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Conserved domains on  [gi|1443332871|emb|SSX60354|]
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phage protein [Actinobacillus lignieresii]

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
HTH_XRE super family cl22854
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 9-66 2.14e-15

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


The actual alignment was detected with superfamily member pfam15943:

Pssm-ID: 473980  Cd Length: 65  Bit Score: 63.13  E-value: 2.14e-15
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 1443332871  9 RKSGKIAGSQAKLASACGVSHTAVKKWLRG-GGIEAKYLLRIERATNGQVTirdvCEEL 66
Cdd:pfam15943  2 KKAIEIVGGQKALAEALGVTQQAVSQWLHGkKGIPAEYCPAIERATSGKVT----REEL 56
 
Name Accession Description Interval E-value
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 9-66 2.14e-15

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: 63.13  E-value: 2.14e-15
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 1443332871  9 RKSGKIAGSQAKLASACGVSHTAVKKWLRG-GGIEAKYLLRIERATNGQVTirdvCEEL 66
Cdd:pfam15943  2 KKAIEIVGGQKALAEALGVTQQAVSQWLHGkKGIPAEYCPAIERATSGKVT----REEL 56
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
13-66 1.34e-14

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


Pssm-ID: 443351  Cd Length: 68  Bit Score: 61.08  E-value: 1.34e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 1443332871 13 KIAGSQAKLASACGVSHTAVKKWLRGGG-IEAKYLLRIERATNGQVTirdvCEEL 66
Cdd:COG4197    6 EALGSQSALARALGVSQQAVSQWLNGKRrVPAERCLAIERATGGAVT----REEL 56
 
Name Accession Description Interval E-value
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 9-66 2.14e-15

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: 63.13  E-value: 2.14e-15
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 1443332871  9 RKSGKIAGSQAKLASACGVSHTAVKKWLRG-GGIEAKYLLRIERATNGQVTirdvCEEL 66
Cdd:pfam15943  2 KKAIEIVGGQKALAEALGVTQQAVSQWLHGkKGIPAEYCPAIERATSGKVT----REEL 56
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
13-66 1.34e-14

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


Pssm-ID: 443351  Cd Length: 68  Bit Score: 61.08  E-value: 1.34e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 1443332871 13 KIAGSQAKLASACGVSHTAVKKWLRGGG-IEAKYLLRIERATNGQVTirdvCEEL 66
Cdd:COG4197    6 EALGSQSALARALGVSQQAVSQWLNGKRrVPAERCLAIERATGGAVT----REEL 56
P22_Cro pfam14549
DNA-binding transcriptional regulator Cro; Bacteriophage P22 Cro protein represses genes ...
 16-60 2.66e-05

DNA-binding transcriptional regulator Cro; Bacteriophage P22 Cro protein represses genes normally expressed in early phage development and is necessary for the late stage of lytic growth. It does this by binding to the OL and OR operator-regions normally used by the repressor protein for lysogenic maintenance.


Pssm-ID: 405268  Cd Length: 60  Bit Score: 37.36  E-value: 2.66e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 1443332871 16 GSQAKLASACGVSHTAVKKWlrGGGIEAKYLLRIERATNGQVTIR 60
Cdd:pfam14549 10 GGVSKVAKALGVTPGAVSQW--GEDVPELRAYQIERLTAGALKVQ 52
 
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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