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Conserved domains on  [gi|941509404|gb|ALK82939|]
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Transcriptional regulator, AraC family [Phocaeicola vulgatus]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 12204063)

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

CATH:  1.10.10.1310
Gene Ontology:  GO:0006355|GO:0043565|GO:0003700
PubMed:  2644244|15808743|8831795
SCOP:  4000332

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;
223-294 4.00e-18

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 77.21  E-value: 4.00e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 941509404   223 LADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLTQTDLPLVEVAEVCGFVSQSYLTEFCQMNFGQ 294
Cdd:smart00342   7 LAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGV 78
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
223-294 4.00e-18

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 77.21  E-value: 4.00e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 941509404   223 LADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLTQTDLPLVEVAEVCGFVSQSYLTEFCQMNFGQ 294
Cdd:smart00342   7 LAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGV 78
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
223-294 5.79e-17

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 79.05  E-value: 5.79e-17
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 941509404 223 LADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLTQTDLPLVEVAEVCGFVSQSYLTEFCQMNFGQ 294
Cdd:COG2207  174 LARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGV 245
HTH_18 pfam12833
Helix-turn-helix domain;
223-293 1.16e-14

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.00  E-value: 1.16e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 941509404  223 LADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLTQ-TDLPLVEVAEVCGFVSQSYLTEFCQMNFG 293
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFG 72
ftrA PRK09393
transcriptional activator FtrA; Provisional
 223-280 3.46e-06

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 47.65  E-value: 3.46e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 941509404 223 LADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLTQTDLPLVEVAEVCGFVS 280
Cdd:PRK09393 240 LAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGS 297
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
223-294 4.00e-18

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 77.21  E-value: 4.00e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 941509404   223 LADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLTQTDLPLVEVAEVCGFVSQSYLTEFCQMNFGQ 294
Cdd:smart00342   7 LAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGV 78
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
223-294 5.79e-17

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 79.05  E-value: 5.79e-17
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 941509404 223 LADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLTQTDLPLVEVAEVCGFVSQSYLTEFCQMNFGQ 294
Cdd:COG2207  174 LARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGV 245
HTH_18 pfam12833
Helix-turn-helix domain;
223-293 1.16e-14

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.00  E-value: 1.16e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 941509404  223 LADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLTQ-TDLPLVEVAEVCGFVSQSYLTEFCQMNFG 293
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFG 72
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 223-284 2.89e-14

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: 71.73  E-value: 2.89e-14
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 941509404 223 LADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLTQTDLPLVEVAEVCGFVSQSYL 284
Cdd:COG4977  232 LARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHF 293
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 222-283 2.25e-10

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: 60.84  E-value: 2.25e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 941509404 222 HLADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLtQTDLPLVEVAEVCGFVSQSY 283
Cdd:COG2169  105 DLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLL-QTGLSVTDAAYAAGFGSLSR 165
ftrA PRK09393
transcriptional activator FtrA; Provisional
 223-280 3.46e-06

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 47.65  E-value: 3.46e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 941509404 223 LADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLTQTDLPLVEVAEVCGFVS 280
Cdd:PRK09393 240 LAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGS 297
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 223-251 6.74e-06

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: 42.53  E-value: 6.74e-06
                          10        20
                  ....*....|....*....|....*....
gi 941509404  223 LADLCGYSLSTFRRLFREEFRTTPHEWLK 251
Cdd:pfam00165  14 IADELGFSRSYFSRLFKKYTGVTPSQYRH 42
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
224-257 4.56e-03

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 37.84  E-value: 4.56e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 941509404 224 ADLCGY-SLSTFRRLFREEFRTTPHEWLKGLRKDK 257
Cdd:COG2207  224 AYELGFsSQSHFSRAFKKRFGVTPSEYRKRLRARA 258
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 224-249 5.48e-03

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: 37.83  E-value: 5.48e-03
                         10        20
                 ....*....|....*....|....*..
gi 941509404 224 ADLCGY-SLSTFRRLFREEFRTTPHEW 249
Cdd:COG4977  282 AAACGFgSASHFRRAFRRRFGVSPSAY 308
HTH_18 pfam12833
Helix-turn-helix domain;
204-251 7.69e-03

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 34.87  E-value: 7.69e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 941509404  204 KRLVEKVTKHCMKakntgHLADLCGY-SLSTFRRLFREEFRTTPHEWLK 251
Cdd:pfam12833  37 RRLLLEDTGLSVA-----EIALALGFsDASHFSRAFRRLFGLTPSEYRR 80
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
206-299 9.02e-03

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 35.29  E-value: 9.02e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 941509404 206 LVEKVTKHCMKAKNTGHLADLCGYSLSTFRRLFREEFRTTPHEWLKGLRKDKVKNLLTQTDLPLVEVAEVCGFVSQSYLT 285
Cdd:PRK10219  10 LIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFS 89

                         90
                 ....*....|....
gi 941509404 286 EFCQMNFGQVRVRY 299
Cdd:PRK10219  90 RVFRRQFDRTPSDY 103
 
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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