1AD3

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 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.177 

wwPDB Validation   3D Report Full Report


This is version 1.2 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: 10.1038/nsb0497-317
  • Primary Citation of 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 ...

    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.

    Related Citations: 
    • Crystal Structure of a Class 3 Aldehyde Dehydrogenase at 2.6 Angstroms Resolution
      Liu, Z.-J., Hempel, J., Sun, J., Rose, J., Hsiao, D., Chang, W.-R., Chung, Y.-J., Kuo, I., Lindahl, R., Wang, B.-C.
      (1997) Enzymology And Molecular Biology Of Carbonyl Metabolism 6 (in: Adv Exp Med Biol , V 414) --: 1
    • Conserved Residues in the Aldehyde Dehydrogenase Family
      Hempel, J., Liu, Z.-J., Perozich, J., Rose, J., Lindahl, R., Wang, B.-C.
      (1997) Enzymology And Molecular Biology Of Carbonyl Metabolism 6 (in: Adv Exp Med Biol , V 414) --: 9
    • Preliminary Crystallographic Analysis of Class 3 Rat Liver Aldehyde Dehydrogenase
      Rose, J.P., Hempel, J., Kuo, I., Lindahl, R., Wang, B.C.
      (1990) Proteins 8: 305
    Organizational Affiliation: 

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



Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ALDEHYDE DEHYDROGENASE (CLASS 3)A, B452Rattus norvegicusMutation(s): 0 
Gene Names: Aldh3a1, Aldd, Aldh3
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
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / 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		 Ligand Interaction
Experimental Data & Validation

Experimental Data

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

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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