› 6vkm

X-ray diffraction
3.5Å resolution

Crystal Structure of Stabilized GP from Makona Variant of Ebola Virus

Released:
DOI: 10.2210/pdb6vkm/pdb
PDB entry 6vkm coloured by chain, front view.
PDB entry 6vkm coloured by chain, side view.
PDB entry 6vkm coloured by chain, top view.
Source organism: Zaire ebolavirus
Primary publication:
Structure-Based Design of Prefusion-Stabilized Filovirus Glycoprotein Trimers.
Rutten L, Gilman MSA, Blokland S, Juraszek J, McLellan JS, Langedijk JPM
Cell Rep 30 4540-4550.e3 (2020)
PMID: 32234486

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-170176 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Envelope glycoprotein Chain: A
Molecule details ›
Chain: A
Length: 494 amino acids
Theoretical weight: 55.45 KDa
Source organism: Zaire ebolavirus
Expression system: Homo sapiens
UniProt:
  • Canonical: Q05320 (Residues: 1-647; Coverage: 71%)
Gene name: GP
Sequence domains: Filovirus glycoprotein

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
1 bound ligand:
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: R32
Unit cell:
a: 113.11Å b: 113.11Å c: 393.18Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.285 0.284 0.303
Expression system: Homo sapiens

Quick links

Citations

5 review citations

Structure-guided envelope trimer design in HIV-1 vaccine development: a narrative review.
Derking et al. (2021)
4 more

4 mentions without citation

Virus vaccines: proteins prefer prolines.
Sanders et al. (2021)
3 more