1EE2

THE STRUCTURE OF STEROID-ACTIVE ALCOHOL DEHYDROGENASE AT 1.54 A RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.54 Å
  • R-Value Free: 0.183 
  • R-Value Work: 0.145 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural basis for substrate specificity differences of horse liver alcohol dehydrogenase isozymes.

Adolph, H.W.Zwart, P.Meijers, R.Hubatsch, I.Kiefer, M.Lamzin, V.Cedergren-Zeppezauer, E.

(2000) Biochemistry 39: 12885-12897


  • PubMed Abstract: 
  • A structure determination in combination with a kinetic study of the steroid converting isozyme of horse liver alcohol dehydrogenase, SS-ADH, is presented. Kinetic parameters for the substrates, 5beta-androstane-3beta,17beta-ol, 5beta-androstane-17be ...

    A structure determination in combination with a kinetic study of the steroid converting isozyme of horse liver alcohol dehydrogenase, SS-ADH, is presented. Kinetic parameters for the substrates, 5beta-androstane-3beta,17beta-ol, 5beta-androstane-17beta-ol-3-one, ethanol, and various secondary alcohols and the corresponding ketones are compared for the SS- and EE-isozymes which differ by nine amino acid substitutions and one deletion. Differences in substrate specificity and stereoselectivity are explained on the basis of individual kinetic rate constants for the underlying ordered bi-bi mechanism. SS-ADH was crystallized in complex with 3alpha,7alpha,12alpha-trihydroxy-5beta-cholan -24-acid (cholic acid) and NAD(+), but microspectrophotometric analysis of single crystals proved it to be a mixed complex containing 60-70% NAD(+) and 30-40% NADH. The crystals belong to the space group P2(1) with cell dimensions a = 55.0 A, b = 73.2 A, c = 92.5 A, and beta = 102.5 degrees. A 98% complete data set to 1.54-A resolution was collected at 100 K using synchrotron radiation. The structure was solved by the molecular replacement method utilizing EE-ADH as the search model. The major structural difference between the isozymes is a widening of the substrate channel. The largest shifts in C(alpha) carbon positions (about 5 A) are observed in the loop region, in which a deletion of Asp115 is found in the SS isozyme. SS-ADH easily accommodates cholic acid, whereas steroid substrates of similar bulkiness would not fit into the EE-ADH substrate site. In the ternary complex with NAD(+)/NADH, we find that the carboxyl group of cholic acid ligates to the active site zinc ion, which probably contributes to the strong binding in the ternary NAD(+) complex.


    Related Citations: 
    • Preparation and Characterization of Isozymes and Isoforms of Horse Liver Alcohol Dehydrogenase
      Hubatsch, I.,Maurer, P.,Engel, D.,Adolph, H.W.
      (1995) J.CHROMATOGR.,A 711: 105
    • Electrostatic Effects in the Kinetics of Coenzyme Binding to Isozymes of Alcohol Dehydrogenase from Horse Liver
      Adolph, H.W.,Kiefer, M.,Cedergren-Zeppezauer, E.
      (1997) Biochemistry 36: 8743
    • Substrate Specificity and Stereoselectivity of Horse Liver Alcohol Dehydrogenase. Kinetic Evaluation of Binding and Activation Parameters Controlling the Catalitic Cycles of Unbranched, Acyclic Secondary Alcohols and Ketones as Substrates of the Native and Active-Site-Specific Co(II)-Substituted Enzyme
      Adolph, H.W.,Maurer, P.,Scheinder-Bernlohr, H.,Sartorius, C.,Zeppezauer, M.
      (1991) Eur.J.Biochem. 201: 615


    Organizational Affiliation

    Fachrichtung 8.8 Biochemie, Universit├Ąt des Saarlandes, D-66041 Saarbr├╝cken, Federal Republic of Germany. hwadolph@rz.uni-sb.de




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ALCOHOL DEHYDROGENASE
A, B
373Equus caballusMutation(s): 0 
EC: 1.1.1.1
Find proteins for P00328 (Equus caballus)
Go to UniProtKB:  P00328
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
CHD
Query on CHD

Download SDF File 
Download CCD File 
A, B
CHOLIC ACID
C24 H40 O5
BHQCQFFYRZLCQQ-OELDTZBJSA-N
 Ligand Interaction
NAD
Query on NAD

Download SDF File 
Download CCD File 
A, B
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.54 Å
  • R-Value Free: 0.183 
  • R-Value Work: 0.145 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 55.030α = 90.00
b = 73.160β = 102.48
c = 92.490γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
REFMACrefinement
AMoREphasing
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2000-01-30 
  • Released Date: 2000-10-27 
  • Deposition Author(s): Adolph, H.W.

Revision History 

  • Version 1.0: 2000-10-27
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance