› 7rdj

X-ray diffraction
1.93Å resolution

Crystal structure of PCDN-16B, an anti-HIV antibody from the PCDN bnAb lineage (non-cysteinylated state)

Released:
DOI: 10.2210/pdb7rdj/pdb
PDB entry 7rdj coloured by chain, front view.
PDB entry 7rdj coloured by chain, side view.
PDB entry 7rdj coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural and Biochemical Characterization of Cysteinylation in Broadly Neutralizing Antibodies to HIV-1.
Omorodion O, Wilson IA
OpenAccess logo J Mol Biol 433 167303 (2021)
PMID: 34666044

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-214433 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
PCDN-16B Fab light chain Chain: A
Molecule details ›
Chain: A
Length: 216 amino acids
Theoretical weight: 23.46 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
PCDN-16B Fab heavy chain Chain: B
Molecule details ›
Chain: B
Length: 232 amino acids
Theoretical weight: 24.82 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens

Ligands and Environments

2 bound ligands:
Ligand EDO 7 x EDO
Ligand PEG 1 x PEG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: P21
Unit cell:
a: 46.796Å b: 76.778Å c: 62.423Å
α: 90° β: 92.042° γ: 90°
R-values:
R R work R free
0.172 0.17 0.21
Expression system: Homo sapiens

Quick links

Citations

2 review citations

A new mechanism of antibody diversity: formation of the natural antibodies containing LAIR1 and LILRB1 extracellular domains.
Chen et al. (2024)
1 more

1 mention without citation

Structural and Biochemical Characterization of Cysteinylation in Broadly Neutralizing Antibodies to HIV-1.
Omorodion et al. (2021)