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Conserved domains on  [gi|2179162098|ref|WP_234703507|]
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helix-turn-helix transcriptional regulator [Clostridioides difficile]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 10007659)

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
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
10-72 1.61e-15

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


:

Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 63.62  E-value: 1.61e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2179162098 10 INKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNSIKFDSLEKICMALKCSPNELFGWEQDK 72
Cdd:COG3655    6 LDELLAERGMTKKELAEATGISRATLSRLKNGKAKAVRLDTLEKICKALDCQPGDLLEYVPDE 68
 
Name Accession Description Interval E-value
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
10-72 1.61e-15

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 63.62  E-value: 1.61e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2179162098 10 INKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNSIKFDSLEKICMALKCSPNELFGWEQDK 72
Cdd:COG3655    6 LDELLAERGMTKKELAEATGISRATLSRLKNGKAKAVRLDTLEKICKALDCQPGDLLEYVPDE 68
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 10-71 1.08e-11

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: 53.70  E-value: 1.08e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2179162098 10 INKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNSIKFDSLEKICMALKCSPNELFGWEQD 71
Cdd:pfam13443  2 LRKLMADRGISKSDLARATGISRATLSRLRKGKPKRVSLDTLDKICDALGCQPGDLLEYVPD 63
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
10-65 4.36e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 36.73  E-value: 4.36e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2179162098  10 INKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNsIKFDSLEKICMALKCSPNEL 65
Cdd:smart00530  2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRK-PSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 9-65 1.73e-04

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: 35.61  E-value: 1.73e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 2179162098  9 QINKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNsIKFDSLEKICMALKCSPNEL 65
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRN-PSLETLEKLAKALGVSLDEL 58
 
Name Accession Description Interval E-value
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
10-72 1.61e-15

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 63.62  E-value: 1.61e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2179162098 10 INKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNSIKFDSLEKICMALKCSPNELFGWEQDK 72
Cdd:COG3655    6 LDELLAERGMTKKELAEATGISRATLSRLKNGKAKAVRLDTLEKICKALDCQPGDLLEYVPDE 68
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 10-71 1.08e-11

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: 53.70  E-value: 1.08e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2179162098 10 INKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNSIKFDSLEKICMALKCSPNELFGWEQD 71
Cdd:pfam13443  2 LRKLMADRGISKSDLARATGISRATLSRLRKGKPKRVSLDTLDKICDALGCQPGDLLEYVPD 63
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-72 1.70e-07

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 43.83  E-value: 1.70e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2179162098  1 MAIKLLDI--QINKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNsIKFDSLEKICMALKCSPNELFGWEQDK 72
Cdd:COG1396    1 MSTLKKALgeRLRELRKARGLTQEELAERLGVSRSTISRIERGRRN-PSLETLLKLAKALGVSLDELLGGADEE 73
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
10-65 4.36e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 36.73  E-value: 4.36e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2179162098  10 INKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNsIKFDSLEKICMALKCSPNEL 65
Cdd:smart00530  2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRK-PSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 9-65 1.73e-04

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: 35.61  E-value: 1.73e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 2179162098  9 QINKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNsIKFDSLEKICMALKCSPNEL 65
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRN-PSLETLEKLAKALGVSLDEL 58
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
9-70 2.06e-04

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 35.59  E-value: 2.06e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2179162098  9 QINKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNsIKFDSLEKICMALKCSPNELFGWEQ 70
Cdd:COG1476    8 RLKELRKERGLTQEELAELLGVSRQTISAIENGKYN-PSLELALKIARALGVSLEELFSLEE 68
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 10-65 2.85e-04

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: 34.82  E-value: 2.85e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 2179162098 10 INKLLENQNKTRYWLAKQIGMTHQNLTKLANNNTNsIKFDSLEKICMALKCSPNEL 65
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKRE-PSLETLKKLAEALGVSLDEL 55
 
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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