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Conserved domains on  [gi|506511021|ref|WP_015978369|]
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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];
1-72 4.08e-13

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


:

Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 57.55  E-value: 4.08e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 506511021  1 MTQIIVKKepvtLKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDIIFLTK 72
Cdd:COG1476   1 MKKKLGNR----LKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLEE 68
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-72 4.08e-13

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 57.55  E-value: 4.08e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 506511021  1 MTQIIVKKepvtLKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDIIFLTK 72
Cdd:COG1476   1 MKKKLGNR----LKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLEE 68
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
13-67 2.21e-12

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 55.60  E-value: 2.21e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 506511021   13 LKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDI 67
Cdd:smart00530  2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 13-67 6.12e-12

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: 54.48  E-value: 6.12e-12
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 506511021 13 LKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDI 67
Cdd:cd00093   4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 13-67 9.97e-09

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: 46.38  E-value: 9.97e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 506511021  13 LKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDI 67
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-72 4.08e-13

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 57.55  E-value: 4.08e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 506511021  1 MTQIIVKKepvtLKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDIIFLTK 72
Cdd:COG1476   1 MKKKLGNR----LKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLEE 68
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
13-67 2.21e-12

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 55.60  E-value: 2.21e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 506511021   13 LKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDI 67
Cdd:smart00530  2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 13-67 6.12e-12

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: 54.48  E-value: 6.12e-12
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 506511021 13 LKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDI 67
Cdd:cd00093   4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
13-68 3.83e-10

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 50.77  E-value: 3.83e-10
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 506511021 13 LKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDII 68
Cdd:COG1396  12 LRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELL 67
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
9-57 1.07e-09

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 48.78  E-value: 1.07e-09
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 506511021  9 EPVTLKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIE 57
Cdd:COG2944   7 TPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAALKLLR 55
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 13-67 9.97e-09

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: 46.38  E-value: 9.97e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 506511021  13 LKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDI 67
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 13-63 1.02e-08

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: 46.47  E-value: 1.02e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 506511021 13 LKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDIS 63
Cdd:COG1813  17 IREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGIS 67
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 13-74 2.97e-06

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: 40.77  E-value: 2.97e-06
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 506511021 13 LKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDIIFLTKNN 74
Cdd:COG3620  22 LRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLVVDDGK 83
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 13-68 8.71e-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: 39.19  E-value: 8.71e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 506511021  13 LKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKTFPNVPQLKKIEEKFDISYDDII 68
Cdd:pfam12844  4 LRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLL 59
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 12-46 2.52e-04

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433309 [Multi-domain]  Cd Length: 64  Bit Score: 35.20  E-value: 2.52e-04
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 506511021  12 TLKTLRAKFDLTQAKAGAKVGVSADVWHNWEKGKT 46
Cdd:pfam13560  5 RLRRLRERAGLSQEALARRLGVSRSTLSRLETGRR 39
 
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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