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Conserved domains on  [gi|1266674079|gb|PHF52731|]
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DNA-binding protein [Bacillus toyonensis]

Protein Classification

helix-turn-helix transcriptional regulator; LexA family transcriptional regulator( domain architecture ID 11271533)

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
YkvA COG3339
Uncharacterized membrane protein YkvA, DUF1232 family [Function unknown];
136-206 7.03e-12

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


:

Pssm-ID: 442568  Cd Length: 104  Bit Score: 59.59  E-value: 7.03e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1266674079 136 FSSKLEQIDSAGPFIEQLTDMYQQFCNETISKEERAILGGALLYFILSTDIIPDYLFPIGYLDDAIAVELA 206
Cdd:COG3339     7 WDGKLKKLARRLPFLRRLLLLYYAGRDPRVPWKAKLLIAAALAYFVSPIDLIPDFIPVLGYLDDLAVLALA 77
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
20-68 2.72e-09

Helix-turn-helix XRE-family like proteins;


:

Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 51.36  E-value: 2.72e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1266674079   20 ERALSMRQLGILTGIDPATISRIMNGKQQPKQKHLQKFAECLQVPPQLL 68
Cdd:smart00530   8 EKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
 
Name Accession Description Interval E-value
YkvA COG3339
Uncharacterized membrane protein YkvA, DUF1232 family [Function unknown];
136-206 7.03e-12

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


Pssm-ID: 442568  Cd Length: 104  Bit Score: 59.59  E-value: 7.03e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1266674079 136 FSSKLEQIDSAGPFIEQLTDMYQQFCNETISKEERAILGGALLYFILSTDIIPDYLFPIGYLDDAIAVELA 206
Cdd:COG3339     7 WDGKLKKLARRLPFLRRLLLLYYAGRDPRVPWKAKLLIAAALAYFVSPIDLIPDFIPVLGYLDDLAVLALA 77
DUF1232 pfam06803
Protein of unknown function (DUF1232); This family represents a conserved region of ...
 170-203 1.61e-11

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: 56.96  E-value: 1.61e-11
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1266674079 170 RAILGGALLYFILSTDIIPDYLFPIGYLDDAIAV 203
Cdd:pfam06803   1 KLLILGALAYLISPIDLIPDFIPVLGYLDDLAVL 34
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
20-68 2.72e-09

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 51.36  E-value: 2.72e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1266674079   20 ERALSMRQLGILTGIDPATISRIMNGKQQPKQKHLQKFAECLQVPPQLL 68
Cdd:smart00530   8 EKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
20-71 1.01e-08

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 50.77  E-value: 1.01e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1266674079  20 ERALSMRQLGILTGIDPATISRIMNGKQQPKQKHLQKFAECLQVPPQLLFDE 71
Cdd:COG1396    18 ARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGG 69
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 20-68 1.97e-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: 49.09  E-value: 1.97e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1266674079  20 ERALSMRQLGILTGIDPATISRIMNGKQQPKQKHLQKFAECLQVPPQLL 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 6.35e-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: 44.84  E-value: 6.35e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1266674079  20 ERALSMRQLGILTGIDPATISRIMNGKQQPKQKHLQKFAECLQVPPQLL 68
Cdd:pfam01381   7 ELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
 
Name Accession Description Interval E-value
YkvA COG3339
Uncharacterized membrane protein YkvA, DUF1232 family [Function unknown];
136-206 7.03e-12

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


Pssm-ID: 442568  Cd Length: 104  Bit Score: 59.59  E-value: 7.03e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1266674079 136 FSSKLEQIDSAGPFIEQLTDMYQQFCNETISKEERAILGGALLYFILSTDIIPDYLFPIGYLDDAIAVELA 206
Cdd:COG3339     7 WDGKLKKLARRLPFLRRLLLLYYAGRDPRVPWKAKLLIAAALAYFVSPIDLIPDFIPVLGYLDDLAVLALA 77
DUF1232 pfam06803
Protein of unknown function (DUF1232); This family represents a conserved region of ...
 170-203 1.61e-11

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: 56.96  E-value: 1.61e-11
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1266674079 170 RAILGGALLYFILSTDIIPDYLFPIGYLDDAIAV 203
Cdd:pfam06803   1 KLLILGALAYLISPIDLIPDFIPVLGYLDDLAVL 34
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
20-68 2.72e-09

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 51.36  E-value: 2.72e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1266674079   20 ERALSMRQLGILTGIDPATISRIMNGKQQPKQKHLQKFAECLQVPPQLL 68
Cdd:smart00530   8 EKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
20-71 1.01e-08

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 50.77  E-value: 1.01e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1266674079  20 ERALSMRQLGILTGIDPATISRIMNGKQQPKQKHLQKFAECLQVPPQLLFDE 71
Cdd:COG1396    18 ARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGG 69
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 20-68 1.97e-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: 49.09  E-value: 1.97e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1266674079  20 ERALSMRQLGILTGIDPATISRIMNGKQQPKQKHLQKFAECLQVPPQLL 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 6.35e-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: 44.84  E-value: 6.35e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1266674079  20 ERALSMRQLGILTGIDPATISRIMNGKQQPKQKHLQKFAECLQVPPQLL 68
Cdd:pfam01381   7 ELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
20-71 8.28e-06

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 42.14  E-value: 8.28e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1266674079  20 ERALSMRQLGILTGIDPATISRIMNGKQQPKQKHLQKFAECLQVPPQLLFDE 71
Cdd:COG1476    15 ERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSL 66
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
20-70 2.90e-03

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 35.12  E-value: 2.90e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1266674079  20 ERALSMRQLGILTGIDPATISRIMNGK-QQPKQKHLQKFAECLQVPPQLLFD 70
Cdd:COG3655    12 ERGMTKKELAEATGISRATLSRLKNGKaKAVRLDTLEKICKALDCQPGDLLE 63
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 20-64 3.63e-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: 34.91  E-value: 3.63e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1266674079  20 ERALSMRQLGILTGIDPATISRIMNGKQQPKQKHLQKFAECLQVP 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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