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Conserved domains on  [gi|19549022|ref|NP_599067|]
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transcriptional repressor [Enterobacteria phage SfV]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 366238)

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

Gene Ontology:  GO:0003677|GO:0006355

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Cro super family cl46781
Cro; Members of this family are involved in the repression of transcription by binding as a ...
 13-63 1.89e-11

Cro; Members of this family are involved in the repression of transcription by binding as a homodimer to palindromic DNA operator sites in phage lambda: they repress genes expressed in early phage development and are necessary for the late stage of lytic growth. These proteins have a secondary structure consisting of three alpha-helices and three beta-sheets, and dimerize through interactions between the two antiparallel beta-strands.


The actual alignment was detected with superfamily member COG4197:

Pssm-ID: 481121  Cd Length: 68  Bit Score: 52.99  E-value: 1.89e-11
                       10        20        30        40        50
               ....*....|....*....|....*....|....*....|....*....|.
gi 19549022 13 QGELAGKVGSTPGYLRLVFNGYKKASFVLAKKLEQCTSGAITKSDLRPDIY 63
Cdd:COG4197 11 QSALARALGVSQQAVSQWLNGKRRVPAERCLAIERATGGAVTREELRPDLD 61
 
Name Accession Description Interval E-value
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
13-63 1.89e-11

DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];


Pssm-ID: 443351  Cd Length: 68  Bit Score: 52.99  E-value: 1.89e-11
                       10        20        30        40        50
               ....*....|....*....|....*....|....*....|....*....|.
gi 19549022 13 QGELAGKVGSTPGYLRLVFNGYKKASFVLAKKLEQCTSGAITKSDLRPDIY 63
Cdd:COG4197 11 QSALARALGVSQQAVSQWLNGKRRVPAERCLAIERATGGAVTREELRPDLD 61
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 13-63 3.70e-09

Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family of putative bacterial antitoxins, neutralising the toxin YdaT, family pfam06254.


Pssm-ID: 435033  Cd Length: 65  Bit Score: 47.34  E-value: 3.70e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 19549022   13 QGELAGKVGSTPGYLRLVFNGYKKASFVLAKKLEQCTSGAITKSDLRPDIY 63
Cdd:pfam15943 11 QKALAEALGVTQQAVSQWLHGKKGIPAEYCPAIERATSGKVTREELRPDVD 61
 
Name Accession Description Interval E-value
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
13-63 1.89e-11

DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];


Pssm-ID: 443351  Cd Length: 68  Bit Score: 52.99  E-value: 1.89e-11
                       10        20        30        40        50
               ....*....|....*....|....*....|....*....|....*....|.
gi 19549022 13 QGELAGKVGSTPGYLRLVFNGYKKASFVLAKKLEQCTSGAITKSDLRPDIY 63
Cdd:COG4197 11 QSALARALGVSQQAVSQWLNGKRRVPAERCLAIERATGGAVTREELRPDLD 61
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 13-63 3.70e-09

Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family of putative bacterial antitoxins, neutralising the toxin YdaT, family pfam06254.


Pssm-ID: 435033  Cd Length: 65  Bit Score: 47.34  E-value: 3.70e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 19549022   13 QGELAGKVGSTPGYLRLVFNGYKKASFVLAKKLEQCTSGAITKSDLRPDIY 63
Cdd:pfam15943 11 QKALAEALGVTQQAVSQWLHGKKGIPAEYCPAIERATSGKVTREELRPDVD 61
 
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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