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Conserved domains on  [gi|1541847107|gb|RTP85369|]
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LysR family transcriptional regulator [Enterobacter asburiae]

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 1.27e-30

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


:

Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 115.35  E-value: 1.27e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107   5 TLEQWALLERVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLKAFSYVETR 84
Cdd:COG0583     2 DLRQLRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEAE 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  85 AATLRNGMRTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLTEVLENTRADAI-NDEADVMVLTRRQDITGL-GEWLM 162
Cdd:COG0583    82 LRALRGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALlEGELDLAIRLGPPPDPGLvARPLG 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107 163 NIDFVAVAHSRHPLfhldaplndemlrpwpliqiadsqpaaraAGESWTFSTIDAAIEAVVSQVGYGWLPEERIQTQLDQ 242
Cdd:COG0583   162 EERLVLVASPDHPL-----------------------------ARRAPLVNSLEALLAAVAAGLGIALLPRFLAADELAA 212

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 1541847107 243 GVLKRLPLSHGARRAtPLHLIVKRSlAPLDEQVETLLRLFSQE 285
Cdd:COG0583   213 GRLVALPLPDPPPPR-PLYLVWRRR-RHLSPAVRAFLDFLREA 253
 
Name Accession Description Interval E-value
LysR COG0583
DNA-binding transcriptional regulator, LysR family [Transcription];
5-285 1.27e-30

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


Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 115.35  E-value: 1.27e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107   5 TLEQWALLERVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLKAFSYVETR 84
Cdd:COG0583     2 DLRQLRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEAE 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  85 AATLRNGMRTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLTEVLENTRADAI-NDEADVMVLTRRQDITGL-GEWLM 162
Cdd:COG0583    82 LRALRGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALlEGELDLAIRLGPPPDPGLvARPLG 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107 163 NIDFVAVAHSRHPLfhldaplndemlrpwpliqiadsqpaaraAGESWTFSTIDAAIEAVVSQVGYGWLPEERIQTQLDQ 242
Cdd:COG0583   162 EERLVLVASPDHPL-----------------------------ARRAPLVNSLEALLAAVAAGLGIALLPRFLAADELAA 212

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 1541847107 243 GVLKRLPLSHGARRAtPLHLIVKRSlAPLDEQVETLLRLFSQE 285
Cdd:COG0583   213 GRLVALPLPDPPPPR-PLYLVWRRR-RHLSPAVRAFLDFLREA 253
PRK10094 PRK10094
HTH-type transcriptional activator AllS;
14-290 4.20e-18

HTH-type transcriptional activator AllS;


Pssm-ID: 182237 [Multi-domain]  Cd Length: 308  Bit Score: 82.55  E-value: 4.20e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  14 RVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLKAFSYVETRAATLRNGMR 93
Cdd:PRK10094   12 AVAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLTAAGEHLLSQARDWLSWLESMPSELQQVNDGVE 91

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  94 TRLDLVVDSIFPRR----RLFAILRQFQQQYPQTQVRltEVLENTRADAINDEADVMV-------LTRRQDITGLGEwlm 162
Cdd:PRK10094   92 RQVNIVINNLLYNPqavaQLLAWLNERYPFTQFHISR--QIYMGVWDSLLYEGFSLAIgvtgteaLANTFSLDPLGS--- 166

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107 163 nIDFVAVAHSRHPLFHLDAPLNDEMLRPWPLIQIADS------QPAARAAGE-SWTFSTIDAAIEAVVSQVGYGWLPEER 235
Cdd:PRK10094  167 -VQWRFVMAADHPLANVEEPLTEAQLRRFPAVNIEDSartltkRVAWRLPGQkEIIVPDMETKIAAHLAGVGIGFLPKSL 245

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1541847107 236 IQTQLDQGVLKRLPLSHGaRRATPLHLIVKRslAPLDEQVETLLRLFSQE-PSSSP 290
Cdd:PRK10094  246 CQSMIDNQQLVSRVIPTM-RPPSPLSLAWRK--FGSGKAVEDIVTLFTQRrPEISG 298
HTH_1 pfam00126
Bacterial regulatory helix-turn-helix protein, lysR family;
6-65 9.93e-15

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


Pssm-ID: 459683 [Multi-domain]  Cd Length: 60  Bit Score: 67.41  E-value: 9.93e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107   6 LEQWALLERVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGE 65
Cdd:pfam00126   1 LRQLRLFVAVAETGSFTAAAERLGLSQPAVSRQIKRLEEELGVPLFERTTRGVRLTEAGE 60
PBP2_HupR cd08431
The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which ...
 96-262 7.71e-13

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: 65.75  E-value: 7.71e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  96 LDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLT-EVLENT-------RAD-AINDEADV---MVLTRRqditgLGEwlmn 163
Cdd:cd08431     2 LRIAIDTVLPLQPLYPLIAEFYQLNKATRIRLSeEVLGGTwdalasgRADlVIGATGELppgGVKTRP-----LGE---- 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107 164 IDFVAVAHSRHPLFHLDAPLNDEMLRPWPLIQIADS---QPaARAAG-----ESWTFSTIDAAIEAVVSQVGYGWLPEER 235
Cdd:cd08431    73 VEFVFAVAPNHPLAKLDGPLDASAIKQYPAIVVADTsrnLP-PRSSGllegqDRIRVPTMQAKIDAQVLGLGVGYLPRHL 151

                         170       180
                  ....*....|....*....|....*..
gi 1541847107 236 IQTQLDQGVLKRLPLSHgARRATPLHL 262
Cdd:cd08431   152 AKPELASGELVEKALED-PRPPQELFL 177
LysR_Sec_metab NF040786
selenium metabolism-associated LysR family transcriptional regulator; LysR family ...
 15-76 2.91e-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: 59.94  E-value: 2.91e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1541847107  15 VVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLK 76
Cdd:NF040786   12 VAEYKSFSKAAKKLFLTQPTISAHISSLEKELGVRLFVRNTKEVSLTEDGKLLYEYAKEMLD 73
 
Name Accession Description Interval E-value
LysR COG0583
DNA-binding transcriptional regulator, LysR family [Transcription];
5-285 1.27e-30

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


Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 115.35  E-value: 1.27e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107   5 TLEQWALLERVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLKAFSYVETR 84
Cdd:COG0583     2 DLRQLRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEAE 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  85 AATLRNGMRTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLTEVLENTRADAI-NDEADVMVLTRRQDITGL-GEWLM 162
Cdd:COG0583    82 LRALRGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALlEGELDLAIRLGPPPDPGLvARPLG 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107 163 NIDFVAVAHSRHPLfhldaplndemlrpwpliqiadsqpaaraAGESWTFSTIDAAIEAVVSQVGYGWLPEERIQTQLDQ 242
Cdd:COG0583   162 EERLVLVASPDHPL-----------------------------ARRAPLVNSLEALLAAVAAGLGIALLPRFLAADELAA 212

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 1541847107 243 GVLKRLPLSHGARRAtPLHLIVKRSlAPLDEQVETLLRLFSQE 285
Cdd:COG0583   213 GRLVALPLPDPPPPR-PLYLVWRRR-RHLSPAVRAFLDFLREA 253
PRK10094 PRK10094
HTH-type transcriptional activator AllS;
14-290 4.20e-18

HTH-type transcriptional activator AllS;


Pssm-ID: 182237 [Multi-domain]  Cd Length: 308  Bit Score: 82.55  E-value: 4.20e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  14 RVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLKAFSYVETRAATLRNGMR 93
Cdd:PRK10094   12 AVAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLTAAGEHLLSQARDWLSWLESMPSELQQVNDGVE 91

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  94 TRLDLVVDSIFPRR----RLFAILRQFQQQYPQTQVRltEVLENTRADAINDEADVMV-------LTRRQDITGLGEwlm 162
Cdd:PRK10094   92 RQVNIVINNLLYNPqavaQLLAWLNERYPFTQFHISR--QIYMGVWDSLLYEGFSLAIgvtgteaLANTFSLDPLGS--- 166

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107 163 nIDFVAVAHSRHPLFHLDAPLNDEMLRPWPLIQIADS------QPAARAAGE-SWTFSTIDAAIEAVVSQVGYGWLPEER 235
Cdd:PRK10094  167 -VQWRFVMAADHPLANVEEPLTEAQLRRFPAVNIEDSartltkRVAWRLPGQkEIIVPDMETKIAAHLAGVGIGFLPKSL 245

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1541847107 236 IQTQLDQGVLKRLPLSHGaRRATPLHLIVKRslAPLDEQVETLLRLFSQE-PSSSP 290
Cdd:PRK10094  246 CQSMIDNQQLVSRVIPTM-RPPSPLSLAWRK--FGSGKAVEDIVTLFTQRrPEISG 298
PRK11074 PRK11074
putative DNA-binding transcriptional regulator; Provisional
 11-252 5.16e-18

putative DNA-binding transcriptional regulator; Provisional


Pssm-ID: 182948 [Multi-domain]  Cd Length: 300  Bit Score: 82.30  E-value: 5.16e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  11 LLERVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLKAFSyvETRAATLR- 89
Cdd:PRK11074    9 VVDAVARTGSFSAAAQELHRVPSAVSYTVRQLEEWLAVPLFERRHRDVELTPAGEWFVKEARSVIKKMQ--ETRRQCQQv 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  90 -NGMRTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLT-EVLeNTRADAINDE-ADVMV-LTR------RQDITGLGE 159
Cdd:PRK11074   87 aNGWRGQLSIAVDNIVRPDRTRQLIVDFYRHFDDVELIIRqEVF-NGVWDALADGrVDIAIgATRaipvggRFAFRDMGM 165

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107 160 wlmnIDFVAVAHSRHPLFHLDAPLNDEMLRPWPLIQIADSqpaARAAGE--SWTFST--------IDAAIEAVVSQVGYG 229
Cdd:PRK11074  166 ----LSWACVVSSDHPLASMDGPLSDDELRPYPSLCLEDT---SRTLPKriTWLLDNqrrlvvpdWESAINCLSAGLCVG 238

                         250       260
                  ....*....|....*....|...
gi 1541847107 230 WLPEERIQTQLDQGVLKRLPLSH 252
Cdd:PRK11074  239 MVPTHFAKPLINSGKLVELTLEN 261
HTH_1 pfam00126
Bacterial regulatory helix-turn-helix protein, lysR family;
6-65 9.93e-15

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


Pssm-ID: 459683 [Multi-domain]  Cd Length: 60  Bit Score: 67.41  E-value: 9.93e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107   6 LEQWALLERVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGE 65
Cdd:pfam00126   1 LRQLRLFVAVAETGSFTAAAERLGLSQPAVSRQIKRLEEELGVPLFERTTRGVRLTEAGE 60
PBP2_HupR cd08431
The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which ...
 96-262 7.71e-13

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: 65.75  E-value: 7.71e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  96 LDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLT-EVLENT-------RAD-AINDEADV---MVLTRRqditgLGEwlmn 163
Cdd:cd08431     2 LRIAIDTVLPLQPLYPLIAEFYQLNKATRIRLSeEVLGGTwdalasgRADlVIGATGELppgGVKTRP-----LGE---- 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107 164 IDFVAVAHSRHPLFHLDAPLNDEMLRPWPLIQIADS---QPaARAAG-----ESWTFSTIDAAIEAVVSQVGYGWLPEER 235
Cdd:cd08431    73 VEFVFAVAPNHPLAKLDGPLDASAIKQYPAIVVADTsrnLP-PRSSGllegqDRIRVPTMQAKIDAQVLGLGVGYLPRHL 151

                         170       180
                  ....*....|....*....|....*..
gi 1541847107 236 IQTQLDQGVLKRLPLSHgARRATPLHL 262
Cdd:cd08431   152 AKPELASGELVEKALED-PRPPQELFL 177
LysR_Sec_metab NF040786
selenium metabolism-associated LysR family transcriptional regulator; LysR family ...
 15-76 2.91e-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: 59.94  E-value: 2.91e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1541847107  15 VVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLK 76
Cdd:NF040786   12 VAEYKSFSKAAKKLFLTQPTISAHISSLEKELGVRLFVRNTKEVSLTEDGKLLYEYAKEMLD 73
rbcR CHL00180
LysR transcriptional regulator; Provisional
 5-68 5.24e-10

LysR transcriptional regulator; Provisional


Pssm-ID: 177082 [Multi-domain]  Cd Length: 305  Bit Score: 59.26  E-value: 5.24e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1541847107   5 TLEQWALLERVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLL 68
Cdd:CHL00180    6 TLDQLRILKAIATEGSFKKAAESLYISQPAVSLQIKNLEKQLNIPLFDRSKNKASLTEAGELLL 69
LysR_substrate pfam03466
LysR substrate binding domain; The structure of this domain is known and is similar to the ...
 93-285 2.06e-07

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: 50.37  E-value: 2.06e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  93 RTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLTEVLENTRADAIND-EADVMVLTRRQDITGL-GEWLMNIDFVAVA 170
Cdd:pfam03466   1 SGRLRIGAPPTLASYLLPPLLARFRERYPDVELELTEGNSEELLDLLLEgELDLAIRRGPPDDPGLeARPLGEEPLVLVA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107 171 HSRHPLFHLDaPLNDEMLRPWPLIQIADSQP-------AARAAG----ESWTFSTIDAAIEAVVSQVGYGWLPEERIQTQ 239
Cdd:pfam03466  81 PPDHPLARGE-PVSLEDLADEPLILLPPGSGlrdlldrALRAAGlrprVVLEVNSLEALLQLVAAGLGIALLPRSAVARE 159

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1541847107 240 LDQGVLKRLPLShGARRATPLHLIVkRSLAPLDEQVETLLRLFSQE 285
Cdd:pfam03466 160 LADGRLVALPLP-EPPLPRELYLVW-RKGRPLSPAVRAFIEFLREA 203
PRK15421 PRK15421
HTH-type transcriptional regulator MetR;
12-73 1.19e-06

HTH-type transcriptional regulator MetR;


Pssm-ID: 185319 [Multi-domain]  Cd Length: 317  Bit Score: 49.25  E-value: 1.19e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1541847107  12 LERVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLL---NQVKP 73
Cdd:PRK15421   10 LQALRNCGSLAAAAATLHQTQSALSHQFSDLEQRLGFRLFVRKSQPLRFTPQGEILLqlaNQVLP 74
PRK03635 PRK03635
ArgP/LysG family DNA-binding transcriptional regulator;
15-69 2.28e-06

ArgP/LysG family DNA-binding transcriptional regulator;


Pssm-ID: 235144 [Multi-domain]  Cd Length: 294  Bit Score: 48.23  E-value: 2.28e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1541847107  15 VVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVpEGRRAVLTPAGELLLN 69
Cdd:PRK03635   13 VVREGSFERAAQKLHITQSAVSQRIKALEERVGQVLLV-RTQPCRPTEAGQRLLR 66
PRK13348 PRK13348
HTH-type transcriptional regulator ArgP;
15-72 4.12e-06

HTH-type transcriptional regulator ArgP;


Pssm-ID: 237357 [Multi-domain]  Cd Length: 294  Bit Score: 47.27  E-value: 4.12e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1541847107  15 VVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVpEGRRAVLTPAGELLLNQVK 72
Cdd:PRK13348   13 VVETGSFERAARRLHVTPSAVSQRIKALEESLGQPLLV-RGRPCRPTPAGQRLLRHLR 69
PRK11139 PRK11139
DNA-binding transcriptional activator GcvA; Provisional
 14-75 4.63e-06

DNA-binding transcriptional activator GcvA; Provisional


Pssm-ID: 182990 [Multi-domain]  Cd Length: 297  Bit Score: 47.15  E-value: 4.63e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1541847107  14 RVVEAG----SFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLL 75
Cdd:PRK11139   12 RAFEAAarhlSFTRAAEELFVTQAAVSHQIKALEDFLGLKLFRRRNRSLLLTEEGQRYFLDIREIF 77
PRK09906 PRK09906
DNA-binding transcriptional regulator HcaR; Provisional
 15-75 7.03e-06

DNA-binding transcriptional regulator HcaR; Provisional


Pssm-ID: 182137 [Multi-domain]  Cd Length: 296  Bit Score: 46.69  E-value: 7.03e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1541847107  15 VVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLL 75
Cdd:PRK09906   12 VAEELNFTKAAEKLHTAQPSLSQQIKDLENCVGVPLLVRDKRKVALTAAGEVFLQDARAIL 72
PRK10632 PRK10632
HTH-type transcriptional activator AaeR;
6-91 9.79e-06

HTH-type transcriptional activator AaeR;


Pssm-ID: 182601 [Multi-domain]  Cd Length: 309  Bit Score: 46.29  E-value: 9.79e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107   6 LEQWALLERVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELL----------LNQVKPLL 75
Cdd:PRK10632    4 LKRMSVFAKVVEFGSFTAAARQLQMSVSSISQTVSKLEDELQVKLLNRSTRSIGLTEAGRIYyqgcrrmlheVQDVHEQL 83

                          90
                  ....*....|....*.
gi 1541847107  76 KAFSyvETRAATLRNG 91
Cdd:PRK10632   84 YAFN--NTPIGTLRIG 97
PRK09986 PRK09986
LysR family transcriptional regulator;
15-82 2.03e-05

LysR family transcriptional regulator;


Pssm-ID: 182183 [Multi-domain]  Cd Length: 294  Bit Score: 45.10  E-value: 2.03e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1541847107  15 VVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLL----KAFSYVE 82
Cdd:PRK09986   18 VAEELHFGRAAARLNISQPPLSIHIKELEDQLGTPLFIRHSRSVVLTHAGKILMEESRRLLdnaeQSLARVE 89
PRK10086 PRK10086
DNA-binding transcriptional regulator DsdC;
20-72 3.31e-05

DNA-binding transcriptional regulator DsdC;


Pssm-ID: 182231 [Multi-domain]  Cd Length: 311  Bit Score: 44.61  E-value: 3.31e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1541847107  20 SFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVK 72
Cdd:PRK10086   30 SFALAADELSLTPSAVSHRINQLEEELGIKLFVRSHRKVELTEEGKRVFWALK 82
PRK11242 PRK11242
DNA-binding transcriptional regulator CynR; Provisional
 15-68 7.73e-05

DNA-binding transcriptional regulator CynR; Provisional


Pssm-ID: 183051 [Multi-domain]  Cd Length: 296  Bit Score: 43.41  E-value: 7.73e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1541847107  15 VVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLL 68
Cdd:PRK11242   12 VAEHGNFTRAAEALHVSQPTLSQQIRQLEESLGVQLFDRSGRTVRLTDAGEVYL 65
PRK10837 PRK10837
putative DNA-binding transcriptional regulator; Provisional
 1-82 1.06e-04

putative DNA-binding transcriptional regulator; Provisional


Pssm-ID: 182768 [Multi-domain]  Cd Length: 290  Bit Score: 43.14  E-value: 1.06e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107   1 MHkTTLEQWALLERVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLKAFSY 80
Cdd:PRK10837    1 MH-ITLRQLEVFAEVLKSGSTTQASVMLALSQSAVSAALTDLEGQLGVQLFDRVGKRLVVNEHGRLLYPRALALLEQAVE 79


                  ..
gi 1541847107  81 VE 82
Cdd:PRK10837   80 IE 81
PRK11151 PRK11151
DNA-binding transcriptional regulator OxyR; Provisional
 21-76 2.40e-04

DNA-binding transcriptional regulator OxyR; Provisional


Pssm-ID: 182999 [Multi-domain]  Cd Length: 305  Bit Score: 41.94  E-value: 2.40e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1541847107  21 FAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLK 76
Cdd:PRK11151   18 FRRAADSCHVSQPTLSGQIRKLEDELGVMLLERTSRKVLFTQAGLLLVDQARTVLR 73
PRK14997 PRK14997
LysR family transcriptional regulator; Provisional
 3-89 1.22e-03

LysR family transcriptional regulator; Provisional


Pssm-ID: 184959 [Multi-domain]  Cd Length: 301  Bit Score: 39.97  E-value: 1.22e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107   3 KTTLEQWALLERVVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLKAFSYVE 82
Cdd:PRK14997    1 KTDLNDFAWFVHVVEEGGFAAAGRALDEPKSKLSRRIAQLEERLGVRLIQRTTRQFNVTEVGQTFYEHCKAMLVEAQAAQ 80


                  ....*..
gi 1541847107  83 TRAATLR 89
Cdd:PRK14997   81 DAIAALQ 87
PRK15092 PRK15092
DNA-binding transcriptional repressor LrhA; Provisional
 15-77 1.27e-03

DNA-binding transcriptional repressor LrhA; Provisional


Pssm-ID: 237907 [Multi-domain]  Cd Length: 310  Bit Score: 39.63  E-value: 1.27e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1541847107  15 VVEAGSFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRRAVLTPAGELLLNQVKPLLKA 77
Cdd:PRK15092   22 VADLNTFAAAAAAVCRTQSAVSQQMQRLEQLVGKELFARHGRNKLLTEHGIQLLGYARKILRF 84
PRK12680 PRK12680
LysR family transcriptional regulator;
5-199 2.30e-03

LysR family transcriptional regulator;


Pssm-ID: 183677 [Multi-domain]  Cd Length: 327  Bit Score: 39.22  E-value: 2.30e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107   5 TLEQWALLERVVEAG-SFAKAAEETHRSQSSVSYNLSLLQERLGVALLVPEGRR-AVLTPAGELLLNQVKPLLKAFSYVE 82
Cdd:PRK12680    2 TLTQLRYLVAIADAElNITLAAARVHATQPGLSKQLKQLEDELGFLLFVRKGRSlESVTPAGVEVIERARAVLSEANNIR 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1541847107  83 TRAATLRNGMRTRLDLVVDSIFPRRRLFAILRQFQQQYPQTQVRLTEVLENTRADAIND-EADVMVLTR--RQDITGLGE 159
Cdd:PRK12680   82 TYAANQRRESQGQLTLTTTHTQARFVLPPAVAQIKQAYPQVSVHLQQAAESAALDLLGQgDADIAIVSTagGEPSAGIAV 161

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1541847107 160 WLMNIDFVAVAHSRHPLFHLDAPLNDEMLRPWPLIQIADS 199
Cdd:PRK12680  162 PLYRWRRLVVVPRGHALDTPRRAPDMAALAEHPLISYESS 201
 
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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