8Z6Y | pdb_00008z6y

Medium-chain dehydrogenase/reductase MrADH mutant-V164K&V221A&H333K

• PDB DOI: https://doi.org/10.2210/pdb8Z6Y/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Modestobacter roseus
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2024-04-19 Released: 2025-04-23 
• Deposition Author(s): Xue, J.Y., Xu, G.C., Ni, Y.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.87 Å
• R-Value Free: 
  0.267 (Depositor), 0.269 (DCC) 
• R-Value Work: 
  0.216 (Depositor), 0.222 (DCC) 
• R-Value Observed: 
  0.219 (Depositor) 

Starting Model: experimental

Literature

Enhancing the solubility and elucidating the mechanisms of the highly stereoselective oxidoreductase MrADH: an insight from molecular dynamics simulations

Xue, J.Y., Xu, G.C., Ni, Y.

To be published.

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: 36.08 kDa 
• Atom Count: 2,535 
• Modeled Residue Count: 345 
• Deposited Residue Count: 345 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
alcohol dehydrogenase	A	345	Modestobacter roseus	Mutation(s): 3  Gene Names: JD78_02120 EC: 1.1.1.1
UniProt
Find proteins for A0A562IS02 (Modestobacter roseus) Explore A0A562IS02  Go to UniProtKB:  A0A562IS02

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAD (Subject of Investigation/LOI)	B [auth A]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N
ZN (Subject of Investigation/LOI)	C [auth A], D [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.87 Å
• R-Value Free:  0.267 (Depositor), 0.269 (DCC) 
• R-Value Work:  0.216 (Depositor), 0.222 (DCC) 
• R-Value Observed: 0.219 (Depositor) 

Space Group: P 6₂ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.69	α = 90
b = 95.69	β = 90
c = 199.03	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
PROTEUM PLUS	data reduction
PROTEUM PLUS	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-04-23 
Deposition Author(s): Xue, J.Y., Xu, G.C., Ni, Y.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	22378169

Revision History  

• Version 1.0: 2025-04-23
  Type: Initial release