› 5tip

X-ray diffraction
2Å resolution

The Structure of the Major Capsid protein of PBCV-1

Released:
DOI: 10.2210/pdb5tip/pdb
PDB entry 5tip coloured by chain, front view.
PDB entry 5tip coloured by chain, side view.
PDB entry 5tip coloured by chain, top view.
Source organism: Paramecium bursaria Chlorella virus 1
Primary publication:
Structure of the chlorovirus PBCV-1 major capsid glycoprotein determined by combining crystallographic and carbohydrate molecular modeling approaches.
De Castro C, Klose T, Speciale I, Lanzetta R, Molinaro A, Van Etten JL, Rossmann MG
Proc Natl Acad Sci U S A 115 E44-E52 (2018)
PMID: 29255015

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-151708 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (6 distinct):
Major capsid protein Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 436 amino acids
Theoretical weight: 48.07 KDa
Source organism: Paramecium bursaria Chlorella virus 1
UniProt:
  • Canonical: P30328 (Residues: 2-437; Coverage: 100%)
Gene name: A430L
Sequence domains:
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: BGC, FUC, XYP, RM4, 7CV, XXR, MAN, GLA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: BGC, FUC, XYP, XXR, MAN, GLA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: BGC, FUC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: BGC, FUC, XYP, RM4, XXR, GLA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: BGC, FUC, XYP, RM4, XXR, MAN, GLA
Carbohydrate polymer
2 bound ligands:
Ligand HG 4 x HG
Ligand BGC 1 x BGC
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 14-BM-C
Spacegroup: P213
Unit cell:
a: 188.792Å b: 188.792Å c: 188.792Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.183 0.176 0.206

Quick links

Citations

6 review citations

Chloroviruses.
Van Etten et al. (2019)
5 more

6 mentions without citation

Structure of the chlorovirus PBCV-1 major capsid glycoprotein determined by combining crystallographic and carbohydrate molecular modeling approaches.
De Castro et al. (2018)
5 more