› 4oq9

X-ray diffraction
1.45Å resolution

Satellite Tobacco Mosaic Virus Refined to 1.4 A Resolution using non-crystallographic symmetry restraints

Released:
DOI: 10.2210/pdb4oq9/pdb
PDB entry 4oq9 coloured by chain, front view.
PDB entry 4oq9 coloured by chain, side view.
PDB entry 4oq9 coloured by chain, top view.
Source organism: Satellite tobacco mosaic virus
Primary publication:
Satellite tobacco mosaic virus refined to 1.4 Å resolution.
Larson SB, Day JS, McPherson A
Acta Crystallogr D Biol Crystallogr 70 2316-30 (2014)
PMID: 25195746

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domain:

Structure analysis Details

Assembly composition:
hetero 240-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-148094 (preferred)
Entry contents:
1 distinct polypeptide molecule
3 distinct RNA molecules
Macromolecules (4 distinct):
Coat protein Chains: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O
Length: 159 amino acids
Theoretical weight: 17.53 KDa
Source organism: Satellite tobacco mosaic virus
UniProt:
  • Canonical: P17574 (Residues: 1-159; Coverage: 100%)
Structure domains: Satellite virus coat domain
RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3') Chains: P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d
Molecule details ›
Chains: P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d
Length: 10 nucleotides
Theoretical weight: 3.25 KDa
Source organism: Satellite tobacco mosaic virus
RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3') Chains: e, f, g, h, i, j, k, l, m, n, o, p, q, r, s
Molecule details ›
Chains: e, f, g, h, i, j, k, l, m, n, o, p, q, r, s
Length: 10 nucleotides
Theoretical weight: 3.02 KDa
Source organism: Satellite tobacco mosaic virus
RNA (5'-R(P*UP*U)-3') Chains: 1, 2, 3, 4, 5, 6, 7, 8, t, u, v, w, x, y, z
Molecule details ›
Chains: 1, 2, 3, 4, 5, 6, 7, 8, t, u, v, w, x, y, z
Length: 2 nucleotides
Theoretical weight: 567 Da
Source organism: Satellite tobacco mosaic virus

Ligands and Environments

4 bound ligands:
Ligand PO4 3 x PO4
Ligand SO4 18 x SO4
Ligand NA 17 x NA
Ligand MG 3 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.2.2
Spacegroup: I222
Unit cell:
a: 172.69Å b: 190.3Å c: 201.69Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.218 0.217 0.25

Quick links

Citations

6 citation in other articles

A classification system for virophages and satellite viruses.
Krupovic et al. (2016)
5 more

5 mentions without citation

Satellite tobacco mosaic virus refined to 1.4 Å resolution.
Larson et al. (2014)
4 more