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Rhinovirus 16 polymerase elongation complex (r1_form)

X-ray diffraction
2.93Å resolution
PDB entry 4k50 coloured by chain, front view.
PDB entry 4k50 coloured by chain, side view.
PDB entry 4k50 coloured by chain, top view.
Source organism: rhinovirus A16
Assembly composition:
hetero trimer (preferred)
Entry contents: 1 distinct polypeptide molecule
2 distinct RNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Capsid protein VP3 and RNA
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Multimeric state: hetero trimer
Accessible surface area: 25785.29 Å2
Buried surface area: 7429.84 Å2
Dissociation area: 1,446.65 Å2
Dissociation energy (ΔGdiss): 29.74 kcal/mol
Dissociation entropy (TΔSdiss): 10.94 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-182636
Assembly 2
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Assembly Name: Capsid protein VP3 and RNA
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Multimeric state: hetero trimer
Accessible surface area: 25607.42 Å2
Buried surface area: 6984.04 Å2
Dissociation area: 1,452.53 Å2
Dissociation energy (ΔGdiss): 28.63 kcal/mol
Dissociation entropy (TΔSdiss): 10.97 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-182636
Assembly 3
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Assembly Name: Capsid protein VP3 and RNA
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Multimeric state: hetero trimer
Accessible surface area: 26011.38 Å2
Buried surface area: 7474.24 Å2
Dissociation area: 1,440.12 Å2
Dissociation energy (ΔGdiss): 28.75 kcal/mol
Dissociation entropy (TΔSdiss): 10.94 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-182636
Assembly 4
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Assembly Name: Capsid protein VP3 and RNA
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Multimeric state: hetero trimer
Accessible surface area: 25960.07 Å2
Buried surface area: 6144.46 Å2
Dissociation area: 1,397.76 Å2
Dissociation energy (ΔGdiss): 28.78 kcal/mol
Dissociation entropy (TΔSdiss): 10.96 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-182636

Macromolecules

RNA-directed RNA polymerase
Chains: A, E, I, M
Length: 460 amino acids
Theoretical weight: 52.34 KDa
Source organism: rhinovirus A16
Expression system: Escherichia coli
UniProt:
  • Canonical: Q82122 (Residues: 1694-2153; Coverage: 21%)
Pfam: Viral RNA-dependent RNA polymerase
InterPro:
CATH:
RNA-directed RNA polymerase in PDB entry 4k50, assembly 1, front view.
RNA-directed RNA polymerase in PDB entry 4k50, assembly 1, side view.
RNA-directed RNA polymerase in PDB entry 4k50, assembly 1, top view.
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RNA chains B, F, J, N
Name: RNA (33-MER)
Representative chains: B, F, J, N
Source organism: rhinovirus A16 [31708]
Expression system: Not provided
Length: 35 nucleotides
Theoretical weight: 11.28 KDa
RNA (33-MER) in PDB entry 4k50, assembly 1, front view.
RNA (33-MER) in PDB entry 4k50, assembly 1, side view.
RNA (33-MER) in PDB entry 4k50, assembly 1, top view.
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RNA chains C, G, K, O
Name: RNA (5'-R(P*GP*CP*CP*CP*GP*GP*AP*CP*GP*AP*GP*AP*GP*A)-3')
Representative chains: C, G, K, O
Source organism: rhinovirus A16 [31708]
Expression system: Not provided
Length: 14 nucleotides
Theoretical weight: 4.56 KDa
RNA (5'-R(P*GP*CP*CP*CP*GP*GP*AP*CP*GP*AP*GP*AP*GP*A)-3') in PDB entry 4k50, assembly 1, front view.
RNA (5'-R(P*GP*CP*CP*CP*GP*GP*AP*CP*GP*AP*GP*AP*GP*A)-3') in PDB entry 4k50, assembly 1, side view.
RNA (5'-R(P*GP*CP*CP*CP*GP*GP*AP*CP*GP*AP*GP*AP*GP*A)-3') in PDB entry 4k50, assembly 1, top view.
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