2qad

X-ray diffraction
3.3Å resolution

Structure of tyrosine-sulfated 412d antibody complexed with HIV-1 YU2 gp120 and CD4

Released:

Function and Biology Details

Structure analysis Details

Assemblies composition:
hetero tetramer (preferred)
hetero octamer
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Surface protein gp120 Chains: A, E
Molecule details ›
Chains: A, E
Length: 322 amino acids
Theoretical weight: 36.06 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Homo sapiens
UniProt:
  • Canonical: P35961 (Residues: 88-479; Coverage: 40%)
Gene name: env
Structure domains: Human immunodeficiency virus 1, Gp160, envelope glycoprotein
T-cell surface glycoprotein CD4 Chains: B, F
Molecule details ›
Chains: B, F
Length: 181 amino acids
Theoretical weight: 20.13 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01730 (Residues: 26-206; Coverage: 42%)
Gene name: CD4
Sequence domains: Immunoglobulin C2-set domain
Structure domains: Immunoglobulins
anti-HIV-1 antibody 412d light chain Chains: C, G
Molecule details ›
Chains: C, G
Length: 214 amino acids
Theoretical weight: 23.48 KDa
Source organism: Homo sapiens
Expression system: Human gammaherpesvirus 4
Structure domains: Immunoglobulins
Immunoblobulin G1 Fab heavy chain variable region Chains: D, H
Molecule details ›
Chains: D, H
Length: 231 amino acids
Theoretical weight: 24.84 KDa
Source organism: Homo sapiens
Expression system: Human gammaherpesvirus 4
UniProt:
  • Canonical: A4F255 (Residues: 1-96, 97-114, 115-228; Coverage: 95%)
Gene name: VHCH1
Sequence domains:
Structure domains: Immunoglobulins

Ligands and Environments

3 bound ligands:
1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P21
Unit cell:
a: 109.6Å b: 53.021Å c: 225.326Å
α: 90° β: 104.64° γ: 90°
R-values:
R R work R free
0.202 0.202 0.269
Expression systems:
  • Homo sapiens
  • Escherichia coli
  • Human gammaherpesvirus 4