5YHO | pdb_00005yho

Crystal structure of acetolactate decarboxylase from Enterobacter cloacae

• PDB DOI: https://doi.org/10.2210/pdb5YHO/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Klebsiella aerogenes
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2017-09-29 Released: 2018-10-10 
• Deposition Author(s): Ji, F.L., Li, M.Y., Feng, Y.B.
• Funding Organization(s): National Science Foundation (China)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.272 (Depositor), 0.278 (DCC) 
• R-Value Work: 
  0.210 (Depositor), 0.218 (DCC) 
• R-Value Observed: 
  0.213 (Depositor) 

Literature

Crystal structure of acetolactate decarboxylase from Enterobacter cloacae

Ji, F.L., Li, M.Y., Feng, Y.B.

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: 53.63 kDa 
• Atom Count: 3,857 
• Modeled Residue Count: 473 
• 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): 3  Gene Names: budA, 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 (Subject of Investigation/LOI)	C [auth A], E [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CL (Subject of Investigation/LOI)	D [auth A], F [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.272 (Depositor), 0.278 (DCC) 
• R-Value Work:  0.210 (Depositor), 0.218 (DCC) 
• R-Value Observed: 0.213 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.832	α = 90
b = 59.981	β = 108.17
c = 80.818	γ = 90

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2018-10-10 
Deposition Author(s): Ji, F.L., Li, M.Y., Feng, Y.B.

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Funding Organization	Location	Grant Number
National Science Foundation (China)	China	21506025

Revision History  

• Version 1.0: 2018-10-10
  Type: Initial release
  
• Version 1.1: 2024-03-27
  Changes: Data collection, Database references, Derived calculations, Structure summary