3B69

T cruzi Trans-sialidase complex with benzoylated NANA derivative

• PDB DOI: https://doi.org/10.2210/pdb3B69/pdb

• Classification: HYDROLASE
• Organism(s): Trypanosoma cruzi
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2007-10-28 Released: 2008-05-13 
• Deposition Author(s): Buschiazzo, A.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.67 Å
• R-Value Free: 0.183 
• R-Value Work: 0.147 
• R-Value Observed: 0.147 

Starting Model: experimental

Literature

A new generation of specific Trypanosoma cruzi trans-sialidase inhibitors.

Buchini, S., Buschiazzo, A., Withers, S.G.

(2008) Angew Chem Int Ed Engl 47: 2700-2703

• PubMed: 18300214 
• DOI: https://doi.org/10.1002/anie.200705435
• Primary Citation of Related Structures:  
  3B69

---

Organizational Affiliation: 

Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, British Columbia, V6T 1Z1, Canada.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 72.09 kDa 
• Atom Count: 5,321 
• Modelled Residue Count: 626 
• Deposited Residue Count: 648 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Trans-sialidase	A	648	Trypanosoma cruzi	Mutation(s): 7  EC: 3.2.1.18
UniProt
Find proteins for Q26964 (Trypanosoma cruzi) Explore Q26964  Go to UniProtKB:  Q26964

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BFN	C [auth A]	5-acetamido-9-(benzoylamino)-3,5,9-trideoxy-3-fluoro-D-erythro-alpha-L-manno-non-2-ulopyranosonic acid C18 H23 F N2 O9 MROQLLHLBMWCPR-LQUZZVICSA-N
EPE	D [auth A]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N
CL	B [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.67 Å
• R-Value Free: 0.183 
• R-Value Work: 0.147 
• R-Value Observed: 0.147 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.43	α = 90
b = 129.2	β = 107.53
c = 54.44	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing
CNS	refinement
PDB_EXTRACT	data extraction
MAR345dtb	data collection

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-05-13 
Deposition Author(s): Buschiazzo, A.

Revision History  

• Version 1.0: 2008-05-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Database references, Derived calculations, Structure summary
• Version 2.1: 2021-10-20
  Changes: Database references, Structure summary
• Version 2.2: 2023-08-30
  Changes: Data collection, Refinement description