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Conserved domains on  [gi|671634161|ref|WP_031596177|]
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MULTISPECIES: AraC family transcriptional regulator [Pseudomonas]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 12033774)

AraC family transcriptional regulator containing a cupin domain as its effector domain and an AraC family helix-turn-helix (HTH) DNA binding domain, controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence

CATH:  2.60.120.10
Gene Ontology:  GO:0003700|GO:0006355|GO:0043565
PubMed:  11282467|33837749|9409145|12270809|19478949|14697267|9573603
SCOP:  3001825

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
194-276 3.95e-25

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 95.31  E-value: 3.95e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161   194 PIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLKSGKM-IADVAQETGFADQAHFQREFKKHLAATP 272
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLsVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 671634161   273 GQYR 276
Cdd:smart00342  81 SEYR 84
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 24-130 1.74e-15

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


:

Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 71.31  E-value: 1.74e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161   24 IEARSVEDGrlvcYAPHSHETFSIGAITAGQSTYLHEKSSQRVTAGTAVLMNPGDVHACNPINNQPWSYLMLYVDSHWLG 103
Cdd:pfam02311   7 IEARYPGHS----FPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPELLE 82

                          90       100
                  ....*....|....*....|....*..
gi 671634161  104 DIQQDIGLNAESGFQPLPYTHTSDPLL 130
Cdd:pfam02311  83 RILADISILAGGPLPLLRDPELAALLR 109
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
194-276 3.95e-25

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 95.31  E-value: 3.95e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161   194 PIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLKSGKM-IADVAQETGFADQAHFQREFKKHLAATP 272
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLsVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 671634161   273 GQYR 276
Cdd:smart00342  81 SEYR 84
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 167-276 4.59e-25

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 102.05  E-value: 4.59e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 167 DAAPAPPLQlSPRVTRAAEYINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLKSGKMIA 246
Cdd:COG2169   74 DLAPGSPPR-ADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGLSVT 152

                         90       100       110
                 ....*....|....*....|....*....|
gi 671634161 247 DVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:COG2169  153 DAAYAAGFGSLSRFYEAFKKLLGMTPSAYR 182
HTH_18 pfam12833
Helix-turn-helix domain;
200-276 3.83e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 87.26  E-value: 3.83e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 671634161  200 ICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQL--KSGKMIADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLleDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 154-276 5.03e-20

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 88.58  E-value: 5.03e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161  154 TAVAFFTLTLETFDAAPapplqLSPRVTRAAEYINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQ 233
Cdd:TIGR04094 266 SAIIYFTELLHEISINH-----HSPLIRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIE 340

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 671634161  234 HAQTQLKSGKMIADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:TIGR04094 341 EAKYLLRSQIPVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 24-130 1.74e-15

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 71.31  E-value: 1.74e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161   24 IEARSVEDGrlvcYAPHSHETFSIGAITAGQSTYLHEKSSQRVTAGTAVLMNPGDVHACNPINNQPWSYLMLYVDSHWLG 103
Cdd:pfam02311   7 IEARYPGHS----FPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPELLE 82

                          90       100
                  ....*....|....*....|....*..
gi 671634161  104 DIQQDIGLNAESGFQPLPYTHTSDPLL 130
Cdd:pfam02311  83 RILADISILAGGPLPLLRDPELAALLR 109
ftrA PRK09393
transcriptional activator FtrA; Provisional
 166-276 7.84e-13

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 67.30  E-value: 7.84e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 166 FDAAPAPPLQlSPRVTRAAEYINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLKSGKM- 244
Cdd:PRK09393 207 FVPRPVASRE-SDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALs 285

                         90       100       110
                 ....*....|....*....|....*....|..
gi 671634161 245 IADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:PRK09393 286 IDQIAERAGFGSEESLRHHFRRRAATSPAAYR 317
cupin_YbfI-like_N cd07001
AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal ...
 40-97 1.28e-05

AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal cupin domain; This family contains bacterial proteins containing an AraC/XylS family helix-turn-helix (HTH) DNA-binding domain C-terminal to a cupin domain, and may be possible transcriptional regulators, including YbfI, an uncharacterized Bacillus subtilis. In Pseudomonas putida, this protein is thought to regulate the expression of phenylserine aldolase. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380405 [Multi-domain]  Cd Length: 76  Bit Score: 42.38  E-value: 1.28e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 671634161  40 HSHETFSIGAITAGQSTYLHEKSSQRVTAGTAVLMNPGDVHACNPINNQPWSYLMLYV 97
Cdd:cd07001   18 HFHDFYVIGFIESGQRTLFCEGKEYTVEPGDLLLINPRDVHSCIQISGRRLDYERINI 75
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
37-81 2.26e-03

Cupin domain protein related to quercetin dioxygenase [General function prediction only];


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 36.75  E-value: 2.26e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 671634161  37 YAPHSHETFSIGAITAGQSTYLHEKSSQRVTAGTAVLMNPGDVHA 81
Cdd:COG1917   36 TPWHSHPGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHA 80
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
194-276 3.95e-25

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 95.31  E-value: 3.95e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161   194 PIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLKSGKM-IADVAQETGFADQAHFQREFKKHLAATP 272
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLsVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 671634161   273 GQYR 276
Cdd:smart00342  81 SEYR 84
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 167-276 4.59e-25

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 102.05  E-value: 4.59e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 167 DAAPAPPLQlSPRVTRAAEYINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLKSGKMIA 246
Cdd:COG2169   74 DLAPGSPPR-ADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGLSVT 152

                         90       100       110
                 ....*....|....*....|....*....|
gi 671634161 247 DVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:COG2169  153 DAAYAAGFGSLSRFYEAFKKLLGMTPSAYR 182
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 166-276 3.23e-23

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 96.38  E-value: 3.23e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 166 FDAAPAPPLQLSPRVTRAAEYINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLKSGKM- 244
Cdd:COG4977  198 FSPLLVPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLs 277

                         90       100       110
                 ....*....|....*....|....*....|..
gi 671634161 245 IADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:COG4977  278 IEEIAAACGFGSASHFRRAFRRRFGVSPSAYR 309
HTH_18 pfam12833
Helix-turn-helix domain;
200-276 3.83e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 87.26  E-value: 3.83e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 671634161  200 ICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQL--KSGKMIADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLleDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
195-276 4.25e-22

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 92.54  E-value: 4.25e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 195 IKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLKSGKM-IADVAQETGFADQAHFQREFKKHLAATPG 273
Cdd:COG2207  169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLsISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                 ...
gi 671634161 274 QYR 276
Cdd:COG2207  249 EYR 251
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 154-276 5.03e-20

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 88.58  E-value: 5.03e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161  154 TAVAFFTLTLETFDAAPapplqLSPRVTRAAEYINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQ 233
Cdd:TIGR04094 266 SAIIYFTELLHEISINH-----HSPLIRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIE 340

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 671634161  234 HAQTQLKSGKMIADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:TIGR04094 341 EAKYLLRSQIPVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 24-130 1.74e-15

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 71.31  E-value: 1.74e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161   24 IEARSVEDGrlvcYAPHSHETFSIGAITAGQSTYLHEKSSQRVTAGTAVLMNPGDVHACNPINNQPWSYLMLYVDSHWLG 103
Cdd:pfam02311   7 IEARYPGHS----FPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPELLE 82

                          90       100
                  ....*....|....*....|....*..
gi 671634161  104 DIQQDIGLNAESGFQPLPYTHTSDPLL 130
Cdd:pfam02311  83 RILADISILAGGPLPLLRDPELAALLR 109
ftrA PRK09393
transcriptional activator FtrA; Provisional
 166-276 7.84e-13

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 67.30  E-value: 7.84e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 166 FDAAPAPPLQlSPRVTRAAEYINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLKSGKM- 244
Cdd:PRK09393 207 FVPRPVASRE-SDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALs 285

                         90       100       110
                 ....*....|....*....|....*....|..
gi 671634161 245 IADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:PRK09393 286 IDQIAERAGFGSEESLRHHFRRRAATSPAAYR 317
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
161-276 6.19e-12

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 64.61  E-value: 6.19e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 161 LTLETFDAAPAPPLQ-LSPRVTRAAEYINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQL 239
Cdd:PRK10572 165 LLLRCMEAIPESLHPpMDPRVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLL 244

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 671634161 240 KSGKM-IADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:PRK10572 245 QTTRMpIATIGRNVGYDDQLYFSRVFKKCTGASPSEFR 282
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
14-276 3.20e-10

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 59.73  E-value: 3.20e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161  14 FFWRDECLPFIEARSVEDgrlvCYAPHSHETFSIGAITAGQSTYLHEKSSQRVTAGTAVLMNPGDVHACNPINN---QPW 90
Cdd:PRK13500  42 FFASDQQAVAVADRYPQD----VFAEHTHDFCELVIVWRGNGLHVLNDRPYRITRGDLFYIHADDKHSYASVNDlvlQNI 117

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161  91 SY----LMLYVD--------------SHW-LGDI-----QQDIGLNAESGFQPLPYTHTSDPLLFGKLTALyqtltdaka 146
Cdd:PRK13500 118 IYcperLKLNLDwqgaipgfsasagqPHWrLGSVgmaqaRQVIGQLEHESSQHVPFANEMAELLFGQLVML--------- 188

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 147 dtLQKHctavafftltleTFDAAPAPPLQLSPRVTRAAEYINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAY 226
Cdd:PRK13500 189 --LNRH------------RYTSDSLPPTSSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQY 254

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|.
gi 671634161 227 LLNRRIQHAQTQLKSGKM-IADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:PRK13500 255 LRQVRVCHAQYLLQHSRLlISDISTECGFEDSNYFSVVFTRETGMTPSQWR 305
PRK10371 PRK10371
transcriptional regulator MelR;
180-277 1.12e-08

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 54.83  E-value: 1.12e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 180 VTRAAEYINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLK-SGKMIADVAQETGFADQA 258
Cdd:PRK10371 193 VSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSdTDKSILDIALTAGFRSSS 272

                         90
                 ....*....|....*....
gi 671634161 259 HFQREFKKHLAATPGQYRL 277
Cdd:PRK10371 273 RFYSTFGKYVGMSPQQYRK 291
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
185-276 1.60e-08

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 51.46  E-value: 1.60e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 185 EYINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLK-SGKMIADVAQETGFADQAHFQRE 263
Cdd:PRK10219  12 AWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRtTERPIFDIAMDLGYVSQQTFSRV 91

                         90
                 ....*....|...
gi 671634161 264 FKKHLAATPGQYR 276
Cdd:PRK10219  92 FRRQFDRTPSDYR 104
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 167-276 1.72e-08

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 54.27  E-value: 1.72e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 167 DAAPAPPLQLSPRVTRAAEYINDNFTRPIKLADicaAANLSASYLIRSFEQRyHLTPHAYLLNRRIQHAQTQLKS---GK 243
Cdd:PRK09685 190 SVQPRRERQFQKVVALIDQSIQEEILRPEWIAG---ELGISVRSLYRLFAEQ-GLVVAQYIRNRRLDRCADDLRPaadDE 265

                         90       100       110
                 ....*....|....*....|....*....|...
gi 671634161 244 MIADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:PRK09685 266 KITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYR 298
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
14-276 6.01e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 52.75  E-value: 6.01e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161  14 FFWRDECLPFIEARSVEDgrlvCYAPHSHETFSIGAITAGQSTYLHEKSSQRVTAGTAVLMNPGDVHACNPINN---QPW 90
Cdd:PRK13502  12 FFTDEQQAVTVADRYPQD----VFAEHTHEFCELVMVWRGNGLHVLNERPYRITRGDLFYIRAEDKHSYTSVNDlvlQNI 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161  91 SY----LMLYVD--------------SHW------LGDIQQDIG-LNAESGFQPlPYTHTSDPLLFGKLTAlyqtltdak 145
Cdd:PRK13502  88 IYcperLKLNVNwqamipgfqgaqwhPHWrlgsmgMNQARQVINqLEHESNGRD-PLANEMAELLFGQLVM--------- 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 146 adTLQKHCTAVafftltletfDAAPAPPLQ--LSPRVTRAAeyinDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTP 223
Cdd:PRK13502 158 --TLKRHRYAT----------DDLPATSREtlLDKLITALA----NSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTI 221

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....
gi 671634161 224 HAYLLNRRIQHAQTQLKSGK-MIADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:PRK13502 222 NQYLRQVRICHAQYLLQHSPlMISEISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
37-276 7.75e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 52.21  E-value: 7.75e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161  37 YAPHSHETFSIGAITAGQSTYLHEKSSQRVTAGTAVLMNPGDVHACNPINNQPWSYLM-----LYVDSHWLGDIQQDIGL 111
Cdd:PRK13501  31 FVEHTHQFCEIVIVWRGNGLHVLNDHPYRITCGDVFYIQAADHHSYESVHDLVLDNIIycperLHLNAQWHKLLPPLGPE 110

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 112 NAESGFQplpYTHTSDPLLFGKLTALYQTltDAKADTLQKHCTAVAFFTLTL----ETFDAAPAPPLQLSPRVTRAAEYI 187
Cdd:PRK13501 111 QNQGYWR---LTTQGMAQARPIIQQLAQE--SRKTDSWSIQLTEVLLLQLAIvlkrHRYRAEQAHLLPDGEQLDLIMSAL 185

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 188 NDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLKSGK-MIADVAQETGFADQAHFQREFKK 266
Cdd:PRK13501 186 QQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEhRISDIAARCGFEDSNYFSAVFTR 265

                        250
                 ....*....|
gi 671634161 267 HLAATPGQYR 276
Cdd:PRK13501 266 EAGMTPRDYR 275
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 187-272 3.75e-07

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 50.08  E-value: 3.75e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 187 INDNFTRPIKLADICAAANLSASYLIRSFEQRyHLTPHAYLLNRRIQHAQTQLKSGKMIADVAQETGFADQAHFQREFKK 266
Cdd:PRK09940 143 VNMKLAHPWKLKDICDCLYISESLLKKKLKQE-QTTFSQILLDARMQHAKNLIRVEGSVNKIAEQCGYASTSYFIYAFRK 221


                 ....*.
gi 671634161 267 HLAATP 272
Cdd:PRK09940 222 HFGNSP 227
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 207-276 3.79e-07

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 50.14  E-value: 3.79e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 671634161 207 SASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLK-SGKMIADVAQETGFADQAHFQREFKKHLAATPGQYR 276
Cdd:PRK10296 201 SQEYLTRATRRYYGKTPMQIINEIRINFAKKQLEmTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYR 271
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 187-227 8.20e-07

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 44.84  E-value: 8.20e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 671634161  187 INDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYL 227
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYR 41
cupin_YbfI-like_N cd07001
AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal ...
 40-97 1.28e-05

AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal cupin domain; This family contains bacterial proteins containing an AraC/XylS family helix-turn-helix (HTH) DNA-binding domain C-terminal to a cupin domain, and may be possible transcriptional regulators, including YbfI, an uncharacterized Bacillus subtilis. In Pseudomonas putida, this protein is thought to regulate the expression of phenylserine aldolase. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380405 [Multi-domain]  Cd Length: 76  Bit Score: 42.38  E-value: 1.28e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 671634161  40 HSHETFSIGAITAGQSTYLHEKSSQRVTAGTAVLMNPGDVHACNPINNQPWSYLMLYV 97
Cdd:cd07001   18 HFHDFYVIGFIESGQRTLFCEGKEYTVEPGDLLLINPRDVHSCIQISGRRLDYERINI 75
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
186-276 6.63e-05

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 43.51  E-value: 6.63e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 186 YINDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLLNRRIQHAQTQLK-SGKMIADVAQETGFADQAHFQREF 264
Cdd:PRK13503 179 WLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRhSDASVTDIAYRCGFGDSNHFSTLF 258

                         90
                 ....*....|..
gi 671634161 265 KKHLAATPGQYR 276
Cdd:PRK13503 259 RREFSWSPRDIR 270
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 232-276 1.15e-04

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 38.67  E-value: 1.15e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 671634161  232 IQHAQTQLKsgkmIADVAQETGFaDQAHFQREFKKHLAATPGQYR 276
Cdd:pfam00165   2 RENLSTNLT----IADIADELGF-SRSYFSRLFKKYTGVTPSQYR 41
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
193-276 1.68e-04

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 42.30  E-value: 1.68e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 193 RPIKLADICAAANLSASYLIRSFEQryhLTPHA---YLLNRRIQHAQTQLK-SGKMIADVAQETGFADQAHFQREFKKHL 268
Cdd:PRK15121  20 QPLSLDNVAAKAGYSKWHLQRMFKD---VTGHAigaYIRARRLSKAAVALRlTSRPILDIALQYRFDSQQTFTRAFKKQF 96


                 ....*...
gi 671634161 269 AATPGQYR 276
Cdd:PRK15121  97 AQTPALYR 104
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
37-81 2.26e-03

Cupin domain protein related to quercetin dioxygenase [General function prediction only];


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 36.75  E-value: 2.26e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 671634161  37 YAPHSHETFSIGAITAGQSTYLHEKSSQRVTAGTAVLMNPGDVHA 81
Cdd:COG1917   36 TPWHSHPGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHA 80
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 187-275 5.20e-03

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 37.74  E-value: 5.20e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 187 INDNFTRPIKLADICAAANLSASYLIRSFEQRYHLTPHAYLlNRRIQHAQTQLKSGKM-IADVAQETGFADQAHFQREFK 265
Cdd:PRK15186 190 IISDISRKWALKDISDSLYMSCSTLKRKLKQENTSFSEVYL-NARMNKATKLLRNSEYnITRVAYMCGYDSASYFTCVFK 268

                         90
                 ....*....|
gi 671634161 266 KHLAATPGQY 275
Cdd:PRK15186 269 KHFKTTPSEF 278
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 119-276 5.90e-03

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 37.60  E-value: 5.90e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 119 PLPYTHTSDPLLFGKLTALYQTLTDAKADTLQKHCTAVAFFTLTLETFDAAPAPPLQLSPRV-TRAAEYINDNFTRPIKL 197
Cdd:PRK09978  82 LLVHHCSRDIPVFQEVAQLSQNKNLRYAEMLRKRALIFALLSVFLEDEHFIPLLLNVLQPNMrTRVCTVINNNIAHEWTL 161

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 671634161 198 ADICAAANLSASYLIRSFeqRYHLTPHAYLLNR-RIQHAQTQLK-SGKMIADVAQETGFADQAHFQREFKKHLAATPGQY 275
Cdd:PRK09978 162 ARIASELLMSPSLLKKKL--REEETSYSQLLTEcRMQRALQLIViHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEY 239


                 .
gi 671634161 276 R 276
Cdd:PRK09978 240 Q 240
 
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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