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Conserved domains on  [gi|488423229|ref|WP_002492614|]
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MULTISPECIES: response regulator transcription factor [Staphylococcus]

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
 2-205 9.89e-48

transcriptional regulator NarL; Provisional


The actual alignment was detected with superfamily member PRK10651:

Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 155.57  E-value: 9.89e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   2 ADIILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLV 81
Cdd:PRK10651   7 ATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIE-LAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVV 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKKPHYTNK-----LSKREIDVLR 156
Cdd:PRK10651  86 FSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRANRATTErdvnqLTPRERDILK 165

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 488423229 157 EMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQNN 205
Cdd:PRK10651 166 LIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQER 214
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 2-205 9.89e-48

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 155.57  E-value: 9.89e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   2 ADIILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLV 81
Cdd:PRK10651   7 ATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIE-LAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVV 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKKPHYTNK-----LSKREIDVLR 156
Cdd:PRK10651  86 FSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRANRATTErdvnqLTPRERDILK 165

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 488423229 157 EMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQNN 205
Cdd:PRK10651 166 LIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQER 214
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 4-121 9.99e-41

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: 134.56  E-value: 9.99e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELR-PDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLT 79

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:cd17535   80 AHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-207 1.11e-40

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: 134.63  E-value: 1.11e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLkknysdikvl 80
Cdd:COG2197    1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELR-PDVVLLDIRMPGMDGLEALRRL---------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  81 vltsyvddehvisainkgadgyemkdvepaklietirrvlageriihpeaktvmeavakkphytnkLSKREIDVLREMVK 160
Cdd:COG2197   70 ------------------------------------------------------------------LTPREREVLRLLAE 83

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 488423229 161 GKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQNNLI 207
Cdd:COG2197   84 GLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLL 130
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 4-117 9.36e-26

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


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 96.07  E-value: 9.36e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229    4 IILVDDHHIFRQGLEFLLStvEEFNVIESFANGASFISYLsENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLE--KEGYVVAEADDGKEALELL-KEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 488423229   84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIR 117
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 147-201 5.13e-23

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 87.20  E-value: 5.13e-23
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 488423229   147 LSKREIDVLREMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYA 201
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
spore_0_A TIGR02875
sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...
 4-158 3.71e-11

sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species. [Cellular processes, Sporulation and germination]


Pssm-ID: 131922 [Multi-domain]  Cd Length: 262  Bit Score: 60.58  E-value: 3.71e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229    4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLsENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDI--KVLV 81
Cdd:TIGR02875   5 IVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELI-KEQQPDVVVLDIIMPHLDGIGVLEKLNEIELSArpRVIM 83

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488423229   82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKKPHyTNKLSKREIDVLREM 158
Cdd:TIGR02875  84 LSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAWGTNADILADSPTVPPASHAAK-TKDLEAEITNIIHEI 159
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 2-205 9.89e-48

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 155.57  E-value: 9.89e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   2 ADIILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLV 81
Cdd:PRK10651   7 ATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIE-LAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVV 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKKPHYTNK-----LSKREIDVLR 156
Cdd:PRK10651  86 FSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRANRATTErdvnqLTPRERDILK 165

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 488423229 157 EMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQNN 205
Cdd:PRK10651 166 LIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQER 214
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 4-121 9.99e-41

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: 134.56  E-value: 9.99e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELR-PDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLT 79

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:cd17535   80 AHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-207 1.11e-40

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: 134.63  E-value: 1.11e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLkknysdikvl 80
Cdd:COG2197    1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELR-PDVVLLDIRMPGMDGLEALRRL---------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  81 vltsyvddehvisainkgadgyemkdvepaklietirrvlageriihpeaktvmeavakkphytnkLSKREIDVLREMVK 160
Cdd:COG2197   70 ------------------------------------------------------------------LTPREREVLRLLAE 83

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 488423229 161 GKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQNNLI 207
Cdd:COG2197   84 GLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLL 130
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 4-192 2.29e-38

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: 130.99  E-value: 2.29e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEeFNViESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:COG4566    2 VYIVDDDEAVRDSLAFLLESAG-LRV-ETFASAEAFLAALDPDR-PGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLT 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKkphyTNKLSKREIDVLREMVKGKT 163
Cdd:COG4566   79 GHGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAELRAR----LASLTPREREVLDLVVAGLS 154

                        170       180
                 ....*....|....*....|....*....
gi 488423229 164 NREIAETLFVSEKTIKTHVSHIFNKLQVS 192
Cdd:COG4566  155 NKQIARELGISPRTVEVHRANVMEKLGAR 183
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
4-203 1.45e-36

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 126.89  E-value: 1.45e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:PRK10403   9 VLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAID-LANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTAQIIILT 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVM---EAVAKKPHYTNKLSKREIDVLREMVK 160
Cdd:PRK10403  88 VSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVNQYLrerEMFGAEEDPFSVLTERELDVLHELAQ 167

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|...
gi 488423229 161 GKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQ 203
Cdd:PRK10403 168 GLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAATILFLQ 210
PRK15369 PRK15369
two component system response regulator;
4-191 2.34e-31

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 113.64  E-value: 2.34e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:PRK15369   6 ILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYN-ACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNILVLT 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHP--EAKTVMEAVAKKPHYTNKLSKREIDVLREMVKG 161
Cdd:PRK15369  85 ARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPalNREAILALLNADDTNPPLLTPRERQILKLITEG 164

                        170       180       190
                 ....*....|....*....|....*....|
gi 488423229 162 KTNREIAETLFVSEKTIKTHVSHIFNKLQV 191
Cdd:PRK15369 165 YTNRDIAEQLSISIKTVETHRLNMMRKLDV 194
PRK09483 PRK09483
response regulator; Provisional
 1-192 4.32e-29

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 107.88  E-value: 4.32e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYlSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVL 80
Cdd:PRK09483   1 MINVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKW-CRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKII 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  81 VLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKKPHYTN---KLSKREIDVLRE 157
Cdd:PRK09483  80 MLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQIEPATENpfaSLSERELQIMLM 159

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 488423229 158 MVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVS 192
Cdd:PRK09483 160 ITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNIS 194
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-189 4.60e-29

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: 107.35  E-value: 4.60e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTvEEFNVIEsFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVL 80
Cdd:COG0745    1 MPRILVVEDDPDIRELLADALER-EGYEVDT-AADGEEALELLEEER-PDLILLDLMLPGMDGLEVCRRLRARPSDIPII 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  81 VLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKKPHYTNK---LSKREIDVLRE 157
Cdd:COG0745   78 MLTARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRAAEVLRVGDLLDLAAREVTRDGEpveLTPKEFRLLEL 157

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 488423229 158 MVKGK----TNREIAETL----FVSEKTIKTHVSHIFNKL 189
Cdd:COG0745  158 LMRNPgrvvSREQLLEEVwgydYGDDRTVDVHISRLRKKL 197
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 4-105 1.31e-26

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: 97.92  E-value: 1.31e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:COG4753    2 VLIVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHK-PDLVITDINMPGMDGLELLEAIRELDPDTKIIILS 80

                         90       100
                 ....*....|....*....|..
gi 488423229  84 SYVDDEHVISAINKGADGYEMK 105
Cdd:COG4753   81 GYSDFEYAQEAIKLGADDYLLK 102
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 4-124 3.15e-26

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


Pssm-ID: 440547 [Multi-domain]  Cd Length: 128  Bit Score: 97.61  E-value: 3.15e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIEsFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKN--YSDIKVLV 81
Cdd:COG0784    8 ILVVDDNPDNRELLRRLLER-LGYEVTT-AEDGAEALELLRAGP-PDLILLDINMPGMDGLELLRRIRALprLPDIPIIA 84

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGER 124
Cdd:COG0784   85 LTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLARAS 127
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 4-117 9.36e-26

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


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 96.07  E-value: 9.36e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229    4 IILVDDHHIFRQGLEFLLStvEEFNVIESFANGASFISYLsENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLE--KEGYVVAEADDGKEALELL-KEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 488423229   84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIR 117
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-124 2.02e-25

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: 101.96  E-value: 2.02e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTvEEFNViESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVL 80
Cdd:COG2204    2 MARILVVDDDPDIRRLLKELLER-AGYEV-ETAASGEEALALLREEP-PDLVLLDLRMPGMDGLELLRELRALDPDLPVI 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 488423229  81 VLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGER 124
Cdd:COG2204   79 LLTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRR 122
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 4-121 4.50e-25

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: 94.34  E-value: 4.50e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd19931    1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIE-LAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILT 79

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:cd19931   80 VSDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQAAS 117
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-121 4.51e-25

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 95.04  E-value: 4.51e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVL 80
Cdd:COG4565    3 MIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHR-PDLILLDIYLPDGDGLELLRELRARGPDVDVI 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 488423229  81 VLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:COG4565   82 VITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLE 122
PRK10360 PRK10360
transcriptional regulator UhpA;
1-198 1.12e-23

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 93.12  E-value: 1.12e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSeNQAPDIVLLDLVMPEMNGIEVTEFLKKNYSdikVL 80
Cdd:PRK10360   1 MITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLP-GRGVQVCICDISMPDISGLELLSQLPKGMA---TI 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  81 VLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKKPhytnkLSKREIDVLREMVK 160
Cdd:PRK10360  77 MLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLASGRQDP-----LTKRERQVAEKLAQ 151

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 488423229 161 GKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAA 198
Cdd:PRK10360 152 GMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELA 189
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 6-102 3.14e-23

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: 89.21  E-value: 3.14e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   6 LVDDHHIFRQGLEFLLStvEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLTSY 85
Cdd:cd00156    2 IVDDDPAIRELLKSLLE--REGYEVDTAADGEEALELLREER-PDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAK 78

                         90
                 ....*....|....*..
gi 488423229  86 VDDEHVISAINKGADGY 102
Cdd:cd00156   79 ADEEDAVRALELGADDY 95
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 4-127 3.20e-23

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: 92.54  E-value: 3.20e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIEsFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYS--DIKVLV 81
Cdd:COG3437    9 VLIVDDDPENLELLRQLLRT-LGYDVVT-AESGEEALELLLEAP-PDLILLDVRMPGMDGFELLRLLRADPStrDIPVIF 85

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIH 127
Cdd:COG3437   86 LTALADPEDRERALEAGADDYLTKPFDPEELLARVRNALELRRLQR 131
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 4-121 4.15e-23

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: 89.32  E-value: 4.15e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVE-EFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVL 82
Cdd:cd17536    1 VLIVDDEPLIREGLKKLIDWEElGFEVVGEAENGEEALELIEEHK-PDIVITDIRMPGMDGLELIEKIRELYPDIKIIIL 79

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 488423229  83 TSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:cd17536   80 SGYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKE 118
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 147-201 5.13e-23

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 87.20  E-value: 5.13e-23
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 488423229   147 LSKREIDVLREMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYA 201
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 4-121 9.09e-23

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: 88.48  E-value: 9.09e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd19930    1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALR-LVLKHSPDVAILDIEMPGRTGLEVAAELREELPDTKVLIVT 79

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:cd19930   80 TFGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVHA 117
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 1-116 1.40e-22

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: 89.58  E-value: 1.40e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTvEEFNVIEsFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKN--YSDIK 78
Cdd:COG3706    1 PARILVVDDDPTNRKLLRRLLEA-AGYEVVE-AADGEEALELLQEHR-PDLILLDLEMPDMDGLELCRRLRADprTADIP 77

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488423229  79 VLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETI 116
Cdd:COG3706   78 IIFLTALDDEEDRARALEAGADDYLTKPFDPEELLARV 115
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
2-207 1.81e-22

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 90.32  E-value: 1.81e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   2 ADIILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLsENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLV 81
Cdd:PRK09935   4 ASVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYL-RTRPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVLF 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAV--AKKPHYTNKLSKREIDVLREMV 159
Cdd:PRK09935  83 LSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSETLNYIKSNkcSTNSSTDTVLSNREVTILRYLV 162

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 488423229 160 KGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQNNLI 207
Cdd:PRK09935 163 SGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAKLHELL 210
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 147-207 2.23e-22

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: 86.17  E-value: 2.23e-22
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488423229 147 LSKREIDVLREMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQNNLI 207
Cdd:COG5905   13 LTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLL 73
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 4-121 1.55e-20

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 85.64  E-value: 1.55e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:COG3279    4 ILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHK-PDLVFLDIQMPGLDGFELARQLRELDPPPPIIFTT 82

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488423229  84 SYvdDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:COG3279   83 AY--DEYALEAFEVNAVDYLLKPIDEERLAKALEKAKE 118
GerE pfam00196
Bacterial regulatory proteins, luxR family;
147-201 2.00e-19

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 78.01  E-value: 2.00e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 488423229  147 LSKREIDVLREMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYA 201
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
146-207 2.33e-18

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 79.03  E-value: 2.33e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488423229 146 KLSKREIDVLREMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQNNLI 207
Cdd:COG2771  127 GLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGLI 188
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 6-102 2.99e-18

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: 76.29  E-value: 2.99e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   6 LVDDHHIFRQGLEFLLStVEEFNVIEsFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLTSY 85
Cdd:cd17574    2 VVEDDEEIAELLSDYLE-KEGYEVDT-AADGEEALELAREEQ-PDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLTAK 78

                         90
                 ....*....|....*..
gi 488423229  86 VDDEHVISAINKGADGY 102
Cdd:cd17574   79 DEEEDKVLGLELGADDY 95
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 147-201 3.90e-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: 74.49  E-value: 3.90e-18
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 488423229 147 LSKREIDVLREMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYA 201
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYA 55
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 4-120 1.82e-17

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: 74.62  E-value: 1.82e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17542    3 VLIVDDAAFMRMMLKDILTK-AGYEVVGEAANGEEAVEKYKELK-PDLVTMDITMPEMDGIEALKEIKKIDPNAKVIMCS 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17542   81 AMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKVL 117
fixJ PRK09390
response regulator FixJ; Provisional
 7-190 2.44e-17

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 76.58  E-value: 2.44e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   7 VDDHHIFRQGLEFLLSTVEeFNVIeSFANGASFISYLSEnQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLTSYV 86
Cdd:PRK09390   9 VDDDEAMRDSLAFLLDSAG-FEVR-LFESAQAFLDALPG-LRFGCVVTDVRMPGIDGIELLRRLKARGSPLPVIVMTGHG 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  87 DDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAgERIIHPEAKTVMEAVAKKphyTNKLSKREIDVLREMVKGKTNRE 166
Cdd:PRK09390  86 DVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALA-QAPEAAKSEAVAADIRAR---IASLSERERQVMDGLVAGLSNKV 161

                        170       180
                 ....*....|....*....|....
gi 488423229 167 IAETLFVSEKTIKTHVSHIFNKLQ 190
Cdd:PRK09390 162 IARDLDISPRTVEVYRANVMTKMQ 185
Spo0F COG5803
Stage 0 sporulation initiation response regulator Spo0F [Cell cycle control, cell division, ...
 1-121 3.21e-17

Stage 0 sporulation initiation response regulator Spo0F [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444505 [Multi-domain]  Cd Length: 119  Bit Score: 74.06  E-value: 3.21e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDhhifRQGLEFLLSTV---EEFNVIESfANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDI 77
Cdd:COG5803    2 MKKILIVDD----QAGIRMLLKEVlkkEGYEVFQA-ANGKEALEKVKELK-PDLVLLDMKMPGMDGIEILKEIKEIDPDI 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 488423229  78 KVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:COG5803   76 PVIMMTAYGELDMVEEAKELGAKGYFTKPFDIDELREAVNKLLK 119
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 2-99 9.11e-17

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: 72.86  E-value: 9.11e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   2 ADIILVDDHHIFRQGLEFLLSTVEEFNVIeSFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKK--NYSDIKV 79
Cdd:cd17551    1 MRILIVDDNPTNLLLLEALLRSAGYLEVV-SFTDPREALAWCRENP-PDLILLDYMMPGMDGLEFIRRLRAlpGLEDVPI 78

                         90       100
                 ....*....|....*....|
gi 488423229  80 LVLTSYVDDEHVISAINKGA 99
Cdd:cd17551   79 VMITADTDREVRLRALEAGA 98
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 4-119 1.20e-16

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: 72.57  E-value: 1.20e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17532    1 ALIVDDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEELK-PDVVFLDIQMPGLDGLELAKKLSKLAKPPLIVFVT 79

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 488423229  84 SYvdDEHVISAINKGADGYEMKDVEPAKLIETIRRV 119
Cdd:cd17532   80 AY--DEYAVEAFELNAVDYLLKPFSEERLAEALAKL 113
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
5-206 2.18e-16

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 74.16  E-value: 2.18e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   5 ILVDDHHIFRQGLEFLLSTvEEFNVIESFANGASFISYLsENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLTS 84
Cdd:PRK09958   4 IIIDDHPLAIAAIRNLLIK-NDIEILAELTEGGSAVQRV-ETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVSA 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  85 YVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKKPHYTNKLSKREIDVLREMVKGKTN 164
Cdd:PRK09958  82 KNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFPFSLNRFVGSLTSDQQKLDSLSKQEISVMRYILDGKDN 161

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 488423229 165 REIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQNNL 206
Cdd:PRK09958 162 NDIAEKMFISNKTVSTYKSRLMEKLECKSLMDLYTFAQRNKI 203
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
156-207 8.27e-16

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 72.04  E-value: 8.27e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 488423229 156 REMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQNNLI 207
Cdd:COG2909  132 RLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARELGLL 183
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 3-193 4.38e-15

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 70.63  E-value: 4.38e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   3 DIILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQApDIVLLDLVMP---EMNGIEVTEFLKKNYSDIKV 79
Cdd:PRK10840   5 NVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDA-HVLITDLSMPgdkYGDGITLIKYIKRHFPSLSI 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  80 LVLTSYvDDEHVISAI-NKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKKPHYTNKLSKREIDVLREM 158
Cdd:PRK10840  84 IVLTMN-NNPAILSAVlDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPESVSRLLEKISAGGYGDKRLSPKESEVLRLF 162

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 488423229 159 VKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSD 193
Cdd:PRK10840 163 AEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVEN 197
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 3-119 9.40e-15

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: 67.83  E-value: 9.40e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   3 DIILVDD--HHIfrqglEFLLSTVEEFNV---IESFANGASFISYL------SENQAPDIVLLDLVMPEMNGIEVTEFLK 71
Cdd:cd17557    1 TILLVEDnpGDA-----ELIQEAFKEAGVpneLHVVRDGEEALDFLrgegeyADAPRPDLILLDLNMPRMDGFEVLREIK 75

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 488423229  72 KN--YSDIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRV 119
Cdd:cd17557   76 ADpdLRRIPVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSL 125
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 4-100 5.60e-14

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


Pssm-ID: 381093 [Multi-domain]  Cd Length: 104  Bit Score: 65.21  E-value: 5.60e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLsTVEEFNVIESfANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKN--YSDIKVLV 81
Cdd:cd17538    2 ILVVDDEPANRELLEALL-SAEGYEVLTA-DSGQEALA-LAEEELPDLILLDVMMPGMDGFEVCRRLKEDpeTRHIPVIM 78

                         90
                 ....*....|....*....
gi 488423229  82 LTSYVDDEHVISAINKGAD 100
Cdd:cd17538   79 ITALDDREDRIRGLEAGAD 97
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 4-120 1.59e-13

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


Pssm-ID: 381101 [Multi-domain]  Cd Length: 130  Bit Score: 64.43  E-value: 1.59e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLsTVEEFNViESFANGASFISYLSENqAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17549    1 VLLVDDDADVREALQQTL-ELAGFRV-RAFADAEEALAALSPD-FPGVVISDIRMPGMDGLELLAQIRELDPDLPVILIT 77

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488423229  84 SYVDDEHVISAINKGA-DGYEmKDVEPAKLIETIRRVL 120
Cdd:cd17549   78 GHGDVPMAVEAMRAGAyDFLE-KPFDPERLLDVVRRAL 114
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 4-118 1.88e-13

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: 64.10  E-value: 1.88e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLStVEEFNVIESfANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKN--YSDIKVLV 81
Cdd:cd17548    2 ILIVEDNPLNMKLARDLLE-SAGYEVLEA-ADGEEALEIARKEK-PDLILMDIQLPGMDGLEATRLLKEDpaTRDIPVIA 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 488423229  82 LTSYV---DDEHVISAinkGADGYEMKDVEPAKLIETIRR 118
Cdd:cd17548   79 LTAYAmkgDREKILEA---GCDGYISKPIDTREFLETVAK 115
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 4-120 2.01e-13

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: 63.86  E-value: 2.01e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNViESFANGASFISYLSEnQAPDIVLLDLVMPEMNGIEVTEFLKKNySDIKVLVLT 83
Cdd:cd17623    1 ILLIDDDRELTELLTEYLEM-EGFNV-RAAHDGEQGLAALLE-GSPDLVVLDVMLPKMNGLDVLKELRKT-SQVPVLMLT 76

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17623   77 ARGDDIDRILGLELGADDYLPKPFNPRELVARIRAIL 113
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 4-116 2.28e-13

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: 63.64  E-value: 2.28e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVeeFNVIESFANGASFISYLSEnQAPDIVLLDLVMPEMNGIEVTEFLKK---NYSDIKVL 80
Cdd:cd17546    1 VLVVDDNPVNRKVLKKLLEKL--GYEVDVAENGQEALELLKE-EPFDLVLMDLQMPVMDGLEATRRIRElegGGRRTPII 77

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 488423229  81 VLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETI 116
Cdd:cd17546   78 ALTANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 2-119 3.57e-13

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: 63.39  E-value: 3.57e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   2 ADIILVDDH----HIFRQGLEfllstvEEFNVIESFANGASFISYLsENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDI 77
Cdd:cd17554    1 KKILVVDDEenirELYKEELE------DEGYEVVTAGNGEEALEKL-ESEDPDLVILDIKMPGMDGLETLRKIREKKPDL 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 488423229  78 KVLVLTSYVDDEHVISAINkgADGYEMKDVEPAKLIETIRRV 119
Cdd:cd17554   74 PVIICTAYSEYKSDFSSWA--ADAYVVKSSDLTELKETIKRL 113
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 4-116 3.77e-13

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: 63.19  E-value: 3.77e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIESFANGASFISYLSENQaPDIVLLDLVMP-EMNGIEVTEFLKKNYsDIKVLVL 82
Cdd:cd17534    3 ILIVEDEAIIALDLKEILES-LGYEVVGIADSGEEAIELAEENK-PDLILMDINLKgDMDGIEAAREIREKF-DIPVIFL 79

                         90       100       110
                 ....*....|....*....|....*....|....
gi 488423229  83 TSYVDDEHVISAINKGADGYEMKDVEPAKLIETI 116
Cdd:cd17534   80 TAYSDEETLERAKETNPYGYLVKPFNERELKAAI 113
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 4-120 4.86e-13

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


Pssm-ID: 381092 [Multi-domain]  Cd Length: 116  Bit Score: 63.00  E-value: 4.86e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEeFNViESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17537    3 VYVVDDDEAVRDSLAFLLRSVG-LAV-KTFTSASAFLAAAPPDQ-PGCLVLDVRMPGMSGLELQDELLARGSNIPIIFIT 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17537   80 GHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQAL 116
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 4-120 1.08e-12

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: 62.02  E-value: 1.08e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLStVEEFNViESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17627    1 ILVVDDDRAVRESLRRSLR-FEGYEV-ETAVDGAEALRVISGNR-PDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLT 77

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 488423229  84 --SYVDDEhvISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17627   78 arDSVSDR--VAGLDAGADDYLVKPFALEELLARVRALL 114
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 4-116 2.18e-12

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: 60.93  E-value: 2.18e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTveEFNVIESFANGASFISYLsENQAPDIVLLDLVMPEMNGIEVTEFLKKN--YSDIKVLV 81
Cdd:cd17580    1 ILVVDDNEDAAEMLALLLEL--EGAEVTTAHSGEEALEAA-QRFRPDVILSDIGMPGMDGYELARRLRELpwLANTPAIA 77

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETI 116
Cdd:cd17580   78 LTGYGQPEDRERALEAGFDAHLVKPVDPDELIELI 112
PRK10100 PRK10100
transcriptional regulator CsgD;
51-204 2.42e-12

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 63.35  E-value: 2.42e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  51 IVLLDLVMPEMNGIEV-TEFLKKNYSDIKVLVLTSyvddehvisainkgADGYEMKDVE--PA------------KLIET 115
Cdd:PRK10100  55 IILLDMMEADKKLIHYwQDTLSRKNNNIKILLLNT--------------PEDYPYREIEnwPHingvfyamedqeRVVNG 120

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229 116 IRRVLAGERIIHPEAKTVMEAVAKKPHYTNK----LSKREIDVLREMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQV 191
Cdd:PRK10100 121 LQGVLRGECYFTQKLASYLITHSGNYRYNSTesalLTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAV 200

                        170
                 ....*....|...
gi 488423229 192 SDRTQAAIYAMQN 204
Cdd:PRK10100 201 KNRTQAVSWANDN 213
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 4-120 2.66e-12

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: 61.20  E-value: 2.66e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEeFNVIESFANGASFISYLSENQApDIVLLDLVMPEMNGIEVTEFLK--KNYSDIKVLV 81
Cdd:cd19923    3 VLVVDDFSTMRRIIKNLLKELG-FNNVEEAEDGVDALEKLKAGGF-DFVITDWNMPNMDGLELLKTIRadGALSHLPVLM 80

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd19923   81 VTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKIF 119
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 2-117 2.99e-12

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


Pssm-ID: 381141 [Multi-domain]  Cd Length: 115  Bit Score: 60.95  E-value: 2.99e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   2 ADIILVDDHHIFRQGLEFLLSTvEEFNVIESFANGASFISYLSENqaPDIVLLDLVMPEMNGIEVTEFLKKNySDIKVLV 81
Cdd:cd17626    1 ARILVVDDDAALAEMIGIVLRG-EGFDPAFCGDGTQALAAFREVR--PDLVLLDLMLPGIDGIEVCRQIRAE-SGVPIVM 76

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIR 117
Cdd:cd17626   77 LTAKSDTVDVVLGLESGADDYVAKPFKPKELVARIR 112
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 4-117 3.64e-12

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: 60.87  E-value: 3.64e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYsDIKVLVLT 83
Cdd:cd17541    3 VLIVDDSAVMRKLLSRILESDPDIEVVGTARDGEEALEKIKELK-PDVITLDIEMPVMDGLEALRRIMAER-PTPVVMVS 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 488423229  84 SYVDD--EHVISAINKGA-------DGYEMKDVEPAK--LIETIR 117
Cdd:cd17541   81 SLTEEgaEITLEALELGAvdfiakpSGGISLDLEEIAeeLIEKIK 125
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 4-120 4.78e-12

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: 60.39  E-value: 4.78e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIESfANGASFISYLSENQApDIVLLDLVMPEMNGIEVTEFLKKN--YSDIKVLV 81
Cdd:cd17562    3 ILAVDDSASIRQMVSFTLRG-AGYEVVEA-ADGRDALSKAQSKKF-DLIITDQNMPNMDGIELIKELRKLpaYKFTPILM 79

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17562   80 LTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKVL 118
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 4-121 7.44e-12

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


Pssm-ID: 443624 [Multi-domain]  Cd Length: 177  Bit Score: 61.09  E-value: 7.44e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLstvEE--FNViESFANGASFISYLsENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLV 81
Cdd:COG4567    7 LLLVDDDEAFARVLARAL---ERrgFEV-TTAASVEEALALL-EQAPPDYAVLDLRLGDGSGLDLIEALRERDPDARIVV 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:COG4567   82 LTGYASIATAVEAIKLGADDYLAKPADADDLLAALERAEG 121
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 4-120 1.22e-11

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: 59.19  E-value: 1.22e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLsTVEEFNVIESfANGASFISYLSEnQAPDIVLLDLVMPEMNGIEVTEFLKK--NYSDIKVLV 81
Cdd:cd17618    3 ILIVEDEPAIREMIAFNL-ERAGFDVVEA-EDAESAVNLIVE-PRPDLILLDWMLPGGSGIQFIRRLKRdeMTRDIPIIM 79

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17618   80 LTARGEEEDKVRGLEAGADDYITKPFSPRELVARIKAVL 118
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 4-105 1.63e-11

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


Pssm-ID: 381109 [Multi-domain]  Cd Length: 108  Bit Score: 58.77  E-value: 1.63e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFL--KKNYSDIKVLV 81
Cdd:cd17561    4 VLIADDNREFVQLLEEYLNSQPDMEVVGVAHNGQEALE-LIEEKEPDVLLLDIIMPHLDGIGVLEKLrrMRLEKRPKIIM 82

                         90       100
                 ....*....|....*....|....
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMK 105
Cdd:cd17561   83 LTAFGQEDITQRAVELGASYYILK 106
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 4-122 2.25e-11

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


Pssm-ID: 381128 [Multi-domain]  Cd Length: 118  Bit Score: 58.49  E-value: 2.25e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNViESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLK--KNYSDIKVLV 81
Cdd:cd17598    1 ILIVEDSPTQAEQLKHILEE-QGYKV-QVARNGREALAMLAEHR-PTLVISDIVMPEMDGYELCRKIKsdPDLKDIPVIL 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAG 122
Cdd:cd17598   78 LTTLSDPRDVIRGLECGADNFITKPYDEKYLLSRIKYILVN 118
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
4-120 2.65e-11

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 61.79  E-value: 2.65e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLStVEEFNVIESfANGASFISYLSEnQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:PRK11361   7 ILIVDDEDNVRRMLSTAFA-LQGFETHCA-NNGRTALHLFAD-IHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMT 83

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 488423229  84 SYVDDEHVISAINKGADGYEMK--DVEPAKLIetIRRVL 120
Cdd:PRK11361  84 AYAEVETAVEALRCGAFDYVIKpfDLDELNLI--VQRAL 120
spore_0_A TIGR02875
sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...
 4-158 3.71e-11

sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species. [Cellular processes, Sporulation and germination]


Pssm-ID: 131922 [Multi-domain]  Cd Length: 262  Bit Score: 60.58  E-value: 3.71e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229    4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLsENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDI--KVLV 81
Cdd:TIGR02875   5 IVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELI-KEQQPDVVVLDIIMPHLDGIGVLEKLNEIELSArpRVIM 83

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488423229   82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKKPHyTNKLSKREIDVLREM 158
Cdd:TIGR02875  84 LSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAWGTNADILADSPTVPPASHAAK-TKDLEAEITNIIHEI 159
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 4-121 5.63e-11

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


Pssm-ID: 381113 [Multi-domain]  Cd Length: 118  Bit Score: 57.41  E-value: 5.63e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIeSFANGASFISYLSENQApDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17569    3 ILLVDDEPNILKALKRLLRR-EGYEVL-TATSGEEALEILKQEPV-DVVISDQRMPGMDGAELLKRVRERYPDTVRILLT 79

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 488423229  84 SYVDDEHVISAINKGA-DGYEMKDVEPAKLIETIRRVLA 121
Cdd:cd17569   80 GYADLDAAIEAINEGEiYRFLTKPWDDEELKETIRQALE 118
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 4-121 7.05e-11

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: 58.81  E-value: 7.05e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNySDIKVLVLT 83
Cdd:COG3707    6 VLVVDDEPLRRADLREGLRE-AGYEVVAEAADGEDAVE-LVRELKPDLVIVDIDMPDRDGLEAARQISEE-RPAPVILLT 82

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:COG3707   83 AYSDPELIERALEAGVSAYLVKPLDPEDLLPALELALA 120
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 4-127 8.53e-11

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: 57.21  E-value: 8.53e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNvIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17572    1 VLLVEDSPSLAALYQEYLSD-EGYK-VTHVETGKEALAFLSDQP-PDVVLLDLKLPDMSGMEILKWIQERSLPTSVIVIT 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIH 127
Cdd:cd17572   78 AHGSVDIAVEAMRLGAYDFLEKPFDADRLRVTVRNALKHRKLTK 121
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 2-118 8.55e-11

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


Pssm-ID: 381107 [Multi-domain]  Cd Length: 116  Bit Score: 56.83  E-value: 8.55e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   2 ADIILVDDHHIFRQGLEFLLSTvEEFNVIESfANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLV 81
Cdd:cd17555    1 ATILVIDDDEVVRESIAAYLED-SGFQVLQA-ADGRQGLELFRSEQ-PDLVLCDLRMPEMDGLEVLKQITKESPDTPVIV 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 488423229  82 L--TSYVDDehVISAINKGADGYEMKDVEPAKLIE-TIRR 118
Cdd:cd17555   78 VsgAGVMSD--AVEALRLGAWDYLTKPIEDLAVLEhAVRR 115
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 4-120 9.06e-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: 56.72  E-value: 9.06e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNViESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17624    1 ILLVEDDALLGDGLKTGLRK-AGYAV-DWVRTGAEAEAALASGP-YDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILT 77

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17624   78 ARDGVDDRVAGLDAGADDYLVKPFALEELLARLRALL 114
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 4-99 1.16e-10

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: 56.37  E-value: 1.16e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVieSFA-NGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKN--YSDIKVL 80
Cdd:cd19920    1 ILIVDDVPDNLRLLSELLRA-AGYRV--LVAtDGQQALQRAQAEP-PDLILLDVMMPGMDGFEVCRRLKADpaTRHIPVI 76

                         90
                 ....*....|....*....
gi 488423229  81 VLTSYVDDEHVISAINKGA 99
Cdd:cd19920   77 FLTALTDTEDKVKGFELGA 95
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 4-89 2.13e-10

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


Pssm-ID: 381144 [Multi-domain]  Cd Length: 103  Bit Score: 55.59  E-value: 2.13e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLsTVEEFNVIEsFANGASFISYLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd18160    2 ILLADDEPSVRKFIVTTL-KKAGYAVTE-AESGAEALEKLQQGKDIDIVVTDIVMPEMDGIELAREARKIDPDVKILFIS 79


                 ....*.
gi 488423229  84 SYVDDE 89
Cdd:cd18160   80 GGAAAA 85
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 4-121 2.32e-10

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


Pssm-ID: 381102 [Multi-domain]  Cd Length: 115  Bit Score: 55.58  E-value: 2.32e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLStvEEFNVIESFANGASFISYLSENqAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17550    1 ILIVDDEEDIRESLSGILE--DEGYEVDTAADGEEALKLIKER-RPDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIMIS 77

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:cd17550   78 GHGTIETAVKATKLGAYDFIEKPLSLDRLLLTIERALE 115
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 4-102 3.11e-10

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


Pssm-ID: 381135 [Multi-domain]  Cd Length: 99  Bit Score: 54.86  E-value: 3.11e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIESfANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKnYSDIKVLVLT 83
Cdd:cd17620    1 ILVIEDEPQIRRFLRTALEA-HGYRVFEA-ETGQEGLLEAATRK-PDLIILDLGLPDMDGLEVIRRLRE-WSAVPVIVLS 76

                         90
                 ....*....|....*....
gi 488423229  84 SYVDDEHVISAINKGADGY 102
Cdd:cd17620   77 ARDEESDKIAALDAGADDY 95
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 4-110 3.41e-10

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: 55.14  E-value: 3.41e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNViESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17563    3 LLLVDDDEVFAERLARALER-RGFEV-ETAHSVEEALALAREEK-PDYAVLDLRLGGDSGLDLIPPLRALQPDARIVVLT 79

                         90       100
                 ....*....|....*....|....*..
gi 488423229  84 SYVDDEHVISAINKGADGYEMKdvePA 110
Cdd:cd17563   80 GYASIATAVEAIKLGADDYLAK---PA 103
orf27 CHL00148
Ycf27; Reviewed
 4-120 4.60e-10

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 57.42  E-value: 4.60e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEeFNVIESfANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNySDIKVLVLT 83
Cdd:CHL00148   9 ILVVDDEAYIRKILETRLSIIG-YEVITA-SDGEEALKLFRKEQ-PDLVILDVMMPKLDGYGVCQEIRKE-SDVPIIMLT 84

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:CHL00148  85 ALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVL 121
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 3-120 4.84e-10

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: 54.97  E-value: 4.84e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   3 DIILVDDHHIFRQGLEFLLSTvEEFNViESFANGASFISYLsENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVL 82
Cdd:cd19919    2 TVWIVDDDSSIRWVLERALAG-AGLTV-TSFENAQEALAAL-ASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVIIM 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 488423229  83 TSYVDDEHVISAINKGADGYEMK--DVEPAklIETIRRVL 120
Cdd:cd19919   79 TAHSDLDSAVSAYQGGAFEYLPKpfDIDEA--VALVERAI 116
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 4-120 9.11e-10

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


Pssm-ID: 381104 [Multi-domain]  Cd Length: 121  Bit Score: 54.48  E-value: 9.11e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESfANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYS--DIKVLV 81
Cdd:cd17552    4 ILVIDDEEDIREVVQACLEKLAGWEVLTA-SSGQEGLEKAATEQ-PDAILLDVMMPDMDGLATLKKLQANPEtqSIPVIL 81

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17552   82 LTAKAQPSDRQRFASLGVAGVIAKPFDPLTLAEQIAKLL 120
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 4-121 2.12e-09

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


Pssm-ID: 381131 [Multi-domain]  Cd Length: 118  Bit Score: 53.13  E-value: 2.12e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQglefLLSTV---EEFNViESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVL 80
Cdd:cd17615    2 VLVVDDEPNITE----LLSMAlryEGWDV-ETAADGAEALA-AAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVL 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 488423229  81 VLTSYVDDEHVISAINKGADGYEMKdvePAKLIETIRRVLA 121
Cdd:cd17615   76 FLTAKDSVEDRIAGLTAGGDDYVTK---PFSLEEVVARLRA 113
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 45-120 4.00e-09

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: 52.38  E-value: 4.00e-09
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 488423229  45 ENQAPDIVLLDLVMPEMNGIEVTEFLKKnYSDIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17622   41 AREKPDAVLLDIMLPGIDGLTLCRDLRP-KYQGPILLLTALDSDIDHILGLELGADDYVVKPVEPAVLLARLRALL 115
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 32-120 8.68e-09

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


Pssm-ID: 381165 [Multi-domain]  Cd Length: 114  Bit Score: 51.61  E-value: 8.68e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  32 SFANGASFISYLSENqAPDIVLLDLVMPEMNGIEVTEFLKKnYSDIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAK 111
Cdd:cd19938   28 LLAHGDQVLPYVRHT-PPDLILLDLMLPGTDGLTLCREIRR-FSDVPIIMVTARVEEIDRLLGLELGADDYICKPYSPRE 105


                 ....*....
gi 488423229 112 LIETIRRVL 120
Cdd:cd19938  106 VVARVKAIL 114
pleD PRK09581
response regulator PleD; Reviewed
 1-117 9.47e-09

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 54.14  E-value: 9.47e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTvEEFNVIESfANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNY--SDIK 78
Cdd:PRK09581   2 TARILVVDDIPANVKLLEAKLLA-EYYTVLTA-SSGAEAIA-ICEREQPDIILLDVMMPGMDGFEVCRRLKSDPatTHIP 78

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 488423229  79 VLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIR 117
Cdd:PRK09581  79 VVMVTALDDPEDRVRGLEAGADDFLTKPINDVALFARVK 117
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 45-119 1.26e-08

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: 51.00  E-value: 1.26e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 488423229  45 ENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRV 119
Cdd:cd17593   42 REGRIDVLFLDLTMPVMDGYEVLEALPVEQLETKVIVVSGDVQPEAKERVLELGALAFLKKPFDPEKLAQLLEEL 116
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 4-120 1.31e-08

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


Pssm-ID: 381166 [Multi-domain]  Cd Length: 116  Bit Score: 51.22  E-value: 1.31e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILV-DDHHIFRQGLEFLLSTVEEfnvIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKkNYSDIKVLVL 82
Cdd:cd19939    2 ILIVeDELELARLTRDYLIKAGLE---VSVFTDGQRAVRRIIDEQ-PSLVVLDIMLPGMDGLTVCREVR-EHSHVPILML 76

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488423229  83 TSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd19939   77 TARTEEMDRVLGLEMGADDYLCKPFSPRELLARVRALL 114
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
1-120 1.51e-08

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 52.88  E-value: 1.51e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLStVEEFNVIESFaNGASFISYLseNQAPDIVLLDLVMPEMNGIEVTEFLKKNYSdIKVL 80
Cdd:PRK10955   1 MNKILLVDDDRELTSLLKELLE-MEGFNVIVAH-DGEQALDLL--DDSIDLLLLDVMMPKKNGIDTLKELRQTHQ-TPVI 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 488423229  81 VLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:PRK10955  76 MLTARGSELDRVLGLELGADDYLPKPFNDRELVARIRAIL 115
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 4-121 1.52e-08

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: 50.88  E-value: 1.52e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLsTVEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSdIKVLVLT 83
Cdd:cd19932    3 VLIAEDEALIRMDLREML-EEAGYEVVGEASDGEEAVE-LAKKHKPDLVIMDVKMPRLDGIEAAKIITSENI-APIVLLT 79

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:cd19932   80 AYSQQDLVERAKEAGAMAYLVKPFSESDLIPAIEMAIA 117
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 4-155 2.94e-08

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 52.95  E-value: 2.94e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTveEFNVIESFANGASFISYLSENqAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:PRK10923   6 VWVVDDDSSIRWVLERALAG--AGLTCTTFENGNEVLEALASK-TPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMT 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGER---------IIHPEAKTVMEAVAKKPHY--TNKLSKREI 152
Cdd:PRK10923  83 AHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISHYQeqqqprniqVNGPTTDIIGEAPAMQDVFriIGRLSRSSI 162


                 ...
gi 488423229 153 DVL 155
Cdd:PRK10923 163 SVL 165
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 50-120 3.29e-08

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


Pssm-ID: 381140 [Multi-domain]  Cd Length: 115  Bit Score: 49.91  E-value: 3.29e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488423229  50 DIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17625   43 DLIILDIMLPGMDGLEVLKSLREEGIETPVLLLTALDAVEDRVKGLDLGADDYLPKPFSLAELLARIRALL 113
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 4-105 3.44e-08

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


Pssm-ID: 381163 [Multi-domain]  Cd Length: 99  Bit Score: 49.37  E-value: 3.44e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNViESFANGASFISYLSEnQAPDIVLLDLVMPEMNGIEVTEFLKKNySDIKVLVLT 83
Cdd:cd19936    1 IALVDDDRNILTSVSMALEA-EGFSV-ETYTDGASALDGLNA-RPPDLAILDIKMPRMDGMELLQRLRQK-STLPVIFLT 76

                         90       100
                 ....*....|....*....|..
gi 488423229  84 SYVDDEHVISAINKGADGYEMK 105
Cdd:cd19936   77 SKDDEIDEVFGLRMGADDYITK 98
PRK10610 PRK10610
chemotaxis protein CheY;
1-120 5.22e-08

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 49.97  E-value: 5.22e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MAD----IILVDDHHIFRQGLEFLLSTVEeFNVIESFANGASFISYLSENQApDIVLLDLVMPEMNGIEVTEFLKKN--Y 74
Cdd:PRK10610   1 MADkelkFLVVDDFSTMRRIVRNLLKELG-FNNVEEAEDGVDALNKLQAGGF-GFVISDWNMPNMDGLELLKTIRADgaM 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 488423229  75 SDIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:PRK10610  79 SALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIF 124
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 4-85 6.28e-08

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


Pssm-ID: 381145 [Multi-domain]  Cd Length: 102  Bit Score: 48.88  E-value: 6.28e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGL-EFLLS---TVEEFnviesfANGASFISYLSENQAPDIVLLDLVMP-EMNGIEVTEFLKKNYSDIK 78
Cdd:cd18161    1 VLVVEDDPDVRRLTaEVLEDlgyTVLEA------ASGDEALDLLESGPDIDLLVTDVIMPgGMNGSQLAEEARRRRPDLK 74


                 ....*..
gi 488423229  79 VLVLTSY 85
Cdd:cd18161   75 VLLTSGY 81
PRK15479 PRK15479
transcriptional regulator TctD;
4-193 7.11e-08

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 50.88  E-value: 7.11e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIESFANGASFISYLSENQApdIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:PRK15479   3 LLLAEDNRELAHWLEKALVQ-NGFAVDCVFDGLAADHLLQSEMYA--LAVLDINMPGMDGLEVLQRLRKRGQTLPVLLLT 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAVAKKPHY---TNK---LSKREIDVLRE 157
Cdd:PRK15479  80 ARSAVADRVKGLNVGADDYLPKPFELEELDARLRALLRRSAGQVQEVQQLGELIFHDEGYfllQGQplaLTPREQALLTV 159

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 488423229 158 MVKGKTNREIAETLF---------VSEKTIKTHVSHIFNKLQVSD 193
Cdd:PRK15479 160 LMYRRTRPVSRQQLFeqvfslndeVSPESIELYIHRLRKKLQGSD 204
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
3-149 7.48e-08

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 51.57  E-value: 7.48e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   3 DIILVDDHHIFRQGLEFLLSTVEeFNVIESFaNGASFISYLSEnQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVL 82
Cdd:PRK10365   7 DILVVDDDISHCTILQALLRGWG-YNVALAN-SGRQALEQVRE-QVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIM 83

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488423229  83 TSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEA----VAKKPHYTNKLSK 149
Cdd:PRK10365  84 TAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALAHTHSIDAETPAVTASqfgmVGKSPAMQHLLSE 154
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
4-191 8.48e-08

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 50.87  E-value: 8.48e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIESfANGASFISYLSEnQAPDIVLLDLVMPEMNGIEVTEFLKKN--YSDIKVLV 81
Cdd:PRK10161   5 ILVVEDEAPIREMVCFVLEQ-NGFQPVEA-EDYDSAVNQLNE-PWPDLILLDWMLPGGSGIQFIKHLKREsmTRDIPVVM 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  82 LTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLageRIIHPEAktVMEAVAKKPHYTNKLSKReidvlreMVKG 161
Cdd:PRK10161  82 LTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVM---RRISPMA--VEEVIEMQGLSLDPTSHR-------VMAG 149

                        170       180       190
                 ....*....|....*....|....*....|
gi 488423229 162 KTNREIAETLFVSEKTIKTHVSHIFNKLQV 191
Cdd:PRK10161 150 EEPLEMGPTEFKLLHFFMTHPERVYSREQL 179
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 7-120 8.76e-08

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: 48.81  E-value: 8.76e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   7 VDDHHIFRQGLEFLLStvEEFNVIESFANGASFIsYLSENQAPDIVLLDLVMPEMNGIEVTEFLKKN--YSDIKVLVLTS 84
Cdd:cd19937    3 VDDEEDIVELLKYNLE--KEGYEVVTAYDGEEAL-KRAKDEKPDLIILDLMLPGIDGLEVCRILRSDpkTSSIPIIMLTA 79

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 488423229  85 YVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd19937   80 KGEEFDKVLGLELGADDYITKPFSPRELLARVKAVL 115
PRK10188 PRK10188
transcriptional regulator SdiA;
146-207 9.78e-08

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 50.55  E-value: 9.78e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488423229 146 KLSKREIDVLREMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQNNLI 207
Cdd:PRK10188 179 NFSKREKEILKWTAEGKTSAEIAMILSISENTVNFHQKNMQKKFNAPNKTQIACYAAATGLI 240
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 4-118 1.19e-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: 48.39  E-value: 1.19e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd19925    3 VLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQ-PDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVVT 81

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRR 118
Cdd:cd19925   82 AANDVETVREALRLGVVDYLIKPFTFERLRQRLER 116
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 50-120 3.56e-07

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


Pssm-ID: 381132 [Multi-domain]  Cd Length: 114  Bit Score: 47.02  E-value: 3.56e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488423229  50 DIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17616   44 DIILLDLNLPDMSGYEVLRTLRLAKVKTPILILSGLADIEDKVKGLGFGADDYMTKPFHKDELVARIHAIV 114
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 4-99 3.67e-07

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


Pssm-ID: 381105 [Multi-domain]  Cd Length: 117  Bit Score: 47.16  E-value: 3.67e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHifrqGLEFLLSTVEEFNVIESF--ANGASFISYLSEnQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLV 81
Cdd:cd17553    3 ILIVDDQY----GIRILLNEVFNKEGYQTFqaANGLQALDIVTK-ERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVII 77

                         90
                 ....*....|....*...
gi 488423229  82 LTSYVDDEHVISAINKGA 99
Cdd:cd17553   78 MTAYGELDMIQESKELGA 95
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 4-117 4.43e-07

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


Pssm-ID: 381161 [Multi-domain]  Cd Length: 117  Bit Score: 46.89  E-value: 4.43e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLStvEEFNVIESFANGASFIsYLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd19934    1 LLLVEDDALLAAQLKEQLS--DAGYVVDVAEDGEEAL-FQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPVLILT 77

                         90       100       110
                 ....*....|....*....|....*....|....
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIR 117
Cdd:cd19934   78 ARDSWQDKVEGLDAGADDYLTKPFHIEELLARLR 111
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 4-102 5.34e-07

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


Pssm-ID: 381098 [Multi-domain]  Cd Length: 122  Bit Score: 46.74  E-value: 5.34e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLStVEEFNVIESfANGASFISYLSENqaPDI--VLLDLVMPEMNGIEVTEFLKKNYS--DIKV 79
Cdd:cd17544    3 VLVVDDSATSRNHLRALLR-RHNFQVLEA-ANGQEALEVLEQH--PDIklVITDYNMPEMDGFELVREIRKKYSrdQLAI 78

                         90       100
                 ....*....|....*....|....*
gi 488423229  80 LVLTSYvdDEHVISA--INKGADGY 102
Cdd:cd17544   79 IGISAS--GDNALSArfIKAGANDF 101
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 4-59 6.17e-07

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: 44.87  E-value: 6.17e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 488423229     4 IILVDDHHIFRQGLEFLLStvEEFNVIESFANGASFISYLSENQaPDIVLLDLVMP 59
Cdd:smart00448   3 ILVVDDDPLLRELLKALLE--KEGYEVDEATDGEEALELLKEEK-PDLILLDIMMP 55
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
4-68 9.70e-07

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 47.95  E-value: 9.70e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTE 68
Cdd:PRK12555   3 IGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVE-RCAAQPPDVILMDLEMPRMDGVEATR 66
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 1-120 1.11e-06

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 47.65  E-value: 1.11e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTvEEFNViESFANGASFISYLsENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVL 80
Cdd:PRK11083   3 QPTILLVEDEQAIADTLVYALQS-EGFTV-EWFERGLPALDKL-RQQPPDLVILDVGLPDISGFELCRQLLAFHPALPVI 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 488423229  81 VLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:PRK11083  80 FLTARSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTIL 119
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
144-203 1.25e-06

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 48.02  E-value: 1.25e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229 144 TNKLSKREIDVLREMVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQVSDRTQAAIYAMQ 203
Cdd:PRK04841 836 TSPLTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHRQEAVQHAQD 895
PRK11697 PRK11697
two-component system response regulator BtsR;
1-122 1.49e-06

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 47.15  E-value: 1.49e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDiKVL 80
Cdd:PRK11697   1 MIKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRLK-PDVVFLDIQMPRISGLELVGMLDPEHMP-YIV 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 488423229  81 VLTSYvdDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAG 122
Cdd:PRK11697  79 FVTAF--DEYAIKAFEEHAFDYLLKPIDPARLAKTLARLRQE 118
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 4-102 1.69e-06

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


Pssm-ID: 381154 [Multi-domain]  Cd Length: 102  Bit Score: 45.06  E-value: 1.69e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLsTVEEFNVIESfANGASFISYLSeNQAPDIVLLDLVMPEMNGIEVTEFLKKN--YSDIKVLV 81
Cdd:cd19927    1 ILLVDDDPGIRLAVKDYL-EDQGFTVIAA-SNGLEALDLLN-QYIPDLIISDIIMPGVDGYSLLGKLRKNadFDTIPVIF 77

                         90       100
                 ....*....|....*....|.
gi 488423229  82 LTSYVDDEHVISAINKGADGY 102
Cdd:cd19927   78 LTAKGMTSDRIKGYNAGCDGY 98
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 48-94 1.71e-06

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


Pssm-ID: 381112 [Multi-domain]  Cd Length: 103  Bit Score: 44.96  E-value: 1.71e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 488423229  48 APDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVlVLTSYVDDEHVISA 94
Cdd:cd17565   44 QPDIVLIDLLMPGMDGIQLVRKLKDTGSNGKF-IMISQVSDKEMIGK 89
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 4-105 1.90e-06

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: 45.06  E-value: 1.90e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEeFNVIEsFANGASFISYLS--------ENQAPDIVLLDLVMPEMNGIEVTEFLKKN-- 73
Cdd:cd19924    1 ILVVDDSPTARKQLRDLLKNLG-FEIAE-AVDGEEALNKLEnlakegndLSKELDLIITDIEMPKMDGYELTFELRDDpr 78

                         90       100       110
                 ....*....|....*....|....*....|..
gi 488423229  74 YSDIKVLVLTSYVDDEHVISAINKGADGYEMK 105
Cdd:cd19924   79 LANIPVILNSSLSGEFSRARGKKVGADAYLAK 110
REC_TrxB cd17595
phosphoacceptor receiver (REC) domain a fused response regulator with a thioredoxin reductase ...
 30-109 2.37e-06

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


Pssm-ID: 381126 [Multi-domain]  Cd Length: 135  Bit Score: 45.40  E-value: 2.37e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  30 IESFANGASFISYLSE----NQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLTSYVDDEHVISAINK-GADGYEM 104
Cdd:cd17595   30 VLRADSGAEALDALKElklrGEAVALFLVDQRMPEMDGVEFLEKAMELFPEAKRVLLTAYADTDAAIRAINDvQLDYYLL 109


                 ....*
gi 488423229 105 KDVEP 109
Cdd:cd17595  110 KPWDP 114
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 4-102 3.53e-06

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: 43.97  E-value: 3.53e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDH----HIFRQGLEfllstvEEFNVIESFANGASFISYLSENQApDIVLLDLVMPEMNGIEVTEFLKKNYSDIKV 79
Cdd:cd19935    1 ILVVEDEkklaEYLKKGLT------EEGYAVDVAYDGEDGLHLALTNEY-DLIILDVMLPGLDGLEVLRRLRAAGKQTPV 73

                         90       100
                 ....*....|....*....|....*
gi 488423229  80 LVLT--SYVDDEhvISAINKGADGY 102
Cdd:cd19935   74 LMLTarDSVEDR--VKGLDLGADDY 96
PRK10693 PRK10693
two-component system response regulator RssB;
34-149 3.89e-06

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 46.14  E-value: 3.89e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  34 ANGASFISYLSEnQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLvltsyvddehVISAINKGADGYEM-----KDV- 107
Cdd:PRK10693   4 ANGVDALELLGG-FTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVL----------VISATENMADIAKAlrlgvQDVl 72

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 488423229 108 -EP----AKLIETI----------RRVLAGERIIHPeaktvMEAVAKKPHYTNKLSK 149
Cdd:PRK10693  73 lKPvkdlNRLREMVfaclypsmfnSRVEEEERLFRD-----WDALVDNPAAAAKLLK 124
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 4-118 4.07e-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: 44.66  E-value: 4.07e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHhifRQGLEFLLSTVEE-FNVIESfANGASFISYLSENQApDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVL 82
Cdd:cd17596    3 ILVVDDE---VRSLEALRRTLEEdFDVLTA-ASAEEALAILEEEWV-QVILCDQRMPGTTGVEFLKEVRERWPEVVRIII 77

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 488423229  83 TSYVDDEHVISAINK-GADGYEMKDVEPAKLIETIRR 118
Cdd:cd17596   78 SGYTDSEDIIAGINEaGIYQYLTKPWHPDQLLLTVRN 114
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 1-120 4.45e-06

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 45.57  E-value: 4.45e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   1 MADIILVDDHHIFRQGLEFLLSTvEEFNVIESFANGASFISylSENQAPDIVLLDLVMPEMNGIEVTEFLKKnYSDIKVL 80
Cdd:PRK10529   1 MTNVLIVEDEQAIRRFLRTALEG-DGMRVFEAETLQRGLLE--AATRKPDLIILDLGLPDGDGIEFIRDLRQ-WSAIPVI 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 488423229  81 VLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:PRK10529  77 VLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVAL 116
PRK13557 PRK13557
histidine kinase; Provisional
 4-122 5.54e-06

histidine kinase; Provisional


Pssm-ID: 237425 [Multi-domain]  Cd Length: 540  Bit Score: 46.20  E-value: 5.54e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDhhifRQGLEFLLSTV-EEFN-VIESFANGASFISYLSENQAPDIVLLDLVMP-EMNGIEVTEFLKKNYSDIKVL 80
Cdd:PRK13557 418 ILIVDD----RPDVAELARMIlEDFGyRTLVASNGREALEILDSHPEVDLLFTDLIMPgGMNGVMLAREARRRQPKIKVL 493

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 488423229  81 VLTSYVDDehviSAINKGADGYEM----KDVEPAKLIETIRRVLAG 122
Cdd:PRK13557 494 LTTGYAEA----SIERTDAGGSEFdilnKPYRRAELARRVRMVLDG 535
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 50-131 6.01e-06

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 45.30  E-value: 6.01e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  50 DIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLAGERIIHPE 129
Cdd:PRK09836  46 DLIILDIMLPDVNGWDIVRMLRSANKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRRGAAVIIE 125


                 ..
gi 488423229 130 AK 131
Cdd:PRK09836 126 SQ 127
REC_OmpR_NsrR-like cd18159
phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...
 4-120 6.75e-06

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


Pssm-ID: 381143 [Multi-domain]  Cd Length: 113  Bit Score: 43.42  E-value: 6.75e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLST-------VEEF-NVIESFangasfisylsENQAPDIVLLDLVMPEMNGIEVTEFLKKnYS 75
Cdd:cd18159    1 ILIVEDDETIASLLKKHLEKwgyevvlIEDFeDVLEEF-----------LQFKPDLVLLDINLPYFDGFYWCREIRQ-IS 68

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 488423229  76 DIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd18159   69 NVPIIFISSRDDNMDQVMAINMGGDDYITKPFDLDVLLAKIKAIL 113
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 4-105 8.08e-06

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


Pssm-ID: 381136 [Multi-domain]  Cd Length: 99  Bit Score: 42.96  E-value: 8.08e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIESfANGASFISYLSENQApDIVLLDLVMPEMNGIEVTEFLKKNySDIKVLVLT 83
Cdd:cd17621    1 VLVVEDEESFSDPLAYLLRK-EGFEVTVA-TDGPAALAEFDRAGA-DIVLLDLMLPGLSGTEVCRQLRAR-SNVPVIMVT 76

                         90       100
                 ....*....|....*....|..
gi 488423229  84 SYVDDEHVISAINKGADGYEMK 105
Cdd:cd17621   77 AKDSEIDKVVGLELGADDYVTK 98
PRK10336 PRK10336
two-component system response regulator QseB;
4-189 1.30e-05

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 44.50  E-value: 1.30e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEeFNViESFANGASFISYLSenQAP-DIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVL 82
Cdd:PRK10336   3 ILLIEDDMLIGDGIKTGLSKMG-FSV-DWFTQGRQGKEALY--SAPyDAVILDLTLPGMDGRDILREWREKGQREPVLIL 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  83 TSYVDDEHVISAINKGADGYEMKdvePAKLIETIRRVLAGERIIHPEAKTVM----------EAVAKKPHYTNKLSKREI 152
Cdd:PRK10336  79 TARDALAERVEGLRLGADDYLCK---PFALIEVAARLEALMRRTNGQASNELrhgnvmldpgKRIATLAGEPLTLKPKEF 155

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 488423229 153 DVLREMVKGK----TNREIAETLF-----VSEKTIKTHVSHIFNKL 189
Cdd:PRK10336 156 ALLELLMRNAgrvlPRKLIEEKLYtwdeeVTSNAVEVHVHHLRRKL 201
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 4-124 3.93e-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: 3.93e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLsTVEEFNVIESFaNGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYsDIKVLVLT 83
Cdd:cd17614    1 ILVVDDEKPISDILKFNL-TKEGYEVVTAY-DGREALEKVEEEQ-PDLILLDLMLPEKDGLEVCREVRKTS-NVPIIMLT 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 488423229  84 SYVDDEHVISAINKGADGYEMKdvePAKLIETIRRVLAGER 124
Cdd:cd17614   77 AKDSEVDKVLGLELGADDYVTK---PFSNRELLARVKANLR 114
PRK10643 PRK10643
two-component system response regulator PmrA;
4-121 5.22e-05

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 42.72  E-value: 5.22e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTveEFNVIESFANGASFISYLSENQApDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:PRK10643   3 ILIVEDDTLLLQGLILALQT--EGYACDCASTAREAEALLESGHY-SLVVLDLGLPDEDGLHLLRRWRQKKYTLPVLILT 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 488423229  84 S--YVDDEhvISAINKGADGYEMKdvePAKLIETIRRVLA 121
Cdd:PRK10643  80 ArdTLEDR--VAGLDVGADDYLVK---PFALEELHARIRA 114
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 4-85 6.54e-05

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


Pssm-ID: 381086 [Multi-domain]  Cd Length: 123  Bit Score: 40.89  E-value: 6.54e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNViESFANGASFISyLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd17530    3 VLVLDDDPFQCMMAATILEDLGPGNV-DEADDGREALV-ILLCNAPDIIICDLKMPDMDGIEFLRHLAESHSNAAVILMS 80


                 ..
gi 488423229  84 SY 85
Cdd:cd17530   81 GL 82
PRK10701 PRK10701
DNA-binding transcriptional regulator RstA; Provisional
 45-117 1.31e-04

DNA-binding transcriptional regulator RstA; Provisional


Pssm-ID: 236738 [Multi-domain]  Cd Length: 240  Bit Score: 41.55  E-value: 1.31e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 488423229  45 ENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLvLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIR 117
Cdd:PRK10701  42 LREQPDLVLLDIMLPGKDGMTICRDLRPKWQGPIVL-LTSLDSDMNHILALEMGACDYILKTTPPAVLLARLR 113
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 4-113 2.09e-04

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: 39.29  E-value: 2.09e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLsTVEEFNVIESfANGASfISYLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNySDIKVLVLT 83
Cdd:cd17619    3 ILIVEDEPVTRATLKSYF-EQEGYDVSEA-GDGEE-MRQILARQDIDLVLLDINLPGKDGLSLTRELREQ-SEVGIILVT 78

                         90       100       110
                 ....*....|....*....|....*....|
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLI 113
Cdd:cd17619   79 GRDDEVDRIVGLEIGADDYVTKPFNPRELL 108
PRK10841 PRK10841
two-component system sensor histidine kinase RcsC;
4-71 2.18e-04

two-component system sensor histidine kinase RcsC;


Pssm-ID: 182772 [Multi-domain]  Cd Length: 924  Bit Score: 41.50  E-value: 2.18e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEeFNVIEsfAN-GASFISYLSENQApDIVLLDLVMPEMNGIEVTEFLK 71
Cdd:PRK10841 804 ILVVDDHPINRRLLADQLGSLG-YQCKT--ANdGVDALNVLSKNHI-DIVLTDVNMPNMDGYRLTQRLR 868
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 34-120 2.29e-04

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 40.82  E-value: 2.29e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  34 ANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKnYSDIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLI 113
Cdd:PRK10710  41 SHGDEVLPYVRQTP-PDLILLDLMLPGTDGLTLCREIRR-FSDIPIVMVTAKIEEIDRLLGLEIGADDYICKPYSPREVV 118


                 ....*..
gi 488423229 114 ETIRRVL 120
Cdd:PRK10710 119 ARVKTIL 125
PRK10816 PRK10816
two-component system response regulator PhoP;
42-160 3.15e-04

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 40.11  E-value: 3.15e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  42 YLSENqAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLTSYVDDEHVISAINKGADGYEMKdvePAKLIETIRRVLA 121
Cdd:PRK10816  39 YLNEH-LPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTK---PFHIEEVMARMQA 114

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 488423229 122 GERIIHPEAKTVMEAvakkPHYTNKLSKREIDVLREMVK 160
Cdd:PRK10816 115 LMRRNSGLASQVISL----PPFQVDLSRRELSINDEVIK 149
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 4-83 3.15e-04

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


Pssm-ID: 381129 [Multi-domain]  Cd Length: 102  Bit Score: 38.50  E-value: 3.15e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVI---ESFANGASFIsylseNQAPDIVLLDLVMPEMNGIEVTEFLKKN--YSDIK 78
Cdd:cd17602    1 VACVDDRPSIQKMIEYFLEK-QGFRVVvidDPLRALTTLL-----NSKPDLILIDIDMPDLDGYELCSLLRKSsaLKDTP 74


                 ....*
gi 488423229  79 VLVLT 83
Cdd:cd17602   75 IIMLT 79
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 50-120 6.73e-04

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


Pssm-ID: 381121 [Multi-domain]  Cd Length: 115  Bit Score: 37.99  E-value: 6.73e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488423229  50 DIVLLDLVMPEMNGIEVTEFLKKNySDIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:cd17584   46 DLVITDVHMPDMDGFEFLELIRLE-MDLPVIMMSADGSTSTVMKGLAHGACDYLLKPVSIEDLKNIWQHVV 115
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 4-105 8.77e-04

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


Pssm-ID: 381153 [Multi-domain]  Cd Length: 100  Bit Score: 37.52  E-value: 8.77e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLS-----TVEEFNVIESFANGASfisylsenQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIK 78
Cdd:cd19926    1 VLVVDDEPDIRELLEITLGrmgldVRSARNVKEARELLAS--------EPYDLCLTDMRLPDGSGLELVQHIQQRLPQTP 72

                         90       100
                 ....*....|....*....|....*..
gi 488423229  79 VLVLTSYVDDEHVISAINKGADGYEMK 105
Cdd:cd19926   73 VAVITAYGSLDTAIEALKAGAFDFLTK 99
PRK15115 PRK15115
response regulator GlrR; Provisional
 2-121 1.22e-03

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 39.05  E-value: 1.22e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   2 ADIILVDDHhifrQGLEFLLS---TVEEFNVIESfANGASFISYLSENQaPDIVLLDLVMPEMNGIEVTEFLKKNYSDIK 78
Cdd:PRK15115   6 AHLLLVDDD----PGLLKLLGmrlTSEGYSVVTA-ESGQEALRVLNREK-VDLVISDLRMDEMDGMQLFAEIQKVQPGMP 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 488423229  79 VLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVLA 121
Cdd:PRK15115  80 VIILTAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAIDDALE 122
REC_RcNtrC-like cd19928
phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...
 4-102 1.37e-03

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


Pssm-ID: 381155 [Multi-domain]  Cd Length: 100  Bit Score: 36.71  E-value: 1.37e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEefNVIESFANGASFISYLSENQApDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLT 83
Cdd:cd19928    1 ILVADDDRAIRTVLTQALGRAG--YEVRTTGNAATLWRWVEEGEG-DLVITDVVMPDENGLDLIPRIKKARPDLPIIVMS 77

                         90
                 ....*....|....*....
gi 488423229  84 SYVDDEHVISAINKGADGY 102
Cdd:cd19928   78 AQNTLMTAVKAAERGAFEY 96
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
4-72 1.78e-03

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 38.59  E-value: 1.78e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 488423229   4 IILVDDHHIFRQGLEFLLSTVEEFNVIESFANGASFISyLSENQAPDIVLLDLVMPEMNGIevtEFLKK 72
Cdd:PRK00742   6 VLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEARE-KIKKLNPDVITLDVEMPVMDGL---DALEK 70
REC_HP-RR-like cd17573
phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; ...
 28-116 1.80e-03

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


Pssm-ID: 381115 [Multi-domain]  Cd Length: 110  Bit Score: 36.64  E-value: 1.80e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  28 NVIESFANGasfiSYLSENQAPDIVLLDLVMPEMNGIEVTEFLKKNYSDIKVLVLTSYVDDEHVISAINKGADGYEMKDV 107
Cdd:cd17573   26 DVAESLKDG----EYYIDIRNYDLVLVSDKLPDGNGLSIVSRIKEKHPSIVVIVLSDNPKTEQEIEAFKEGADDYIAKPF 101


                 ....*....
gi 488423229 108 EPAKLIETI 116
Cdd:cd17573  102 DFKVLVARI 110
REC_WspR-like cd17575
phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...
 49-117 1.98e-03

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


Pssm-ID: 381117 [Multi-domain]  Cd Length: 128  Bit Score: 37.00  E-value: 1.98e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488423229  49 PDIVLLDLVMPEMNGIEVTEFLKKN--YSDIKVLVLTSYVDDEHVISAINKGADGYEMKDVEPAKLIETIR 117
Cdd:cd17575   46 PTVILQDLVMPGVDGLTLVRFFRANpaTRDIPIIVLSTKEEPEVKSEAFALGANDYLVKLPDKIELVARIR 116
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 34-117 2.01e-03

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


Pssm-ID: 381125 [Multi-domain]  Cd Length: 113  Bit Score: 36.66  E-value: 2.01e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  34 ANGASFISYLSEnQAPDIVLLDLVMPEMNGIEVTEFLKKNySDIKVLVLTSYVDDE-HVISAINKGADGYEMKDVEPAKL 112
Cdd:cd17594   30 ADGAEEARLMLH-RRVDLVLLDLRLGQESGLDLLRTIRAR-SDVPIIIISGDRRDEiDRVVGLELGADDYLAKPFGLREL 107


                 ....*
gi 488423229 113 IETIR 117
Cdd:cd17594  108 LARVR 112
PRK10766 PRK10766
two-component system response regulator TorR;
4-120 2.28e-03

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 37.71  E-value: 2.28e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLLSTvEEFNVIESfANGASfISYLSENQAPDIVLLDLVMPEMNGIEVTEFLkKNYSDIKVLVLT 83
Cdd:PRK10766   5 ILVVEDEPVTRARLQGYFEQ-EGYTVSEA-ASGAG-MREIMQNQHVDLILLDINLPGEDGLMLTREL-RSRSTVGIILVT 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 488423229  84 SYVDDEHVISAINKGADGYEMKDVEPAKLIETIRRVL 120
Cdd:PRK10766  81 GRTDSIDRIVGLEMGADDYVTKPLELRELLVRVKNLL 117
REC_typeA_ARR cd17581
phosphoacceptor receiver (REC) domain of type A Arabidopsis response regulators (ARRs) and ...
 4-110 2.90e-03

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


Pssm-ID: 381119 [Multi-domain]  Cd Length: 122  Bit Score: 36.19  E-value: 2.90e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229   4 IILVDDHHIFRQGLEFLL-------STVEE-FNVIESFANGASFISYLSENQAPDIVLLDLVMPEMNGIEVTEFLKK--N 73
Cdd:cd17581    1 VLAVDDSLVDRKVIERLLrisscrvTAVDSgKRALEFLGLEDEEDSSNFNEPKVNMIITDYCMPGMTGYDLLKKVKEssA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 488423229  74 YSDIKVLVLTSyvddEHVISAINK----GADGYEMKDVEPA 110
Cdd:cd17581   81 LKEIPVVIMSS----ENIPTRISRcleeGAEDFLLKPVKLA 117
PRK11475 PRK11475
DNA-binding transcriptional activator BglJ; Provisional
 66-192 4.04e-03

DNA-binding transcriptional activator BglJ; Provisional


Pssm-ID: 236915 [Multi-domain]  Cd Length: 207  Bit Score: 37.03  E-value: 4.04e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488423229  66 VTEfLKKNYSDIKVLVLTSYVDDEHVISAINKGA-DGYEMKDVEPAKLIETIRRVLAGERIIHPEAKTVMEAvakkpHYT 144
Cdd:PRK11475  59 LTE-LAIKFPRMRRLVIADDDIEARLIGSLSPSPlDGVLSKASTLEILQQELFLSLNGVRQATDRLNNQWYI-----NQS 132

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 488423229 145 NKLSKREIDVLREMVKGKTNREIAETLfvsEKTIKTHVSHIFN---KLQVS 192
Cdd:PRK11475 133 RMLSPTEREILRFMSRGYSMPQIAEQL---ERNIKTIRAHKFNvmsKLGVS 180
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 150-190 4.22e-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: 36.51  E-value: 4.22e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 488423229 150 REIDVLREmVKGKTNREIAETLFVSEKTIKTHVSHIFNKLQ 190
Cdd:COG1595  133 REVLVLRY-LEGLSYAEIAEILGISEGTVKSRLSRARKKLR 172
 
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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