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Crystal structure of human enterovirus D68 in complex with 6'SL

X-ray diffraction
2.32Å resolution
PDB entry 5bnn coloured by chain, front view.
PDB entry 5bnn coloured by chain, side view.
PDB entry 5bnn coloured by chain, top view.
Source organism: enterovirus D68
Assembly composition:
hetero 240-mer (preferred)
Entry contents: 4 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Capsid protein VP2
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Multimeric state: hetero 240-mer
Accessible surface area: 987201.47 Å2
Buried surface area: 2216643.73 Å2
Dissociation area: 166,282.94 Å2
Dissociation energy (ΔGdiss): 2,157.09 kcal/mol
Dissociation entropy (TΔSdiss): 682.51 kcal/mol
Symmetry number: 60
PDBe Complex ID: PDB-CPX-563555

Macromolecules

Capsid protein VP1
Chain: A
Length: 297 amino acids
Theoretical weight: 32.78 KDa
Source organism: enterovirus D68
UniProt:
  • Canonical: Q68T42 (Residues: 565-861; Coverage: 14%)
Pfam: Picornavirus coat protein
InterPro:
CATH: Jelly Rolls
Capsid protein VP1 in PDB entry 5bnn, assembly 1, front view.
Capsid protein VP1 in PDB entry 5bnn, assembly 1, side view.
Capsid protein VP1 in PDB entry 5bnn, assembly 1, top view.
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Capsid protein VP2
Chain: B
Length: 248 amino acids
Theoretical weight: 27.71 KDa
Source organism: enterovirus D68
UniProt:
  • Canonical: Q68T42 (Residues: 70-317; Coverage: 11%)
Pfam: picornavirus capsid protein
InterPro:
CATH: Jelly Rolls
Capsid protein VP2 in PDB entry 5bnn, assembly 1, front view.
Capsid protein VP2 in PDB entry 5bnn, assembly 1, side view.
Capsid protein VP2 in PDB entry 5bnn, assembly 1, top view.
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Capsid protein VP3
Chain: C
Length: 247 amino acids
Theoretical weight: 27.2 KDa
Source organism: enterovirus D68
UniProt:
  • Canonical: Q68T42 (Residues: 318-564; Coverage: 11%)
Pfam: picornavirus capsid protein
InterPro:
CATH: Jelly Rolls
Capsid protein VP3 in PDB entry 5bnn, assembly 1, front view.
Capsid protein VP3 in PDB entry 5bnn, assembly 1, side view.
Capsid protein VP3 in PDB entry 5bnn, assembly 1, top view.
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Capsid protein VP4
Chain: D
Length: 68 amino acids
Theoretical weight: 7.34 KDa
Source organism: enterovirus D68
UniProt:
  • Canonical: Q68T42 (Residues: 2-69; Coverage: 3%)
Pfam: Picornavirus coat protein (VP4)
InterPro:
Capsid protein VP4 in PDB entry 5bnn, assembly 1, front view.
Capsid protein VP4 in PDB entry 5bnn, assembly 1, side view.
Capsid protein VP4 in PDB entry 5bnn, assembly 1, top view.
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