› 3rnk

X-ray diffraction
1.74Å resolution

Crystal structure of the complex between mouse PD-1 mutant and PD-L2 IgV domain

Released:
DOI: 10.2210/pdb3rnk/pdb
PDB entry 3rnk coloured by chain, front view.
PDB entry 3rnk coloured by chain, side view.
PDB entry 3rnk coloured by chain, top view.
Source organism: Mus musculus
Entry authors: Lazar-Molnar E, Ramagopal UA, Cao E, Nathenson SG, Almo SC

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-169697 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Programmed cell death protein 1 Chain: A
Molecule details ›
Chain: A
Length: 117 amino acids
Theoretical weight: 13.22 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q02242 (Residues: 34-150; Coverage: 44%)
Gene names: Pd1, Pdcd1
Sequence domains: Immunoglobulin V-set domain
Structure domains: Immunoglobulins
Programmed cell death 1 ligand 2 Chain: B
Molecule details ›
Chain: B
Length: 104 amino acids
Theoretical weight: 11.69 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9WUL5 (Residues: 20-123; Coverage: 46%)
Gene names: B7dc, Btdc, Cd273, Pdcd1lg2, Pdl2
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P212121
Unit cell:
a: 36.057Å b: 60.246Å c: 80.087Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.197 0.195 0.247
Expression system: Escherichia coli BL21(DE3)

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