› 8fjl

Electron Microscopy
3.27Å resolution

Golden Shiner Reovirus Core Tropical Vertex

Released:
DOI: 10.2210/pdb8fjl/pdb
PDB entry 8fjl coloured by chain, front view.
PDB entry 8fjl coloured by chain, side view.
PDB entry 8fjl coloured by chain, top view.
Source organism: Golden shiner reovirus
Primary publication:
Asymmetric reconstruction of the aquareovirus core at near-atomic resolution and mechanism of transcription initiation.
Stevens A, Cui Y, Shivakoti S, Zhou ZH
Protein Cell (2023)
PMID: 36856784
Related structures: EMD-29244

Function and Biology Details

Reactions catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
ATP + H(2)O = ADP + phosphate
S-adenosyl-L-methionine + a 5'-(5'-triphosphoguanosine)-[mRNA] = S-adenosyl-L-homocysteine + a 5'-(N(7)-methyl 5'-triphosphoguanosine)-[mRNA]
GTP + a 5'-diphospho-[mRNA] = diphosphate + a 5'-(5'-triphosphoguanosine)-[mRNA]
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 42-mer (preferred)
PDBe Complex ID:
PDB-CPX-185020 (preferred)
Entry contents:
6 distinct polypeptide molecules
5 distinct RNA molecules
Macromolecules (11 distinct):
RNA-directed RNA polymerase VP2 Chain: A
Molecule details ›
Chain: A
Length: 1273 amino acids
Theoretical weight: 141.61 KDa
Source organism: Golden shiner reovirus
UniProt:
  • Canonical: Q8JU61 (Residues: 2-1274; Coverage: 100%)
Gene name: S2
Sequence domains: Reovirus RNA-dependent RNA polymerase lambda 3
Microtubule-associated protein VP5 Chain: B
Molecule details ›
Chain: B
Length: 718 amino acids
Theoretical weight: 79.35 KDa
Source organism: Golden shiner reovirus
UniProt:
  • Canonical: Q8JU58 (Residues: 1-718; Coverage: 99%)
Gene name: S5
Sequence domains: Reovirus minor core protein Mu-2
Major inner capsid protein VP3 Chains: C, D, E, F, G, H, I, J, K, L
Molecule details ›
Chains: C, D, E, F, G, H, I, J, K, L
Length: 1138 amino acids
Theoretical weight: 124.69 KDa
Source organism: Golden shiner reovirus
UniProt:
  • Canonical: Q8JU60 (Residues: 77-1214; Coverage: 94%)
Gene name: S3
Sequence domains:
Major inner capsid protein VP3 Chains: M, N, k, l, m
Molecule details ›
Chains: M, N, k, l, m
Length: 94 amino acids
Theoretical weight: 9.15 KDa
Source organism: Golden shiner reovirus
UniProt:
  • Canonical: Q8JU60 (Residues: 13-106; Coverage: 8%)
Gene name: S3
Clamp protein VP6 Chains: V, W, X, a, b, d, e, g, h, n
Molecule details ›
Chains: V, W, X, a, b, d, e, g, h, n
Length: 411 amino acids
Theoretical weight: 44.49 KDa
Source organism: Golden shiner reovirus
UniProt:
  • Canonical: Q8JU54 (Residues: 2-412; Coverage: 100%)
Gene name: S8
Sequence domains: Reoviral Sigma1/Sigma2 family
Outer capsid protein VP1 Chains: Y, Z, c, f, i
Molecule details ›
Chains: Y, Z, c, f, i
Length: 1297 amino acids
Theoretical weight: 141.11 KDa
Source organism: Golden shiner reovirus
UniProt:
  • Canonical: Q8JU62 (Residues: 2-1298; Coverage: 100%)
Gene name: S1
Sequence domains:
RNA (38-MER) Chains: a5, b5
Molecule details ›
Chains: a5, b5
Length: 28 nucleotides
Theoretical weight: 8.85 KDa
RNA (30-MER) Chains: a6, b6
Molecule details ›
Chains: a6, b6
Length: 38 nucleotides
Theoretical weight: 12.03 KDa
RNA (52-MER) Chains: a1, b1
Molecule details ›
Chains: a1, b1
Length: 52 nucleotides
Theoretical weight: 16.47 KDa
RNA (39-MER) Chains: a3, b3
Molecule details ›
Chains: a3, b3
Length: 40 nucleotides
Theoretical weight: 12.66 KDa
RNA (60-MER) Chains: a2, b2
Molecule details ›
Chains: a2, b2
Length: 60 nucleotides
Theoretical weight: 19.02 KDa

Ligands and Environments

1 bound ligand:
Ligand ZN 4 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.27Å
Relevant EMDB volumes: EMD-29244

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