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Conserved domains on  [gi|754494979|ref|WP_041911874|]
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MULTISPECIES: LysR family transcriptional regulator [Enterobacter]

Protein Classification

LysR family transcriptional regulator( domain architecture ID 11426483)

LysR family transcriptional regulator containing an N-terminal HTH (helix-turn-helix) DNA-binding domain and a C-terminal substrate binding domain, which is structurally homologous to the type 2 periplasmic-binding (PBP2) fold proteins

CATH:  3.40.190.10
Gene Ontology:  GO:0003700|GO:0003677|GO:0006355
PubMed:  19047729|8257110|15808743
SCOP:  4000316

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LysR COG0583
DNA-binding transcriptional regulator, LysR family [Transcription];
5-285 1.06e-29

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


:

Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 113.04  E-value: 1.06e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979   5 TLEQWALLEKVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLKAFSYVETR 84
Cdd:COG0583    2 DLRQLRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEAE 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  85 AATLRNGMRTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLTEVLENTRADAM-NNEADVMVLTRRQDITGL-GEWLM 162
Cdd:COG0583   82 LRALRGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALlEGELDLAIRLGPPPDPGLvARPLG 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979 163 NIDFVAVAHHQHPLfsldaplndemlrpwpliqiadsqnaaraAGESWTFSTIDAAIEAVVSQVGYGWLPEERIQPQLEQ 242
Cdd:COG0583  162 EERLVLVASPDHPL-----------------------------ARRAPLVNSLEALLAAVAAGLGIALLPRFLAADELAA 212

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|...
gi 754494979 243 GVLKLLPLShGVRRATPLHLIVKRTlAPLDEQVETLLRLFSQE 285
Cdd:COG0583  213 GRLVALPLP-DPPPPRPLYLVWRRR-RHLSPAVRAFLDFLREA 253
 
Name Accession Description Interval E-value
LysR COG0583
DNA-binding transcriptional regulator, LysR family [Transcription];
5-285 1.06e-29

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


Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 113.04  E-value: 1.06e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979   5 TLEQWALLEKVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLKAFSYVETR 84
Cdd:COG0583    2 DLRQLRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEAE 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  85 AATLRNGMRTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLTEVLENTRADAM-NNEADVMVLTRRQDITGL-GEWLM 162
Cdd:COG0583   82 LRALRGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALlEGELDLAIRLGPPPDPGLvARPLG 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979 163 NIDFVAVAHHQHPLfsldaplndemlrpwpliqiadsqnaaraAGESWTFSTIDAAIEAVVSQVGYGWLPEERIQPQLEQ 242
Cdd:COG0583  162 EERLVLVASPDHPL-----------------------------ARRAPLVNSLEALLAAVAAGLGIALLPRFLAADELAA 212

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|...
gi 754494979 243 GVLKLLPLShGVRRATPLHLIVKRTlAPLDEQVETLLRLFSQE 285
Cdd:COG0583  213 GRLVALPLP-DPPPPRPLYLVWRRR-RHLSPAVRAFLDFLREA 253
PRK11074 PRK11074
putative DNA-binding transcriptional regulator; Provisional
 15-252 5.14e-20

putative DNA-binding transcriptional regulator; Provisional


Pssm-ID: 182948 [Multi-domain]  Cd Length: 300  Bit Score: 87.69  E-value: 5.14e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  15 VVDA----GSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLKAFSyvETRAATLR- 89
Cdd:PRK11074   9 VVDAvartGSFSAAAQELHRVPSAVSYTVRQLEEWLAVPLFERRHRDVELTPAGEWFVKEARSVIKKMQ--ETRRQCQQv 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  90 -NGMRTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLT-EVLeNTRADA-MNNEADVMV-LTR------RQDITGLGE 159
Cdd:PRK11074  87 aNGWRGQLSIAVDNIVRPDRTRQLIVDFYRHFDDVELIIRqEVF-NGVWDAlADGRVDIAIgATRaipvggRFAFRDMGM 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979 160 wlmnIDFVAVAHHQHPLFSLDAPLNDEMLRPWPLIQIADS------------QNAARAAGESWtfstiDAAIEAVVSQVG 227
Cdd:PRK11074 166 ----LSWACVVSSDHPLASMDGPLSDDELRPYPSLCLEDTsrtlpkritwllDNQRRLVVPDW-----ESAINCLSAGLC 236

                        250       260
                 ....*....|....*....|....*
gi 754494979 228 YGWLPEERIQPQLEQGVLKLLPLSH 252
Cdd:PRK11074 237 VGMVPTHFAKPLINSGKLVELTLEN 261
PBP2_HupR cd08431
The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which ...
 96-262 4.93e-14

The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 176122 [Multi-domain]  Cd Length: 195  Bit Score: 69.22  E-value: 4.93e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  96 LDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLT-EVLENT-------RAD----AMNNEADVMVLTRRqditgLGEwlmn 163
Cdd:cd08431    2 LRIAIDTVLPLQPLYPLIAEFYQLNKATRIRLSeEVLGGTwdalasgRADlvigATGELPPGGVKTRP-----LGE---- 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979 164 IDFVAVAHHQHPLFSLDAPLNDEMLRPWPLIQIAD-SQN-AARAAG-----ESWTFSTIDAAIEAVVSQVGYGWLPEERI 236
Cdd:cd08431   73 VEFVFAVAPNHPLAKLDGPLDASAIKQYPAIVVADtSRNlPPRSSGllegqDRIRVPTMQAKIDAQVLGLGVGYLPRHLA 152

                        170       180
                 ....*....|....*....|....*.
gi 754494979 237 QPQLEQGVLKLLPLSHgVRRATPLHL 262
Cdd:cd08431  153 KPELASGELVEKALED-PRPPQELFL 177
HTH_1 pfam00126
Bacterial regulatory helix-turn-helix protein, lysR family;
6-65 6.67e-14

Bacterial regulatory helix-turn-helix protein, lysR family;


Pssm-ID: 459683 [Multi-domain]  Cd Length: 60  Bit Score: 65.10  E-value: 6.67e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979    6 LEQWALLEKVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGE 65
Cdd:pfam00126   1 LRQLRLFVAVAETGSFTAAAERLGLSQPAVSRQIKRLEEELGVPLFERTTRGVRLTEAGE 60
LysR_Sec_metab NF040786
selenium metabolism-associated LysR family transcriptional regulator; LysR family ...
 14-76 7.96e-10

selenium metabolism-associated LysR family transcriptional regulator; LysR family transcriptional regulators regularly appear encoded adjacent to selenecysteine incorporation proteins such as SelB. This model represents one especially well-conserved subgroup of such transcription factors from species such as Merdimonas faecis, Sellimonas intestinalis, Syntrophotalea acetylenica, and Hydrogenivirga caldilitoris. Seed alignment members were selected by proximity to selB, but not all family members are expected to have similar genomic locations.


Pssm-ID: 468737 [Multi-domain]  Cd Length: 298  Bit Score: 58.40  E-value: 7.96e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 754494979  14 KVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLK 76
Cdd:NF040786  11 NVAEYKSFSKAAKKLFLTQPTISAHISSLEKELGVRLFVRNTKEVSLTEDGKLLYEYAKEMLD 73
 
Name Accession Description Interval E-value
LysR COG0583
DNA-binding transcriptional regulator, LysR family [Transcription];
5-285 1.06e-29

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


Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 113.04  E-value: 1.06e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979   5 TLEQWALLEKVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLKAFSYVETR 84
Cdd:COG0583    2 DLRQLRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEAE 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  85 AATLRNGMRTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLTEVLENTRADAM-NNEADVMVLTRRQDITGL-GEWLM 162
Cdd:COG0583   82 LRALRGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALlEGELDLAIRLGPPPDPGLvARPLG 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979 163 NIDFVAVAHHQHPLfsldaplndemlrpwpliqiadsqnaaraAGESWTFSTIDAAIEAVVSQVGYGWLPEERIQPQLEQ 242
Cdd:COG0583  162 EERLVLVASPDHPL-----------------------------ARRAPLVNSLEALLAAVAAGLGIALLPRFLAADELAA 212

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|...
gi 754494979 243 GVLKLLPLShGVRRATPLHLIVKRTlAPLDEQVETLLRLFSQE 285
Cdd:COG0583  213 GRLVALPLP-DPPPPRPLYLVWRRR-RHLSPAVRAFLDFLREA 253
PRK11074 PRK11074
putative DNA-binding transcriptional regulator; Provisional
 15-252 5.14e-20

putative DNA-binding transcriptional regulator; Provisional


Pssm-ID: 182948 [Multi-domain]  Cd Length: 300  Bit Score: 87.69  E-value: 5.14e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  15 VVDA----GSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLKAFSyvETRAATLR- 89
Cdd:PRK11074   9 VVDAvartGSFSAAAQELHRVPSAVSYTVRQLEEWLAVPLFERRHRDVELTPAGEWFVKEARSVIKKMQ--ETRRQCQQv 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  90 -NGMRTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLT-EVLeNTRADA-MNNEADVMV-LTR------RQDITGLGE 159
Cdd:PRK11074  87 aNGWRGQLSIAVDNIVRPDRTRQLIVDFYRHFDDVELIIRqEVF-NGVWDAlADGRVDIAIgATRaipvggRFAFRDMGM 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979 160 wlmnIDFVAVAHHQHPLFSLDAPLNDEMLRPWPLIQIADS------------QNAARAAGESWtfstiDAAIEAVVSQVG 227
Cdd:PRK11074 166 ----LSWACVVSSDHPLASMDGPLSDDELRPYPSLCLEDTsrtlpkritwllDNQRRLVVPDW-----ESAINCLSAGLC 236

                        250       260
                 ....*....|....*....|....*
gi 754494979 228 YGWLPEERIQPQLEQGVLKLLPLSH 252
Cdd:PRK11074 237 VGMVPTHFAKPLINSGKLVELTLEN 261
PRK10094 PRK10094
HTH-type transcriptional activator AllS;
14-290 7.52e-18

HTH-type transcriptional activator AllS;


Pssm-ID: 182237 [Multi-domain]  Cd Length: 308  Bit Score: 81.78  E-value: 7.52e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  14 KVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLKAFSYVETRAATLRNGMR 93
Cdd:PRK10094  12 AVAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLTAAGEHLLSQARDWLSWLESMPSELQQVNDGVE 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  94 TRLDLVVDSI-FPRRRLFAILRQFQQQYPQTQVRLTEVLENTRADAMNNEADVMV--------LTRRQDITGLGEwlmnI 164
Cdd:PRK10094  92 RQVNIVINNLlYNPQAVAQLLAWLNERYPFTQFHISRQIYMGVWDSLLYEGFSLAigvtgteaLANTFSLDPLGS----V 167

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979 165 DFVAVAHHQHPLFSLDAPLNDEMLRPWPLIQIADSQN--AARAAgesWTFS--------TIDAAIEAVVSQVGYGWLPEE 234
Cdd:PRK10094 168 QWRFVMAADHPLANVEEPLTEAQLRRFPAVNIEDSARtlTKRVA---WRLPgqkeiivpDMETKIAAHLAGVGIGFLPKS 244

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 754494979 235 RIQPQLEQGVLKLLPLSHGvRRATPLHLIVKRtlAPLDEQVETLLRLFSQE-PSSSP 290
Cdd:PRK10094 245 LCQSMIDNQQLVSRVIPTM-RPPSPLSLAWRK--FGSGKAVEDIVTLFTQRrPEISG 298
PBP2_HupR cd08431
The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which ...
 96-262 4.93e-14

The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 176122 [Multi-domain]  Cd Length: 195  Bit Score: 69.22  E-value: 4.93e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  96 LDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLT-EVLENT-------RAD----AMNNEADVMVLTRRqditgLGEwlmn 163
Cdd:cd08431    2 LRIAIDTVLPLQPLYPLIAEFYQLNKATRIRLSeEVLGGTwdalasgRADlvigATGELPPGGVKTRP-----LGE---- 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979 164 IDFVAVAHHQHPLFSLDAPLNDEMLRPWPLIQIAD-SQN-AARAAG-----ESWTFSTIDAAIEAVVSQVGYGWLPEERI 236
Cdd:cd08431   73 VEFVFAVAPNHPLAKLDGPLDASAIKQYPAIVVADtSRNlPPRSSGllegqDRIRVPTMQAKIDAQVLGLGVGYLPRHLA 152

                        170       180
                 ....*....|....*....|....*.
gi 754494979 237 QPQLEQGVLKLLPLSHgVRRATPLHL 262
Cdd:cd08431  153 KPELASGELVEKALED-PRPPQELFL 177
HTH_1 pfam00126
Bacterial regulatory helix-turn-helix protein, lysR family;
6-65 6.67e-14

Bacterial regulatory helix-turn-helix protein, lysR family;


Pssm-ID: 459683 [Multi-domain]  Cd Length: 60  Bit Score: 65.10  E-value: 6.67e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979    6 LEQWALLEKVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGE 65
Cdd:pfam00126   1 LRQLRLFVAVAETGSFTAAAERLGLSQPAVSRQIKRLEEELGVPLFERTTRGVRLTEAGE 60
rbcR CHL00180
LysR transcriptional regulator; Provisional
 5-68 5.65e-10

LysR transcriptional regulator; Provisional


Pssm-ID: 177082 [Multi-domain]  Cd Length: 305  Bit Score: 58.88  E-value: 5.65e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 754494979   5 TLEQWALLEKVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLL 68
Cdd:CHL00180   6 TLDQLRILKAIATEGSFKKAAESLYISQPAVSLQIKNLEKQLNIPLFDRSKNKASLTEAGELLL 69
LysR_Sec_metab NF040786
selenium metabolism-associated LysR family transcriptional regulator; LysR family ...
 14-76 7.96e-10

selenium metabolism-associated LysR family transcriptional regulator; LysR family transcriptional regulators regularly appear encoded adjacent to selenecysteine incorporation proteins such as SelB. This model represents one especially well-conserved subgroup of such transcription factors from species such as Merdimonas faecis, Sellimonas intestinalis, Syntrophotalea acetylenica, and Hydrogenivirga caldilitoris. Seed alignment members were selected by proximity to selB, but not all family members are expected to have similar genomic locations.


Pssm-ID: 468737 [Multi-domain]  Cd Length: 298  Bit Score: 58.40  E-value: 7.96e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 754494979  14 KVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLK 76
Cdd:NF040786  11 NVAEYKSFSKAAKKLFLTQPTISAHISSLEKELGVRLFVRNTKEVSLTEDGKLLYEYAKEMLD 73
LysR_substrate pfam03466
LysR substrate binding domain; The structure of this domain is known and is similar to the ...
 93-285 8.62e-08

LysR substrate binding domain; The structure of this domain is known and is similar to the periplasmic binding proteins. This domain binds a variety of ligands that caries in size and structure, such as amino acids, sugar phosphates, organic acids, metal cations, flavonoids, C6-ring carboxylic acids, H2O2, HOCl, homocysteine, NADPH, ATP, sulphate, muropeptides, acetate, salicylate, citrate, phenol- and quinolone derivatives, acetylserines, fatty acid CoA, shikimate, chorismate, homocysteine, indole-3-acetic acid, Na(I), c-di-GMP, ppGpp and hydrogen peroxide (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 460931 [Multi-domain]  Cd Length: 205  Bit Score: 51.52  E-value: 8.62e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979   93 RTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLTEVLENTRADA-MNNEADVMVLTRRQDITGL-GEWLMNIDFVAVA 170
Cdd:pfam03466   1 SGRLRIGAPPTLASYLLPPLLARFRERYPDVELELTEGNSEELLDLlLEGELDLAIRRGPPDDPGLeARPLGEEPLVLVA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979  171 HHQHPLFSLDaPLNDEMLRPWPLIQIADS-------QNAARAAG----ESWTFSTIDAAIEAVVSQVGYGWLPEERIQPQ 239
Cdd:pfam03466  81 PPDHPLARGE-PVSLEDLADEPLILLPPGsglrdllDRALRAAGlrprVVLEVNSLEALLQLVAAGLGIALLPRSAVARE 159

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 754494979  240 LEQGVLKLLPLShGVRRATPLHLIVkRTLAPLDEQVETLLRLFSQE 285
Cdd:pfam03466 160 LADGRLVALPLP-EPPLPRELYLVW-RKGRPLSPAVRAFIEFLREA 203
PRK11139 PRK11139
DNA-binding transcriptional activator GcvA; Provisional
 20-75 8.76e-06

DNA-binding transcriptional activator GcvA; Provisional


Pssm-ID: 182990 [Multi-domain]  Cd Length: 297  Bit Score: 46.37  E-value: 8.76e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 754494979  20 SFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLL 75
Cdd:PRK11139  22 SFTRAAEELFVTQAAVSHQIKALEDFLGLKLFRRRNRSLLLTEEGQRYFLDIREIF 77
PRK15421 PRK15421
HTH-type transcriptional regulator MetR;
12-73 1.40e-05

HTH-type transcriptional regulator MetR;


Pssm-ID: 185319 [Multi-domain]  Cd Length: 317  Bit Score: 45.78  E-value: 1.40e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 754494979  12 LEKVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLL---GQVKP 73
Cdd:PRK15421  10 LQALRNCGSLAAAAATLHQTQSALSHQFSDLEQRLGFRLFVRKSQPLRFTPQGEILLqlaNQVLP 74
PRK13348 PRK13348
HTH-type transcriptional regulator ArgP;
15-72 1.51e-05

HTH-type transcriptional regulator ArgP;


Pssm-ID: 237357 [Multi-domain]  Cd Length: 294  Bit Score: 45.73  E-value: 1.51e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 754494979  15 VVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLApEGRRAVLTPAGELLLGQVK 72
Cdd:PRK13348  13 VVETGSFERAARRLHVTPSAVSQRIKALEESLGQPLLV-RGRPCRPTPAGQRLLRHLR 69
PRK03635 PRK03635
ArgP/LysG family DNA-binding transcriptional regulator;
15-68 1.73e-05

ArgP/LysG family DNA-binding transcriptional regulator;


Pssm-ID: 235144 [Multi-domain]  Cd Length: 294  Bit Score: 45.53  E-value: 1.73e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 754494979  15 VVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLApEGRRAVLTPAGELLL 68
Cdd:PRK03635  13 VVREGSFERAAQKLHITQSAVSQRIKALEERVGQVLLV-RTQPCRPTEAGQRLL 65
PRK15092 PRK15092
DNA-binding transcriptional repressor LrhA; Provisional
 15-77 1.99e-05

DNA-binding transcriptional repressor LrhA; Provisional


Pssm-ID: 237907 [Multi-domain]  Cd Length: 310  Bit Score: 45.40  E-value: 1.99e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 754494979  15 VVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLKA 77
Cdd:PRK15092  22 VADLNTFAAAAAAVCRTQSAVSQQMQRLEQLVGKELFARHGRNKLLTEHGIQLLGYARKILRF 84
PRK10632 PRK10632
HTH-type transcriptional activator AaeR;
6-66 5.88e-05

HTH-type transcriptional activator AaeR;


Pssm-ID: 182601 [Multi-domain]  Cd Length: 309  Bit Score: 43.98  E-value: 5.88e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 754494979   6 LEQWALLEKVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGEL 66
Cdd:PRK10632   4 LKRMSVFAKVVEFGSFTAAARQLQMSVSSISQTVSKLEDELQVKLLNRSTRSIGLTEAGRI 64
PRK11242 PRK11242
DNA-binding transcriptional regulator CynR; Provisional
 15-68 7.87e-05

DNA-binding transcriptional regulator CynR; Provisional


Pssm-ID: 183051 [Multi-domain]  Cd Length: 296  Bit Score: 43.41  E-value: 7.87e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 754494979  15 VVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLL 68
Cdd:PRK11242  12 VAEHGNFTRAAEALHVSQPTLSQQIRQLEESLGVQLFDRSGRTVRLTDAGEVYL 65
PRK10086 PRK10086
DNA-binding transcriptional regulator DsdC;
20-72 1.03e-04

DNA-binding transcriptional regulator DsdC;


Pssm-ID: 182231 [Multi-domain]  Cd Length: 311  Bit Score: 43.07  E-value: 1.03e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 754494979  20 SFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVK 72
Cdd:PRK10086  30 SFALAADELSLTPSAVSHRINQLEEELGIKLFVRSHRKVELTEEGKRVFWALK 82
PRK09986 PRK09986
LysR family transcriptional regulator;
21-82 1.06e-04

LysR family transcriptional regulator;


Pssm-ID: 182183 [Multi-domain]  Cd Length: 294  Bit Score: 43.17  E-value: 1.06e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 754494979  21 FAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLL----KAFSYVE 82
Cdd:PRK09986  24 FGRAAARLNISQPPLSIHIKELEDQLGTPLFIRHSRSVVLTHAGKILMEESRRLLdnaeQSLARVE 89
PRK09906 PRK09906
DNA-binding transcriptional regulator HcaR; Provisional
 15-75 1.25e-04

DNA-binding transcriptional regulator HcaR; Provisional


Pssm-ID: 182137 [Multi-domain]  Cd Length: 296  Bit Score: 42.83  E-value: 1.25e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 754494979  15 VVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLL 75
Cdd:PRK09906  12 VAEELNFTKAAEKLHTAQPSLSQQIKDLENCVGVPLLVRDKRKVALTAAGEVFLQDARAIL 72
PRK10837 PRK10837
putative DNA-binding transcriptional regulator; Provisional
 1-82 1.37e-04

putative DNA-binding transcriptional regulator; Provisional


Pssm-ID: 182768 [Multi-domain]  Cd Length: 290  Bit Score: 42.75  E-value: 1.37e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979   1 MHkTTLEQWALLEKVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLKAFSY 80
Cdd:PRK10837   1 MH-ITLRQLEVFAEVLKSGSTTQASVMLALSQSAVSAALTDLEGQLGVQLFDRVGKRLVVNEHGRLLYPRALALLEQAVE 79


                 ..
gi 754494979  81 VE 82
Cdd:PRK10837  80 IE 81
PRK11151 PRK11151
DNA-binding transcriptional regulator OxyR; Provisional
 21-76 2.53e-04

DNA-binding transcriptional regulator OxyR; Provisional


Pssm-ID: 182999 [Multi-domain]  Cd Length: 305  Bit Score: 41.94  E-value: 2.53e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 754494979  21 FAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLK 76
Cdd:PRK11151  18 FRRAADSCHVSQPTLSGQIRKLEDELGVMLLERTSRKVLFTQAGLLLVDQARTVLR 73
PRK14997 PRK14997
LysR family transcriptional regulator; Provisional
 3-89 5.71e-04

LysR family transcriptional regulator; Provisional


Pssm-ID: 184959 [Multi-domain]  Cd Length: 301  Bit Score: 40.74  E-value: 5.71e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979   3 KTTLEQWALLEKVVDAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRRAVLTPAGELLLGQVKPLLKAFSYVE 82
Cdd:PRK14997   1 KTDLNDFAWFVHVVEEGGFAAAGRALDEPKSKLSRRIAQLEERLGVRLIQRTTRQFNVTEVGQTFYEHCKAMLVEAQAAQ 80


                 ....*..
gi 754494979  83 TRAATLR 89
Cdd:PRK14997  81 DAIAALQ 87
PRK12680 PRK12680
LysR family transcriptional regulator;
5-149 2.06e-03

LysR family transcriptional regulator;


Pssm-ID: 183677 [Multi-domain]  Cd Length: 327  Bit Score: 39.22  E-value: 2.06e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754494979   5 TLEQWALLEKVVDAG-SFAKAAEETHRSQSSVSYNLSLLQERLGVALLAPEGRR-AVLTPAGELLLGQVKPLLKAFSYVE 82
Cdd:PRK12680   2 TLTQLRYLVAIADAElNITLAAARVHATQPGLSKQLKQLEDELGFLLFVRKGRSlESVTPAGVEVIERARAVLSEANNIR 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 754494979  83 TRAATLRNGMRTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLTEVLENTRADAMNN-EADVMVLT 149
Cdd:PRK12680  82 TYAANQRRESQGQLTLTTTHTQARFVLPPAVAQIKQAYPQVSVHLQQAAESAALDLLGQgDADIAIVS 149
 
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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