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Conserved domains on  [gi|2046356234|ref|YP_010078865|]
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transcriptional regulator [Klebsiella phage LASTA]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11459264)

helix-turn-helix (HTH) domain-containing protein with an XRE (Xenobiotic Response Element) family HTH domain, binds DNA and may function as a transcriptional regulator

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  15808743|2644244|8831795

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
5-63 1.50e-06

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


:

Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 41.46  E-value: 1.50e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2046356234  5 SINDITPITLRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKILTDS-LRLL-VLETYGE 63
Cdd:COG2944    2 TKKPLTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAaLKLLrLLEKHPE 62
 
Name Accession Description Interval E-value
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
5-63 1.50e-06

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 41.46  E-value: 1.50e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2046356234  5 SINDITPITLRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKILTDS-LRLL-VLETYGE 63
Cdd:COG2944    2 TKKPLTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAaLKLLrLLEKHPE 62
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 14-62 3.95e-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: 40.23  E-value: 3.95e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 2046356234 14 LRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKILTDSLRLLVLETYG 62
Cdd:cd00093    4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALG 52
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
14-62 1.02e-04

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 36.73  E-value: 1.02e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2046356234  14 LRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKILTDSLRLLVLETYG 62
Cdd:smart00530  2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALG 50
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 13-49 1.86e-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: 36.35  E-value: 1.86e-04
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 2046356234 13 TLRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKIL 49
Cdd:pfam13560  5 RLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGR 41
 
Name Accession Description Interval E-value
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
5-63 1.50e-06

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 41.46  E-value: 1.50e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2046356234  5 SINDITPITLRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKILTDS-LRLL-VLETYGE 63
Cdd:COG2944    2 TKKPLTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAaLKLLrLLEKHPE 62
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 14-62 3.95e-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: 40.23  E-value: 3.95e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 2046356234 14 LRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKILTDSLRLLVLETYG 62
Cdd:cd00093    4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALG 52
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
14-62 6.99e-06

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 39.83  E-value: 6.99e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 2046356234 14 LRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKILTDSLRLLVLETYG 62
Cdd:COG1476    9 LKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALG 57
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
14-50 9.09e-06

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 39.98  E-value: 9.09e-06
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 2046356234 14 LRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKILT 50
Cdd:COG1396   12 LRELRKARGLTQEELAERLGVSRSTISRIERGRRNPS 48
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
14-62 1.02e-04

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 36.73  E-value: 1.02e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2046356234  14 LRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKILTDSLRLLVLETYG 62
Cdd:smart00530  2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALG 50
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 13-49 1.86e-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: 36.35  E-value: 1.86e-04
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 2046356234 13 TLRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKIL 49
Cdd:pfam13560  5 RLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGR 41
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 14-54 3.14e-04

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: 35.68  E-value: 3.14e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 2046356234 14 LRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKILTDSLR 54
Cdd:COG1813   17 IREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTL 57
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 14-62 3.28e-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: 35.21  E-value: 3.28e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 2046356234 14 LRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQKILTDSLRLLVLETYG 62
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALG 49
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 14-46 6.46e-03

Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441035 [Multi-domain]  Cd Length: 71  Bit Score: 32.47  E-value: 6.46e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 2046356234 14 LRQYRKEKGISQRDFWEAIHVSKGTGCRIESGQ 46
Cdd:COG1426   10 LRQAREAKGLSLEDVAERTKISVSYLEAIEEGD 42
 
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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