› 3jwd

X-ray diffraction
2.61Å resolution

Structure of HIV-1 gp120 with gp41-Interactive Region: Layered Architecture and Basis of Conformational Mobility

Released:
DOI: 10.2210/pdb3jwd/pdb
PDB entry 3jwd coloured by chain, front view.
PDB entry 3jwd coloured by chain, side view.
PDB entry 3jwd coloured by chain, top view.
Source organisms:
Primary publication:
Structure of HIV-1 gp120 with gp41-interactive region reveals layered envelope architecture and basis of conformational mobility.
Pancera M, Majeed S, Ban YE, Chen L, Huang CC, Kong L, Kwon YD, Stuckey J, Zhou T, Robinson JE, Schief WR, Sodroski J, Wyatt R, Kwong PD
Proc Natl Acad Sci U S A 107 1166-71 (2010)
PMID: 20080564

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-208497 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
HIV-1 GP120 ENVELOPE GLYCOPROTEIN Chains: A, B
Molecule details ›
Chains: A, B
Length: 379 amino acids
Theoretical weight: 42.12 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Drosophila melanogaster
Structure domains: Human immunodeficiency virus 1, Gp160, envelope glycoprotein
T-cell surface glycoprotein CD4 Chains: C, D
Molecule details ›
Chains: C, D
Length: 184 amino acids
Theoretical weight: 20.42 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P01730 (Residues: 26-208; Coverage: 42%)
Gene name: CD4
Sequence domains:
Structure domains: Immunoglobulins
FAB 48D LIGHT CHAIN Chains: L, O
Molecule details ›
Chains: L, O
Length: 213 amino acids
Theoretical weight: 23.25 KDa
Source organism: Homo sapiens
Expression system: Herpesviridae sp.
Structure domains: Immunoglobulins
FAB 48D HEAVY CHAIN Chains: H, P
Molecule details ›
Chains: H, P
Length: 220 amino acids
Theoretical weight: 23.52 KDa
Source organism: Homo sapiens
Expression system: Herpesviridae sp.
Structure domains: Immunoglobulins

Ligands and Environments

2 bound ligands:
Ligand NAG 19 x NAG
Ligand GOL 2 x GOL
1 modified residue:
Ligand YCM 2 x YCM

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P212121
Unit cell:
a: 83.112Å b: 172.954Å c: 193.144Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.201 0.201 0.275
Expression systems:
  • Drosophila melanogaster
  • Cricetulus griseus
  • Herpesviridae sp.

Quick links

Citations

39 review citations

Human antibodies that neutralize HIV-1: identification, structures, and B cell ontogenies.
Kwong et al. (2012)
38 more

62 mentions without citation

HIV: cell binding and entry.
Wilen et al. (2012)
61 more