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Conserved domains on  [gi|1252954341|ref|WP_096864723|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Providencia]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 10650117)

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

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  15808743|2644244|8831795
SCOP:  4000362

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
33-84 2.32e-11

Helix-turn-helix XRE-family like proteins;


:

Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 53.68  E-value: 2.32e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1252954341  33 MLKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGIK 84
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVS 52
 
Name Accession Description Interval E-value
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
33-84 2.32e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 53.68  E-value: 2.32e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1252954341  33 MLKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGIK 84
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVS 52
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
27-83 4.90e-11

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 53.46  E-value: 4.90e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 1252954341 27 TEKLQAMLKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGI 83
Cdd:COG1396    5 KKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGV 61
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 33-83 6.61e-11

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: 52.56  E-value: 6.61e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 1252954341 33 MLKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGI 83
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGV 53
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 34-84 1.21e-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: 49.08  E-value: 1.21e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 1252954341 34 LKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGIK 84
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVS 51
 
Name Accession Description Interval E-value
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
33-84 2.32e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 53.68  E-value: 2.32e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1252954341  33 MLKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGIK 84
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVS 52
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
27-83 4.90e-11

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 53.46  E-value: 4.90e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 1252954341 27 TEKLQAMLKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGI 83
Cdd:COG1396    5 KKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGV 61
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 33-83 6.61e-11

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: 52.56  E-value: 6.61e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 1252954341 33 MLKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGI 83
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGV 53
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
27-83 9.03e-10

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 49.85  E-value: 9.03e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 1252954341 27 TEKLQAMLKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGI 83
Cdd:COG1476    2 KKKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGV 58
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 34-84 1.21e-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: 49.08  E-value: 1.21e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 1252954341 34 LKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGIK 84
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVS 51
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 27-90 1.61e-07

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: 44.63  E-value: 1.61e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1252954341 27 TEKLQAMLKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGIKNPIIAL 90
Cdd:COG3620   15 DDTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLV 78
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 32-64 5.43e-07

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: 42.52  E-value: 5.43e-07
                         10        20        30
                 ....*....|....*....|....*....|...
gi 1252954341 32 AMLKEWRESAGLTKVQIAEIIGVNPSTITRLES 64
Cdd:pfam13560  4 ARLRRLRERAGLSQEALARRLGVSRSTLSRLET 36
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 34-84 4.64e-06

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: 40.31  E-value: 4.64e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 1252954341 34 LKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYAAACGIK 84
Cdd:COG1813   17 IREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGIS 67
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 33-78 1.45e-04

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: 36.50  E-value: 1.45e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 1252954341 33 MLKEWRESAGLTKVQIAEIIGVNPSTITRLESNVNNASIKSIVKYA 78
Cdd:pfam12844  3 RLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIA 48
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 26-65 2.62e-04

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: 35.94  E-value: 2.62e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 1252954341 26 RTEKLQAMLKEWRESAGLTKVQIAEIIGVNPSTITRLESN 65
Cdd:COG1426    2 ALETIGELLRQAREAKGLSLEDVAERTKISVSYLEAIEEG 41
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
34-64 3.07e-03

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 32.98  E-value: 3.07e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 1252954341 34 LKEWRESAGLTKVQIAEIIGVNPSTITRLES 64
Cdd:COG2944   11 IRALRERLGLSQAEFAALLGVSVSTVRRWEQ 41
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 12-82 3.72e-03

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.


Pssm-ID: 433449 [Multi-domain]  Cd Length: 80  Bit Score: 32.97  E-value: 3.72e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1252954341 12 MKDPEYQAAYEEEIRTEkLQAMLKEWRESAGLTKVQIAEIIGVNPSTITRLE-SNVNNASIKSIVKYAAACG 82
Cdd:pfam13744  2 FADLGFEDAEELQAKAQ-LARAIARLIEGRGLSQQEAAALLGIAQPKVSALLkGKLSRFSLDKLLDFLTALG 72
 
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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