4MKZ

Crystal Structure of apo scyllo-inositol dehydrogenase from Lactobacillus casei at 77K

• PDB DOI: https://doi.org/10.2210/pdb4MKZ/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Lacticaseibacillus casei BL23
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2013-09-06 Released: 2015-03-04 
• Deposition Author(s): Bertwistle, D., Linda, V., Sanders, D.A.R., Palmer, D.R.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.229 
• R-Value Work: 0.204 
• R-Value Observed: 0.206 

Literature

Crystal Structure of apo scyllo-inositol dehydrogenase from Lactobacillus casei at 77K

Bertwistle, D., Aamudalapalli, H., Vogt, L., Sanders, D.A.R., Palmer, D.R.J.

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)

Macromolecule Content

• Total Structure Weight: 39.27 kDa 
• Atom Count: 2,831 
• Modelled Residue Count: 336 
• Deposited Residue Count: 355 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Inositol dehydrogenase	A	355	Lacticaseibacillus casei BL23	Mutation(s): 0  Gene Names: idh, iolG, iolG2, LCABL_02220 EC: 1.1.1
UniProt
Find proteins for A5YBJ8 (Lacticaseibacillus casei) Explore A5YBJ8  Go to UniProtKB:  A5YBJ8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CIT	B [auth A]	CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.229 
• R-Value Work: 0.204 
• R-Value Observed: 0.206 
• Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.45	α = 90
b = 121.65	β = 90
c = 130.94	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
MxDC	data collection

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-03-04 
Deposition Author(s): Bertwistle, D., Linda, V., Sanders, D.A.R., Palmer, D.R.J.

Revision History  

• Version 1.0: 2015-03-04
  Type: Initial release
  
• Version 1.1: 2024-02-28
  Changes: Data collection, Database references, Derived calculations