6TQ3

Alcohol dehydrogenase from Candida magnoliae DSMZ 70638 (ADHA)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.195 
  • R-Value Observed: 0.196 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Approaching boiling point stability of an alcohol dehydrogenase through computationally-guided enzyme engineering.

Aalbers, F.S.Furst, M.J.Rovida, S.Trajkovic, M.Gomez Castellanos, J.R.Bartsch, S.Vogel, A.Mattevi, A.Fraaije, M.W.

(2020) Elife 9

  • DOI: https://doi.org/10.7554/eLife.54639
  • Primary Citation of Related Structures:  
    6TQ3, 6TQ5, 6TQ8

  • PubMed Abstract: 

    Enzyme instability is an important limitation for the investigation and application of enzymes. Therefore, methods to rapidly and effectively improve enzyme stability are highly appealing. In this study we applied a computational method (FRESCO) to guide the engineering of an alcohol dehydrogenase. Of the 177 selected mutations, 25 mutations brought about a significant increase in apparent melting temperature (Δ T m ≥ +3 °C). By combining mutations, a 10-fold mutant was generated with a T m of 94 °C (+51 °C relative to wild type), almost reaching water's boiling point, and the highest increase with FRESCO to date. The 10-fold mutant's structure was elucidated, which enabled the identification of an activity-impairing mutation. After reverting this mutation, the enzyme showed no loss in activity compared to wild type, while displaying a T m of 88 °C (+45 °C relative to wild type). This work demonstrates the value of enzyme stabilization through computational library design.


  • Organizational Affiliation

    Molecular Enzymology Group, University of Groningen, Groningen, Netherlands.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Enzyme subunit
A, B, C, D
246Starmerella magnoliaeMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.195 
  • R-Value Observed: 0.196 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.505α = 90
b = 87.245β = 101.65
c = 102.922γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European CommissionEuropean UnionH2020-LEIT BIO-2014-1 635734

Revision History  (Full details and data files)

  • Version 1.0: 2020-04-08
    Type: Initial release
  • Version 1.1: 2024-01-24
    Changes: Data collection, Database references, Refinement description