PDB entry 2vdn

View 2vdn on RCSB PDB site
Description: re-refinement of integrin alphaiibbeta3 headpiece bound to antagonist eptifibatide
Class: cell adhesion/immune system complex
Keywords: fibrinogen binding, alternative splicing, platelet integrin alphaiibbeta3, polymorphism, glycoprotein, cell adhesion, calcium, membrane, integrin, receptor, antagonist, host-virus interaction, pyrrolidone carboxylic acid, transmembrane, phosphorylation, disease mutation, cleavage on pair of basic residues, cell adhesion/immune system complex
Deposited on 2007-10-10, released 2008-09-02
The last revision prior to the SCOP 1.75 freeze date was dated 2008-09-02, with a file datestamp of 2008-08-29.
Experiment type: XRAY
Resolution: 2.9 Å
R-factor: 0.16574
AEROSPACI score: 0.4 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: integrin alpha-IIb
    Species: HOMO SAPIENS
    Database cross-references and differences (RAF-indexed):
    • Uniprot P08514 (0-451)
      • conflict see remark 9 (281)
  • Chain 'B':
    Compound: integrin beta-3
    Species: HOMO SAPIENS
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: eptifibatide
    Database cross-references and differences (RAF-indexed):
    • PDB 2VDN
  • Chain 'H':
    Compound: monoclonal antibody 10e5 heavy chain
    Species: Mus musculus
    Domains in SCOP 1.75: d2vdnh1
  • Chain 'L':
    Compound: monoclonal antibody 10e5 light chain
    Species: Mus musculus
  • Heterogens: GOL, CA, NAG, MG, MPT, NH2, HOH

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    No sequence available.

  • Chain 'C':
    No sequence available.

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >2vdnH (H:)
evqlqqsgaelvkpgasvklsctasgfnikdtyvhwvkqrpeqglewigridpangytky
dpkfqgkatitadtssntaylqlssltsedtavyycvrplydyyamdywgqgtsvtvssa
kttapsvyplapvcgdttgssvtlgclvkgyfpepvtltwnsgslssgvhtfpavlqsdl
ytlsssvtvtsstwpsqsitcnvahpasstkvdkkieprgp

    Sequence, based on observed residues (ATOM records): (download) 
    >2vdnH (H:)
evqlqqsgaelvkpgasvklsctasgfnikdtyvhwvkqrpeqglewigridpangytky
dpkfqgkatitadtssntaylqlssltsedtavyycvrplydyyamdywgqgtsvtvssa
kttapsvyplapvcttgssvtlgclvkgyfpepvtltwnsgslssgvhtfpavlqsdlyt
lsssvtvtsstwpsqsitcnvahpasstkvdkkieprgp

  • Chain 'L':
    No sequence available.