4JIH

Crystal Structure Of AKR1B10 Complexed With NADP+ And Epalrestat


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.153 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Inhibitor selectivity between aldo-keto reductase superfamily members AKR1B10 and AKR1B1: Role of Trp112 (Trp111).

Zhang, L.Zhang, H.Zhao, Y.Li, Z.Chen, S.Zhai, J.Chen, Y.Xie, W.Wang, Z.Li, Q.Zheng, X.Hu, X.

(2013) Febs Lett. 587: 3681-3686

  • DOI: 10.1016/j.febslet.2013.09.031
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The antineoplastic target aldo-keto reductase family member 1B10 (AKR1B10) and the critical polyol pathway enzyme aldose reductase (AKR1B1) share high structural similarity. Crystal structures reported here reveal a surprising Trp112 native conformat ...

    The antineoplastic target aldo-keto reductase family member 1B10 (AKR1B10) and the critical polyol pathway enzyme aldose reductase (AKR1B1) share high structural similarity. Crystal structures reported here reveal a surprising Trp112 native conformation stabilized by a specific Gln114-centered hydrogen bond network in the AKR1B10 holoenzyme, and suggest that AKR1B1 inhibitors could retain their binding affinities toward AKR1B10 by inducing Trp112 flip to result in an "AKR1B1-like" active site in AKR1B10, while selective AKR1B10 inhibitors can take advantage of the broader active site of AKR1B10 provided by the native Trp112 side-chain orientation.


    Organizational Affiliation

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




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Aldo-keto reductase family 1 member B10
A
318Homo sapiensMutation(s): 0 
Gene Names: AKR1B10 (AKR1B11)
EC: 1.1.1.300, 1.1.1.54
Find proteins for O60218 (Homo sapiens)
Go to Gene View: AKR1B10
Go to UniProtKB:  O60218
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
EPR
Query on EPR

Download SDF File 
Download CCD File 
A
{5-[(2E)-2-methyl-3-phenylprop-2-en-1-ylidene]-4-oxo-2-thioxo-1,3-thiazolidin-3-yl}acetic acid
Epalrestat
C15 H13 N O3 S2
CHNUOJQWGUIOLD-KEBJEMEDSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
CSO
Query on CSO
A
L-PEPTIDE LINKINGC3 H7 N O3 SCYS
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
EPRIC50: 330 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.153 
  • Space Group: P 61
Unit Cell:
Length (Å)Angle (°)
a = 88.963α = 90.00
b = 88.963β = 90.00
c = 77.822γ = 120.00
Software Package:
Software NamePurpose
SCALAdata scaling
MOLREPphasing
CrysalisProdata collection
PHENIXrefinement
CrysalisProdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-10-23
    Type: Initial release
  • Version 1.1: 2013-11-27
    Type: Database references
  • Version 1.2: 2018-01-24
    Type: Structure summary