9B9P | pdb_00009b9p

Crystal structure of Staphylococcus aureus ketol-acid reductoisomerase in complex with Mg2+, and JK-5-114

• PDB DOI: https://doi.org/10.2210/pdb9B9P/pdb

• Classification: ISOMERASE
• Organism(s): Staphylococcus aureus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-04-03 Released: 2025-04-09 
• Deposition Author(s): Kurz, J.L., Lin, X., Guddat, L.W.
• Funding Organization(s): National Health and Medical Research Council (NHMRC, Australia)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.18 Å
• R-Value Free: 
  0.292 (Depositor), 0.294 (DCC) 
• R-Value Work: 
  0.247 (Depositor), 0.247 (DCC) 
• R-Value Observed: 
  0.252 (Depositor) 

Starting Model: experimental

Literature

A ketol-acid reductoisomerase inhibitor that is competitive for both NADPH and 2-acetolactate exhibits both antituberculosis and herbicidal activity.

Lin, X., Kurz, J.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)

Macromolecule Content

• Total Structure Weight: 76.39 kDa 
• Atom Count: 5,047 
• Modelled Residue Count: 648 
• Deposited Residue Count: 680 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ketol-acid reductoisomerase (NADP(+))	A, B	340	Staphylococcus aureus	Mutation(s): 0  Gene Names:  ilvC, CV021_16175, GO782_13585, GO793_08535, GO852_03560, GO941_09745, GZ156_04070, NCTC6133_02793, NCTC7878_02786, NCTC7972_02670, SA950122_01671 EC: 1.1.1.86
UniProt
Find proteins for A0A4T9XKD7 (Staphylococcus aureus) Explore A0A4T9XKD7  Go to UniProtKB:  A0A4T9XKD7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1AKJ (Subject of Investigation/LOI)	C [auth A], F [auth B]	6-hydroxy-2-phenyl[1,3]thiazolo[4,5-d]pyrimidine-5,7(4H,6H)-dione C11 H7 N3 O3 S YJJAOPVQZWSUDF-UHFFFAOYSA-N
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: 3.18 Å
• R-Value Free:  0.292 (Depositor), 0.294 (DCC) 
• R-Value Work:  0.247 (Depositor), 0.247 (DCC) 
• R-Value Observed: 0.252 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.929	α = 90
b = 95.719	β = 90
c = 111.356	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-04-09 
Deposition Author(s): Kurz, J.L., Lin, X., Guddat, L.W.

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Funding Organization	Location	Grant Number
National Health and Medical Research Council (NHMRC, Australia)	Australia	114729

Revision History  

• Version 1.0: 2025-04-09
  Type: Initial release