SMTL ID : 5vyy.2 (1 other biounit)

Structure of human Hsp90-alpha bound to resorcinylic inhibitor BnIm

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

homo-dimer

Ligands

2 x 9QY: methyl 2-[2-(1-benzyl-1H-imidazol-2-yl)ethyl]-3-chloro-4,6-dihydroxybenzoate(Non-covalent)

9QY.1: 18 residues within 4Å: Chain A: L.68, N.71, S.72, A.75, D.113, I.116, G.117, M.118, L.123, N.126, L.127, F.158, V.170, T.172, W.182, T.204, V.206 Ligands: FMT.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:N.71, A:L.123, A:N.126, A:L.127 Hydrogen bonds: A:L.68, A:N.71, A:T.204, A:T.204 Water bridges: A:G.117 pi-Stacking: A:F.158, A:W.182, A:W.182 9QY.7: 18 residues within 4Å: Chain B: L.68, N.71, S.72, A.75, D.113, I.116, G.117, M.118, L.123, N.126, L.127, F.158, V.170, T.172, W.182, T.204, V.206 Ligands: FMT.8 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:N.71, B:L.123, B:N.126, B:L.127 Hydrogen bonds: B:L.68, B:N.71, B:T.204, B:T.204 Water bridges: B:G.117 pi-Stacking: B:F.158, B:W.182, B:W.182

4 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 6 residues within 4Å: Chain A: N.71, G.155, V.156, G.157, F.158 Ligands: 9QY.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.71, A:G.157, A:F.158 FMT.3: 6 residues within 4Å: Chain A: I.54, N.55, T.56, F.57, K.61, K.211 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.56, A:K.211 Water bridges: A:T.56, A:K.61 FMT.8: 6 residues within 4Å: Chain B: N.71, G.155, V.156, G.157, F.158 Ligands: 9QY.7 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.71, B:G.157, B:F.158 FMT.9: 6 residues within 4Å: Chain B: I.54, N.55, T.56, F.57, K.61, K.211 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.56, B:K.211 Water bridges: B:T.56, B:K.61

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

EDO.4: 3 residues within 4Å: Chain A: K.104, Q.105, E.243 No protein-ligand interaction detected (PLIP) EDO.10: 3 residues within 4Å: Chain B: K.104, Q.105, E.243 No protein-ligand interaction detected (PLIP)

2 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 5 residues within 4Å: Chain A: A.47, M.50, S.51, A.186, G.188 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:A.47, A:S.51, H2O.1, H2O.3 MG.11: 5 residues within 4Å: Chain B: A.47, M.50, S.51, A.186, G.188 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:A.47, B:S.51, H2O.7, H2O.10

2 x NA: SODIUM ION(Non-functional Binders)

NA.6: 5 residues within 4Å: Chain A: D.213, Q.214 Chain B: D.213, Q.214 Ligands: NA.12 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:Q.214, A:Q.214 Water bridges: B:D.213, B:D.213, B:E.216, A:D.213, A:Q.214, A:E.216 NA.12: 5 residues within 4Å: Chain A: D.213, Q.214 Chain B: D.213, Q.214 Ligands: NA.6 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Q.214, A:D.213, A:Q.214 Water bridges: B:D.213, B:E.216

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Que, N.L.S. et al., Structure Based Design of a Grp94-Selective Inhibitor: Exploiting a Key Residue in Grp94 To Optimize Paralog-Selective Binding. J. Med. Chem. (2018)

Release Date

2018-04-18

Peptides

Heat shock protein HSP 90-alpha: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Heat shock protein HSP 90-alpha

Related Entries With Identical Sequence