1EL3 | pdb_00001el3

HUMAN ALDOSE REDUCTASE COMPLEXED WITH IDD384 INHIBITOR

• PDB DOI: https://doi.org/10.2210/pdb1EL3/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2000-03-13 Released: 2000-05-10 
• Deposition Author(s): Podjarny, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.192 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.165 (Depositor), 0.165 (DCC) 
• R-Value Observed: 
  0.165 (Depositor) 

Starting Model: experimental

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 D Biol Crystallogr 56: 536-540

• PubMed: 10771421 
• DOI: https://doi.org/10.1107/s0907444900002341
• Primary Citation Related Structures: 
  1EKO, 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 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.

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

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 37.03 kDa 
• Atom Count: 2,839 
• Modeled Residue Count: 316 
• Deposited Residue Count: 316 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ALDOSE REDUCTASE	A	316	Homo sapiens	Mutation(s): 0  EC: 1.1.1.21 (PDB Primary Data), 1.1.1.372 (UniProt), 1.1.1.300 (UniProt), 1.1.1.54 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P15121 (Homo sapiens) Explore P15121  Go to UniProtKB:  P15121
PHAROS:  P15121 GTEx:  ENSG00000085662

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAP	B [auth A]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N
I84	C [auth A]	[2,6-DIMETHYL-4-(2-O-TOLYL-ACETYLAMINO)-BENZENESULFONYL]-GLYCINE C19 H22 N2 O5 S CJKKMQCZOLCXAM-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
I84	BindingDB:  1EL3	IC50: 108 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.192 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.165 (Depositor), 0.165 (DCC) 
• R-Value Observed: 0.165 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.93	α = 90
b = 67.21	β = 92.5
c = 47.65	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• 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
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-02-07
  Changes: Data collection, Database references, Derived calculations
• Version 1.4: 2024-04-03
  Changes: Refinement description