› 8dun

Electron Microscopy
5.84Å resolution

Cryo-EM Structure of Antibody SKW11 in complex with Western Equine Encephalitis Virus spike (local refinement from VLP particles)

Released:
DOI: 10.2210/pdb8dun/pdb
PDB entry 8dun coloured by chain, front view.
PDB entry 8dun coloured by chain, side view.
PDB entry 8dun coloured by chain, top view.
Source organisms:
Primary publication:
Vaccine elicitation and structural basis for antibody protection against alphaviruses.
Sutton MS, Pletnev S, Callahan V, Ko S, Tsybovsky Y, Bylund T, Casner RG, Cerutti G, Gardner CL, Guirguis V, Verardi R, Zhang B, Ambrozak D, Beddall M, Lei H, Yang ES, Liu T, Henry AR, Rawi R, Schön A, Schramm CA, Shen CH, Shi W, Stephens T, Yang Y, Florez MB, Ledgerwood JE, Burke CW, Shapiro L, Fox JM, Kwong PD, Roederer M
Cell 186 2672-2689.e25 (2023)
PMID: 37295404
Related structures: EMD-27723

Function and Biology Details

Reaction catalysed: 
Autocatalytic release of the core protein from the N-terminus of the togavirus structural polyprotein by hydrolysis of a -Trp-|-Ser- bond.
Biochemical function:
Biological process:
  • not assigned
Cellular component:

Structure analysis Details

Assembly composition:
hetero dodecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-225478 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (5 distinct):
Antibody SKW11 heavy chain Chains: H, I, N
Molecule details ›
Chains: H, I, N
Length: 231 amino acids
Theoretical weight: 24.71 KDa
Source organism: Macaca fascicularis
Expression system: Homo sapiens
Antibody SKW11 light chain Chains: L, M, O
Molecule details ›
Chains: L, M, O
Length: 214 amino acids
Theoretical weight: 23.32 KDa
Source organism: Macaca fascicularis
Expression system: Homo sapiens
Precursor of protein E3/E2 Chains: A, F, J
Molecule details ›
Chains: A, F, J
Length: 489 amino acids
Theoretical weight: 52.91 KDa
Source organism: Western equine encephalitis virus
Expression system: Homo sapiens
UniProt:
  • Canonical: P13897 (Residues: 738-1226; Coverage: 40%)
Sequence domains: Alphavirus E1 glycoprotein
Spike glycoprotein E2 Chains: B, G, K
Molecule details ›
Chains: B, G, K
Length: 408 amino acids
Theoretical weight: 45.29 KDa
Source organism: Western equine encephalitis virus
Expression system: Homo sapiens
UniProt:
  • Canonical: P13897 (Residues: 330-737; Coverage: 33%)
Sequence domains: Alphavirus E2 glycoprotein

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
1 bound ligand:
Ligand NAG 7 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 5.84Å
Relevant EMDB volumes: EMD-27723
Expression system: Homo sapiens

Quick links

Citations

1 citations in other articles

Antibody offers broad alphavirus protection.
Crunkhorn S. (2023)