3DY3

Target information

RCSB PDB
3DY3
Title
Crystal structure of yeast 20S proteasome in complex with the epimer form of spirolactacystin
Method
X-RAY DIFFRACTION
Resolution
2.81
Classification
HYDROLASE
Organism
Saccharomyces cerevisiae
Protein
Proteasome subunit beta type-5 (P30656)    Looking for covalent inhibitors of this target ?
Year
2008
Publication Title
Structural analysis of spiro beta-lactone proteasome inhibitors.
Abstract

Spiro beta-lactone-based proteasome inhibitors were discovered in the context of an asymmetric catalytic total synthesis of the natural product (+)-lactacystin (1). Lactone 4 was found to be a potent inhibitor of the 26S proteasome, while its C-6 epimer (5) displayed weak activity. Crystallographic studies of the two analogues covalently bound to the 20S proteasome permitted characterization of the important stabilizing interactions between each inhibitor and the proteasome's key catalytic N-terminal threonine residue. This structural data support the hypothesis that the discrepancy in potency between 4 and 5 may be due to differences in the hydrolytic stabilities of the resulting acyl enzyme complexes.

External Link
RCSB PDB





Ligand information

HET
SLR
Chain ID
K
HET Number
301
Molecular Formula
C10H15NO4
Structure
2D structure
IUPAC Name
(1S,4S,7R,8R)-8-hydroxy-1-isopropyl-7-methyl-2-oxa-5-azaspiro[3.4]octane-3,6-dione
InChI
InChI=1S/C10H15NO4/c1-4(2)7-10(9(14)15-7)6(12)5(3)8(13)11-10/h4-7,12H,1-3H3,(H,11,13)/t5-,6-,7+,10+/m1/s1
InChI Key
RLRXWEKMKZQTGF-JQCUSGDOSA-N
Canonical SMILES
CC(C)[C@@H]1OC(=O)[C@@]12NC(=O)[C@H](C)[C@H]2O
Bioactivity data
No bioactivity data available for this ligand.

Covalent Binding

Warhead
Lactone
Reaction Mechanism
Ring-opening
Residue
THR : 1
Residue Chain
K
Interactions
Pharmacophore Model