1HF3

ATOMIC X-RAY STRUCTURE OF LIVER ALCOHOL DEHYDROGENASE CONTAINING Cadmium and a hydroxide adduct to NADH


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.164 
  • R-Value Observed: 0.167 

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Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history


Literature

On the Enzymatic Activation of Nadh

Meijers, R.Morris, R.J.Adolph, H.W.Merli, A.Lamzin, V.S.Cedergen-Zeppezauer, E.S.

(2001) J Biol Chem 276: 9316

  • DOI: 10.1074/jbc.M010870200
  • Primary Citation of Related Structures:  
    1HEU, 1HET, 1HF3

  • PubMed Abstract: 
  • Atomic (1 A) resolution x-ray structures of horse liver alcohol dehydrogenase in complex with NADH revealed the formation of an adduct in the active site between a metal-bound water and NADH. Furthermore, a pronounced distortion of the pyridine ring of NADH was observed ...

    Atomic (1 A) resolution x-ray structures of horse liver alcohol dehydrogenase in complex with NADH revealed the formation of an adduct in the active site between a metal-bound water and NADH. Furthermore, a pronounced distortion of the pyridine ring of NADH was observed. A series of quantum chemical calculations on the water-nicotinamide adduct showed that the puckering of the pyridine ring in the crystal structures can only be reproduced when the water is considered a hydroxide ion. These observations provide fundamental insight into the enzymatic activation of NADH for hydride transfer.


    Related Citations: 
    • Substitutions in a Flexible Loop of Horse Liver Alcohol Dehydrogenase Hinder the Conformational Change and Unmask Hydrogen Transfer
      Ramaswamy, S., Park, D.H., Plapp, B.V.
      (1999) Biochemistry 38: 13951
    • Electrostatic Effects in the Kinetics of Coenzyme Binding to Isozymes of Alcohol Dehydrogenase from Horse Liver
      Adolph, H.W., Kiefer, M., Cedergren-Zeppezauer, E.S.
      (1997) Biochemistry 36: 8743
    • Refined Crystal Structure of Liver Deresolutionhydrogenase-Nadh Complex at 1.8 Angstrom Alcohol
      Al-Karadaghi, S., Cedergren-Zeppezauer, E.S., Petratos, K., Hovmoeller, S., Terry, H., Dauter, Z., Wilson, K.S.
      (1994) Acta Crystallogr D Biol Crystallogr 50: 793
    • Crystal Structures of the Active Site Inspecifically Metal-Depleted and Cobalt-Substituted Horse Liver Alcohol Dehydrogenase Derivatives
      Schneider, G., Eklund, H., Cedergren-Zeppezauer, E., Zeppezauer, M.
      (1983) Proc Natl Acad Sci U S A 80: 5289
    • Crystal-Structure Determination of Reducnicotinamide Adenine Dinucleotide Complex with Horse Liver Alcohol Dehydrogenase Maintained in its Apo Conformation by Zinc-Bound Imidazoleed
      Cedergren-Zeppezauer, E.
      (1983) Biochemistry 22: 5761

    Organizational Affiliation

    European Molecular Biology Laboratory, c/o DESY, Notkestrasse 85, 22603 Hamburg, Germany.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ALCOHOL DEHYDROGENASE E CHAINA, B374Equus caballusMutation(s): 0 
EC: 1.1.1.1
UniProt
Find proteins for P00327 (Equus caballus)
Explore P00327 
Go to UniProtKB:  P00327
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.164 
  • R-Value Observed: 0.167 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 43.9α = 90
b = 179β = 107.5
c = 50.5γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2001-05-31
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2019-07-24
    Changes: Advisory, Data collection