SMTL ID : 5wt9.1

Complex structure of PD-1 and nivolumab-Fab

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 10 residues within 4Å: Chain C: N.58, T.59, S.60, E.61, F.63, F.82, P.83, Q.99, L.100, G.103 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:E.61, C:Q.99 Hydrogen bonds: C:E.61, C:Q.99, C:Q.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tan, S. et al., An unexpected N-terminal loop in PD-1 dominates binding by nivolumab. Nat Commun (2017)

Release Date

2017-02-15

Peptides

Heavy Chain of Nivolumab: A
Light Chain of Nivolumab: B
Programmed cell death protein 1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
G

Heavy Chain of Nivolumab

Light Chain of Nivolumab

Programmed cell death protein 1