› 7vux

X-ray diffraction
1.64Å resolution

Complex structure of PD1 and 609A-Fab

Released:
DOI: 10.2210/pdb7vux/pdb
PDB entry 7vux coloured by chain, front view.
PDB entry 7vux coloured by chain, side view.
PDB entry 7vux coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A strategy for the efficient construction of anti-PD1-based bispecific antibodies with desired IgG-like properties.
Zhao J, Jiang L, Yang H, Deng L, Meng X, Ding J, Yang S, Zhao L, Xu W, Wang X, Zhu Z, Huang H
OpenAccess logo MAbs 14 2044435
PMID: 35239451

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-280171 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Programmed cell death protein 1 Chain: A
Molecule details ›
Chain: A
Length: 136 amino acids
Theoretical weight: 15.31 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q15116 (Residues: 32-160; Coverage: 49%)
Gene names: PD1, PDCD1
Sequence domains: Immunoglobulin V-set domain
Heavy chain of Fab fragment Chain: H
Molecule details ›
Chain: H
Length: 216 amino acids
Theoretical weight: 23.04 KDa
Source organism: Homo sapiens
Expression system: mammal environmental sample
Light chain of Fab fragment Chain: L
Molecule details ›
Chain: L
Length: 214 amino acids
Theoretical weight: 23.44 KDa
Source organism: Homo sapiens
Expression system: mammal environmental sample

Ligands and Environments

6 bound ligands:
Ligand THR 1 x THR
Ligand GOL 7 x GOL
Ligand EDO 7 x EDO
Ligand MG 2 x MG
Ligand PEG 1 x PEG
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL18U1
Spacegroup: P21
Unit cell:
a: 56.29Å b: 68.41Å c: 77.31Å
α: 90° β: 99.44° γ: 90°
R-values:
R R work R free
0.162 0.16 0.202
Expression systems:
  • Escherichia coli
  • mammal environmental sample

Quick links

Citations

1 citations in other articles

Construction of IgG-Fab2 bispecific antibody via intein-mediated protein trans-splicing reaction.
Yamada et al. (2023)

2 mentions without citation

Crystal structures of the human IgD Fab reveal insights into CH1 domain diversity.
Davies et al. (2023)
1 more