› 4jo2

X-ray diffraction
2.5Å resolution

Crystal structure of rabbit mAb R56 Fab in complex with V3 crown of HIV-1 Consensus A gp120

Released:
DOI: 10.2210/pdb4jo2/pdb
PDB entry 4jo2 coloured by chain, front view.
PDB entry 4jo2 coloured by chain, side view.
PDB entry 4jo2 coloured by chain, top view.
Source organisms:
Primary publication:
Rabbit anti-HIV-1 monoclonal antibodies raised by immunization can mimic the antigen-binding modes of antibodies derived from HIV-1-infected humans.
Pan R, Sampson JM, Chen Y, Vaine M, Wang S, Lu S, Kong XP
J Virol 87 10221-31 (2013)
PMID: 23864637

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-212903 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
monoclonal anti-HIV-1 gp120 V3 antibody R56 light chain Chains: L, M
Molecule details ›
Chains: L, M
Length: 216 amino acids
Theoretical weight: 22.78 KDa
Source organism: Oryctolagus cuniculus
Expression system: Homo sapiens
Structure domains: Immunoglobulins
monoclonal anti-HIV-1 gp120 V3 antibody R56 heavy chain Chains: H, I
Molecule details ›
Chains: H, I
Length: 210 amino acids
Theoretical weight: 21.88 KDa
Source organism: Oryctolagus cuniculus
Expression system: Homo sapiens
Structure domains: Immunoglobulins
Human immunodeficiency virus 1 envelope glycoprotein Gp120 domain-containing protein Chains: P, Q
Molecule details ›
Chains: P, Q
Length: 23 amino acids
Theoretical weight: 2.45 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Not provided
UniProt:
  • Canonical: Q9YXH5 (Residues: 30-52; Coverage: 10%)
Gene name: env

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X6A
Spacegroup: P21
Unit cell:
a: 69.84Å b: 74.35Å c: 84.96Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.193 0.19 0.265
Expression systems:
  • Homo sapiens
  • Not provided

Quick links

Citations

3 review citations

From rabbit antibody repertoires to rabbit monoclonal antibodies.
Weber et al. (2017)
2 more

3 mentions without citation

Rabbit anti-HIV-1 monoclonal antibodies raised by immunization can mimic the antigen-binding modes of antibodies derived from HIV-1-infected humans.
Pan et al. (2013)
2 more