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Conserved domains on  [gi|2005209788|ref|WP_206835541|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Bacillaceae]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 10054599)

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
XRE super family cl43426
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-56 5.15e-06

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


The actual alignment was detected with superfamily member COG1476:

Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 39.83  E-value: 5.15e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 2005209788  1 MNKEI---IKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTADLENKIKIAFDLD 56
Cdd:COG1476    1 MKKKLgnrLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVS 59
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-56 5.15e-06

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 39.83  E-value: 5.15e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 2005209788  1 MNKEI---IKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTADLENKIKIAFDLD 56
Cdd:COG1476    1 MKKKLgnrLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVS 59
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 4-56 1.77e-05

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: 38.30  E-value: 1.77e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 2005209788  4 EIIKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTADLENKIKIAFDLD 56
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVS 54
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
6-52 8.30e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 36.34  E-value: 8.30e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 2005209788   6 IKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTadLENKIKIA 52
Cdd:smart00530  2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPS--LETLKKLA 46
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 6-52 3.32e-03

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: 32.13  E-value: 3.32e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 2005209788  6 IKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTadLENKIKIA 52
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPS--LETLKKLA 45
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-56 5.15e-06

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 39.83  E-value: 5.15e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 2005209788  1 MNKEI---IKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTADLENKIKIAFDLD 56
Cdd:COG1476    1 MKKKLgnrLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVS 59
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
4-56 8.85e-06

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 39.59  E-value: 8.85e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 2005209788  4 EIIKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTADLENKIKIAFDLD 56
Cdd:COG1396   10 ERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVS 62
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 4-56 1.77e-05

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: 38.30  E-value: 1.77e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 2005209788  4 EIIKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTADLENKIKIAFDLD 56
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVS 54
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
6-52 8.30e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 36.34  E-value: 8.30e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 2005209788   6 IKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTadLENKIKIA 52
Cdd:smart00530  2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPS--LETLKKLA 46
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 4-56 1.45e-04

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: 36.07  E-value: 1.45e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 2005209788  4 EIIKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTADLENKIKIAFDLD 56
Cdd:COG1813   15 ERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGIS 67
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
4-43 1.16e-03

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 33.75  E-value: 1.16e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 2005209788  4 EIIKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTA 43
Cdd:COG2944    9 EEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSG 48
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 6-52 3.32e-03

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: 32.13  E-value: 3.32e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 2005209788  6 IKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTadLENKIKIA 52
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPS--LETLKKLA 45
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 4-56 3.48e-03

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: 33.07  E-value: 3.48e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 2005209788  4 EIIKLIRKSYNMTQRDFARVVSCSFSLIALVEVGKRRVTADLENKIKIAFDLD 56
Cdd:COG3620   20 EALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKE 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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