6KQB

A long chain secondary alcohol dehydrogenase of Micrococcus luteus

• PDB DOI: https://doi.org/10.2210/pdb6KQB/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Micrococcus luteus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-08-16 Released: 2020-08-19 
• Deposition Author(s): Kim, H.J., Kim, J.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.26 Å
• R-Value Free: 0.260 
• R-Value Work: 0.215 
• R-Value Observed: 0.217 

Literature

Cofactor specificity engineering of a long-chain secondary alcohol dehydrogenase from Micrococcus luteus for redox-neutral biotransformation of fatty acids.

Seo, E.J., Kim, H.J., Kim, M.J., Kim, J.S., Park, J.B.

(2019) Chem Commun (Camb) 55: 14462-14465

• PubMed: 31728457 
• DOI: https://doi.org/10.1039/c9cc06447h
• Primary Citation of Related Structures:  
  6KQ9, 6KQB


• PubMed Abstract: 
  

  Structure-based engineering of a NAD+-dependent secondary alcohol dehydrogenase from Micrococcus luteus led to a 1800-fold increase in catalytic efficiency for NADP+. Furthermore, the engineered enzymes (e.g., D37S/A38R/V39S/T15I) were successfully coupled to a NADPH-dependent Baeyer-Villiger monooxygenase from Pseudomonas putida KT2440 for redox-neutral biotransformations of C18 fatty acids into C9 chemicals.

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Organizational Affiliation: 

Department of Food Science & Engineering, Ewha Womans University, Seoul 03760, Republic of Korea. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 73.72 kDa 
• Atom Count: 4,932 
• Modelled Residue Count: 620 
• Deposited Residue Count: 678 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
3-hydroxybutyryl-CoA dehydrogenase	A, B	339	Micrococcus luteus	Mutation(s): 0  Gene Names: GY12_10930

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.26 Å
• R-Value Free: 0.260 
• R-Value Work: 0.215 
• R-Value Observed: 0.217 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.492	α = 90
b = 64.492	β = 90
c = 321.543	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	phasing
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-08-19 
Deposition Author(s): Kim, H.J., Kim, J.S.

Revision History  

• Version 1.0: 2020-08-19
  Type: Initial release
  
• Version 1.1: 2021-03-10
  Changes: Database references
• Version 1.2: 2023-11-22
  Changes: Data collection, Database references, Refinement description