SMTL ID : 4twt.1 (1 other biounit)

Human TNFa dimer in complex with the semi-synthetic bicyclic peptide M21

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

hetero-2-1-mer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 7 residues within 4Å: Chain A: Q.61, P.117, Y.119 Chain B: P.117, I.118, Y.119, L.120 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:P.117, B:Y.119, A:Q.61, A:Y.119 GOL.2: 7 residues within 4Å: Chain B: Q.25, L.26, N.46, A.134, E.135, I.136, P.139 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.26, B:L.26, B:N.46, B:I.136 GOL.3: 2 residues within 4Å: Chain C: A.1, C.2 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:C.2, C:C.2 GOL.4: 2 residues within 4Å: Chain C: Q.8, G.12 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:G.12

1 x 38A: (2,4,6-trimethylbenzene-1,3,5-triyl)trimethanol(Covalent)

38A.5: 9 residues within 4Å: Chain B: H.15, Y.59, Y.151 Chain C: C.2, P.3, C.5, W.7, Q.8, C.11 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:W.7, B:Y.59, B:Y.151 pi-Stacking: B:H.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Luzi, S. et al., Subunit disassembly and inhibition of TNF alpha by a semi-synthetic bicyclic peptide. Protein Eng.Des.Sel. (2015)

Release Date

2015-02-04

Peptides

Tumor necrosis factor: AB
ALA-CYS-PRO-PRO-CYS-LEU-TRP-GLN-VAL-LEU-CYS-GLY: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
E

Tumor necrosis factor

ALA-CYS-PRO-PRO-CYS-LEU-TRP-GLN-VAL-LEU-CYS-GLY

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