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Conserved domains on  [gi|1430654112|ref|WP_113854565|]
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response regulator transcription factor [Sutterella wadsworthensis]

Protein Classification

response regulator transcription factor( domain architecture ID 11468274)

response regulator transcription factor with a signal receiver (REC) domain and a LuxR family helix-turn-helix (HTH) domain that may be part of a two-component regulatory system; it receives the signal from the sensor partner, binds DNA upon phosphorylation, and functions as a transcriptional regulator

CATH:  3.40.50.2300|1.10.10.10
Gene Ontology:  GO:0000160|GO:0000156|GO:0003677|GO:0006355
PubMed:  20226724|15808743|10966457
SCOP:  4003632

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 7-203 2.43e-87

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: 255.80  E-value: 2.43e-87
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   7 LIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIkNISIIFLSA 86
Cdd:COG4566     1 TVYIVDDDEAVRDSLAFLLESAGLRVETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGS-PLPVIFLTG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLGKLTGREREVAKLLSEGMRNKEIA 166
Cdd:COG4566    80 HGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAELRARLASLTPREREVLDLVVAGLSNKQIA 159

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1430654112 167 RSLGIEETTVKMHRANLQAKLGVKSTAELTRIFITVE 203
Cdd:COG4566   160 RELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
 
Name Accession Description Interval E-value
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 7-203 2.43e-87

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: 255.80  E-value: 2.43e-87
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   7 LIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIkNISIIFLSA 86
Cdd:COG4566     1 TVYIVDDDEAVRDSLAFLLESAGLRVETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGS-PLPVIFLTG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLGKLTGREREVAKLLSEGMRNKEIA 166
Cdd:COG4566    80 HGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAELRARLASLTPREREVLDLVVAGLSNKQIA 159

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1430654112 167 RSLGIEETTVKMHRANLQAKLGVKSTAELTRIFITVE 203
Cdd:COG4566   160 RELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
fixJ PRK09390
response regulator FixJ; Provisional
 6-205 1.90e-56

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 177.50  E-value: 1.90e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   6 PLIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIKnISIIFLS 85
Cdd:PRK09390    4 GVVHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPGLRFGCVVTDVRMPGIDGIELLRRLKARGSP-LPVIVMT 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLGKLTGREREVAKLLSEGMRNKEI 165
Cdd:PRK09390   83 GHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPEAAKSEAVAADIRARIASLSERERQVMDGLVAGLSNKVI 162

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1430654112 166 ARSLGIEETTVKMHRANLQAKLGVKSTAELTRIFITVEIL 205
Cdd:PRK09390  163 ARDLDISPRTVEVYRANVMTKMQAGSLSELVRMALRAGRG 202
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 6-121 1.39e-49

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: 156.99  E-value: 1.39e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   6 PLIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIkNISIIFLS 85
Cdd:cd17537     1 ATVYVVDDDEAVRDSLAFLLRSVGLAVKTFTSASAFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGS-NIPIIFIT 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTA 121
Cdd:cd17537    80 GHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQA 115
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 10-118 6.20e-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: 96.45  E-value: 6.20e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSAHGD 89
Cdd:pfam00072   3 IVDDDPLIRELLRQLLEKEGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRI-RRRDPTTPVIILTAHGD 81

                          90       100
                  ....*....|....*....|....*....
gi 1430654112  90 IAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:pfam00072  82 EDDAVEALEAGADDFLSKPFDPDELLAAI 110
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 145-199 1.99e-17

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 72.95  E-value: 1.99e-17
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1430654112  145 LTGREREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAELTRIF 199
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 93-187 1.55e-05

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


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 43.49  E-value: 1.55e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  93 ATHTIRHGAVDFLEK---PVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLGKLTGREREVAKL-LSEGMRNKEIARS 168
Cdd:TIGR02937  56 LFRIARNLILDYLRRkrrLRRELDLLEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLrYLEGLSYKEIAEI 135

                          90
                  ....*....|....*....
gi 1430654112 169 LGIEETTVKMHRANLQAKL 187
Cdd:TIGR02937 136 LGISVGTVKRRLKRARKKL 154
 
Name Accession Description Interval E-value
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 7-203 2.43e-87

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: 255.80  E-value: 2.43e-87
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   7 LIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIkNISIIFLSA 86
Cdd:COG4566     1 TVYIVDDDEAVRDSLAFLLESAGLRVETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGS-PLPVIFLTG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLGKLTGREREVAKLLSEGMRNKEIA 166
Cdd:COG4566    80 HGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAELRARLASLTPREREVLDLVVAGLSNKQIA 159

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1430654112 167 RSLGIEETTVKMHRANLQAKLGVKSTAELTRIFITVE 203
Cdd:COG4566   160 RELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
fixJ PRK09390
response regulator FixJ; Provisional
 6-205 1.90e-56

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 177.50  E-value: 1.90e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   6 PLIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIKnISIIFLS 85
Cdd:PRK09390    4 GVVHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPGLRFGCVVTDVRMPGIDGIELLRRLKARGSP-LPVIVMT 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLGKLTGREREVAKLLSEGMRNKEI 165
Cdd:PRK09390   83 GHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPEAAKSEAVAADIRARIASLSERERQVMDGLVAGLSNKVI 162

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1430654112 166 ARSLGIEETTVKMHRANLQAKLGVKSTAELTRIFITVEIL 205
Cdd:PRK09390  163 ARDLDISPRTVEVYRANVMTKMQAGSLSELVRMALRAGRG 202
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 6-121 1.39e-49

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: 156.99  E-value: 1.39e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   6 PLIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIkNISIIFLS 85
Cdd:cd17537     1 ATVYVVDDDEAVRDSLAFLLRSVGLAVKTFTSASAFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGS-NIPIIFIT 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTA 121
Cdd:cd17537    80 GHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQA 115
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 10-124 1.31e-31

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: 111.81  E-value: 1.31e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTY---ESALAFLSDDeltRPGCLILDVRMPGMTGLELQQELMRREiKNISIIFLSA 86
Cdd:cd17549     3 LVDDDADVREALQQTLELAGFRVRAFadaEEALAALSPD---FPGVVISDIRMPGMDGLELLAQIRELD-PDLPVILITG 78

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVAR 124
Cdd:cd17549    79 HGDVPMAVEAMRAGAYDFLEKPFDPERLLDVVRRALEK 116
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 10-144 1.89e-26

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: 104.66  E-value: 1.89e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYES---ALAFLSDDeltRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSA 86
Cdd:COG2204     7 VVDDDPDIRRLLKELLERAGYEVETAASgeeALALLREE---PPDLVLLDLRMPGMDGLELLREL-RALDPDLPVILLTG 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPVQPQKLLQrvttAVARTIQKTAREEELTDLRERLGK 144
Cdd:COG2204    83 YGDVETAVEAIKAGAFDYLTKPFDLEELLA----AVERALERRRLRRENAEDSGLIGR 136
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 10-118 6.20e-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: 96.45  E-value: 6.20e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSAHGD 89
Cdd:pfam00072   3 IVDDDPLIRELLRQLLEKEGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRI-RRRDPTTPVIILTAHGD 81

                          90       100
                  ....*....|....*....|....*....
gi 1430654112  90 IAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:pfam00072  82 EDDAVEALEAGADDFLSKPFDPDELLAAI 110
PRK15369 PRK15369
two component system response regulator;
8-196 1.66e-25

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 98.23  E-value: 1.66e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASvgWS----VKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRReIKNISIIF 83
Cdd:PRK15369    6 ILLVDDHELIINGIKNMLAP--YPrykiVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQR-WPAMNILV 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  84 LSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVA--RTIQKTAREEELTDLRERLGK----LTGREREVAKLLS 157
Cdd:PRK15369   83 LTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVgkRYIDPALNREAILALLNADDTnpplLTPRERQILKLIT 162

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1430654112 158 EGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAELT 196
Cdd:PRK15369  163 EGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELL 201
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 10-188 4.40e-25

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: 96.95  E-value: 4.40e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSAHGD 89
Cdd:COG0745     6 VVEDDPDIRELLADALEREGYEVDTAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRL-RARPSDIPIIMLTARDD 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  90 IAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLGKLTGREREVA----KLLSEGMRNK-- 163
Cdd:COG0745    85 EEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRAAEVLRVGDLLDLAAREVTRDGEPVELTpkefRLLELLMRNPgr 164

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1430654112 164 -----EIARSL----GIEETTVKMHRANLQAKLG 188
Cdd:COG0745   165 vvsreQLLEEVwgydYGDDRTVDVHISRLRKKLE 198
PRK10360 PRK10360
transcriptional regulator UhpA;
54-197 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 1430654112  54 ILDVRMPGMTGLELQQELMrreiKNISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTArEE 133
Cdd:PRK10360   52 ICDISMPDISGLELLSQLP----KGMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTP-DI 126

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1430654112 134 ELTDLRERLGKLTGREREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAELTR 197
Cdd:PRK10360  127 AIKLASGRQDPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELAR 190
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 10-108 2.57e-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: 2.57e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSAHGD 89
Cdd:cd00156     2 IVDDDPAIRELLKSLLEREGYEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKL-RELPPDIPVIVLTAKAD 80

                          90
                  ....*....|....*....
gi 1430654112  90 IAMATHTIRHGAVDFLEKP 108
Cdd:cd00156    81 EEDAVRALELGADDYLVKP 99
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 10-124 1.09e-21

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: 86.06  E-value: 1.09e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYES---ALAFLSDDeltRPGCLILDVRMPGMTGLELQQELMRREI-KNISIIFLS 85
Cdd:COG0784    10 VVDDNPDNRELLRRLLERLGYEVTTAEDgaeALELLRAG---PPDLILLDINMPGMDGLELLRRIRALPRlPDIPIIALT 86

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVAR 124
Cdd:COG0784    87 AYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLAR 125
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 10-134 1.70e-21

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 85.79  E-value: 1.70e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVG-----WSVKTYESALAFLSDDeltRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFL 84
Cdd:COG4565     8 IVEDDPMVAELLRRYLERLPgfevvGVASSGEEALALLAEH---RPDLILLDIYLPDGDGLELLREL-RARGPDVDVIVI 83

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEE 134
Cdd:COG4565    84 TAARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLLREDQEE 133
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 6-124 1.93e-21

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: 86.89  E-value: 1.93e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   6 PLIRIVDDDEELRNSQKMLLASVGWSVKTYES---ALAFLSDDeltRPGCLILDVRMPGMTGLELQQEL-MRREIKNISI 81
Cdd:COG3706     2 ARILVVDDDPTNRKLLRRLLEAAGYEVVEAADgeeALELLQEH---RPDLILLDLEMPDMDGLELCRRLrADPRTADIPI 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1430654112  82 IFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTaVAR 124
Cdd:COG3706    79 IFLTALDDEEDRARALEAGADDYLTKPFDPEELLARVDL-VAR 120
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 8-115 2.08e-21

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: 84.86  E-value: 2.08e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKT---YESALAFLSDDeltRPGCLILDVRMPGMTGLELQQElMRREIKNISIIFL 84
Cdd:cd17550     1 ILIVDDEEDIRESLSGILEDEGYEVDTaadGEEALKLIKER---RPDLVLLDIWLPDMDGLELLKE-IKEKYPDLPVIMI 76

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKLL 115
Cdd:cd17550    77 SGHGTIETAVKATKLGAYDFIEKPLSLDRLL 107
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 2-187 7.03e-21

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: 85.35  E-value: 7.03e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   2 TTTLPLIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIkNISI 81
Cdd:COG4567     1 SAEDRSLLLVDDDEAFARVLARALERRGFEVTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDP-DARI 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  82 IFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDLRerlgkltgREReVAKLLSEGMR 161
Cdd:COG4567    80 VVLTGYASIATAVEAIKLGADDYLAKPADADDLLAALERAEGDAPAPPENPMSLDRLE--------WEH-IQRVLAECDG 150

                         170       180
                  ....*....|....*....|....*..
gi 1430654112 162 N-KEIARSLGieettvkMHRANLQAKL 187
Cdd:COG4567   151 NiSATARALG-------MHRRTLQRKL 170
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 2-124 1.16e-20

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: 85.99  E-value: 1.16e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   2 TTTLPLIRIVDDDEELRNSQKMLLASVGWSVKTYES---ALAFLSDDeltRPGCLILDVRMPGMTGLELQQELMRRE-IK 77
Cdd:COG3437     3 TGQAPTVLIVDDDPENLELLRQLLRTLGYDVVTAESgeeALELLLEA---PPDLILLDVRMPGMDGFELLRLLRADPsTR 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 1430654112  78 NISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVAR 124
Cdd:COG3437    80 DIPVIFLTALADPEDRERALEAGADDYLTKPFDPEELLARVRNALEL 126
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 10-124 4.45e-20

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: 81.61  E-value: 4.45e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRnsqKMLLASVGWS------VKTYES---ALAFLsddELTRPGCLILDVRMPGMTGLELQQELmRREIKNIS 80
Cdd:cd17536     3 IVDDEPLIR---EGLKKLIDWEelgfevVGEAENgeeALELI---EEHKPDIVITDIRMPGMDGLELIEKI-RELYPDIK 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1430654112  81 IIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVAR 124
Cdd:cd17536    76 IIILSGYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKEE 119
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 10-200 8.55e-19

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: 78.40  E-value: 8.55e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVG--WSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmrreiknisiiflsah 87
Cdd:COG2197     6 IVDDHPLVREGLRALLEAEPdiEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL---------------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  88 gdiamathtirhgavdflekpvqpqkllqrvttavartiqktareeeltdlrerlgkLTGREREVAKLLSEGMRNKEIAR 167
Cdd:COG2197    70 ---------------------------------------------------------LTPREREVLRLLAEGLSNKEIAE 92

                         170       180       190
                  ....*....|....*....|....*....|...
gi 1430654112 168 SLGIEETTVKMHRANLQAKLGVKSTAELTRIFI 200
Cdd:COG2197    93 RLGISERTVKTHVSNILRKLGVRNRTELVLLAL 125
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 1-194 9.24e-19

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 80.84  E-value: 9.24e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   1 MTTTLPL-IRIVDDDEELRNSQKMLLA-----SVGWSVKTYESALAFLsddELTRPGCLILDVRMPGMTGLELQQELMRR 74
Cdd:PRK10651    1 MSNQEPAtILLIDDHPMLRTGVKQLISmapdiTVVGEASNGEQGIELA---ESLDPDLILLDLNMPGMNGLETLDKLREK 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  75 EIKNISIIF-LSAHGDIAMAThtIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEEL--TDLRER-------LGK 144
Cdd:PRK10651   78 SLSGRIVVFsVSNHEEDVVTA--LKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVlaASLRANratterdVNQ 155

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1430654112 145 LTGREREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAE 194
Cdd:PRK10651  156 LTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVE 205
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 10-108 9.85e-19

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: 77.51  E-value: 9.85e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNS-QKMLLASVGWS-VKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSAH 87
Cdd:COG4753     4 IVDDEPLIREGlKRILEWEAGFEvVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAI-RELDPDTKIIILSGY 82

                          90       100
                  ....*....|....*....|.
gi 1430654112  88 GDIAMATHTIRHGAVDFLEKP 108
Cdd:COG4753    83 SDFEYAQEAIKLGADDYLLKP 103
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 10-108 9.10e-18

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: 75.39  E-value: 9.10e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSAHGD 89
Cdd:cd19919     5 IVDDDSSIRWVLERALAGAGLTVTSFENAQEALAALASSQPDVLISDIRMPGMDGLALLAQI-KQRHPDLPVIIMTAHSD 83

                          90
                  ....*....|....*....
gi 1430654112  90 IAMATHTIRHGAVDFLEKP 108
Cdd:cd19919    84 LDSAVSAYQGGAFEYLPKP 102
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 145-199 1.99e-17

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 72.95  E-value: 1.99e-17
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1430654112  145 LTGREREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAELTRIF 199
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 145-200 3.29e-16

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


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 69.49  E-value: 3.29e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1430654112 145 LTGREREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAELTRIFI 200
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAI 56
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 8-114 7.43e-16

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: 70.35  E-value: 7.43e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTY---ESALAFLSDDElTRPGCLILDVRMPGMTGLELQQELmrREIKNISIIFL 84
Cdd:cd17584     1 VLVVDDDPTCLAILKRMLLRCGYQVTTCtdaEEALSMLRENK-DEFDLVITDVHMPDMDGFEFLELI--RLEMDLPVIMM 77

                          90       100       110
                  ....*....|....*....|....*....|
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKL 114
Cdd:cd17584    78 SADGSTSTVMKGLAHGACDYLLKPVSIEDL 107
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 10-121 8.01e-16

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


Pssm-ID: 381114 [Multi-domain]  Cd Length: 121  Bit Score: 70.69  E-value: 8.01e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYES---ALAFLSDDeltRPGCLILDVRMPGMTGLELQQELMRREIkNISIIFLSA 86
Cdd:cd17572     3 LVEDSPSLAALYQEYLSDEGYKVTHVETgkeALAFLSDQ---PPDVVLLDLKLPDMSGMEILKWIQERSL-PTSVIVITA 78

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTA 121
Cdd:cd17572    79 HGSVDIAVEAMRLGAYDFLEKPFDADRLRVTVRNA 113
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 10-108 9.28e-16

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: 69.74  E-value: 9.28e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSAHGD 89
Cdd:cd17574     2 VVEDDEEIAELLSDYLEKEGYEVDTAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRL-REKGSDIPIIMLTAKDE 80

                          90
                  ....*....|....*....
gi 1430654112  90 IAMATHTIRHGAVDFLEKP 108
Cdd:cd17574    81 EEDKVLGLELGADDYITKP 99
GerE pfam00196
Bacterial regulatory proteins, luxR family;
145-199 1.43e-15

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 68.00  E-value: 1.43e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1430654112 145 LTGREREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAELTRIF 199
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 136-208 1.92e-15

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: 68.06  E-value: 1.92e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1430654112 136 TDLRERLGKLTGREREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAELTRIFITVEILSRE 208
Cdd:COG5905     4 SSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLLSLD 76
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 10-139 2.88e-15

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 71.77  E-value: 2.88e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGW--SVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSAH 87
Cdd:COG3279     6 IVDDEPLARERLERLLEKYPDleVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQL-RELDPPPPIIFTTAY 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1430654112  88 GDiaMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDLR 139
Cdd:COG3279    85 DE--YALEAFEVNAVDYLLKPIDEERLAKALEKAKERLEAKAAAEASPEEKD 134
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 10-123 4.19e-15

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: 68.31  E-value: 4.19e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLAS------VGwSVKTYESALAFLSDdelTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIF 83
Cdd:cd17535     3 IVDDHPLVREGLRRLLESepdievVG-EAADGEEALALLRE---LRPDVVLMDLSMPGMDGIEALRRL-RRRYPDLKVIV 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1430654112  84 LSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVA 123
Cdd:cd17535    78 LTAHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 6-110 6.30e-15

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: 68.00  E-value: 6.30e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   6 PLIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQElMRREIKNISIIFLS 85
Cdd:cd17555     1 ATILVIDDDEVVRESIAAYLEDSGFQVLQAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQ-ITKESPDTPVIVVS 79

                          90       100
                  ....*....|....*....|....*
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQ 110
Cdd:cd17555    80 GAGVMSDAVEALRLGAWDYLTKPIE 104
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
1-200 2.64e-14

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 68.73  E-value: 2.64e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   1 MTTTLPL-IRIVDDDEELRNSQKMLLAS-----VGWSVKTYESALAFLSDDEltrPGCLILDVRMPGMTGLELQQELmRR 74
Cdd:PRK10403    1 MPEATPFqVLIVDDHPLMRRGVRQLLELdpgfeVVAEAGDGASAIDLANRLD---PDVILLDLNMKGMSGLDTLNAL-RR 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  75 EIKNISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLGK-------LTG 147
Cdd:PRK10403   77 DGVTAQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVNQYLREREMFGAeedpfsvLTE 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1430654112 148 REREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAELTRIFI 200
Cdd:PRK10403  157 RELDVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAATILFL 209
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 8-108 2.85e-14

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: 65.93  E-value: 2.85e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmrREIKNISIIFLSAH 87
Cdd:cd19936     1 IALVDDDRNILTSVSMALEAEGFSVETYTDGASALDGLNARPPDLAILDIKMPRMDGMELLQRL--RQKSTLPVIFLTSK 78

                          90       100
                  ....*....|....*....|.
gi 1430654112  88 GDIAMATHTIRHGAVDFLEKP 108
Cdd:cd19936    79 DDEIDEVFGLRMGADDYITKP 99
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
35-205 4.86e-14

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 67.47  E-value: 4.86e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  35 YESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIKNISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKL 114
Cdd:COG2771    18 LALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAAL 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112 115 LQRVTTAVARTIQKTAREEELTDLRERLGKLTGREREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAE 194
Cdd:COG2771    98 LARLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAE 177

                         170
                  ....*....|.
gi 1430654112 195 LTRIFITVEIL 205
Cdd:COG2771   178 LVALALRLGLI 188
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 6-123 2.53e-13

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: 63.96  E-value: 2.53e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   6 PLIRIVDDDEELRNSQKMLLASVGWSVKTYES---ALAFLSDDELtrpGCLILDVRMPGMTGLELQQELMRREIKNISII 82
Cdd:cd17569     1 PTILLVDDEPNILKALKRLLRREGYEVLTATSgeeALEILKQEPV---DVVISDQRMPGMDGAELLKRVRERYPDTVRIL 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1430654112  83 fLSAHGDIAMATHTIRHGAVD-FLEKPVQPQKLLQRVTTAVA 123
Cdd:cd17569    78 -LTGYADLDAAIEAINEGEIYrFLTKPWDDEELKETIRQALE 118
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 7-108 6.61e-13

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 66.43  E-value: 6.61e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   7 LIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREiKNISIIFLSA 86
Cdd:PRK10923    5 IVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRH-PMLPVIIMTA 83

                          90       100
                  ....*....|....*....|..
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKP 108
Cdd:PRK10923   84 HSDLDAAVSAYQQGAFDYLPKP 105
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 10-116 1.93e-12

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


Pssm-ID: 381111 [Multi-domain]  Cd Length: 112  Bit Score: 61.30  E-value: 1.93e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKT---YESALAFLSDdelTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSA 86
Cdd:cd17563     5 LVDDDEVFAERLARALERRGFEVETahsVEEALALARE---EKPDYAVLDLRLGGDSGLDLIPPL-RALQPDARIVVLTG 80

                          90       100       110
                  ....*....|....*....|....*....|
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPVQPQKLLQ 116
Cdd:cd17563    81 YASIATAVEAIKLGADDYLAKPADADEILA 110
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
10-195 4.88e-12

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 62.22  E-value: 4.88e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSV-KTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIKNIsIIFLSAHG 88
Cdd:PRK09958    5 IIDDHPLAIAAIRNLLIKNDIEIlAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSGI-IIIVSAKN 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  89 DIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTA----VARTIQKTAREEELTDLRERLGKLTGREREVAKLLSEGMRNKE 164
Cdd:PRK09958   84 DHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAkngyCYFPFSLNRFVGSLTSDQQKLDSLSKQEISVMRYILDGKDNND 163

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1430654112 165 IARSLGIEETTVKMHRANLQAKLGVKSTAEL 195
Cdd:PRK09958  164 IAEKMFISNKTVSTYKSRLMEKLECKSLMDL 194
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 8-118 6.56e-12

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: 59.96  E-value: 6.56e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRRE-IKNISIIFLSA 86
Cdd:cd17618     3 ILIVEDEPAIREMIAFNLERAGFDVVEAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLKRDEmTRDIPIIMLTA 82

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd17618    83 RGEEEDKVRGLEAGADDYITKPFSPRELVARI 114
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 10-119 8.80e-12

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


Pssm-ID: 381152 [Multi-domain]  Cd Length: 118  Bit Score: 59.57  E-value: 8.80e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASV-GWSVK----TYESALAFLSDdelTRPGCLILDVRMPGMTGLELQQELMRREIKnISIIFL 84
Cdd:cd19925     5 IVEDDPMVAEIHRAYVEQVpGFTVIgtagTGEEALKLLKE---RQPDLILLDIYLPDGNGLDLLRELRAAGHD-VDVIVV 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVT 119
Cdd:cd19925    81 TAANDVETVREALRLGVVDYLIKPFTFERLRQRLE 115
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 10-118 1.40e-11

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: 59.21  E-value: 1.40e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRRE-IKNISIIFLSAHG 88
Cdd:cd19937     2 VVDDEEDIVELLKYNLEKEGYEVVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILRSDPkTSSIPIIMLTAKG 81

                          90       100       110
                  ....*....|....*....|....*....|
gi 1430654112  89 DIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd19937    82 EEFDKVLGLELGADDYITKPFSPRELLARV 111
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 10-119 1.62e-11

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: 59.07  E-value: 1.62e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASvgWSVKTYES-----ALAFLSDDELTRpgCLILDVRMPGMTGLELQQELMRREIKN-ISIIF 83
Cdd:cd17544     5 VVDDSATSRNHLRALLRR--HNFQVLEAangqeALEVLEQHPDIK--LVITDYNMPEMDGFELVREIRKKYSRDqLAIIG 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1430654112  84 LSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVT 119
Cdd:cd17544    81 ISASGDNALSARFIKAGANDFLTKPFLPEEFYCRVT 116
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 8-116 2.51e-11

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: 58.24  E-value: 2.51e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYES---ALAFLSDDeltRPGCLILDVRMPGMTGLELQQELMRRE-IKNISIIF 83
Cdd:cd17580     1 ILVVDDNEDAAEMLALLLELEGAEVTTAHSgeeALEAAQRF---RPDVILSDIGMPGMDGYELARRLRELPwLANTPAIA 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1430654112  84 LSAHGdiaMATHTIRHGAVDF---LEKPVQPQKLLQ 116
Cdd:cd17580    78 LTGYG---QPEDRERALEAGFdahLVKPVDPDELIE 110
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
8-142 2.57e-11

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 61.79  E-value: 2.57e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQElMRREIKNISIIFLSAH 87
Cdd:PRK11361    7 ILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKE-MRSHETRTPVILMTAY 85

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1430654112  88 GDIAMATHTIRHGAVDFLEKPVQpqklLQRVTTAVARTIQKTAREEELTDLRERL 142
Cdd:PRK11361   86 AEVETAVEALRCGAFDYVIKPFD----LDELNLIVQRALQLQSMKKEIRHLHQAL 136
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 8-118 2.85e-11

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


Pssm-ID: 381138 [Multi-domain]  Cd Length: 115  Bit Score: 58.47  E-value: 2.85e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTY---ESALAFLSDDEltrPGCLILDVRMPGMTGLELQQELmrREIKNISIIFL 84
Cdd:cd17623     1 ILLIDDDRELTELLTEYLEMEGFNVRAAhdgEQGLAALLEGS---PDLVVLDVMLPKMNGLDVLKEL--RKTSQVPVLML 75

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd17623    76 TARGDDIDRILGLELGADDYLPKPFNPRELVARI 109
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 8-89 3.81e-11

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: 58.00  E-value: 3.81e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREiKNISIIFLSAH 87
Cdd:cd17554     3 ILVVDDEENIRELYKEELEDEGYEVVTAGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKK-PDLPVIICTAY 81


                  ..
gi 1430654112  88 GD 89
Cdd:cd17554    82 SE 83
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 10-156 4.44e-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: 59.59  E-value: 4.44e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTY-ESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIknISIIFLSAHG 88
Cdd:COG3707     8 VVDDEPLRRADLREGLREAGYEVVAEaADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERP--APVILLTAYS 85

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1430654112  89 DIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLgkltgRER---EVAKLL 156
Cdd:COG3707    86 DPELIERALEAGVSAYLVKPLDPEDLLPALELALARFRELRALRRELAKLREAL-----EERkliERAKGI 151
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 10-125 4.50e-11

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


Pssm-ID: 381131 [Multi-domain]  Cd Length: 118  Bit Score: 57.75  E-value: 4.50e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSAHGD 89
Cdd:cd17615     4 VVDDEPNITELLSMALRYEGWDVETAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRL-RADGPDVPVLFLTAKDS 82

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1430654112  90 IAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVART 125
Cdd:cd17615    83 VEDRIAGLTAGGDDYVTKPFSLEEVVARLRALLRRS 118
PRK15115 PRK15115
response regulator GlrR; Provisional
 10-125 5.19e-11

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 61.01  E-value: 5.19e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYES---ALAFLSDDeltRPGCLILDVRMPGMTGLELQQELMRREiKNISIIFLSA 86
Cdd:PRK15115   10 LVDDDPGLLKLLGMRLTSEGYSVVTAESgqeALRVLNRE---KVDLVISDLRMDEMDGMQLFAEIQKVQ-PGMPVIILTA 85

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVART 125
Cdd:PRK15115   86 HGSIPDAVAATQQGVFSFLTKPVDRDALYKAIDDALEQS 124
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 8-124 6.22e-11

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: 57.38  E-value: 6.22e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTY---ESALAFLSDdelTRPGCLILDVRMPGMTGLELQQELmrREIKNISIIFL 84
Cdd:cd19939     2 ILIVEDELELARLTRDYLIKAGLEVSVFtdgQRAVRRIID---EQPSLVVLDIMLPGMDGLTVCREV--REHSHVPILML 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVAR 124
Cdd:cd19939    77 TARTEEMDRVLGLEMGADDYLCKPFSPRELLARVRALLRR 116
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 8-118 6.85e-11

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: 57.39  E-value: 6.85e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTY---ESALAFLSDDeltRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFL 84
Cdd:cd17627     1 ILVVDDDRAVRESLRRSLRFEGYEVETAvdgAEALRVISGN---RPDAVVLDVMMPRLDGLEVCRRL-RAAGNDLPILVL 76

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd17627    77 TARDSVSDRVAGLDAGADDYLVKPFALEELLARV 110
PRK09483 PRK09483
response regulator; Provisional
 10-208 8.79e-11

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 58.96  E-value: 8.79e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASV-GWSV----KTYESALAFLSDDEltrPGCLILDVRMPGMTGLELQQELMRREiKNISIIFL 84
Cdd:PRK09483    6 LVDDHELVRAGIRRILEDIkGIKVvgeaCCGEDAVKWCRTNA---VDVVLMDMNMPGIGGLEATRKILRYT-PDVKIIML 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQ--RVTTAVARTI-----QKTAREEELTDLRERLGKLTGREREVAKLLS 157
Cdd:PRK09483   82 TVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSaiRSVHSGQRYIasdiaQQMALSQIEPATENPFASLSERELQIMLMIT 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1430654112 158 EGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAELTRIFITVEILSRE 208
Cdd:PRK09483  162 KGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTHLAIRHGLLNAE 212
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 8-118 1.77e-10

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: 56.13  E-value: 1.77e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSV--KTYESALAFLSDDELtRPGCLILDVRMPGMTGLELQQELMrrEI-KNISIIFL 84
Cdd:cd17542     3 VLIVDDAAFMRMMLKDILTKAGYEVvgEAANGEEAVEKYKEL-KPDLVTMDITMPEMDGIEALKEIK--KIdPNAKVIMC 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd17542    80 SAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAV 113
orf27 CHL00148
Ycf27; Reviewed
 8-146 1.92e-10

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 58.57  E-value: 1.92e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREiKNISIIFLSAH 87
Cdd:CHL00148    9 ILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEI-RKE-SDVPIIMLTAL 86

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1430654112  88 GDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLGKLT 146
Cdd:CHL00148   87 GDVSDRITGLELGADDYVVKPFSPKELEARIRSVLRRTNKKSFSSKIPNSSIIRIGFLK 145
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 8-121 2.22e-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: 56.02  E-value: 2.22e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASV-GWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQEL-MRREIKNISIIFLS 85
Cdd:cd17552     4 ILVIDDEEDIREVVQACLEKLaGWEVLTASSGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLqANPETQSIPVILLT 83

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTA 121
Cdd:cd17552    84 AKAQPSDRQRFASLGVAGVIAKPFDPLTLAEQIAKL 119
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 10-118 2.28e-10

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: 55.69  E-value: 2.28e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTY---ESALAFLSDDELTrpgCLILDVRMPGMTGLELQQELmRREIKNISIIFLSA 86
Cdd:cd17625     2 VVEDEKDLSEAITKHLKKEGYTVDVCfdgEEGLEYALSGIYD---LIILDIMLPGMDGLEVLKSL-REEGIETPVLLLTA 77

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd17625    78 LDAVEDRVKGLDLGADDYLPKPFSLAELLARI 109
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 10-118 2.76e-10

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: 55.53  E-value: 2.76e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDE-ELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmrREIKNIS---IIFLS 85
Cdd:cd17551     5 IVDDNPtNLLLLEALLRSAGYLEVVSFTDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRL--RALPGLEdvpIVMIT 82

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1430654112  86 AHGDiamatHTIRH-----GAVDFLEKPVQPQKLLQRV 118
Cdd:cd17551    83 ADTD-----REVRLraleaGATDFLTKPFDPVELLARV 115
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
53-195 4.58e-10

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 56.81  E-value: 4.58e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  53 LILDVRMPGMTGLELQQELmRREIKNISIIFLSAHGDIAMATHTIRHGAVDFLEKpvqpQKLLQRVTTAVARTI------ 126
Cdd:PRK09935   53 IIMDIDLPGTDGFTFLKRI-KQIQSTVKVLFLSSKSECFYAGRAIQAGANGFVSK----CNDQNDIFHAVQMILsgytff 127

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1430654112 127 ---------QKTAREEELTDLrerlgKLTGREREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAEL 195
Cdd:PRK09935  128 psetlnyikSNKCSTNSSTDT-----VLSNREVTILRYLVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVEL 200
REC_OmpR_NsrR-like cd18159
phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...
 8-121 5.79e-10

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: 54.60  E-value: 5.79e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmrREIKNISIIFLSAH 87
Cdd:cd18159     1 ILIVEDDETIASLLKKHLEKWGYEVVLIEDFEDVLEEFLQFKPDLVLLDINLPYFDGFYWCREI--RQISNVPIIFISSR 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1430654112  88 G---DIAMAthtIRHGAVDFLEKPVQPQKLLQRVTTA 121
Cdd:cd18159    79 DdnmDQVMA---INMGGDDYITKPFDLDVLLAKIKAI 112
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 8-109 8.37e-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: 54.05  E-value: 8.37e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDD-EELRNSQKMLLASvGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQqelmrREIK------NIS 80
Cdd:cd19920     1 ILIVDDVpDNLRLLSELLRAA-GYRVLVATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVC-----RRLKadpatrHIP 74

                          90       100
                  ....*....|....*....|....*....
gi 1430654112  81 IIFLSAHGDIAMATHTIRHGAVDFLEKPV 109
Cdd:cd19920    75 VIFLTALTDTEDKVKGFELGAVDYITKPF 103
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 8-118 9.03e-10

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: 54.23  E-value: 9.03e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQEL-MRREIKNISIIFLSA 86
Cdd:cd17562     3 ILAVDDSASIRQMVSFTLRGAGYEVVEAADGRDALSKAQSKKFDLIITDQNMPNMDGIELIKELrKLPAYKFTPILMLTT 82

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd17562    83 ESSDEKKQEGKAAGATGWLVKPFDPEQLLEVV 114
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 10-116 1.48e-09

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: 53.63  E-value: 1.48e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYES---ALAFLSDDELTrpgcLIL-DVRMPGMTGLELQQELMRREI--KNISIIF 83
Cdd:cd17546     3 VVDDNPVNRKVLKKLLEKLGYEVDVAENgqeALELLKEEPFD----LVLmDLQMPVMDGLEATRRIRELEGggRRTPIIA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1430654112  84 LSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQ 116
Cdd:cd17546    79 LTANALEEDREKCLEAGMDDYLSKPVKLDQLKE 111
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 8-120 2.06e-09

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


Pssm-ID: 381141 [Multi-domain]  Cd Length: 115  Bit Score: 53.24  E-value: 2.06e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGwsvktYESALAFLSDDELT-----RPGCLILDVRMPGMTGLELQQELmrREIKNISII 82
Cdd:cd17626     3 ILVVDDDAALAEMIGIVLRGEG-----FDPAFCGDGTQALAafrevRPDLVLLDLMLPGIDGIEVCRQI--RAESGVPIV 75

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1430654112  83 FLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTT 120
Cdd:cd17626    76 MLTAKSDTVDVVLGLESGADDYVAKPFKPKELVARIRA 113
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
110-206 2.45e-09

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 54.71  E-value: 2.45e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112 110 QPQKLLQRVTTAVARTiQKTAREEELTDLRERLGKLTGREREVAK-LLSEGMRNKEIARSLGIEETTVKMHRANLQAKLG 188
Cdd:COG2909    88 DPEEALALLERLLALA-EAAGRLLLRALALRALGDREEALAALRRrLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLG 166

                          90
                  ....*....|....*...
gi 1430654112 189 VKSTAELTRIFITVEILS 206
Cdd:COG2909   167 VRSRTEAVARARELGLLA 184
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 8-109 4.33e-09

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: 52.11  E-value: 4.33e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELM-RREIKNISIIFLSA 86
Cdd:cd17538     2 ILVVDDEPANRELLEALLSAEGYEVLTADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKeDPETRHIPVIMITA 81

                          90       100
                  ....*....|....*....|...
gi 1430654112  87 HGDIAMATHTIRHGAVDFLEKPV 109
Cdd:cd17538    82 LDDREDRIRGLEAGADDFLSKPI 104
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 8-124 4.81e-09

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: 52.10  E-value: 4.81e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSV---KTYESALAFLSDdelTRPGCLILDVRMPGMTGLELQQElMRREIKNISIIFL 84
Cdd:cd17624     1 ILLVEDDALLGDGLKTGLRKAGYAVdwvRTGAEAEAALAS---GPYDLVILDLGLPDGDGLDLLRR-WRRQGQSLPVLIL 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVtTAVAR 124
Cdd:cd17624    77 TARDGVDDRVAGLDAGADDYLVKPFALEELLARL-RALLR 115
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 8-108 7.42e-09

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: 51.40  E-value: 7.42e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmrREIKNISIIFLSAH 87
Cdd:cd17620     1 ILVIEDEPQIRRFLRTALEAHGYRVFEAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRL--REWSAVPVIVLSAR 78

                          90       100
                  ....*....|....*....|.
gi 1430654112  88 GDIAMATHTIRHGAVDFLEKP 108
Cdd:cd17620    79 DEESDKIAALDAGADDYLTKP 99
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 8-108 8.22e-09

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: 51.22  E-value: 8.22e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRR-EIKNISIIFLSA 86
Cdd:cd19927     1 ILLVDDDPGIRLAVKDYLEDQGFTVIAASNGLEALDLLNQYIPDLIISDIIMPGVDGYSLLGKLRKNaDFDTIPVIFLTA 80

                          90       100
                  ....*....|....*....|....*
gi 1430654112  87 HGdiaMATHTIR---HGAVDFLEKP 108
Cdd:cd19927    81 KG---MTSDRIKgynAGCDGYLSKP 102
ompR PRK09468
osmolarity response regulator; Provisional
 8-124 1.93e-08

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 52.67  E-value: 1.93e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFlsDDELTRP--GCLILDVRMPGMTGLELQQELmRREIKNISIIFLS 85
Cdd:PRK09468    8 ILVVDDDMRLRALLERYLTEQGFQVRSAANAEQM--DRLLTREsfHLMVLDLMLPGEDGLSICRRL-RSQNNPTPIIMLT 84

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVtTAVAR 124
Cdd:PRK09468   85 AKGEEVDRIVGLEIGADDYLPKPFNPRELLARI-RAVLR 122
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 8-118 3.28e-08

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


Pssm-ID: 381161 [Multi-domain]  Cd Length: 117  Bit Score: 49.97  E-value: 3.28e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESAL--AFLSDDEltRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLS 85
Cdd:cd19934     1 LLLVEDDALLAAQLKEQLSDAGYVVDVAEDGEeaLFQGEEE--PYDLVVLDLGLPGMDGLSVLRRW-RSEGRATPVLILT 77

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd19934    78 ARDSWQDKVEGLDAGADDYLTKPFHIEELLARL 110
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
8-133 3.50e-08

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 52.03  E-value: 3.50e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWS---VKTYESALAFLSDdelTRPGCLILDVRMPGMTGLELQQELMRREI-KNISIIF 83
Cdd:PRK10161    5 ILVVEDEAPIREMVCFVLEQNGFQpveAEDYDSAVNQLNE---PWPDLILLDWMLPGGSGIQFIKHLKRESMtRDIPVVM 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 1430654112  84 LSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVtTAVARTIQKTAREE 133
Cdd:PRK10161   82 LTARGEEEDRVRGLETGADDYITKPFSPKELVARI-KAVMRRISPMAVEE 130
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 49-114 6.57e-08

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: 49.31  E-value: 6.57e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1430654112  49 RPGCLILDVRMPGMTGLELQQELMRReiKNISIIFLSAHGDiAMATHTIR---HGAVDFLEKPVQPQKL 114
Cdd:cd17541    46 KPDVITLDIEMPVMDGLEALRRIMAE--RPTPVVMVSSLTE-EGAEITLEaleLGAVDFIAKPSGGISL 111
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 6-118 7.52e-08

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: 48.92  E-value: 7.52e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   6 PLIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmrREIKNISIIFLS 85
Cdd:cd17619     1 PHILIVEDEPVTRATLKSYFEQEGYDVSEAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTREL--REQSEVGIILVT 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd17619    79 GRDDEVDRIVGLEIGADDYVTKPFNPRELLVRA 111
PRK15479 PRK15479
transcriptional regulator TctD;
10-138 8.26e-08

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 50.88  E-value: 8.26e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREiKNISIIFLSAHGD 89
Cdd:PRK15479    5 LAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHLLQSEMYALAVLDINMPGMDGLEVLQRLRKRG-QTLPVLLLTARSA 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1430654112  90 IAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDL 138
Cdd:PRK15479   84 VADRVKGLNVGADDYLPKPFELEELDARLRALLRRSAGQVQEVQQLGEL 132
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 8-124 1.28e-07

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 50.19  E-value: 1.28e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmrREIKNISIIFLSAH 87
Cdd:PRK10529    4 VLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRKPDLIILDLGLPDGDGIEFIRDL--RQWSAIPVIVLSAR 81

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1430654112  88 GDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVAR 124
Cdd:PRK10529   82 SEESDKIAALDAGADDYLSKPFGIGELQARLRVALRR 118
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 8-108 4.73e-07

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: 46.73  E-value: 4.73e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLIL-DVRMPGMTGLELQQELmrREIK-NISIIFLS 85
Cdd:cd18160     2 ILLADDEPSVRKFIVTTLKKAGYAVTEAESGAEALEKLQQGKDIDIVVtDIVMPEMDGIELAREA--RKIDpDVKILFIS 79

                          90       100
                  ....*....|....*....|...
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKP 108
Cdd:cd18160    80 GGAAAAPELLSDAVGDNATLKKP 102
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 8-124 4.75e-07

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


Pssm-ID: 381130 [Multi-domain]  Cd Length: 115  Bit Score: 47.03  E-value: 4.75e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmrREIKNISIIFLSAH 87
Cdd:cd17614     1 ILVVDDEKPISDILKFNLTKEGYEVVTAYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCREV--RKTSNVPIIMLTAK 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1430654112  88 GDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVAR 124
Cdd:cd17614    79 DSEVDKVLGLELGADDYVTKPFSNRELLARVKANLRR 115
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 10-124 5.38e-07

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: 46.76  E-value: 5.38e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLAS------VGwSVKTYESALAFLSDdelTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIF 83
Cdd:cd17532     3 IVDDEPLAREELRYLLEEhpdieiVG-EAENGEEALEAIEE---LKPDVVFLDIQMPGLDGLELAKKL-SKLAKPPLIVF 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1430654112  84 LSAHGDIAMATHTIrhGAVDFLEKPVQPqkllQRVTTAVAR 124
Cdd:cd17532    78 VTAYDEYAVEAFEL--NAVDYLLKPFSE----ERLAEALAK 112
PRK11173 PRK11173
two-component response regulator; Provisional
 1-134 5.86e-07

two-component response regulator; Provisional


Pssm-ID: 183013 [Multi-domain]  Cd Length: 237  Bit Score: 48.47  E-value: 5.86e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   1 MTTtlPLIRIVDDDEELRNSQKMLLASVGWSVktYESA-----LAFLSDDELTrpgCLILDVRMPGMTGLELQQELmrRE 75
Cdd:PRK11173    1 MQT--PHILIVEDELVTRNTLKSIFEAEGYDV--FEATdgaemHQILSENDIN---LVIMDINLPGKNGLLLAREL--RE 71

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1430654112  76 IKNISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEE 134
Cdd:PRK11173   72 QANVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSRTMNLGTVSEE 130
dpiA PRK10046
two-component response regulator DpiA; Provisional
 49-177 6.07e-07

two-component response regulator DpiA; Provisional


Pssm-ID: 182208 [Multi-domain]  Cd Length: 225  Bit Score: 48.48  E-value: 6.07e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  49 RPGCLILDVRMPGMTGLELQQELMRREIKNiSIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVT--------- 119
Cdd:PRK10046   50 KPGLILLDNYLPDGRGINLLHELVQAHYPG-DVVFTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTLTrfrqrkhml 128

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1430654112 120 ----TAVARTIQKT----AREEELTDLRERLGKLTgrEREVAKLLSE-GMRN--KEIARSLGIEETTVK 177
Cdd:PRK10046  129 esidSASQKQIDEMfnayARGEPKDELPTGIDPLT--LNAVRKLFKEpGVQHtaETVAQALTISRTTAR 195
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 8-124 6.44e-07

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: 46.64  E-value: 6.44e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSV----KTYESALAFLsddELTRPGCLILDVRMPGMTGLELQQELMRREIknISIIF 83
Cdd:cd19932     3 VLIAEDEALIRMDLREMLEEAGYEVvgeaSDGEEAVELA---KKHKPDLVIMDVKMPRLDGIEAAKIITSENI--APIVL 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1430654112  84 LSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVAR 124
Cdd:cd19932    78 LTAYSQQDLVERAKEAGAMAYLVKPFSESDLIPAIEMAIAR 118
psREC_PRR cd17582
pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response ...
 53-108 6.94e-07

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


Pssm-ID: 381120 [Multi-domain]  Cd Length: 104  Bit Score: 46.24  E-value: 6.94e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1430654112  53 LIL-DVRMPGMTGLELQQELMRREI-KNISIIFLSAHGDIAMATHTIRHGAVDFLEKP 108
Cdd:cd17582    47 LILtEVDLPVSSGFKLLSYIMRHKIcKNIPVIMMSSQDSVGVVFKCLSKGAADYLVKP 104
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
8-125 7.97e-07

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 47.88  E-value: 7.97e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTY---ESALAFLsDDELTrpgCLILDVRMPGMTGLELQQELmrREIKNISIIFL 84
Cdd:PRK10955    4 ILLVDDDRELTSLLKELLEMEGFNVIVAhdgEQALDLL-DDSID---LLLLDVMMPKKNGIDTLKEL--RQTHQTPVIML 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVART 125
Cdd:PRK10955   78 TARGSELDRVLGLELGADDYLPKPFNDRELVARIRAILRRS 118
PRK10100 PRK10100
transcriptional regulator CsgD;
145-191 8.72e-07

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 47.94  E-value: 8.72e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1430654112 145 LTGREREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKS 191
Cdd:PRK10100  156 LTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKN 202
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 8-118 9.84e-07

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


Pssm-ID: 381100 [Multi-domain]  Cd Length: 115  Bit Score: 45.99  E-value: 9.84e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmrRE---IKNISIIFL 84
Cdd:cd17548     2 ILIVEDNPLNMKLARDLLESAGYEVLEAADGEEALEIARKEKPDLILMDIQLPGMDGLEATRLL--KEdpaTRDIPVIAL 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1430654112  85 SAHgdiAM---ATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd17548    80 TAY---AMkgdREKILEAGCDGYISKPIDTREFLETV 113
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 8-108 1.99e-06

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: 45.24  E-value: 1.99e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWsvKTYESALAFLSDDELTR--PGCLILDVRMPGMTGLELQQElMRREIKNISIIFLS 85
Cdd:cd17553     3 ILIVDDQYGIRILLNEVFNKEGY--QTFQAANGLQALDIVTKerPDLVLLDMKIPGMDGIEILKR-MKVIDENIRVIIMT 79

                          90       100
                  ....*....|....*....|...
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKP 108
Cdd:cd17553    80 AYGELDMIQESKELGALTHFAKP 102
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 8-108 2.09e-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: 44.74  E-value: 2.09e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSV---KTYESALAFLSDDELTrpgCLILDVRMPGMTGLELQQELmRREIKNISIIFL 84
Cdd:cd19935     1 ILVVEDEKKLAEYLKKGLTEEGYAVdvaYDGEDGLHLALTNEYD---LIILDVMLPGLDGLEVLRRL-RAAGKQTPVLML 76

                          90       100
                  ....*....|....*....|....
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKP 108
Cdd:cd19935    77 TARDSVEDRVKGLDLGADDYLVKP 100
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 8-115 2.74e-06

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: 44.71  E-value: 2.74e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSV----KTYESALAFLSDdelTRPGCLILDVRMPG-MTGLELQQELmrREIKNISII 82
Cdd:cd17534     3 ILIVEDEAIIALDLKEILESLGYEVvgiaDSGEEAIELAEE---NKPDLILMDINLKGdMDGIEAAREI--REKFDIPVI 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1430654112  83 FLSAHGD---IAMATHTIRHGavdFLEKPVQPQKLL 115
Cdd:cd17534    78 FLTAYSDeetLERAKETNPYG---YLVKPFNERELK 110
PLN03029 PLN03029
type-a response regulator protein; Provisional
 11-134 3.32e-06

type-a response regulator protein; Provisional


Pssm-ID: 215544 [Multi-domain]  Cd Length: 222  Bit Score: 46.18  E-value: 3.32e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  11 VDDDEELRNSQKMLLASVGWSVKTYES---ALAFLS--DDELTRP---------------GCLILDVRMPGMTGLELQQE 70
Cdd:PLN03029   14 VDDSLIDRKLIEKLLKTSSYQVTTVDSgskALKFLGlhEDDRSNPdtpsvspnshqevevNLIITDYCMPGMTGYDLLKK 93

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1430654112  71 LMRRE-IKNISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKlLQRVTTAVARTIQKTAREEE 134
Cdd:PLN03029   94 IKESSsLRNIPVVIMSSENVPSRITRCLEEGAEEFFLKPVQLSD-LNRLKPHMMKTKSKNQKQEN 157
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 8-118 3.69e-06

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: 44.62  E-value: 3.69e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSV---KTYESALAFLSddeLTRPGCLILDVRMPGMTGLELQQELMRRE-IKNISIIF 83
Cdd:cd17598     1 ILIVEDSPTQAEQLKHILEEQGYKVqvaRNGREALAMLA---EHRPTLVISDIVMPEMDGYELCRKIKSDPdLKDIPVIL 77

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1430654112  84 LSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd17598    78 LTTLSDPRDVIRGLECGADNFITKPYDEKYLLSRI 112
REC_RcNtrC-like cd19928
phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...
 8-108 4.27e-06

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: 44.03  E-value: 4.27e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSAH 87
Cdd:cd19928     1 ILVADDDRAIRTVLTQALGRAGYEVRTTGNAATLWRWVEEGEGDLVITDVVMPDENGLDLIPRI-KKARPDLPIIVMSAQ 79

                          90       100
                  ....*....|....*....|.
gi 1430654112  88 GDIAMATHTIRHGAVDFLEKP 108
Cdd:cd19928    80 NTLMTAVKAAERGAFEYLPKP 100
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 6-133 4.35e-06

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 45.72  E-value: 4.35e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   6 PLIRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLS 85
Cdd:PRK11083    4 PTILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQPPDLVILDVGLPDISGFELCRQL-LAFHPALPVIFLT 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVtTAVARTIQKTAREE 133
Cdd:PRK11083   83 ARSDEVDRLVGLEIGADDYVAKPFSPREVAARV-RTILRRVKKFAAPS 129
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 96-188 7.47e-06

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: 44.60  E-value: 7.47e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  96 TIRHGAVDFLEK----PVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLGKLTGREREVAKLLS-EGMRNKEIARSLG 170
Cdd:COG1595    75 IARNLAIDHLRKrrrrRELLDELAEELPDEAADPEEALEAEELLEALLAALERLPPRQREVLVLRYlEGLSYAEIAEILG 154

                          90       100
                  ....*....|....*....|..
gi 1430654112 171 IEETTVKMH----RANLQAKLG 188
Cdd:COG1595   155 ISEGTVKSRlsraRKKLREALE 176
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 7-118 7.51e-06

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: 43.59  E-value: 7.51e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   7 LIRIVDDDEELRNSQKMLLASVGWSV----KTYESALAFLSDdeltRPGCLILDVRMPGMTGLELQQELMRREikNISII 82
Cdd:cd17594     1 HVLVVDDDAAMRHLLILYLRERGFDVtaaaDGAEEARLMLHR----RVDLVLLDLRLGQESGLDLLRTIRARS--DVPII 74

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1430654112  83 FLSAHGDIAMATHT-IRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd17594    75 IISGDRRDEIDRVVgLELGADDYLAKPFGLRELLARV 111
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 53-116 8.04e-06

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


Pssm-ID: 381124 [Multi-domain]  Cd Length: 117  Bit Score: 43.29  E-value: 8.04e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1430654112  53 LILDVRMPGMTGLELQQELMRREIKnISIIFLSahGDI--AMATHTIRHGAVDFLEKPVQPQKLLQ 116
Cdd:cd17593    49 LFLDLTMPVMDGYEVLEALPVEQLE-TKVIVVS--GDVqpEAKERVLELGALAFLKKPFDPEKLAQ 111
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 36-118 8.49e-06

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: 43.56  E-value: 8.49e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  36 ESALAFLSD----DELTRPGCLILDVRMPGMTGLELQQELMRRE-IKNISIIFLS---AHGDIAMATHtirHGAVDFLEK 107
Cdd:cd17557    35 EEALDFLRGegeyADAPRPDLILLDLNMPRMDGFEVLREIKADPdLRRIPVVVLTtsdAEEDIERAYE---LGANSYIVK 111

                          90
                  ....*....|.
gi 1430654112 108 PVQPQKLLQRV 118
Cdd:cd17557   112 PVDFEEFVEAI 122
REC_typeA_ARR cd17581
phosphoacceptor receiver (REC) domain of type A Arabidopsis response regulators (ARRs) and ...
 11-111 9.16e-06

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


Pssm-ID: 381119 [Multi-domain]  Cd Length: 122  Bit Score: 43.51  E-value: 9.16e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  11 VDDDEELRNSQKMLLASVGWSVKTYES---ALAFL-SDDELTRPGCLILDVR-------MPGMTGLELqqeLMR----RE 75
Cdd:cd17581     4 VDDSLVDRKVIERLLRISSCRVTAVDSgkrALEFLgLEDEEDSSNFNEPKVNmiitdycMPGMTGYDL---LKKvkesSA 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1430654112  76 IKNISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQP 111
Cdd:cd17581    81 LKEIPVVIMSSENIPTRISRCLEEGAEDFLLKPVKL 116
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 8-118 1.18e-05

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: 43.14  E-value: 1.18e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTY---ESALAFLSDDeltRPGCLILDVRMPGMTGLELQQELmrREIKNISIIFL 84
Cdd:cd17622     3 ILLVEDDPKLARLIADFLESHGFNVVVEhrgDRALEVIARE---KPDAVLLDIMLPGIDGLTLCRDL--RPKYQGPILLL 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1430654112  85 SAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd17622    78 TALDSDIDHILGLELGADDYVVKPVEPAVLLARL 111
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 8-108 1.25e-05

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: 42.57  E-value: 1.25e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLsdDELTRPGC--LILDVRMPGMTGLELQQELmrREIKNISIIFLS 85
Cdd:cd17621     1 VLVVEDEESFSDPLAYLLRKEGFEVTVATDGPAAL--AEFDRAGAdiVLLDLMLPGLSGTEVCRQL--RARSNVPVIMVT 76

                          90       100
                  ....*....|....*....|...
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKP 108
Cdd:cd17621    77 AKDSEIDKVVGLELGADDYVTKP 99
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
8-158 1.36e-05

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 45.02  E-value: 1.36e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLElqqelMRREIKN----ISIIF 83
Cdd:PRK10365    8 ILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQVFDLVLCDVRMAEMDGIA-----TLKEIKAlnpaIPVLI 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1430654112  84 LSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTDlrERLGkLTGREREVAKLLSE 158
Cdd:PRK10365   83 MTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALAHTHSIDAETPAVTA--SQFG-MVGKSPAMQHLLSE 154
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 93-187 1.55e-05

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


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 43.49  E-value: 1.55e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  93 ATHTIRHGAVDFLEK---PVQPQKLLQRVTTAVARTIQKTAREEELTDLRERLGKLTGREREVAKL-LSEGMRNKEIARS 168
Cdd:TIGR02937  56 LFRIARNLILDYLRRkrrLRRELDLLEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLrYLEGLSYKEIAEI 135

                          90
                  ....*....|....*....
gi 1430654112 169 LGIEETTVKMHRANLQAKL 187
Cdd:TIGR02937 136 LGISVGTVKRRLKRARKKL 154
PRK13557 PRK13557
histidine kinase; Provisional
 8-118 1.75e-05

histidine kinase; Provisional


Pssm-ID: 237425 [Multi-domain]  Cd Length: 540  Bit Score: 44.66  E-value: 1.75e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYES---ALAFLsdDELTRPGCLILDVRMPG-MTGLELQQElMRREIKNISIIF 83
Cdd:PRK13557  418 ILIVDDRPDVAELARMILEDFGYRTLVASNgreALEIL--DSHPEVDLLFTDLIMPGgMNGVMLARE-ARRRQPKIKVLL 494

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1430654112  84 LSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:PRK13557  495 TTGYAEASIERTDAGGSEFDILNKPYRRAELARRV 529
PRK10188 PRK10188
transcriptional regulator SdiA;
86-186 2.76e-05

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 43.62  E-value: 2.76e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  86 AHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTiqktarEEELTDLRERlgKLTGREREVAKLLSEGMRNKEI 165
Cdd:PRK10188  129 ALGFLSFSRCSAREIPILSDELELRLQLLVRESLMALMRL------EDEMVMTPEM--NFSKREKEILKWTAEGKTSAEI 200

                          90       100
                  ....*....|....*....|.
gi 1430654112 166 ARSLGIEETTVKMHRANLQAK 186
Cdd:PRK10188  201 AMILSISENTVNFHQKNMQKK 221
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 10-109 2.83e-05

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: 41.56  E-value: 2.83e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTYES---ALAFLSDDelTRPGCLILDVRMPG-MTGLELQQELMRREIKnISIIFLS 85
Cdd:cd18161     3 VVEDDPDVRRLTAEVLEDLGYTVLEAASgdeALDLLESG--PDIDLLVTDVIMPGgMNGSQLAEEARRRRPD-LKVLLTS 79

                          90       100
                  ....*....|....*....|....*
gi 1430654112  86 AHGDIAMAthTIRHGA-VDFLEKPV 109
Cdd:cd18161    80 GYAENAIE--GGDLAPgVDVLSKPF 102
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 8-120 3.67e-05

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: 41.59  E-value: 3.67e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmrREIKNISIIFLSAH 87
Cdd:cd19938     2 ILIVEDEPKLAQLLIDYLRAAGYAPTLLAHGDQVLPYVRHTPPDLILLDLMLPGTDGLTLCREI--RRFSDVPIIMVTAR 79

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1430654112  88 GDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTT 120
Cdd:cd19938    80 VEEIDRLLGLELGADDYICKPYSPREVVARVKA 112
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 10-60 4.35e-05

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: 39.86  E-value: 4.35e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1430654112   10 IVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMP 60
Cdd:smart00448   5 VVDDDPLLRELLKALLEKEGYEVDEATDGEEALELLKEEKPDLILLDIMMP 55
REC_LytTR_AgrA-like cd17533
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AgrA; ...
 53-122 6.55e-05

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


Pssm-ID: 381088 [Multi-domain]  Cd Length: 131  Bit Score: 41.07  E-value: 6.55e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  53 LILDVRMPGMTGLELQQELmRREIKNISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAV 122
Cdd:cd17533    57 LDIDIKMEEKNGLEVAQKI-RKYDPYAIIIFVTTHSEFAPLTFEYKVAALDFILKPLKLEEFKKRIEECI 125
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 6-141 7.66e-05

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: 41.20  E-value: 7.66e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   6 PLIRIVDDDEELRNSQKMLLASvGWSVKTY---ESALAFLSDDELTrpgCLILDVRMPGMTGLELQQELMRREIKNISII 82
Cdd:cd17596     1 PTILVVDDEVRSLEALRRTLEE-DFDVLTAasaEEALAILEEEWVQ---VILCDQRMPGTTGVEFLKEVRERWPEVVRII 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  83 fLSAHGDIAMATHTIRHGAV-DFLEKPVQPQKLLQRVTTAVarTIQKTAREEELTDLRER 141
Cdd:cd17596    77 -ISGYTDSEDIIAGINEAGIyQYLTKPWHPDQLLLTVRNAA--RLFELQRENERLSLELR 133
PRK09639 PRK09639
RNA polymerase sigma factor SigX; Provisional
 131-181 9.87e-05

RNA polymerase sigma factor SigX; Provisional


Pssm-ID: 236602 [Multi-domain]  Cd Length: 166  Bit Score: 41.09  E-value: 9.87e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1430654112 131 REEELTDLRERLGKLTGREREVAKLLSEGMRNKEIARSLGIEETTVK--MHRA 181
Cdd:PRK09639   99 RKEEITKVQEVLAKMTERDRTVLLLRFSGYSYKEIAEALGIKESSVGttLARA 151
PRK10693 PRK10693
two-component system response regulator RssB;
49-158 1.36e-04

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 41.90  E-value: 1.36e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  49 RPGCLILDVRMPGMTGLELQQELMRREIKnISIIFLSAHGDIAMATHTIRHGAVDFLEKPVqpqKLLQRVTTAVARTIQK 128
Cdd:PRK10693   17 TPDLIICDLAMPRMNGIEFVEHLRNRGDQ-TPVLVISATENMADIAKALRLGVQDVLLKPV---KDLNRLREMVFACLYP 92

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1430654112 129 ---TAREEELTDLRERLGKLTGREREVAKLLSE 158
Cdd:PRK10693   93 smfNSRVEEEERLFRDWDALVDNPAAAAKLLKQ 125
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 10-108 1.44e-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: 39.44  E-value: 1.44e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGWSVKTyESALAFLSDDELTRPGCLIL-DVRMPGMTGLELQQELMRReIKNISIIFLSAHG 88
Cdd:cd19926     3 VVDDEPDIRELLEITLGRMGLDVRS-ARNVKEARELLASEPYDLCLtDMRLPDGSGLELVQHIQQR-LPQTPVAVITAYG 80

                          90       100
                  ....*....|....*....|
gi 1430654112  89 DIAMATHTIRHGAVDFLEKP 108
Cdd:cd19926    81 SLDTAIEALKAGAFDFLTKP 100
PRK15347 PRK15347
two component system sensor kinase;
8-158 1.85e-04

two component system sensor kinase;


Pssm-ID: 237951 [Multi-domain]  Cd Length: 921  Bit Score: 41.94  E-value: 1.85e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQeLMRREIKNIS----IIF 83
Cdd:PRK15347  693 ILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGRQHRFDLVLMDIRMPGLDGLETTQ-LWRDDPNNLDpdcmIVA 771

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  84 LSAHGdIAMATHTIR-HGAVDFLEKPVQPQKLLQRVTTAV----ARTIQKTAREEEL--------TDLRERLGkltgreR 150
Cdd:PRK15347  772 LTANA-APEEIHRCKkAGMNHYLTKPVTLAQLARALELAAeyqlLRGIELSPQDSSCsplldtddMALNSKLY------Q 844


                  ....*...
gi 1430654112 151 EVAKLLSE 158
Cdd:PRK15347  845 SLLLLLAQ 852
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 8-118 2.08e-04

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: 39.63  E-value: 2.08e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWS-VKTYE---SALAFLSDDELtrpGCLILDVRMPGMTGLELQQELMRRE-IKNISII 82
Cdd:cd19923     3 VLVVDDFSTMRRIIKNLLKELGFNnVEEAEdgvDALEKLKAGGF---DFVITDWNMPNMDGLELLKTIRADGaLSHLPVL 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1430654112  83 FLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:cd19923    80 MVTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKL 115
PRK10336 PRK10336
two-component system response regulator QseB;
8-188 2.20e-04

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 40.65  E-value: 2.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSV------KTYESALAFLSDDeltrpgCLILDVRMPGMTGLELQQElMRREIKNISI 81
Cdd:PRK10336    3 ILLIEDDMLIGDGIKTGLSKMGFSVdwftqgRQGKEALYSAPYD------AVILDLTLPGMDGRDILRE-WREKGQREPV 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  82 IFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTARE----EELTDLRERLGKLTG-----REREV 152
Cdd:PRK10336   76 LILTARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMRRTNGQASNElrhgNVMLDPGKRIATLAGepltlKPKEF 155

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 1430654112 153 AkLLSEGMRN--KEIARSLgIEE-----------TTVKMHRANLQAKLG 188
Cdd:PRK10336  156 A-LLELLMRNagRVLPRKL-IEEklytwdeevtsNAVEVHVHHLRRKLG 202
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 53-124 3.23e-04

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 40.29  E-value: 3.23e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1430654112  53 LILDVRMPGMTGLELQQeLMRREIKNISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVAR 124
Cdd:PRK09836   48 IILDIMLPDVNGWDIVR-MLRSANKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRR 118
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 8-122 3.52e-04

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: 38.93  E-value: 3.52e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREIKNiSIIFLSAH 87
Cdd:cd17616     1 VLLIEDDSATAQSIELMLKSEGFNVYTTDLGEEGLDLGKLYDYDIILLDLNLPDMSGYEVLRTLRLAKVKT-PILILSGL 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1430654112  88 GDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAV 122
Cdd:cd17616    80 ADIEDKVKGLGFGADDYMTKPFHKDELVARIHAIV 114
pleD PRK09581
response regulator PleD; Reviewed
 55-173 4.25e-04

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 40.65  E-value: 4.25e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  55 LDVRMPGMTGLELQqelmrREIK------NISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVartiqk 128
Cdd:PRK09581   52 LDVMMPGMDGFEVC-----RRLKsdpattHIPVVMVTALDDPEDRVRGLEAGADDFLTKPINDVALFARVKSLT------ 120

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 1430654112 129 taREEELTD-LRERlgKLTGREREVAKLLSEGMRNK-EIARSLGIEE 173
Cdd:PRK09581  121 --RLKMVIDeLRLR--ASTNAEIGVTALMIMAYANKdEDGRILLVDD 163
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 97-179 4.67e-04

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


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 39.08  E-value: 4.67e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  97 IRHGAVDFLEKPVQPQKLLQRVTTAVARTIQKTAREEELTD------LRERLGKLTGREREVAKL-LSEGMRNKEIARSL 169
Cdd:TIGR02985  60 VKNRCLNYLRHKQVEEKYQEELAEIEERELSEADPEEELEAkeleeiIEEAIEKLPEQCREIFILsRFEGLSNKEIAEEL 139

                          90
                  ....*....|
gi 1430654112 170 GIEETTVKMH 179
Cdd:TIGR02985 140 GISVKTVEYH 149
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 10-123 6.75e-04

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: 38.19  E-value: 6.75e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASVGW-SVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMRREiKNISIIFLSAHG 88
Cdd:cd17530     5 VLDDDPFQCMMAATILEDLGPgNVDEADDGREALVILLCNAPDIIICDLKMPDMDGIEFLRHLAESH-SNAAVILMSGLD 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1430654112  89 DI---AMATHTIRHG--AVDFLEKPVQPQKLLQRVTTAVA 123
Cdd:cd17530    84 GGileSAETLAGANGlnLLGTLSKPFSPEELTELLTKYTA 123
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 8-108 8.62e-04

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


Pssm-ID: 381151 [Multi-domain]  Cd Length: 111  Bit Score: 37.74  E-value: 8.62e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKT---------YESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELMR-REIK 77
Cdd:cd19924     1 ILVVDDSPTARKQLRDLLKNLGFEIAEavdgeealnKLENLAKEGNDLSKELDLIITDIEMPKMDGYELTFELRDdPRLA 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1430654112  78 NISIIFLSAHGDIAMATHTIRHGAVDFLEKP 108
Cdd:cd19924    81 NIPVILNSSLSGEFSRARGKKVGADAYLAKF 111
PRK11697 PRK11697
two-component system response regulator BtsR;
49-118 8.79e-04

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 39.06  E-value: 8.79e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  49 RPGCLILDVRMPGMTGLE----LQQELMRReiknisIIFLSAHGDIAmathtIR----HgAVDFLEKPVQPQKL---LQR 117
Cdd:PRK11697   47 KPDVVFLDIQMPRISGLElvgmLDPEHMPY------IVFVTAFDEYA-----IKafeeH-AFDYLLKPIDPARLaktLAR 114


                  .
gi 1430654112 118 V 118
Cdd:PRK11697  115 L 115
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 49-123 1.23e-03

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: 37.25  E-value: 1.23e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1430654112  49 RPGCLILDVRMPGMTGLELQQELmRREIKNISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRVTTAVA 123
Cdd:cd19930    44 SPDVAILDIEMPGRTGLEVAAEL-REELPDTKVLIVTTFGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVHA 117
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
145-194 1.24e-03

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 39.16  E-value: 1.24e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1430654112 145 LTGREREVAKLLSEGMRNKEIARSLGIEETTVKMHRANLQAKLGVKSTAE 194
Cdd:PRK04841  839 LTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHRQE 888
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 8-123 1.94e-03

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: 36.94  E-value: 1.94e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLA-----SVGWSVKTYESALAFLSDDEltrPGCLILDVRMPGMTGLELQQELMRREIKNISII 82
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIEldpdfTVVGEASSGEEGIELAERLD---PDLILLDLNMKGMSGLDTLKALREEGVSARIVI 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1430654112  83 FL--SAHGDIAMAthtIRHGAVDFLEKPVQPQKLLQRVTTAVA 123
Cdd:cd19931    78 LTvsDAEDDVVTA---LRAGADGYLLKDMEPEDLLEALKQAAS 117
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 10-109 2.63e-03

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


Pssm-ID: 381112 [Multi-domain]  Cd Length: 103  Bit Score: 36.10  E-value: 2.63e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDeelRNSQKML--------LASVgwsVKTYESALAflSDDELTR--PGCLILDVRMPGMTGLELQQELmRREIKNI 79
Cdd:cd17565     3 IVDDD---KNIIKILsdiiedddLGEV---VGEADNGAQ--AYDEILFlqPDIVLIDLLMPGMDGIQLVRKL-KDTGSNG 73

                          90       100       110
                  ....*....|....*....|....*....|
gi 1430654112  80 SIIFLSAHGDIAMATHTIRHGAVDFLEKPV 109
Cdd:cd17565    74 KFIMISQVSDKEMIGKAYQAGIEFFINKPI 103
PRK10430 PRK10430
two-component system response regulator DcuR;
10-110 2.67e-03

two-component system response regulator DcuR;


Pssm-ID: 182454 [Multi-domain]  Cd Length: 239  Bit Score: 37.78  E-value: 2.67e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  10 IVDDDEELRNSQKMLLASV-GWS----VKTYESALAFLSDDELtrPGCLIL-DVRMPGMTGLELQQELmRREIKNISIIF 83
Cdd:PRK10430    6 IVDDDAMVAELNRRYVAQIpGFQccgtASTLEQAKEIIFNSDT--PIDLILlDIYMQQENGLDLLPVL-HEAGCKSDVIV 82

                          90       100
                  ....*....|....*....|....*..
gi 1430654112  84 LSAHGDIAMATHTIRHGAVDFLEKPVQ 110
Cdd:PRK10430   83 ISSAADAATIKDSLHYGVVDYLIKPFQ 109
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 138-181 3.41e-03

Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif.


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 34.74  E-value: 3.41e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1430654112 138 LRERLGKLTGREREVAKLLS-EGMRNKEIARSLGIEETTVK--MHRA 181
Cdd:pfam08281   4 LLRALEELPPRQREVFLLRYlEGLSYAEIAELLGISEGTVKsrLSRA 50
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
46-108 5.02e-03

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 37.05  E-value: 5.02e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1430654112  46 ELTRPGCLILDVRMPGMTGLELQQELMRReiKNISIIFLSAhgdiamATH-----TIR---HGAVDFLEKP 108
Cdd:PRK00742   46 KKLNPDVITLDVEMPVMDGLDALEKIMRL--RPTPVVMVSS------LTErgaeiTLRaleLGAVDFVTKP 108
PRK11517 PRK11517
DNA-binding response regulator HprR;
53-118 5.39e-03

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 36.80  E-value: 5.39e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1430654112  53 LILDVRMPGMTGLELQQELmrREIKNISIIFLSAHGDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:PRK11517   48 IILDIMLPGMDGWQILQTL--RTAKQTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARV 111
PRK10766 PRK10766
two-component system response regulator TorR;
8-118 5.47e-03

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 36.55  E-value: 5.47e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112   8 IRIVDDDEELRNSQKMLLASVGWSVKTYESALAFLSDDELTRPGCLILDVRMPGMTGLELQQELmrREIKNISIIFLSAH 87
Cdd:PRK10766    5 ILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIMQNQHVDLILLDINLPGEDGLMLTREL--RSRSTVGIILVTGR 82

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1430654112  88 GDIAMATHTIRHGAVDFLEKPVQPQKLLQRV 118
Cdd:PRK10766   83 TDSIDRIVGLEMGADDYVTKPLELRELLVRV 113
PRK12519 PRK12519
RNA polymerase sigma factor; Provisional
 98-177 5.86e-03

RNA polymerase sigma factor; Provisional


Pssm-ID: 237125 [Multi-domain]  Cd Length: 194  Bit Score: 36.19  E-value: 5.86e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1430654112  98 RHGAVDFLEKPVQPQKLLQRVTT-----AVART-IQKTAREEELTDLRERLGKLTGREREVAKLLS-EGMRNKEIARSLG 170
Cdd:PRK12519   89 RSRAIDRLRSRRSRQRLLERWQQellgeASEDTpLEQASLAERSQRVQTALAQLPESQRQVLELAYyEGLSQSEIAKRLG 168


                  ....*..
gi 1430654112 171 IEETTVK 177
Cdd:PRK12519  169 IPLGTVK 175
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 46-108 8.61e-03

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: 34.89  E-value: 8.61e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1430654112  46 ELTRPGCLILDVRMPGMTGLELQQEL-MRREIKNISIIFLSAHGDIAMATHTIRHGAVDFLEKP 108
Cdd:cd17561    44 EEKEPDVLLLDIIMPHLDGIGVLEKLrRMRLEKRPKIIMLTAFGQEDITQRAVELGASYYILKP 107
 
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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