5DX6 | pdb_00005dx6

Acetolactate Synthase from Klebsiella pneumoniae soaked with beta-fluoropyruvate

• PDB DOI: https://doi.org/10.2210/pdb5DX6/pdb

• Classification: TRANSFERASE
• Organism(s): Klebsiella pneumoniae
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2015-09-23 Released: 2016-09-28 
• Deposition Author(s): Latta, A.J., McLeish, M.J., Andrews, F.H.
• Funding Organization(s): National Science Foundation (NSF, United States)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 
  0.190 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.151 (Depositor), 0.160 (DCC) 
• R-Value Observed: 
  0.152 (Depositor) 

Starting Model: experimental

Literature

Characterization of Acetolactate Synthase from Klebsiella pneumoniae

Latta, A.J., McLeish, M.J., Andrews, F.H.

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: 126.32 kDa 
• Atom Count: 9,100 
• Modeled Residue Count: 1,098 
• Deposited Residue Count: 1,158 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acetolactate synthase, catabolic	A, B	579	Klebsiella pneumoniae	Mutation(s): 0  Gene Names: budB, ilvK EC: 2.2.1.6
UniProt
Find proteins for P27696 (Klebsiella pneumoniae) Explore P27696  Go to UniProtKB:  P27696

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
5GY	F [auth A]	3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-2-[(1R)-2-fluoro-1-hydroxyethyl]-5-(2-{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}ethyl)-4-methyl-1,3-thiazol-3-ium C14 H22 F N4 O8 P2 S RCUDZGRKYWDHTO-LLVKDONJSA-O
TPP	I [auth B]	THIAMINE DIPHOSPHATE C12 H19 N4 O7 P2 S AYEKOFBPNLCAJY-UHFFFAOYSA-O
65S	J [auth B]	3-fluoro-2-oxopropanoic acid C3 H3 F O3 CXABZTLXNODUTD-UHFFFAOYSA-N
PO4	C [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
MG	D [auth A], E [auth A], G [auth B], H [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free:  0.190 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.151 (Depositor), 0.160 (DCC) 
• R-Value Observed: 0.152 (Depositor) 

Space Group: I 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.8	α = 90
b = 134.01	β = 95.5
c = 110.772	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-09-28 
Deposition Author(s): Latta, A.J., McLeish, M.J., Andrews, F.H.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	--

Revision History  

• Version 1.0: 2016-09-28
  Type: Initial release
  
• Version 1.1: 2017-09-20
  Changes: Author supporting evidence, Derived calculations
• Version 1.2: 2019-11-27
  Changes: Author supporting evidence
• Version 1.3: 2023-09-27
  Changes: Data collection, Database references, Derived calculations, Refinement description