4BT3

acetolactate decarboxylase with a bound (2R,3R)-2,3-Dihydroxy-2- methylbutanoic acid

• PDB DOI: https://doi.org/10.2210/pdb4BT3/pdb

• Classification: LYASE
• Organism(s): Brevibacillus brevis
• Expression System: Bacillus subtilis
• Mutation(s): No 


• Deposited: 2013-06-12 Released: 2013-09-11 
• Deposition Author(s): A Marlow, V., Rea, D., Najmudin, S., Wills, M., Fulop, V.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 0.225 
• R-Value Work: 0.207 
• R-Value Observed: 0.207 

Literature

Structure and Mechanism of Acetolactate Decarboxylase.

Marlow, V.A., Rea, D., Najmudin, S., Wills, M., Fulop, V.

(2013) ACS Chem Biol 8: 2339

• PubMed: 23985082 
• DOI: https://doi.org/10.1021/cb400429h
• Primary Citation of Related Structures:  
  4BT2, 4BT3, 4BT4, 4BT5, 4BT6, 4BT7


• PubMed Abstract: 
  

  Acetolactate decarboxylase catalyzes the conversion of both enantiomers of acetolactate to the (R)-enantiomer of acetoin, via a mechanism that has been shown to involve a prior rearrangement of the non-natural (R)-enantiomer substrate to the natural (S)-enantiomer. In this paper, a series of crystal structures of ALDC complex with designed transition state mimics are reported. These structures, coupled with inhibition studies and site-directed mutagenesis provide an improved understanding of the molecular processes involved in the stereoselective decarboxylation/protonation events. A mechanism for the transformation of each enantiomer of acetolactate is proposed.

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Organizational Affiliation: 

MOAC Doctoral Training Centre, The University of Warwick , Coventry, CV4 7AL, United Kingdom.

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: 29.03 kDa 
• Atom Count: 2,273 
• Modelled Residue Count: 236 
• Deposited Residue Count: 257 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ALPHA-ACETOLACTATE DECARBOXYLASE	A	257	Brevibacillus brevis	Mutation(s): 0  EC: 4.1.1.5
UniProt
Find proteins for P23616 (Brevibacillus brevis) Explore P23616  Go to UniProtKB:  P23616

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
WTZ	C [auth A]	(2R,3R)-2,3-Dihydroxy-2-methylbutanoic acid C5 H10 O4 AOWPAWLEXIYETE-NQXXGFSBSA-N
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
WTZ	Binding MOAD:  4BT3	Ki: 7.60e+5 (nM) from 1 assay(s)
	PDBBind:  4BT3	Ki: 7.60e+5 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 0.225 
• R-Value Work: 0.207 
• R-Value Observed: 0.207 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.11	α = 90
b = 47.11	β = 90
c = 198.91	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-09-11 
Deposition Author(s): A Marlow, V., Rea, D., Najmudin, S., Wills, M., Fulop, V.

Revision History  

• Version 1.0: 2013-09-11
  Type: Initial release
  
• Version 1.1: 2013-10-30
  Changes: Database references
• Version 1.2: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description