3W0T

Human Glyoxalase I with an N-hydroxypyridone derivative inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.351 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.175 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

N-Hydroxypyridone-based glyoxalase I inhibitors mimicking binding interactions of the substrate

Koyano, H.Aoki, T.Yamamoto, S.Kobayashi, T.Miura, T.Ohara, K.Fukami, T.A.Irie, M.Sakamoto, H.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Lactoylglutathione lyase
A, B, C, D
187Homo sapiensGene Names: GLO1
EC: 4.4.1.5
Find proteins for Q04760 (Homo sapiens)
Go to Gene View: GLO1
Go to UniProtKB:  Q04760
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EPE
Query on EPE

Download SDF File 
Download CCD File 
B, D
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
HEPES
C8 H18 N2 O4 S
JKMHFZQWWAIEOD-UHFFFAOYSA-N
 Ligand Interaction
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B, C, D
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
HPU
Query on HPU

Download SDF File 
Download CCD File 
A, B, C, D
N-[3-(1-hydroxy-6-oxo-4-phenyl-1,6-dihydropyridin-2-yl)phenyl]methanesulfonamide
C18 H16 N2 O4 S
MDYXMYBWSBAIMZ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.351 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.175 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 66.570α = 90.00
b = 81.030β = 90.13
c = 68.620γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
BUSTER-TNTrefinement
BUSTERrefinement
SCALAdata scaling
PHASERphasing
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-11-06
    Type: Initial release