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Conserved domains on  [gi|512463828|ref|WP_016422277|]
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MULTISPECIES: response regulator transcription factor [unclassified Corynebacterium]

Protein Classification

transcriptional regulator( domain architecture ID 1003377)

transcriptional regulator may belong to the NarL family and contain a C-terminal helix-turn-helix DNA-binding domain and an N-terminal REC domain, thereby functioning as a response regulator

Gene Ontology:  GO:0003677|GO:0006355|GO:0000160
PubMed:  16740923

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10651 super family cl32550
transcriptional regulator NarL; Provisional
 1-224 1.22e-44

transcriptional regulator NarL; Provisional


The actual alignment was detected with superfamily member PRK10651:

Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 148.64  E-value: 1.22e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   1 MTKPIGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRasldddSCDPiDLVLMDLRFgeaPGTatraGGV 80
Cdd:PRK10651   3 NQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAE------SLDP-DLILLDLNM---PGM----NGL 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  81 DATAAIRA--LAGRgakapeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVRGETVLNTQVAGRLMGRM 158
Cdd:PRK10651  69 ETLDKLREksLSGR------IVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASL 142

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 512463828 159 RNPNTA-------LTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRT-AAVARAQELGM 224
Cdd:PRK10651 143 RANRATterdvnqLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVeAAVWVHQERIF 216
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 1-224 1.22e-44

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 148.64  E-value: 1.22e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   1 MTKPIGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRasldddSCDPiDLVLMDLRFgeaPGTatraGGV 80
Cdd:PRK10651   3 NQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAE------SLDP-DLILLDLNM---PGM----NGL 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  81 DATAAIRA--LAGRgakapeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVRGETVLNTQVAGRLMGRM 158
Cdd:PRK10651  69 ETLDKLREksLSGR------IVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASL 142

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 512463828 159 RNPNTA-------LTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRT-AAVARAQELGM 224
Cdd:PRK10651 143 RANRATterdvnqLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVeAAVWVHQERIF 216
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 4-225 6.93e-36

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


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 123.08  E-value: 6.93e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   4 PIGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLRFgeaPGTatraGGVDAT 83
Cdd:COG2197    1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEE-------LRPDVVLLDIRM---PGM----DGLEAL 66

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  84 AAIralagrgakapevlvvtnyssdsdvlgavtagavgyllkdaapeelidgirravrgetvlntqvagrlmgrmrnpnt 163
Cdd:COG2197   67 RRL----------------------------------------------------------------------------- 69

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 512463828 164 aLTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARAQELGML 225
Cdd:COG2197   70 -LTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLL 130
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 7-141 2.96e-34

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: 118.77  E-value: 2.96e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLRFgeaPGTatraGGVDATAAI 86
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRE-------LRPDVVLMDLSM---PGM----DGIEALRRL 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828  87 RALAGRgakaPEVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVR 141
Cdd:cd17535   67 RRRYPD----LKVIVLTAHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 164-219 1.48e-21

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 84.12  E-value: 1.48e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 512463828   164 ALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARA 219
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
GerE pfam00196
Bacterial regulatory proteins, luxR family;
165-219 6.79e-18

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 74.54  E-value: 6.79e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828  165 LTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARA 219
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 163-207 1.54e-04

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: 40.79  E-value: 1.54e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 512463828  163 TALTPRELEVLELVA-RGMSNKKIADQLVLTEATVKSHLVHIFTKL 207
Cdd:TIGR02937 109 EKLPEREREVLVLRYlEGLSYKEIAEILGISVGTVKRRLKRARKKL 154
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 1-224 1.22e-44

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 148.64  E-value: 1.22e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   1 MTKPIGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRasldddSCDPiDLVLMDLRFgeaPGTatraGGV 80
Cdd:PRK10651   3 NQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAE------SLDP-DLILLDLNM---PGM----NGL 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  81 DATAAIRA--LAGRgakapeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVRGETVLNTQVAGRLMGRM 158
Cdd:PRK10651  69 ETLDKLREksLSGR------IVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASL 142

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 512463828 159 RNPNTA-------LTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRT-AAVARAQELGM 224
Cdd:PRK10651 143 RANRATterdvnqLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVeAAVWVHQERIF 216
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
4-215 2.96e-38

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 132.28  E-value: 2.96e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   4 PIGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLRFgeapgtaTRAGGVDAT 83
Cdd:PRK10403   6 PFQVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANR-------LDPDVILLDLNM-------KGMSGLDTL 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  84 AAIRalagRGAKAPEVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVRGETVLNTQVAGRLMGRMR---- 159
Cdd:PRK10403  72 NALR----RDGVTAQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVNQYLREREMfgae 147

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 512463828 160 -NPNTALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAA 215
Cdd:PRK10403 148 eDPFSVLTERELDVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAA 204
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 4-225 6.93e-36

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


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 123.08  E-value: 6.93e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   4 PIGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLRFgeaPGTatraGGVDAT 83
Cdd:COG2197    1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEE-------LRPDVVLLDIRM---PGM----DGLEAL 66

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  84 AAIralagrgakapevlvvtnyssdsdvlgavtagavgyllkdaapeelidgirravrgetvlntqvagrlmgrmrnpnt 163
Cdd:COG2197   67 RRL----------------------------------------------------------------------------- 69

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 512463828 164 aLTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARAQELGML 225
Cdd:COG2197   70 -LTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLL 130
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 7-141 2.96e-34

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: 118.77  E-value: 2.96e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLRFgeaPGTatraGGVDATAAI 86
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRE-------LRPDVVLMDLSM---PGM----DGIEALRRL 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828  87 RALAGRgakaPEVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVR 141
Cdd:cd17535   67 RRRYPD----LKVIVLTAHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
PRK09483 PRK09483
response regulator; Provisional
 5-211 7.59e-32

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 115.59  E-value: 7.59e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   5 IGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRASldddscdPIDLVLMDLRFgeaPGTatraGGVDATA 84
Cdd:PRK09483   2 INVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTN-------AVDVVLMDMNM---PGI----GGLEATR 67

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  85 AIRalagRGAKAPEVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVRGETVLNTQVA-----GRLMGRMR 159
Cdd:PRK09483  68 KIL----RYTPDVKIIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAqqmalSQIEPATE 143

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 512463828 160 NPNTALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSS 211
Cdd:PRK09483 144 NPFASLSERELQIMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISG 195
PRK15369 PRK15369
two component system response regulator;
3-225 1.78e-25

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 98.61  E-value: 1.78e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   3 KPIGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRASldddscDPiDLVLMDLRFgeaPGTatraGGVDA 82
Cdd:PRK15369   2 KNYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQL------EP-DIVILDLGL---PGM----NGLDV 67

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  83 taaIRALAGRGakaPE--VLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVRGET----VLNTQVAGRLMG 156
Cdd:PRK15369  68 ---IPQLHQRW---PAmnILVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRyidpALNREAILALLN 141

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 512463828 157 RMRNPNTALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARAQELGML 225
Cdd:PRK15369 142 ADDTNPPLLTPRERQILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGLI 210
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 7-223 3.14e-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: 89.77  E-value: 3.14e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESApDIVVVGeAASGDEAVEKVRAslDDDSCdpidlVLMDLRfgeapgtatrAGGVDATAAI 86
Cdd:COG4566    2 VYIVDDDEAVRDSLAFLLESA-GLRVET-FASAEAFLAALDP--DRPGC-----LLLDVR----------MPGMSGLELQ 62

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  87 RALAGRGAKAPeVLVVTNYSsdsDVLGAVTA---GAVGYLLKDAAPEELIDGIRRAVR--GETVLNTQVAGRLMGRMRnp 161
Cdd:COG4566   63 EELAARGSPLP-VIFLTGHG---DVPMAVRAmkaGAVDFLEKPFDDQALLDAVRRALArdRARRAERARRAELRARLA-- 136

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 512463828 162 ntALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARAQELG 223
Cdd:COG4566  137 --SLTPREREVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 164-225 1.23e-21

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: 84.63  E-value: 1.23e-21
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 512463828 164 ALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARAQELGML 225
Cdd:COG5905   12 LLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLL 73
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 164-219 1.48e-21

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 84.12  E-value: 1.48e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 512463828   164 ALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARA 219
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
PRK10360 PRK10360
transcriptional regulator UhpA;
5-211 2.78e-21

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 87.34  E-value: 2.78e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   5 IGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRASldddscdPIDLVLMDLRFGEAPGTAtraggvdata 84
Cdd:PRK10360   2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGR-------GVQVCICDISMPDISGLE---------- 64

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  85 airaLAGRGAKAPEVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVRGETVLNTQVAGRLMGRMRNPnta 164
Cdd:PRK10360  65 ----LLSQLPKGMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLASGRQDP--- 137

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 512463828 165 LTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSS 211
Cdd:PRK10360 138 LTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSN 184
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 7-139 3.03e-20

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: 82.40  E-value: 3.03e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVraslddDSCDPiDLVLMDLRFGEAPGTATraggvdataaI 86
Cdd:cd19931    1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELA------ERLDP-DLILLDLNMKGMSGLDT----------L 63

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 512463828  87 RALAGRGAKApEVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRA 139
Cdd:cd19931   64 KALREEGVSA-RIVILTVSDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQA 115
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
3-222 1.67e-19

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 83.00  E-value: 1.67e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   3 KPIGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRASldddscdPIDLVLMDLrfgEAPGTatraGGVDA 82
Cdd:PRK09935   2 KPASVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTR-------PVDLIIMDI---DLPGT----DGFTF 67

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  83 TAAIRALAgrgaKAPEVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVRGETVLNTQ----VAGRLMGRM 158
Cdd:PRK09935  68 LKRIKQIQ----STVKVLFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSEtlnyIKSNKCSTN 143

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 512463828 159 RNPNTALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAV--ARAQEL 222
Cdd:PRK09935 144 SSTDTVLSNREVTILRYLVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIdyAKLHEL 209
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 165-221 3.35e-18

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: 75.26  E-value: 3.35e-18
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 512463828 165 LTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARAQE 221
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 7-125 5.45e-18

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: 75.97  E-value: 5.45e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLRfgeAPGTatraGGVDATAAI 86
Cdd:COG4753    2 VLIVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEE-------HKPDLVITDIN---MPGM----DGLELLEAI 67

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 512463828  87 RALagrgAKAPEVLVVTNYSSDSDVLGAVTAGAVGYLLK 125
Cdd:COG4753   68 REL----DPDTKIIILSGYSDFEYAQEAIKLGADDYLLK 102
GerE pfam00196
Bacterial regulatory proteins, luxR family;
165-219 6.79e-18

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 74.54  E-value: 6.79e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828  165 LTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARA 219
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 7-137 1.14e-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: 75.65  E-value: 1.14e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828    7 VLIADDHPIVRAGLRAVVESapDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLRFgeaPGTatraGGVDATAAI 86
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEK--EGYVVAEADDGKEALELLKE-------ERPDLILLDINM---PGM----DGLELLKRI 64

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 512463828   87 RALAgrgaKAPEVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIR 137
Cdd:pfam00072  65 RRRD----PTTPVIILTAHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
126-225 1.06e-15

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 72.04  E-value: 1.06e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828 126 DAAPEELIDGIRRAVRGETVLNTQVAGRLMGRMRNPNTALTPRelevleLVARGMSNKKIADQLVLTEATVKSHLVHIFT 205
Cdd:COG2909   90 EEALALLERLLALAEAAGRLLLRALALRALGDREEALAALRRR------LLAEGLSNKEIAERLFISVNTVKTHLRNIYR 163

                         90       100
                 ....*....|....*....|
gi 512463828 206 KLDVSSRTAAVARAQELGML 225
Cdd:COG2909  164 KLGVRSRTEAVARARELGLL 183
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 7-141 1.08e-15

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: 70.44  E-value: 1.08e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVE-SAPDIVVVGEAASGDEAVEKVRASldddscdPIDLVLMDLRFgeaPGTatraGGVDATAA 85
Cdd:cd17536    1 VLIVDDEPLIREGLKKLIDwEELGFEVVGEAENGEEALELIEEH-------KPDIVITDIRM---PGM----DGLELIEK 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 512463828  86 IRALAgrgaKAPEVLVVTNYSsdsD---VLGAVTAGAVGYLLKDAAPEELIDGIRRAVR 141
Cdd:cd17536   67 IRELY----PDIKIIILSGYD---DfeyAQKAIRLGVVDYLLKPVDEEELEEALEKAKE 118
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 7-144 1.20e-15

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: 70.65  E-value: 1.20e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVvgEAASGDEAVEKVRAsldddscDPIDLVLMDLRfgeAPGTatraGGVDATAAI 86
Cdd:COG0784    8 ILVVDDNPDNRELLRRLLERLGYEVT--TAEDGAEALELLRA-------GPPDLILLDIN---MPGM----DGLELLRRI 71

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 512463828  87 RALAgRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVRGET 144
Cdd:COG0784   72 RALP-RLPDIP-IIALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLARAS 127
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
123-225 1.41e-15

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 72.10  E-value: 1.41e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828 123 LLKDAAPEELIDGIRRAVRGETVLNTQVAGRLMGRMRNPNTALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVH 202
Cdd:COG2771   86 LLLALLALLAALLARLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKR 165

                         90       100
                 ....*....|....*....|...
gi 512463828 203 IFTKLDVSSRTAAVARAQELGML 225
Cdd:COG2771  166 IYRKLGVSSRAELVALALRLGLI 188
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 2-141 7.27e-15

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 68.84  E-value: 7.27e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   2 TKPIGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLRFGEAPGTATraggvd 81
Cdd:COG4565    1 MKMIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAE-------HRPDLILLDIYLPDGDGLEL------ 67

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  82 ataaIRALAGRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVR 141
Cdd:COG4565   68 ----LRELRARGPDVD-VIVITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLE 122
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 7-138 1.08e-14

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: 67.68  E-value: 1.08e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLrfgEAPGtatrAGGVDATAAI 86
Cdd:cd19930    1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLK-------HSPDVAILDI---EMPG----RTGLEVAAEL 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 512463828  87 RalagrgAKAPE--VLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRR 138
Cdd:cd19930   67 R------EELPDtkVLIVTTFGRPGYFRRALAAGVDGYVLKDRPIEELADAIRT 114
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 7-208 1.80e-14

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: 69.21  E-value: 1.80e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESApDIVVVgEAASGDEAVEKVRAsldddscDPIDLVLMDLRFgeaPGtatraggVDATAAI 86
Cdd:COG0745    4 ILVVEDDPDIRELLADALERE-GYEVD-TAADGEEALELLEE-------ERPDLILLDLML---PG-------MDGLEVC 64

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  87 RALAGRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVRGETVLNTQVAG-----RLMGRMRNP 161
Cdd:COG0745   65 RRLRARPSDIP-IIMLTARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRAAEVLRVGDlldlaAREVTRDGE 143

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828 162 NTALTPRELEVLELVA----RGMSNKKIADQL----VLTEATVKSHLVHIFTKLD 208
Cdd:COG0745  144 PVELTPKEFRLLELLMrnpgRVVSREQLLEEVwgydYGDDRTVDVHISRLRKKLE 198
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 7-141 2.07e-14

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 69.85  E-value: 2.07e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRASldddscdPIDLVLMDLrfgEAPGTAtragGVDATAAI 86
Cdd:COG3279    4 ILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEH-------KPDLVFLDI---QMPGLD----GFELARQL 69

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828  87 RALagrgAKAPEVLVVTNYssDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVR 141
Cdd:COG3279   70 REL----DPPPPIIFTTAY--DEYALEAFEVNAVDYLLKPIDEERLAKALEKAKE 118
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 7-178 7.83e-14

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: 69.61  E-value: 7.83e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVvgEAASGDEAVEKVRAsldddscDPIDLVLMDLRFGeapgtatragGVDATAAI 86
Cdd:COG2204    5 ILVVDDDPDIRRLLKELLERAGYEVE--TAASGEEALALLRE-------EPPDLVLLDLRMP----------GMDGLELL 65

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  87 RALAGRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAV-RGETVLNTQVAGRLMGRmrnpntal 165
Cdd:COG2204   66 RELRALDPDLP-VILLTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALeRRRLRRENAEDSGLIGR-------- 136

                        170
                 ....*....|...
gi 512463828 166 TPRELEVLELVAR 178
Cdd:COG2204  137 SPAMQEVRRLIEK 149
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 7-141 1.58e-13

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: 67.11  E-value: 1.58e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVvgEAASGDEAVEKVRASldddscdPIDLVLMDLRFgeaPGTatraGGVDATAAI 86
Cdd:COG3437    9 VLIVDDDPENLELLRQLLRTLGYDVV--TAESGEEALELLLEA-------PPDLILLDVRM---PGM----DGFELLRLL 72

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828  87 RALAgRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVR 141
Cdd:COG3437   73 RADP-STRDIP-VIFLTALADPEDRERALEAGADDYLTKPFDPEELLARVRNALE 125
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 5-137 4.52e-13

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: 63.56  E-value: 4.52e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   5 IGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLrfgEAPgtatRAGGVDATA 84
Cdd:cd17541    1 IRVLIVDDSAVMRKLLSRILESDPDIEVVGTARDGEEALEKIKE-------LKPDVITLDI---EMP----VMDGLEALR 66

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 512463828  85 AIRALagrgAKAPEVLVVTNYSSDSD-VLGAVTAGAVGYLLKDAAP---------EELIDGIR 137
Cdd:cd17541   67 RIMAE----RPTPVVMVSSLTEEGAEiTLEALELGAVDFIAKPSGGisldleeiaEELIEKIK 125
PRK10100 PRK10100
transcriptional regulator CsgD;
130-221 7.95e-13

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 65.28  E-value: 7.95e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828 130 EELIDGIRRAVRGETVLNTQVAGRLMGRMRN------PNTALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHI 203
Cdd:PRK10100 115 ERVVNGLQGVLRGECYFTQKLASYLITHSGNyrynstESALLTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNL 194

                         90
                 ....*....|....*...
gi 512463828 204 FTKLDVSSRTAAVARAQE 221
Cdd:PRK10100 195 FKKIAVKNRTQAVSWAND 212
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 7-134 8.13e-12

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: 59.79  E-value: 8.13e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESA-PDIVVvgeAASGDEAVEKVRAsldddscDPIDLVLMDLrfgEAPGTatraGGVDATAA 85
Cdd:cd17546    1 VLVVDDNPVNRKVLKKLLEKLgYEVDV---AENGQEALELLKE-------EPFDLVLMDL---QMPVM----DGLEATRR 63

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 512463828  86 IRALAGRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELID 134
Cdd:cd17546   64 IRELEGGGRRTP-IIALTANALEEDREKCLEAGMDDYLSKPVKLDQLKE 111
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
162-226 4.04e-11

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 61.88  E-value: 4.04e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 512463828 162 NTALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARAQEL-GMLG 226
Cdd:PRK04841 836 TSPLTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHRQEAVQHAQDLlKMMG 901
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 8-125 4.11e-11

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: 57.62  E-value: 4.11e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   8 LIADDHPIVRAGLRAVVESAPDIVVvgEAASGDEAVEKVRAsldddscDPIDLVLMDLRFGeapgtatragGVDATAAIR 87
Cdd:cd00156    1 LIVDDDPAIRELLKSLLEREGYEVD--TAADGEEALELLRE-------ERPDLVLLDLMMP----------GMDGLELLR 61

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 512463828  88 ALAGRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLK 125
Cdd:cd00156   62 KLRELPPDIP-VIVLTAKADEEDAVRALELGADDYLVK 98
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 7-140 7.31e-11

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: 57.42  E-value: 7.31e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESApDIVVVGEAASGDEAVEKVRasldddSCDPiDLVLMDLRFgeapgtaTRAGGVDATAAI 86
Cdd:cd19932    3 VLIAEDEALIRMDLREMLEEA-GYEVVGEASDGEEAVELAK------KHKP-DLVIMDVKM-------PRLDGIEAAKII 67

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 512463828  87 RalagrGAKAPEVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAV 140
Cdd:cd19932   68 T-----SENIAPIVLLTAYSQQDLVERAKEAGAMAYLVKPFSESDLIPAIEMAI 116
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 7-141 9.73e-11

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: 58.77  E-value: 9.73e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVvgEAASGDEAVEKVRAsldddscDPIDLVLMDLRFGEApgtatraGGVDATAAI 86
Cdd:COG3706    4 ILVVDDDPTNRKLLRRLLEAAGYEVV--EAADGEEALELLQE-------HRPDLILLDLEMPDM-------DGLELCRRL 67

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828  87 RALAgRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVR 141
Cdd:COG3706   68 RADP-RTADIP-IIFLTALDDEEDRARALEAGADDYLTKPFDPEELLARVDLVAR 120
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
7-168 7.68e-10

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 57.58  E-value: 7.68e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLrfgEAPgtatRAGGVDATAAI 86
Cdd:PRK12555   3 IGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAA-------QPPDVILMDL---EMP----RMDGVEATRRI 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  87 RALagrgakAP-EVLVVTNYSSD--SDVLGAVTAGAV---------GYLLKDAAPEELIDGIRravrgetvlntqVAGRL 154
Cdd:PRK12555  69 MAE------RPcPILIVTSLTERnaSRVFEAMGAGALdavdtptlgIGAGLEEYAAELLAKID------------QIGRL 130

                        170
                 ....*....|....
gi 512463828 155 MGRMRNPNTALTPR 168
Cdd:PRK12555 131 LGRRLAPAAAPAAA 144
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 7-139 1.01e-09

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


Pssm-ID: 381087 [Multi-domain]  Cd Length: 118  Bit Score: 54.47  E-value: 1.01e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRASldddscdPIDLVLMDLRFgeaPGTAtragGVDATAAI 86
Cdd:cd17532    1 ALIVDDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEEL-------KPDVVFLDIQM---PGLD----GLELAKKL 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 512463828  87 RALagrgAKAPEVLVVTNYssDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRA 139
Cdd:cd17532   67 SKL----AKPPLIVFVTAY--DEYAVEAFELNAVDYLLKPFSEERLAEALAKL 113
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 7-140 2.75e-09

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: 53.44  E-value: 2.75e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVvGEAASGDEAVEKVRASldddscDPiDLVLMDLrfgeapgTATRAGGVDATAAI 86
Cdd:cd17542    3 VLIVDDAAFMRMMLKDILTKAGYEVV-GEAANGEEAVEKYKEL------KP-DLVTMDI-------TMPEMDGIEALKEI 67

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 512463828  87 RALAgRGAKapeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAV 140
Cdd:cd17542   68 KKID-PNAK---VIMCSAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKVL 117
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 7-141 3.04e-09

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: 54.58  E-value: 3.04e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESApDIVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLRFGeapgtatragGVDATAAI 86
Cdd:COG3707    6 VLVVDDEPLRRADLREGLREA-GYEVVAEAADGEDAVELVRE-------LKPDLVIVDIDMP----------DRDGLEAA 67

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828  87 RALAGRGAKApeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVR 141
Cdd:COG3707   68 RQISEERPAP--VILLTAYSDPELIERALEAGVSAYLVKPLDPEDLLPALELALA 120
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 5-214 1.03e-08

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 53.68  E-value: 1.03e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   5 IGVLIADDHPIVRAGLRAVVESAPDIVVVGEaasgdeaVEKVRASLDDDSCDPIDLVLMDLRF-GEAPGtatraggvDAT 83
Cdd:PRK10840   4 MNVIIADDHPIVLFGIRKSLEQIEWVNVVGE-------FEDSTALINNLPKLDAHVLITDLSMpGDKYG--------DGI 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  84 AAIRALAgRGAKAPEVLVVTnYSSDSDVLGAVTAGAV-GYLLKDAAPEELIDGIRRAVRGETVLNTQVAgRLMGRMRNP- 161
Cdd:PRK10840  69 TLIKYIK-RHFPSLSIIVLT-MNNNPAILSAVLDLDIeGIVLKQGAPTDLPKALAALQKGKKFTPESVS-RLLEKISAGg 145

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828 162 --NTALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTA 214
Cdd:PRK10840 146 ygDKRLSPKESEVLRLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIA 200
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
3-181 2.47e-07

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 50.15  E-value: 2.47e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   3 KPIGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRAsldddsCDPiDLVLMDLrfgEAPgtatRAGGVDA 82
Cdd:PRK00742   2 MKIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKK------LNP-DVITLDV---EMP----VMDGLDA 67

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  83 TAAIRA-----------LAGRGAKApevlvvtnyssdsdVLGAVTAGAVGYLLK---------DAAPEELIDGIRRAVRG 142
Cdd:PRK00742  68 LEKIMRlrptpvvmvssLTERGAEI--------------TLRALELGAVDFVTKpflgislgmDEYKEELAEKVRAAARA 133

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 512463828 143 ETVLNTQVAGRLMGRMRNPNTALTPRELEVLELVARGMS 181
Cdd:PRK00742 134 RVRALPPRAAAAARAAAAAPAALAAAPLLSSKLVAIGTS 172
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 7-125 2.93e-07

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: 47.79  E-value: 2.93e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESApDIVVVGEAASGDEAVEKVRASldddscdPIDLVLMDLRFgeaPGTATragGVDATAAI 86
Cdd:cd17534    3 ILIVEDEAIIALDLKEILESL-GYEVVGIADSGEEAIELAEEN-------KPDLILMDINL---KGDMD---GIEAAREI 68

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 512463828  87 RALAGrgakAPeVLVVTNYSSDSDVLGAVTAGAVGYLLK 125
Cdd:cd17534   69 REKFD----IP-VIFLTAYSDEETLERAKETNPYGYLVK 102
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 5-132 6.48e-07

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: 46.85  E-value: 6.48e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   5 IGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVRASldddscdPIDLVLMDLRFGEAPGTATraggvdata 84
Cdd:cd19925    1 INVLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKER-------QPDLILLDIYLPDGNGLDL--------- 64

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 512463828  85 aIRALAGRGAKApEVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEEL 132
Cdd:cd19925   65 -LRELRAAGHDV-DVIVVTAANDVETVREALRLGVVDYLIKPFTFERL 110
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
8-211 8.56e-07

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 47.97  E-value: 8.56e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   8 LIADDHPIVRAGLRAVVESApDIVVVGEAASGDEAVEKVraslddDSCDPiDLVLMDLrfgEAPGTAtragGVDATAAIR 87
Cdd:PRK09958   4 IIIDDHPLAIAAIRNLLIKN-DIEILAELTEGGSAVQRV------ETLKP-DIVIIDV---DIPGVN----GIQVLETLR 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  88 ALAGRGakapeVLVVTnySSDSDVL---GAVTAGAVGYLLKDAAPEELIDGIRRAVRGETV----LNTQVAGRLMGRMRN 160
Cdd:PRK09958  69 KRQYSG-----IIIIV--SAKNDHFygkHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYfpfsLNRFVGSLTSDQQKL 141

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 512463828 161 pnTALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSS 211
Cdd:PRK09958 142 --DSLSKQEISVMRYILDGKDNNDIAEKMFISNKTVSTYKSRLMEKLECKS 190
fixJ PRK09390
response regulator FixJ; Provisional
 7-225 9.53e-07

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 47.69  E-value: 9.53e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVGEAASgdeavekvrASLDddscdpidlVLMDLRFGeAPGTATRAGGVDATAAI 86
Cdd:PRK09390   6 VHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQ---------AFLD---------ALPGLRFG-CVVTDVRMPGIDGIELL 66

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  87 RALAGRGAKAPeVLVVTNYSsdsDVLGAVTA---GAVGYLLKDAAPEELIDGIRRAVR--GETVLNTQVAGRLMGRMrnp 161
Cdd:PRK09390  67 RRLKARGSPLP-VIVMTGHG---DVPLAVEAmklGAVDFIEKPFEDERLIGAIERALAqaPEAAKSEAVAADIRARI--- 139

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 512463828 162 nTALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSSRTAAVARAQELGML 225
Cdd:PRK09390 140 -ASLSERERQVMDGLVAGLSNKVIARDLDISPRTVEVYRANVMTKMQAGSLSELVRMALRAGRG 202
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 7-138 1.07e-06

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


Pssm-ID: 381110 [Multi-domain]  Cd Length: 118  Bit Score: 46.14  E-value: 1.07e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVvgEAASGDEAVEKVRAsldddscDPIDLVLMDLRFgeapgtaTRAGGVDATAAI 86
Cdd:cd17562    3 ILAVDDSASIRQMVSFTLRGAGYEVV--EAADGRDALSKAQS-------KKFDLIITDQNM-------PNMDGIELIKEL 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 512463828  87 RALAGRgAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRR 138
Cdd:cd17562   67 RKLPAY-KFTP-ILMLTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKK 116
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 7-139 1.96e-06

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: 46.45  E-value: 1.96e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVgeAASGDEAVEKVRASldddscdPIDLVLMDLRFGEAPGTAtraggvdataAI 86
Cdd:COG4567    7 LLLVDDDEAFARVLARALERRGFEVTT--AASVEEALALLEQA-------PPDYAVLDLRLGDGSGLD----------LI 67

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 512463828  87 RALAGRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRA 139
Cdd:COG4567   68 EALRERDPDAR-IVVLTGYASIATAVEAIKLGADDYLAKPADADDLLAALERA 119
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 7-66 2.37e-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: 43.33  E-value: 2.37e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828     7 VLIADDHPIVRAGLRAVVESAPdiVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLR 66
Cdd:smart00448   3 ILVVDDDPLLRELLKALLEKEG--YEVDEATDGEEALELLKE-------EKPDLILLDIM 53
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 7-141 7.37e-06

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


Pssm-ID: 381127 [Multi-domain]  Cd Length: 133  Bit Score: 44.28  E-value: 7.37e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVvgeAASGDEAVEKVRAsldddscDPIDLVLMDLRFgeaPGTAtragGVDATAAI 86
Cdd:cd17596    3 ILVVDDEVRSLEALRRTLEEDFDVLT---AASAEEALAILEE-------EWVQVILCDQRM---PGTT----GVEFLKEV 65

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 512463828  87 RAlagrgaKAPEV--LVVTNYSSDSDVLGAVT-AGAVGYLLKDAAPEELIDGIRRAVR 141
Cdd:cd17596   66 RE------RWPEVvrIIISGYTDSEDIIAGINeAGIYQYLTKPWHPDQLLLTVRNAAR 117
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 7-125 1.05e-05

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: 43.34  E-value: 1.05e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVvgEAASGDEAVEKVRAsldddscDPIDLVLMDLRFGEapgtatraggVDATAAI 86
Cdd:cd17555    3 ILVIDDDEVVRESIAAYLEDSGFQVL--QAADGRQGLELFRS-------EQPDLVLCDLRMPE----------MDGLEVL 63

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 512463828  87 RALAGRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLK 125
Cdd:cd17555   64 KQITKESPDTP-VIVVSGAGVMSDAVEALRLGAWDYLTK 101
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
7-141 2.00e-05

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 44.84  E-value: 2.00e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVesAPDIVVVGEAASGDEAVEKVRASldddscdPIDLVLMDLRFgeapgtaTRAGGVDATAAI 86
Cdd:PRK11361   7 ILIVDDEDNVRRMLSTAF--ALQGFETHCANNGRTALHLFADI-------HPDVVLMDIRM-------PEMDGIKALKEM 70

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828  87 RALAGRGAkapeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVR 141
Cdd:PRK11361  71 RSHETRTP----VILMTAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQ 121
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 7-100 2.75e-05

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


Pssm-ID: 381144 [Multi-domain]  Cd Length: 103  Bit Score: 41.72  E-value: 2.75e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPdiVVVGEAASGDEAVEKVRasldddSCDPIDLVLMDLRFGEAPG--TATRAGGVDATA 84
Cdd:cd18160    2 ILLADDEPSVRKFIVTTLKKAG--YAVTEAESGAEALEKLQ------QGKDIDIVVTDIVMPEMDGieLAREARKIDPDV 73

                         90
                 ....*....|....*.
gi 512463828  85 AIRALAGRGAKAPEVL 100
Cdd:cd18160   74 KILFISGGAAAAPELL 89
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 7-139 1.30e-04

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: 40.28  E-value: 1.30e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVgeAASGDEAVEKVRASldddscdPIDLVLMDLRFgeaPGTatraGGVDATAAI 86
Cdd:cd17554    3 ILVVDDEENIRELYKEELEDEGYEVVT--AGNGEEALEKLESE-------DPDLVILDIKM---PGM----DGLETLRKI 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 512463828  87 RAlagRGAKAPeVLVVTNYSSDSDVLGAVTAGAvgYLLKDAAPEELIDGIRRA 139
Cdd:cd17554   67 RE---KKPDLP-VIICTAYSEYKSDFSSWAADA--YVVKSSDLTELKETIKRL 113
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 163-207 1.54e-04

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: 40.79  E-value: 1.54e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 512463828  163 TALTPRELEVLELVA-RGMSNKKIADQLVLTEATVKSHLVHIFTKL 207
Cdd:TIGR02937 109 EKLPEREREVLVLRYlEGLSYKEIAEILGISVGTVKRRLKRARKKL 154
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
33-125 2.34e-04

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 41.55  E-value: 2.34e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  33 VGEAASGDEAVEKVRASLdddscdpIDLVLMDLRFGEAPGTATraggvdaTAAIRALAgrgaKAPEVLVVTNYSSDSDVL 112
Cdd:PRK10365  32 VALANSGRQALEQVREQV-------FDLVLCDVRMAEMDGIAT-------LKEIKALN----PAIPVLIMTAYSSVETAV 93

                         90
                 ....*....|...
gi 512463828 113 GAVTAGAVGYLLK 125
Cdd:PRK10365  94 EALKTGALDYLIK 106
PRK11697 PRK11697
two-component system response regulator BtsR;
5-47 3.23e-04

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 40.60  E-value: 3.23e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 512463828   5 IGVLIADDHPIVRAGLRAVVESAPDIVVVGEAASGDEAVEKVR 47
Cdd:PRK11697   2 IKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIH 44
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 7-141 7.50e-04

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: 38.13  E-value: 7.50e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVgeAASGDEAVEKVrasldddSCDPIDLVLMDLRFGeapgtatragGVDATAAI 86
Cdd:cd17627    1 ILVVDDDRAVRESLRRSLRFEGYEVET--AVDGAEALRVI-------SGNRPDAVVLDVMMP----------RLDGLEVC 61

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 512463828  87 RALAGRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVR 141
Cdd:cd17627   62 RRLRAAGNDLP-ILVLTARDSVSDRVAGLDAGADDYLVKPFALEELLARVRALLR 115
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 7-133 1.61e-03

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: 37.04  E-value: 1.61e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPDIVVVgeaASGD--EAVEKVRAsldddscDPIDLVLMDLRFgeaPGTatraGGVDATA 84
Cdd:cd17551    3 ILIVDDNPTNLLLLEALLRSAGYLEVV---SFTDprEALAWCRE-------NPPDLILLDYMM---PGM----DGLEFIR 65

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 512463828  85 AIRALAGrGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELI 133
Cdd:cd17551   66 RLRALPG-LEDVP-IVMITADTDREVRLRALEAGATDFLTKPFDPVELL 112
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 7-125 3.46e-03

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


Pssm-ID: 381151 [Multi-domain]  Cd Length: 111  Bit Score: 36.20  E-value: 3.46e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPdiVVVGEAASGDEAVEKVR--ASLDDDSCDPIDLVLMDLrfgEAPgtatRAGGVDATA 84
Cdd:cd19924    1 ILVVDDSPTARKQLRDLLKNLG--FEIAEAVDGEEALNKLEnlAKEGNDLSKELDLIITDI---EMP----KMDGYELTF 71

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 512463828  85 AIRAlAGRGAKAPeVLVVTNYSSDSDVLGAVTAGAVGYLLK 125
Cdd:cd19924   72 ELRD-DPRLANIP-VILNSSLSGEFSRARGKKVGADAYLAK 110
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 7-125 4.82e-03

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: 35.22  E-value: 4.82e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828   7 VLIADDHPIVRAGLRAVVESAPdiVVVGEAASGDEAVEKVRAsldddscDPIDLVLMDLRFGEapgtatraggVDATAAI 86
Cdd:cd17620    1 ILVIEDEPQIRRFLRTALEAHG--YRVFEAETGQEGLLEAAT-------RKPDLIILDLGLPD----------MDGLEVI 61

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 512463828  87 RALagRGAKAPEVLVVTNYSSDSDVLGAVTAGAVGYLLK 125
Cdd:cd17620   62 RRL--REWSAVPVIVLSARDEESDKIAALDAGADDYLTK 98
PRK11475 PRK11475
DNA-binding transcriptional activator BglJ; Provisional
 160-211 5.10e-03

DNA-binding transcriptional activator BglJ; Provisional


Pssm-ID: 236915 [Multi-domain]  Cd Length: 207  Bit Score: 37.03  E-value: 5.10e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 512463828 160 NPNTALTPRELEVLELVARGMSNKKIADQLVLTEATVKSHLVHIFTKLDVSS 211
Cdd:PRK11475 130 NQSRMLSPTEREILRFMSRGYSMPQIAEQLERNIKTIRAHKFNVMSKLGVSS 181
PRK11517 PRK11517
DNA-binding response regulator HprR;
79-177 5.83e-03

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 36.80  E-value: 5.83e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 512463828  79 GVDATAAIRALagRGAKAPEVLVVTNYSSDSDVLGAVTAGAVGYLLKDAAPEELIDGIRRAVRGETVLNT--QVAGRLMG 156
Cdd:PRK11517  56 GMDGWQILQTL--RTAKQTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNStlEISGLRMD 133

                         90       100
                 ....*....|....*....|....*..
gi 512463828 157 RMR------NPNTALTPRELEVLELVA 177
Cdd:PRK11517 134 SVSqsvsrdNISITLTRKEFQLLWLLA 160
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 178-200 8.76e-03

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: 35.62  E-value: 8.76e-03
                          10        20
                  ....*....|....*....|...
gi 512463828  178 RGMSNKKIADQLVLTEATVKSHL 200
Cdd:TIGR02985 128 EGLSNKEIAEELGISVKTVEYHI 150
Sigma70_r4 pfam04545
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 165-207 9.14e-03

Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.


Pssm-ID: 461347 [Multi-domain]  Cd Length: 50  Bit Score: 33.17  E-value: 9.14e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 512463828  165 LTPRELEVLELV-ARGMSNKKIADQLVLTEATVKSHLVHIFTKL 207
Cdd:pfam04545   5 LPPRERQVLVLRyGEGLTLEEIGERLGISRERVRQIEKRALRKL 48
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 164-207 9.18e-03

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 35.74  E-value: 9.18e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 512463828 164 ALTPRELEVLELVA-RGMSNKKIADQLVLTEATVKSHLVHIFTKL 207
Cdd:COG1595  127 RLPPRQREVLVLRYlEGLSYAEIAEILGISEGTVKSRLSRARKKL 171
 
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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