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Conserved domains on  [gi|488382720|ref|WP_002452105|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Staphylococcus]

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];
10-61 2.84e-09

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


:

Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 50.62  E-value: 2.84e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 488382720  10 IQTKFKMVRIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPNWTTCVSICALF 61
Cdd:COG1476    5 LGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARAL 56
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
10-61 2.84e-09

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 50.62  E-value: 2.84e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 488382720  10 IQTKFKMVRIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPNWTTCVSICALF 61
Cdd:COG1476    5 LGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARAL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 13-64 1.74e-06

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: 42.93  E-value: 1.74e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 488382720  13 KFKMVRIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPNWTTCVSICALFRDS 64
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVS 54
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 13-61 1.34e-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: 38.04  E-value: 1.34e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 488382720   13 KFKMVRIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPNWTTCVSICALF 61
Cdd:pfam12844   3 RLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELL 51
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
13-62 1.92e-04

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 37.50  E-value: 1.92e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 488382720    13 KFKMVRIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPNWTTCVSICALFR 62
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALG 50
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
10-61 2.84e-09

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 50.62  E-value: 2.84e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 488382720  10 IQTKFKMVRIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPNWTTCVSICALF 61
Cdd:COG1476    5 LGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARAL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 13-64 1.74e-06

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: 42.93  E-value: 1.74e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 488382720  13 KFKMVRIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPNWTTCVSICALFRDS 64
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVS 54
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
13-62 4.22e-06

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 42.68  E-value: 4.22e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 488382720  13 KFKMVRIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPNWTTCVSICALFR 62
Cdd:COG1396   11 RLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALG 60
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 13-61 1.34e-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: 38.04  E-value: 1.34e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 488382720   13 KFKMVRIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPNWTTCVSICALF 61
Cdd:pfam12844   3 RLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELL 51
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
13-62 1.92e-04

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 37.50  E-value: 1.92e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 488382720    13 KFKMVRIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPNWTTCVSICALFR 62
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALG 50
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 15-62 2.63e-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: 37.13  E-value: 2.63e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 488382720   15 KMVRIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPNWTTCVSICALFR 62
Cdd:pfam01381   2 KELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALG 49
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 18-50 8.58e-03

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: 33.37  E-value: 8.58e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 488382720  18 RIEAGYTQDTMAQTIGLSKKTLVQIEKERVLPN 50
Cdd:COG1813   21 REARGLSQEELAEKLGVSESTIRRIERGEATPS 53
 
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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