› 4y5z

X-ray diffraction
2.95Å resolution

T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (P1 crystal form)

Released:
DOI: 10.2210/pdb4y5z/pdb
PDB entry 4y5z coloured by chain, front view.
PDB entry 4y5z coloured by chain, side view.
PDB entry 4y5z coloured by chain, top view.
Source organisms:
Primary publication:
Structural studies on chimeric Sesbania mosaic virus coat protein: Revisiting SeMV assembly.
Gulati A, Murthy A, Abraham A, Mohan K, Natraj U, Savithri HS, Murthy MR
Virology 489 34-43 (2016)
PMID: 26704627

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo 60-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-136429 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Capsid protein; Immunoglobulin G-binding protein A Chains: 0, 1, 2, 3, 4, 5, 6, 7, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d, e, f, g, h, i, j, k, l, m, n, o, p, q, r, s, t, u, v, w, x, y, z
Molecule details ›
Chains: 0, 1, 2, 3, 4, 5, 6, 7, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d, e, f, g, h, i, j, k, l, m, n, o, p, q, r, s, t, u, v, w, x, y, z
Length: 282 amino acids
Theoretical weight: 30.54 KDa
Source organisms: Expression system: Escherichia coli
UniProt:
  • Canonical: P02976 (Residues: 158-211; Coverage: 11%)
  • Canonical: Q9EB06 (Residues: 66-268; Coverage: 76%)
Gene names: SAOUHSC_00069, spa
Sequence domains:
Structure domains: Jelly Rolls

Ligands and Environments

1 bound ligand:
Ligand SO4 12 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM14
Spacegroup: P1
Unit cell:
a: 186.48Å b: 187.42Å c: 187.93Å
α: 61.09° β: 89.24° γ: 60.2°
R-values:
R R work R free
0.199 0.196 0.249
Expression system: Escherichia coli

Quick links

Citations

2 citation in other articles

Intracellular delivery of antibodies by chimeric Sesbania mosaic virus (SeMV) virus like particles.
Abraham et al. (2016)
1 more

1 mention without citation

All-atom normal mode dynamics of HIV-1 capsid.
Na et al. (2018)