6FXL | pdb_00006fxl

Structure of Trypanosoma cruzi type B ribose 5-phosphate isomerase (TcRpiB)

• PDB DOI: https://doi.org/10.2210/pdb6FXL/pdb

• Classification: ISOMERASE
• Organism(s): Trypanosoma cruzi strain CL Brener
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-03-09 Released: 2019-05-22 
• Deposition Author(s): Ronin, C., Ciesielski, F., Ciapetti, P.
• Funding Organization(s): European Communitys Seventh Framework Programme

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.96 Å
• R-Value Free: 
  0.184 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.161 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.162 (Depositor) 

Starting Model: experimental

Literature

Structure of Trypanosoma cruzi type B ribose 5-phosphate isomerase (TcRpiB)

Ronin, C., Ciesielski, F., Ciapetti, P.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 79.33 kDa 
• Atom Count: 5,219 
• Modeled Residue Count: 617 
• Deposited Residue Count: 716 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribose 5-phosphate isomerase, putative	A, B, C, D	179	Trypanosoma cruzi strain CL Brener	Mutation(s): 0  Gene Names: Tc00.1047053508601.119
UniProt
Find proteins for Q4DBP9 (Trypanosoma cruzi (strain CL Brener)) Explore Q4DBP9  Go to UniProtKB:  Q4DBP9

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	E [auth A], F [auth A], G [auth A], H [auth B], I [auth B], J [auth B], K [auth B], L [auth B], M [auth C], N [auth C], O [auth D], P [auth D], Q [auth D]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.96 Å
• R-Value Free:  0.184 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.161 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.162 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 171.16	α = 90
b = 175.35	β = 90
c = 93.27	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-05-22 
Deposition Author(s): Ronin, C., Ciesielski, F., Ciapetti, P.

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Funding Organization	Location	Grant Number
European Communitys Seventh Framework Programme	France	602773

Revision History  

• Version 1.0: 2019-05-22
  Type: Initial release
  
• Version 1.1: 2019-06-12
  Changes: Data collection, Database references, Structure summary
• Version 1.2: 2024-01-17
  Changes: Author supporting evidence, Data collection, Database references, Refinement description