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

Structure of Grp94 bound to methyl 2-[2-(2-benzylpyridin-3-yl)ethyl]-3-chloro-4,6-dihydroxybenzoate, a pan-Hsp90 inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

monomer

Ligands

7 x PE8: 3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL(Non-covalent)

PE8.1: 7 residues within 4Å: Chain A: N.16, M.19, K.20, I.23, D.159, S.160, N.161 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.16, A:K.20, A:S.160 PE8.2: 2 residues within 4Å: Chain A: L.50, T.54 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.54, A:T.54 PE8.3: 5 residues within 4Å: Chain A: K.70, H.79, W.215, W.229 Ligands: PE8.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.70 PE8.4: 7 residues within 4Å: Chain A: I.143, T.145, R.170, T.173, T.179, T.181 Ligands: PE8.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.170, A:R.170 Water bridges: A:T.181 PE8.5: 5 residues within 4Å: Chain A: N.62, K.68, T.81, T.83, L.174 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.62 Water bridges: A:E.64, A:T.66 PE8.6: 3 residues within 4Å: Chain A: E.64, K.68, W.229 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.68 PE8.9: 4 residues within 4Å: Chain A: I.208, N.209, P.211, N.233 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.208

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 4 residues within 4Å: Chain A: K.147, N.149, N.150, D.151 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.147 PEG.8: 4 residues within 4Å: Chain A: G.61, N.62, N.172, T.173 No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 4 residues within 4Å: Chain A: D.43, D.46, K.47, L.50 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.46 Water bridges: A:D.43 GOL.11: 3 residues within 4Å: Chain A: D.190, D.195, T.196 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.195, A:T.196

1 x VC4: methyl 2-[2-(2-benzylpyridin-3-yl)ethyl]-3-chloro-4,6-dihydroxybenzoate(Non-covalent)

VC4.12: 14 residues within 4Å: Chain A: L.37, N.40, D.43, A.44, K.47, D.82, V.85, G.86, M.87, N.95, L.96, F.132, T.178, I.180 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:D.43, A:K.47, A:L.96 Hydrogen bonds: A:L.37, A:N.40, A:D.82, A:T.178 Water bridges: A:D.82, A:G.84, A:G.86 pi-Cation interactions: A:K.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huard, D.J.E. et al., Trifunctional High-Throughput Screen Identifies Promising Scaffold To Inhibit Grp94 and Treat Myocilin-Associated Glaucoma. ACS Chem. Biol. (2018)

Release Date

2018-04-18

Peptides

Endoplasmin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Endoplasmin

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