3SCZ

Combining crystallographic, thermodynamic, and molecular dynamics studies of Mycobacterium tuberculosis purine nucleoside phosphorylase

• PDB DOI: https://doi.org/10.2210/pdb3SCZ/pdb

• Classification: TRANSFERASE
• Organism(s): Mycobacterium tuberculosis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-06-08 Released: 2012-06-20 
• Deposition Author(s): de Azevedo Jr., W.F., Caceres, R.A., Timmers, L.F.S.M., Ducati, R.G., Rosado, L.A., Basso, L.A., Santos, D.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.228 
• R-Value Work: 0.174 
• R-Value Observed: 0.176 

Literature

Combining crystallographic, thermodynamic, and molecular dynamics studies of Mycobacterium tuberculosis purine nucleoside phosphorylase

de Azevedo Jr., W.F.

To be published.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 55.47 kDa 
• Atom Count: 4,101 
• Modelled Residue Count: 525 
• Deposited Residue Count: 536 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Purine nucleoside phosphorylase	A, B	268	Mycobacterium tuberculosis	Mutation(s): 0  Gene Names: punA, deoD, Rv3307, MT3406, MTV016.06 EC: 2.4.2.1
UniProt
Find proteins for P9WP01 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WP01  Go to UniProtKB:  P9WP01

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HPA	C [auth A], D [auth B]	HYPOXANTHINE C5 H4 N4 O FDGQSTZJBFJUBT-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.228 
• R-Value Work: 0.174 
• R-Value Observed: 0.176 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 115.59	α = 90
b = 115.59	β = 90
c = 86.3	γ = 120

Software Package:

Software Name	Purpose
MAR345dtb	data collection
AMoRE	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-06-20 
Deposition Author(s): de Azevedo Jr., W.F., Caceres, R.A., Timmers, L.F.S.M., Ducati, R.G., Rosado, L.A., Basso, L.A., Santos, D.S.

Revision History  

• Version 1.0: 2012-06-20
  Type: Initial release
  
• Version 1.1: 2024-02-28
  Changes: Data collection, Database references, Derived calculations