SMTL ID : 7r58.1

Crystal structure of the GPVI-glenzocimab complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-1-mer

Ligands

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: L.60, E.61, K.62, S.65, R.67, Y.68, L.74, Y.87 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.62, A:S.65, A:S.65 GOL.2: 7 residues within 4Å: Chain A: S.36, S.37, Y.147, D.151, P.152, A.153, P.154 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.37, A:S.37, A:Y.147 Water bridges: A:S.37, A:Y.147 GOL.6: 8 residues within 4Å: Chain B: Y.152, E.155, P.156, V.157, T.172, F.173, P.174, L.185 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.152, B:V.157, B:T.172 Water bridges: B:V.159, B:A.175 GOL.7: 4 residues within 4Å: Chain B: V.93, Q.112, G.113, P.156 3 PLIP interactions: 3 interactions with chain B Water bridges: B:Y.95, B:Q.112, B:G.113 GOL.8: 8 residues within 4Å: Chain B: N.33, H.35, G.50, I.51, Y.52, D.57, T.58, S.59 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.35, B:D.57 Water bridges: B:S.59, B:S.59 GOL.9: 9 residues within 4Å: Chain C: Q.42, K.44, K.50, L.52, P.64, R.66, F.67, E.86, D.87 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:Q.42, C:K.44, C:K.50, C:K.50, C:R.66, C:D.87

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

CL.3: 3 residues within 4Å: Chain A: S.64, G.85, R.86 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain A: T.46, R.48 Ligand excluded by PLIP

1 x SCN: THIOCYANATE ION(Non-functional Binders)

SCN.5: 1 residues within 4Å: Chain A: K.80 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.80

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Billiald, P. et al., Targeting platelet GPVI with glenzocimab: a novel mechanism for inhibition. Blood Adv (2023)

Release Date

2022-11-16

Peptides

Platelet glycoprotein VI: A
Fab heavy chain: B
Fab light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Platelet glycoprotein VI

Fab heavy chain

Fab light chain