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Conserved domains on  [gi|1330707139|ref|WP_102572687|]
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AraC family transcriptional regulator [Vibrio splendidus]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11454391)

helix-turn-helix (HTH) domain-containing protein with an AraC family HTH domain, binds DNA and may function as a transcriptional regulator

CATH:  1.10.10.60
Gene Ontology:  GO:0003700|GO:0003677
PubMed:  10473770|15808743|8831795

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];
236-309 9.16e-14

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 69.81  E-value: 9.16e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1330707139 236 MGKRTIQRALSEE-GTTFRTIKEALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITPYQWKKGH 309
Cdd:COG2207   180 LSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRL 254
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
236-309 9.16e-14

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 69.81  E-value: 9.16e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1330707139 236 MGKRTIQRALSEE-GTTFRTIKEALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITPYQWKKGH 309
Cdd:COG2207   180 LSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRL 254
HTH_18 pfam12833
Helix-turn-helix domain;
236-307 4.44e-13

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 63.76  E-value: 4.44e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1330707139 236 MGKRTIQRALSEE-GTTFRTIKEALSFEFAKRVMTEQ-DYSISDIALHLGYADASQFIRAFKRANGITPYQWKK 307
Cdd:pfam12833   7 MSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLLEDtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
235-302 2.26e-12

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 61.80  E-value: 2.26e-12
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1330707139  235 RMGKRTIQRALSEE-GTTFRTIKEALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITP 302
Cdd:smart00342  12 GVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 236-307 5.07e-07

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 50.38  E-value: 5.07e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1330707139 236 MGKRTIQRALSEEGTTFRTIKEALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITPYQWKK 307
Cdd:PRK15185  234 MSTSTLKRKLAEEGTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTFIK 305
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
236-309 9.16e-14

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 69.81  E-value: 9.16e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1330707139 236 MGKRTIQRALSEE-GTTFRTIKEALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITPYQWKKGH 309
Cdd:COG2207   180 LSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRL 254
HTH_18 pfam12833
Helix-turn-helix domain;
236-307 4.44e-13

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 63.76  E-value: 4.44e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1330707139 236 MGKRTIQRALSEE-GTTFRTIKEALSFEFAKRVMTEQ-DYSISDIALHLGYADASQFIRAFKRANGITPYQWKK 307
Cdd:pfam12833   7 MSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLLEDtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
235-302 2.26e-12

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 61.80  E-value: 2.26e-12
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1330707139  235 RMGKRTIQRALSEE-GTTFRTIKEALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITP 302
Cdd:smart00342  12 GVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 235-309 2.53e-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: 54.39  E-value: 2.53e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1330707139 235 RMGKRTIQRALSEE-GTTFRTIKEALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITPYQWKKGH 309
Cdd:COG4977   237 GMSPRTLERRFRAAtGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRF 312
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 236-307 5.07e-07

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 50.38  E-value: 5.07e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1330707139 236 MGKRTIQRALSEEGTTFRTIKEALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITPYQWKK 307
Cdd:PRK15185  234 MSTSTLKRKLAEEGTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTFIK 305
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 272-309 9.84e-06

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 46.18  E-value: 9.84e-06
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1330707139 272 DYSISDIALHLGYADASQFIRAFKRANGITPYQWKKGH 309
Cdd:PRK09685  264 DEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRKF 301
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 236-311 2.84e-05

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: 45.04  E-value: 2.84e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1330707139 236 MGKRTIQRALSEE-GTTFRTIKEALSFEFAKRVMTEQDySISDIALHLGYADASQFIRAFKRANGITPYQWKKGHVG 311
Cdd:COG2169   112 LSPRHLRRLFKAHtGVTPKAYARARRLLRARQLLQTGL-SVTDAAYAAGFGSLSRFYEAFKKLLGMTPSAYRRGGAG 187
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 263-307 4.70e-05

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 44.36  E-value: 4.70e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1330707139 263 FAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITPYQWKK 307
Cdd:PRK10296  228 FAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRK 272
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
215-307 7.64e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 43.74  E-value: 7.64e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330707139 215 ALLPYIGRvDVDLVSFSQMNRMGKRTIQRALSEE-GTTFRTIKEALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRA 293
Cdd:PRK13501  184 ALQQSLGA-YFDMADFCHKNQLVERSLKQLFRQQtGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAV 262

                          90
                  ....*....|....
gi 1330707139 294 FKRANGITPYQWKK 307
Cdd:PRK13501  263 FTREAGMTPRDYRQ 276
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 271-305 8.22e-05

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: 39.44  E-value: 8.22e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1330707139 271 QDYSISDIALHLGYaDASQFIRAFKRANGITPYQW 305
Cdd:pfam00165   7 TNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQY 40
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 236-309 1.41e-04

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 42.61  E-value: 1.41e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1330707139 236 MGKRTIQRALSEEGTTFRTIKEALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITP--YQWKKGH 309
Cdd:PRK09978  170 MSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPteYQERSAQ 245
PRK10371 PRK10371
transcriptional regulator MelR;
254-307 2.85e-03

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 38.65  E-value: 2.85e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1330707139 254 TIKE---ALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITPYQWKK 307
Cdd:PRK10371  235 TMKQyitAMRINHVRALLSDTDKSILDIALTAGFRSSSRFYSTFGKYVGMSPQQYRK 291
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
227-306 3.54e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 38.50  E-value: 3.54e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330707139 227 LVSFSQMNRMGKRTI-QRALSEEGTTFRTIKEALSFEFAKRVMTEQDYSISDIALHLGYADASQFIRAFKRANGITPYQW 305
Cdd:PRK13502  195 LDAFCQQEQCSERVLrQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQW 274


                  .
gi 1330707139 306 K 306
Cdd:PRK13502  275 R 275
 
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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