1AD3 | pdb_00001ad3

CLASS 3 ALDEHYDE DEHYDROGENASE COMPLEX WITH NICOTINAMIDE-ADENINE-DINUCLEOTIDE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 
    0.279 (Depositor) 
  • R-Value Work: 
    0.177 (Depositor) 
  • R-Value Observed: 
    0.177 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 1AD3

This is version 1.3 of the entry. See complete history

Literature

The first structure of an aldehyde dehydrogenase reveals novel interactions between NAD and the Rossmann fold.

Liu, Z.J.Sun, Y.J.Rose, J.Chung, Y.J.Hsiao, C.D.Chang, W.R.Kuo, I.Perozich, J.Lindahl, R.Hempel, J.Wang, B.C.

(1997) Nat Struct Biol 4: 317-326

  • DOI: https://doi.org/10.1038/nsb0497-317
  • Primary Citation Related Structures: 
    1AD3

  • PubMed Abstract: 

    The first structure of an aldehyde dehydrogenase (ALDH) is described at 2.6 A resolution. Each subunit of the dimeric enzyme contains an NAD-binding domain, a catalytic domain and a bridging domain. At the interface of these domains is a 15 A long funnel-shaped passage with a 6 x 12 A opening leading to a putative catalytic pocket. A new mode of NAD binding, which differs substantially from the classic beta-alpha-beta binding mode associated with the 'Rossmann fold', is observed which we term the beta-alpha,beta mode. Sequence comparisons of the class 3 ALDH with other ALDHs indicate a similar polypeptide fold, novel NAD-binding mode and catalytic site for this family. A mechanism for enzymatic specificity and activity is postulated.


  • Organizational Affiliation
    • Department of Biochemistry and Molecular Biology, University of Georgia, Athens 30602, USA.

Macromolecule Content 

  • Total Structure Weight: 101.95 kDa 
  • Atom Count: 7,316 
  • Modeled Residue Count: 892 
  • Deposited Residue Count: 904 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
ALDEHYDE DEHYDROGENASE (CLASS 3)
A, B
452Rattus norvegicusMutation(s): 0 
EC: 1.2.1.5
UniProt
Find proteins for P11883 (Rattus norvegicus)
Explore P11883 
Go to UniProtKB:  P11883
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP11883
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAD

Query on NAD



Download:Ideal Coordinates CCD File
C [auth A],
D [auth B]
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free:  0.279 (Depositor) 
  • R-Value Work:  0.177 (Depositor) 
  • R-Value Observed: 0.177 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 64.95α = 90
b = 170.95β = 110.25
c = 47.16γ = 90
Software Package:
Software NamePurpose
ISIRASmodel building
X-PLORrefinement
XENGENdata reduction
XENGENdata scaling
ISIRASphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1997-07-07
    Type: Initial release
  • Version 1.1: 2008-03-24
    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, Other