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Conserved domains on  [gi|397912657|ref|YP_006546321|]
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transcriptional regulator, XRE family [Thermoanaerobacterium phage THSA-485A]

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];
1-61 8.48e-19

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


:

Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 74.88  E-value: 8.48e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 397912657   1 MSIGENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:COG1476    3 KKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEEL 63
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-61 8.48e-19

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 74.88  E-value: 8.48e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 397912657   1 MSIGENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:COG1476    3 KKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEEL 63
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 4-61 6.10e-16

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: 67.19  E-value: 6.10e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 397912657   4 GENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
6-61 8.15e-15

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 64.08  E-value: 8.15e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 397912657     6 NIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 7-61 3.49e-13

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: 59.86  E-value: 3.49e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 397912657    7 IKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
PRK13890 PRK13890
conjugal transfer protein TrbA; Provisional
 6-59 3.13e-06

conjugal transfer protein TrbA; Provisional


Pssm-ID: 237547 [Multi-domain]  Cd Length: 120  Bit Score: 43.59  E-value: 3.13e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 397912657   6 NIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKIS 59
Cdd:PRK13890   9 NVLRLLDERHMTKKELSERSGVSISFLSDLTTGKANPSLKVMEAIADALETPLP 62
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-61 8.48e-19

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 74.88  E-value: 8.48e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 397912657   1 MSIGENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:COG1476    3 KKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEEL 63
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-61 2.19e-18

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 74.26  E-value: 2.19e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 397912657   1 MSIGENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:COG1396    6 KALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDEL 66
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 4-61 6.10e-16

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: 67.19  E-value: 6.10e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 397912657   4 GENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
6-61 8.15e-15

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 64.08  E-value: 8.15e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 397912657     6 NIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 3-60 5.02e-14

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: 62.65  E-value: 5.02e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 397912657   3 IGENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISD 60
Cdd:COG1813   13 YGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLAE 70
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 7-61 3.49e-13

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: 59.86  E-value: 3.49e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 397912657    7 IKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 1-61 1.13e-11

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: 57.34  E-value: 1.13e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 397912657   1 MSIGENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:COG3620   16 DTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAV 76
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 1-56 9.10e-10

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: 51.73  E-value: 9.10e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 397912657   1 MSIGENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYN------PSIKTLNKIAKALNV 56
Cdd:COG1426    4 ETIGELLRQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDalpgpvYVRGFLRSYARALGL 65
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 4-61 7.52e-09

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: 49.21  E-value: 7.52e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 397912657    4 GENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:pfam12844   1 GERLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWL 58
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 6-61 1.15e-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: 43.30  E-value: 1.15e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 397912657    6 NIKKIRLAKFISQKDLSDKICISRSYLADIENNR-YNPSIKTLNKIAKALNVKISDI 61
Cdd:pfam13443   1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKpKRVSLDTLDKICDALGCQPGDL 57
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
2-61 1.46e-06

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 43.21  E-value: 1.46e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 397912657   2 SIGENIKKIRLAKFISQKDLSDKICISRSYLADIENNR-YNPSIKTLNKIAKALNVKISDI 61
Cdd:COG3655    1 MIYVKLDELLAERGMTKKELAEATGISRATLSRLKNGKaKAVRLDTLEKICKALDCQPGDL 61
PRK13890 PRK13890
conjugal transfer protein TrbA; Provisional
 6-59 3.13e-06

conjugal transfer protein TrbA; Provisional


Pssm-ID: 237547 [Multi-domain]  Cd Length: 120  Bit Score: 43.59  E-value: 3.13e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 397912657   6 NIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKIS 59
Cdd:PRK13890   9 NVLRLLDERHMTKKELSERSGVSISFLSDLTTGKANPSLKVMEAIADALETPLP 62
PRK08154 PRK08154
anaerobic benzoate catabolism transcriptional regulator; Reviewed
 4-61 2.34e-04

anaerobic benzoate catabolism transcriptional regulator; Reviewed


Pssm-ID: 236167 [Multi-domain]  Cd Length: 309  Bit Score: 39.55  E-value: 2.34e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 397912657   4 GENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKISDI 61
Cdd:PRK08154  30 GERVRTLRARRGMSRKVLAQASGVSERYLAQLESGQGNVSILLLRRVARALGCSLADL 87
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 4-56 2.73e-04

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 37.48  E-value: 2.73e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 397912657   4 GENIKKIRLAKF-ISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNV 56
Cdd:COG3093   10 GEILREEFLEPLgLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGT 63
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
4-59 1.03e-03

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 37.47  E-value: 1.03e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 397912657   4 GENIKKIRLAKFISQKDLSDKICISRSYLADIENNRYNPSIKTLNKIAKALNVKIS 59
Cdd:PRK09943   9 GKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLS 64
COG1709 COG1709
Predicted transcriptional regulator,contains XRE-type HTH domain [Transcription];
2-54 1.65e-03

Predicted transcriptional regulator,contains XRE-type HTH domain [Transcription];


Pssm-ID: 441315  Cd Length: 234  Bit Score: 37.08  E-value: 1.65e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 397912657   2 SIGENIKKIRLAKFISQKDLSDKICISRSYLADIENN-RYNPSIKTLNKIAKAL 54
Cdd:COG1709   22 DPGETLRKWREDFGISQTELARELGVSPSVISDYESGrRKSPGIAFVKKFVEAL 75
 
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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