NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|737149960|ref|WP_035136926|]
View 

MULTISPECIES: helix-turn-helix domain-containing protein [Collinsella]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11443570)

helix-turn-helix domain-containing protein such as an XRE (Xenobiotic Response Element) family transcriptional regulator

Gene Ontology:  GO:0003677
PubMed:  37972151

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-72 5.11e-13

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 57.70  E-value: 5.11e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 737149960  1 MDERAKQIlGRRVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSELLEGIE 72
Cdd:COG1396   1 MSTLKKAL-GERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGAD 71
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-72 5.11e-13

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 57.70  E-value: 5.11e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 737149960  1 MDERAKQIlGRRVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSELLEGIE 72
Cdd:COG1396   1 MSTLKKAL-GERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGAD 71
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 10-67 2.34e-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: 47.93  E-value: 2.34e-09
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 737149960 10 GRRVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSEL 67
Cdd:cd00093   1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-67 5.21e-09

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 46.74  E-value: 5.21e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 737149960   12 RVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSEL 67
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
PRK08154 PRK08154
anaerobic benzoate catabolism transcriptional regulator; Reviewed
 9-72 1.20e-07

anaerobic benzoate catabolism transcriptional regulator; Reviewed


Pssm-ID: 236167 [Multi-domain]  Cd Length: 309  Bit Score: 46.49  E-value: 1.20e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 737149960   9 LGRRVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSELLEGIE 72
Cdd:PRK08154  29 LGERVRTLRARRGMSRKVLAQASGVSERYLAQLESGQGNVSILLLRRVARALGCSLADLLGDVD 92
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 13-67 4.87e-07

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: 41.76  E-value: 4.87e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 737149960  13 VEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSEL 67
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-72 5.11e-13

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 57.70  E-value: 5.11e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 737149960  1 MDERAKQIlGRRVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSELLEGIE 72
Cdd:COG1396   1 MSTLKKAL-GERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGAD 71
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
6-72 1.46e-10

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 51.00  E-value: 1.46e-10
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 737149960  6 KQILGRRVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSELLEGIE 72
Cdd:COG1476   2 KKKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLEE 68
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 10-67 2.34e-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: 47.93  E-value: 2.34e-09
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 737149960 10 GRRVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSEL 67
Cdd:cd00093   1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-67 5.21e-09

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 46.74  E-value: 5.21e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 737149960   12 RVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSEL 67
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
PRK08154 PRK08154
anaerobic benzoate catabolism transcriptional regulator; Reviewed
 9-72 1.20e-07

anaerobic benzoate catabolism transcriptional regulator; Reviewed


Pssm-ID: 236167 [Multi-domain]  Cd Length: 309  Bit Score: 46.49  E-value: 1.20e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 737149960   9 LGRRVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSELLEGIE 72
Cdd:PRK08154  29 LGERVRTLRARRGMSRKVLAQASGVSERYLAQLESGQGNVSILLLRRVARALGCSLADLLGDVD 92
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 13-67 4.87e-07

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: 41.76  E-value: 4.87e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 737149960  13 VEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSEL 67
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 10-70 5.40e-07

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: 41.89  E-value: 5.40e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 737149960  10 GRRVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSELLEG 70
Cdd:pfam12844  1 GERLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLLQG 61
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 9-68 1.05e-06

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: 41.93  E-value: 1.05e-06
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 737149960  9 LGRRVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSELL 68
Cdd:COG3620  18 LGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVL 77
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 12-69 5.12e-06

Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433211 [Multi-domain]  Cd Length: 63  Bit Score: 39.45  E-value: 5.12e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 737149960  12 RVEETRRDLGISKVDFCVATGISRPYLDRIEDGTA-NFTLKVLFKIAPALGMTVSELLE 69
Cdd:pfam13443  1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKPkRVSLDTLDKICDALGCQPGDLLE 59
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 9-66 1.05e-05

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: 38.77  E-value: 1.05e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 737149960  9 LGRRVEETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSE 66
Cdd:COG1813  13 YGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLAE 70
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 14-63 1.15e-05

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 39.02  E-value: 1.15e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 737149960 14 EETRRDLGISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMT 63
Cdd:COG3093  15 EEFLEPLGLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTS 64
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 9-69 2.07e-04

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: 35.20  E-value: 2.07e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 737149960   9 LGRRVEETRRDLGISKVDFCVATGISRPYLDRIEDG-TANFTLKVLFKIAPALGMTVSELLE 69
Cdd:pfam13560  2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGrRGRPSPAVVERLARALGVDGAERAE 63
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 9-68 1.08e-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: 33.62  E-value: 1.08e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 737149960  9 LGRRVEETRRDLGISKVDFCVATGISRPYLDRIEDG------TANFTLKVLFKIAPALGMTVSELL 68
Cdd:COG1426   6 IGELLRQAREAKGLSLEDVAERTKISVSYLEAIEEGdfdalpGPVYVRGFLRSYARALGLDPEELL 71
PRK13890 PRK13890
conjugal transfer protein TrbA; Provisional
 21-69 4.17e-03

conjugal transfer protein TrbA; Provisional


Pssm-ID: 237547 [Multi-domain]  Cd Length: 120  Bit Score: 33.19  E-value: 4.17e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 737149960  21 GISKVDFCVATGISRPYLDRIEDGTANFTLKVLFKIAPALGMTVSELLE 69
Cdd:PRK13890  18 HMTKKELSERSGVSISFLSDLTTGKANPSLKVMEAIADALETPLPLLLE 66
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH