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Conserved domains on  [gi|515664442|ref|WP_017097042|]
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MULTISPECIES: AraC family transcriptional regulator [Vibrio]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 11677366)

AraC family transcriptional regulator containing an AraC family helix-turn-helix (HTH) DNA-binding domain, may regulate the expression of genes with diverse biological functions including metabolism, stress response, and virulence

CATH:  1.10.10.10
Gene Ontology:  GO:0003677|GO:0006355|GO:0003700
PubMed:  33837749|12596232|10473770|15808743|9409145|11282467

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
249-334 3.57e-13

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 68.65  E-value: 3.57e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442 249 TLHKVSSLLGLSEQQFQRRLHKS-GINFSTIMGYALSNVAVELLMYS-VPVEEVSKRLGYTNVASFNRMFKKHRGLTPKQ 326
Cdd:COG2207  170 TLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETdLSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                 ....*...
gi 515664442 327 YIERFDSQ 334
Cdd:COG2207  250 YRKRLRAR 257
Arabinose_bd super family cl14988
Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial ...
 56-196 3.99e-08

Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial transcriptional regulatory protein with a DNA-binding domain at the C-terminus, HTH_AraC, pfam00165, and this dimerization domain which harbours the arabinose-binding pocket at the N-terminus. AraC positively and negatively regulates expression of the proteins required for the uptake and catabolism of the sugar L-arabinose 1,2,3].


The actual alignment was detected with superfamily member pfam12625:

Pssm-ID: 432679  Cd Length: 185  Bit Score: 52.64  E-value: 3.99e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442   56 LEQQTNDPDIILKLSDRVDIEKLGPLtnwffsGH------DLASTIRRVnIGLHCLQSGAFLYG--AQVGTMIKWCYDNP 127
Cdd:pfam12625  37 AARELGDPALGLRLGRRLRPGSLGLL------GYaalsspTLGEALDRL-LRYLRLLSDALELRleEGEGGLARLRLDVR 109

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442  128 AYSETGKVHDSIRVAVFIMKILRRYLGDDFKPVAVSIAGRR-ENVDLYHEYFGCTIQWGQPRTEVWIPSE 196
Cdd:pfam12625 110 PIPGRRRDFLLELALAALLRLARWLLGRRLPPLRVEFPHPApADAAEYERLFGCPVRFGAPRNALVFDAA 179
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
249-334 3.57e-13

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 68.65  E-value: 3.57e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442 249 TLHKVSSLLGLSEQQFQRRLHKS-GINFSTIMGYALSNVAVELLMYS-VPVEEVSKRLGYTNVASFNRMFKKHRGLTPKQ 326
Cdd:COG2207  170 TLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETdLSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                 ....*...
gi 515664442 327 YIERFDSQ 334
Cdd:COG2207  250 YRKRLRAR 257
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
248-327 4.92e-13

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 63.73  E-value: 4.92e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442   248 PTLHKVSSLLGLSEQQFQRRLHK-SGINFST-IMGYALSNVAVELLMYSVPVEEVSKRLGYTNVASFNRMFKKHRGLTPK 325
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKeTGTTPKQyLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ..
gi 515664442   326 QY 327
Cdd:smart00342  82 EY 83
HTH_18 pfam12833
Helix-turn-helix domain;
257-330 1.90e-12

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 62.22  E-value: 1.90e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 515664442  257 LGLSEQQFQRRLHK-SGINFSTIMGYALSNVAVELLMY--SVPVEEVSKRLGYTNVASFNRMFKKHRGLTPKQYIER 330
Cdd:pfam12833   5 LGMSPRTLSRLFKReLGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRRR 81
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 259-327 4.06e-09

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: 57.38  E-value: 4.06e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 515664442  259 LSEQQFqRRLHKSGINFsTIMGYaLSNVAVE----LLMYSVPVEEVSKRLGYTNVASFNRMFKKHRGLTPKQY 327
Cdd:TIGR04094 313 MSESKL-RKLFKKEMGI-SIQEY-ISKRKIEeakyLLRSQIPVSEVSNELGFYDLSHFSRTFKKHTGVSPKQY 382
Arabinose_bd pfam12625
Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial ...
 56-196 3.99e-08

Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial transcriptional regulatory protein with a DNA-binding domain at the C-terminus, HTH_AraC, pfam00165, and this dimerization domain which harbours the arabinose-binding pocket at the N-terminus. AraC positively and negatively regulates expression of the proteins required for the uptake and catabolism of the sugar L-arabinose 1,2,3].


Pssm-ID: 432679  Cd Length: 185  Bit Score: 52.64  E-value: 3.99e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442   56 LEQQTNDPDIILKLSDRVDIEKLGPLtnwffsGH------DLASTIRRVnIGLHCLQSGAFLYG--AQVGTMIKWCYDNP 127
Cdd:pfam12625  37 AARELGDPALGLRLGRRLRPGSLGLL------GYaalsspTLGEALDRL-LRYLRLLSDALELRleEGEGGLARLRLDVR 109

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442  128 AYSETGKVHDSIRVAVFIMKILRRYLGDDFKPVAVSIAGRR-ENVDLYHEYFGCTIQWGQPRTEVWIPSE 196
Cdd:pfam12625 110 PIPGRRRDFLLELALAALLRLARWLLGRRLPPLRVEFPHPApADAAEYERLFGCPVRFGAPRNALVFDAA 179
ftrA PRK09393
transcriptional activator FtrA; Provisional
 251-333 9.94e-06

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 46.50  E-value: 9.94e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442 251 HKVSSL---LGLSEQQFQRRlhksginFSTIMGYALS--------NVAVELLMYS-VPVEEVSKRLGYTNVASFNRMFKK 318
Cdd:PRK09393 235 HTVASLaarAAMSPRTFLRR-------FEAATGMTPAewllrerlARARDLLESSaLSIDQIAERAGFGSEESLRHHFRR 307

                         90
                 ....*....|....*
gi 515664442 319 HRGLTPKQYIERFDS 333
Cdd:PRK09393 308 RAATSPAAYRKRFGR 322
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
249-334 3.57e-13

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 68.65  E-value: 3.57e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442 249 TLHKVSSLLGLSEQQFQRRLHKS-GINFSTIMGYALSNVAVELLMYS-VPVEEVSKRLGYTNVASFNRMFKKHRGLTPKQ 326
Cdd:COG2207  170 TLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETdLSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                 ....*...
gi 515664442 327 YIERFDSQ 334
Cdd:COG2207  250 YRKRLRAR 257
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
248-327 4.92e-13

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 63.73  E-value: 4.92e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442   248 PTLHKVSSLLGLSEQQFQRRLHK-SGINFST-IMGYALSNVAVELLMYSVPVEEVSKRLGYTNVASFNRMFKKHRGLTPK 325
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKeTGTTPKQyLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ..
gi 515664442   326 QY 327
Cdd:smart00342  82 EY 83
HTH_18 pfam12833
Helix-turn-helix domain;
257-330 1.90e-12

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 62.22  E-value: 1.90e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 515664442  257 LGLSEQQFQRRLHK-SGINFSTIMGYALSNVAVELLMY--SVPVEEVSKRLGYTNVASFNRMFKKHRGLTPKQYIER 330
Cdd:pfam12833   5 LGMSPRTLSRLFKReLGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRRR 81
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 259-327 4.06e-09

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: 57.38  E-value: 4.06e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 515664442  259 LSEQQFqRRLHKSGINFsTIMGYaLSNVAVE----LLMYSVPVEEVSKRLGYTNVASFNRMFKKHRGLTPKQY 327
Cdd:TIGR04094 313 MSESKL-RKLFKKEMGI-SIQEY-ISKRKIEeakyLLRSQIPVSEVSNELGFYDLSHFSRTFKKHTGVSPKQY 382
Arabinose_bd pfam12625
Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial ...
 56-196 3.99e-08

Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial transcriptional regulatory protein with a DNA-binding domain at the C-terminus, HTH_AraC, pfam00165, and this dimerization domain which harbours the arabinose-binding pocket at the N-terminus. AraC positively and negatively regulates expression of the proteins required for the uptake and catabolism of the sugar L-arabinose 1,2,3].


Pssm-ID: 432679  Cd Length: 185  Bit Score: 52.64  E-value: 3.99e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442   56 LEQQTNDPDIILKLSDRVDIEKLGPLtnwffsGH------DLASTIRRVnIGLHCLQSGAFLYG--AQVGTMIKWCYDNP 127
Cdd:pfam12625  37 AARELGDPALGLRLGRRLRPGSLGLL------GYaalsspTLGEALDRL-LRYLRLLSDALELRleEGEGGLARLRLDVR 109

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442  128 AYSETGKVHDSIRVAVFIMKILRRYLGDDFKPVAVSIAGRR-ENVDLYHEYFGCTIQWGQPRTEVWIPSE 196
Cdd:pfam12625 110 PIPGRRRDFLLELALAALLRLARWLLGRRLPPLRVEFPHPApADAAEYERLFGCPVRFGAPRNALVFDAA 179
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 257-331 5.32e-08

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: 53.62  E-value: 5.32e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442 257 LGLSEQQFQRRLHKS-GInfsTIMGYALS---NVAVELLMYS-VPVEEVSKRLGYTNVASFNRMFKKHRGLTPKQYIERF 331
Cdd:COG4977  236 AGMSPRTLERRFRAAtGT---TPARYLQRlrlERARRLLETTdLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRF 312
ftrA PRK09393
transcriptional activator FtrA; Provisional
 251-333 9.94e-06

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 46.50  E-value: 9.94e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442 251 HKVSSL---LGLSEQQFQRRlhksginFSTIMGYALS--------NVAVELLMYS-VPVEEVSKRLGYTNVASFNRMFKK 318
Cdd:PRK09393 235 HTVASLaarAAMSPRTFLRR-------FEAATGMTPAewllrerlARARDLLESSaLSIDQIAERAGFGSEESLRHHFRR 307

                         90
                 ....*....|....*
gi 515664442 319 HRGLTPKQYIERFDS 333
Cdd:PRK09393 308 RAATSPAAYRKRFGR 322
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 249-330 9.33e-05

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 43.38  E-value: 9.33e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442 249 TLHKVSSLLGLSEQQFQRRLHKSGINFSTIMGYALSNVAVELL-MYSVPVEEVSKRLGYTNVASFNRMFKKHRGLTPKQY 327
Cdd:PRK09978 160 TLARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIvIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEY 239


                 ...
gi 515664442 328 IER 330
Cdd:PRK09978 240 QER 242
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
297-330 1.99e-04

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 39.46  E-value: 1.99e-04
                           10        20        30
                   ....*....|....*....|....*....|....
gi 515664442   297 VEEVSKRLGYTnVASFNRMFKKHRGLTPKQYIER 330
Cdd:smart00342   4 LEDLAEALGVS-PRHLQRLFKKETGTTPKQYLRD 36
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 248-327 6.65e-04

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: 41.19  E-value: 6.65e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442 248 PTLHKVSSLLGLSEQQFQRRlhksginFSTIMG-----YALS---NVAVELLMYSVPVEEVSKRLGYTNVASFNRMFKKH 319
Cdd:COG2169  101 PSLEDLAARLGLSPRHLRRL-------FKAHTGvtpkaYARArrlLRARQLLQTGLSVTDAAYAAGFGSLSRFYEAFKKL 173


                 ....*...
gi 515664442 320 RGLTPKQY 327
Cdd:COG2169  174 LGMTPSAY 181
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 250-329 3.17e-03

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 38.82  E-value: 3.17e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442 250 LHKVSSLLGLSEQQFQRRLHKSGINFSTIMGYALSNVAVELLM---YSvpVEEVSKRLGYTNVASFNRMFKKHRGLTPKQ 326
Cdd:PRK15185 225 LTDVADHIFMSTSTLKRKLAEEGTSFSDIYLSARMNQAAKLLRignHN--VNAVALKCGYDSTSYFIQCFKKYFKTTPST 302


                 ...
gi 515664442 327 YIE 329
Cdd:PRK15185 303 FIK 305
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 249-333 3.42e-03

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 38.51  E-value: 3.42e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442 249 TLHKVSSLLGLSEQQFQRRLHKSGINFSTIMGYALSNVAVELLMYS-VPVEEVSKRLGYTNVASFNRMFKKHRGLTPKQY 327
Cdd:PRK15186 199 ALKDISDSLYMSCSTLKRKLKQENTSFSEVYLNARMNKATKLLRNSeYNITRVAYMCGYDSASYFTCVFKKHFKTTPSEF 278


                 ....*.
gi 515664442 328 IERFDS 333
Cdd:PRK15186 279 LAFLSS 284
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 250-334 6.77e-03

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 37.76  E-value: 6.77e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515664442 250 LHKVSSLLGLSEQQFQRRLHKSGINFSTIMGYALSNVAVELLMYSVPVEEVSKRLGYTNVASFNRMFKKHRGLTPKQYIE 329
Cdd:PRK09940 153 LKDICDCLYISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRVEGSVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSK 232


                 ....*
gi 515664442 330 RFDSQ 334
Cdd:PRK09940 233 EYRCQ 237
 
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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