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Conserved domains on  [gi|1402578121|ref|WP_110479273|]
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winged helix-turn-helix domain-containing protein [Avibacterium paragallinarum]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10955 super family cl32617
envelope stress response regulator transcription factor CpxR;
1-227 4.59e-63

envelope stress response regulator transcription factor CpxR;


The actual alignment was detected with superfamily member PRK10955:

Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 196.18  E-value: 4.59e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   1 MTRLLLINAGTSLVYDLIHLLHKNNFEVE-ETNEQDVLNQSEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA- 78
Cdd:PRK10955    1 MNKILLVDDDRELTSLLKELLEMEGFNVIvAHDGEQALDLLDDSIDLLLLDVMMPKKNGIDTLKELRQTHQTPVIMLTAr 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  79 GNAMNRITCLELGADDCLSQPFNERELITRINAILRRINVSPHTLKKSQENYYITYSELVLDIKKQQASHNDQDLGLTST 158
Cdd:PRK10955   81 GSELDRVLGLELGADDYLPKPFNDRELVARIRAILRRSHWSEQQQNNDNGSPTLEVDALSLNPGRQEASFDGQTLELTGT 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1402578121 159 EFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISNLRKKLPRRKDNNLWVKTQRGKGYQLI 227
Cdd:PRK10955  161 EFTLLYLLAQHLGQVVSREHLSQEVLGKRLTPFDRAIDMHISNLRRKLPDRKDGHPWFKTLRGRGYLMV 229
 
Name Accession Description Interval E-value
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
1-227 4.59e-63

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 196.18  E-value: 4.59e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   1 MTRLLLINAGTSLVYDLIHLLHKNNFEVE-ETNEQDVLNQSEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA- 78
Cdd:PRK10955    1 MNKILLVDDDRELTSLLKELLEMEGFNVIvAHDGEQALDLLDDSIDLLLLDVMMPKKNGIDTLKELRQTHQTPVIMLTAr 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  79 GNAMNRITCLELGADDCLSQPFNERELITRINAILRRINVSPHTLKKSQENYYITYSELVLDIKKQQASHNDQDLGLTST 158
Cdd:PRK10955   81 GSELDRVLGLELGADDYLPKPFNDRELVARIRAILRRSHWSEQQQNNDNGSPTLEVDALSLNPGRQEASFDGQTLELTGT 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1402578121 159 EFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISNLRKKLPRRKDNNLWVKTQRGKGYQLI 227
Cdd:PRK10955  161 EFTLLYLLAQHLGQVVSREHLSQEVLGKRLTPFDRAIDMHISNLRRKLPDRKDGHPWFKTLRGRGYLMV 229
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-209 3.22e-42

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: 142.02  E-value: 3.22e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   1 MTRLLLINAGTSLVYDLIHLLHKNNFEVEE-TNEQDVLNQ-SEEHYHLAILDISHTKSDRTVILRQIREH-FTIPIIVIT 77
Cdd:COG0745     1 MPRILVVEDDPDIRELLADALEREGYEVDTaADGEEALELlEEERPDLILLDLMLPGMDGLEVCRRLRARpSDIPIIMLT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  78 A-GNAMNRITCLELGADDCLSQPFNERELITRINAILRRINVSPHTLKKsqenyyityselVLDIKKQQASHNDQDLGLT 156
Cdd:COG0745    81 ArDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRAAEVLRVGD------------LLDLAAREVTRDGEPVELT 148

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1402578121 157 STEFILLQLLITHPGQILSREYLsINALGKHITPFDRSIDMHISNLRKKLPRR 209
Cdd:COG0745   149 PKEFRLLELLMRNPGRVVSREQL-LEEVWGYDYGDDRTVDVHISRLRKKLEDD 200
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 137-226 9.27e-24

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: 90.62  E-value: 9.27e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 137 LVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISNLRKKLPRRKDNNLwV 216
Cdd:cd00383     1 LRLDPARREVTVDGEEVELTPKEFELLELLARNPGRVVSREELLEAVWGYDYEVDDRTVDVHISRLRKKLEDDPEPRL-I 79

                          90
                  ....*....|
gi 1402578121 217 KTQRGKGYQL 226
Cdd:cd00383    80 KTVRGVGYRL 89
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
150-226 2.73e-21

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 83.72  E-value: 2.73e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1402578121 150 DQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISNLRKKLPRRKDNNLWVKTQRGKGYQL 226
Cdd:pfam00486   1 GEEVELTPKEFKLLELLAENPGRVVSREQLLEEVWGEDYDVDDNTVDVHISRLRKKLEDDPRDPRLIKTVRGVGYRL 77
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 150-226 1.27e-19

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: 79.52  E-value: 1.27e-19
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1402578121  150 DQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISNLRKKLpRRKDNNLWVKTQRGKGYQL 226
Cdd:smart00862   1 GEPIKLTPKEFRLLELLLRNPGRVVSREELLEAVWGDDEDVDDNTLDVHISRLRKKL-EDDGDPRLIETVRGVGYRL 76
 
Name Accession Description Interval E-value
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
1-227 4.59e-63

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 196.18  E-value: 4.59e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   1 MTRLLLINAGTSLVYDLIHLLHKNNFEVE-ETNEQDVLNQSEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA- 78
Cdd:PRK10955    1 MNKILLVDDDRELTSLLKELLEMEGFNVIvAHDGEQALDLLDDSIDLLLLDVMMPKKNGIDTLKELRQTHQTPVIMLTAr 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  79 GNAMNRITCLELGADDCLSQPFNERELITRINAILRRINVSPHTLKKSQENYYITYSELVLDIKKQQASHNDQDLGLTST 158
Cdd:PRK10955   81 GSELDRVLGLELGADDYLPKPFNDRELVARIRAILRRSHWSEQQQNNDNGSPTLEVDALSLNPGRQEASFDGQTLELTGT 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1402578121 159 EFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISNLRKKLPRRKDNNLWVKTQRGKGYQLI 227
Cdd:PRK10955  161 EFTLLYLLAQHLGQVVSREHLSQEVLGKRLTPFDRAIDMHISNLRRKLPDRKDGHPWFKTLRGRGYLMV 229
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-209 3.22e-42

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: 142.02  E-value: 3.22e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   1 MTRLLLINAGTSLVYDLIHLLHKNNFEVEE-TNEQDVLNQ-SEEHYHLAILDISHTKSDRTVILRQIREH-FTIPIIVIT 77
Cdd:COG0745     1 MPRILVVEDDPDIRELLADALEREGYEVDTaADGEEALELlEEERPDLILLDLMLPGMDGLEVCRRLRARpSDIPIIMLT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  78 A-GNAMNRITCLELGADDCLSQPFNERELITRINAILRRINVSPHTLKKsqenyyityselVLDIKKQQASHNDQDLGLT 156
Cdd:COG0745    81 ArDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRAAEVLRVGD------------LLDLAAREVTRDGEPVELT 148

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1402578121 157 STEFILLQLLITHPGQILSREYLsINALGKHITPFDRSIDMHISNLRKKLPRR 209
Cdd:COG0745   149 PKEFRLLELLMRNPGRVVSREQL-LEEVWGYDYGDDRTVDVHISRLRKKLEDD 200
ompR PRK09468
osmolarity response regulator; Provisional
 42-224 7.01e-42

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 142.04  E-value: 7.01e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  42 EHYHLAILDISHTKSDRTVILRQIRE-HFTIPIIVITA-GNAMNRITCLELGADDCLSQPFNERELITRINAILRRiNVS 119
Cdd:PRK09468   48 ESFHLMVLDLMLPGEDGLSICRRLRSqNNPTPIIMLTAkGEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLRR-QAP 126

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 120 PHTLKKSQENYYITYSELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHI 199
Cdd:PRK09468  127 ELPGAPSQEEEVIAFGKFKLNLGTRELFRGDEPMPLTTGEFAVLKALVSHPREPLSRDKLMNLARGREYSAMERSIDVQI 206

                         170       180
                  ....*....|....*....|....*
gi 1402578121 200 SNLRKKLPRRKDNNLWVKTQRGKGY 224
Cdd:PRK09468  207 SRLRRLIEEDPAHPRYIQTVWGLGY 231
orf27 CHL00148
Ycf27; Reviewed
 28-224 2.37e-34

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 122.52  E-value: 2.37e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  28 VEETNEQDVLNQ-SEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA-GNAMNRITCLELGADDCLSQPFNEREL 105
Cdd:CHL00148   34 ITASDGEEALKLfRKEQPDLVILDVMMPKLDGYGVCQEIRKESDVPIIMLTAlGDVSDRITGLELGADDYVVKPFSPKEL 113

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 106 ITRINAILRRINvSPHTLKKSQENYYITYSELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALG 185
Cdd:CHL00148  114 EARIRSVLRRTN-KKSFSSKIPNSSIIRIGFLKIDLNKKQVYKNNERIRLTGMEFSLLELLISKSGEIFSRATILKEVWG 192

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1402578121 186 ----KHITpfDRSIDMHISNLRKKLPRRKDNNLWVKTQRGKGY 224
Cdd:CHL00148  193 ytpeRHID--TRVVDVHISRLRAKLEDDPSNPDLILTARGTGY 233
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 31-224 1.99e-30

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 112.47  E-value: 1.99e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  31 TNEQDVLNQSEEH-YHLAILDISHTKSDRTVILRQIREHFTIPIIVITAG-NAMNRITCLELGADDCLSQPFNERELITR 108
Cdd:PRK10710   41 SHGDEVLPYVRQTpPDLILLDLMLPGTDGLTLCREIRRFSDIPIVMVTAKiEEIDRLLGLEIGADDYICKPYSPREVVAR 120

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 109 INAILRRINVSPHTLKKSQEnyyitySELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHI 188
Cdd:PRK10710  121 VKTILRRCKPQRELQQQDAE------SPLIIDESRFQASWRGKMLDLTPAEFRLLKTLSHEPGKVFSREQLLNHLYDDYR 194

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1402578121 189 TPFDRSIDMHISNLRKKLPRRKDNNLWVKTQRGKGY 224
Cdd:PRK10710  195 VVTDRTIDSHIKNLRRKLESLDAEQSFIRAVYGVGY 230
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 63-226 1.26e-28

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 107.36  E-value: 1.26e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  63 RQIRE-HFTIPIIVITAGNA-MNRITCLELGADDCLSQPFNERELITRINAILRRINvsphtlKKSQENYYITYSELVLD 140
Cdd:PRK11083   67 RQLLAfHPALPVIFLTARSDeVDRLVGLEIGADDYVAKPFSPREVAARVRTILRRVK------KFAAPSPVIRIGHFELD 140

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 141 IKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLsINALGkHITP--FDRSIDMHISNLRKKLPRRKDNNLWVKT 218
Cdd:PRK11083  141 EPAARISYFGTPLTLTRYEFLLLKTLLLSPGRVFSRQQL-MDIVW-EDAQdsYDRTVDTHIKTLRAKLRAINPDLSPINT 218


                  ....*...
gi 1402578121 219 QRGKGYQL 226
Cdd:PRK11083  219 HRGMGYSL 226
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
1-226 5.07e-27

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 103.26  E-value: 5.07e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   1 MTRLLLINAGTSLVYDLI-HLLHKNNFEVEETNEQD-VLNQSEEHY-HLAILDISHTKSDRTVILRQI-REHFT--IPII 74
Cdd:PRK10161    1 MARRILVVEDEAPIREMVcFVLEQNGFQPVEAEDYDsAVNQLNEPWpDLILLDWMLPGGSGIQFIKHLkRESMTrdIPVV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  75 VITA-GNAMNRITCLELGADDCLSQPFNERELITRINAILRRInvSPHTLKKsqenyYITYSELVLDIKKQQASHNDQDL 153
Cdd:PRK10161   81 MLTArGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRRI--SPMAVEE-----VIEMQGLSLDPTSHRVMAGEEPL 153

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1402578121 154 GLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISNLRKKLPRRKDNNLwVKTQRGKGYQL 226
Cdd:PRK10161  154 EMGPTEFKLLHFFMTHPERVYSREQLLNHVWGTNVYVEDRTVDVHIRRLRKALEPGGHDRM-VQTVRGTGYRF 225
PRK10643 PRK10643
two-component system response regulator PmrA;
43-226 1.62e-26

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 101.65  E-value: 1.62e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  43 HYHLAILDISHTKSDRTVILRQIR-EHFTIPIIVITAGNAMN-RITCLELGADDCLSQPFNERELITRINAILRRINvsp 120
Cdd:PRK10643   44 HYSLVVLDLGLPDEDGLHLLRRWRqKKYTLPVLILTARDTLEdRVAGLDVGADDYLVKPFALEELHARIRALIRRHQ--- 120

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 121 htlkkSQENYYITYSELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHIS 200
Cdd:PRK10643  121 -----GQGENELQVGNLTLNLGRQQVWLDGQELILTPKEFALLSRLMLKAGSPVHREILYQDIYNWDDEPSSNTLEVHIH 195

                         170       180
                  ....*....|....*....|....*.
gi 1402578121 201 NLRKKLPRRKdnnlwVKTQRGKGYQL 226
Cdd:PRK10643  196 NLRDKVGKDR-----IRTVRGFGYML 216
PRK10766 PRK10766
two-component system response regulator TorR;
41-206 2.80e-26

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 101.27  E-value: 2.80e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  41 EEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA-GNAMNRITCLELGADDCLSQPFNERELITRINAILRRINVS 119
Cdd:PRK10766   44 NQHVDLILLDINLPGEDGLMLTRELRSRSTVGIILVTGrTDSIDRIVGLEMGADDYVTKPLELRELLVRVKNLLWRISLA 123

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 120 PHTLKKSQE-NYYITYSELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLsINALGKHI-TPFDRSIDM 197
Cdd:PRK10766  124 RQAQPHAQEeDNCYRFAGYCLNVSRRTLERNGEPIKLTKAEYELLVAFVTNPGQVLSRERL-LRMLSHRVeNPNDRTIDV 202


                  ....*....
gi 1402578121 198 HISNLRKKL 206
Cdd:PRK10766  203 LIRRLRHKL 211
PRK13856 PRK13856
two-component response regulator VirG; Provisional
 1-224 2.47e-24

two-component response regulator VirG; Provisional


Pssm-ID: 172377 [Multi-domain]  Cd Length: 241  Bit Score: 96.42  E-value: 2.47e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   1 MTRLLLINAGTSLVYDLIHLLHKNNFEVEETNEQDVLNQ--SEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA 78
Cdd:PRK13856    1 MKHVLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRvlASETVDVVVVDLNLGREDGLEIVRSLATKSDVPIIIISG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  79 G--NAMNRITCLELGADDCLSQPFNERELITRINAILRRINVSPHTlkKSQENYYitYSELVLDIKKQQ-ASHNDQDLGL 155
Cdd:PRK13856   81 DrlEEADKVVALELGATDFIAKPFGTREFLARIRVALRVRPNVVRT--KDRRSFC--FADWTLNLRQRRlISEAGGEVKL 156

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1402578121 156 TSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISNLRKKLPRRKDNNLWVKTQRGKGY 224
Cdd:PRK13856  157 TAGEFNLLVAFLEKPRDVLSREQLLIASRVREEEVYDRSIDVLILRLRRKLEQDPANPQLIKTARGAGY 225
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 137-226 9.27e-24

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: 90.62  E-value: 9.27e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 137 LVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISNLRKKLPRRKDNNLwV 216
Cdd:cd00383     1 LRLDPARREVTVDGEEVELTPKEFELLELLARNPGRVVSREELLEAVWGYDYEVDDRTVDVHISRLRKKLEDDPEPRL-I 79

                          90
                  ....*....|
gi 1402578121 217 KTQRGKGYQL 226
Cdd:cd00383    80 KTVRGVGYRL 89
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 4-115 1.16e-23

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: 91.21  E-value: 1.16e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   4 LLLINAGTSLVYDLIHLLHKNNFEVE--ETNEQDVLNQSEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA-GN 80
Cdd:cd17623     1 ILLIDDDRELTELLTEYLEMEGFNVRaaHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELRKTSQVPVLMLTArGD 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1402578121  81 AMNRITCLELGADDCLSQPFNERELITRINAILRR 115
Cdd:cd17623    81 DIDRILGLELGADDYLPKPFNPRELVARIRAILRR 115
PRK11517 PRK11517
DNA-binding response regulator HprR;
41-226 1.81e-23

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 93.81  E-value: 1.81e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  41 EEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITAGNAM-NRITCLELGADDCLSQPFNERELITRINAILRRinVS 119
Cdd:PRK11517   42 KDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTARDSVdDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ--HH 119

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 120 PHtlkksqeNYYITYSELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHI 199
Cdd:PRK11517  120 AL-------NSTLEISGLRMDSVSQSVSRDNISITLTRKEFQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAI 192

                         170       180
                  ....*....|....*....|....*..
gi 1402578121 200 SNLRKKLPRRKDNNLwVKTQRGKGYQL 226
Cdd:PRK11517  193 RRLRAKVDDPFPEKL-IATIRGMGYSF 218
PRK10701 PRK10701
DNA-binding transcriptional regulator RstA; Provisional
 41-224 2.31e-21

DNA-binding transcriptional regulator RstA; Provisional


Pssm-ID: 236738 [Multi-domain]  Cd Length: 240  Bit Score: 88.54  E-value: 2.31e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  41 EEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITAGNA-MNRITCLELGADDCLSQPFNERELITRINAILRRINVS 119
Cdd:PRK10701   43 REQPDLVLLDIMLPGKDGMTICRDLRPKWQGPIVLLTSLDSdMNHILALEMGACDYILKTTPPAVLLARLRLHLRQNEQA 122

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 120 PHTLKKS----QENYYITYSELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSI 195
Cdd:PRK10701  123 TQTKGLQetslTPYKALHFGTLTIDPVNRQVTLAGEEISLSTADFDLLWELATHAGQIMDRDALLKNLRGVSYDGLDRSV 202

                         170       180
                  ....*....|....*....|....*....
gi 1402578121 196 DMHISNLRKKLPRRKDNNLWVKTQRGKGY 224
Cdd:PRK10701  203 DVAISRLRKKLLDNAAEPYRIKTVRNKGY 231
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
150-226 2.73e-21

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 83.72  E-value: 2.73e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1402578121 150 DQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISNLRKKLPRRKDNNLWVKTQRGKGYQL 226
Cdd:pfam00486   1 GEEVELTPKEFKLLELLAENPGRVVSREQLLEEVWGEDYDVDDNTVDVHISRLRKKLEDDPRDPRLIKTVRGVGYRL 77
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 30-227 8.17e-21

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 86.78  E-value: 8.17e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  30 ETNEQDVLNQSEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITAGNA-MNRITCLELGADDCLSQPFNERELITR 108
Cdd:PRK10529   32 ETLQRGLLEAATRKPDLIILDLGLPDGDGIEFIRDLRQWSAIPVIVLSARSEeSDKIAALDAGADDYLSKPFGIGELQAR 111

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 109 INAILRRINVSPhtlkksQENYYITYSELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHI 188
Cdd:PRK10529  112 LRVALRRHSATP------APDPLVKFSDVTVDLAARVIHRGEEEVHLTPIEFRLLAVLLNNAGKVLTQRQLLNQVWGPNA 185

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 1402578121 189 TPFDRSIDMHISNLRKKL---PRRKDNNLwvkTQRGKGYQLI 227
Cdd:PRK10529  186 VEHSHYLRIYMGHLRQKLeqdPARPRHFI---TETGIGYRFM 224
PRK11173 PRK11173
two-component response regulator; Provisional
 23-224 4.75e-20

two-component response regulator; Provisional


Pssm-ID: 183013 [Multi-domain]  Cd Length: 237  Bit Score: 85.07  E-value: 4.75e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  23 KNNFEVE-----ETNEQDVLNQ--SEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA-GNAMNRITCLELGADD 94
Cdd:PRK11173   20 KSIFEAEgydvfEATDGAEMHQilSENDINLVIMDINLPGKNGLLLARELREQANVALMFLTGrDNEVDKILGLEIGADD 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  95 CLSQPFNERELITRINAILRRINVSPHTLKKSQENYYITYSELVLDIKKQQ-ASHNDQDLGLTSTEFILLQLLITHPGQI 173
Cdd:PRK11173  100 YITKPFNPRELTIRARNLLSRTMNLGTVSEERRSVESYKFNGWELDINSRSlISPDGEQYKLPRSEFRAMLHFCENPGKI 179

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1402578121 174 LSREYLSINALGKHITPFDRSIDMHISNLRKKLPRRKDNNLWVKTQRGKGY 224
Cdd:PRK11173  180 QSRAELLKKMTGRELKPHDRTVDVTIRRIRKHFESTPDTPEIIATIHGEGY 230
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 44-226 5.63e-20

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 84.59  E-value: 5.63e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  44 YHLAILDISHTKSDRTVILRQIRE-HFTIPIIVITA-GNAMNRITCLELGADDCLSQPFNERELITRINAILRRINVsph 121
Cdd:PRK09836   45 YDLIILDIMLPDVNGWDIVRMLRSaNKGMPILLLTAlGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRRGAA--- 121

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 122 TLKKSQenyyITYSELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISN 201
Cdd:PRK09836  122 VIIESQ----FQVADLMVDLVSRKVTRSGTRITLTSKEFTLLEFFLRHQGEVLPRSLIASQVWDMNFDSDTNAIDVAVKR 197

                         170       180
                  ....*....|....*....|....*
gi 1402578121 202 LRKKLPRRKDNNLwVKTQRGKGYQL 226
Cdd:PRK09836  198 LRGKIDNDFEPKL-IQTVRGVGYML 221
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 150-226 1.27e-19

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: 79.52  E-value: 1.27e-19
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1402578121  150 DQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISNLRKKLpRRKDNNLWVKTQRGKGYQL 226
Cdd:smart00862   1 GEPIKLTPKEFRLLELLLRNPGRVVSREELLEAVWGDDEDVDDNTLDVHISRLRKKL-EDDGDPRLIETVRGVGYRL 76
PRK15479 PRK15479
transcriptional regulator TctD;
3-226 6.04e-19

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 81.69  E-value: 6.04e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   3 RLLLINAGTSLVYDLIHLLHKNNFEVEETNE---QDVLNQSEEhYHLAILDISHTKSDRTVILRQIREHF-TIPIIVITA 78
Cdd:PRK15479    2 RLLLAEDNRELAHWLEKALVQNGFAVDCVFDglaADHLLQSEM-YALAVLDINMPGMDGLEVLQRLRKRGqTLPVLLLTA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  79 -GNAMNRITCLELGADDCLSQPFNERELITRINAILRRinvsphTLKKSQENyyITYSELVLDiKKQQASHNDQDLGLTS 157
Cdd:PRK15479   81 rSAVADRVKGLNVGADDYLPKPFELEELDARLRALLRR------SAGQVQEV--QQLGELIFH-DEGYFLLQGQPLALTP 151

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1402578121 158 TEFILLQLLITHPGQILSREYL--SINALGKHITPfdRSIDMHISNLRKKLprrKDNNLWVKTQRGKGYQL 226
Cdd:PRK15479  152 REQALLTVLMYRRTRPVSRQQLfeQVFSLNDEVSP--ESIELYIHRLRKKL---QGSDVRITTLRGLGYVL 217
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 21-115 1.20e-17

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: 75.49  E-value: 1.20e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  21 LHKNNFEVE-ETNEQD-VLNQSEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA-GNAMNRITCLELGADDCLS 97
Cdd:cd19939    19 LIKAGLEVSvFTDGQRaVRRIIDEQPSLVVLDIMLPGMDGLTVCREVREHSHVPILMLTArTEEMDRVLGLEMGADDYLC 98

                          90
                  ....*....|....*...
gi 1402578121  98 QPFNERELITRINAILRR 115
Cdd:cd19939    99 KPFSPRELLARVRALLRR 116
PRK10336 PRK10336
two-component system response regulator QseB;
44-226 7.31e-17

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 76.09  E-value: 7.31e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  44 YHLAILDISHTKSDRTVILRQIREH-FTIPIIVITAGNAMN-RITCLELGADDCLSQPFNERELITRINAILRRINvsph 121
Cdd:PRK10336   45 YDAVILDLTLPGMDGRDILREWREKgQREPVLILTARDALAeRVEGLRLGADDYLCKPFALIEVAARLEALMRRTN---- 120

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 122 tlkkSQENYYITYSELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALGKHITPFDRSIDMHISN 201
Cdd:PRK10336  121 ----GQASNELRHGNVMLDPGKRIATLAGEPLTLKPKEFALLELLMRNAGRVLPRKLIEEKLYTWDEEVTSNAVEVHVHH 196

                         170       180
                  ....*....|....*....|....*
gi 1402578121 202 LRKKLprrkdNNLWVKTQRGKGYQL 226
Cdd:PRK10336  197 LRRKL-----GSDFIRTVHGIGYTL 216
PRK10816 PRK10816
two-component system response regulator PhoP;
29-225 1.41e-15

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 72.85  E-value: 1.41e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  29 EETNEQDVLNQsEEHYHLAILDISHTKSDRTVILRQIREH-FTIPIIVITAGNA-MNRITCLELGADDCLSQPFNERELI 106
Cdd:PRK10816   31 EDAKEADYYLN-EHLPDIAIVDLGLPDEDGLSLIRRWRSNdVSLPILVLTARESwQDKVEVLSAGADDYVTKPFHIEEVM 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 107 TRINAILRRinvspHTLKKSQenyYITYSELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLSINALGK 186
Cdd:PRK10816  110 ARMQALMRR-----NSGLASQ---VISLPPFQVDLSRRELSINDEVIKLTAFEYTIMETLIRNNGKVVSKDSLMLQLYPD 181

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1402578121 187 HITPFDRSIDMHISNLRKKLPRRKDNNLwVKTQRGKGYQ 225
Cdd:PRK10816  182 AELRESHTIDVLMGRLRKKIQAQYPQEV-ITTVRGQGYR 219
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 17-114 1.18e-14

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: 69.17  E-value: 1.18e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  17 LIHLLHKNNFEVEE-TNEQDVLNQSEEH-YHLAILDISHTKSDRTVILRQIREHF---TIPIIVITA-GNAMNRITCLEL 90
Cdd:COG3706    17 LRRLLEAAGYEVVEaADGEEALELLQEHrPDLILLDLEMPDMDGLELCRRLRADPrtaDIPIIFLTAlDDEEDRARALEA 96

                          90       100
                  ....*....|....*....|....
gi 1402578121  91 GADDCLSQPFNERELITRINAILR 114
Cdd:COG3706    97 GADDYLTKPFDPEELLARVDLVAR 120
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 21-114 1.49e-14

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: 67.30  E-value: 1.49e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  21 LHKNNFEVEE-TNEQDVLNQSE-EHYHLAILDISHTKSDRTVILRQIR---EHFTIPIIVITA-GNAMNRITCLELGADD 94
Cdd:cd19937    17 LEKEGYEVVTaYDGEEALKRAKdEKPDLIILDLMLPGIDGLEVCRILRsdpKTSSIPIIMLTAkGEEFDKVLGLELGADD 96

                          90       100
                  ....*....|....*....|
gi 1402578121  95 CLSQPFNERELITRINAILR 114
Cdd:cd19937    97 YITKPFSPRELLARVKAVLR 116
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
136-227 5.41e-14

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


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 65.70  E-value: 5.41e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121 136 ELVLDIKKQQASHNDQDLGLTSTEFILLQLLITHPGQILSREYLsINAL--GKHITpfDRSIDMHISNLRKKLPRRKDNN 213
Cdd:COG3710     7 DFRLDPARRELLRDGEPVRLSPRAFDLLLLLLEHPGRVVSRDEL-LAAVwpGRVVS--DNSLTQAISRLRKALGDDGLEP 83

                          90
                  ....*....|....
gi 1402578121 214 LWVKTQRGKGYQLI 227
Cdd:COG3710    84 RLIRTVPRRGYRLV 97
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 40-114 8.51e-14

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: 65.20  E-value: 8.51e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1402578121  40 SEEHYHLAILDISHTKSDRTVILRQIR-EHFTIPIIVITAGNAMN-RITCLELGADDCLSQPFNERELITRINAILR 114
Cdd:cd17624    39 ASGPYDLVILDLGLPDGDGLDLLRRWRrQGQSLPVLILTARDGVDdRVAGLDAGADDYLVKPFALEELLARLRALLR 115
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 16-115 1.02e-13

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: 65.14  E-value: 1.02e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  16 DLIHL-LHKNNFEVEET-NEQDVLNQ-SEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITAGNA-MNRITCLELG 91
Cdd:cd17614    12 DILKFnLTKEGYEVVTAyDGREALEKvEEEQPDLILLDLMLPEKDGLEVCREVRKTSNVPIIMLTAKDSeVDKVLGLELG 91

                          90       100
                  ....*....|....*....|....
gi 1402578121  92 ADDCLSQPFNERELITRINAILRR 115
Cdd:cd17614    92 ADDYVTKPFSNRELLARVKANLRR 115
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 4-115 1.51e-13

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: 64.61  E-value: 1.51e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   4 LLLINAGTSLVYDLIHLLHKNNFEVE--ETNEQDVLNQSEEHYHLAILDISHTKSDRTVILRQIREH-FTIPIIVITA-G 79
Cdd:cd19934     1 LLLVEDDALLAAQLKEQLSDAGYVVDvaEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEgRATPVLILTArD 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1402578121  80 NAMNRITCLELGADDCLSQPFNERELITRINAILRR 115
Cdd:cd19934    81 SWQDKVEGLDAGADDYLTKPFHIEELLARLRALIRR 116
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 20-115 2.86e-13

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: 63.78  E-value: 2.86e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  20 LLHKNNFEVEE-TNEQDVLNQS-EEHYHLAILDISHTKSDRTVILRQIREH-FTIPIIVITAGNAMN-RITCLELGADDC 95
Cdd:cd17625    16 HLKKEGYTVDVcFDGEEGLEYAlSGIYDLIILDIMLPGMDGLEVLKSLREEgIETPVLLLTALDAVEdRVKGLDLGADDY 95

                          90       100
                  ....*....|....*....|
gi 1402578121  96 LSQPFNERELITRINAILRR 115
Cdd:cd17625    96 LPKPFSLAELLARIRALLRR 115
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 21-108 1.59e-12

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: 62.02  E-value: 1.59e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  21 LHKNNFEVEETNEQDVLNQ--SEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA-GNAMNRITCLELGADDCLS 97
Cdd:cd17619    20 FEQEGYDVSEAGDGEEMRQilARQDIDLVLLDINLPGKDGLSLTRELREQSEVGIILVTGrDDEVDRIVGLEIGADDYVT 99

                          90
                  ....*....|.
gi 1402578121  98 QPFNERELITR 108
Cdd:cd17619   100 KPFNPRELLVR 110
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 20-110 1.25e-11

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: 59.47  E-value: 1.25e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  20 LLHKNNFEVEET-NEQDVLNQ-SEEHYHLAILDISHTKSDRTVILRQIREHF-TIPIIVITA-GNAMNRITCLELGADDC 95
Cdd:pfam00072  17 LLEKEGYVVAEAdDGKEALELlKEERPDLILLDINMPGMDGLELLKRIRRRDpTTPVIILTAhGDEDDAVEALEAGADDF 96

                          90
                  ....*....|....*
gi 1402578121  96 LSQPFNERELITRIN 110
Cdd:pfam00072  97 LSKPFDPDELLAAIR 111
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 16-113 1.48e-11

phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The transcription factor PhoB is a component of the PhoR/PhoB two-component system, a key regulatory protein network that facilitates response to inorganic phosphate (Pi) starvation conditions by turning on the phosphate (pho) regulon whose products are involved in phosphorus uptake and metabolism. PhoB is a member of the OmpR family of DNA-binding response regulators that contains REC and winged helix-turn-helix (wHTH) DNA-binding output effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381133 [Multi-domain]  Cd Length: 118  Bit Score: 59.57  E-value: 1.48e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  16 DLIHL-LHKNNFEV-EETNEQDVLNQSEEHY-HLAILD-----ISHTKSDRTviLRQIREHFTIPIIVITA-GNAMNRIT 86
Cdd:cd17618    14 EMIAFnLERAGFDVvEAEDAESAVNLIVEPRpDLILLDwmlpgGSGIQFIRR--LKRDEMTRDIPIIMLTArGEEEDKVR 91

                          90       100
                  ....*....|....*....|....*..
gi 1402578121  87 CLELGADDCLSQPFNERELITRINAIL 113
Cdd:cd17618    92 GLEAGADDYITKPFSPRELVARIKAVL 118
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 46-115 4.84e-11

phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The Mycobacterium tuberculosis PrrA is part of the PrrA/PrrB two-component system (TCS) that has been implicated in early intracellular multiplication and is essential for viability. Also included in this subfamily is Mycobacterium tuberculosis MprA, part of the MprAB TCS that regulates EspR, a key regulator of the ESX-1 secretion system, and is required for establishment and maintenance of persistent infection in a tissue- and stage-specific fashion. PrrA and MprA belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381142 [Multi-domain]  Cd Length: 116  Bit Score: 58.16  E-value: 4.84e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1402578121  46 LAILDISHTKSDRTVILRQIRE-HFTIPIIVITAGNAM-NRITCLELGADDCLSQPFNERELITRINAILRR 115
Cdd:cd17627    45 AVVLDVMMPRLDGLEVCRRLRAaGNDLPILVLTARDSVsDRVAGLDAGADDYLVKPFALEELLARVRALLRR 116
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 3-115 5.67e-11

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


Pssm-ID: 381131 [Multi-domain]  Cd Length: 118  Bit Score: 57.75  E-value: 5.67e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   3 RLLLINAGTSLVYDLIHLLHKNNFEVE-ETNEQDVLNQSEEHY-HLAILDISHTKSDRTVILRQIREH-FTIPIIVITAG 79
Cdd:cd17615     1 RVLVVDDEPNITELLSMALRYEGWDVEtAADGAEALAAAREFRpDAVVLDIMLPDMDGLEVLRRLRADgPDVPVLFLTAK 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1402578121  80 NA-MNRITCLELGADDCLSQPFNERELITRINAILRR 115
Cdd:cd17615    81 DSvEDRIAGLTAGGDDYVTKPFSLEEVVARLRALLRR 117
REC_OmpR_NsrR-like cd18159
phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...
 4-113 1.34e-10

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


Pssm-ID: 381143 [Multi-domain]  Cd Length: 113  Bit Score: 56.91  E-value: 1.34e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   4 LLLINAGTSLVYDLIHLLHKNNFEVE-ETNEQDVLNQSEEHY-HLAILDISHTKSDRTVILRQIREHFTIPIIVITAGN- 80
Cdd:cd18159     1 ILIVEDDETIASLLKKHLEKWGYEVVlIEDFEDVLEEFLQFKpDLVLLDINLPYFDGFYWCREIRQISNVPIIFISSRDd 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1402578121  81 AMNRITCLELGADDCLSQPFNERELITRINAIL 113
Cdd:cd18159    81 NMDQVMAINMGGDDYITKPFDLDVLLAKIKAIL 113
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 46-113 1.45e-10

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: 56.62  E-value: 1.45e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1402578121  46 LAILDISHTKSDRTVILRQIREHFTIPIIVITAG-NAMNRITCLELGADDCLSQPFNERELITRINAIL 113
Cdd:cd19938    46 LILLDLMLPGTDGLTLCREIRRFSDVPIIMVTARvEEIDRLLGLELGADDYICKPYSPREVVARVKAIL 114
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 17-115 3.16e-10

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: 56.01  E-value: 3.16e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  17 LIHLLHKNNFEVEE-TNEQDVLNQ-SEEHYHLAILDISHTKSD-RTVI--LRQIREHFTIPIIVITA-GNAMNRITCLEL 90
Cdd:COG0784    21 LRRLLERLGYEVTTaEDGAEALELlRAGPPDLILLDINMPGMDgLELLrrIRALPRLPDIPIIALTAyADEEDRERALEA 100

                          90       100
                  ....*....|....*....|....*
gi 1402578121  91 GADDCLSQPFNERELITRINAILRR 115
Cdd:COG0784   101 GADDYLTKPVDPEELLEALRRLLAR 125
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 3-115 3.34e-10

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: 57.87  E-value: 3.34e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   3 RLLLINAGTSLVYDLIHLLHKNNFEVEE-TNEQDVLNQ-SEEHYHLAILDISHTKSDRTVILRQIREH---FTIPIIVIT 77
Cdd:COG3437     8 TVLIVDDDPENLELLRQLLRTLGYDVVTaESGEEALELlLEAPPDLILLDVRMPGMDGFELLRLLRADpstRDIPVIFLT 87

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1402578121  78 A-GNAMNRITCLELGADDCLSQPFNERELITRINAILRR 115
Cdd:COG3437    88 AlADPEDRERALEAGADDYLTKPFDPEELLARVRNALEL 126
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-115 3.45e-10

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: 58.82  E-value: 3.45e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   1 MTRLLLINAGTSLVYDLIHLLHKNNFEVEE-TNEQDVLNQ-SEEHYHLAILDISHTKSDRTVILRQIREHF-TIPIIVIT 77
Cdd:COG2204     2 MARILVVDDDPDIRRLLKELLERAGYEVETaASGEEALALlREEPPDLVLLDLRMPGMDGLELLRELRALDpDLPVILLT 81

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1402578121  78 A-GNAMNRITCLELGADDCLSQPFNERELITRINAILRR 115
Cdd:COG2204    82 GyGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALER 120
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 17-99 5.78e-10

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: 54.72  E-value: 5.78e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  17 LIHLLHKNNFEVEE-TNEQDVLNQ-SEEHYHLAILDISHTKSDRTVILRQIREHF-TIPIIVITA-GNAMNRITCLELGA 92
Cdd:cd17574    13 LSDYLEKEGYEVDTaADGEEALELaREEQPDLIILDVMLPGMDGFEVCRRLREKGsDIPIIMLTAkDEEEDKVLGLELGA 92


                  ....*..
gi 1402578121  93 DDCLSQP 99
Cdd:cd17574    93 DDYITKP 99
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 2-114 8.38e-10

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: 54.69  E-value: 8.38e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   2 TRLLLINAGTSLVYDLIHLLHKNNFEVEETNEQDVLNQSEEHYH--LAILDISHTKSDRTVILRQIREHFTIPIIVITA- 78
Cdd:cd17622     1 TRILLVEDDPKLARLIADFLESHGFNVVVEHRGDRALEVIAREKpdAVLLDIMLPGIDGLTLCRDLRPKYQGPILLLTAl 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1402578121  79 GNAMNRITCLELGADDCLSQPFNERELITRINAILR 114
Cdd:cd17622    81 DSDIDHILGLELGADDYVVKPVEPAVLLARLRALLR 116
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 34-111 8.46e-10

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: 54.76  E-value: 8.46e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  34 QDVLNQSEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA--GNAMNRITCLELGADDCLSQPFNERELITRINA 111
Cdd:cd17594    34 EEARLMLHRRVDLVLLDLRLGQESGLDLLRTIRARSDVPIIIISGdrRDEIDRVVGLELGADDYLAKPFGLRELLARVRA 113
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 17-99 1.50e-08

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: 50.69  E-value: 1.50e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  17 LIHLLHKNNFEVEE-TNEQDVLNQ-SEEHYHLAILDISHTKSDRTVILRQIREHF-TIPIIVITA-GNAMNRITCLELGA 92
Cdd:cd00156    13 LKSLLEREGYEVDTaADGEEALELlREERPDLVLLDLMMPGMDGLELLRKLRELPpDIPVIVLTAkADEEDAVRALELGA 92


                  ....*..
gi 1402578121  93 DDCLSQP 99
Cdd:cd00156    93 DDYLVKP 99
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 3-113 2.22e-08

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: 50.93  E-value: 2.22e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   3 RLLLINAGTSLVYDLIHLLHKNNFE--VEETNEQDVLNQSEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA-G 79
Cdd:cd17626     2 RILVVDDDAALAEMIGIVLRGEGFDpaFCGDGTQALAAFREVRPDLVLLDLMLPGIDGIEVCRQIRAESGVPIVMLTAkS 81

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1402578121  80 NAMNRITCLELGADDCLSQPFNERELITRINAIL 113
Cdd:cd17626    82 DTVDVVLGLESGADDYVAKPFKPKELVARIRARL 115
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 20-109 3.05e-08

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: 50.16  E-value: 3.05e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  20 LLHKNNFEVEE-TNEQDVLNQ-SEEHYHLAILDISHTKSDRTVILRQIREHF----TIPIIVITAgNAMN--RITCLELG 91
Cdd:cd17546    17 LLEKLGYEVDVaENGQEALELlKEEPFDLVLMDLQMPVMDGLEATRRIRELEgggrRTPIIALTA-NALEedREKCLEAG 95

                          90
                  ....*....|....*...
gi 1402578121  92 ADDCLSQPFNERELITRI 109
Cdd:cd17546    96 MDDYLSKPVKLDQLKEVL 113
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 31-109 6.83e-08

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: 49.36  E-value: 6.83e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  31 TNEQDVLNQSEEH-YHLAILDISHTKSDRTVILRQIREHF---TIPIIVITAGNAMN-RITCLELGADDCLSQPFNEREL 105
Cdd:cd17551    32 TDPREALAWCRENpPDLILLDYMMPGMDGLEFIRRLRALPgleDVPIVMITADTDREvRLRALEAGATDFLTKPFDPVEL 111


                  ....
gi 1402578121 106 ITRI 109
Cdd:cd17551   112 LARV 115
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 40-128 1.81e-07

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 48.81  E-value: 1.81e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  40 SEEHYHLAILDISHTKSDRTVILRQIREHF-TIPIIVITAGNAMNRI-TCLELGADDCLSQPFNERELITRINAILRRIn 117
Cdd:COG4565    46 AEHRPDLILLDIYLPDGDGLELLRELRARGpDVDVIVITAARDPETVrEALRAGVVDYLIKPFTFERLREALERYLEYR- 124

                          90
                  ....*....|.
gi 1402578121 118 vspHTLKKSQE 128
Cdd:COG4565   125 ---RLLREDQE 132
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 17-113 3.14e-07

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: 47.71  E-value: 3.14e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  17 LIHLLHKNNFEVEET-NEQDVLNQSEEHY-HLAILDISHTKSDRTVILRQIREH---FTIPIIVITA-GNAMNRITCLEL 90
Cdd:cd17598    14 LKHILEEQGYKVQVArNGREALAMLAEHRpTLVISDIVMPEMDGYELCRKIKSDpdlKDIPVILLTTlSDPRDVIRGLEC 93

                          90       100
                  ....*....|....*....|...
gi 1402578121  91 GADDCLSQPFNERELITRINAIL 113
Cdd:cd17598    94 GADNFITKPYDEKYLLSRIKYIL 116
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 44-113 7.97e-07

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


Pssm-ID: 381132 [Multi-domain]  Cd Length: 114  Bit Score: 46.25  E-value: 7.97e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1402578121  44 YHLAILDISHTKSDRTVILRQIR-EHFTIPIIVITAGNAM-NRITCLELGADDCLSQPFNERELITRINAIL 113
Cdd:cd17616    43 YDIILLDLNLPDMSGYEVLRTLRlAKVKTPILILSGLADIeDKVKGLGFGADDYMTKPFHKDELVARIHAIV 114
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 37-105 8.76e-07

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: 46.47  E-value: 8.76e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  37 LNQSEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITAGNAMNRI-TCLELGADDCLSQPFNEREL 105
Cdd:cd17584    38 LRENKDEFDLVITDVHMPDMDGFEFLELIRLEMDLPVIMMSADGSTSTVmKGLAHGACDYLLKPVSIEDL 107
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 30-99 1.54e-06

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: 45.23  E-value: 1.54e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1402578121  30 ETNEQDVLNQSEEHYHLAILDISHTKSDRTVILRQIREHFTIPIIVITA-GNAMNRITCLELGADDCLSQP 99
Cdd:cd17620    29 ETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRLREWSAVPVIVLSArDEESDKIAALDAGADDYLTKP 99
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 4-99 1.78e-06

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


Pssm-ID: 381136 [Multi-domain]  Cd Length: 99  Bit Score: 45.27  E-value: 1.78e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   4 LLLINAGTSLVYDLIHLLHKNNFEVE-ETNEQDVLNQSEEH-YHLAILDISHTKSDRTVILRQIREHFTIPIIVITAGNA 81
Cdd:cd17621     1 VLVVEDEESFSDPLAYLLRKEGFEVTvATDGPAALAEFDRAgADIVLLDLMLPGLSGTEVCRQLRARSNVPVIMVTAKDS 80

                          90
                  ....*....|....*....
gi 1402578121  82 -MNRITCLELGADDCLSQP 99
Cdd:cd17621    81 eIDKVVGLELGADDYVTKP 99
pleD PRK09581
response regulator PleD; Reviewed
 3-115 1.82e-06

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 47.97  E-value: 1.82e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   3 RLLLINAGTSLVYDLIHLLHKNNFEVEETNEQD-VLNQSEEHYHLAILDISHTKSD--R-TVILRQIREHFTIPIIVITA 78
Cdd:PRK09581  157 RILLVDDDVSQAERIANILKEEFRVVVVSDPSEaLFNAAETNYDLVIVSANFENYDplRlCSQLRSKERTRYVPILLLVD 236

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1402578121  79 GNAMNRIT-CLELGADDCLSQPFNERELITRINAILRR 115
Cdd:PRK09581  237 EDDDPRLVkALELGVNDYLMRPIDKNELLARVRTQIRR 274
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 40-99 4.18e-06

phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; Escherichia coli CusR is part of the CusS/CusR two-component system (TCS) that is involved in response to copper and silver. Other members of this subfamily include Escherichia coli PcoR, Pseudomonas syringae CopR, and Streptomyces coelicolor CutR, which are all transcriptional regulatory proteins and components of TCSs that regulate genes involved in copper resistance and/or metabolism. member of the subfamily is Escherichia coli HprR (hydrogen peroxide response regulator), previously called YdeW, which is part of the HprSR (or YedVW) TCS involved in stress response to hydrogen peroxide, as well as Cupriavidus metallidurans CzcR, which is part of the CzcS/CzcR TCS involved in the control of cobalt, zinc, and cadmium homeostasis. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381162 [Multi-domain]  Cd Length: 100  Bit Score: 43.97  E-value: 4.18e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1402578121  40 SEEHYHLAILDISHTKSDRTVILRQIREH-FTIPIIVITAGNAMN-RITCLELGADDCLSQP 99
Cdd:cd19935    39 LTNEYDLIILDVMLPGLDGLEVLRRLRAAgKQTPVLMLTARDSVEdRVKGLDLGADDYLVKP 100
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 46-99 2.70e-05

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: 41.66  E-value: 2.70e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1402578121  46 LAILDISHTKSDRTVILRQIREHFTIPIIVITAGNA-MNRITCLELGADDCLSQP 99
Cdd:cd19936    45 LAILDIKMPRMDGMELLQRLRQKSTLPVIFLTSKDDeIDEVFGLRMGADDYITKP 99
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 21-113 7.31e-05

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: 41.11  E-value: 7.31e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  21 LHKNNFEV--EETNEQDVLNQSEEHY-HLAILDISHTKSDRTVILRQIREhFT--IPIIVITA-GNAMNRITCLELGADD 94
Cdd:cd17542    20 LTKAGYEVvgEAANGEEAVEKYKELKpDLVTMDITMPEMDGIEALKEIKK-IDpnAKVIMCSAmGQEEMVKEAIKAGAKD 98

                          90
                  ....*....|....*....
gi 1402578121  95 CLSQPFNERELITRINAIL 113
Cdd:cd17542    99 FIVKPFQPERVLEAVEKVL 117
pleD PRK09581
response regulator PleD; Reviewed
 71-114 2.07e-04

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 41.81  E-value: 2.07e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1402578121  71 IPIIVITA-GNAMNRITCLELGADDCLSQPFNERELITRINAILR 114
Cdd:PRK09581   77 IPVVMVTAlDDPEDRVRGLEAGADDFLTKPINDVALFARVKSLTR 121
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 61-100 2.57e-04

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: 39.02  E-value: 2.57e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1402578121  61 ILRQIREHFTIPIIVITAGN-AMNRITCLELGADDCLSQPF 100
Cdd:cd17538    64 RLKEDPETRHIPVIMITALDdREDRIRGLEAGADDFLSKPI 104
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 40-115 7.04e-04

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: 38.33  E-value: 7.04e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  40 SEEHYHLAILDISHTKSDRTVILRQIRE-HFTIPIIVITAG-------NAMnritclELGADDCLSQPFNERELITRI-N 110
Cdd:cd17572    39 SDQPPDVVLLDLKLPDMSGMEILKWIQErSLPTSVIVITAHgsvdiavEAM------RLGAYDFLEKPFDADRLRVTVrN 112


                  ....*
gi 1402578121 111 AILRR 115
Cdd:cd17572   113 ALKHR 117
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-115 9.18e-04

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: 38.78  E-value: 9.18e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121   1 MTRLLLINAGTSLVYDLIHLLHKNNFEV--EETNEQDVLNQSEEH-YHLAILDISHTKSDRTVILRQIREHFTIPIIVIT 77
Cdd:COG3707     3 GLRVLVVDDEPLRRADLREGLREAGYEVvaEAADGEDAVELVRELkPDLVIVDIDMPDRDGLEAARQISEERPAPVILLT 82

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1402578121  78 AGNAMNRI-TCLELGADDCLSQPFNERELITRINAILRR 115
Cdd:COG3707    83 AYSDPELIeRALEAGVSAYLVKPLDPEDLLPALELALAR 121
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 17-110 2.16e-03

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: 36.73  E-value: 2.16e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  17 LIHLLHKNNFEV-EETNEQDVLNQSEEH--YHLAILDISHTKSDRTVILRQIREHF---TIPIIVITA-GNAMNRITCLE 89
Cdd:cd17544    16 LRALLRRHNFQVlEAANGQEALEVLEQHpdIKLVITDYNMPEMDGFELVREIRKKYsrdQLAIIGISAsGDNALSARFIK 95

                          90       100
                  ....*....|....*....|.
gi 1402578121  90 LGADDCLSQPFNERELITRIN 110
Cdd:cd17544    96 AGANDFLTKPFLPEEFYCRVT 116
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 62-109 2.19e-03

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: 36.99  E-value: 2.19e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  62 LRQIREHFTIPIIVITA---GNAMNRITCLELGADDCLSQPFN---------ERELITRI 109
Cdd:cd17541    65 LRRIMAERPTPVVMVSSlteEGAEITLEALELGAVDFIAKPSGgisldleeiAEELIEKI 124
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 21-99 3.24e-03

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: 35.82  E-value: 3.24e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  21 LHKNNFEVEETNEQ----DVLNQseEHYHLAILDISHTKSDRTVILRQIREHF---TIPIIVITA-GNAMNRITCLELGA 92
Cdd:cd19927    18 LEDQGFTVIAASNGlealDLLNQ--YIPDLIISDIIMPGVDGYSLLGKLRKNAdfdTIPVIFLTAkGMTSDRIKGYNAGC 95


                  ....*..
gi 1402578121  93 DDCLSQP 99
Cdd:cd19927    96 DGYLSKP 102
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 16-113 3.41e-03

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: 36.23  E-value: 3.41e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1402578121  16 DLIHLLHKNNFEVEET--NEQDVLNQSEEHY-HLAILDIsHTKSDRTVI--LRQIREHFTIPIIVITAgNA----MNRIt 86
Cdd:cd17534    15 DLKEILESLGYEVVGIadSGEEAIELAEENKpDLILMDI-NLKGDMDGIeaAREIREKFDIPVIFLTA-YSdeetLERA- 91

                          90       100
                  ....*....|....*....|....*..
gi 1402578121  87 cLELGADDCLSQPFNERELITRINAIL 113
Cdd:cd17534    92 -KETNPYGYLVKPFNERELKAAIELAL 117
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 62-113 7.78e-03

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: 35.26  E-value: 7.78e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1402578121  62 LRQIREHftIPIIVITA-GNAMNRITCLELGADDCLSQPFNERELITRINAIL 113
Cdd:cd17537    66 LLARGSN--IPIIFITGhGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQAL 116
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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