Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 127.89 kDa 
• Atom Count: 8564 
• Residue Count: 1072 
• Unique protein chains: 1

1P33

Pteridine reductase from Leishmania tarentolae complex with NADPH and MTX

• DOI: 10.2210/pdb1P33/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Leishmania tarentolae
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2003-04-16 Released: 2003-09-02 
• Deposition Author(s): Zhao, H., Bray, T., Ouellette, M., Zhao, M., Ferre, R.A., Matthews, D., Whiteley, J.M., Varughese, K.I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.86 Å
• R-Value Free: 0.251 
• R-Value Work: 0.213 

Literature

Structure of pteridine reductase (PTR1) from Leishmania tarentolae.

Zhao, H., Bray, T., Ouellette, M., Zhao, M., Ferre, R.A., Matthews, D., Whiteley, J.M., Varughese, K.I.

(2003) Acta Crystallogr D Biol Crystallogr 59: 1539-1544

• PubMed: 12925782 
• DOI: 10.1107/s0907444903013131
• Primary Citation of Related Structures:  
  1P33


• PubMed Abstract: 
  

The protozoan parasites Leishmania utilize a pteridine-reducing enzyme, pteridine reductase (PTR1), to bypass antifolate inhibition. The crystal structure of PTR1 from L. tarentolae has been solved as a binary complex with NADPH at 2.8 A resolution. The structure was solved by molecular-replacement techniques using the recently reported L. major PTR1 structure as a search model. Comparisons of the present structure with the L. major PTR1 allowed us to identify regions of flexibility in the molecule. PTR1 is a member of the growing family of short-chain dehydrogenases (SDR) which share the characteristic Tyr(Xaa)(3)Lys motif in the vicinity of the active site. The functional enzyme is a tetramer and the crystallographic asymmetric unit contains a tetramer with 222 point-group symmetry.

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Organizational Affiliation: 

Department of Molecular and Experimental Medicine, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pteridine reductase 1	A, B, C, D	289	Leishmania tarentolae	Mutation(s): 0  Gene Names: PTR1 OR LTDH, PTR1, LTDH EC: 1.1.1.253 (PDB Primary Data), 1.5.1.33 (UniProt)
Find proteins for P42556 (Leishmania tarentolae) Explore P42556  Go to UniProtKB:  P42556

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NDP	A, B, C, D	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H30 N7 O17 P3 ACFIXJIJDZMPPO-NNYOXOHSSA-N
MTX	A, B, C, D	METHOTREXATE C20 H22 N8 O5 FBOZXECLQNJBKD-ZDUSSCGKSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.86 Å
• R-Value Free: 0.251 
• R-Value Work: 0.213 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 91.301	α = 90
b = 96.103	β = 90
c = 195.545	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
SCALEPACK	data scaling
AMoRE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2003-04-16 
• Released Date: 2003-09-02 
Deposition Author(s): Zhao, H., Bray, T., Ouellette, M., Zhao, M., Ferre, R.A., Matthews, D., Whiteley, J.M., Varughese, K.I.

Revision History 

• Version 1.0: 2003-09-02
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance