› 4rqs

X-ray diffraction
4.49Å resolution

Crystal structure of fully glycosylated HIV-1 gp120 core bound to CD4 and 17b Fab

Released:
DOI: 10.2210/pdb4rqs/pdb
PDB entry 4rqs coloured by chain, front view.
PDB entry 4rqs coloured by chain, side view.
PDB entry 4rqs coloured by chain, top view.
Source organisms:
Primary publication:
Crystal structure of a fully glycosylated HIV-1 gp120 core reveals a stabilizing role for the glycan at Asn262.
Kong L, Wilson IA, Kwong PD
Proteins 83 590-6 (2015)
PMID: 25546301

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-208496 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (7 distinct):
T-cell surface glycoprotein CD4 Chain: B
Molecule details ›
Chain: B
Length: 185 amino acids
Theoretical weight: 20.5 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P01730 (Residues: 26-208; Coverage: 42%)
Gene name: CD4
Sequence domains:
17b Fab Light Chain Chain: C
Molecule details ›
Chain: C
Length: 214 amino acids
Theoretical weight: 23.4 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
17b Fab Heavy Chain Chain: D
Molecule details ›
Chain: D
Length: 229 amino acids
Theoretical weight: 24.46 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Surface protein gp120 Chain: G
Molecule details ›
Chain: G
Length: 313 amino acids
Theoretical weight: 34.84 KDa
Source organism: Human immunodeficiency virus type 1 (isolate YU2)
Expression system: Homo sapiens
UniProt:
  • Canonical: P35961 (Residues: 82-126, 191-293, 325-479; Coverage: 37%)
Gene name: env
Sequence domains: Envelope glycoprotein GP120

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
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 23-ID-B
Spacegroup: P43212
Unit cell:
a: 171.318Å b: 171.318Å c: 151.857Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.278 0.276 0.322
Expression systems:
  • Cricetulus griseus
  • Homo sapiens

Quick links

Citations

4 review citations

Mutations of SARS-CoV-2 spike protein: Implications on immune evasion and vaccine-induced immunity.
Mengist et al. (2021)
3 more

9 mentions without citation

On the irrationality of rational design of an HIV vaccine in light of protein intrinsic disorder.
Uversky VN. (2021)
8 more