4PV5

Crystal structure of mouse glyoxalase I in complexed with 18-beta-glycyrrhetinic acid

• PDB DOI: https://doi.org/10.2210/pdb4PV5/pdb

• Classification: LYASE/LYASE INHIBITOR
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-03-15 Released: 2015-03-18 
• Deposition Author(s): Zhang, H., Zhai, J., Zhang, L.P., Zhao, Y.N., Li, C., Hu, X.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.247 
• R-Value Work: 0.177 
• R-Value Observed: 0.180 

Literature

Structural basis for 18-beta-glycyrrhetinic acid as a novel non-GSH analog glyoxalase I inhibitor

Zhang, H., Huang, Q., Zhai, J., Zhao, Y.N., Zhang, L.P., Chen, Y.Y., Zhang, R.W., Li, Q., Hu, X.P.

(2015) Acta Pharmacol Sin 36: 1145-1150

• PubMed: 26279158 
• DOI: https://doi.org/10.1038/aps.2015.59
• Primary Citation of Related Structures:  
  4PV5


• PubMed Abstract: 
  

  Glyoxalase I (GLOI), a glutathione (GSH)-dependent enzyme, is overexpressed in tumor cells and related to multi-drug resistance in chemotherapy, making GLOI inhibitors as potential anti-tumor agents. But the most studied GSH analogs exhibit poor pharmacokinetic properties. The aim of this study was to discover novel non-GSH analog GLOI inhibitors and analyze their binding mechanisms.

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Organizational Affiliation: 

School of Pharmaceutical Sciences & Centre for Cellular and Structural Biology of Sun Yat-sen University, Guangzhou 510006, China.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 42.01 kDa 
• Atom Count: 2,954 
• Modelled Residue Count: 352 
• Deposited Residue Count: 366 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lactoylglutathione lyase	A, B	183	Mus musculus	Mutation(s): 0  Gene Names: Glo1 EC: 4.4.1.5
UniProt
Find proteins for Q9CPU0 (Mus musculus) Explore Q9CPU0  Go to UniProtKB:  Q9CPU0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CBW	D [auth A]	(3BETA,5BETA,14BETA)-3-HYDROXY-11-OXOOLEAN-12-EN-29-OIC ACID C30 H46 O4 MPDGHEJMBKOTSU-YKLVYJNSSA-N
ZN	C [auth A], E [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.247 
• R-Value Work: 0.177 
• R-Value Observed: 0.180 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.825	α = 90
b = 64.819	β = 104.09
c = 63.483	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-03-18 
Deposition Author(s): Zhang, H., Zhai, J., Zhang, L.P., Zhao, Y.N., Li, C., Hu, X.P.

Revision History  

• Version 1.0: 2015-03-18
  Type: Initial release
  
• Version 1.1: 2015-09-16
  Changes: Database references
• Version 1.2: 2023-11-08
  Changes: Data collection, Database references, Derived calculations, Refinement description