7P7Y | pdb_00007p7y

X-ray structure of Lactobacillus kefir alcohol dehydrogenase mutant Q126K

• PDB DOI: https://doi.org/10.2210/pdb7P7Y/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Lentilactobacillus kefiri
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2021-07-21 Released: 2021-07-28 
• Deposition Author(s): Bischoff, D., Walla, B., Janowski, R., Niessing, D., Weuster-Botz, D.
• Funding Organization(s): German Research Foundation (DFG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.25 Å
• R-Value Free: 
  0.117 (Depositor), 0.118 (DCC) 
• R-Value Work: 
  0.101 (Depositor), 0.100 (DCC) 

Starting Model: experimental

Literature

Transfer of a Rational Crystal Contact Engineering Strategy between Diverse Alcohol Dehydrogenases

Walla, B., Bischoff, D., Janowski, R., von den Eichen, N., Niessing, D., Weuster-Botz, D.

(2021) Crystals (Basel) 11

• DOI: https://doi.org/10.3390/cryst11080975

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)

Macromolecule Content 

• Total Structure Weight: 27.95 kDa 
• Atom Count: 2,284 
• Modeled Residue Count: 250 
• Deposited Residue Count: 260 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NADPH dependent R-specific alcohol dehydrogenase	A	260	Lentilactobacillus kefiri	Mutation(s): 1  Gene Names: adhR, fabG3, DNL43_05835, LKE01_04370 EC: 1.1.1
UniProt
Find proteins for Q6WVP7 (Lentilactobacillus kefiri) Explore Q6WVP7  Go to UniProtKB:  Q6WVP7

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	B [auth A], C [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CL	F [auth A], G [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
MG	D [auth A], E [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.25 Å
• R-Value Free:  0.117 (Depositor), 0.118 (DCC) 
• R-Value Work:  0.101 (Depositor), 0.100 (DCC) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.84	α = 90
b = 80.04	β = 90
c = 114.93	γ = 90

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2021-07-28 
Deposition Author(s): Bischoff, D., Walla, B., Janowski, R., Niessing, D., Weuster-Botz, D.

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Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	SPP 1934

Revision History  

• Version 1.0: 2021-07-28
  Type: Initial release
  
• Version 1.1: 2021-09-01
  Changes: Database references, Structure summary
• Version 1.2: 2022-02-23
  Changes: Database references
• Version 1.3: 2024-01-31
  Changes: Data collection, Derived calculations, Refinement description