PDB entry 3kmd

View 3kmd on RCSB PDB site
Description: Crystal structure of the p53 core domain bound to a full consensus site as a self-assembled tetramer
Class: DNA binding protein/DNA
Keywords: p53 core domain, protein-DNA interaction, self assembled tetramer, Activator, Apoptosis, Cell cycle, Disease mutation, DNA-binding, Endoplasmic reticulum, Glycoprotein, Host-virus interaction, Isopeptide bond, Li-Fraumeni syndrome, Metal-binding, Methylation, Nucleus, Phosphoprotein, Transcription, Transcription regulation, Tumor suppressor, DNA BINDING PROTEIN-DNA complex
Deposited on 2009-11-10, released 2010-02-23
The last revision prior to the SCOPe 2.05 freeze date was dated 2012-03-21, with a file datestamp of 2012-03-16.
Experiment type: XRAY
Resolution: 2.15 Å
R-factor: 0.217
AEROSPACI score: 0.37 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Cellular tumor antigen p53
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.05: d3kmda_
  • Chain 'B':
    Compound: Cellular tumor antigen p53
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.05: d3kmdb_
  • Chain 'C':
    Compound: Cellular tumor antigen p53
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.05: d3kmdc_
  • Chain 'D':
    Compound: Cellular tumor antigen p53
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.05: d3kmdd_
  • Chain 'E':
    Compound: 5'-d(*gp*gp*gp*cp*ap*tp*gp*cp*cp*tp*ap*gp*gp*cp*ap*tp*gp*cp*c)-3'
  • Chain 'F':
    Compound: 5'-d(*gp*gp*gp*cp*ap*tp*gp*cp*cp*tp*ap*gp*gp*cp*ap*tp*gp*cp*c)-3'
  • Heterogens: ZN, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3kmdA (A:)
    plsssvpsqktyqgsygfrlgflhsgtaksvtctyspalnkmfcqlaktcpvqlwvdstp
    ppgtrvramaiykqsqhmtevvrrcphhercsdsdglappqhlirvegnlrveylddrnt
    frhsvvvpyeppevgsdcttihynymcnsscmggmnrrpiltiitledssgnllgrnsfe
    vrvcacpgrdrrteeenlrk
    

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3kmdB (B:)
    plsssvpsqktyqgsygfrlgflhsgtaksvtctyspalnkmfcqlaktcpvqlwvdstp
    ppgtrvramaiykqsqhmtevvrrcphhercsdsdglappqhlirvegnlrveylddrnt
    frhsvvvpyeppevgsdcttihynymcnsscmggmnrrpiltiitledssgnllgrnsfe
    vrvcacpgrdrrteeenlrk
    

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3kmdC (C:)
    plsssvpsqktyqgsygfrlgflhsgtaksvtctyspalnkmfcqlaktcpvqlwvdstp
    ppgtrvramaiykqsqhmtevvrrcphhercsdsdglappqhlirvegnlrveylddrnt
    frhsvvvpyeppevgsdcttihynymcnsscmggmnrrpiltiitledssgnllgrnsfe
    vrvcacpgrdrrteeenlrk
    

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3kmdD (D:)
    plsssvpsqktyqgsygfrlgflhsgtaksvtctyspalnkmfcqlaktcpvqlwvdstp
    ppgtrvramaiykqsqhmtevvrrcphhercsdsdglappqhlirvegnlrveylddrnt
    frhsvvvpyeppevgsdcttihynymcnsscmggmnrrpiltiitledssgnllgrnsfe
    vrvcacpgrdrrteeenlrk
    

  • Chain 'E':
    No sequence available.

  • Chain 'F':
    No sequence available.