SMTL ID : 8xr5.1

Crystal structure of PD-L1 complexed with small molecule inhibitor X18

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

1 x 01: (2~{R})-2-[[2-(2,1,3-benzoxadiazol-5-ylmethoxy)-5-chloranyl-4-[[2-fluoranyl-3-[3-[3-(4-oxidanylpiperidin-1-yl)propoxy]phenyl]phenyl]methoxy]phenyl]methylamino]-3-oxidanyl-propanoic acid

01.1: 28 residues within 4Å: Chain A: I.36, Y.38, D.43, N.45, Q.48, V.50, V.58, M.97, I.98, S.99, A.103, D.104, Y.105, K.106 Chain B: F.1, T.2, I.36, Y.38, Q.48, V.58, M.97, I.98, S.99, A.103, D.104, Y.105, K.106, R.107 19 PLIP interactions: 7 interactions with chain A, 12 interactions with chain B Hydrophobic interactions: A:Y.38, A:Y.38, A:Q.48, A:M.97, A:A.103, A:Y.105, B:I.36, B:Y.38, B:Y.38, B:V.58, B:M.97, B:A.103, B:Y.105, B:Y.105 Salt bridges: A:D.104 Hydrogen bonds: B:D.104 Water bridges: B:F.1, B:D.104 Halogen bonds: B:D.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, L. et al., Discovery of Novel PD-L1 Small-Molecular Inhibitors with Potent In Vivo Anti-tumor Immune Activity. J.Med.Chem. (2024)

Release Date

2025-02-26

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