3INL

Human Mitochondrial Aldehyde Dehydrogenase Asian Variant, ALDH2*2, complexed with agonist Alda-1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.862 Å
  • R-Value Free: 0.168 
  • R-Value Work: 0.136 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Alda-1 is an agonist and chemical chaperone for the common human aldehyde dehydrogenase 2 variant.

Perez-Miller, S.Younus, H.Vanam, R.Chen, C.H.Mochly-Rosen, D.Hurley, T.D.

(2010) Nat.Struct.Mol.Biol. 17: 159-164

  • DOI: 10.1038/nsmb.1737
  • Primary Citation of Related Structures:  3INJ

  • PubMed Abstract: 
  • In approximately one billion people, a point mutation inactivates a key detoxifying enzyme, aldehyde dehydrogenase (ALDH2). This mitochondrial enzyme metabolizes toxic biogenic and environmental aldehydes, including the endogenously produced 4-hydrox ...

    In approximately one billion people, a point mutation inactivates a key detoxifying enzyme, aldehyde dehydrogenase (ALDH2). This mitochondrial enzyme metabolizes toxic biogenic and environmental aldehydes, including the endogenously produced 4-hydroxynonenal (4HNE) and the environmental pollutant acrolein, and also bioactivates nitroglycerin. ALDH2 is best known, however, for its role in ethanol metabolism. The accumulation of acetaldehyde following the consumption of even a single alcoholic beverage leads to the Asian alcohol-induced flushing syndrome in ALDH2*2 homozygotes. The ALDH2*2 allele is semidominant, and heterozygotic individuals show a similar but less severe phenotype. We recently identified a small molecule, Alda-1, that activates wild-type ALDH2 and restores near-wild-type activity to ALDH2*2. The structures of Alda-1 bound to ALDH2 and ALDH2*2 reveal how Alda-1 activates the wild-type enzyme and how it restores the activity of ALDH2*2 by acting as a structural chaperone.


    Related Citations: 
    • Activation of Aldehyde Dehydrogenase-2 Reduces Ischemic Damage to the Heart
      Chen, C.H.,Budas, G.R.,Churchill, E.N.,Disatnik, M.H.,Hurley, T.D.,Mochly-Rosen, D.
      (2008) Science 321: 1493


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Aldehyde dehydrogenase, mitochondrial
A, B, C, D, E, F, G, H
500Homo sapiensGene Names: ALDH2 (ALDM)
EC: 1.2.1.3
Find proteins for P05091 (Homo sapiens)
Go to Gene View: ALDH2
Go to UniProtKB:  P05091
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BXB
Query on BXB

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H
N-(1,3-benzodioxol-5-ylmethyl)-2,6-dichlorobenzamide
C15 H11 Cl2 N O3
NMKJFZCBCIUYHI-UHFFFAOYSA-N
 Ligand Interaction
NA
Query on NA

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.862 Å
  • R-Value Free: 0.168 
  • R-Value Work: 0.136 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 102.121α = 90.00
b = 176.900β = 94.57
c = 102.323γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
SCALEPACKdata scaling
HKL-2000data collection
PDB_EXTRACTdata extraction
HKL-2000data reduction
DENZOdata reduction
PHENIXrefinement
AMoREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-01-12
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-11-01
    Type: Refinement description