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Conserved domains on  [gi|2795877663|ref|WP_372657384|]
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helix-turn-helix transcriptional regulator, partial [Anaerobutyricum hallii]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10787697)

helix-turn-helix (HTH) transcriptional regulator containing a XRE (Xenobiotic Response Element) family HTH domain may act as a transcriptional regulator that controls the expression of genes involved in stress response

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  10473770|2644244
SCOP:  4000362

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
7-45 2.37e-10

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


:

Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 49.46  E-value: 2.37e-10
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 2795877663  7 TMKTKNIILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:COG1476    2 KKKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENG 40
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
7-45 2.37e-10

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 49.46  E-value: 2.37e-10
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 2795877663  7 TMKTKNIILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:COG1476    2 KKKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENG 40
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 14-45 3.23e-09

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 46.38  E-value: 3.23e-09
                         10        20        30
                 ....*....|....*....|....*....|..
gi 2795877663 14 ILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENG 32
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
14-45 3.70e-09

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 45.97  E-value: 3.70e-09
                          10        20        30
                  ....*....|....*....|....*....|..
gi 2795877663  14 ILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:smart00530  2 LKELREEKGLTQEELAEKLGVSRSTLSRIENG 33
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 12-45 4.50e-09

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 46.01  E-value: 4.50e-09
                         10        20        30
                 ....*....|....*....|....*....|....
gi 2795877663 12 NIILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENG 35
PRK04140 PRK04140
transcriptional regulator;
12-45 1.97e-03

transcriptional regulator;


Pssm-ID: 235224 [Multi-domain]  Cd Length: 317  Bit Score: 33.29  E-value: 1.97e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 2795877663  12 NIILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:PRK04140  129 DVLREAREELGLSLGELASELGVSRRTISKYENG 162
couple_hipB TIGR03070
transcriptional regulator, y4mF family; Members of this family belong to a clade of ...
 12-45 5.81e-03

transcriptional regulator, y4mF family; Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems. [Regulatory functions, DNA interactions]


Pssm-ID: 213767 [Multi-domain]  Cd Length: 58  Bit Score: 30.32  E-value: 5.81e-03
                         10        20        30
                 ....*....|....*....|....*....|....
gi 2795877663 12 NIILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:TIGR03070  5 ILVRARRKALGLTQADLADLAGVGLRFIRDLENG 38
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
7-45 2.37e-10

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 49.46  E-value: 2.37e-10
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 2795877663  7 TMKTKNIILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:COG1476    2 KKKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENG 40
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 14-45 3.23e-09

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 46.38  E-value: 3.23e-09
                         10        20        30
                 ....*....|....*....|....*....|..
gi 2795877663 14 ILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENG 32
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
14-45 3.70e-09

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 45.97  E-value: 3.70e-09
                          10        20        30
                  ....*....|....*....|....*....|..
gi 2795877663  14 ILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:smart00530  2 LKELREEKGLTQEELAEKLGVSRSTLSRIENG 33
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 12-45 4.50e-09

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 46.01  E-value: 4.50e-09
                         10        20        30
                 ....*....|....*....|....*....|....
gi 2795877663 12 NIILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENG 35
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
3-45 2.29e-08

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 44.60  E-value: 2.29e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 2795877663  3 MEVTTMKTKNIILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERG 43
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 13-45 7.08e-07

Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and HTH domains [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441418 [Multi-domain]  Cd Length: 70  Bit Score: 40.69  E-value: 7.08e-07
                         10        20        30
                 ....*....|....*....|....*....|...
gi 2795877663 13 IILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:COG1813   16 RIREAREARGLSQEELAEKLGVSESTIRRIERG 48
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
14-45 3.99e-05

DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 36.07  E-value: 3.99e-05
                         10        20        30
                 ....*....|....*....|....*....|..
gi 2795877663 14 ILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:COG2944   11 IRALRERLGLSQAEFAALLGVSVSTVRRWEQG 42
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 17-45 7.05e-05

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433309 [Multi-domain]  Cd Length: 64  Bit Score: 35.58  E-value: 7.05e-05
                         10        20
                 ....*....|....*....|....*....
gi 2795877663 17 LRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:pfam13560  9 LRERAGLSQEALARRLGVSRSTLSRLETG 37
COG1395 COG1395
Predicted transcriptional regulator [Transcription];
16-45 2.57e-04

Predicted transcriptional regulator [Transcription];


Pssm-ID: 441005 [Multi-domain]  Cd Length: 313  Bit Score: 35.58  E-value: 2.57e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 2795877663  16 KLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:COG1395   134 ELREERGLSLGELASELGVSRRTISKYERG 163
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 20-45 6.95e-04

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 33.24  E-value: 6.95e-04
                         10        20
                 ....*....|....*....|....*.
gi 2795877663 20 ERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:COG3093   20 PLGLSQTELAKALGVSRQRISEILNG 45
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 7-45 7.25e-04

Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain CBS pair) [Transcription];


Pssm-ID: 442838 [Multi-domain]  Cd Length: 95  Bit Score: 33.45  E-value: 7.25e-04
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 2795877663  7 TMKTKNIILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:COG3620   15 DDTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESG 53
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
24-45 1.92e-03

DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];


Pssm-ID: 443351  Cd Length: 68  Bit Score: 31.81  E-value: 1.92e-03
                         10        20
                 ....*....|....*....|..
gi 2795877663 24 SQDELADKIMVTRQAVSRWENG 45
Cdd:COG4197   10 SQSALARALGVSQQAVSQWLNG 31
PRK04140 PRK04140
transcriptional regulator;
12-45 1.97e-03

transcriptional regulator;


Pssm-ID: 235224 [Multi-domain]  Cd Length: 317  Bit Score: 33.29  E-value: 1.97e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 2795877663  12 NIILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:PRK04140  129 DVLREAREELGLSLGELASELGVSRRTISKYENG 162
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 16-45 2.49e-03

Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441035 [Multi-domain]  Cd Length: 71  Bit Score: 31.70  E-value: 2.49e-03
                         10        20        30
                 ....*....|....*....|....*....|
gi 2795877663 16 KLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:COG1426   12 QAREAKGLSLEDVAERTKISVSYLEAIEEG 41
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
13-42 2.74e-03

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 32.18  E-value: 2.74e-03
                           10        20        30
                   ....*....|....*....|....*....|
gi 2795877663   13 IILKLRTERGMSQDELADKIMVTRQAVSRW 42
Cdd:smart00347  15 VLRILYEEGPLSVSELAKRLGVSPSTVTRV 44
couple_hipB TIGR03070
transcriptional regulator, y4mF family; Members of this family belong to a clade of ...
 12-45 5.81e-03

transcriptional regulator, y4mF family; Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems. [Regulatory functions, DNA interactions]


Pssm-ID: 213767 [Multi-domain]  Cd Length: 58  Bit Score: 30.32  E-value: 5.81e-03
                         10        20        30
                 ....*....|....*....|....*....|....
gi 2795877663 12 NIILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:TIGR03070  5 ILVRARRKALGLTQADLADLAGVGLRFIRDLENG 38
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
13-45 8.03e-03

DNA-binding transcriptional regulator, XRE family [Transcription];


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 30.11  E-value: 8.03e-03
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 2795877663 13 IILKLRT---ERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:COG3655    2 IYVKLDEllaERGMTKKELAEATGISRATLSRLKNG 37
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 14-45 9.21e-03

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. This family contains many example antitoxins from bacterial toxin-antitoxin systems. These antitoxins are likely to be DNA-binding domains.


Pssm-ID: 463728 [Multi-domain]  Cd Length: 64  Bit Score: 29.95  E-value: 9.21e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 2795877663 14 ILKLRTERGMSQDELADKIMVTRQAVSRWENG 45
Cdd:pfam12844  4 LRKAREERGLTQEELAERLGISRSQLSAIENG 35
 
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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