SMTL ID : 8p1o.1

Solubilizer tag effect on PD-L1/inhibitor binding properties for m-terphenyl derivatives

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

homo-dimer

Ligands

1 x WEW: (3~{R})-1-[[4-[2-chloranyl-3-(2,3-dihydro-1,4-benzodioxin-6-yl)phenyl]-2-methoxy-phenyl]methyl]-~{N}-(2-hydroxyethyl)pyrrolidine-3-carboxamide(Non-covalent)

WEW.1: 17 residues within 4Å: Chain A: I.53, Y.55, Q.65, M.114, I.115, S.116, A.120, D.121, Y.122 Chain B: I.53, Y.55, M.114, A.120, D.121, Y.122, K.123, R.124 10 PLIP interactions: 5 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:I.53, A:Y.55, A:M.114, A:A.120, B:M.114, B:Y.122 pi-Stacking: A:Y.55 Hydrogen bonds: B:R.124 Water bridges: B:Y.122 Salt bridges: B:D.121

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 4 residues within 4Å: Chain A: P.23, K.24, Y.27, E.38 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain B: P.23, K.24, Y.27, E.38 Ligand excluded by PLIP

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 4 residues within 4Å: Chain A: R.85, L.87, K.88, D.89 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.88, A:D.89 Salt bridges: A:R.85 SO4.5: 5 residues within 4Å: Chain B: R.85, L.86, L.87, K.88, D.89 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.88, B:D.89, B:D.89 Salt bridges: B:R.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Surmiak, E. et al., Solubilizer Tag Effect on PD-L1/Inhibitor Binding Properties for m -Terphenyl Derivatives. Acs Med.Chem.Lett. (2024)

Release Date

2024-01-31

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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