDEATDGEEALELLKEEKPDLILLDIMMP 55
PRK10766 PRK10766
two-component system response regulator TorR;
29-63 7.18e-06

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 45.03  E-value: 7.18e-06
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 495165828  29 KIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGL 63
Cdd:PRK10766  28 TVSEAASGAGMREIMQNQHVDLILLDINLPGEDGL 62
PRK13856 PRK13856
two-component response regulator VirG; Provisional
 1-131 9.67e-06

two-component response regulator VirG; Provisional


Pssm-ID: 172377 [Multi-domain]  Cd Length: 241  Bit Score: 44.80  E-value: 9.67e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDDH-PLVAVALEAASAHApipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNqQCPVL 79
Cdd:PRK13856   1 MKHVLVIDDDvAMRHLIVEYLTIHA---FKVTAVADSQQFNRVLASETVDVVVVDLNLGREDGLEIVRSLATKS-DVPII 76

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 495165828  80 IYSAQQSRHT-LLSAVSLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPPLPER 131
Cdd:PRK13856  77 IISGDRLEEAdKVVALELGATDFIAKPFGTREFLARIRVALRVRPNVVRTKDR 129
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 4-116 1.03e-05

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: 43.11  E-value: 1.03e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:cd19931    1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILTV 80

                         90       100       110
                 ....*....|....*....|....*....|...
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAIL 116
Cdd:cd19931   81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALK 113
PRK10816 PRK10816
two-component system response regulator PhoP;
29-119 1.08e-05

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 44.34  E-value: 1.08e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  29 KIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSM 108
Cdd:PRK10816  26 QVDAAEDAKEADYYLNEHLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHI 105

                         90
                 ....*....|.
gi 495165828 109 AQLLSAILAVL 119
Cdd:PRK10816 106 EEVMARMQALM 116
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 5-115 1.26e-05

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 44.04  E-value: 1.26e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHPLVAVALEAA-SAHAPIPLkIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:COG3279    5 LIVDDEPLARERLERLlEKYPDLEV-VGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPPPPIIFTTA 83

                         90       100       110
                 ....*....|....*....|....*....|..
gi 495165828  84 qqSRHTLLSAVSLGAAGYVVKSQSMAQLLSAI 115
Cdd:COG3279   84 --YDEYALEAFEVNAVDYLLKPIDEERLAKAL 113
rcsA PRK15411
transcriptional regulator RcsA;
103-178 1.91e-05

transcriptional regulator RcsA;


Pssm-ID: 185309 [Multi-domain]  Cd Length: 207  Bit Score: 43.58  E-value: 1.91e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 495165828 103 VKSQSMAQLLSAIL---AVLGGQQAFPPLPerielpLTEKEQQIVALLVKGLSNLQIGEQLHISNKTVSTHKKNILEKT 178
Cdd:PRK15411 108 IKPESLDDLLGDILkkeTTITSFLNLPTLS------LSRTESSMLRMWMAGQGTIQISDQMNIKAKTVSSHKGNIKRKI 180
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
126-188 2.39e-05

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 44.16  E-value: 2.39e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 495165828 126 PPLPERIE-LPLTEKEQQIVALLVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGV---QSVIELAE 188
Cdd:PRK04841 828 PDVPELIRtSPLTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIahrQEAVQHAQ 894
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 30-119 2.99e-05

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: 41.64  E-value: 2.99e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  30 IHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNqQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMA 109
Cdd:cd17614   25 VVTAYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCREVRKTS-NVPIIMLTAKDSEVDKVLGLELGADDYVTKPFSNR 103

                         90
                 ....*....|
gi 495165828 110 QLLSAILAVL 119
Cdd:cd17614  104 ELLARVKANL 113
dpiA PRK10046
two-component response regulator DpiA; Provisional
 3-104 3.46e-05

two-component response regulator DpiA; Provisional


Pssm-ID: 182208 [Multi-domain]  Cd Length: 225  Bit Score: 43.08  E-value: 3.46e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   3 SLLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYS 82
Cdd:PRK10046   6 TLLIVEDETPLAEMHAEYIRHIPGFSQILLAGNLAQARMMIERFKPGLILLDNYLPDGRGINLLHELVQAHYPGDVVFTT 85

                         90       100
                 ....*....|....*....|..
gi 495165828  83 AQQSRHTLLSAVSLGAAGYVVK 104
Cdd:PRK10046  86 AASDMETVSEAVRCGVFDYLIK 107
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 90-186 4.32e-05

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 42.51  E-value: 4.32e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  90 LLSAV-SLGAAGYVVKSQSMAQLLSAILAVLGGQQAFPP----LPERI------ELPLTEKEQQIVALLVKGLSNLQIGE 158
Cdd:PRK10840  94 ILSAVlDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPEsvsrLLEKIsaggygDKRLSPKESEVLRLFAEGFLVTEIAK 173

                         90       100
                 ....*....|....*....|....*...
gi 495165828 159 QLHISNKTVSTHKKNILEKTGVQSVIEL 186
Cdd:PRK10840 174 KLNRSIKTISSQKKSAMMKLGVENDIAL 201
PRK11517 PRK11517
DNA-binding response regulator HprR;
4-119 4.67e-05

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 42.58  E-value: 4.67e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQcPVLIYSA 83
Cdd:PRK11517   3 ILLIEDNQRTQEWVTQGLSEAG--YVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT-PVICLTA 79

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:PRK11517  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQL 115
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 27-116 4.72e-05

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: 41.17  E-value: 4.72e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  27 PLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQ--CPVLIYSAQQSRHTLLSAVSLGAAGYVVK 104
Cdd:cd19923   25 FNNVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLELLKTIRADGALshLPVLMVTAEAKKENVIAAAQAGVNNYIVK 104

                         90
                 ....*....|....*
gi 495165828 105 ---SQSMAQLLSAIL 116
Cdd:cd19923  105 pftAATLKEKLEKIF 119
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 5-119 7.34e-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: 40.72  E-value: 7.34e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHP----LVAVALEAASahapipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLEL--LRRLRLRNQQCPV 78
Cdd:cd19937    1 LVVDDEEdiveLLKYNLEKEG------YEVVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVcrILRSDPKTSSIPI 74

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 495165828  79 LIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:cd19937   75 IMLTAKGEEFDKVLGLELGADDYITKPFSPRELLARVKAVL 115
PRK10100 PRK10100
transcriptional regulator CsgD;
135-182 8.75e-05

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 41.78  E-value: 8.75e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 495165828 135 PLTEKEQQIVALLVKGLSNLQIGEQLHISNKTVSTHKKNILEKTGVQS 182
Cdd:PRK10100 155 LLTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKN 202
REC_WspR-like cd17575
phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...
 2-115 1.18e-04

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


Pssm-ID: 381117 [Multi-domain]  Cd Length: 128  Bit Score: 40.08  E-value: 1.18e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   2 ASLLLIDDHPLVAVALEAASAHAPiPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRR--LRLRNQQCPVL 79
Cdd:cd17575    1 IMVLLVDDQAIIGEAVRRALADEE-DIDFHYCSDPTEAIEVASQIKPTVILQDLVMPGVDGLTLVRFfrANPATRDIPII 79

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 495165828  80 IYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAI 115
Cdd:cd17575   80 VLSTKEEPEVKSEAFALGANDYLVKLPDKIELVARI 115
ompR PRK09468
osmolarity response regulator; Provisional
 32-119 1.24e-04

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 41.50  E-value: 1.24e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  32 AAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQL 111
Cdd:PRK09468  34 SAANAEQMDRLLTRESFHLMVLDLMLPGEDGLSICRRLRSQNNPTPIIMLTAKGEEVDRIVGLEIGADDYLPKPFNPREL 113


                 ....*...
gi 495165828 112 LSAILAVL 119
Cdd:PRK09468 114 LARIRAVL 121
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 3-118 1.77e-04

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: 39.44  E-value: 1.77e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   3 SLLLIDDHPLVAVALeAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYS 82
Cdd:cd17593    2 KVLICDDSSMARKQL-ARALPADWDVEITFAENGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVEQLETKVIVVS 80

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 495165828  83 A--QQSRHTLlsAVSLGAAGYVVKSQSMAQLLSAILAV 118
Cdd:cd17593   81 GdvQPEAKER--VLELGALAFLKKPFDPEKLAQLLEEL 116
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 34-172 3.95e-04

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 39.95  E-value: 3.95e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  34 GDEAQARQLLQLHhiDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLS 113
Cdd:PRK11083  36 GLPALDKLRQQPP--DLVILDVGLPDISGFELCRQLLAFHPALPVIFLTARSDEVDRLVGLEIGADDYVAKPFSPREVAA 113

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828 114 ---AILAVLGGQQAFPPLPE-----------RIE-----LPLTEKEQQIVALLVKG----LSNLQIGEQLHIS-----NK 165
Cdd:PRK11083 114 rvrTILRRVKKFAAPSPVIRighfeldepaaRISyfgtpLTLTRYEFLLLKTLLLSpgrvFSRQQLMDIVWEDaqdsyDR 193


                 ....*..
gi 495165828 166 TVSTHKK 172
Cdd:PRK11083 194 TVDTHIK 200
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 33-104 4.13e-04

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: 38.53  E-value: 4.13e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 495165828  33 AGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNqQCPVLIYSA--QQSRHTLLSAVSLGAAGYVVK 104
Cdd:cd17541   32 ARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAER-PTPVVMVSSltEEGAEITLEALELGAVDFIAK 104
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
5-98 4.29e-04

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 39.86  E-value: 4.29e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   5 LLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRnQQCPVLIYSA- 83
Cdd:PRK12555   4 GIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMDGVEATRRIMAE-RPCPILIVTSl 82

                         90
                 ....*....|....*.
gi 495165828  84 -QQSRHTLLSAVSLGA 98
Cdd:PRK12555  83 tERNASRVFEAMGAGA 98
orf27 CHL00148
Ycf27; Reviewed
 33-119 5.41e-04

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 39.31  E-value: 5.41e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  33 AGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQqCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLL 112
Cdd:CHL00148  36 ASDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEIRKESD-VPIIMLTALGDVSDRITGLELGADDYVVKPFSPKELE 114


                 ....*..
gi 495165828 113 SAILAVL 119
Cdd:CHL00148 115 ARIRSVL 121
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 4-115 5.42e-04

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: 38.22  E-value: 5.42e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPL---VAVA-LEAASahapipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRR---LRLRNQQC 76
Cdd:cd17546    1 VLVVDDNPVnrkVLKKlLEKLG------YEVDVAENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRireLEGGGRRT 74

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 495165828  77 PVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAI 115
Cdd:cd17546   75 PIIALTANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
1-119 7.70e-04

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 39.02  E-value: 7.70e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   1 MASLLLIDD-HPLVAVALEAASAHApipLKIHAAGDEAQARQLLQlHHIDVIVLDIGLPDCDGLElLRRLRLRNQQCPVL 79
Cdd:PRK10955   1 MNKILLVDDdRELTSLLKELLEMEG---FNVIVAHDGEQALDLLD-DSIDLLLLDVMMPKKNGID-TLKELRQTHQTPVI 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 495165828  80 IYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:PRK10955  76 MLTARGSELDRVLGLELGADDYLPKPFNDRELVARIRAIL 115
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 4-119 8.13e-04

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


Pssm-ID: 381165 [Multi-domain]  Cd Length: 114  Bit Score: 37.74  E-value: 8.13e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARqlLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNqQCPVLIYSA 83
Cdd:cd19938    2 ILIVEDEPKLAQLLIDYLRAAGYAPTLLAHGDQVLPY--VRHTPPDLILLDLMLPGTDGLTLCREIRRFS-DVPIIMVTA 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:cd19938   79 RVEEIDRLLGLELGADDYICKPYSPREVVARVKAIL 114
PRK10336 PRK10336
two-component system response regulator QseB;
4-179 8.19e-04

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 38.72  E-value: 8.19e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   4 LLLIDDHPLVAVALEAASAHAPIPLKIHAAGdeAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSA 83
Cdd:PRK10336   3 ILLIEDDMLIGDGIKTGLSKMGFSVDWFTQG--RQGKEALYSAPYDAVILDLTLPGMDGRDILREWREKGQREPVLILTA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  84 QQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL------------GGQQAFPP--LPERIE---LPLTEKEQQIVAL 146
Cdd:PRK10336  81 RDALAERVEGLRLGADDYLCKPFALIEVAARLEALMrrtngqasnelrHGNVMLDPgkRIATLAgepLTLKPKEFALLEL 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 495165828 147 LVKG----LSNLQIGEQLH-----ISNKTVSTHKKNILEKTG 179
Cdd:PRK10336 161 LMRNagrvLPRKLIEEKLYtwdeeVTSNAVEVHVHHLRRKLG 202
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 136-177 8.77e-04

RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 38.31  E-value: 8.77e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 495165828  136 LTEKEQQIVAL-LVKGLSNLQIGEQLHISNKTVSTHKKNILEK 177
Cdd:TIGR02985 114 LPEQCREIFILsRFEGLSNKEIAEELGISVKTVEYHITKALKF 156
Spo0A COG5801
Stage 0 sporulation initiation regulator Spo0A (response regulator, REC-HTH domains) [Cell ...
 30-124 9.03e-04

Stage 0 sporulation initiation regulator Spo0A (response regulator, REC-HTH domains) [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444503 [Multi-domain]  Cd Length: 264  Bit Score: 39.01  E-value: 9.03e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  30 IHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDG---LELLRRLRLRNQqcP-VLIYSAQQSRHTLLSAVSLGAAGYVVKS 105
Cdd:COG5801   33 VGVAYNGLEALELIEEKKPDVVILDIIMPHLDGlgvLEKLREMNLEKR--PkVIMLTAFGQEDITQRAVELGADYYILKP 110

                         90
                 ....*....|....*....
gi 495165828 106 QSMAQLLSAILAVLGGQQA 124
Cdd:COG5801  111 FDLDVLAERIRQLAGGKAE 129
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 6-104 9.96e-04

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: 37.25  E-value: 9.96e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   6 LIDDHPLVAVALEAASAHAPIPLKIHAAGDEAQARqlLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQ 85
Cdd:cd19919    5 IVDDDSSIRWVLERALAGAGLTVTSFENAQEALAA--LASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVIIMTAHS 82

                         90
                 ....*....|....*....
gi 495165828  86 SRHTLLSAVSLGAAGYVVK 104
Cdd:cd19919   83 DLDSAVSAYQGGAFEYLPK 101
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 3-112 1.10e-03

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: 37.42  E-value: 1.10e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828   3 SLLLIDDHPLVAVALEAASAHApIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYS 82
Cdd:cd17530    2 RVLVLDDDPFQCMMAATILEDL-GPGNVDEADDGREALVILLCNAPDIIICDLKMPDMDGIEFLRHLAESHSNAAVILMS 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 495165828  83 A-----QQSRHTLLSAVSLGAAGYVVKSQSMAQLL 112
Cdd:cd17530   81 GldggiLESAETLAGANGLNLLGTLSKPFSPEELT 115
PRK11475 PRK11475
DNA-binding transcriptional activator BglJ; Provisional
 100-186 1.18e-03

DNA-binding transcriptional activator BglJ; Provisional


Pssm-ID: 236915 [Multi-domain]  Cd Length: 207  Bit Score: 38.19  E-value: 1.18e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828 100 GYVVKSQSMAQLLSAILAVLGGQQAFPPLPERI-----ELPLTEKEQQIVALLVKGLSNLQIGEQLHISNKTVSTHKKNI 174
Cdd:PRK11475  94 GVLSKASTLEILQQELFLSLNGVRQATDRLNNQwyinqSRMLSPTEREILRFMSRGYSMPQIAEQLERNIKTIRAHKFNV 173

                         90
                 ....*....|..
gi 495165828 175 LEKTGVQSVIEL 186
Cdd:PRK11475 174 MSKLGVSSDAGL 185
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 38-115 1.19e-03

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: 37.00  E-value: 1.19e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  38 QARQLLQLHHIDVIVLDIGLP-DCDGLELLRRLRLrNQQCPVlIY-SAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAI 115
Cdd:cd17534   36 EAIELAEENKPDLILMDINLKgDMDGIEAAREIRE-KFDIPV-IFlTAYSDEETLERAKETNPYGYLVKPFNERELKAAI 113
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
38-104 1.20e-03

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 38.86  E-value: 1.20e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 495165828  38 QARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVK 104
Cdd:PRK10365  40 QALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDYLIK 106
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
32-104 1.23e-03

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 38.59  E-value: 1.23e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 495165828  32 AAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNqQCPVLIYSAQQSRH--TLLSAVSLGAAGYVVK 104
Cdd:PRK00742  34 TAPDGLEAREKIKKLNPDVITLDVEMPVMDGLDALEKIMRLR-PTPVVMVSSLTERGaeITLRALELGAVDFVTK 107
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 136-177 1.31e-03

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 37.71  E-value: 1.31e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 495165828  136 LTEKEQQIVAL-LVKGLSNLQIGEQLHISNKTVSTHKKNILEK 177
Cdd:TIGR02937 111 LPEREREVLVLrYLEGLSYKEIAEILGISVGTVKRRLKRARKK 153
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 34-119 1.58e-03

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: 36.97  E-value: 1.58e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  34 GDEAQARqlLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQcPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLS 113
Cdd:cd17622   33 GDRALEV--IAREKPDAVLLDIMLPGIDGLTLCRDLRPKYQG-PILLLTALDSDIDHILGLELGADDYVVKPVEPAVLLA 109


                 ....*.
gi 495165828 114 AILAVL 119
Cdd:cd17622  110 RLRALL 115
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 49-119 2.14e-03

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 37.48  E-value: 2.14e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 495165828  49 DVIVLDIGLPDCDGLELLRRLRLRNqQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKSQSMAQLLSAILAVL 119
Cdd:PRK10529  47 DLIILDLGLPDGDGIEFIRDLRQWS-AIPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVAL 116
PRK09959 PRK09959
acid-sensing system histidine kinase EvgS;
3-78 2.48e-03

acid-sensing system histidine kinase EvgS;


Pssm-ID: 182169 [Multi-domain]  Cd Length: 1197  Bit Score: 38.18  E-value: 2.48e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 495165828    3 SLLLIDDHPLVAVALEaaSAHAPIPLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPV 78
Cdd:PRK09959  960 SILIADDHPTNRLLLK--RQLNLLGYDVDEATDGVQALHKVSMQHYDLLITDVNMPNMDGFELTRKLREQNSSLPI 1033
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 5-64 4.18e-03

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: 35.59  E-value: 4.18e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 495165828   5 LLIDDHP----LVAVALEAASahapipLKIHAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLE 64
Cdd:cd17548    3 LIVEDNPlnmkLARDLLESAG------YEVLEAADGEEALEIARKEKPDLILMDIQLPGMDGLE 60
PRK10693 PRK10693
two-component system response regulator RssB;
31-119 4.54e-03

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 36.89  E-value: 4.54e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495165828  31 HAAGDEAQARQLLQLHHIDVIVLDIGLPDCDGLELLRRLRLRNQQCPVLIYSAQQSRHTLLSAVSLGAAGYVVKS-QSMA 109
Cdd:PRK10693   1 VLAANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLKPvKDLN 80

                         90
                 ....*....|
gi 495165828 110 QLLSAILAVL 119
Cdd:PRK10693  81 RLREMVFACL 90
FliA COG1191
DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA ...
 136-177 8.68e-03

DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA polymerase specialized sigma subunit is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 440804 [Multi-domain]  Cd Length: 236  Bit Score: 35.96  E-value: 8.68e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 495165828 136 LTEKEQQIVALL-VKGLSNLQIGEQLHISNKTVSTHKKNILEK 177
Cdd:COG1191  187 LPERERLVLSLYyFEELTLKEIAEVLGVSESRVSRLHKKALAR 229
 
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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