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Integrin alphaIIbbeta3 in complex with AGDV peptide

X-ray diffraction
2.85Å resolution
PDB entry 4z7o coloured by chain, front view.
PDB entry 4z7o coloured by chain, side view.
PDB entry 4z7o coloured by chain, top view.
Source organisms:
Assembly composition:
hetero pentamer (preferred)
Entry contents: 5 distinct polypeptide molecules

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Assemblies

Assembly 1
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Assembly Name: Integrin alphaIIb-beta3 complex and antibody and peptide
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Multimeric state: hetero pentamer
Accessible surface area: 56779.64 Å2
Buried surface area: 11964.37 Å2
Dissociation area: 924.57 Å2
Dissociation energy (ΔGdiss): -4.25 kcal/mol
Dissociation entropy (TΔSdiss): 14.75 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-209193
Assembly 2 (preferred)
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Assembly Name: Integrin alphaIIb-beta3 complex and antibody and peptide
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Multimeric state: hetero pentamer
Accessible surface area: 56630.38 Å2
Buried surface area: 12087.7 Å2
Dissociation area: 925.13 Å2
Dissociation energy (ΔGdiss): -6.27 kcal/mol
Dissociation entropy (TΔSdiss): 14.75 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-209193

Macromolecules

Integrin alpha-IIb heavy chain
Chains: A, C
Length: 455 amino acids
Theoretical weight: 49.36 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P08514 (Residues: 32-486; Coverage: 45%)
Gene names: GP2B, ITGA2B, ITGAB
Pfam: FG-GAP repeat
InterPro:
CATH: Integrin alpha, N-terminal
Integrin alpha-IIb heavy chain in PDB entry 4z7o, assembly 2, front view.
Integrin alpha-IIb heavy chain in PDB entry 4z7o, assembly 2, side view.
Integrin alpha-IIb heavy chain in PDB entry 4z7o, assembly 2, top view.
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Integrin beta-3
Chains: B, D
Length: 469 amino acids
Theoretical weight: 51.8 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P05106 (Residues: 29-497; Coverage: 62%)
Gene names: GP3A, ITGB3
Pfam:
InterPro:
CATH:
Integrin beta-3 in PDB entry 4z7o, assembly 2, front view.
Integrin beta-3 in PDB entry 4z7o, assembly 2, side view.
Integrin beta-3 in PDB entry 4z7o, assembly 2, top view.
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Monoclonal antibody 10E5 Fab heavy chain
Chains: E, H
Length: 221 amino acids
Theoretical weight: 23.77 KDa
Source organism: Mus musculus
Expression system: Cricetulus griseus
InterPro:
CATH: Immunoglobulins
Monoclonal antibody 10E5 Fab heavy chain in PDB entry 4z7o, assembly 2, front view.
Monoclonal antibody 10E5 Fab heavy chain in PDB entry 4z7o, assembly 2, side view.
Monoclonal antibody 10E5 Fab heavy chain in PDB entry 4z7o, assembly 2, top view.
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Monoclonal antibody 10E5 Fab light chain
Chains: F, L
Length: 214 amino acids
Theoretical weight: 23.33 KDa
Source organism: Mus musculus
Expression system: Cricetulus griseus
InterPro:
CATH: Immunoglobulins
Monoclonal antibody 10E5 Fab light chain in PDB entry 4z7o, assembly 2, front view.
Monoclonal antibody 10E5 Fab light chain in PDB entry 4z7o, assembly 2, side view.
Monoclonal antibody 10E5 Fab light chain in PDB entry 4z7o, assembly 2, top view.
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Tetrapeptide ALA-GLY-ASP-VAL
Chains: G, I
Length: 4 amino acids
Theoretical weight: 360 Da
Source organism: Homo sapiens
Expression system: Not provided
Tetrapeptide ALA-GLY-ASP-VAL in PDB entry 4z7o, assembly 2, front view.
Tetrapeptide ALA-GLY-ASP-VAL in PDB entry 4z7o, assembly 2, side view.
Tetrapeptide ALA-GLY-ASP-VAL in PDB entry 4z7o, assembly 2, top view.
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