SMTL ID : 6ooz.1

Asymmetric hTNF-alpha

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-trimer

Ligands

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

CL.1: 2 residues within 4Å: Chain B: S.147 Chain C: N.92 Ligand excluded by PLIP

1 x A6Y: (S)-{1-[(2,5-dimethylphenyl)methyl]-1H-benzimidazol-2-yl}(pyridin-4-yl)methanol(Non-covalent)

A6Y.2: 16 residues within 4Å: Chain A: L.57, Y.59, Y.119, V.123, L.157 Chain B: L.57, Y.59, Y.119, G.121, G.122 Chain C: L.57, Y.59, S.60, Y.119, L.120, Y.151 13 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: A:L.57, A:L.57, A:Y.59, A:V.123, A:L.157, B:L.57, B:Y.59, B:Y.119, C:L.57, C:Y.59, C:Y.119 Hydrogen bonds: A:Y.119 pi-Stacking: C:Y.59

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

O'Connell, J. et al., Small molecules that inhibit TNF signalling by stabilising an asymmetric form of the trimer. Nat Commun (2019)

Release Date

2019-12-25

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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