4YXQ | pdb_00004yxq

PksG, a HMG-CoA Synthase from Bacillus subtilis

• PDB DOI: https://doi.org/10.2210/pdb4YXQ/pdb

• Classification: TRANSFERASE
• Organism(s): Bacillus subtilis subsp. subtilis str. 168
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-03-23 Released: 2016-06-29 
• Deposition Author(s): Nair, A.V., Race, P.R., Till, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.47 Å
• R-Value Free: 
  0.271 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.226 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.228 (Depositor) 

Literature

PksG, a HMG-CoA Synthase from Bacillus subtilis

Nair, A.V., Race, P.R., Till, M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 187.64 kDa 
• Atom Count: 12,938 
• Modeled Residue Count: 1,618 
• Deposited Residue Count: 1,680 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polyketide biosynthesis 3-hydroxy-3-methylglutaryl-ACP synthase PksG	A, B, C, D	420	Bacillus subtilis subsp. subtilis str. 168	Mutation(s): 0  Gene Names: pksG, BSU17150 EC: 2.3.3
UniProt
Find proteins for P40830 (Bacillus subtilis (strain 168)) Explore P40830  Go to UniProtKB:  P40830

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEG	E [auth B], F [auth D], G [auth D]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.47 Å
• R-Value Free:  0.271 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.226 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.62	α = 90
b = 122.04	β = 90
c = 198.33	γ = 90

Software Package:

Software Name	Purpose
Aimless	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-06-29 
Deposition Author(s): Nair, A.V., Race, P.R., Till, M.

Revision History  

• Version 1.0: 2016-06-29
  Type: Initial release
  
• Version 1.1: 2024-05-08
  Changes: Data collection, Database references, Refinement description