› 3mlw

X-ray diffraction
2.7Å resolution

Crystal structure of anti-HIV-1 V3 Fab 1006-15D in complex with an MN V3 peptide

Released:
DOI: 10.2210/pdb3mlw/pdb
PDB entry 3mlw coloured by chain, front view.
PDB entry 3mlw coloured by chain, side view.
PDB entry 3mlw coloured by chain, top view.
Source organisms:
Primary publication:
Conserved structural elements in the V3 crown of HIV-1 gp120.
Jiang X, Burke V, Totrov M, Williams C, Cardozo T, Gorny MK, Zolla-Pazner S, Kong XP
Nat Struct Mol Biol 17 955-61 (2010)
PMID: 20622876

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-209256 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Human monoclonal anti-HIV-1 gp120 V3 antibody 1006-15D Fab light chain Chains: L, M
Molecule details ›
Chains: L, M
Length: 215 amino acids
Theoretical weight: 23.04 KDa
Source organism: Homo sapiens
Structure domains: Immunoglobulins
Human monoclonal anti-HIV-1 gp120 V3 antibody 1006-15D Fab heavy chain Chains: H, I
Molecule details ›
Chains: H, I
Length: 228 amino acids
Theoretical weight: 24.57 KDa
Source organism: Homo sapiens
Structure domains: Immunoglobulins
Surface protein gp120 Chains: P, Q
Molecule details ›
Chains: P, Q
Length: 23 amino acids
Theoretical weight: 2.71 KDa
Source organism: HIV-1 M:B_MN
UniProt:
  • Canonical: P05877 (Residues: 306-328; Coverage: 3%)
Gene name: env

Ligands and Environments

1 bound ligand:
Ligand PO4 6 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X4C
Spacegroup: C2
Unit cell:
a: 98.924Å b: 82.312Å c: 149.83Å
α: 90° β: 110.35° γ: 90°
R-values:
R R work R free
0.218 0.214 0.291

Quick links

Citations

2 review citations

Requirements for empirical immunogenicity trials, rather than structure-based design, for developing an effective HIV vaccine.
Van Regenmortel MH. (2012)
1 more

7 mentions without citation

Crystal structure, conformational fixation and entry-related interactions of mature ligand-free HIV-1 Env.
Kwon et al. (2015)
6 more