4LUM

The crystal structure of the P132V mutant of Pyrococcus furiosus phosphoglucose isomerase in complex with manganese and fructose-6- phosphate.

• PDB DOI: https://doi.org/10.2210/pdb4LUM/pdb

• Classification: ISOMERASE
• Organism(s): Pyrococcus furiosus DSM 3638
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2013-07-25 Released: 2014-07-30 
• Deposition Author(s): Baker, P.J., Almourfi, F.M.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 0.220 
• R-Value Work: 0.173 
• R-Value Observed: 0.176 

Starting Model: experimental

Literature

Correlated mutation analysis as a tool for smart library design to improve protein performance.

Baker, P.J., Almourfi, F.M., Raedts, J., Joosten, H.-J., Hendriks, S., Kengen, S.W.M., Hage, W.R., Schaap, P.J., Sedelnikova, S.E., Van der Oost, J.

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: 43.91 kDa 
• Atom Count: 3,308 
• Modelled Residue Count: 380 
• Deposited Residue Count: 380 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glucose-6-phosphate isomerase	A, B	190	Pyrococcus furiosus DSM 3638	Mutation(s): 1  Gene Names: pgiA, PF0196 EC: 5.3.1.9
UniProt
Find proteins for P83194 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore P83194  Go to UniProtKB:  P83194

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
F6R	D [auth A], F [auth B]	FRUCTOSE -6-PHOSPHATE C6 H13 O9 P GSXOAOHZAIYLCY-HSUXUTPPSA-N
MN	C [auth A], E [auth B]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 0.220 
• R-Value Work: 0.173 
• R-Value Observed: 0.176 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.94	α = 87.81
b = 45.01	β = 89.86
c = 48.69	γ = 75.47

Software Package:

Software Name	Purpose
GDA	data collection
PHASER	phasing
REFMAC	refinement
xia2	data reduction
xia2	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-07-30 
Deposition Author(s): Baker, P.J., Almourfi, F.M.

Revision History  

• Version 1.0: 2014-07-30
  Type: Initial release
  
• Version 1.1: 2018-01-24
  Changes: Database references
• Version 1.2: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description