SMTL ID : 3thm.1

Crystal structure of Fas receptor extracellular domain in complex with Fab EP6b_B01

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 9 residues within 4Å: Chain A: Q.1, S.2, V.3, T.5, G.24, N.25, S.26, S.27, N.28 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.3

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 7 residues within 4Å: Chain A: I.49, N.53, L.54, R.55, F.63, S.64, G.65 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.55, A:G.65 EDO.3: 5 residues within 4Å: Chain A: P.117, S.118, V.119, V.206, K.208 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.118, A:S.118, A:V.119, A:K.208 EDO.4: 4 residues within 4Å: Chain A: P.158, V.159, K.160, A.161 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.160, A:A.161 EDO.5: 4 residues within 4Å: Chain A: Q.171, S.172 Chain B: V.182, H.183 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.172, A:S.172 Water bridges: A:D.142, A:Q.171, A:N.173 EDO.6: 8 residues within 4Å: Chain A: S.2, V.3, L.4, V.100, F.101 Chain B: L.47, E.48, W.49 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.2, A:S.2, A:V.3, A:F.101, B:L.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chodorge, M. et al., A series of Fas receptor agonist antibodies that demonstrate an inverse correlation between affinity and potency. Cell Death Differ. (2012)

Release Date

2012-05-09

Peptides

Fab EP6b_B01, light chain: A
Fab EP6b_B01, heavy chain: B
Tumor necrosis factor receptor superfamily member 6: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
F

Fab EP6b_B01, light chain

Fab EP6b_B01, heavy chain

Tumor necrosis factor receptor superfamily member 6

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