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Conserved domains on  [gi|1214736423|gb|ASK03584|]
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hypothetical protein CFA70_26735 (plasmid) [Citrobacter freundii]

Protein Classification

winged helix-turn-helix domain-containing protein( domain architecture ID 28424)

winged helix-turn-helix (wHTH) domain-containing protein binds DNA and may function as a transcriptional regulator

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  10473770|8831795|15808743
SCOP:  3000034

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_43 super family cl11547
Winged helix-turn helix; This family, found in various hypothetical prokaryotic proteins, is a ...
 24-80 9.49e-07

Winged helix-turn helix; This family, found in various hypothetical prokaryotic proteins, is a probable winged helix DNA-binding domain.


The actual alignment was detected with superfamily member pfam09904:

Pssm-ID: 472215  Cd Length: 89  Bit Score: 42.68  E-value: 9.49e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 1214736423 24 SLQDLHKATEIPESTIKRQLSALRDefgMNILFVRESTGERGATGYYMLTDWGILDR 80
Cdd:pfam09904 22 NVPKLMAATGMPRRTAQDTIKALPE---LGIECEFVQDGERNNAGYYRISDWGPINS 75
 
Name Accession Description Interval E-value
HTH_43 pfam09904
Winged helix-turn helix; This family, found in various hypothetical prokaryotic proteins, is a ...
 24-80 9.49e-07

Winged helix-turn helix; This family, found in various hypothetical prokaryotic proteins, is a probable winged helix DNA-binding domain.


Pssm-ID: 430915  Cd Length: 89  Bit Score: 42.68  E-value: 9.49e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 1214736423 24 SLQDLHKATEIPESTIKRQLSALRDefgMNILFVRESTGERGATGYYMLTDWGILDR 80
Cdd:pfam09904 22 NVPKLMAATGMPRRTAQDTIKALPE---LGIECEFVQDGERNNAGYYRISDWGPINS 75
COG4519 COG4519
Uncharacterized conserved protein [Function unknown];
21-81 9.77e-07

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 443593  Cd Length: 96  Bit Score: 42.64  E-value: 9.77e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1214736423 21 EKPSLQDLHKATEIPESTIKRQLSALRdefGMNILFVRESTGERGATGYYMLTDWGILDRS 81
Cdd:COG4519   23 GRPNVPALMEATGMPRRTAQDTLKALP---GLGIECEFVQDGVRNNDGYYRISDWGPIDRA 80
 
Name Accession Description Interval E-value
HTH_43 pfam09904
Winged helix-turn helix; This family, found in various hypothetical prokaryotic proteins, is a ...
 24-80 9.49e-07

Winged helix-turn helix; This family, found in various hypothetical prokaryotic proteins, is a probable winged helix DNA-binding domain.


Pssm-ID: 430915  Cd Length: 89  Bit Score: 42.68  E-value: 9.49e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 1214736423 24 SLQDLHKATEIPESTIKRQLSALRDefgMNILFVRESTGERGATGYYMLTDWGILDR 80
Cdd:pfam09904 22 NVPKLMAATGMPRRTAQDTIKALPE---LGIECEFVQDGERNNAGYYRISDWGPINS 75
COG4519 COG4519
Uncharacterized conserved protein [Function unknown];
21-81 9.77e-07

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 443593  Cd Length: 96  Bit Score: 42.64  E-value: 9.77e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1214736423 21 EKPSLQDLHKATEIPESTIKRQLSALRdefGMNILFVRESTGERGATGYYMLTDWGILDRS 81
Cdd:COG4519   23 GRPNVPALMEATGMPRRTAQDTLKALP---GLGIECEFVQDGVRNNDGYYRISDWGPIDRA 80
YobV COG2378
Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains ...
 11-74 1.61e-03

Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains [Transcription];


Pssm-ID: 441945 [Multi-domain]  Cd Length: 314  Bit Score: 35.44  E-value: 1.61e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1214736423  11 FALVNALSKTEKPSLQDLHKATEIPESTIKRQLSALRdEFGMNIlfvresTGERGATGYYMLTD 74
Cdd:COG2378     8 LALLQLLQSRRGVTAAELAERLEVSERTIYRDIDALR-ELGVPI------EAERGRGGGYRLRD 64
 
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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