1H2B

Crystal Structure of the Alcohol Dehydrogenase from the Hyperthermophilic Archaeon Aeropyrum pernix at 1.65A Resolution

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.62 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.168 
  • R-Value Observed: 0.168 

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This is version 1.5 of the entry. See complete history. 


Literature

The structure of an alcohol dehydrogenase from the hyperthermophilic archaeon Aeropyrum pernix.

Guy, J.E., Isupov, M.N., Littlechild, J.A.

(2003) J Mol Biol 331: 1041-1051

  • DOI: 10.1016/s0022-2836(03)00857-x
  • Primary Citation of Related Structures:  
    1H2B

  • PubMed Abstract: 

    • The structure of the recombinant medium chain alcohol dehydrogenase (ADH) from the hyperthermophilic archaeon Aeropyrum pernix has been solved by the multiple anomalous dispersion technique using the signal from the naturally occurring zinc ions. The ...

    The structure of the recombinant medium chain alcohol dehydrogenase (ADH) from the hyperthermophilic archaeon Aeropyrum pernix has been solved by the multiple anomalous dispersion technique using the signal from the naturally occurring zinc ions. The enzyme is a tetramer with 222 point group symmetry. The ADH monomer is formed from a catalytic and a cofactor-binding domain, with the overall fold similar to previously solved ADH structures. The 1.62 A resolution A.pernix ADH structure is that of the holo form, with the cofactor NADH bound into the cleft between the two domains. The electron density found in the active site has been interpreted to be octanoic acid, which has been shown to be an inhibitor of the enzyme. This inhibitor is positioned with its carbonyl oxygen atom forming the fourth ligand of the catalytic zinc ion. The structural zinc ion of each monomer is present at only partial occupancy and in its absence a disulfide bond is formed. The enhanced thermal stability of the A.pernix ADH is thought to arise primarily from increased ionic and hydrophobic interactions on the subunit interfaces.

    Related Citations: 
    • Crystallization and Preliminary X-Ray Diffraction Studies of a Novel Alcohol Dehydrogenase from the Hyperthermophilic Archaeon Aeropyrum Pernix.
      Guy, J.E., Isupov, M.N., Littlechild, J.A.
      (2003) Acta Crystallogr D Biol Crystallogr 59: 174
    Organizational Affiliation: 

    Schools of Chemistry and Biological Sciences, University of Exeter, Stocker Road, EX4 4QD, Exeter, UK.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ALCOHOL DEHYDROGENASEA, B359Aeropyrum pernixMutation(s): 0 
EC: 1.1.1.1
Find proteins for Q9Y9P9 (Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1))
Explore Q9Y9P9 
Go to UniProtKB:  Q9Y9P9
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.62 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.168 
  • R-Value Observed: 0.168 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 100.661α = 90
b = 103.186β = 90
c = 67.521γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
CCP4phasing
MOLREPphasing
SHELXSphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-08-28
    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: 2018-02-28
    Changes: Database references, Source and taxonomy
  • Version 1.4: 2019-07-24
    Changes: Data collection
  • Version 1.5: 2019-10-09
    Changes: Data collection, Database references, Other