SMTL ID : 6x85.1 (1 other biounit)

Crystal Structure of TNFalpha with indolinone compound 9

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

homo-trimer

Ligands

1 x UTV: 1-{[2-(difluoromethoxy)phenyl]methyl}-2,2-dimethyl-1,2-dihydro-3H-indol-3-one(Non-covalent)

UTV.1: 18 residues within 4Å: Chain A: L.58, Y.120, V.124, I.156 Chain B: L.58, Y.60, S.61, Y.120, L.121, G.122, G.123, Y.152 Chain C: L.58, Y.60, Y.120, G.122, G.123, I.156 13 PLIP interactions: 4 interactions with chain A, 7 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: A:L.58, A:L.58, A:V.124, A:I.156, B:Y.60, B:Y.60, B:Y.60, B:Y.120, B:Y.120, B:Y.152, C:L.58 Hydrogen bonds: B:Y.152, C:Y.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dietrich, J.D. et al., Development of Orally Efficacious Allosteric Inhibitors of TNF alpha via Fragment-Based Drug Design. J.Med.Chem. (2021)

Release Date

2021-01-13

Peptides

Tumor necrosis factor: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Tumor necrosis factor

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