6FFZ

Crystal structure of R. ruber ADH-A, mutant F43H, Y54L

• PDB DOI: https://doi.org/10.2210/pdb6FFZ/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Rhodococcus sp. M8
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2018-01-09 Released: 2018-02-14 
• Deposition Author(s): Dobritzsch, D., Maurer, D., Hamnevik, E., Enugala, T.R., Widersten, M.
• Funding Organization(s): Swedish Research Council

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free: 0.183 
• R-Value Work: 0.161 
• R-Value Observed: 0.162 

Starting Model: experimental

Literature

Directed Evolution of Alcohol Dehydrogenase for Improved Stereoselective Redox Transformations of 1-Phenylethane-1,2-diol and Its Corresponding Acyloin.

Hamnevik, E., Maurer, D., Enugala, T.R., Chu, T., Lofgren, R., Dobritzsch, D., Widersten, M.

(2018) Biochemistry 57: 1059-1062

• PubMed: 29384657 
• DOI: https://doi.org/10.1021/acs.biochem.8b00055
• Primary Citation of Related Structures:  
  6FFX, 6FFZ


• PubMed Abstract: 
  

  Laboratory evolution of alcohol dehydrogenase produced enzyme variants with improved turnover numbers with a vicinal 1,2-diol and its corresponding hydroxyketone. Crystal structure and transient kinetics analysis aids in rationalizing the new functions of these variants.

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Organizational Affiliation: 

Department of Chemistry-BMC, Uppsala University , Box 576, SE-751 23 Uppsala, Sweden.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 147.34 kDa 
• Atom Count: 11,565 
• Modelled Residue Count: 1,383 
• Deposited Residue Count: 1,408 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alcohol dehydrogenase	A, B, C, D	352	Rhodococcus sp. M8	Mutation(s): 2  Gene Names: BKE56_025765

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAD	G [auth A], J [auth B], M [auth C], P [auth D]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N
ZN	E [auth A], F [auth A], H [auth B], I [auth B], K [auth C], L [auth C], N [auth D], O [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free: 0.183 
• R-Value Work: 0.161 
• R-Value Observed: 0.162 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.497	α = 90
b = 105.572	β = 91.51
c = 108.658	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2018-02-14 
Deposition Author(s): Dobritzsch, D., Maurer, D., Hamnevik, E., Enugala, T.R., Widersten, M.

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Funding Organization	Location	Grant Number
Swedish Research Council	Sweden	--

Revision History  

• Version 1.0: 2018-02-14
  Type: Initial release
  
• Version 1.1: 2018-02-28
  Changes: Database references
• Version 1.2: 2024-01-17
  Changes: Data collection, Database references, Derived calculations, Refinement description