› 6db5

X-ray diffraction
2.6Å resolution

Crystal structure of anti-HIV-1 V3 Fab TA6 in complex with a HIV-1 gp120 V3 peptide from NY5 strain

Released:
DOI: 10.2210/pdb6db5/pdb
PDB entry 6db5 coloured by chain, front view.
PDB entry 6db5 coloured by chain, side view.
PDB entry 6db5 coloured by chain, top view.
Source organisms:
Primary publication:
Structural Comparison of Human Anti-HIV-1 gp120 V3 Monoclonal Antibodies of the Same Gene Usage Induced by Vaccination and Chronic Infection.
Chan KW, Pan R, Costa M, Gorny MK, Wang S, Lu S, Kong XP
J Virol 92 (2018)
PMID: 29997214

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-210525 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Human monoclonal anti-HIV-1 gp120 V3 antibody TA6 Fab heavy chain Chains: H, I
Molecule details ›
Chains: H, I
Length: 232 amino acids
Theoretical weight: 24.84 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Human monoclonal anti-HIV-1 gp120 V3 antibody TA6 Fab light chain Chains: L, M
Molecule details ›
Chains: L, M
Length: 214 amino acids
Theoretical weight: 22.94 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Structure domains: Immunoglobulins
Truncated surface protein Chains: P, Q
Molecule details ›
Chains: P, Q
Length: 20 amino acids
Theoretical weight: 2.19 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Not provided
UniProt:
  • Canonical: P12490 (Residues: 296-315; Coverage: 5%)
Gene name: env

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS-II BEAMLINE 17-ID-1
Spacegroup: P21
Unit cell:
a: 78.616Å b: 67.361Å c: 103.038Å
α: 90° β: 100.25° γ: 90°
R-values:
R R work R free
0.23 0.227 0.283
Expression systems:
  • Homo sapiens
  • Not provided

Quick links

Citations

3 citation in other articles

VSV-Displayed HIV-1 Envelope Identifies Broadly Neutralizing Antibodies Class-Switched to IgG and IgA.
Jia et al. (2020)
2 more

1 mention without citation

Structural Comparison of Human Anti-HIV-1 gp120 V3 Monoclonal Antibodies of the Same Gene Usage Induced by Vaccination and Chronic Infection.
Chan et al. (2018)