› 6x5c

Electron Microscopy
4.04Å resolution

Asymmetric model of CD4-bound B41 HIV-1 Env SOSIP in complex with small molecule GO52

Released:
DOI: 10.2210/pdb6x5c/pdb
PDB entry 6x5c coloured by chain, front view.
PDB entry 6x5c coloured by chain, side view.
PDB entry 6x5c coloured by chain, top view.
Source organisms:
Primary publication:
A Strain-Specific Inhibitor of Receptor-Bound HIV-1 Targets a Pocket near the Fusion Peptide.
Ozorowski G, Torres JL, Santos-Martins D, Forli S, Ward AB
Cell Rep 33 108428 (2020)
PMID: 33238117
Related structures: EMD-22049

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero nonamer (preferred)
PDBe Complex ID:
PDB-CPX-109927 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (5 distinct):
Envelope glycoprotein gp160 Chains: A, D, E
Molecule details ›
Chains: A, D, E
Length: 524 amino acids
Theoretical weight: 58.87 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Homo sapiens
UniProt:
  • Canonical: B3UES2 (Residues: 29-517; Coverage: 57%)
Gene name: env
Sequence domains: Envelope glycoprotein GP120
Transmembrane protein gp41 Chains: B, F, G
Molecule details ›
Chains: B, F, G
Length: 153 amino acids
Theoretical weight: 17.36 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Homo sapiens
UniProt:
  • Canonical: B3UEZ6 (Residues: 516-668; Coverage: 18%)
Gene name: env
Sequence domains: Retroviral envelope protein
T-cell surface glycoprotein CD4 Chains: C, I, J
Molecule details ›
Chains: C, I, J
Length: 208 amino acids
Theoretical weight: 23.04 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P01730 (Residues: 25-203; Coverage: 41%)
Gene name: CD4
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand NAG 23 x NAG
Ligand UOV 3 x UOV
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.04Å
Relevant EMDB volumes: EMD-22049
Expression system: Homo sapiens

Quick links

Citations

3 review citations

How Antibodies Recognize Pathogenic Viruses: Structural Correlates of Antibody Neutralization of HIV-1, SARS-CoV-2, and Zika.
Abernathy et al. (2021)
2 more

2 mentions without citation

A Strain-Specific Inhibitor of Receptor-Bound HIV-1 Targets a Pocket near the Fusion Peptide.
Ozorowski et al. (2020)
1 more