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Conserved domains on  [gi|2560666179|ref|WP_305206480|]
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AraC family transcriptional regulator [Alistipes finegoldii]

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];
1-52 9.71e-12

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 56.71  E-value: 9.71e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2560666179   1 MEKMMQLLCEGQ-SVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQFAPKR 52
Cdd:COG2207   206 LERAKRLLAETDlSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLRARA 258
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
1-52 9.71e-12

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 56.71  E-value: 9.71e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2560666179   1 MEKMMQLLCEGQ-SVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQFAPKR 52
Cdd:COG2207   206 LERAKRLLAETDlSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLRARA 258
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
1-45 3.73e-10

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 49.86  E-value: 3.73e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2560666179   1 MEKMMQLLCEGQ-SVSEAAAELGFSDIKNVSRTFRQLKGITPSEYR 45
Cdd:smart00342 39 LERARRLLRDTDlSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
1-47 1.26e-09

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 48.35  E-value: 1.26e-09
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 2560666179  1 MEKMMQLLCE--GQSVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQ 47
Cdd:pfam12833 33 LERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRRR 81
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 1-45 8.70e-08

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: 45.82  E-value: 8.70e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2560666179   1 MEKMMQLLCEGQSVSEAAAELGFSDIKNVSRTFRQLKGITPSEYR 45
Cdd:TIGR04094 339 IEEAKYLLRSQIPVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 10-49 2.00e-06

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 41.94  E-value: 2.00e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 2560666179  10 EGQSVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQFA 49
Cdd:PRK09685  263 DDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRKFR 302
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
1-52 9.71e-12

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 56.71  E-value: 9.71e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2560666179   1 MEKMMQLLCEGQ-SVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQFAPKR 52
Cdd:COG2207   206 LERAKRLLAETDlSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLRARA 258
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 6-53 2.08e-10

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: 53.24  E-value: 2.08e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2560666179   6 QLLCEGQ-SVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQFAPKRR 53
Cdd:COG4977   269 RLLETTDlSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRFRARAA 317
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
1-45 3.73e-10

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 49.86  E-value: 3.73e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2560666179   1 MEKMMQLLCEGQ-SVSEAAAELGFSDIKNVSRTFRQLKGITPSEYR 45
Cdd:smart00342 39 LERARRLLRDTDlSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
1-47 1.26e-09

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 48.35  E-value: 1.26e-09
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 2560666179  1 MEKMMQLLCE--GQSVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQ 47
Cdd:pfam12833 33 LERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRRR 81
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 1-45 8.70e-08

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: 45.82  E-value: 8.70e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2560666179   1 MEKMMQLLCEGQSVSEAAAELGFSDIKNVSRTFRQLKGITPSEYR 45
Cdd:TIGR04094 339 IEEAKYLLRSQIPVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 1-53 1.07e-07

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: 45.81  E-value: 1.07e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2560666179   1 MEKMMQLLCEGQSVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQFAPKRR 53
Cdd:COG2169   138 LLRARQLLQTGLSVTDAAYAAGFGSLSRFYEAFKKLLGMTPSAYRRGGAGAAI 190
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 10-49 2.00e-06

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 41.94  E-value: 2.00e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 2560666179  10 EGQSVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQFA 49
Cdd:PRK09685  263 DDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRKFR 302
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 8-45 2.04e-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: 36.75  E-value: 2.04e-05
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 2560666179  8 LCEGQSVSEAAAELGFSdIKNVSRTFRQLKGITPSEYR 45
Cdd:pfam00165  5 LSTNLTIADIADELGFS-RSYFSRLFKKYTGVTPSQYR 41
ftrA PRK09393
transcriptional activator FtrA; Provisional
 10-49 1.49e-04

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 36.87  E-value: 1.49e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 2560666179  10 EGQSVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQFA 49
Cdd:PRK09393  282 SALSIDQIAERAGFGSEESLRHHFRRRAATSPAAYRKRFG 321
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
11-51 2.00e-04

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 36.49  E-value: 2.00e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 2560666179  11 GQSVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQFAPK 51
Cdd:PRK10572  248 RMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRARCEEK 288
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 1-49 2.60e-04

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 36.06  E-value: 2.60e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 2560666179   1 MEKMMQLL-CEGQSVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQFA 49
Cdd:PRK09978  195 MQRALQLIvIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQERSA 244
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
14-48 3.89e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 35.65  E-value: 3.89e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 2560666179  14 VSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQF 48
Cdd:PRK13501  244 ISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQRF 278
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
6-47 3.04e-03

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 33.21  E-value: 3.04e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2560666179   6 QLLCEGQSVSEAAAELGFSDiKNVSRTFRQLKGITPSEYREQ 47
Cdd:COG2207   163 LLLLLLLTLEELARELGLSP-RTLSRLFKEETGTSPKQYLRE 203
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 6-49 4.83e-03

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 32.42  E-value: 4.83e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 2560666179   6 QLLCEGQSVSEAAAELGFSDIKNVSRTFRQLKGITPSEYREQFA 49
Cdd:PRK10296  232 QLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRKKLT 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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