› 3ghb

X-ray diffraction
2.25Å resolution

Crystal structure of anti-HIV-1 Fab 447-52D in complex with V3 peptide W2RW020

Released:
DOI: 10.2210/pdb3ghb/pdb
PDB entry 3ghb coloured by chain, front view.
PDB entry 3ghb coloured by chain, side view.
PDB entry 3ghb coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of the cross-reactivity of genetically related human anti-HIV-1 mAbs: implications for design of V3-based immunogens.
Burke V, Williams C, Sukumaran M, Kim SS, Li H, Wang XH, Gorny MK, Zolla-Pazner S, Kong XP
Structure 17 1538-46 (2009)
PMID: 19913488

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-211540 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Fab 447-52D, light chain Chains: L, M
Molecule details ›
Chains: L, M
Length: 216 amino acids
Theoretical weight: 22.79 KDa
Source organism: Homo sapiens
Structure domains: Immunoglobulins
Fab 447-52D, heavy chain Chains: H, I
Molecule details ›
Chains: H, I
Length: 235 amino acids
Theoretical weight: 25.19 KDa
Source organism: Homo sapiens
Structure domains: Immunoglobulins
Human immunodeficiency virus 1 envelope glycoprotein Gp120 domain-containing protein Chains: P, Q
Molecule details ›
Chains: P, Q
Length: 10 amino acids
Theoretical weight: 984 Da
Source organism: Human immunodeficiency virus 1
Expression system: Not provided
UniProt:
  • Canonical: P88213 (Residues: 56-65; Coverage: 10%)
Gene name: env

Ligands and Environments

1 bound ligand:
Ligand SO4 1 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X4A
Spacegroup: P21
Unit cell:
a: 70.273Å b: 76.214Å c: 113.915Å
α: 90° β: 101.25° γ: 90°
R-values:
R R work R free
0.196 0.196 0.232
Expression system: Not provided

Quick links

Citations

3 review citations

Structure-function relationships of HIV-1 envelope sequence-variable regions refocus vaccine design.
Zolla-Pazner et al. (2010)
2 more

12 mentions without citation

Max Bergmann lecture protein epitope mimetics in the age of structural vaccinology.
Robinson JA. (2013)
11 more