› 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 4rqs coloured by chain and viewed from the front.
PDB 4rqs coloured by chain and viewed from the side.
PDB 4rqs coloured by chain and viewed from the top.
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 (2014)
PMID: 25546301

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (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