NCBI Conserved Domain Search

Conserved domains on [gi|90111362|ref|NP_416478|]

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DNA-binding transcriptional dual regulator HprR [Escherichia coli str. K-12 substr. MG1655]

Protein Classification

response regulator transcription factor( domain architecture ID 11485378)

two-component system response regulator transcription factor such as transcriptional regulatory protein HprR, which binds DNA upon phosphorylation and functions as transcriptional regulator in the HprR/HprS regulatory system involved in response to hydrogen peroxide

Graphical summary

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List of domain hits

Name

Accession

Description

Interval

E-value

PRK11517

DNA-binding response regulator HprR;

1-223

5.65e-161

DNA-binding response regulator HprR;

Pssm-ID: 183172 [Multi-domain] Cd Length: 223 Bit Score: 443.57 E-value: 5.65e-161

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTAR 80
Cdd:PRK11517   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTAR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISGLRMDSVSHSVSRDNISITLTRKEFQLLWLLA 160
Cdd:PRK11517  81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISGLRMDSVSQSVSRDNISITLTRKEFQLLWLLA 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 90111362  161 SRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSFVAVKK 223
Cdd:PRK11517 161 SRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSFVAVKK 223

Name

Accession

Description

Interval

E-value

PRK11517

DNA-binding response regulator HprR;

1-223

5.65e-161

DNA-binding response regulator HprR;

Pssm-ID: 183172 [Multi-domain] Cd Length: 223 Bit Score: 443.57 E-value: 5.65e-161

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTAR 80
Cdd:PRK11517   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTAR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISGLRMDSVSHSVSRDNISITLTRKEFQLLWLLA 160
Cdd:PRK11517  81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISGLRMDSVSQSVSRDNISITLTRKEFQLLWLLA 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 90111362  161 SRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSFVAVKK 223
Cdd:PRK11517 161 SRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSFVAVKK 223

cztR_silR_copR

TIGR01387

heavy metal response regulator; Members of this family contain a response regulator receiver ...

3-218

7.42e-134

heavy metal response regulator; Members of this family contain a response regulator receiver domain (pfam00072) and an associated transcriptional regulatory region (pfam00486). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. Most members encoded by genes adjacent to genes for encoding a member of the heavy metal sensor histidine kinase family (TIGRFAMs:TIGR01386), its partner in the two-component response regulator system. [Regulatory functions, DNA interactions]

Pssm-ID: 130454 [Multi-domain] Cd Length: 218 Bit Score: 374.91 E-value: 7.42e-134

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362     3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLTARD 81
Cdd:TIGR01387   1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALKDDYDLIILDVMLPGMDGWQILQTLRrSGKQTPVLFLTARD 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNST-LEISGLRMDSVSHSVSRDNISITLTRKEFQLLWLLA 160
Cdd:TIGR01387  81 SVADKVKGLDLGADDYLVKPFSFSELLARVRTLLRRSHSLNSTvLEIADLRMDSVRHRVSRGNIRITLTRKEFQLLWLLM 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 90111362   161 SRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSF 218
Cdd:TIGR01387 161 RRTGEVLPRTVIASLVWGMNFDSDTNVVDVAIRRLRAKVDDPFEEKLIHTIRGMGYVL 218

OmpR

COG0745

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...

1-205

1.53e-74

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: 224.06 E-value: 1.53e-74

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLTA 79
Cdd:COG0745   2 PRILVVEDDPDIRELLADALEREGYEVDTAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRaRPSDIPIIMLTA 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHAlnSTLEISGLrMDSVSHSVSRDNISITLTRKEFQLLWLL 159
Cdd:COG0745  82 RDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRAA--EVLRVGDL-LDLAAREVTRDGEPVELTPKEFRLLELL 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 90111362 160 ASRAGEIIPRTVIASEIWGINFdSDTNTVDVAIRRLRAKVDDPFPE 205
Cdd:COG0745 159 MRNPGRVVSREQLLEEVWGYDY-GDDRTVDVHISRLRKKLEDDLIE 203

REC_OmpR_CusR-like

cd19935

phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...

3-101

6.54e-57

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: 175.71 E-value: 6.54e-57

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA-KQTPVICLTARD 81
Cdd:cd19935   1 ILVVEDEKKLAEYLKKGLTEEGYAVDVAYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAAgKQTPVLMLTARD 80

                        90       100
                ....*....|....*....|
gi 90111362  82 SVDDRVRGLDSGANDYLVKP 101
Cdd:cd19935  81 SVEDRVKGLDLGADDYLVKP 100

Response_reg

pfam00072

Response regulator receiver domain; This domain receives the signal from the sensor partner in ...

3-112

3.65e-30

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: 107.62 E-value: 3.65e-30

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362     3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRT-AKQTPVICLTARD 81
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRrDPTTPVIILTAHG 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 90111362    82 SVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:pfam00072  81 DEDDAVEALEAGADDFLSKPFDPDELLAAIR 111

Trans_reg_C

smart00862

Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...

143-218

1.80e-27

Transcriptional regulatory protein, C terminal; This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding.

Pssm-ID: 214866 [Multi-domain] Cd Length: 76 Bit Score: 99.55 E-value: 1.80e-27

                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 90111362    143 NISITLTRKEFQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSF 218
Cdd:smart00862   1 GEPIKLTPKEFRLLELLLRNPGRVVSREELLEAVWGDDEDVDDNTLDVHISRLRKKLEDDGDPRLIETVRGVGYRL 76

Name

Accession

Description

Interval

E-value

PRK11517

DNA-binding response regulator HprR;

1-223

5.65e-161

DNA-binding response regulator HprR;

Pssm-ID: 183172 [Multi-domain] Cd Length: 223 Bit Score: 443.57 E-value: 5.65e-161

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTAR 80
Cdd:PRK11517   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTAR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISGLRMDSVSHSVSRDNISITLTRKEFQLLWLLA 160
Cdd:PRK11517  81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISGLRMDSVSQSVSRDNISITLTRKEFQLLWLLA 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 90111362  161 SRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSFVAVKK 223
Cdd:PRK11517 161 SRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSFVAVKK 223

cztR_silR_copR

TIGR01387

heavy metal response regulator; Members of this family contain a response regulator receiver ...

3-218

7.42e-134

Pssm-ID: 130454 [Multi-domain] Cd Length: 218 Bit Score: 374.91 E-value: 7.42e-134

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362     3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLTARD 81
Cdd:TIGR01387   1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALKDDYDLIILDVMLPGMDGWQILQTLRrSGKQTPVLFLTARD 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNST-LEISGLRMDSVSHSVSRDNISITLTRKEFQLLWLLA 160
Cdd:TIGR01387  81 SVADKVKGLDLGADDYLVKPFSFSELLARVRTLLRRSHSLNSTvLEIADLRMDSVRHRVSRGNIRITLTRKEFQLLWLLM 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 90111362   161 SRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSF 218
Cdd:TIGR01387 161 RRTGEVLPRTVIASLVWGMNFDSDTNVVDVAIRRLRAKVDDPFEEKLIHTIRGMGYVL 218

PRK09836

DNA-binding transcriptional activator CusR; Provisional

1-216

1.24e-80

DNA-binding transcriptional activator CusR; Provisional

Pssm-ID: 182102 [Multi-domain] Cd Length: 227 Bit Score: 240.60 E-value: 1.24e-80

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQ-TPVICLTA 79
Cdd:PRK09836   1 MKLLIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTGDYDLIILDIMLPDVNGWDIVRMLRSANKgMPILLLTA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHAL--NSTLEISGLRMDSVSHSVSRDNISITLTRKEFQLLW 157
Cdd:PRK09836  81 LGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRRGAAViiESQFQVADLMVDLVSRKVTRSGTRITLTSKEFTLLE 160

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 90111362  158 LLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGY 216
Cdd:PRK09836 161 FFLRHQGEVLPRSLIASQVWDMNFDSDTNAIDVAVKRLRGKIDNDFEPKLIQTVRGVGY 219

OmpR

COG0745

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...

1-205

1.53e-74

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: 224.06 E-value: 1.53e-74

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLTA 79
Cdd:COG0745   2 PRILVVEDDPDIRELLADALEREGYEVDTAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRaRPSDIPIIMLTA 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHAlnSTLEISGLrMDSVSHSVSRDNISITLTRKEFQLLWLL 159
Cdd:COG0745  82 RDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRAA--EVLRVGDL-LDLAAREVTRDGEPVELTPKEFRLLELL 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 90111362 160 ASRAGEIIPRTVIASEIWGINFdSDTNTVDVAIRRLRAKVDDPFPE 205
Cdd:COG0745 159 MRNPGRVVSREQLLEEVWGYDY-GDDRTVDVHISRLRKKLEDDLIE 203

PRK10643

two-component system response regulator PmrA;

1-223

7.98e-61

two-component system response regulator PmrA;

Pssm-ID: 182612 [Multi-domain] Cd Length: 222 Bit Score: 189.86 E-value: 7.98e-61

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT-PVICLTA 79
Cdd:PRK10643   1 MKILIVEDDTLLLQGLILALQTEGYACDCASTAREAEALLESGHYSLVVLDLGLPDEDGLHLLRRWRQKKYTlPVLILTA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHAL-NSTLEISGLRMDSVSHSVSRDNISITLTRKEFQLLWL 158
Cdd:PRK10643  81 RDTLEDRVAGLDVGADDYLVKPFALEELHARIRALIRRHQGQgENELQVGNLTLNLGRQQVWLDGQELILTPKEFALLSR 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 90111362  159 LASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDdpfpEKLIATIRGMGYSFVAVKK 223
Cdd:PRK10643 161 LMLKAGSPVHREILYQDIYNWDDEPSSNTLEVHIHNLRDKVG----KDRIRTVRGFGYMLVANEE 221

REC_OmpR_CusR-like

cd19935

phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...

3-101

6.54e-57

Pssm-ID: 381162 [Multi-domain] Cd Length: 100 Bit Score: 175.71 E-value: 6.54e-57

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA-KQTPVICLTARD 81
Cdd:cd19935   1 ILVVEDEKKLAEYLKKGLTEEGYAVDVAYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAAgKQTPVLMLTARD 80

                        90       100
                ....*....|....*....|
gi 90111362  82 SVDDRVRGLDSGANDYLVKP 101
Cdd:cd19935  81 SVEDRVKGLDLGADDYLVKP 100

orf27

CHL00148

Ycf27; Reviewed

1-218

3.19e-56

Ycf27; Reviewed

Pssm-ID: 214376 [Multi-domain] Cd Length: 240 Bit Score: 178.76 E-value: 3.19e-56

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTAR 80
Cdd:CHL00148   7 EKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEIRKESDVPIIMLTAL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALN--------STLEISGLRMDSVSHSVSRDNISITLTRKE 152
Cdd:CHL00148  87 GDVSDRITGLELGADDYVVKPFSPKELEARIRSVLRRTNKKSfsskipnsSIIRIGFLKIDLNKKQVYKNNERIRLTGME 166

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 90111362  153 FQLLWLLASRAGEIIPRTVIASEIWGINFDS--DTNTVDVAIRRLRAKV-DDPFPEKLIATIRGMGYSF 218
Cdd:CHL00148 167 FSLLELLISKSGEIFSRATILKEVWGYTPERhiDTRVVDVHISRLRAKLeDDPSNPDLILTARGTGYLF 235

REC_OmpR_DrrD-like

cd17625

phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...

4-117

1.32e-49

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: 157.77 E-value: 1.32e-49

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   4 LLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTARDS 82
Cdd:cd17625   1 LVVEDEKDLSEAITKHLKKEGYTVDVCFDGEEGLEYALSGIYDLIILDIMLPGMDGLEVLKSLREEGiETPVLLLTALDA 80

                        90       100       110
                ....*....|....*....|....*....|....*
gi 90111362  83 VDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ 117
Cdd:cd17625  81 VEDRVKGLDLGADDYLPKPFSLAELLARIRALLRR 115

REC_OmpR_PmrA-like

cd17624

phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...

3-116

9.43e-48

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: 153.02 E-value: 9.43e-48

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQ-TPVICLTARD 81
Cdd:cd17624   1 ILLVEDDALLGDGLKTGLRKAGYAVDWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQsLPVLILTARD 80

                        90       100       110
                ....*....|....*....|....*....|....*
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLR 116
Cdd:cd17624  81 GVDDRVAGLDAGADDYLVKPFALEELLARLRALLR 115

PRK15479

transcriptional regulator TctD;

1-217

1.31e-44

transcriptional regulator TctD;

Pssm-ID: 185376 [Multi-domain] Cd Length: 221 Bit Score: 148.33 E-value: 1.31e-44

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT-PVICLTA 79
Cdd:PRK15479   1 MRLLLAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHLLQSEMYALAVLDINMPGMDGLEVLQRLRKRGQTlPVLLLTA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHAL-NSTLEISGLRMDSVSHSVSRDNiSITLTRKEFQLLWL 158
Cdd:PRK15479  81 RSAVADRVKGLNVGADDYLPKPFELEELDARLRALLRRSAGQvQEVQQLGELIFHDEGYFLLQGQ-PLALTPREQALLTV 159

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 90111362  159 LASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDpfPEKLIATIRGMGYS 217
Cdd:PRK15479 160 LMYRRTRPVSRQQLFEQVFSLNDEVSPESIELYIHRLRKKLQG--SDVRITTLRGLGYV 216

PRK10336

two-component system response regulator QseB;

1-218

4.00e-44

two-component system response regulator QseB;

Pssm-ID: 182387 [Multi-domain] Cd Length: 219 Bit Score: 147.35 E-value: 4.00e-44

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLTA 79
Cdd:PRK10336   1 MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYSAPYDAVILDLTLPGMDGRDILREWReKGQREPVLILTA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHA-LNSTLEISGLRMDSVSHSVSRDNISITLTRKEFQLLWL 158
Cdd:PRK10336  81 RDALAERVEGLRLGADDYLCKPFALIEVAARLEALMRRTNGqASNELRHGNVMLDPGKRIATLAGEPLTLKPKEFALLEL 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362  159 LASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFpeklIATIRGMGYSF 218
Cdd:PRK10336 161 LMRNAGRVLPRKLIEEKLYTWDEEVTSNAVEVHVHHLRRKLGSDF----IRTVHGIGYTL 216

PRK10955

envelope stress response regulator transcription factor CpxR;

2-222

4.95e-42

envelope stress response regulator transcription factor CpxR;

Pssm-ID: 182864 [Multi-domain] Cd Length: 232 Bit Score: 142.25 E-value: 4.95e-42

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLaLKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARD 81
Cdd:PRK10955   3 KILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDL-LDDSIDLLLLDVMMPKKNGIDTLKELRQTHQTPVIMLTARG 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALN---------STLEISGLRMDSVSHSVSRDNISITLTRKE 152
Cdd:PRK10955  82 SELDRVLGLELGADDYLPKPFNDRELVARIRAILRRSHWSEqqqnndngsPTLEVDALSLNPGRQEASFDGQTLELTGTE 161

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 90111362  153 FQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVddpfPEK-----LIATIRGMGYSFVAVK 222
Cdd:PRK10955 162 FTLLYLLAQHLGQVVSREHLSQEVLGKRLTPFDRAIDMHISNLRRKL----PDRkdghpWFKTLRGRGYLMVSAS 232

REC_OmpR_EcPhoP-like

cd19934

phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...

3-118

6.15e-41

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: 135.49 E-value: 6.15e-41

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA-KQTPVICLTARD 81
Cdd:cd19934   1 LLLVEDDALLAAQLKEQLSDAGYVVDVAEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEgRATPVLILTARD 80

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQH 118
Cdd:cd19934  81 SWQDKVEGLDAGADDYLTKPFHIEELLARLRALIRRA 117

PRK11083

DNA-binding response regulator CreB; Provisional

1-217

6.20e-40

DNA-binding response regulator CreB; Provisional

Pssm-ID: 236838 [Multi-domain] Cd Length: 228 Bit Score: 136.63 E-value: 6.20e-40

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTA 79
Cdd:PRK11083   4 PTILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQPPDLVILDVGLPDISGFELCRQLLAFHpALPVIFLTA 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLR---QHHALNSTLEISGLRMDSVSHSVSRDNISITLTRKEFQLL 156
Cdd:PRK11083  84 RSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTILRrvkKFAAPSPVIRIGHFELDEPAARISYFGTPLTLTRYEFLLL 163

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 90111362  157 WLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKV------DDPfpeklIATIRGMGYS 217
Cdd:PRK11083 164 KTLLLSPGRVFSRQQLMDIVWEDAQDSYDRTVDTHIKTLRAKLrainpdLSP-----INTHRGMGYS 225

PRK10161

phosphate response regulator transcription factor PhoB;

2-218

1.06e-39

phosphate response regulator transcription factor PhoB;

Pssm-ID: 182277 [Multi-domain] Cd Length: 229 Bit Score: 136.00 E-value: 1.06e-39

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDgRDGLYLALKDDYA-LIILDIMLPGMDGWQILQTLRTAKQT---PVICL 77
Cdd:PRK10161   4 RILVVEDEAPIREMVCFVLEQNGFQPVEAED-YDSAVNQLNEPWPdLILLDWMLPGGSGIQFIKHLKRESMTrdiPVVML 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   78 TARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ--HHALNSTLEISGLRMDSVSHSVSRDNISITLTRKEFQL 155
Cdd:PRK10161  83 TARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRRisPMAVEEVIEMQGLSLDPTSHRVMAGEEPLEMGPTEFKL 162

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 90111362  156 LWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSF 218
Cdd:PRK10161 163 LHFFMTHPERVYSREQLLNHVWGTNVYVEDRTVDVHIRRLRKALEPGGHDRMVQTVRGTGYRF 225

ompR

PRK09468

osmolarity response regulator; Provisional

2-219

3.26e-39

osmolarity response regulator; Provisional

Pssm-ID: 181883 [Multi-domain] Cd Length: 239 Bit Score: 135.10 E-value: 3.26e-39

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTAR 80
Cdd:PRK09468   7 KILVVDDDMRLRALLERYLTEQGFQVRSAANAEQMDRLLTRESFHLMVLDLMLPGEDGLSICRRLRSQNnPTPIIMLTAK 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHAL--------NSTLEISGLRMDSVSHSVSRDNISITLTRKE 152
Cdd:PRK09468  87 GEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLRRQAPElpgapsqeEEVIAFGKFKLNLGTRELFRGDEPMPLTTGE 166

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 90111362  153 FQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKV-DDPFPEKLIATIRGMGYSFV 219
Cdd:PRK09468 167 FAVLKALVSHPREPLSRDKLMNLARGREYSAMERSIDVQISRLRRLIeEDPAHPRYIQTVWGLGYVFV 234

REC_OmpR

cd17574

phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...

4-101

4.17e-39

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: 130.22 E-value: 4.17e-39

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   4 LLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLTARDS 82
Cdd:cd17574   1 LVVEDDEEIAELLSDYLEKEGYEVDTAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLReKGSDIPIIMLTAKDE 80

                        90
                ....*....|....*....
gi 90111362  83 VDDRVRGLDSGANDYLVKP 101
Cdd:cd17574  81 EEDKVLGLELGADDYITKP 99

PRK10701

DNA-binding transcriptional regulator RstA; Provisional

2-219

8.61e-39

DNA-binding transcriptional regulator RstA; Provisional

Pssm-ID: 236738 [Multi-domain] Cd Length: 240 Bit Score: 133.99 E-value: 8.61e-39

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    2 KILLIEDNQRTQEWVTQGLSEagYVIDAVSDGRDGLYLA--LKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTA 79
Cdd:PRK10701   3 KIVFVEDDAEVGSLIAAYLAK--HDIDVTVEPRGDRAEAtiLREQPDLVLLDIMLPGKDGMTICRDLRPKWQGPIVLLTS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISG-------------LRMDSVSHSVSRDNISI 146
Cdd:PRK10701  81 LDSDMNHILALEMGACDYILKTTPPAVLLARLRLHLRQNEQATQTKGLQEtsltpykalhfgtLTIDPVNRQVTLAGEEI 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 90111362  147 TLTRKEFQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPE-KLIATIRGMGYSFV 219
Cdd:PRK10701 161 SLSTADFDLLWELATHAGQIMDRDALLKNLRGVSYDGLDRSVDVAISRLRKKLLDNAAEpYRIKTVRNKGYLFA 234

PRK10529

DNA-binding transcriptional activator KdpE; Provisional

3-219

1.71e-36

DNA-binding transcriptional activator KdpE; Provisional

Pssm-ID: 182522 [Multi-domain] Cd Length: 225 Bit Score: 127.61 E-value: 1.71e-36

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    3 ILLIEDNQRTQEWVTQGLSEAGY-VIDAVSDGRdGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARD 81
Cdd:PRK10529   4 VLIVEDEQAIRRFLRTALEGDGMrVFEAETLQR-GLLEAATRKPDLIILDLGLPDGDGIEFIRDLRQWSAIPVIVLSARS 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQH---HALNSTLEISGLRMDSVSHSVSRDNISITLTRKEFQLLWL 158
Cdd:PRK10529  83 EESDKIAALDAGADDYLSKPFGIGELQARLRVALRRHsatPAPDPLVKFSDVTVDLAARVIHRGEEEVHLTPIEFRLLAV 162

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 90111362  159 LASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVD-DPFPEKLIATIRGMGYSFV 219
Cdd:PRK10529 163 LLNNAGKVLTQRQLLNQVWGPNAVEHSHYLRIYMGHLRQKLEqDPARPRHFITETGIGYRFM 224

PleD

COG3706

Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...

1-111

6.83e-36

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: 124.64 E-value: 6.83e-36

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRT---AKQTPVICL 77
Cdd:COG3706   2 ARILVVDDDPTNRKLLRRLLEAAGYEVVEAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLRAdprTADIPIIFL 81

                        90       100       110
                ....*....|....*....|....*....|....
gi 90111362  78 TARDSVDDRVRGLDSGANDYLVKPFSFSELLARV 111
Cdd:COG3706  82 TALDDEEDRARALEAGADDYLTKPFDPEELLARV 115

RpfG

COG3437

Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...

1-120

1.01e-35

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: 125.66 E-value: 1.01e-35

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR---TAKQTPVICL 77
Cdd:COG3437   7 PTVLIVDDDPENLELLRQLLRTLGYDVVTAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLRadpSTRDIPVIFL 86

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 90111362  78 TARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHA 120
Cdd:COG3437  87 TALADPEDRERALEAGADDYLTKPFDPEELLARVRNALELRRL 129

CheY

COG0784

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...

1-120

2.66e-35

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: 121.50 E-value: 2.66e-35

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR---TAKQTPVICL 77
Cdd:COG0784   6 KRILVVDDNPDNRELLRRLLERLGYEVTTAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIRalpRLPDIPIIAL 85

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 90111362  78 TARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHA 120
Cdd:COG0784  86 TAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLARASA 128

REC_OmpR_PrrA-like

cd17627

phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...

3-117

8.17e-35

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: 119.80 E-value: 8.17e-35

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA-KQTPVICLTARD 81
Cdd:cd17627   1 ILVVDDDRAVRESLRRSLRFEGYEVETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAgNDLPILVLTARD 80

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ 117
Cdd:cd17627  81 SVSDRVAGLDAGADDYLVKPFALEELLARVRALLRR 116

REC_OmpR_CpxR

cd17623

phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...

3-116

8.37e-35

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: 119.72 E-value: 8.37e-35

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARDS 82
Cdd:cd17623   1 ILLIDDDRELTELLTEYLEMEGFNVRAAHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELRKTSQVPVLMLTARGD 80

                        90       100       110
                ....*....|....*....|....*....|....
gi 90111362  83 VDDRVRGLDSGANDYLVKPFSFSELLARVRAQLR 116
Cdd:cd17623  81 DIDRILGLELGADDYLPKPFNPRELVARIRAILR 114

REC_OmpR_BsPhoP-like

cd19937

phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...

4-116

1.30e-33

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: 116.99 E-value: 1.30e-33

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   4 LLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA---KQTPVICLTAR 80
Cdd:cd19937   1 LVVDDEEDIVELLKYNLEKEGYEVVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILRSDpktSSIPIIMLTAK 80

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 90111362  81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLR 116
Cdd:cd19937  81 GEEFDKVLGLELGADDYITKPFSPRELLARVKAVLR 116

PRK10816

two-component system response regulator PhoP;

1-218

1.40e-32

two-component system response regulator PhoP;

Pssm-ID: 182755 [Multi-domain] Cd Length: 223 Bit Score: 117.53 E-value: 1.40e-32

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT-PVICLTA 79
Cdd:PRK10816   1 MRVLVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEADYYLNEHLPDIAIVDLGLPDEDGLSLIRRWRSNDVSlPILVLTA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNS-TLEISGLRMDSVSHSVSRDNISITLTRKEFQLLWL 158
Cdd:PRK10816  81 RESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRRNSGLASqVISLPPFQVDLSRRELSINDEVIKLTAFEYTIMET 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362  159 LASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSF 218
Cdd:PRK10816 161 LIRNNGKVVSKDSLMLQLYPDAELRESHTIDVLMGRLRKKIQAQYPQEVITTVRGQGYRF 220

trans_reg_C

cd00383

DNA-binding effector domain of two-component system response regulators; Bacteria and some ...

130-218

5.39e-32

DNA-binding effector domain of two-component system response regulators; Bacteria and some eukaryotes use two-component signal transduction systems to detect and respond to changes in the environment. The systems consists of a sensor histidine kinase and a response regulator. The former autophosphorylates a histidine residue on detecting an external stimulus. The phosphate is then transferred to an invariant aspartate residue in a highly conserved receiver domain of the response regulator. Phosphorylation activates a variable effector domain of the response regulator, which triggers the cellular response. This C-terminal effector domain belongs to the winged helix-turn-helix family of transcriptional regulators and contains DNA and RNA polymerase binding sites. Several dimers or monomers bind head to tail to small tandem repeats upstream of the genes. The RNA polymerase binding sites interact with the alpha or sigma subunit of RNA polymerase.

Pssm-ID: 294013 [Multi-domain] Cd Length: 89 Bit Score: 111.80 E-value: 5.39e-32

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362 130 LRMDSVSHSVSRDNISITLTRKEFQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIA 209
Cdd:cd00383   1 LRLDPARREVTVDGEEVELTPKEFELLELLARNPGRVVSREELLEAVWGYDYEVDDRTVDVHISRLRKKLEDDPEPRLIK 80


                ....*....
gi 90111362 210 TIRGMGYSF 218
Cdd:cd00383  81 TVRGVGYRL 89

PRK11173

two-component response regulator; Provisional

2-220

1.92e-31

two-component response regulator; Provisional

Pssm-ID: 183013 [Multi-domain] Cd Length: 237 Bit Score: 114.73 E-value: 1.92e-31

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    2 KILLIEDnqrtqEWVT----QGLSEA-GYVIDAVSDGrDGLYLALKD-DYALIILDIMLPGMDGWQILQTLRTAKQTPVI 75
Cdd:PRK11173   5 HILIVED-----ELVTrntlKSIFEAeGYDVFEATDG-AEMHQILSEnDINLVIMDINLPGKNGLLLARELREQANVALM 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   76 CLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLR---------QHHALNSTLEISGLRMDSVSHS-VSRDNIS 145
Cdd:PRK11173  79 FLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSrtmnlgtvsEERRSVESYKFNGWELDINSRSlISPDGEQ 158

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 90111362  146 ITLTRKEFQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKV-DDPFPEKLIATIRGMGYSFVA 220
Cdd:PRK11173 159 YKLPRSEFRAMLHFCENPGKIQSRAELLKKMTGRELKPHDRTVDVTIRRIRKHFeSTPDTPEIIATIHGEGYRFCG 234

REC_OmpR_CtrA

cd17616

phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...

3-113

2.54e-30

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: 108.27 E-value: 2.54e-30

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTARD 81
Cdd:cd17616   1 VLLIEDDSATAQSIELMLKSEGFNVYTTDLGEEGLDLGKLYDYDIILLDLNLPDMSGYEVLRTLRLAKvKTPILILSGLA 80

                        90       100       110
                ....*....|....*....|....*....|..
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRA 113
Cdd:cd17616  81 DIEDKVKGLGFGADDYMTKPFHKDELVARIHA 112

AtoC

COG2204

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...

1-178

2.83e-30

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: 115.45 E-value: 2.83e-30

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA-KQTPVICLTA 79
Cdd:COG2204   3 ARILVVDDDPDIRRLLKELLERAGYEVETAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALdPDLPVILLTG 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISGLRMDSVS--------HSVSRDNISI----- 146
Cdd:COG2204  83 YGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRRLRRENAEDSGLIGRSPAmqevrrliEKVAPSDATVlitge 162

                       170       180       190       200
                ....*....|....*....|....*....|....*....|..
gi 90111362 147 TLTRKEF--QLLWLLASRAGEI--------IPRTVIASEIWG 178
Cdd:COG2204 163 SGTGKELvaRAIHRLSPRADGPfvavncaaIPEELLESELFG 204

Response_reg

pfam00072

Response regulator receiver domain; This domain receives the signal from the sensor partner in ...

3-112

3.65e-30

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: 107.62 E-value: 3.65e-30

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362     3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRT-AKQTPVICLTARD 81
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRrDPTTPVIILTAHG 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 90111362    82 SVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:pfam00072  81 DEDDAVEALEAGADDFLSKPFDPDELLAAIR 111

REC_OmpR_MtPhoP-like

cd17615

phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...

2-117

9.10e-30

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: 107.05 E-value: 9.10e-30

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTAR 80
Cdd:cd17615   1 RVLVVDDEPNITELLSMALRYEGWDVETAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGpDVPVLFLTAK 80

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 90111362  81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ 117
Cdd:cd17615  81 DSVEDRIAGLTAGGDDYVTKPFSLEEVVARLRALLRR 117

REC

cd00156

phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...

4-101

3.40e-29

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: 105.00 E-value: 3.40e-29

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   4 LLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRT-AKQTPVICLTARDS 82
Cdd:cd00156   1 LIVDDDPAIRELLKSLLEREGYEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRElPPDIPVIVLTAKAD 80

                        90
                ....*....|....*....
gi 90111362  83 VDDRVRGLDSGANDYLVKP 101
Cdd:cd00156  81 EEDAVRALELGADDYLVKP 99

REC_OmpR_YycF-like

cd17614

phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...

3-117

4.40e-29

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: 105.20 E-value: 4.40e-29

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARDS 82
Cdd:cd17614   1 ILVVDDEKPISDILKFNLTKEGYEVVTAYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCREVRKTSNVPIIMLTAKDS 80

                        90       100       110
                ....*....|....*....|....*....|....*
gi 90111362  83 VDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ 117
Cdd:cd17614  81 EVDKVLGLELGADDYVTKPFSNRELLARVKANLRR 115

REC_OmpR_PhoB

cd17618

phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...

2-115

1.21e-28

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: 104.25 E-value: 1.21e-28

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA---KQTPVICLT 78
Cdd:cd17618   2 TILIVEDEPAIREMIAFNLERAGFDVVEAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLKRDemtRDIPIIMLT 81

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 90111362  79 ARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQL 115
Cdd:cd17618  82 ARGEEEDKVRGLEAGADDYITKPFSPRELVARIKAVL 118

Trans_reg_C

pfam00486

Transcriptional regulatory protein, C terminal;

146-218

1.46e-28

Transcriptional regulatory protein, C terminal;

Pssm-ID: 425712 [Multi-domain] Cd Length: 77 Bit Score: 102.59 E-value: 1.46e-28

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 90111362   146 ITLTRKEFQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKV-DDPFPEKLIATIRGMGYSF 218
Cdd:pfam00486   4 VELTPKEFKLLELLAENPGRVVSREQLLEEVWGEDYDVDDNTVDVHISRLRKKLeDDPRDPRLIKTVRGVGYRL 77

PRK10766

two-component system response regulator TorR;

2-213

1.87e-28

two-component system response regulator TorR;

Pssm-ID: 182711 [Multi-domain] Cd Length: 221 Bit Score: 106.66 E-value: 1.87e-28

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARD 81
Cdd:PRK10766   4 HILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIMQNQHVDLILLDINLPGEDGLMLTRELRSRSTVGIILVTGRT 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   82 SVDDRVRGLDSGANDYLVKPFSFSELLARV----------RAQLRQHHALNSTLEISGLRMDSVSHSVSRDNISITLTRK 151
Cdd:PRK10766  84 DSIDRIVGLEMGADDYVTKPLELRELLVRVknllwrislaRQAQPHAQEEDNCYRFAGYCLNVSRRTLERNGEPIKLTKA 163

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 90111362  152 EFQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDdpfPEkLIATIRG 213
Cdd:PRK10766 164 EYELLVAFVTNPGQVLSRERLLRMLSHRVENPNDRTIDVLIRRLRHKLN---PD-LFVTQHG 221

REC_RpfG-like

cd17551

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...

1-112

3.61e-28

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: 102.91 E-value: 3.61e-28

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGYV-IDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT---PVIC 76
Cdd:cd17551   1 MRILIVDDNPTNLLLLEALLRSAGYLeVVSFTDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRLRALPGLedvPIVM 80

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 90111362  77 LTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:cd17551  81 ITADTDREVRLRALEAGATDFLTKPFDPVELLARVR 116

REC_OmpR_kpRstA-like

cd17622

phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...

2-116

8.35e-28

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: 102.07 E-value: 8.35e-28

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARD 81
Cdd:cd17622   2 RILLVEDDPKLARLIADFLESHGFNVVVEHRGDRALEVIAREKPDAVLLDIMLPGIDGLTLCRDLRPKYQGPILLLTALD 81

                        90       100       110
                ....*....|....*....|....*....|....*
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLR 116
Cdd:cd17622  82 SDIDHILGLELGADDYVVKPVEPAVLLARLRALLR 116

Trans_reg_C

smart00862

Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...

143-218

1.80e-27

Transcriptional regulatory protein, C terminal; This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding.

Pssm-ID: 214866 [Multi-domain] Cd Length: 76 Bit Score: 99.55 E-value: 1.80e-27

                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 90111362    143 NISITLTRKEFQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKVDDPFPEKLIATIRGMGYSF 218
Cdd:smart00862   1 GEPIKLTPKEFRLLELLLRNPGRVVSREELLEAVWGDDEDVDDNTLDVHISRLRKKLEDDGDPRLIETVRGVGYRL 76

PRK10710

DNA-binding transcriptional regulator BaeR; Provisional

3-216

2.37e-27

DNA-binding transcriptional regulator BaeR; Provisional

Pssm-ID: 182665 [Multi-domain] Cd Length: 240 Bit Score: 104.38 E-value: 2.37e-27

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARDS 82
Cdd:PRK10710  13 ILIVEDEPKLGQLLIDYLQAASYATTLLSHGDEVLPYVRQTPPDLILLDLMLPGTDGLTLCREIRRFSDIPIVMVTAKIE 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   83 VDDRVRGLDSGANDYLVKPFSFSELLARVRAQLR---QHHALNSTLEISGLRMDSVSHSVSRDNISITLTRKEFQLLWLL 159
Cdd:PRK10710  93 EIDRLLGLEIGADDYICKPYSPREVVARVKTILRrckPQRELQQQDAESPLIIDESRFQASWRGKMLDLTPAEFRLLKTL 172

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 90111362  160 ASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKV-----DDPFpeklIATIRGMGY 216
Cdd:PRK10710 173 SHEPGKVFSREQLLNHLYDDYRVVTDRTIDSHIKNLRRKLesldaEQSF----IRAVYGVGY 230

CitB

COG4565

DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...

1-124

8.40e-27

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

Pssm-ID: 443622 [Multi-domain] Cd Length: 138 Bit Score: 100.04 E-value: 8.40e-27

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSE-AGY-VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICL 77
Cdd:COG4565   4 IRVLIVEDDPMVAELLRRYLERlPGFeVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGpDVDVIVI 83

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*..
gi 90111362  78 TARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNST 124
Cdd:COG4565  84 TAARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLLRED 130

REC_OmpR_BfmR-like

cd19939

phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...

2-117

8.54e-27

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: 99.37 E-value: 8.54e-27

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARD 81
Cdd:cd19939   1 RILIVEDELELARLTRDYLIKAGLEVSVFTDGQRAVRRIIDEQPSLVVLDIMLPGMDGLTVCREVREHSHVPILMLTART 80

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ 117
Cdd:cd19939  81 EEMDRVLGLEMGADDYLCKPFSPRELLARVRALLRR 116

REC_OmpR_BaeR-like

cd19938

phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...

2-115

3.51e-25

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

Pssm-ID: 381165 [Multi-domain] Cd Length: 114 Bit Score: 95.14 E-value: 3.51e-25

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARD 81
Cdd:cd19938   1 RILIVEDEPKLAQLLIDYLRAAGYAPTLLAHGDQVLPYVRHTPPDLILLDLMLPGTDGLTLCREIRRFSDVPIIMVTARV 80

                        90       100       110
                ....*....|....*....|....*....|....
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQL 115
Cdd:cd19938  81 EEIDRLLGLELGADDYICKPYSPREVVARVKAIL 114

REC_D1_PleD-like

cd17538

first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...

2-102

2.93e-24

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: 92.18 E-value: 2.93e-24

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT---PVICLT 78
Cdd:cd17538   1 KILVVDDEPANRELLEALLSAEGYEVLTADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKEDPETrhiPVIMIT 80

                        90       100
                ....*....|....*....|....
gi 90111362  79 ARDSVDDRVRGLDSGANDYLVKPF 102
Cdd:cd17538  81 ALDDREDRIRGLEAGADDFLSKPI 104

REC_hyHK_CKI1_RcsC-like

cd17546

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...

3-109

3.41e-24

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: 92.53 E-value: 3.41e-24

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR----TAKQTPVICLT 78
Cdd:cd17546   1 VLVVDDNPVNRKVLKKLLEKLGYEVDVAENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIRelegGGRRTPIIALT 80

                        90       100       110
                ....*....|....*....|....*....|.
gi 90111362  79 ARDSVDDRVRGLDSGANDYLVKPFSFSELLA 109
Cdd:cd17546  81 ANALEEDREKCLEAGMDDYLSKPVKLDQLKE 111

REC_OmpR_KdpE-like

cd17620

phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...

3-101

1.27e-23

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: 90.69 E-value: 1.27e-23

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARDS 82
Cdd:cd17620   1 ILVIEDEPQIRRFLRTALEAHGYRVFEAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRLREWSAVPVIVLSARDE 80

                        90
                ....*....|....*....
gi 90111362  83 VDDRVRGLDSGANDYLVKP 101
Cdd:cd17620  81 ESDKIAALDAGADDYLTKP 99

REC_OmpR_MtrA-like

cd17626

phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...

2-115

1.95e-23

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: 90.61 E-value: 1.95e-23

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGL--YLALKDDyaLIILDIMLPGMDGWQILQTLRTAKQTPVICLTA 79
Cdd:cd17626   2 RILVVDDDAALAEMIGIVLRGEGFDPAFCGDGTQALaaFREVRPD--LVLLDLMLPGIDGIEVCRQIRAESGVPIVMLTA 79

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQL 115
Cdd:cd17626  80 KSDTVDVVLGLESGADDYVAKPFKPKELVARIRARL 115

REC_PA4781-like

cd19920

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...

3-102

2.88e-23

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: 89.88 E-value: 2.88e-23

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT---PVICLTA 79
Cdd:cd19920   1 ILIVDDVPDNLRLLSELLRAAGYRVLVATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLKADPATrhiPVIFLTA 80

                        90       100
                ....*....|....*....|...
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPF 102
Cdd:cd19920  81 LTDTEDKVKGFELGAVDYITKPF 103

REC_Rcp-like

cd17557

phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...

2-113

4.18e-23

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: 90.17 E-value: 4.18e-23

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYV--IDAVSDGRDGL-YLALKDDYA------LIILDIMLPGMDGWQILQTLRT---A 69
Cdd:cd17557   1 TILLVEDNPGDAELIQEAFKEAGVPneLHVVRDGEEALdFLRGEGEYAdaprpdLILLDLNMPRMDGFEVLREIKAdpdL 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 90111362  70 KQTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRA 113
Cdd:cd17557  81 RRIPVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRS 124

REC_2_DhkD-like

cd17580

second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...

3-109

4.95e-23

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: 89.44 E-value: 4.95e-23

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR---TAKQTPVICLTA 79
Cdd:cd17580   1 ILVVDDNEDAAEMLALLLELEGAEVTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYELARRLRelpWLANTPAIALTG 80

                        90       100       110
                ....*....|....*....|....*....|
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLA 109
Cdd:cd17580  81 YGQPEDRERALEAGFDAHLVKPVDPDELIE 110

PRK13856

two-component response regulator VirG; Provisional

3-220

9.60e-22

two-component response regulator VirG; Provisional

Pssm-ID: 172377 [Multi-domain] Cd Length: 241 Bit Score: 89.49 E-value: 9.60e-22

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLT-ARD 81
Cdd:PRK13856   4 VLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRVLASETVDVVVVDLNLGREDGLEIVRSLATKSDVPIIIISgDRL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISGLRMDSVSHS------VSRDNISITLTRKEFQL 155
Cdd:PRK13856  84 EEADKVVALELGATDFIAKPFGTREFLARIRVALRVRPNVVRTKDRRSFCFADWTLNlrqrrlISEAGGEVKLTAGEFNL 163

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 90111362  156 LWLLASRAGEIIPRT--VIASEIWGIN-FDsdtNTVDVAIRRLRAKVD-DPFPEKLIATIRGMGYSFVA 220
Cdd:PRK13856 164 LVAFLEKPRDVLSREqlLIASRVREEEvYD---RSIDVLILRLRRKLEqDPANPQLIKTARGAGYFFDA 229

REC_OmpR_VirG

cd17594

phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...

2-113

1.79e-21

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: 85.58 E-value: 1.79e-21

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTA-R 80
Cdd:cd17594   1 HVLVVDDDAAMRHLLILYLRERGFDVTAAADGAEEARLMLHRRVDLVLLDLRLGQESGLDLLRTIRARSDVPIIIISGdR 80

                        90       100       110
                ....*....|....*....|....*....|...
gi 90111362  81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRA 113
Cdd:cd17594  81 RDEIDRVVGLELGADDYLAKPFGLRELLARVRA 113

REC_DivK-like

cd17548

phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...

2-112

3.32e-21

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: 84.90 E-value: 3.32e-21

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR---TAKQTPVICLT 78
Cdd:cd17548   1 KILIVEDNPLNMKLARDLLESAGYEVLEAADGEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKedpATRDIPVIALT 80

                        90       100       110
                ....*....|....*....|....*....|....
gi 90111362  79 ARDSVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:cd17548  81 AYAMKGDREKILEAGCDGYISKPIDTREFLETVA 114

REC_OmpR_ArcA_TorR-like

cd17619

phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...

3-112

5.01e-21

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: 84.36 E-value: 5.01e-21

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARDS 82
Cdd:cd17619   3 ILIVEDEPVTRATLKSYFEQEGYDVSEAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTRELREQSEVGIILVTGRDD 82

                        90       100       110
                ....*....|....*....|....*....|
gi 90111362  83 VDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:cd17619  83 EVDRIVGLEIGADDYVTKPFNPRELLVRAK 112

psREC-like_D2_PleD

cd17539

REC-like adaptor domain (D2) of response regulator PleD; PleD contains a REC domain (D1) with ...

3-116

3.83e-20

REC-like adaptor domain (D2) of response regulator PleD; PleD contains a REC domain (D1) with the phosphorylatable aspartate, a pseudo receiver (psREC)-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 the REC-like adaptor domain D2 of PleD, which is an inactive domain.

Pssm-ID: 381094 [Multi-domain] Cd Length: 124 Bit Score: 82.36 E-value: 3.83e-20

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSeAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRT---AKQTPVICLTA 79
Cdd:cd17539   1 VLLVDDRPSSAERIAAMLS-SEHEVVVEADPDEALFRAAEGPFDLVIVSLALEDFDGLRLCSQLRSlerTRQLPILAVAD 79

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLR 116
Cdd:cd17539  80 PGDRGRLIRALEIGVNDYLVRPIDPNELLARVRTQIR 116

YesN

COG4753

Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...

2-101

4.86e-20

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: 81.36 E-value: 4.86e-20

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAG--YVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLT 78
Cdd:COG4753   1 KVLIVDDEPLIREGLKRILEWEAgfEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIReLDPDTKIIILS 80

                        90       100
                ....*....|....*....|...
gi 90111362  79 ARDSVDDRVRGLDSGANDYLVKP 101
Cdd:COG4753  81 GYSDFEYAQEAIKLGADDYLLKP 103

REC_hyHK

cd17598

phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...

3-112

1.02e-19

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

Pssm-ID: 381128 [Multi-domain] Cd Length: 118 Bit Score: 80.83 E-value: 1.02e-19

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA---KQTPVICLTA 79
Cdd:cd17598   1 ILIVEDSPTQAEQLKHILEEQGYKVQVARNGREALAMLAEHRPTLVISDIVMPEMDGYELCRKIKSDpdlKDIPVILLTT 80

                        90       100       110
                ....*....|....*....|....*....|...
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:cd17598  81 LSDPRDVIRGLECGADNFITKPYDEKYLLSRIK 113

AmiR

COG3707

Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...

1-126

1.35e-19

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: 82.70 E-value: 1.35e-19

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGY-VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTA 79
Cdd:COG3707   4 LRVLVVDDEPLRRADLREGLREAGYeVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERPAPVILLTA 83

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSEL---LARVRAQLRQHHALNSTLE 126
Cdd:COG3707  84 YSDPELIERALEAGVSAYLVKPLDPEDLlpaLELALARFRELRALRRELA 133

REC_CheY4-like

cd17562

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...

2-112

1.41e-19

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

Pssm-ID: 381110 [Multi-domain] Cd Length: 118 Bit Score: 80.42 E-value: 1.41e-19

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGY-VIDAVsDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA---KQTPVICL 77
Cdd:cd17562   2 KILAVDDSASIRQMVSFTLRGAGYeVVEAA-DGRDALSKAQSKKFDLIITDQNMPNMDGIELIKELRKLpayKFTPILML 80

                        90       100       110
                ....*....|....*....|....*....|....*
gi 90111362  78 TARDSVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:cd17562  81 TTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVK 115

pleD

PRK09581

response regulator PleD; Reviewed

26-146

3.46e-19

response regulator PleD; Reviewed

Pssm-ID: 236577 [Multi-domain] Cd Length: 457 Bit Score: 84.95 E-value: 3.46e-19

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   26 VIDAvSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT---PVICLTARDSVDDRVRGLDSGANDYLVKPF 102
Cdd:PRK09581  29 VLTA-SSGAEAIAICEREQPDIILLDVMMPGMDGFEVCRRLKSDPATthiPVVMVTALDDPEDRVRGLEAGADDFLTKPI 107

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 90111362  103 SFSELLARVRA---------QLRQHHALNSTLEISGLRMDSVSHSVSRDNISI 146
Cdd:PRK09581 108 NDVALFARVKSltrlkmvidELRLRASTNAEIGVTALMIMAYANKDEDGRILL 160

REC_Ycf29

cd19927

phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...

3-101

5.01e-18

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: 76.26 E-value: 5.01e-18

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQ---TPVICLTA 79
Cdd:cd19927   1 ILLVDDDPGIRLAVKDYLEDQGFTVIAASNGLEALDLLNQYIPDLIISDIIMPGVDGYSLLGKLRKNADfdtIPVIFLTA 80

                        90       100
                ....*....|....*....|..
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKP 101
Cdd:cd19927  81 KGMTSDRIKGYNAGCDGYLSKP 102

REC_OmpR_RegX3-like

cd17621

phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...

3-101

5.51e-18

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: 76.08 E-value: 5.51e-18

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARDS 82
Cdd:cd17621   1 VLVVEDEESFSDPLAYLLRKEGFEVTVATDGPAALAEFDRAGADIVLLDLMLPGLSGTEVCRQLRARSNVPVIMVTAKDS 80

                        90
                ....*....|....*....
gi 90111362  83 VDDRVRGLDSGANDYLVKP 101
Cdd:cd17621  81 EIDKVVGLELGADDYVTKP 99

REC_HP-RR-like

cd17573

phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; ...

3-111

5.96e-18

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

Pssm-ID: 381115 [Multi-domain] Cd Length: 110 Bit Score: 76.31 E-value: 5.96e-18

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRT-AKQTPVICLTARD 81
Cdd:cd17573   1 ILLIEDDSTLGKEISKGLNEKGYQADVAESLKDGEYYIDIRNYDLVLVSDKLPDGNGLSIVSRIKEkHPSIVVIVLSDNP 80

                        90       100       110
                ....*....|....*....|....*....|
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARV 111
Cdd:cd17573  81 KTEQEIEAFKEGADDYIAKPFDFKVLVARI 110

REC_NtrC1-like

cd17572

phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...

3-119

8.91e-18

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: 76.08 E-value: 8.91e-18

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTARD 81
Cdd:cd17572   1 VLLVEDSPSLAALYQEYLSDEGYKVTHVETGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERSlPTSVIVITAHG 80

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHH 119
Cdd:cd17572  81 SVDIAVEAMRLGAYDFLEKPFDADRLRVTVRNALKHRK 118

REC_OmpR_ChvI-like

cd19936

phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...

3-101

3.47e-17

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: 73.63 E-value: 3.47e-17

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARDS 82
Cdd:cd19936   1 IALVDDDRNILTSVSMALEAEGFSVETYTDGASALDGLNARPPDLAILDIKMPRMDGMELLQRLRQKSTLPVIFLTSKDD 80

                        90
                ....*....|....*....
gi 90111362  83 VDDRVRGLDSGANDYLVKP 101
Cdd:cd19936  81 EIDEVFGLRMGADDYITKP 99

CadC1

COG3710

DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];

125-220

4.95e-17

DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];

Pssm-ID: 442924 [Multi-domain] Cd Length: 106 Bit Score: 73.40 E-value: 4.95e-17

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362 125 LEISGLRMDSVSHSVSRDNISITLTRKEFQLLWLLASRAGEIIPRTVIASEIWGINFDSDtNTVDVAIRRLRAKV-DDPF 203
Cdd:COG3710   3 YRFGDFRLDPARRELLRDGEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWPGRVVSD-NSLTQAISRLRKALgDDGL 81

                        90
                ....*....|....*..
gi 90111362 204 PEKLIATIRGMGYSFVA 220
Cdd:COG3710  82 EPRLIRTVPRRGYRLVA 98

REC_OmpR_NsrR-like

cd18159

phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...

3-115

5.19e-17

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: 73.86 E-value: 5.19e-17

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGL--YLALKDDyaLIILDIMLPGMDGWQILQTLRTAKQTPVICLTAR 80
Cdd:cd18159   1 ILIVEDDETIASLLKKHLEKWGYEVVLIEDFEDVLeeFLQFKPD--LVLLDINLPYFDGFYWCREIRQISNVPIIFISSR 78

                        90       100       110
                ....*....|....*....|....*....|....*
gi 90111362  81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQL 115
Cdd:cd18159  79 DDNMDQVMAINMGGDDYITKPFDLDVLLAKIKAIL 113

REC_TrrA-like

cd17554

phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...

1-112

1.44e-16

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: 72.64 E-value: 1.44e-16

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTA 79
Cdd:cd17554   1 KKILVVDDEENIRELYKEELEDEGYEVVTAGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKpDLPVIICTA 80

                        90       100       110
                ....*....|....*....|....*....|...
gi 90111362  80 RDSVDDRVRGLDSGAndYLVKPFSFSELLARVR 112
Cdd:cd17554  81 YSEYKSDFSSWAADA--YVVKSSDLTELKETIK 111

REC_CheY_CheY3

cd19923

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...

1-103

1.44e-15

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY family proteins; CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY3, Escherichia coli CheY, and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381150 [Multi-domain] Cd Length: 119 Bit Score: 70.06 E-value: 1.44e-15

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGYV-IDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR---TAKQTPVIC 76
Cdd:cd19923   1 MKVLVVDDFSTMRRIIKNLLKELGFNnVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLELLKTIRadgALSHLPVLM 80

                        90       100
                ....*....|....*....|....*..
gi 90111362  77 LTARDSVDDRVRGLDSGANDYLVKPFS 103
Cdd:cd19923  81 VTAEAKKENVIAAAQAGVNNYIVKPFT 107

REC_RR468-like

cd17552

phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...

2-115

1.45e-15

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: 70.27 E-value: 1.45e-15

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLS-EAGY-VIDAVSdGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT---PVIC 76
Cdd:cd17552   3 RILVIDDEEDIREVVQACLEkLAGWeVLTASS-GQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQANPETqsiPVIL 81

                        90       100       110
                ....*....|....*....|....*....|....*....
gi 90111362  77 LTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQL 115
Cdd:cd17552  82 LTAKAQPSDRQRFASLGVAGVIAKPFDPLTLAEQIAKLL 120

REC_CheV-like

cd19924

phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...

3-101

1.53e-15

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

Pssm-ID: 381151 [Multi-domain] Cd Length: 111 Bit Score: 69.71 E-value: 1.53e-15

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYL---------ALKDDYALIILDIMLPGMDGWQILQTLRT---AK 70
Cdd:cd19924   1 ILVVDDSPTARKQLRDLLKNLGFEIAEAVDGEEALNKlenlakegnDLSKELDLIITDIEMPKMDGYELTFELRDdprLA 80

                        90       100       110
                ....*....|....*....|....*....|.
gi 90111362  71 QTPVICLTARDSVDDRVRGLDSGANDYLVKP 101
Cdd:cd19924  81 NIPVILNSSLSGEFSRARGKKVGADAYLAKF 111

LytT

COG3279

DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...

1-126

3.42e-15

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

Pssm-ID: 442510 [Multi-domain] Cd Length: 235 Bit Score: 71.77 E-value: 3.42e-15

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGY--VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICL 77
Cdd:COG3279   2 MKILIVDDEPLARERLERLLEKYPDleVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLReLDPPPPIIFT 81

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 90111362  78 TARDsvDDRVRGLDSGANDYLVKPFSFSEL---LARVRAQLRQHHALNSTLE 126
Cdd:COG3279  82 TAYD--EYALEAFEVNAVDYLLKPIDEERLakaLEKAKERLEAKAAAEASPE 131

pleD

PRK09581

response regulator PleD; Reviewed

2-116

4.69e-15

response regulator PleD; Reviewed

Pssm-ID: 236577 [Multi-domain] Cd Length: 457 Bit Score: 73.01 E-value: 4.69e-15

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    2 KILLIEDNQRTQEWVTQGLSEAgYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA---KQTPVICLT 78
Cdd:PRK09581 157 RILLVDDDVSQAERIANILKEE-FRVVVVSDPSEALFNAAETNYDLVIVSANFENYDPLRLCSQLRSKertRYVPILLLV 235

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 90111362   79 ARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLR 116
Cdd:PRK09581 236 DEDDDPRLVKALELGVNDYLMRPIDKNELLARVRTQIR 273

REC_RssB-like

cd17555

phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...

2-101

1.27e-14

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: 67.61 E-value: 1.27e-14

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLTAR 80
Cdd:cd17555   2 TILVIDDDEVVRESIAAYLEDSGFQVLQAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITkESPDTPVIVVSGA 81

                        90       100
                ....*....|....*....|.
gi 90111362  81 DSVDDRVRGLDSGANDYLVKP 101
Cdd:cd17555  82 GVMSDAVEALRLGAWDYLTKP 102

REC_NarL-like

cd17535

phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...

3-113

1.32e-14

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: 67.54 E-value: 1.32e-14

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEA--GYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTA 79
Cdd:cd17535   1 VLIVDDHPLVREGLRRLLESEpdIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYpDLKVIVLTA 80

                        90       100       110
                ....*....|....*....|....*....|....
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRA 113
Cdd:cd17535  81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRA 114

REC_DctD-like

cd17549

phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...

3-131

1.82e-14

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: 67.51 E-value: 1.82e-14

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLTARD 81
Cdd:cd17549   1 VLLVDDDADVREALQQTLELAGFRVRAFADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIReLDPDLPVILITGHG 80

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHalnSTLEISGLR 131
Cdd:cd17549  81 DVPMAVEAMRAGAYDFLEKPFDPERLLDVVRRALEKRR---LVLENRRLR 127

PRK11361

acetoacetate metabolism transcriptional regulator AtoC;

2-134

1.97e-14

acetoacetate metabolism transcriptional regulator AtoC;

Pssm-ID: 183099 [Multi-domain] Cd Length: 457 Bit Score: 71.42 E-value: 1.97e-14

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA-KQTPVICLTAR 80
Cdd:PRK11361   6 RILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHeTRTPVILMTAY 85

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 90111362   81 DSVDDRVRGLDSGANDYLVKPFSFSE--LLARVRAQLRQ--------HHALNSTLEISGLRMDS 134
Cdd:PRK11361  86 AEVETAVEALRCGAFDYVIKPFDLDElnLIVQRALQLQSmkkeirhlHQALSTSWQWGHILTNS 149

REC_NtrX-like

cd17550

phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...

3-112

3.49e-14

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: 66.37 E-value: 3.49e-14

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLTARD 81
Cdd:cd17550   1 ILIVDDEEDIRESLSGILEDEGYEVDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKeKYPDLPVIMISGHG 80

                        90       100       110
                ....*....|....*....|....*....|.
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:cd17550  81 TIETAVKATKLGAYDFIEKPLSLDRLLLTIE 111

PRK10651

transcriptional regulator NarL; Provisional

3-198

3.85e-14

transcriptional regulator NarL; Provisional

Pssm-ID: 182619 [Multi-domain] Cd Length: 216 Bit Score: 68.52 E-value: 3.85e-14

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    3 ILLIEDNQRTQEWVTQ--GLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTA 79
Cdd:PRK10651   9 ILLIDDHPMLRTGVKQliSMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSlSGRIVVFSV 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTL-EI--SGLRMDSVSHSVSRDNisitLTRKEFQLL 156
Cdd:PRK10651  89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALtPVlaASLRANRATTERDVNQ----LTPRERDIL 164

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 90111362  157 WLLAsrAGeiIPRTVIASEIwginfDSDTNTVDVAIRRLRAK 198
Cdd:PRK10651 165 KLIA--QG--LPNKMIARRL-----DITESTVKVHVKHMLKK 197

REC_typeB_ARR-like

cd17584

phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...

3-107

6.01e-14

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: 65.73 E-value: 6.01e-14

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLAL--KDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTAR 80
Cdd:cd17584   1 VLVVDDDPTCLAILKRMLLRCGYQVTTCTDAEEALSMLRenKDEFDLVITDVHMPDMDGFEFLELIRLEMDLPVIMMSAD 80

                        90       100
                ....*....|....*....|....*..
gi 90111362  81 DSVDDRVRGLDSGANDYLVKPFSFSEL 107
Cdd:cd17584  81 GSTSTVMKGLAHGACDYLLKPVSIEDL 107

REC_DC-like

cd17534

phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...

1-109

6.70e-14

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: 65.51 E-value: 6.70e-14

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGY-VIDAVSDGRDGLYLALKDDYALIILDIMLPG-MDGWQILQTLRTAKQTPVICLT 78
Cdd:cd17534   1 KKILIVEDEAIIALDLKEILESLGYeVVGIADSGEEAIELAEENKPDLILMDINLKGdMDGIEAAREIREKFDIPVIFLT 80

                        90       100       110
                ....*....|....*....|....*....|...
gi 90111362  79 ARDsvDDRV--RGLDSGANDYLVKPFSFSELLA 109
Cdd:cd17534  81 AYS--DEETleRAKETNPYGYLVKPFNERELKA 111

COG4567

DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...

2-114

1.65e-13

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: 66.09 E-value: 1.65e-13

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTAR 80
Cdd:COG4567   6 SLLLVDDDEAFARVLARALERRGFEVTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDpDARIVVLTGY 85

                        90       100       110
                ....*....|....*....|....*....|....
gi 90111362  81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQ 114
Cdd:COG4567  86 ASIATAVEAIKLGADDYLAKPADADDLLAALERA 119

REC_PatA-like

cd17602

phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...

3-101

2.99e-13

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: 63.54 E-value: 2.99e-13

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA---KQTPVICLTA 79
Cdd:cd17602   1 VACVDDRPSIQKMIEYFLEKQGFRVVVIDDPLRALTTLLNSKPDLILIDIDMPDLDGYELCSLLRKSsalKDTPIIMLTG 80

                        90       100
                ....*....|....*....|..
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKP 101
Cdd:cd17602  81 KDGLVDRIRAKMAGASGYLTKP 102

REC_PdtaR-like

cd19932

phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...

1-109

4.83e-13

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: 63.20 E-value: 4.83e-13

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGY-VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTA 79
Cdd:cd19932   1 VRVLIAEDEALIRMDLREMLEEAGYeVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENIAPIVLLTA 80

                        90       100       110
                ....*....|....*....|....*....|
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLA 109
Cdd:cd19932  81 YSQQDLVERAKEAGAMAYLVKPFSESDLIP 110

FixJ

COG4566

DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...

3-120

1.40e-12

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: 63.97 E-value: 1.40e-12

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT-PVICLTARD 81
Cdd:COG4566   2 VYIVDDDEAVRDSLAFLLESAGLRVETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPlPVIFLTGHG 81

                        90       100       110
                ....*....|....*....|....*....|....*....
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHA 120
Cdd:COG4566  82 DVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRA 120

REC_CheY

cd17542

phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...

1-112

1.71e-12

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: 61.91 E-value: 1.71e-12

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGY-VIDAVSDGRDGL--YLALKDDyaLIILDIMLPGMDGWQILQTLRT-AKQTPVIC 76
Cdd:cd17542   1 KKVLIVDDAAFMRMMLKDILTKAGYeVVGEAANGEEAVekYKELKPD--LVTMDITMPEMDGIEALKEIKKiDPNAKVIM 78

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 90111362  77 LTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:cd17542  79 CSAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVE 114

PRK15347

two component system sensor kinase;

1-167

2.54e-12

two component system sensor kinase;

Pssm-ID: 237951 [Multi-domain] Cd Length: 921 Bit Score: 65.43 E-value: 2.54e-12

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA-----KQTPVI 75
Cdd:PRK15347 691 LQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGRQHRFDLVLMDIRMPGLDGLETTQLWRDDpnnldPDCMIV 770

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   76 CLTARDSVDDRVRGLDSGANDYLVKPFSFsellarvrAQLrqHHALNSTLEISGLRMDSVSHSVSR-----DNISITLTR 150
Cdd:PRK15347 771 ALTANAAPEEIHRCKKAGMNHYLTKPVTL--------AQL--ARALELAAEYQLLRGIELSPQDSScspllDTDDMALNS 840

                        170
                 ....*....|....*..
gi 90111362  151 KEFQLLWLLASRAGEII 167
Cdd:PRK15347 841 KLYQSLLLLLAQIEQAV 857

REC

smart00448

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...

1-55

2.85e-12

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: 59.50 E-value: 2.85e-12

                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 90111362      1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLP 55
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELLKEEKPDLILLDIMMP 55

REC_NtrC

cd19919

phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...

2-112

7.88e-12

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: 59.98 E-value: 7.88e-12

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQ-GLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRT-AKQTPVICLTA 79
Cdd:cd19919   1 KTVWIVDDDSSIRWVLErALAGAGLTVTSFENAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQrHPDLPVIIMTA 80

                        90       100       110
                ....*....|....*....|....*....|...
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:cd19919  81 HSDLDSAVSAYQGGAFEYLPKPFDIDEAVALVE 113

REC_2_GGDEF

cd17544

second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...

1-111

1.06e-11

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

Pssm-ID: 381098 [Multi-domain] Cd Length: 122 Bit Score: 59.84 E-value: 1.06e-11

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGL-YLALKDDYALIILDIMLPGMDGWQILQTLRTA---KQTPVIC 76
Cdd:cd17544   1 IKVLVVDDSATSRNHLRALLRRHNFQVLEAANGQEALeVLEQHPDIKLVITDYNMPEMDGFELVREIRKKysrDQLAIIG 80

                        90       100       110
                ....*....|....*....|....*....|....*
gi 90111362  77 LTARDSVDDRVRGLDSGANDYLVKPFSFSELLARV 111
Cdd:cd17544  81 ISASGDNALSARFIKAGANDFLTKPFLPEEFYCRV 115

REC_CheB-like

cd17541

phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...

1-117

1.49e-11

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: 59.33 E-value: 1.49e-11

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGY--VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLT 78
Cdd:cd17541   1 IRVLIVDDSAVMRKLLSRILESDPDieVVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAERPTPVVMVS 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
gi 90111362  79 ARDSVDDRV--RGLDSGANDYLVKPF-SFSELLARVRAQLRQ 117
Cdd:cd17541  81 SLTEEGAEItlEALELGAVDFIAKPSgGISLDLEEIAEELIE 122

REC_TPR

cd17589

phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR) ...

3-111

8.45e-11

phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR)-containing response regulators; Response regulators share the common phosphoacceptor REC domain and different output domains. This subfamily contains uncharacterized response regulators with TPR repeats as the effector or output domain, which might contain between 3 to 16 TPR repeats (each about 34 amino acids). TPR-containing proteins occur in all domains of life and the abundance of TPR-containing proteins in a bacterial proteome is not indicative of virulence. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Some members in this subfamily may contain inactive REC domains lacking canonical metal-binding and active site residues.

Pssm-ID: 381123 [Multi-domain] Cd Length: 115 Bit Score: 57.27 E-value: 8.45e-11

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYV-IDAVSDGRDGLYLALKDDYALIILDIML-PGMDGWQILQTLRTAKQTP----VIC 76
Cdd:cd17589   1 FLIVDDQPTFRSMLKSMLRSLGVTrIDTASSGEEALRMCENKTYDIVLCDYNLgKGKNGQQLLEELRHKKLISpstvFIM 80

                        90       100       110
                ....*....|....*....|....*....|....*
gi 90111362  77 LTARDSVDDRVRGLDSGANDYLVKPFSFSELLARV 111
Cdd:cd17589  81 VTGESSRAMVLSALELEPDDYLLKPFTVSELRERL 115

PRK09959

acid-sensing system histidine kinase EvgS;

1-117

1.00e-10

acid-sensing system histidine kinase EvgS;

Pssm-ID: 182169 [Multi-domain] Cd Length: 1197 Bit Score: 60.90 E-value: 1.00e-10

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362     1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT-PVICLTA 79
Cdd:PRK09959  959 LSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSMQHYDLLITDVNMPNMDGFELTRKLREQNSSlPIWGLTA 1038

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 90111362    80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVrAQLRQ 117
Cdd:PRK09959 1039 NAQANEREKGLSCGMNLCLFKPLTLDVLKTHL-SQLHQ 1075

PRK15369

two component system response regulator;

2-160

1.29e-10

two component system response regulator;

Pssm-ID: 185267 [Multi-domain] Cd Length: 211 Bit Score: 58.94 E-value: 1.29e-10

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    2 KILLIEDNqrtqEWVTQGLSE--AGY----VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQ-ILQTLRTAKQTPV 74
Cdd:PRK15369   5 KILLVDDH----ELIINGIKNmlAPYprykIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDvIPQLHQRWPAMNI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   75 ICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVraqlrQHHALNSTLEISGLRMDSVSHSVSRDNISIT-LTRKEF 153
Cdd:PRK15369  81 LVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAI-----QTVAVGKRYIDPALNREAILALLNADDTNPPlLTPRER 155


                 ....*..
gi 90111362  154 QLLWLLA 160
Cdd:PRK15369 156 QILKLIT 162

REC_NarL

cd19931

phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...

3-112

1.67e-10

phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate/nitrite response regulator protein NarL contains an N-terminal REC domain and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. Escherichia coli NarL activates the expression of the nitrate reductase (narGHJI) and formate dehydrogenase-N (fdnGHI) operons, and represses the transcription of the fumarate reductase (frdABCD) operon in response to a nitrate/nitrite induction signal. Phosphorylation of the NarL REC domain releases the C-terminal HTH output domain that subsequently binds specific DNA promoter sites to repress or activate gene expression. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381158 [Multi-domain] Cd Length: 117 Bit Score: 56.59 E-value: 1.67e-10

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGY--VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLTA 79
Cdd:cd19931   1 VLLIDDHPLLRKGIKQLIELDPDftVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALReEGVSARIVILTV 80

                        90       100       110
                ....*....|....*....|....*....|...
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:cd19931  81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALK 113

REC_RitR-like

cd19922

receiver (REC) domain of orphan response regulator RitR and similar domains; Streptococcus ...

3-111

1.76e-10

receiver (REC) domain of orphan response regulator RitR and similar domains; Streptococcus pneumoniae RitR (Repressor of iron transport Regulator, formerly RR489) is an orphan two-component signal transduction response regulator that is required for lung pathogenicity. It acts to repress iron uptake via binding the pneumococcal iron uptake (Piu) transporter promoter. Members of this subfamily contain REC and DNA-binding output domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. However, members of this family do not contain the phosphorylatable aspartic acid residue and are phosphorylation-independent.

Pssm-ID: 381149 [Multi-domain] Cd Length: 110 Bit Score: 56.33 E-value: 1.76e-10

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTL-RTAKQTPVICLTARD 81
Cdd:cd19922   1 ILLLEKERNLAHFLSLELQKEGYRVDLVETGQEALSLALETDYDLILLNVNLSDMSAQDFAEKLsRIKPASVIIVLDHWE 80

                        90       100       110
                ....*....|....*....|....*....|
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARV 111
Cdd:cd19922  81 DLQEELEEVQRFAVSYVVKPVLISNLVDKI 110

psREC_PRR

cd17582

pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response ...

3-101

2.24e-10

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

Pssm-ID: 381120 [Multi-domain] Cd Length: 104 Bit Score: 55.87 E-value: 2.24e-10

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDgLYLALKD---DYALIILDIMLPGMDGWQILQTL---RTAKQTPVIC 76
Cdd:cd17582   1 VLLVENDDSTRQIVTALLRKCSYEVTAASDGLQ-AWDVLEDeqnEIDLILTEVDLPVSSGFKLLSYImrhKICKNIPVIM 79

                        90       100
                ....*....|....*....|....*
gi 90111362  77 LTARDSVDDRVRGLDSGANDYLVKP 101
Cdd:cd17582  80 MSSQDSVGVVFKCLSKGAADYLVKP 104

REC_YesN-like

cd17536

phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...

3-116

2.66e-10

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: 55.81 E-value: 2.66e-10

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGY---VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLT 78
Cdd:cd17536   1 VLIVDDEPLIREGLKKLIDWEELgfeVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIReLYPDIKIIILS 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*...
gi 90111362  79 -------ARdsvddrvRGLDSGANDYLVKPFSFSEL---LARVRAQLR 116
Cdd:cd17536  81 gyddfeyAQ-------KAIRLGVVDYLLKPVDEEELeeaLEKAKEELD 121

REC_LytTR_AlgR-like

cd17532

phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...

26-116

2.68e-10

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: 56.01 E-value: 2.68e-10

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362  26 VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTP-VICLTARDSVddRVRGLDSGANDYLVKPFS- 103
Cdd:cd17532  26 IVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSKLAKPPlIVFVTAYDEY--AVEAFELNAVDYLLKPFSe 103

                        90
                ....*....|....*
gi 90111362 104 --FSELLARVRAQLR 116
Cdd:cd17532 104 erLAEALAKLRKRLS 118

PRK10610

chemotaxis protein CheY;

1-107

3.54e-10

chemotaxis protein CheY;

Pssm-ID: 170568 [Multi-domain] Cd Length: 129 Bit Score: 56.14 E-value: 3.54e-10

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGY-VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQ---TPVIC 76
Cdd:PRK10610   6 LKFLVVDDFSTMRRIVRNLLKELGFnNVEEAEDGVDALNKLQAGGFGFVISDWNMPNMDGLELLKTIRADGAmsaLPVLM 85

                         90       100       110
                 ....*....|....*....|....*....|.
gi 90111362   77 LTARDSVDDRVRGLDSGANDYLVKPFSFSEL 107
Cdd:PRK10610  86 VTAEAKKENIIAAAQAGASGYVVKPFTAATL 116

REC_FixJ

cd17537

phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...

3-115

3.57e-10

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: 55.68 E-value: 3.57e-10

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTARD 81
Cdd:cd17537   3 VYVVDDDEAVRDSLAFLLRSVGLAVKTFTSASAFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGsNIPIIFITGHG 82

                        90       100       110
                ....*....|....*....|....*....|....
gi 90111362  82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQL 115
Cdd:cd17537  83 DVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQAL 116

glnG

PRK10923

nitrogen regulation protein NR(I); Provisional

3-178

3.72e-10

nitrogen regulation protein NR(I); Provisional

Pssm-ID: 182842 [Multi-domain] Cd Length: 469 Bit Score: 58.73 E-value: 3.72e-10

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    3 ILLIEDNQRTQEWVTQ-GLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTAR 80
Cdd:PRK10923   5 IVWVVDDDSSIRWVLErALAGAGLTCTTFENGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRHpMLPVIIMTAH 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   81 DSVDDRVRGLDSGANDYLVKPFSFSELLARV-RA--------QLRQHHALNSTLEISG--LRMDSVSHSV---SRDNISI 146
Cdd:PRK10923  85 SDLDAAVSAYQQGAFDYLPKPFDIDEAVALVeRAishyqeqqQPRNIQVNGPTTDIIGeaPAMQDVFRIIgrlSRSSISV 164

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 90111362  147 TL-----TRKEF--QLLWLLASRAGE--------IIPRTVIASEIWG 178
Cdd:PRK10923 165 LIngesgTGKELvaHALHRHSPRAKApfialnmaAIPKDLIESELFG 211

spore_0_A

TIGR02875

sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...

1-112

1.22e-09

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

Pssm-ID: 131922 [Multi-domain] Cd Length: 262 Bit Score: 56.73 E-value: 1.22e-09

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362     1 MKILLIEDNQR----TQEWVTQglSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR---TAKQTP 73
Cdd:TIGR02875   3 IRIVIADDNKEfcnlLKEYLAA--QPDMEVVGVAHNGVDALELIKEQQPDVVVLDIIMPHLDGIGVLEKLNeieLSARPR 80

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 90111362    74 VICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:TIGR02875  81 VIMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIR 119

REC_Spo0F-like

cd17553

phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...

2-115

2.01e-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: 2.01e-09

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT-PVICLTAR 80
Cdd:cd17553   2 KILIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIDENiRVIIMTAY 81

                        90       100       110
                ....*....|....*....|....*....|....*
gi 90111362  81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQL 115
Cdd:cd17553  82 GELDMIQESKELGALTHFAKPFDIDEIRDAVKKYL 116

PRK10365

sigma-54-dependent response regulator transcription factor ZraR;

1-119

3.00e-09

sigma-54-dependent response regulator transcription factor ZraR;

Pssm-ID: 182412 [Multi-domain] Cd Length: 441 Bit Score: 56.19 E-value: 3.00e-09

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT-PVICLTA 79
Cdd:PRK10365   6 IDILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAiPVLIMTA 85

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 90111362   80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHH 119
Cdd:PRK10365  86 YSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALAHTH 125

PRK11091

aerobic respiration control sensor protein ArcB; Provisional

3-146

8.10e-09

aerobic respiration control sensor protein ArcB; Provisional

Pssm-ID: 236842 [Multi-domain] Cd Length: 779 Bit Score: 54.95 E-value: 8.10e-09

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR----TAKQTPVICLT 78
Cdd:PRK11091 528 ILLVEDIELNVIVARSVLEKLGNSVDVAMTGKEALEMFDPDEYDLVLLDIQLPDMTGLDIARELRerypREDLPPLVALT 607

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   79 ArDSVDDRVRGLDSGANDYLVKPFSFSELLA-------------RVRAQLRQHHALNSTLEISGLR--MDSVSHSVSRDN 143
Cdd:PRK11091 608 A-NVLKDKKEYLDAGMDDVLSKPLSVPALTAmikkfwdtqddeeSTVTTEESSKANEALLDIPMLEqyVELVGPKLITDS 686


                 ...
gi 90111362  144 ISI 146
Cdd:PRK11091 687 LAV 689

REC_WspR-like

cd17575

phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...

3-112

1.08e-08

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

Pssm-ID: 381117 [Multi-domain] Cd Length: 128 Bit Score: 52.02 E-value: 1.08e-08

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGL-SEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRT---AKQTPVICLT 78
Cdd:cd17575   3 VLLVDDQAIIGEAVRRALaDEEDIDFHYCSDPTEAIEVASQIKPTVILQDLVMPGVDGLTLVRFFRAnpaTRDIPIIVLS 82

                        90       100       110
                ....*....|....*....|....*....|....
gi 90111362  79 ARDSVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:cd17575  83 TKEEPEVKSEAFALGANDYLVKLPDKIELVARIR 116

REC_RegA-like

cd17563

phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...

1-109

1.19e-08

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: 51.29 E-value: 1.19e-08

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTA 79
Cdd:cd17563   1 KSLLLVDDDEVFAERLARALERRGFEVETAHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQpDARIVVLTG 80

                        90       100       110
                ....*....|....*....|....*....|
gi 90111362  80 RDSVDDRVRGLDSGANDYLVKPFSFSELLA 109
Cdd:cd17563  81 YASIATAVEAIKLGADDYLAKPADADEILA 110

REC_CpdR_CckA-like

cd18160

phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...

2-102

3.83e-08

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: 49.81 E-value: 3.83e-08

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGL-YLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTAR 80
Cdd:cd18160   1 TILLADDEPSVRKFIVTTLKKAGYAVTEAESGAEALeKLQQGKDIDIVVTDIVMPEMDGIELAREARKIDPDVKILFISG 80

                        90       100
                ....*....|....*....|...
gi 90111362  81 DSVDDRVRGLDS-GANDYLVKPF 102
Cdd:cd18160  81 GAAAAPELLSDAvGDNATLKKPF 103

PRK11107

hybrid sensory histidine kinase BarA; Provisional

27-101

5.82e-08

hybrid sensory histidine kinase BarA; Provisional

Pssm-ID: 236848 [Multi-domain] Cd Length: 919 Bit Score: 52.54 E-value: 5.82e-08

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 90111362   27 IDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA---KQTPVICLTARDSVDDRVRGLDSGANDYLVKP 101
Cdd:PRK11107 694 VVLCDSGHQAVEQAKQRPFDLILMDIQMPGMDGIRACELIRQLphnQNTPIIAVTAHAMAGERERLLSAGMDDYLAKP 771

REC_citrate_TCS

cd19925

phosphoacceptor receiver (REC) domain of citrate family two-component system response ...

2-110

6.60e-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: 49.55 E-value: 6.60e-08

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGY--VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQ-TPVICLT 78
Cdd:cd19925   2 NVLIVEDDPMVAEIHRAYVEQVPGftVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHdVDVIVVT 81

                        90       100       110
                ....*....|....*....|....*....|..
gi 90111362  79 ARDSVDDRVRGLDSGANDYLVKPFSFSELLAR 110
Cdd:cd19925  82 AANDVETVREALRLGVVDYLIKPFTFERLRQR 113

PRK10841

two-component system sensor histidine kinase RcsC;

1-107

1.96e-07

two-component system sensor histidine kinase RcsC;

Pssm-ID: 182772 [Multi-domain] Cd Length: 924 Bit Score: 51.13 E-value: 1.96e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYlALKDDYALIIL-DIMLPGMDGWQILQTLRTAKQT-PVICLT 78
Cdd:PRK10841 802 MMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALN-VLSKNHIDIVLtDVNMPNMDGYRLTQRLRQLGLTlPVIGVT 880

                         90       100
                 ....*....|....*....|....*....
gi 90111362   79 ARDSVDDRVRGLDSGANDYLVKPFSFSEL 107
Cdd:PRK10841 881 ANALAEEKQRCLEAGMDSCLSKPVTLDVL 909

REC_ETR-like

cd19933

phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and ...

1-115

2.39e-07

phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and similar proteins; Plant ethylene receptors contain N-terminal transmembrane domains that contain an ethylene binding site and also serve in localization of the receptor to the endoplasmic reticulum or the Golgi apparatus and a C-terminal histidine kinase (HK)-like domain. There are five ethylene receptors (ETR1, ERS1, ETR2, ERS2, and EIN4) in Arabidopsis thaliana. ETR1, ETR2, and EIN4 also contain REC domains C-terminal to the HK domain. ETR1 and ERS1 belong to subfamily 1, and have functional HK domains while ETR2, ERS2, and EIN4 belong to subfamily 2, and lack the necessary residues for HK activity and may function as serine/threonine kinases. The plant hormone ethylene plays an important role in plant growth and development. It regulates seed germination, seedling growth, leaf and petal abscission, fruit ripening, organ senescence, and pathogen responses. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381160 [Multi-domain] Cd Length: 117 Bit Score: 47.78 E-value: 2.39e-07

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQrTQEWVTQGLSEA-GYVIDAVSDGRDGLYL--ALKDDYALIILDIMLPGMDGWQI---LQTLRTAKQTPV 74
Cdd:cd19933   1 LKVLLVDDNA-VNRMVTKGLLEKlGCEVTTVSSGEECLNLlaSAEHSFQLVLLDLCMPEMDGFEValrIRKLFGRRERPL 79

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
gi 90111362  75 I-CLTARDSVDDRVRGLDSGANDYLVKPFSfselLARVRAQL 115
Cdd:cd19933  80 IvALTANTDDSTREKCLSLGMNGVITKPVS----LHALGDEL 117

PRK15115

response regulator GlrR; Provisional

3-117

2.45e-07

response regulator GlrR; Provisional

Pssm-ID: 185070 [Multi-domain] Cd Length: 444 Bit Score: 50.61 E-value: 2.45e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTL-RTAKQTPVICLTARD 81
Cdd:PRK15115   8 LLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLNREKVDLVISDLRMDEMDGMQLFAEIqKVQPGMPVIILTAHG 87

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 90111362   82 SVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ 117
Cdd:PRK15115  88 SIPDAVAATQQGVFSFLTKPVDRDALYKAIDDALEQ 123

REC_Spo0A

cd17561

phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...

2-102

6.27e-07

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

Pssm-ID: 381109 [Multi-domain] Cd Length: 108 Bit Score: 46.45 E-value: 6.27e-07

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSE-AGYVIDAVS-DGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTP---VIC 76
Cdd:cd17561   3 KVLIADDNREFVQLLEEYLNSqPDMEVVGVAhNGQEALELIEEKEPDVLLLDIIMPHLDGIGVLEKLRRMRLEKrpkIIM 82

                        90       100
                ....*....|....*....|....*...
gi 90111362  77 LTA--RDSVDDRVrgLDSGANDYLVKPF 102
Cdd:cd17561  83 LTAfgQEDITQRA--VELGASYYILKPF 108

PRK00742

chemotaxis-specific protein-glutamate methyltransferase CheB;

1-113

6.93e-07

chemotaxis-specific protein-glutamate methyltransferase CheB;

Pssm-ID: 234828 [Multi-domain] Cd Length: 354 Bit Score: 48.99 E-value: 6.93e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDN----QRTQEWVTqglSEAGY-VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVI 75
Cdd:PRK00742   4 IRVLVVDDSafmrRLISEILN---SDPDIeVVGTAPDGLEAREKIKKLNPDVITLDVEMPVMDGLDALEKIMRLRPTPVV 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 90111362   76 ---CLTARDSvDDRVRGLDSGANDYLVKPFS---------FSELLARVRA 113
Cdd:PRK00742  81 mvsSLTERGA-EITLRALELGAVDFVTKPFLgislgmdeyKEELAEKVRA 129

CitB

COG2197

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...

1-80

1.17e-06

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: 46.42 E-value: 1.17e-06

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   1 MKILLIEDNQRTQEWVTQGLSEAG--YVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLT 78
Cdd:COG2197   2 IRVLIVDDHPLVREGLRALLEAEPdiEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRLLTPREREVLRLL 81


                ..
gi 90111362  79 AR 80
Cdd:COG2197  82 AE 83

PRK10693

two-component system response regulator RssB;

31-112

1.42e-06

two-component system response regulator RssB;

Pssm-ID: 182652 [Multi-domain] Cd Length: 303 Bit Score: 47.68 E-value: 1.42e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   31 SDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLR-TAKQTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFselLA 109
Cdd:PRK10693   4 ANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRnRGDQTPVLVISATENMADIAKALRLGVQDVLLKPVKD---LN 80


                 ...
gi 90111362  110 RVR 112
Cdd:PRK10693  81 RLR 83

fixJ

PRK09390

response regulator FixJ; Provisional

48-171

1.49e-06

response regulator FixJ; Provisional

Pssm-ID: 181815 [Multi-domain] Cd Length: 202 Bit Score: 47.30 E-value: 1.49e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   48 IILDIMLPGMDGWQILQTLRTAKQT-PVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHAlnstle 126
Cdd:PRK09390  51 VVTDVRMPGIDGIELLRRLKARGSPlPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPE------ 124

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 90111362  127 isGLRMDSVSHSVsRDNISiTLTRKEFQLL-WLLASRAGEII-------PRTV 171
Cdd:PRK09390 125 --AAKSEAVAADI-RARIA-SLSERERQVMdGLVAGLSNKVIardldisPRTV 173

PRK10403

nitrate/nitrite response regulator protein NarP;

2-113

3.08e-06

nitrate/nitrite response regulator protein NarP;

Pssm-ID: 182431 [Multi-domain] Cd Length: 215 Bit Score: 46.38 E-value: 3.08e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    2 KILLIEDNQRTQEWVTQGLS-EAGY-VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTP-VICLT 78
Cdd:PRK10403   8 QVLIVDDHPLMRRGVRQLLElDPGFeVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTAqIIILT 87

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 90111362   79 ARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRA 113
Cdd:PRK10403  88 VSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRA 122

REC_CheC-like

cd17593

phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...

31-118

5.22e-06

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

Pssm-ID: 381124 [Multi-domain] Cd Length: 117 Bit Score: 44.06 E-value: 5.22e-06

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362  31 SDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTA--RDSVDDRVRGLdsGANDYLVKPFSFSEL 107
Cdd:cd17593  32 ENGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVEQlETKVIVVSGdvQPEAKERVLEL--GALAFLKKPFDPEKL 109

                        90
                ....*....|.
gi 90111362 108 larvRAQLRQH 118
Cdd:cd17593 110 ----AQLLEEL 116

REC_HupR

cd17596

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...

3-125

5.35e-06

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

Pssm-ID: 381127 [Multi-domain] Cd Length: 133 Bit Score: 44.28 E-value: 5.35e-06

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAvSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPV-ICLTARD 81
Cdd:cd17596   3 ILVVDDEVRSLEALRRTLEEDFDVLTA-ASAEEALAILEEEWVQVILCDQRMPGTTGVEFLKEVRERWPEVVrIIISGYT 81

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*..
gi 90111362  82 SVDDRVRGL-DSGANDYLVKPFSFSELLARVR--AQLRQHHALNSTL 125
Cdd:cd17596  82 DSEDIIAGInEAGIYQYLTKPWHPDQLLLTVRnaARLFELQRENERL 128

PLN03029

type-a response regulator protein; Provisional

3-107

6.46e-06

type-a response regulator protein; Provisional

Pssm-ID: 215544 [Multi-domain] Cd Length: 222 Bit Score: 45.41 E-value: 6.46e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGL-YLALKDD-------------------YALIILDIMLPGMDGWQI 62
Cdd:PLN03029  11 VLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALkFLGLHEDdrsnpdtpsvspnshqeveVNLIITDYCMPGMTGYDL 90

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 90111362   63 LQTLRTA---KQTPVICLTArDSVDDRV-RGLDSGANDYLVKPFSFSEL 107
Cdd:PLN03029  91 LKKIKESsslRNIPVVIMSS-ENVPSRItRCLEEGAEEFFLKPVQLSDL 138

REC_1_GGDEF

cd19921

first phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...

2-100

2.29e-05

first 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 contains characteristic metal-binding and active site residues. PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes the first REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381148 [Multi-domain] Cd Length: 115 Bit Score: 42.17 E-value: 2.29e-05

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEA-GYVIDAVSDGRDGL-YLALKDDYALIILDIMLP-GMDGWQILQTLrtAKQTPVICLT 78
Cdd:cd19921   1 KVLIVEDSKTFSKVLKHLIAQElGLEVDVAETLAEAKaLLEEGDDYFAALVDLNLPdAPNGEAVDLVL--EKGIPVIVLT 78

                        90       100
                ....*....|....*....|..
gi 90111362  79 ARDSVDDRVRGLDSGANDYLVK 100
Cdd:cd19921  79 GSFDEDKRETLLSKGVVDYVLK 100

REC_RcNtrC-like

cd19928

phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...

3-101

2.59e-05

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

Pssm-ID: 381155 [Multi-domain] Cd Length: 100 Bit Score: 41.72 E-value: 2.59e-05

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTARD 81
Cdd:cd19928   1 ILVADDDRAIRTVLTQALGRAGYEVRTTGNAATLWRWVEEGEGDLVITDVVMPDENGLDLIPRIKKARpDLPIIVMSAQN 80

                        90       100
                ....*....|....*....|
gi 90111362  82 SVDDRVRGLDSGANDYLVKP 101
Cdd:cd19928  81 TLMTAVKAAERGAFEYLPKP 100

REC_typeA_ARR

cd17581

phosphoacceptor receiver (REC) domain of type A Arabidopsis response regulators (ARRs) and ...

3-101

5.74e-05

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

Pssm-ID: 381119 [Multi-domain] Cd Length: 122 Bit Score: 41.20 E-value: 5.74e-05

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGL-YLALKDDYA----------LIILDIMLPGMDGWQILQTLRTA-- 69
Cdd:cd17581   1 VLAVDDSLVDRKVIERLLRISSCRVTAVDSGKRALeFLGLEDEEDssnfnepkvnMIITDYCMPGMTGYDLLKKVKESsa 80

                        90       100       110
                ....*....|....*....|....*....|....
gi 90111362  70 -KQTPVICLTArDSVDDRV-RGLDSGANDYLVKP 101
Cdd:cd17581  81 lKEIPVVIMSS-ENIPTRIsRCLEEGAEDFLLKP 113

dpiA

PRK10046

two-component response regulator DpiA; Provisional

12-141

7.40e-05

two-component response regulator DpiA; Provisional

Pssm-ID: 182208 [Multi-domain] Cd Length: 225 Bit Score: 42.31 E-value: 7.40e-05

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   12 TQEWVTQGLSEAGYVIDAVSDGrdglylalkddyaLIILDIMLPGMDGWQILQTLRTAKQT-PVICLTARDSVDDRVRGL 90
Cdd:PRK10046  31 SQILLAGNLAQARMMIERFKPG-------------LILLDNYLPDGRGINLLHELVQAHYPgDVVFTTAASDMETVSEAV 97

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 90111362   91 DSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISGLRMDSVSHSVSR 141
Cdd:PRK10046  98 RCGVFDYLIKPIAYERLGQTLTRFRQRKHMLESIDSASQKQIDEMFNAYAR 148

REC_hyHK_blue-like

cd18161

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...

3-102

8.40e-05

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

Pssm-ID: 381145 [Multi-domain] Cd Length: 102 Bit Score: 40.41 E-value: 8.40e-05

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGL-YLALKDDYALIILDIMLPG-MDGWQILQTLR-TAKQTPVICLTA 79
Cdd:cd18161   1 VLVVEDDPDVRRLTAEVLEDLGYTVLEAASGDEALdLLESGPDIDLLVTDVIMPGgMNGSQLAEEARrRRPDLKVLLTSG 80

                        90       100
                ....*....|....*....|...
gi 90111362  80 RDSVDDRVRGLDSGAnDYLVKPF 102
Cdd:cd18161  81 YAENAIEGGDLAPGV-DVLSKPF 102

PRK10430

two-component system response regulator DcuR;

47-165

2.44e-04

two-component system response regulator DcuR;

Pssm-ID: 182454 [Multi-domain] Cd Length: 239 Bit Score: 40.86 E-value: 2.44e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   47 LIILDIMLPGMDGWQILQTLRTAKQ-TPVICLTARDSVDDRVRGLDSGANDYLVKPFSFS---ELLA--RVRAQLRQHHA 120
Cdd:PRK10430  52 LILLDIYMQQENGLDLLPVLHEAGCkSDVIVISSAADAATIKDSLHYGVVDYLIKPFQASrfeEALTgwRQKKMALEKHQ 131

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 90111362  121 LNSTLEISGLRMDSVSHSVSRDNISITLTRKEFQLL--WLLASRAGE 165
Cdd:PRK10430 132 YYDQAELDQLIHGSSSNEQDPRRLPKGLTPQTLRTLcqWIDAHQDYE 178

REC_PilR

cd19926

phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...

3-101

2.90e-04

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

Pssm-ID: 381153 [Multi-domain] Cd Length: 100 Bit Score: 39.06 E-value: 2.90e-04

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   3 ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRT-AKQTPVICLTARD 81
Cdd:cd19926   1 VLVVDDEPDIRELLEITLGRMGLDVRSARNVKEARELLASEPYDLCLTDMRLPDGSGLELVQHIQQrLPQTPVAVITAYG 80

                        90       100
                ....*....|....*....|
gi 90111362  82 SVDDRVRGLDSGANDYLVKP 101
Cdd:cd19926  81 SLDTAIEALKAGAFDFLTKP 100

PRK14084

DNA-binding response regulator;

1-102

3.53e-04

DNA-binding response regulator;

Pssm-ID: 184495 [Multi-domain] Cd Length: 246 Bit Score: 40.51 E-value: 3.53e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQGLSEAGY--VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTP-VICL 77
Cdd:PRK14084   1 MKALIVDDEPLARNELTYLLNEIGGfeEINEAENVKETLEALLINQYDIIFLDINLMDESGIELAAKIQKMKEPPaIIFA 80

                         90       100
                 ....*....|....*....|....*
gi 90111362   78 TARDSVddRVRGLDSGANDYLVKPF 102
Cdd:PRK14084  81 TAHDQF--AVKAFELNATDYILKPF 103

REC_DesR-like

cd19930

phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...

26-112

4.41e-04

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: 38.79 E-value: 4.41e-04

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362  26 VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAK-QTPVICLTARDSVDDRVRGLDSGANDYLVKPFSF 104
Cdd:cd19930  26 VVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREELpDTKVLIVTTFGRPGYFRRALAAGVDGYVLKDRPI 105


                ....*...
gi 90111362 105 SELLARVR 112
Cdd:cd19930 106 EELADAIR 113

REC_HupR-like

cd17569

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...

2-116

5.10e-04

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: 38.54 E-value: 5.10e-04

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQtlRTAKQTPVIC---LT 78
Cdd:cd17569   2 TILLVDDEPNILKALKRLLRREGYEVLTATSGEEALEILKQEPVDVVISDQRMPGMDGAELLK--RVRERYPDTVrilLT 79

                        90       100       110
                ....*....|....*....|....*....|....*....
gi 90111362  79 ARDSVDDRVRGLDSGAND-YLVKPFSFSELLARVRAQLR 116
Cdd:cd17569  80 GYADLDAAIEAINEGEIYrFLTKPWDDEELKETIRQALE 118

PRK10360

transcriptional regulator UhpA;

1-112

1.02e-03

transcriptional regulator UhpA;

Pssm-ID: 182408 [Multi-domain] Cd Length: 196 Bit Score: 38.80 E-value: 1.02e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362    1 MKILLIEDNQRTQEWVTQ--GLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLrtAKQTPVICLT 78
Cdd:PRK10360   2 ITVALIDDHLIVRSGFAQllGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQL--PKGMATIMLS 79

                         90       100       110
                 ....*....|....*....|....*....|....
gi 90111362   79 ARDSVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
Cdd:PRK10360  80 VHDSPALVEQALNAGARGFLSKRCSPDELIAAVH 113

PRK09958

acid-sensing system DNA-binding response regulator EvgA;

26-113

2.00e-03

acid-sensing system DNA-binding response regulator EvgA;

Pssm-ID: 182168 [Multi-domain] Cd Length: 204 Bit Score: 37.95 E-value: 2.00e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111362   26 VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPV-ICLTARDSVDDRVRGLDSGANDYLVKPFSF 104
Cdd:PRK09958  27 ILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIiIIVSAKNDHFYGKHCADAGANGFVSKKEGM 106


                 ....*....
gi 90111362  105 SELLARVRA 113
Cdd:PRK09958 107 NNIIAAIEA 115

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