› 5vn8

Electron Microscopy
3.6Å resolution

Cryo-EM model of B41 SOSIP.664 in complex with fragment antigen binding variable domain of b12

Released:
DOI: 10.2210/pdb5vn8/pdb
PDB entry 5vn8 coloured by chain, front view.
PDB entry 5vn8 coloured by chain, side view.
PDB entry 5vn8 coloured by chain, top view.
Source organisms:
Primary publication:
Open and closed structures reveal allostery and pliability in the HIV-1 envelope spike.
Ozorowski G, Pallesen J, de Val N, Lyumkis D, Cottrell CA, Torres JL, Copps J, Stanfield RL, Cupo A, Pugach P, Moore JP, Wilson IA, Ward AB
OpenAccess logo Nature 547 360-363 (2017)
PMID: 28700571
Related structures: EMD-8717

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dodecamer (preferred)
PDBe Complex ID:
PDB-CPX-207664 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (7 distinct):
Envelope glycoprotein gp160 Chains: D, E, G
Molecule details ›
Chains: D, E, G
Length: 516 amino acids
Theoretical weight: 57.7 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Homo sapiens
Transmembrane protein gp41 Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 153 amino acids
Theoretical weight: 17.36 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Homo sapiens
b12 Fab heavy chain Chains: F, H, I
Molecule details ›
Chains: F, H, I
Length: 230 amino acids
Theoretical weight: 24.91 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
b12 Fab light chain Chains: J, K, L
Molecule details ›
Chains: J, K, L
Length: 215 amino acids
Theoretical weight: 23.71 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
1 bound ligand:
Ligand NAG 33 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.6Å
Relevant EMDB volumes: EMD-8717
Expression system: Homo sapiens

Quick links

Citations

24 review citations

Molecular Mechanism of HIV-1 Entry.
Chen B. (2019)
23 more

21 mentions without citation

V2-Specific Antibodies in HIV-1 Vaccine Research and Natural Infection: Controllers or Surrogate Markers.
Duerr et al. (2019)
20 more