SMTL ID : 9ojo.1

Crystal structure of TNF alpha in complex with compound 1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.36 Å

Oligo State

homo-trimer

Ligands

1 x 01: 2-{5-[(1S,10S)-1-phenyl-1,2,3,4-tetrahydropyrido[1,2-a][1,3]benzimidazol-8-yl]pyrimidin-2-yl}propan-2-ol

01.1: 18 residues within 4Å: Chain A: K.12, L.58, V.124, I.156, A.157 Chain B: L.58, Y.60, S.61, Y.120, L.121, G.122, Y.152, I.156 Chain C: L.58, Y.120, G.122, G.123, L.158 11 PLIP interactions: 2 interactions with chain C, 4 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: C:Y.120, C:L.158, B:L.58, B:Y.120, B:I.156, A:L.58, A:L.58, A:V.124 pi-Stacking: B:Y.60 Hydrogen bonds: A:A.157 Water bridges: A:Y.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bian, Z. et al., Discovery of Orally Efficacious Bridged Piperazines as smTNF Modulators. J.Med.Chem. (2025)

Release Date

2025-07-23

Peptides

Tumor necrosis factor: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Tumor necrosis factor

Related Entries With Identical Sequence