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Conserved domains on  [gi|2646617639|ref|WP_324041661|]
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response regulator [Aeromonas caviae]

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 ...
 10-195 2.81e-72

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: 217.28  E-value: 2.81e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  10 YLVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHG 89
Cdd:COG4566     3 YIVDDDEAVRDSLAFLLESAG-LRVETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLTGHG 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  90 EVPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLAQLAA----FERLTPRERQLLQLIARGHKNQQIAQD 165
Cdd:COG4566    82 DVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAElrarLASLTPREREVLDLVVAGLSNKQIARE 161

                         170       180       190
                  ....*....|....*....|....*....|
gi 2646617639 166 LCISVRTVEVCRASLMKRLAVNSLAEmLLR 195
Cdd:COG4566   162 LGISPRTVEVHRANVMEKLGARSLAE-LVR 190
 
Name Accession Description Interval E-value
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 10-195 2.81e-72

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: 217.28  E-value: 2.81e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  10 YLVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHG 89
Cdd:COG4566     3 YIVDDDEAVRDSLAFLLESAG-LRVETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLTGHG 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  90 EVPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLAQLAA----FERLTPRERQLLQLIARGHKNQQIAQD 165
Cdd:COG4566    82 DVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAElrarLASLTPREREVLDLVVAGLSNKQIARE 161

                         170       180       190
                  ....*....|....*....|....*....|
gi 2646617639 166 LCISVRTVEVCRASLMKRLAVNSLAEmLLR 195
Cdd:COG4566   162 LGISPRTVEVHRANVMEKLGARSLAE-LVR 190
tetrathio_RR NF040749
tetrathionate respiration response regulator TtrR;
9-192 1.37e-66

tetrathionate respiration response regulator TtrR;


Pssm-ID: 468713 [Multi-domain]  Cd Length: 191  Bit Score: 202.59  E-value: 1.37e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLESCDERqLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGH 88
Cdd:NF040749    2 IHLVDDDVAVTDACRFLLESLGYE-VQCWNDSEAFLAQADLYQEGVVLLDMRMPGLDGHQVHQALREQGSTLAVVFLTGH 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLAQLAAFERLTPRERQLLQLIARGHKNQQIAQDLCI 168
Cdd:NF040749   81 GDVPMAVEQMKLGAVDFLQKPVSAAPLQAALERALAVSAAAFERHQIRQRYQSLTPKEREIAGLVVQGLMNREIAEALNI 160

                         170       180
                  ....*....|....*....|....
gi 2646617639 169 SVRTVEVCRASLMKRLAVNSLAEM 192
Cdd:NF040749  161 AVRTVEVHRARVMEKMAAGSLAEL 184
fixJ PRK09390
response regulator FixJ; Provisional
 4-197 4.44e-54

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 171.34  E-value: 4.44e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   4 PSRPPLYLVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAIL 83
Cdd:PRK09390    1 SDKGVVHVVDDDEAMRDSLAFLLDSAG-FEVRLFESAQAFLDALPGLRFGCVVTDVRMPGIDGIELLRRLKARGSPLPVI 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  84 FLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLAQLAA----FERLTPRERQLLQLIARGHKN 159
Cdd:PRK09390   80 VMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPEAAKSEAVAADirarIASLSERERQVMDGLVAGLSN 159

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 2646617639 160 QQIAQDLCISVRTVEVCRASLMKRLAVNSLAEmLLRYA 197
Cdd:PRK09390  160 KVIARDLDISPRTVEVYRANVMTKMQAGSLSE-LVRMA 196
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 7-121 9.25e-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: 154.67  E-value: 9.25e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   7 PPLYLVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLT 86
Cdd:cd17537     1 ATVYVVDDDEAVRDSLAFLLRSVG-LAVKTFTSASAFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGSNIPIIFIT 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2646617639  87 GHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd17537    80 GHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQ 114
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 11-120 1.59e-26

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


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 97.61  E-value: 1.59e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:pfam00072   3 IVDDDPLIRELLRQLLEK-EGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAHGD 81

                          90       100       110
                  ....*....|....*....|....*....|
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:pfam00072  82 EDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 139-197 7.73e-17

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 71.02  E-value: 7.73e-17
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 2646617639  139 FERLTPRERQLLQLIARGHKNQQIAQDLCISVRTVEVCRASLMKRLAVNSLAEmLLRYA 197
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQ-AVRLA 58
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 9-121 1.91e-07

PEP-CTERM-box response regulator transcription factor; Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see SP|Q06065). These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158). [Regulatory functions, DNA interactions]


Pssm-ID: 274348 [Multi-domain]  Cd Length: 445  Bit Score: 50.52  E-value: 1.91e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFmleSCDERQLFSFADGERFLAEVDLHQPACLILDCRMP----GLS-GPEVQQRLKAAQSPIAIL 83
Cdd:TIGR02915   1 LLIVEDDLGLQKQLKW---SFADYELAVAADRESAIALVRRHEPAVVTLDLGLPpdadGASeGLAALQQILAIAPDTKVI 77

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2646617639  84 FLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:TIGR02915  78 VITGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDR 115
 
Name Accession Description Interval E-value
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 10-195 2.81e-72

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: 217.28  E-value: 2.81e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  10 YLVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHG 89
Cdd:COG4566     3 YIVDDDEAVRDSLAFLLESAG-LRVETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLTGHG 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  90 EVPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLAQLAA----FERLTPRERQLLQLIARGHKNQQIAQD 165
Cdd:COG4566    82 DVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAElrarLASLTPREREVLDLVVAGLSNKQIARE 161

                         170       180       190
                  ....*....|....*....|....*....|
gi 2646617639 166 LCISVRTVEVCRASLMKRLAVNSLAEmLLR 195
Cdd:COG4566   162 LGISPRTVEVHRANVMEKLGARSLAE-LVR 190
tetrathio_RR NF040749
tetrathionate respiration response regulator TtrR;
9-192 1.37e-66

tetrathionate respiration response regulator TtrR;


Pssm-ID: 468713 [Multi-domain]  Cd Length: 191  Bit Score: 202.59  E-value: 1.37e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLESCDERqLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGH 88
Cdd:NF040749    2 IHLVDDDVAVTDACRFLLESLGYE-VQCWNDSEAFLAQADLYQEGVVLLDMRMPGLDGHQVHQALREQGSTLAVVFLTGH 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLAQLAAFERLTPRERQLLQLIARGHKNQQIAQDLCI 168
Cdd:NF040749   81 GDVPMAVEQMKLGAVDFLQKPVSAAPLQAALERALAVSAAAFERHQIRQRYQSLTPKEREIAGLVVQGLMNREIAEALNI 160

                         170       180
                  ....*....|....*....|....
gi 2646617639 169 SVRTVEVCRASLMKRLAVNSLAEM 192
Cdd:NF040749  161 AVRTVEVHRARVMEKMAAGSLAEL 184
fixJ PRK09390
response regulator FixJ; Provisional
 4-197 4.44e-54

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 171.34  E-value: 4.44e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   4 PSRPPLYLVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAIL 83
Cdd:PRK09390    1 SDKGVVHVVDDDEAMRDSLAFLLDSAG-FEVRLFESAQAFLDALPGLRFGCVVTDVRMPGIDGIELLRRLKARGSPLPVI 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  84 FLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLAQLAA----FERLTPRERQLLQLIARGHKN 159
Cdd:PRK09390   80 VMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPEAAKSEAVAADirarIASLSERERQVMDGLVAGLSN 159

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 2646617639 160 QQIAQDLCISVRTVEVCRASLMKRLAVNSLAEmLLRYA 197
Cdd:PRK09390  160 KVIARDLDISPRTVEVYRANVMTKMQAGSLSE-LVRMA 196
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 7-121 9.25e-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: 154.67  E-value: 9.25e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   7 PPLYLVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLT 86
Cdd:cd17537     1 ATVYVVDDDEAVRDSLAFLLRSVG-LAVKTFTSASAFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGSNIPIIFIT 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2646617639  87 GHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd17537    80 GHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQ 114
PRK15369 PRK15369
two component system response regulator;
11-198 1.17e-26

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 101.31  E-value: 1.17e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSFA-DGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHG 89
Cdd:PRK15369    8 LVDDHELIINGIKNMLAPYPRYKIVGQVdNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNILVLTARQ 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  90 EVPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAA--ATRLAQLAAF--------ERLTPRERQLLQLIARGHKN 159
Cdd:PRK15369   88 EEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIdpALNREAILALlnaddtnpPLLTPRERQILKLITEGYTN 167

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 2646617639 160 QQIAQDLCISVRTVEVCRASLMKRLAVNSLAEmLLRYAQ 198
Cdd:PRK15369  168 RDIAEQLSISIKTVETHRLNMMRKLDVHKVAE-LLNWAR 205
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 11-120 1.59e-26

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


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 97.61  E-value: 1.59e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:pfam00072   3 IVDDDPLIRELLRQLLEK-EGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAHGD 81

                          90       100       110
                  ....*....|....*....|....*....|
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:pfam00072  82 EDDAVEALEAGADDFLSKPFDPDELLAAIR 111
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 11-121 3.12e-26

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: 97.56  E-value: 3.12e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERqLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:cd17549     3 LVDDDADVREALQQTLELAGFR-VRAFADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIRELDPDLPVILITGHGD 81

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd17549    82 VPMAVEAMRAGAYDFLEKPFDPERLLDVVRR 112
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 5-155 4.40e-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: 103.50  E-value: 4.40e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   5 SRPPLYLVDDDEAVLDSLRFMLESCDErQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILF 84
Cdd:COG2204     1 SMARILVVDDDPDIRRLLKELLERAGY-EVETAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDPDLPVIL 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2646617639  85 LTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIERaDQATQAAATRLAQLAAFERLTPRERQLLQLIAR 155
Cdd:COG2204    80 LTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVER-ALERRRLRRENAEDSGLIGRSPAMQEVRRLIEK 149
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 11-189 5.71e-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: 96.56  E-value: 5.71e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:COG0745     6 VVEDDPDIRELLADALEREG-YEVDTAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDIPIIMLTARDD 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLAQLAAFER-----------LTPRERQLLQLIARgHKN 159
Cdd:COG0745    85 EEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRAAEVLRVGDLLDLAArevtrdgepveLTPKEFRLLELLMR-NPG 163

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 2646617639 160 Q-----QIAQDL----CISVRTVEVCRASLMKRLAVNSL 189
Cdd:COG0745   164 RvvsreQLLEEVwgydYGDDRTVDVHISRLRKKLEDDLI 202
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 11-109 3.54e-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: 88.82  E-value: 3.54e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDErQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:cd00156     2 IVDDDPAIRELLKSLLEREGY-EVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAKAD 80

                          90
                  ....*....|....*....
gi 2646617639  91 VPLAVESLKLGAVDFLQKP 109
Cdd:cd00156    81 EEDAVRALELGADDYLVKP 99
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 1-144 1.41e-22

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: 90.61  E-value: 1.41e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   1 MTSPSRPPLYLVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSP- 79
Cdd:COG3437     1 MRTGQAPTVLIVDDDPENLELLRQLLRTLG-YDVVTAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLRADPSTr 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2646617639  80 -IAILFLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLAQLAAFERLTP 144
Cdd:COG3437    80 dIPVIFLTALADPEDRERALEAGADDYLTKPFDPEELLARVRNALELRRLQRELDDLVLYLKLAAP 145
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 12-121 2.85e-22

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: 86.78  E-value: 2.85e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  12 VDDDEAVLDSLRFMLEscDE-RQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:cd17550     4 VDDEEDIRESLSGILE--DEgYEVDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIMISGHGT 81

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd17550    82 IETAVKATKLGAYDFIEKPLSLDRLLLTIER 112
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 9-109 2.49e-21

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: 84.05  E-value: 2.49e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLESCDERQLFSFA-DGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTG 87
Cdd:COG4753     2 VLIVDDEPLIREGLKRILEWEAGFEVVGEAeNGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDPDTKIIILSG 81

                          90       100
                  ....*....|....*....|..
gi 2646617639  88 HGEVPLAVESLKLGAVDFLQKP 109
Cdd:COG4753    82 YSDFEYAQEAIKLGADDYLLKP 103
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 2-121 1.18e-20

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: 82.98  E-value: 1.18e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   2 TSPSRPPLYLVDDDEAVLDSLRFMLESCDErQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKA--AQSP 79
Cdd:COG0784     1 PPLGGKRILVVDDNPDNRELLRRLLERLGY-EVTTAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIRAlpRLPD 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2646617639  80 IAILFLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:COG0784    80 IPIIALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRR 121
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 11-120 2.61e-20

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: 83.80  E-value: 2.61e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKA--AQSPIAILFLTGH 88
Cdd:COG3706     6 VVDDDPTNRKLLRRLLEA-AGYEVVEAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLRAdpRTADIPIIFLTAL 84

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:COG3706    85 DDEEDRARALEAGADDYLTKPFDPEELLARVD 116
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 11-198 5.01e-20

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: 81.48  E-value: 5.01e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQL-FSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLkaaqspiailfltghg 89
Cdd:COG2197     6 IVDDHPLVREGLRALLEAEPDIEVvGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL---------------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  90 evplaveslklgavdflqkpvqlapllaaieradqatqaaatrlaqlaaferLTPRERQLLQLIARGHKNQQIAQDLCIS 169
Cdd:COG2197    70 ----------------------------------------------------LTPREREVLRLLAEGLSNKEIAERLGIS 97

                         170       180
                  ....*....|....*....|....*....
gi 2646617639 170 VRTVEVCRASLMKRLAVNSLAEMLLRYAQ 198
Cdd:COG2197    98 ERTVKTHVSNILRKLGVRNRTELVLLALR 126
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 11-121 6.12e-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: 80.84  E-value: 6.12e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFML--ESCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGH 88
Cdd:cd17536     3 IVDDEPLIREGLKKLIdwEELGFEVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYPDIKIIILSGY 82

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd17536    83 DDFEYAQKAIRLGVVDYLLKPVDEEELEEALEK 115
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 3-121 7.76e-20

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: 82.27  E-value: 7.76e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   3 SPSRPPLYLVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAI 82
Cdd:COG4567     1 SAEDRSLLLVDDDEAFARVLARALERRG-FEVTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDPDARI 79

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2646617639  83 LFLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:COG4567    80 VVLTGYASIATAVEAIKLGADDYLAKPADADDLLAALER 118
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 11-154 4.99e-19

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 81.40  E-value: 4.99e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLF-SFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHG 89
Cdd:COG3279     6 IVDDEPLARERLERLLEKYPDLEVVgEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPPPPIIFTTAYD 85

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2646617639  90 EVplAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLAQLAAFERLTPRERQLLQLIA 154
Cdd:COG3279    86 EY--ALEAFEVNAVDYLLKPIDEERLAKALEKAKERLEAKAAAEASPEEKDRIFVKSGGKLVKIP 148
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 11-121 5.87e-18

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: 75.63  E-value: 5.87e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFS-FADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHG 89
Cdd:cd17535     3 IVDDHPLVREGLRRLLESEPDIEVVGeAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTAHD 82

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  90 EVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd17535    83 DPEYVLRALKAGAAGYLLKDSSPEELIEAIRA 114
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 11-109 7.72e-18

phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins are one of the most widespread transcriptional regulators. OmpR family members contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domain. They are involved in the control of environmental stress tolerance (such as the oxidative, osmotic and acid stress response), motility, virulence, outer membrane biogenesis and other processes. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381116 [Multi-domain]  Cd Length: 99  Bit Score: 74.75  E-value: 7.72e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:cd17574     2 VVEDDEEIAELLSDYLEK-EGYEVDTAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLTAKDE 80

                          90
                  ....*....|....*....
gi 2646617639  91 VPLAVESLKLGAVDFLQKP 109
Cdd:cd17574    81 EEDKVLGLELGADDYITKP 99
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 11-121 8.77e-18

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 75.78  E-value: 8.77e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDE-RQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHG 89
Cdd:COG4565     8 IVEDDPMVAELLRRYLERLPGfEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGPDVDVIVITAAR 87

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  90 EVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:COG4565    88 DPETVREALRAGVVDYLIKPFTFERLREALER 119
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 12-121 2.73e-17

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: 74.16  E-value: 2.73e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  12 VDDDEAVLDSLRFMLESCDERQLfSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGEV 91
Cdd:cd17555     6 IDDDEVVRESIAAYLEDSGFQVL-QAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTPVIVVSGAGVM 84

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2646617639  92 PLAVESLKLGAVDFLQKPVQ-LAPLLAAIER 121
Cdd:cd17555    85 SDAVEALRLGAWDYLTKPIEdLAVLEHAVRR 115
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 7-121 4.32e-17

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: 73.46  E-value: 4.32e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   7 PPLYLVDDDeavlDSLRFMLESCDERQLF---SFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAIL 83
Cdd:cd19919     1 KTVWIVDDD----SSIRWVLERALAGAGLtvtSFENAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVI 76

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2646617639  84 FLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd19919    77 IMTAHSDLDSAVSAYQGGAFEYLPKPFDIDEAVALVER 114
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 139-197 7.73e-17

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 71.02  E-value: 7.73e-17
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 2646617639  139 FERLTPRERQLLQLIARGHKNQQIAQDLCISVRTVEVCRASLMKRLAVNSLAEmLLRYA 197
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQ-AVRLA 58
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 11-117 1.75e-16

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator RpfG and similar proteins; Cyclic di-GMP phosphodiesterase response regulator RpfG, together with sensory/regulatory protein RpfC, constitute a two-component system implicated in sensing and responding to the diffusible signal factor (DSF) that is essential for cell-cell signaling. RpfC is a hybrid sensor/histidine kinase that phosphorylates and activates RpfG, which degrades cyclic di-GMP to GMP, leading to the activation of Clp, a global transcriptional regulator that regulates a large set of genes in the DSF pathway. RpfG contains a CheY-like receiver domain attached to a histidine-aspartic acid-glycine-tyrosine-proline (HD-GYP) cyclic di-GMP phosphodiesterase domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381103 [Multi-domain]  Cd Length: 118  Bit Score: 72.09  E-value: 1.75e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKA--AQSPIAILFLTGH 88
Cdd:cd17551     5 IVDDNPTNLLLLEALLRSAGYLEVVSFTDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRLRAlpGLEDVPIVMITAD 84

                          90       100
                  ....*....|....*....|....*....
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKPVQLAPLLA 117
Cdd:cd17551    85 TDREVRLRALEAGATDFLTKPFDPVELLA 113
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 9-118 2.55e-16

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: 71.32  E-value: 2.55e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLEscdeRQLFS---FADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFL 85
Cdd:cd17563     3 LLLVDDDEVFAERLARALE----RRGFEvetAHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQPDARIVVL 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2646617639  86 TGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAA 118
Cdd:cd17563    79 TGYASIATAVEAIKLGADDYLAKPADADEILAA 111
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 11-119 4.71e-16

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: 70.87  E-value: 4.71e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEsCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:cd17627     3 VVDDDRAVRESLRRSLR-FEGYEVETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLTARDS 81

                          90       100
                  ....*....|....*....|....*....
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:cd17627    82 VSDRVAGLDAGADDYLVKPFALEELLARV 110
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 1-191 1.52e-14

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 69.29  E-value: 1.52e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   1 MTSPSRPPLYLVDDDEAVLDSLRFMLESCDERQLFSFA-DGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAA--Q 77
Cdd:PRK10651    1 MSNQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEAsNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKslS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  78 SPIAILFLTGHGEVplAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLAQLAA-------------FERLTP 144
Cdd:PRK10651   81 GRIVVFSVSNHEED--VVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAaslranratterdVNQLTP 158

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 2646617639 145 RERQLLQLIARGHKNQQIAQDLCISVRTVEVCRASLMKRLAVNSLAE 191
Cdd:PRK10651  159 RERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVE 205
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 142-197 3.80e-14

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: 64.09  E-value: 3.80e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2646617639 142 LTPRERQLLQLIARGHKNQQIAQDLCISVRTVEVCRASLMKRLAVNSLAEmLLRYA 197
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQ-LVAYA 55
PRK09483 PRK09483
response regulator; Provisional
 10-200 6.24e-14

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 67.44  E-value: 6.24e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  10 YLVDDDEAVLDSLRFMLEscDERQLFSFA---DGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLT 86
Cdd:PRK09483    5 LLVDDHELVRAGIRRILE--DIKGIKVVGeacCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIMLT 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  87 GHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAI------ERADQATQAAATRLAQLAA-----FERLTPRERQLLQLIAR 155
Cdd:PRK09483   83 VHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIrsvhsgQRYIASDIAQQMALSQIEPatenpFASLSERELQIMLMITK 162

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 2646617639 156 GHKNQQIAQDLCISVRTVEVCRASLMKRLAVNS---LAEMLLRYAQVN 200
Cdd:PRK09483  163 GQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGdveLTHLAIRHGLLN 210
PRK10360 PRK10360
transcriptional regulator UhpA;
9-195 1.23e-13

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 66.54  E-value: 1.23e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLE-SCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAqspIAILFLTG 87
Cdd:PRK10360    4 VALIDDHLIVRSGFAQLLGlEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPKG---MATIMLSV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  88 HGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQATQAAATRLA-QLAAFER--LTPRERQLLQLIARGHKNQQIAQ 164
Cdd:PRK10360   81 HDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAiKLASGRQdpLTKRERQVAEKLAQGMAVKEIAA 160

                         170       180       190
                  ....*....|....*....|....*....|.
gi 2646617639 165 DLCISVRTVEVCRASLMKRLAVNSLAEMLLR 195
Cdd:PRK10360  161 ELGLSPKTVHVHRANLMEKLGVSNDVELARR 191
GerE pfam00196
Bacterial regulatory proteins, luxR family;
142-197 1.42e-13

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 62.60  E-value: 1.42e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2646617639 142 LTPRERQLLQLIARGHKNQQIAQDLCISVRTVEVCRASLMKRLAVNSLAEmLLRYA 197
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVE-LVRMA 57
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
11-201 1.59e-13

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 66.07  E-value: 1.59e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:PRK09958    5 IIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVSAKND 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAI--------------ERADQATQAAATRLaqlaafERLTPRERQLLQLIARG 156
Cdd:PRK09958   85 HFYGKHCADAGANGFVSKKEGMNNIIAAIeaakngycyfpfslNRFVGSLTSDQQKL------DSLSKQEISVMRYILDG 158

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*
gi 2646617639 157 HKNQQIAQDLCISVRTVEVCRASLMKRLAVNSLAEmLLRYAQVNE 201
Cdd:PRK09958  159 KDNNDIAEKMFISNKTVSTYKSRLMEKLECKSLMD-LYTFAQRNK 202
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 11-121 1.60e-13

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: 64.10  E-value: 1.60e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQL-FSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHG 89
Cdd:cd17532     3 IVDDEPLAREELRYLLEEHPDIEIvGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSKLAKPPLIVFVTAYD 82

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  90 EvpLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd17532    83 E--YAVEAFELNAVDYLLKPFSEERLAEALAK 112
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 40-110 5.84e-13

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: 62.60  E-value: 5.84e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2646617639  40 GERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGEVPLAVESLKLGAVDFLQKPV 110
Cdd:cd17572    31 GKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERSLPTSVIVITAHGSVDIAVEAMRLGAYDFLEKPF 101
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 10-119 6.97e-13

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: 62.29  E-value: 6.97e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  10 YLVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLK--AAQSPIAILFLTG 87
Cdd:cd19937     1 LVVDDEEDIVELLKYNLEK-EGYEVVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILRsdPKTSSIPIIMLTA 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  88 HGEVPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:cd19937    80 KGEEFDKVLGLELGADDYITKPFSPRELLARV 111
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 11-110 1.06e-12

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: 61.76  E-value: 1.06e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSfADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSP--IAILFLTGH 88
Cdd:cd19920     3 IVDDVPDNLRLLSELLRAAGYRVLVA-TDGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLKADPATrhIPVIFLTAL 81

                          90       100
                  ....*....|....*....|..
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKPV 110
Cdd:cd19920    82 TDTEDKVKGFELGAVDYITKPF 103
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 140-201 1.39e-11

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: 58.05  E-value: 1.39e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2646617639 140 ERLTPRERQLLQLIARGHKNQQIAQDLCISVRTVEVCRASLMKRLAVNSLAEMLLRYAQVNE 201
Cdd:COG5905    11 SLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGL 72
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
11-121 2.31e-11

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 61.79  E-value: 2.31e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVldslRFMLESCDERQ---LFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTG 87
Cdd:PRK11361    9 IVDDEDNV----RRMLSTAFALQgfeTHCANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMTA 84

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2646617639  88 HGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:PRK11361   85 YAEVETAVEALRCGAFDYVIKPFDLDELNLIVQR 118
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 11-109 3.08e-11

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: 57.84  E-value: 3.08e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKaAQSPIAILFLTGHGE 90
Cdd:cd19936     3 LVDDDRNILTSVSMALEA-EGFSVETYTDGASALDGLNARPPDLAILDIKMPRMDGMELLQRLR-QKSTLPVIFLTSKDD 80

                          90
                  ....*....|....*....
gi 2646617639  91 VPLAVESLKLGAVDFLQKP 109
Cdd:cd19936    81 EIDEVFGLRMGADDYITKP 99
orf27 CHL00148
Ycf27; Reviewed
 11-160 4.20e-11

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 60.12  E-value: 4.20e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAvldSLRFMLE---SCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKaAQSPIAILFLTG 87
Cdd:CHL00148   10 LVVDDEA---YIRKILEtrlSIIGYEVITASDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEIR-KESDVPIIMLTA 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  88 HGEVPLAVESLKLGAVDFLQKPVQLAPLLAAI-------ERADQATQAAATRLAQLAAFE---------------RLTPR 145
Cdd:CHL00148   86 LGDVSDRITGLELGADDYVVKPFSPKELEARIrsvlrrtNKKSFSSKIPNSSIIRIGFLKidlnkkqvyknneriRLTGM 165

                         170
                  ....*....|....*
gi 2646617639 146 ERQLLQLIARgHKNQ 160
Cdd:CHL00148  166 EFSLLELLIS-KSGE 179
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
112-198 1.33e-10

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 58.23  E-value: 1.33e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639 112 LAPLLAAIERADQATQAAATRLAQLAAFERLTPRERQLLQLIARGHKNQQIAQDLCISVRTVEVCRASLMKRLAVNSLAE 191
Cdd:COG2771    98 LARLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAE 177


                  ....*..
gi 2646617639 192 MLLRYAQ 198
Cdd:COG2771   178 LVALALR 184
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 11-110 1.44e-10

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: 55.97  E-value: 1.44e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKA--AQSPIAILFLTGH 88
Cdd:cd17538     4 VVDDEPANRELLEALLSA-EGYEVLTADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKEdpETRHIPVIMITAL 82

                          90       100
                  ....*....|....*....|..
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKPV 110
Cdd:cd17538    83 DDREDRIRGLEAGADDFLSKPI 104
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 9-121 7.65e-10

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 57.57  E-value: 7.65e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDeavlDSLRFMLESCDER---QLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFL 85
Cdd:PRK10923    6 VWVVDDD----SSIRWVLERALAGaglTCTTFENGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIM 81

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2646617639  86 TGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:PRK10923   82 TAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVER 117
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 11-120 8.11e-10

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: 54.33  E-value: 8.11e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLaEVDLHQPACLIL-DCRMPGLSGPEVQQRLKAAQSPIAILFLTGHG 89
Cdd:cd17569     5 LVDDEPNILKALKRLLRR-EGYEVLTATSGEEAL-EILKQEPVDVVIsDQRMPGMDGAELLKRVRERYPDTVRILLTGYA 82

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  90 EVPLAVESLKLGAVD-FLQKPVQLAPLLAAIE 120
Cdd:cd17569    83 DLDAAIEAINEGEIYrFLTKPWDDEELKETIR 114
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 11-109 8.17e-10

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: 53.98  E-value: 8.17e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEscdeRQLFS---FADGE--RFLAEVDLHQpaCLILDCRMPGLSGPEVQQRLKAAQSPIAILFL 85
Cdd:cd19935     3 VVEDEKKLAEYLKKGLT----EEGYAvdvAYDGEdgLHLALTNEYD--LIILDVMLPGLDGLEVLRRLRAAGKQTPVLML 76

                          90       100
                  ....*....|....*....|....
gi 2646617639  86 TGHGEVPLAVESLKLGAVDFLQKP 109
Cdd:cd19935    77 TARDSVEDRVKGLDLGADDYLVKP 100
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 39-120 9.57e-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: 54.15  E-value: 9.57e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  39 DGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAA 118
Cdd:cd17625    29 DGEEGLEYALSGIYDLIILDIMLPGMDGLEVLKSLREEGIETPVLLLTALDAVEDRVKGLDLGADDYLPKPFSLAELLAR 108


                  ..
gi 2646617639 119 IE 120
Cdd:cd17625   109 IR 110
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 11-117 1.02e-09

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


Pssm-ID: 381131 [Multi-domain]  Cd Length: 118  Bit Score: 53.90  E-value: 1.02e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:cd17615     3 LVVDDEPNITELLSMALRYEGWDVETAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLFLTAKDS 82

                          90       100
                  ....*....|....*....|....*..
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLA 117
Cdd:cd17615    83 VEDRIAGLTAGGDDYVTKPFSLEEVVA 109
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 33-121 1.48e-09

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: 53.71  E-value: 1.48e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  33 QLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGEVPLAVESLKLGAVDFLQKPVQL 112
Cdd:cd17553    26 QTFQAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDI 105


                  ....*....
gi 2646617639 113 APLLAAIER 121
Cdd:cd17553   106 DEIRDAVKK 114
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
47-203 1.72e-09

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 55.27  E-value: 1.72e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  47 VDLhqpacLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIERADQAT 126
Cdd:PRK09935   50 VDL-----IIMDIDLPGTDGFTFLKRIKQIQSTVKVLFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGY 124

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639 127 QAAATRLAQLAAFER----------LTPRERQLLQLIARGHKNQQIAQDLCISVRTVEVCRASLMKRLAVNSLAEmLLRY 196
Cdd:PRK09935  125 TFFPSETLNYIKSNKcstnsstdtvLSNREVTILRYLVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVE-LIDY 203


                  ....*..
gi 2646617639 197 AQVNEQL 203
Cdd:PRK09935  204 AKLHELL 210
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 11-119 1.92e-09

second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal transduction histidine kinase D and similar domains; Dictyostelium discoideum hybrid signal transduction histidine kinase D (DhkD) is a large protein that contains two histidine kinase (HK) and two REC domains on the intracellular side of a single pass transmembrane domain, and extracellular PAS and PAC domains that likely are involved in ligand binding. This model represents the second REC domain and similar domains. DhkD activates the cAMP phosphodiesterase RegA to ensure proper prestalk and prespore patterning, tip formation, and the vertical elongation of the mound into a finger, in Dictyostelium discoideum. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381118 [Multi-domain]  Cd Length: 112  Bit Score: 53.23  E-value: 1.92e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDErQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKA---AQSPIAILfLTG 87
Cdd:cd17580     3 VVDDNEDAAEMLALLLELEGA-EVTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYELARRLRElpwLANTPAIA-LTG 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  88 HGEVPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:cd17580    81 YGQPEDRERALEAGFDAHLVKPVDPDELIELI 112
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 12-115 2.29e-09

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: 53.16  E-value: 2.29e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  12 VDDDEAVLDSLRFMLESCDERQLFSFA-DGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAaQSPIAILFLTGHGE 90
Cdd:cd17541     6 VDDSAVMRKLLSRILESDPDIEVVGTArDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMA-ERPTPVVMVSSLTE 84

                          90       100
                  ....*....|....*....|....*..
gi 2646617639  91 --VPLAVESLKLGAVDFLQKPVQLAPL 115
Cdd:cd17541    85 egAEITLEALELGAVDFIAKPSGGISL 111
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 11-119 2.79e-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: 52.87  E-value: 2.79e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLE----SCDErqlfsFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLT 86
Cdd:cd17624     3 LVEDDALLGDGLKTGLRkagyAVDW-----VRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILT 77

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2646617639  87 GHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:cd17624    78 ARDGVDDRVAGLDAGADDYLVKPFALEELLARL 110
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 11-120 2.94e-09

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: 52.64  E-value: 2.94e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLE--SCDERQLFSFADGERFLAEvdlHQPACLILDCRMPGLSGPEVQQRLKAAQ--SPIAILFLT 86
Cdd:cd17618     5 IVEDEPAIREMIAFNLEraGFDVVEAEDAESAVNLIVE---PRPDLILLDWMLPGGSGIQFIRRLKRDEmtRDIPIIMLT 81

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2646617639  87 GHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:cd17618    82 ARGEEEDKVRGLEAGADDYITKPFSPRELVARIK 115
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 11-120 7.74e-09

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


Pssm-ID: 381166 [Multi-domain]  Cd Length: 116  Bit Score: 51.61  E-value: 7.74e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKaAQSPIAILFLTGHGE 90
Cdd:cd19939     4 IVEDELELARLTRDYLIK-AGLEVSVFTDGQRAVRRIIDEQPSLVVLDIMLPGMDGLTVCREVR-EHSHVPILMLTARTE 81

                          90       100       110
                  ....*....|....*....|....*....|
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:cd19939    82 EMDRVLGLEMGADDYLCKPFSPRELLARVR 111
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 9-119 8.63e-09

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: 51.54  E-value: 8.63e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKaAQSPIAILFLTGH 88
Cdd:cd17623     1 ILLIDDDRELTELLTEYLEM-EGFNVRAAHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELR-KTSQVPVLMLTAR 78

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:cd17623    79 GDDIDRILGLELGADDYLPKPFNPRELVARI 109
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 11-120 9.72e-09

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: 51.26  E-value: 9.72e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLD-SLRFMLESCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLkAAQSPIAILFLTGHG 89
Cdd:cd19932     4 LIAEDEALIRmDLREMLEEAGYEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKII-TSENIAPIVLLTAYS 82

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2646617639  90 EVPLAVESLKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:cd19932    83 QQDLVERAKEAGAMAYLVKPFSESDLIPAIE 113
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 11-119 1.08e-08

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: 51.26  E-value: 1.08e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLES----CDERQLfsfadGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLT 86
Cdd:cd17616     3 LIEDDSATAQSIELMLKSegfnVYTTDL-----GEEGLDLGKLYDYDIILLDLNLPDMSGYEVLRTLRLAKVKTPILILS 77

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2646617639  87 GHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:cd17616    78 GLADIEDKVKGLGFGADDYMTKPFHKDELVARI 110
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 11-121 1.52e-08

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: 50.71  E-value: 1.52e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSFAD-GERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHG 89
Cdd:cd19925     5 IVEDDPMVAEIHRAYVEQVPGFTVIGTAGtGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVVTAAN 84

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  90 EVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd19925    85 DVETVREALRLGVVDYLIKPFTFERLRQRLER 116
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 5-109 1.65e-08

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 52.66  E-value: 1.65e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   5 SRPPLYLVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILF 84
Cdd:PRK11083    2 QQPTILLVEDEQAIADTLVYALQS-EGFTVEWFERGLPALDKLRQQPPDLVILDVGLPDISGFELCRQLLAFHPALPVIF 80

                          90       100
                  ....*....|....*....|....*.
gi 2646617639  85 LTG-HGEVPLAVeSLKLGAVDFLQKP 109
Cdd:PRK11083   81 LTArSDEVDRLV-GLEIGADDYVAKP 105
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 11-109 2.67e-08

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: 49.89  E-value: 2.67e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKaAQSPIAILFLTGHGE 90
Cdd:cd17621     3 VVEDEESFSDPLAYLLRK-EGFEVTVATDGPAALAEFDRAGADIVLLDLMLPGLSGTEVCRQLR-ARSNVPVIMVTAKDS 80

                          90
                  ....*....|....*....
gi 2646617639  91 VPLAVESLKLGAVDFLQKP 109
Cdd:cd17621    81 EIDKVVGLELGADDYVTKP 99
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 11-120 3.32e-08

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: 49.73  E-value: 3.32e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKaAQSPIAILFLTGHGE 90
Cdd:cd17614     3 VVDDEKPISDILKFNLTK-EGYEVVTAYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCREVR-KTSNVPIIMLTAKDS 80

                          90       100       110
                  ....*....|....*....|....*....|
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:cd17614    81 EVDKVLGLELGADDYVTKPFSNRELLARVK 110
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 11-110 6.45e-08

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: 49.16  E-value: 6.45e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLA-------EVDLhqpacLILDCRMPGLSGPEVQQRLKAAQSpIAIL 83
Cdd:cd17584     3 VVDDDPTCLAILKRMLLRCG-YQVTTCTDAEEALSmlrenkdEFDL-----VITDVHMPDMDGFEFLELIRLEMD-LPVI 75

                          90       100
                  ....*....|....*....|....*..
gi 2646617639  84 FLTGHGEVPLAVESLKLGAVDFLQKPV 110
Cdd:cd17584    76 MMSADGSTSTVMKGLAHGACDYLLKPV 102
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 9-120 8.95e-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: 48.82  E-value: 8.95e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLES----CDERqlfsfADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILF 84
Cdd:cd19934     1 LLLVEDDALLAAQLKEQLSDagyvVDVA-----EDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPVLI 75

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2646617639  85 LTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:cd19934    76 LTARDSWQDKVEGLDAGADDYLTKPFHIEELLARLR 111
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 11-120 9.25e-08

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: 49.96  E-value: 9.25e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLkAAQSPIAILFLTGHGE 90
Cdd:COG3707     8 VVDDEPLRRADLREGLREAGYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQI-SEERPAPVILLTAYSD 86

                          90       100       110
                  ....*....|....*....|....*....|
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:COG3707    87 PELIERALEAGVSAYLVKPLDPEDLLPALE 116
PRK15479 PRK15479
transcriptional regulator TctD;
53-150 9.87e-08

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 50.49  E-value: 9.87e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  53 ACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGEVPLAVESLKLGAVDFLQKPVQLAPL---LAAIERADQATQAA 129
Cdd:PRK15479   46 ALAVLDINMPGMDGLEVLQRLRKRGQTLPVLLLTARSAVADRVKGLNVGADDYLPKPFELEELdarLRALLRRSAGQVQE 125

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639 130 ATRLAQLAAFER-----------LTPRERQLL 150
Cdd:PRK15479  126 VQQLGELIFHDEgyfllqgqplaLTPREQALL 157
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 11-121 1.20e-07

phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response regulator CheY contains a stand-alone REC domain. Chemotaxis is a behavior known for motile bacteria that directs their movement in response to chemical gradients. CheY is involved in transmitting sensory signals from chemoreceptors to the flagellar motors. Phosphorylated CheY interacts with the flagella switch components FliM and FliY, which causes counterclockwise rotation of the flagella, resulting in smooth swimming. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381097 [Multi-domain]  Cd Length: 117  Bit Score: 48.43  E-value: 1.20e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:cd17542     5 IVDDAAFMRMMLKDILTKAGYEVVGEAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIDPNAKVIMCSAMGQ 84

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd17542    85 EEMVKEAIKAGAKDFIVKPFQPERVLEAVEK 115
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 9-121 1.91e-07

PEP-CTERM-box response regulator transcription factor; Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see SP|Q06065). These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158). [Regulatory functions, DNA interactions]


Pssm-ID: 274348 [Multi-domain]  Cd Length: 445  Bit Score: 50.52  E-value: 1.91e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFmleSCDERQLFSFADGERFLAEVDLHQPACLILDCRMP----GLS-GPEVQQRLKAAQSPIAIL 83
Cdd:TIGR02915   1 LLIVEDDLGLQKQLKW---SFADYELAVAADRESAIALVRRHEPAVVTLDLGLPpdadGASeGLAALQQILAIAPDTKVI 77

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2646617639  84 FLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:TIGR02915  78 VITGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDR 115
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 11-119 2.24e-07

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: 47.46  E-value: 2.24e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKaAQSPIAILFLTGHGE 90
Cdd:cd17626     5 VVDDDAALAEMIGIVLRG-EGFDPAFCGDGTQALAAFREVRPDLVLLDLMLPGIDGIEVCRQIR-AESGVPIVMLTAKSD 82

                          90       100
                  ....*....|....*....|....*....
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:cd17626    83 TVDVVLGLESGADDYVAKPFKPKELVARI 111
ompR PRK09468
osmolarity response regulator; Provisional
 11-119 3.05e-07

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 49.20  E-value: 3.05e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSL--RFMLEscDERQLFSFADGE---RFLAEVDLHqpaCLILDCRMPGLSGPEVQQRLKAAQSPIAILFL 85
Cdd:PRK09468    9 LVVDDDMRLRALleRYLTE--QGFQVRSAANAEqmdRLLTRESFH---LMVLDLMLPGEDGLSICRRLRSQNNPTPIIML 83

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2646617639  86 TGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:PRK09468   84 TAKGEEVDRIVGLEIGADDYLPKPFNPRELLARI 117
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 11-109 3.13e-07

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


Pssm-ID: 381098 [Multi-domain]  Cd Length: 122  Bit Score: 47.51  E-value: 3.13e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAvldSLRFMLESCDERQLFSF---ADGERFLAEVDLHQPACLIL-DCRMPGLSGPEVQQRL--KAAQSPIAILF 84
Cdd:cd17544     4 LVVDDSA---TSRNHLRALLRRHNFQVleaANGQEALEVLEQHPDIKLVItDYNMPEMDGFELVREIrkKYSRDQLAIIG 80

                          90       100
                  ....*....|....*....|....*
gi 2646617639  85 LTGHGEVPLAVESLKLGAVDFLQKP 109
Cdd:cd17544    81 ISASGDNALSARFIKAGANDFLTKP 105
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 11-109 3.20e-07

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


Pssm-ID: 381135 [Multi-domain]  Cd Length: 99  Bit Score: 46.77  E-value: 3.20e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERqLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKaAQSPIAILFLTGHGE 90
Cdd:cd17620     3 VIEDEPQIRRFLRTALEAHGYR-VFEAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRLR-EWSAVPVIVLSARDE 80

                          90
                  ....*....|....*....
gi 2646617639  91 VPLAVESLKLGAVDFLQKP 109
Cdd:cd17620    81 ESDKIAALDAGADDYLTKP 99
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
9-121 4.09e-07

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 49.26  E-value: 4.09e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLESCDERQLFSFAdGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGH 88
Cdd:PRK10365    8 ILVVDDDISHCTILQALLRGWGYNVALANS-GRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIMTAY 86

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:PRK10365   87 SSVETAVEALKTGALDYLIKPLDFDNLQATLEK 119
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
4-188 4.64e-07

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 48.31  E-value: 4.64e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   4 PSRPP--LYLVDDDEAVLDSLRFMLESCDERQLFSFA-DGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPI 80
Cdd:PRK10403    2 PEATPfqVLIVDDHPLMRRGVRQLLELDPGFEVVAEAgDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTA 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  81 AILFLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAI-----------ERADQATQAAATRLAQLAAFERLTPRERQL 149
Cdd:PRK10403   82 QIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIragakgskvfsERVNQYLREREMFGAEEDPFSVLTERELDV 161

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 2646617639 150 LQLIARGHKNQQIAQDLCISVRTVEVCRASLMKRLAVNS 188
Cdd:PRK10403  162 LHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRS 200
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 55-119 7.37e-07

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 48.00  E-value: 7.37e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2646617639  55 LILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:PRK09836   48 IILDIMLPDVNGWDIVRMLRSANKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARV 112
REC_OmpR_NsrR-like cd18159
phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...
 9-121 1.09e-06

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


Pssm-ID: 381143 [Multi-domain]  Cd Length: 113  Bit Score: 45.74  E-value: 1.09e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEavldSLRFMLESCDERQLF---SFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAaQSPIAILFL 85
Cdd:cd18159     1 ILIVEDDE----TIASLLKKHLEKWGYevvLIEDFEDVLEEFLQFKPDLVLLDINLPYFDGFYWCREIRQ-ISNVPIIFI 75

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2646617639  86 TGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd18159    76 SSRDDNMDQVMAINMGGDDYITKPFDLDVLLAKIKA 111
PRK15115 PRK15115
response regulator GlrR; Provisional
 9-120 1.36e-06

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 47.91  E-value: 1.36e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGH 88
Cdd:PRK15115    8 LLLVDDDPGLLKLLGMRLTS-EGYSVVTAESGQEALRVLNREKVDLVISDLRMDEMDGMQLFAEIQKVQPGMPVIILTAH 86

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:PRK15115   87 GSIPDAVAATQQGVFSFLTKPVDRDALYKAID 118
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 11-119 1.69e-06

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: 45.15  E-value: 1.69e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLE----SCDErqlfsFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKA---AQSPIAIL 83
Cdd:cd17546     3 VVDDNPVNRKVLKKLLEklgyEVDV-----AENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIRElegGGRRTPII 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2646617639  84 FLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:cd17546    78 ALTANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 11-62 2.34e-06

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues.


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 43.33  E-value: 2.34e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 2646617639   11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMP 62
Cdd:smart00448   5 VVDDDPLLRELLKALLEK-EGYEVDEATDGEEALELLKEEKPDLILLDIMMP 55
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 9-121 2.45e-06

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: 44.96  E-value: 2.45e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLESCDERQ-LFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTG 87
Cdd:cd19930     1 VLIAEDQEMVRGALAALLELEDDLEvVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREELPDTKVLIVTT 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2646617639  88 HGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd19930    81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRT 114
PRK11517 PRK11517
DNA-binding response regulator HprR;
38-119 4.10e-06

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 45.66  E-value: 4.10e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  38 ADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAA-QSPIaiLFLTGHGEVPLAVESLKLGAVDFLQKPVQLAPLL 116
Cdd:PRK11517   31 SDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAkQTPV--ICLTARDSVDDRVRGLDSGANDYLVKPFSFSELL 108


                  ...
gi 2646617639 117 AAI 119
Cdd:PRK11517  109 ARV 111
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 11-109 5.06e-06

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: 43.64  E-value: 5.06e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDeavlDSLRFMLESCDERQLFS---FADGERFLAEVDLHQPACLIL-DCRMPGLSGPEVQQRLKAAQSPIAILFLT 86
Cdd:cd18160     4 LADDE----PSVRKFIVTTLKKAGYAvteAESGAEALEKLQQGKDIDIVVtDIVMPEMDGIELAREARKIDPDVKILFIS 79

                          90       100
                  ....*....|....*....|...
gi 2646617639  87 GHGEVPLAVESLKLGAVDFLQKP 109
Cdd:cd18160    80 GGAAAAPELLSDAVGDNATLKKP 102
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 11-119 8.43e-06

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: 43.31  E-value: 8.43e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKA--AQSPIAILFLTGH 88
Cdd:cd17552     6 VIDDEEDIREVVQACLEKLAGWEVLTASSGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQAnpETQSIPVILLTAK 85

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKP---VQLAPLLAAI 119
Cdd:cd17552    86 AQPSDRQRFASLGVAGVIAKPfdpLTLAEQIAKL 119
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 11-119 1.11e-05

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: 42.82  E-value: 1.11e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSfADGERFLAEVDLHQPACLILDCRMPGLSGPEVQqRLKAAQSPIAILFLTGHGE 90
Cdd:cd17594     4 VVDDDAAMRHLLILYLRERGFDVTAA-ADGAEEARLMLHRRVDLVLLDLRLGQESGLDLL-RTIRARSDVPIIIISGDRR 81

                          90       100       110
                  ....*....|....*....|....*....|
gi 2646617639  91 VPLA-VESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:cd17594    82 DEIDrVVGLELGADDYLAKPFGLRELLARV 111
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 12-121 1.48e-05

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: 42.53  E-value: 1.48e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  12 VDDDEAVLDSLRFMLESCDERQLFSfADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKA--AQSPIAILFLTGHG 89
Cdd:cd17548     5 VEDNPLNMKLARDLLESAGYEVLEA-ADGEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKEdpATRDIPVIALTAYA 83

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  90 EVPLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd17548    84 MKGDREKILEAGCDGYISKPIDTREFLETVAK 115
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 9-109 2.06e-05

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


Pssm-ID: 381154 [Multi-domain]  Cd Length: 102  Bit Score: 41.98  E-value: 2.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEV--QQRLKAAQSPIAILFLT 86
Cdd:cd19927     1 ILLVDDDPGIRLAVKDYLEDQG-FTVIAASNGLEALDLLNQYIPDLIISDIIMPGVDGYSLlgKLRKNADFDTIPVIFLT 79

                          90       100
                  ....*....|....*....|...
gi 2646617639  87 GHGEVPLAVESLKLGAVDFLQKP 109
Cdd:cd19927    80 AKGMTSDRIKGYNAGCDGYLSKP 102
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 11-119 2.14e-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: 42.37  E-value: 2.14e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDeRQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKA-AQSPiaILFLTGHG 89
Cdd:cd17622     5 LVEDDPKLARLIADFLESHG-FNVVVEHRGDRALEVIAREKPDAVLLDIMLPGIDGLTLCRDLRPkYQGP--ILLLTALD 81

                          90       100       110
                  ....*....|....*....|....*....|
gi 2646617639  90 EVPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:cd17622    82 SDIDHILGLELGADDYVVKPVEPAVLLARL 111
PRK15201 PRK15201
fimbriae biosynthesis transcriptional regulator FimW;
146-200 3.31e-05

fimbriae biosynthesis transcriptional regulator FimW;


Pssm-ID: 185123  Cd Length: 198  Bit Score: 43.11  E-value: 3.31e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2646617639 146 ERQLLQLIARGHKNQQIAQDLCISVRTVEVCRASLMKRLAVNSlAEMLLRYAQVN 200
Cdd:PRK15201  138 ERHLLKLIASGYHLSETAALLSLSEEQTKSLRRSIMRKLHVKT-EQQFLKYIRVN 191
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 12-90 3.95e-05

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: 41.44  E-value: 3.95e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  12 VDDDEAVLDSLRFMLEscDE-RQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGE 90
Cdd:cd17554     6 VDDEENIRELYKEELE--DEgYEVVTAGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKPDLPVIICTAYSE 83
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
111-195 4.62e-05

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 42.38  E-value: 4.62e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639 111 QLAPLLAAIERADQATQAAATRLAQLAAFERL--TPRERQLL--QLIARGHKNQQIAQDLCISVRTVEVCRASLMKRLAV 186
Cdd:COG2909    88 DPEEALALLERLLALAEAAGRLLLRALALRALgdREEALAALrrRLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGV 167


                  ....*....
gi 2646617639 187 NSLAEMLLR 195
Cdd:COG2909   168 RSRTEAVAR 176
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 36-121 6.24e-05

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: 40.98  E-value: 6.24e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  36 SFA-DGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGhgEV-PLAVES-LKLGAVDFLQKPVQL 112
Cdd:cd17593    29 TFAeNGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVEQLETKVIVVSG--DVqPEAKERvLELGALAFLKKPFDP 106


                  ....*....
gi 2646617639 113 APLLAAIER 121
Cdd:cd17593   107 EKLAQLLEE 115
pleD PRK09581
response regulator PleD; Reviewed
 38-110 9.08e-05

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 42.20  E-value: 9.08e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2646617639  38 ADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKA--AQSPIAILFLTGHGEVPLAVESLKLGAVDFLQKPV 110
Cdd:PRK09581   33 SSGAEAIAICEREQPDIILLDVMMPGMDGFEVCRRLKSdpATTHIPVVMVTALDDPEDRVRGLEAGADDFLTKPI 107
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 11-110 1.06e-04

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: 40.02  E-value: 1.06e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLfSFADGERFLAEVDLH-QPACLILDCRMPG-LSGPEVQQRLKAAQSPIAILFLTGH 88
Cdd:cd18161     3 VVEDDPDVRRLTAEVLEDLGYTVL-EAASGDEALDLLESGpDIDLLVTDVIMPGgMNGSQLAEEARRRRPDLKVLLTSGY 81

                          90       100
                  ....*....|....*....|..
gi 2646617639  89 GEVPLAVESLKLGaVDFLQKPV 110
Cdd:cd18161    82 AENAIEGGDLAPG-VDVLSKPF 102
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 11-121 1.07e-04

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: 40.48  E-value: 1.07e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCD-ERQLFSFADGE---RFLAEVDLHQPA---CLI-LDCRMPGLSGPEVQQRLKA----AQS 78
Cdd:cd17557     4 LVEDNPGDAELIQEAFKEAGvPNELHVVRDGEealDFLRGEGEYADAprpDLIlLDLNMPRMDGFEVLREIKAdpdlRRI 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2646617639  79 PIAIlfLT---GHGEVplaVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:cd17557    84 PVVV--LTtsdAEEDI---ERAYELGANSYIVKPVDFEEFVEAIRS 124
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
9-120 1.76e-04

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 41.24  E-value: 1.76e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLK--AAQSPIAILFLT 86
Cdd:PRK10161    5 ILVVEDEAPIREMVCFVLEQ-NGFQPVEAEDYDSAVNQLNEPWPDLILLDWMLPGGSGIQFIKHLKreSMTRDIPVVMLT 83

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2646617639  87 GHGEVPLAVESLKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:PRK10161   84 ARGEEEDRVRGLETGADDYITKPFSPKELVARIK 117
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 12-109 1.99e-04

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


Pssm-ID: 381129 [Multi-domain]  Cd Length: 102  Bit Score: 39.27  E-value: 1.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  12 VDDDEAVLDSLRFMLEScderQLFSFA---DGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQS--PIAILFLT 86
Cdd:cd17602     4 VDDRPSIQKMIEYFLEK----QGFRVVvidDPLRALTTLLNSKPDLILIDIDMPDLDGYELCSLLRKSSAlkDTPIIMLT 79

                          90       100
                  ....*....|....*....|...
gi 2646617639  87 GHGEVPLAVESLKLGAVDFLQKP 109
Cdd:cd17602    80 GKDGLVDRIRAKMAGASGYLTKP 102
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 11-116 2.46e-04

phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; This subfamily includes Escherichia coli TorR and ArcA, both OmpR family response regulators that mediate adaptation to changes in various respiratory growth conditions. The TorS-TorR two-component system (TCS) is responsible for the tight regulation of the torCAD operon, which encodes the trimethylamine N-oxide (TMAO) reductase respiratory system in response to anaerobic conditions and the presence of TMAO. The ArcA-ArcB TCS is involved in cell growth during anaerobiosis. ArcA is a global regulator that controls more than 30 operons involved in redox regulation (the Arc modulon). OmpR family DNA-binding response regulators are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381134 [Multi-domain]  Cd Length: 113  Bit Score: 39.29  E-value: 2.46e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKaAQSPIAILFLTGHGE 90
Cdd:cd17619     4 LIVEDEPVTRATLKSYFEQEGYDVSEAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTRELR-EQSEVGIILVTGRDD 82

                          90       100
                  ....*....|....*....|....*.
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLL 116
Cdd:cd17619    83 EVDRIVGLEIGADDYVTKPFNPRELL 108
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 9-117 2.66e-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: 39.35  E-value: 2.66e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLESCDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGH 88
Cdd:cd17530     3 VLVLDDDPFQCMMAATILEDLGPGNVDEADDGREALVILLCNAPDIIICDLKMPDMDGIEFLRHLAESHSNAAVILMSGL 82

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2646617639  89 GEVPL-----AVESLKLGAVDFLQKPVQLAPLLA 117
Cdd:cd17530    83 DGGILesaetLAGANGLNLLGTLSKPFSPEELTE 116
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 11-109 3.19e-04

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


Pssm-ID: 381153 [Multi-domain]  Cd Length: 100  Bit Score: 38.67  E-value: 3.19e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLE--SCDERQLFSFADGERFLAEvdlhQPACLIL-DCRMPGLSGPEVQQRLKA--AQSPIAILfl 85
Cdd:cd19926     3 VVDDEPDIRELLEITLGrmGLDVRSARNVKEARELLAS----EPYDLCLtDMRLPDGSGLELVQHIQQrlPQTPVAVI-- 76

                          90       100
                  ....*....|....*....|....
gi 2646617639  86 TGHGEVPLAVESLKLGAVDFLQKP 109
Cdd:cd19926    77 TAYGSLDTAIEALKAGAFDFLTKP 100
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 11-120 3.67e-04

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: 38.54  E-value: 3.67e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSFADGERFLAEVDLHQPACLILDCRMPG-LSGPEVQQRLKAaQSPIAILFLTGHG 89
Cdd:cd17534     5 IVEDEAIIALDLKEILESLGYEVVGIADSGEEAIELAEENKPDLILMDINLKGdMDGIEAAREIRE-KFDIPVIFLTAYS 83

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  90 EvPLAVES-LKLGAVDFLQKPVQLAPLLAAIE 120
Cdd:cd17534    84 D-EETLERaKETNPYGYLVKPFNERELKAAIE 114
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 11-117 4.96e-04

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 39.79  E-value: 4.96e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLEScDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAaQSPIAILFLTGHGE 90
Cdd:PRK10529    6 IVEDEQAIRRFLRTALEG-DGMRVFEAETLQRGLLEAATRKPDLIILDLGLPDGDGIEFIRDLRQ-WSAIPVIVLSARSE 83

                          90       100
                  ....*....|....*....|....*..
gi 2646617639  91 VPLAVESLKLGAVDFLQKPVQLAPLLA 117
Cdd:PRK10529   84 ESDKIAALDAGADDYLSKPFGIGELQA 110
PRK10336 PRK10336
two-component system response regulator QseB;
55-155 6.12e-04

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 39.49  E-value: 6.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  55 LILDCRMPGLSGPEV--QQRLKAAQSPIaiLFLTGHGEVPLAVESLKLGAVDFLQKP---VQLAPLLAAIERADQATQAA 129
Cdd:PRK10336   48 VILDLTLPGMDGRDIlrEWREKGQREPV--LILTARDALAERVEGLRLGADDYLCKPfalIEVAARLEALMRRTNGQASN 125

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2646617639 130 ATRLAQLA----------AFERLT--PRERQLLQLIAR 155
Cdd:PRK10336  126 ELRHGNVMldpgkriatlAGEPLTlkPKEFALLELLMR 163
dpiA PRK10046
two-component response regulator DpiA; Provisional
 47-156 8.32e-04

two-component response regulator DpiA; Provisional


Pssm-ID: 182208 [Multi-domain]  Cd Length: 225  Bit Score: 38.85  E-value: 8.32e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  47 VDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGHGEVPLAVESLKLGAVDFLQKPVqlapllaAIERADQAT 126
Cdd:PRK10046   46 IERFKPGLILLDNYLPDGRGINLLHELVQAHYPGDVVFTTAASDMETVSEAVRCGVFDYLIKPI-------AYERLGQTL 118

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2646617639 127 QAAATRLAQLAAFERLTPRE-RQLLQLIARG 156
Cdd:PRK10046  119 TRFRQRKHMLESIDSASQKQiDEMFNAYARG 149
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 111-185 1.01e-03

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


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 38.10  E-value: 1.01e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2646617639 111 QLAPLLAAIERADQATQAAATRLAQLAAFERLTPRERQLLQLIA-RGHKNQQIAQDLCISVRTVEVCRASLMKRLA 185
Cdd:TIGR02937  80 LLEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYlEGLSYKEIAEILGISVGTVKRRLKRARKKLR 155
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
9-119 1.16e-03

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 38.63  E-value: 1.16e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   9 LYLVDDDEAVLDSLRFMLESCDERQLFSFaDGERFLAEVDlHQPACLILDCRMPGLSGPEVQQRLKAA-QSPIaiLFLTG 87
Cdd:PRK10955    4 ILLVDDDRELTSLLKELLEMEGFNVIVAH-DGEQALDLLD-DSIDLLLLDVMMPKKNGIDTLKELRQThQTPV--IMLTA 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2646617639  88 HGEVPLAVESLKLGAVDFLQKPVQLAPLLAAI 119
Cdd:PRK10955   80 RGSELDRVLGLELGADDYLPKPFNDRELVARI 111
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 11-196 1.23e-03

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 38.28  E-value: 1.23e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFS-FADGERFLAEVDLHQPACLILDCRMPGL---SGPEVQQRLKAAQSPIAILFLT 86
Cdd:PRK10840    8 IADDHPIVLFGIRKSLEQIEWVNVVGeFEDSTALINNLPKLDAHVLITDLSMPGDkygDGITLIKYIKRHFPSLSIIVLT 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  87 GHGEVPL--AVESLKLGAVDFLQ-KPVQLAPLLAAIERADQATQAAATRL-----AQLAAFERLTPRERQLLQLIARGHK 158
Cdd:PRK10840   88 MNNNPAIlsAVLDLDIEGIVLKQgAPTDLPKALAALQKGKKFTPESVSRLlekisAGGYGDKRLSPKESEVLRLFAEGFL 167

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 2646617639 159 NQQIAQDLCISVRTVEVCRASLMKRLAV-NSLAemLLRY 196
Cdd:PRK10840  168 VTEIAKKLNRSIKTISSQKKSAMMKLGVeNDIA--LLNY 204
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 10-110 1.66e-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: 36.48  E-value: 1.66e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  10 YLVDDDEAVLDSLRFMLESCDERQLFSFAD-GERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLTGH 88
Cdd:cd17565     2 YIVDDDKNIIKILSDIIEDDDLGEVVGEADnGAQAYDEILFLQPDIVLIDLLMPGMDGIQLVRKLKDTGSNGKFIMISQV 81

                          90       100
                  ....*....|....*....|..
gi 2646617639  89 GEVPLAVESLKLGAVDFLQKPV 110
Cdd:cd17565    82 SDKEMIGKAYQAGIEFFINKPI 103
PRK10766 PRK10766
two-component system response regulator TorR;
11-116 4.78e-03

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 36.55  E-value: 4.78e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLdslRFMLESCDER---QLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAaQSPIAILFLTG 87
Cdd:PRK10766    6 LVVEDEPVT---RARLQGYFEQegyTVSEAASGAGMREIMQNQHVDLILLDINLPGEDGLMLTRELRS-RSTVGIILVTG 81

                          90       100
                  ....*....|....*....|....*....
gi 2646617639  88 HGEVPLAVESLKLGAVDFLQKPVQLAPLL 116
Cdd:PRK10766   82 RTDSIDRIVGLEMGADDYVTKPLELRELL 110
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 136-185 5.93e-03

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


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 36.13  E-value: 5.93e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2646617639 136 LAAFERLTPRERQLLQLIA-RGHKNQQIAQDLCISVRTVEV----CRASLMKRLA 185
Cdd:COG1595   122 LAALERLPPRQREVLVLRYlEGLSYAEIAEILGISEGTVKSrlsrARKKLREALE 176
PRK14084 PRK14084
DNA-binding response regulator;
11-121 8.46e-03

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 36.27  E-value: 8.46e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639  11 LVDDDEAVLDSLRFMLESCDERQLFSFADG-----ERFLAEV-DLhqpacLILDCRMPGLSGPEVQQRLKAAQSPIAILF 84
Cdd:PRK14084    5 IVDDEPLARNELTYLLNEIGGFEEINEAENvketlEALLINQyDI-----IFLDINLMDESGIELAAKIQKMKEPPAIIF 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2646617639  85 LTGHGEvpLAVESLKLGAVDFLQKPVQLAPLLAAIER 121
Cdd:PRK14084   80 ATAHDQ--FAVKAFELNATDYILKPFEQKRIEQAVNK 114
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 138-175 8.83e-03

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


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 35.62  E-value: 8.83e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 2646617639 138 AFERLTPRERQLLQL-IARGHKNQQIAQDLCISVRTVEV 175
Cdd:TIGR02985 110 AIEKLPEQCREIFILsRFEGLSNKEIAEELGISVKTVEY 148
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 7-121 9.28e-03

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: 35.03  E-value: 9.28e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2646617639   7 PPLYLVDDDEAVLDSLRFMLEscDERQLFSFADGERFLAEVDLHQPACLILDCRMPGLSGPEVQQRLKAAQSPIAILFLT 86
Cdd:cd17596     1 PTILVVDDEVRSLEALRRTLE--EDFDVLTAASAEEALAILEEEWVQVILCDQRMPGTTGVEFLKEVRERWPEVVRIIIS 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2646617639  87 GHGEVPLAVESLKLGAV-DFLQKPVQLAPLLAAIER 121
Cdd:cd17596    79 GYTDSEDIIAGINEAGIyQYLTKPWHPDQLLLTVRN 114
 
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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