SMTL ID : 6rpg.1

Structure of human Programmed cell death 1 ligand 1 (PD-L1) with inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

1 x KDW: ~{N}-[2-[[4-[[3-[3-[[4-[(2-acetamidoethylamino)methyl]-5-[(5-cyanopyridin-3-yl)methoxy]-2-methyl-phenoxy]methyl]-2-methyl-phenyl]-2-methyl-phenyl]methoxy]-2-[(5-cyanopyridin-3-yl)methoxy]-5-methyl-phenyl]methylamino]ethyl]ethanamide(Non-covalent)

KDW.1: 29 residues within 4Å: Chain A: F.2, T.3, I.37, Y.39, D.44, Q.49, V.51, M.98, I.99, S.100, A.104, D.105, Y.106, K.107, R.108 Chain B: F.2, T.3, I.37, Y.39, E.41, Q.49, M.98, I.99, S.100, A.104, D.105, Y.106, K.107, R.108 19 PLIP interactions: 10 interactions with chain A, 9 interactions with chain B Hydrophobic interactions: A:Y.39, A:Q.49, A:V.51, A:M.98, A:A.104, A:Y.106, B:Y.39, B:Y.39, B:Q.49, B:M.98, B:A.104, B:Y.106 Hydrogen bonds: A:D.105, A:R.108, B:F.2, B:Y.39, B:R.108 pi-Stacking: A:Y.39, A:Y.106

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Basu, S. et al., Design, Synthesis, Evaluation, and Structural Studies ofC2-Symmetric Small Molecule Inhibitors of Programmed Cell Death-1/Programmed Death-Ligand 1 Protein-Protein Interaction. J.Med.Chem. (2019)

Release Date

2019-07-24

Peptides

Programmed cell death 1 ligand 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Programmed cell death 1 ligand 1

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