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Conserved domains on  [gi|487956198|ref|WP_002029602|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Bacillus]

Protein Classification

helix-turn-helix transcriptional regulator; LexA family transcriptional regulator( domain architecture ID 11272030)

helix-turn-helix (HTH) transcriptional regulator containing a XRE (Xenobiotic Response Element) family HTH domain| LexA family transcriptional regulator contains a S24 family peptidase domain which catalyzes an autocatalytic cleavage that disrupts the DNA- binding and represses a number of genes involved in the response to DNA damage (SOS response)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DUF1232 pfam06803
Protein of unknown function (DUF1232); This family represents a conserved region of ...
 170-203 6.87e-12

Protein of unknown function (DUF1232); This family represents a conserved region of approximately 60 residues within a number of hypothetical bacterial and archaeal proteins of unknown function.


:

Pssm-ID: 462011  Cd Length: 36  Bit Score: 57.73  E-value: 6.87e-12
                          10        20        30
                  ....*....|....*....|....*....|....
gi 487956198  170 RAIIGGALLYFILSTDIIPDYLFPIGYLDDAIAV 203
Cdd:pfam06803   1 KLLILGALAYLISPIDLIPDFIPVLGYLDDLAVL 34
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
20-68 5.31e-09

Helix-turn-helix XRE-family like proteins;


:

Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 50.59  E-value: 5.31e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 487956198    20 ERALSMRQLGTLTNIDPATISRIINGKQQPKQNHLQKFANCLQVPPQLL 68
Cdd:smart00530   8 EKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
 
Name Accession Description Interval E-value
DUF1232 pfam06803
Protein of unknown function (DUF1232); This family represents a conserved region of ...
 170-203 6.87e-12

Protein of unknown function (DUF1232); This family represents a conserved region of approximately 60 residues within a number of hypothetical bacterial and archaeal proteins of unknown function.


Pssm-ID: 462011  Cd Length: 36  Bit Score: 57.73  E-value: 6.87e-12
                          10        20        30
                  ....*....|....*....|....*....|....
gi 487956198  170 RAIIGGALLYFILSTDIIPDYLFPIGYLDDAIAV 203
Cdd:pfam06803   1 KLLILGALAYLISPIDLIPDFIPVLGYLDDLAVL 34
YkvA COG3339
Uncharacterized membrane protein YkvA, DUF1232 family [Function unknown];
136-206 1.32e-11

Uncharacterized membrane protein YkvA, DUF1232 family [Function unknown];


Pssm-ID: 442568  Cd Length: 104  Bit Score: 58.82  E-value: 1.32e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 487956198 136 FKSKIEQIDSAGPFIEQLTNMYQQFCTETISTEERAIIGGALLYFILSTDIIPDYLFPIGYLDDAIAVELA 206
Cdd:COG3339    7 WDGKLKKLARRLPFLRRLLLLYYAGRDPRVPWKAKLLIAAALAYFVSPIDLIPDFIPVLGYLDDLAVLALA 77
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
20-68 5.31e-09

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 50.59  E-value: 5.31e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 487956198    20 ERALSMRQLGTLTNIDPATISRIINGKQQPKQNHLQKFANCLQVPPQLL 68
Cdd:smart00530   8 EKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
20-85 2.56e-08

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 49.61  E-value: 2.56e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 487956198  20 ERALSMRQLGTLTNIDPATISRIINGKQQPKQNHLQKFANCLQVPPQLLLDEMYPNSPHINKEKAD 85
Cdd:COG1396   18 ARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLSEEE 83
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 20-68 5.00e-08

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: 47.93  E-value: 5.00e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 487956198  20 ERALSMRQLGTLTNIDPATISRIINGKQQPKQNHLQKFANCLQVPPQLL 68
Cdd:cd00093   10 EKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 20-68 5.13e-07

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: 45.22  E-value: 5.13e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 487956198   20 ERALSMRQLGTLTNIDPATISRIINGKQQPKQNHLQKFANCLQVPPQLL 68
Cdd:pfam01381   7 ELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
 
Name Accession Description Interval E-value
DUF1232 pfam06803
Protein of unknown function (DUF1232); This family represents a conserved region of ...
 170-203 6.87e-12

Protein of unknown function (DUF1232); This family represents a conserved region of approximately 60 residues within a number of hypothetical bacterial and archaeal proteins of unknown function.


Pssm-ID: 462011  Cd Length: 36  Bit Score: 57.73  E-value: 6.87e-12
                          10        20        30
                  ....*....|....*....|....*....|....
gi 487956198  170 RAIIGGALLYFILSTDIIPDYLFPIGYLDDAIAV 203
Cdd:pfam06803   1 KLLILGALAYLISPIDLIPDFIPVLGYLDDLAVL 34
YkvA COG3339
Uncharacterized membrane protein YkvA, DUF1232 family [Function unknown];
136-206 1.32e-11

Uncharacterized membrane protein YkvA, DUF1232 family [Function unknown];


Pssm-ID: 442568  Cd Length: 104  Bit Score: 58.82  E-value: 1.32e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 487956198 136 FKSKIEQIDSAGPFIEQLTNMYQQFCTETISTEERAIIGGALLYFILSTDIIPDYLFPIGYLDDAIAVELA 206
Cdd:COG3339    7 WDGKLKKLARRLPFLRRLLLLYYAGRDPRVPWKAKLLIAAALAYFVSPIDLIPDFIPVLGYLDDLAVLALA 77
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
20-68 5.31e-09

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 50.59  E-value: 5.31e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 487956198    20 ERALSMRQLGTLTNIDPATISRIINGKQQPKQNHLQKFANCLQVPPQLL 68
Cdd:smart00530   8 EKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
20-85 2.56e-08

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 49.61  E-value: 2.56e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 487956198  20 ERALSMRQLGTLTNIDPATISRIINGKQQPKQNHLQKFANCLQVPPQLLLDEMYPNSPHINKEKAD 85
Cdd:COG1396   18 ARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLSEEE 83
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 20-68 5.00e-08

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: 47.93  E-value: 5.00e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 487956198  20 ERALSMRQLGTLTNIDPATISRIINGKQQPKQNHLQKFANCLQVPPQLL 68
Cdd:cd00093   10 EKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 20-68 5.13e-07

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: 45.22  E-value: 5.13e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 487956198   20 ERALSMRQLGTLTNIDPATISRIINGKQQPKQNHLQKFANCLQVPPQLL 68
Cdd:pfam01381   7 ELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
20-71 1.30e-04

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 39.06  E-value: 1.30e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 487956198  20 ERALSMRQLGTLTNIDPATISRIINGKQQPKQNHLQKFANCLQVPPQLLLDE 71
Cdd:COG1476   15 ERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSL 66
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 20-64 6.08e-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: 34.53  E-value: 6.08e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 487956198  20 ERALSMRQLGTLTNIDPATISRIINGKQQPKQNHLQKFANCLQVP 64
Cdd:COG1813   23 ARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGIS 67
 
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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