1EKO

PIG ALDOSE REDUCTASE COMPLEXED WITH IDD384 INHIBITOR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.216 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The structure of human aldose reductase bound to the inhibitor IDD384.

Calderone, V.Chevrier, B.Van Zandt, M.Lamour, V.Howard, E.Poterszman, A.Barth, P.Mitschler, A.Lu, J.Dvornik, D.M.Klebe, G.Kraemer, O.Moorman, A.R.Moras, D.Podjarny, A.

(2000) Acta Crystallogr.,Sect.D 56: 536-540

  • Primary Citation of Related Structures:  1EL3

  • PubMed Abstract: 
  • The crystallographic structure of the complex between human aldose reductase (AR2) and one of its inhibitors, IDD384, has been solved at 1.7 A resolution from crystals obtained at pH 5.0. This structure shows that the binding of the inhibitor's hydro ...

    The crystallographic structure of the complex between human aldose reductase (AR2) and one of its inhibitors, IDD384, has been solved at 1.7 A resolution from crystals obtained at pH 5.0. This structure shows that the binding of the inhibitor's hydrophilic head to the catalytic residues Tyr48 and His110 differs from that found previously with porcine AR2. The difference is attributed to a change in the protonation state of the inhibitor (pK(a) = 4.52) when soaked with crystals of human (at pH 5.0) or pig lens AR2 (at pH 6.2). This work demonstrates how strongly the detailed binding of the inhibitor's polar head depends on its protonation state.


    Related Citations: 
    • Binding of Aldose Reductase Inhibitors: Correlation of Crystallographic and Mass Spectrometric Studies
      Rogniaux, H.,Van Dorsselaer, A.,Barth, P.,Biellmann, J.F.,Barbanton, J.,van Zandt, M.,Chevrier, B.,Howard, E.,Mitschler, A.,Potier, N.,Urzhumtseva, L.,Moras, D.,Podjarny, A.
      (1999) J.AM.SOC.MASS.SPECTROM. 10: 635


    Organizational Affiliation

    UPR de Biologie Structurale 9004, IGBMC, CNRS/INSERM/ULP, 1 Rue Laurent Fries, BP 163, 67404 Illkirch, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ALDOSE REDUCTASE
A
315Sus scrofaGene Names: AKR1B1 (ALR2)
EC: 1.1.1.21
Find proteins for P80276 (Sus scrofa)
Go to Gene View: AKR1B1
Go to UniProtKB:  P80276
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAP
Query on NAP

Download SDF File 
Download CCD File 
A
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE
C21 H28 N7 O17 P3
XJLXINKUBYWONI-NNYOXOHSSA-N
 Ligand Interaction
I84
Query on I84

Download SDF File 
Download CCD File 
A
[2,6-DIMETHYL-4-(2-O-TOLYL-ACETYLAMINO)-BENZENESULFONYL]-GLYCINE
INHIBITOR IDD 384
C19 H22 N2 O5 S
CJKKMQCZOLCXAM-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
AYA
Query on AYA
A
L-PEPTIDE LINKINGC5 H9 N O3ALA
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
I84IC50: 108 nM (86) BINDINGDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.216 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 68.810α = 90.00
b = 68.810β = 90.00
c = 154.770γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
X-PLORphasing
AUTOMARdata reduction
X-PLORmodel building
X-PLORrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2000-03-09 
  • Released Date: 2000-05-10 
  • Deposition Author(s): Podjarny, A.

Revision History 

  • Version 1.0: 2000-05-10
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-04
    Type: Refinement description