6J92 | pdb_00006j92

Crystal structure of acetolactate decarboxylase from Enterbacter aerogenes

• PDB DOI: https://doi.org/10.2210/pdb6J92/pdb
• Entry: 6J92 supersedes: 5YHK

• Classification: LYASE
• Organism(s): Klebsiella aerogenes
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2019-01-21 Released: 2020-01-22 
• Deposition Author(s): Mingyang, L., Song, X., Ji, F., Feng, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.42 Å
• R-Value Free: 
  0.218 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.173 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.175 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of acetolactate decarboxylase from Enterbacter aerogenes

Ji, F., Feng, Y., Mingyang, L.

To be published.

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)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 53.54 kDa 
• Atom Count: 3,621 
• Modeled Residue Count: 442 
• Deposited Residue Count: 476 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-acetolactate decarboxylase	A, B	238	Klebsiella aerogenes	Mutation(s): 0  Gene Names: aldC EC: 4.1.1.5
UniProt
Find proteins for P05361 (Klebsiella aerogenes) Explore P05361  Go to UniProtKB:  P05361

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	C [auth A], E [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CL	D [auth A], F [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.42 Å
• R-Value Free:  0.218 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.173 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.175 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.541	α = 90
b = 83.541	β = 90
c = 139.173	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-01-22 
Deposition Author(s): Mingyang, L., Song, X., Ji, F., Feng, Y.
• This entry supersedes: 5YHK

Revision History  

• Version 1.0: 2020-01-22
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description, Structure summary