5MLN | pdb_00005mln

The crystal structure of alcohol dehydrogenase 10 from Candida magnoliae

• PDB DOI: https://doi.org/10.2210/pdb5MLN/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Starmerella magnoliae
• Expression System: Escherichia coli DH1
• Mutation(s): No 


• Deposited: 2016-12-07 Released: 2017-12-20 
• Deposition Author(s): Castellanos, J.R.G., Mattevi, A.
• Funding Organization(s): European Union

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.180 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.146 (Depositor), 0.160 (DCC) 
• R-Value Observed: 
  0.147 (Depositor) 

Starting Model: experimental

Literature

One-Pot Biocatalytic Double Oxidation of alpha-Isophorone for the Synthesis of Ketoisophorone

Tavanti, M., Parmeggiani, F., Castellanos, J.R.G., Mattevi, A., Turner, N.J.

(2017) ChemCatChem 

• DOI: https://doi.org/10.1002/cctc.201700620

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)

Macromolecule Content 

• Total Structure Weight: 52.61 kDa 
• Atom Count: 4,033 
• Modeled Residue Count: 475 
• Deposited Residue Count: 482 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alcohol dehydrogenase 3	A, B	241	Starmerella magnoliae	Mutation(s): 0  Gene Names: adh3
UniProt
Find proteins for B8K244 (Starmerella magnoliae) Explore B8K244  Go to UniProtKB:  B8K244

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAP	C [auth A], G [auth B]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N
PEG	D [auth A], E [auth A], F [auth A], H [auth B]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.180 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.146 (Depositor), 0.160 (DCC) 
• R-Value Observed: 0.147 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m35mln

Space Group: P 2₁ 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.178	α = 90
b = 80.425	β = 90
c = 80.52	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-12-20 
Deposition Author(s): Castellanos, J.R.G., Mattevi, A.

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Funding Organization	Location	Grant Number
European Union		635734

Revision History  

• Version 1.0: 2017-12-20
  Type: Initial release
  
• Version 1.1: 2019-07-03
  Changes: Data collection, Database references
• Version 1.2: 2020-04-22
  Changes: Database references
• Version 1.3: 2024-01-17
  Changes: Data collection, Database references, Refinement description