3FF1 | pdb_00003ff1

Structure of Glucose 6-phosphate Isomerase from Staphylococcus aureus

• PDB DOI: https://doi.org/10.2210/pdb3FF1/pdb

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


• Deposited: 2008-12-01 Released: 2009-02-03 
• Deposition Author(s): Anderson, S.M., Brunzelle, J.S., Onopriyenko, O., Peterson, S., Anderson, W.F., Savchenko, A., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free: 
  0.170 (Depositor), 0.168 (DCC) 
• R-Value Work: 
  0.146 (Depositor), 0.145 (DCC) 
• R-Value Observed: 
  0.148 (Depositor) 

Literature

Structure of Glucose 6-phosphate Isomerase from Staphylococcus aureus

Anderson, S.M., Brunzelle, J.S., Onopriyenko, O., Peterson, S., Anderson, W.F., Savchenko, A.

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: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

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

Biological assembly 3 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 101.46 kDa 
• Atom Count: 8,732 
• Modeled Residue Count: 888 
• Deposited Residue Count: 892 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glucose-6-phosphate isomerase	A, B	446	Staphylococcus aureus subsp. aureus COL	Mutation(s): 0  Gene Names: pgi, SACOL0966 EC: 5.3.1.9
UniProt
Find proteins for Q5HHC2 (Staphylococcus aureus (strain COL)) Explore Q5HHC2  Go to UniProtKB:  Q5HHC2

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
G6Q	D [auth B]	GLUCOSE-6-PHOSPHATE C6 H13 O9 P VFRROHXSMXFLSN-SLPGGIOYSA-N
NA	C [auth A], E [auth B], F [auth B], G [auth B]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free:  0.170 (Depositor), 0.168 (DCC) 
• R-Value Work:  0.146 (Depositor), 0.145 (DCC) 
• R-Value Observed: 0.148 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m33ff1

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 163.267	α = 90
b = 163.267	β = 90
c = 103.732	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
BLU-MAX	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SHARP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-02-03 
Deposition Author(s): Anderson, S.M., Brunzelle, J.S., Onopriyenko, O., Peterson, S., Anderson, W.F., Savchenko, A., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2009-02-03
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.2: 2017-11-01
  Changes: Refinement description
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references, Derived calculations
• Version 1.4: 2024-10-30
  Changes: Structure summary