3INP | pdb_00003inp

2.05 Angstrom Resolution Crystal Structure of D-ribulose-phosphate 3-epimerase from Francisella tularensis.

• PDB DOI: https://doi.org/10.2210/pdb3INP/pdb

• Classification: ISOMERASE
• Organism(s): Francisella tularensis subsp. tularensis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-08-12 Released: 2009-08-25 
• Deposition Author(s): Minasov, G., Shuvalova, L., Dubrovska, I., Winsor, J., Scott, P., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 
  0.177 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.158 (Depositor), 0.186 (DCC) 
• R-Value Observed: 
  0.159 (Depositor) 

Starting Model: experimental

Literature

2.05 Angstrom Resolution Crystal Structure of D-ribulose-phosphate 3-epimerase from Francisella tularensis.

Minasov, G., Shuvalova, L., Dubrovska, I., Winsor, J., Scott, P., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Biological Assembly 1  

Global Symmetry: Tetrahedral - T  (Explore in 3D)
Global Stoichiometry: Homo 12-mer - A12 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 3 generated by PISA (software)

Biological Assembly 4  

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

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 27.08 kDa 
• Atom Count: 1,913 
• Modeled Residue Count: 218 
• Deposited Residue Count: 246 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
D-ribulose-phosphate 3-epimerase	A	246	Francisella tularensis subsp. tularensis	Mutation(s): 0  Gene Names: FTT0789, FTT_0789, rpe EC: 5.1.3.1
UniProt
Find proteins for Q5NGP6 (Francisella tularensis subsp. tularensis (strain SCHU S4 / Schu 4)) Explore Q5NGP6  Go to UniProtKB:  Q5NGP6

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	D [auth A], E [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	B [auth A], C [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free:  0.177 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.158 (Depositor), 0.186 (DCC) 
• R-Value Observed: 0.159 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m33inp

Space Group: F 4₁ 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 224.08	α = 90
b = 224.08	β = 90
c = 224.08	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-08-25 
Deposition Author(s): Minasov, G., Shuvalova, L., Dubrovska, I., Winsor, J., Scott, P., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2009-08-25
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2017-11-01
  Changes: Advisory, Refinement description
• Version 1.3: 2023-09-06
  Changes: Advisory, Data collection, Database references, Derived calculations, Refinement description