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CRYO-EM STRUCTURE OF HUMAN RHINOVIRUS 16 (HRV16) COMPLEXED WITH A TWO-DOMAIN FRAGMENT OF ITS CELLULAR RECEPTOR, INTERCELLULAR ADHESION MOLECULE-1 (D1D2-ICAM-1). IMPLICATIONS FOR VIRUS-RECEPTOR INTERACTIONS. ALPHA CARBONS ONLY

Electron Microscopy
28Å resolution
PDB entry 1d3e coloured by chain, front view.
PDB entry 1d3e coloured by chain, side view.
PDB entry 1d3e coloured by chain, top view.
Source organisms:
Assembly composition:
hetero 300-mer (preferred)
Entry contents: 5 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Intercellular adhesion molecule 1 and Capsid protein VP1
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Multimeric state: hetero 300-mer
PDBe Complex ID: PDB-CPX-138637

Macromolecules

Intercellular adhesion molecule 1
Chain: I
Length: 185 amino acids
Theoretical weight: 20.44 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P05362 (Residues: 28-212; Coverage: 37%)
Gene name: ICAM1
Pfam: Intercellular adhesion molecule (ICAM), N-terminal domain
InterPro:
SCOP: Viruses and virus-receptor complexes
Intercellular adhesion molecule 1 in PDB entry 1d3e, assembly 1, front view.
Intercellular adhesion molecule 1 in PDB entry 1d3e, assembly 1, side view.
Intercellular adhesion molecule 1 in PDB entry 1d3e, assembly 1, top view.
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Capsid protein VP1
Chain: 1
Length: 285 amino acids
Theoretical weight: 32.31 KDa
Source organism: Human rhinovirus sp.
UniProt:
  • Canonical: Q82122 (Residues: 569-853; Coverage: 13%)
Pfam: picornavirus capsid protein
InterPro:
SCOP: Viruses and virus-receptor complexes
Capsid protein VP1 in PDB entry 1d3e, assembly 1, front view.
Capsid protein VP1 in PDB entry 1d3e, assembly 1, side view.
Capsid protein VP1 in PDB entry 1d3e, assembly 1, top view.
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Capsid protein VP2
Chain: 2
Length: 252 amino acids
Theoretical weight: 27.91 KDa
Source organism: Human rhinovirus sp.
UniProt:
  • Canonical: Q82122 (Residues: 79-330; Coverage: 12%)
Pfam: picornavirus capsid protein
InterPro:
SCOP: Viruses and virus-receptor complexes
Capsid protein VP2 in PDB entry 1d3e, assembly 1, front view.
Capsid protein VP2 in PDB entry 1d3e, assembly 1, side view.
Capsid protein VP2 in PDB entry 1d3e, assembly 1, top view.
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Capsid protein VP3
Chain: 3
Length: 238 amino acids
Theoretical weight: 26.31 KDa
Source organism: Human rhinovirus sp.
UniProt:
  • Canonical: Q82122 (Residues: 331-568; Coverage: 11%)
Pfam: picornavirus capsid protein
InterPro:
SCOP: Viruses and virus-receptor complexes
Capsid protein VP3 in PDB entry 1d3e, assembly 1, front view.
Capsid protein VP3 in PDB entry 1d3e, assembly 1, side view.
Capsid protein VP3 in PDB entry 1d3e, assembly 1, top view.
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Capsid protein VP4
Chain: 4
Length: 68 amino acids
Theoretical weight: 7.37 KDa
Source organism: Human rhinovirus sp.
UniProt:
  • Canonical: Q82122 (Residues: 2-69; Coverage: 3%)
Pfam: Picornavirus coat protein (VP4)
InterPro:
SCOP: Viruses and virus-receptor complexes
Capsid protein VP4 in PDB entry 1d3e, assembly 1, front view.
Capsid protein VP4 in PDB entry 1d3e, assembly 1, side view.
Capsid protein VP4 in PDB entry 1d3e, assembly 1, top view.
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