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Conserved domains on  [gi|1859645209|ref|YP_009833558|]
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transcriptional repressor [Clostridium phage phiCDHM14]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10582316)

helix-turn-helix (HTH) transcriptional regulator containing a XRE (Xenobiotic Response Element) family HTH domain

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  15808743
SCOP:  4000362

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 14-72 3.07e-06

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: 3.07e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1859645209  14 KLRSSEGLKQIEFGEKLGKTKHEIYNLESGRTKVKESDLKLIISLFKVNENWLRTGTGE 72
Cdd:pfam12844   6 KAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLLQGEGE 64
 
Name Accession Description Interval E-value
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 14-72 3.07e-06

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: 3.07e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1859645209  14 KLRSSEGLKQIEFGEKLGKTKHEIYNLESGRTKVKESDLKLIISLFKVNENWLRTGTGE 72
Cdd:pfam12844   6 KAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLLQGEGE 64
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 14-87 4.41e-06

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 44.34  E-value: 4.41e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1859645209  14 KLRSSEGLKQIEF-------GEKLGKTkhEIYNLESGRTKVKESDLKLIISLFKVNENWLRTGTGEMYNTEDRNSVKAEA 86
Cdd:PRK13355   10 QAMKARGLKQEDLvhaaearGVKLGKS--HISQYVSGKTGPRRDVLPFLAAILGVSEDWLLGGESPADQESDASAVVESA 87


                  .
gi 1859645209  87 F 87
Cdd:PRK13355   88 P 88
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 14-66 3.03e-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: 39.07  E-value: 3.03e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1859645209  14 KLRSSEGLKQIEFGEKLGKTKHEIYNLESGRTKVKESDLKLIISLFKVNENWL 66
Cdd:cd00093     6 ELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
14-66 9.54e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 37.50  E-value: 9.54e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1859645209   14 KLRSSEGLKQIEFGEKLGKTKHEIYNLESGRTKVKESDLKLIISLFKVNENWL 66
Cdd:smart00530   4 ELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
14-72 8.43e-04

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 35.74  E-value: 8.43e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1859645209  14 KLRSSEGLKQIEFGEKLGKTKHEIYNLESGRTKVKESDLKLIISLFKVNENWLRTGTGE 72
Cdd:COG1396    14 ELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADE 72
 
Name Accession Description Interval E-value
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 14-72 3.07e-06

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: 3.07e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1859645209  14 KLRSSEGLKQIEFGEKLGKTKHEIYNLESGRTKVKESDLKLIISLFKVNENWLRTGTGE 72
Cdd:pfam12844   6 KAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLLQGEGE 64
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 14-87 4.41e-06

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 44.34  E-value: 4.41e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1859645209  14 KLRSSEGLKQIEF-------GEKLGKTkhEIYNLESGRTKVKESDLKLIISLFKVNENWLRTGTGEMYNTEDRNSVKAEA 86
Cdd:PRK13355   10 QAMKARGLKQEDLvhaaearGVKLGKS--HISQYVSGKTGPRRDVLPFLAAILGVSEDWLLGGESPADQESDASAVVESA 87


                  .
gi 1859645209  87 F 87
Cdd:PRK13355   88 P 88
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 14-66 3.03e-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: 39.07  E-value: 3.03e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1859645209  14 KLRSSEGLKQIEFGEKLGKTKHEIYNLESGRTKVKESDLKLIISLFKVNENWL 66
Cdd:cd00093     6 ELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
14-66 9.54e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 37.50  E-value: 9.54e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1859645209   14 KLRSSEGLKQIEFGEKLGKTKHEIYNLESGRTKVKESDLKLIISLFKVNENWL 66
Cdd:smart00530   4 ELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 14-66 3.74e-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: 35.98  E-value: 3.74e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1859645209  14 KLRSSEGLKQIEFGEKLGKTKHEIYNLESGRTKVKESDLKLIISLFKVNENWL 66
Cdd:pfam01381   3 ELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
14-72 8.43e-04

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 35.74  E-value: 8.43e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1859645209  14 KLRSSEGLKQIEFGEKLGKTKHEIYNLESGRTKVKESDLKLIISLFKVNENWLRTGTGE 72
Cdd:COG1396    14 ELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADE 72
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
14-66 3.27e-03

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 33.67  E-value: 3.27e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1859645209  14 KLRSSEGLKQIEFGEKLGKTKHEIYNLESGRTKVKESDLKLIISLFKVNENWL 66
Cdd:COG1476    11 ELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEEL 63
 
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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