9MJQ | pdb_00009mjq

Crystal structure of Purine nucleoside phosphorylase from Trichomonas vaginalis (inosine bound)

• PDB DOI: https://doi.org/10.2210/pdb9MJQ/pdb

• Classification: TRANSFERASE
• Organism(s): Trichomonas vaginalis G3
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-12-16 Released: 2025-01-22 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/Office of the Director

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free: 
  0.159 (Depositor), 0.165 (DCC) 
• R-Value Work: 
  0.130 (Depositor), 0.143 (DCC) 
• R-Value Observed: 
  0.132 (Depositor) 

Starting Model: in silico

Literature

Crystal structure of Purine nucleoside phosphorylase from Trichomonas vaginalis (inosine bound)

Ung, A.R., Lovell, S., Liu, L., Battaile, K.P.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 27.02 kDa 
• Atom Count: 2,097 
• Modeled Residue Count: 241 
• Deposited Residue Count: 244 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Purine nucleoside phosphorylase, putative	A	244	Trichomonas vaginalis G3	Mutation(s): 0  Gene Names: TVAG_454490
UniProt
Find proteins for A2EU62 (Trichomonas vaginalis (strain ATCC PRA-98 / G3)) Explore A2EU62  Go to UniProtKB:  A2EU62

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NOS (Subject of Investigation/LOI)	B [auth A]	INOSINE C10 H12 N4 O5 UGQMRVRMYYASKQ-KQYNXXCUSA-N
CL	C [auth A], D [auth A], E [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free:  0.159 (Depositor), 0.165 (DCC) 
• R-Value Work:  0.130 (Depositor), 0.143 (DCC) 
• R-Value Observed: 0.132 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M39MJQ

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 92.821	α = 90
b = 92.821	β = 90
c = 130.152	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-01-22 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	75N93022C00036
National Institutes of Health/Office of the Director	United States	S10OD030394

Revision History  

• Version 1.0: 2025-01-22
  Type: Initial release