Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | 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: 114.33 kDa 
• Atom Count: 5819 
• Modelled Residue Count: 768 
• Deposited Residue Count: 1000 
• Unique protein chains: 1

5IPF

Crystal structure of Hypoxanthine-guanine phosphoribosyltransferase from Schistosoma mansoni in complex with IMP

• PDB DOI: 10.2210/pdb5IPF/pdb

• Classification: TRANSFERASE
• Organism(s): Schistosoma mansoni
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-03-09 Released: 2017-03-15 
• Deposition Author(s): Romanello, L., Torini, J.R.S., Bird, L.E., Nettleship, J.E., Owens, R.J., DeMarco, R., Pereira, H.M., Brandao-Neto, J.
• Funding Organization(s): Sao Paulo Research Foundation (FAPESP), Brazilian National Council for Scientific and Technological Development (CNPq)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.290 
• R-Value Work: 0.232 
• R-Value Observed: 0.234 

Literature

In vitro and in vivo characterization of the multiple isoforms of Schistosoma mansoni hypoxanthine-guanine phosphoribosyltransferases.

Romanello, L., Zeraik, A.E., de Freitas Fernandes, A., Torini, J.R., Bird, L.E., Nettleship, J.E., Rada, H., Reddivari, Y., Owens, R.J., Serrao, V.H.B., DeMarco, R., Brandao-Neto, J., Pereira, H.D.

(2019) Mol Biochem Parasitol 229: 24-34

• PubMed: 30772423 
• DOI: 10.1016/j.molbiopara.2019.02.005
• Primary Citation of Related Structures:  
  5IPF


• PubMed Abstract: 
  

Schistosoma mansoni, the parasite responsible for schistosomiasis, lacks the "de novo" purine biosynthetic pathway and depends entirely on the purine salvage pathway for the supply of purines. Numerous reports of praziquantel resistance have been described, as well as stimulated efforts to develop new drugs against schistosomiasis. Hypoxanthine-guanine phosphoribosyltransferase (HGPRT) is a key enzyme of the purine salvage pathway. Here, we describe a crystallographic structure of the S. mansoni HPGRT-1 (SmHGPRT), complexed with IMP at a resolution of 2.8 Ǻ. Four substitutions were identified in the region of the active site between SmHGPRT-1 and human HGPRT. We also present data from RNA-Seq and WISH, suggesting that some isoforms of HGPRT might be involved in the process related to sexual maturation and reproduction in worms; furthermore, its enzymatic assays show that the isoform SmHGPRT-3 does not present the same catalytic efficiency as other isoforms. Finally, although other studies have previously suggested this enzyme as a potential antischistosomal chemotherapy target, the kinetics parameters reveal the impossibility to use SmHGPRT as an efficient chemotherapeutic target.

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Organizational Affiliation: 

Instituto de Física de São Carlos, Universidade de São Paulo, 13563-120, São Carlos, SP, Brazil. Electronic address: [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypoxanthine-guanine phosphoribosyltransferase (HGPRT)	A, B, C, D	250	Schistosoma mansoni	Mutation(s): 0  Gene Names: HGPRT, Smp_103560 EC: 2.4.2.8
UniProt
Find proteins for P09383 (Schistosoma mansoni) Explore P09383  Go to UniProtKB:  P09383

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IMP	E [auth A], F [auth B], G [auth C], H [auth D]	INOSINIC ACID C10 H13 N4 O8 P GRSZFWQUAKGDAV-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.290 
• R-Value Work: 0.232 
• R-Value Observed: 0.234 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.953	α = 90
b = 117.957	β = 90
c = 139.366	γ = 90

Software Package:

Software Name	Purpose
xia2	data scaling
PHENIX	refinement
PHASER	phasing
PDB_EXTRACT	data extraction
xia2	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2016-03-09 
• Released Date: 2017-03-15 
Deposition Author(s): Romanello, L., Torini, J.R.S., Bird, L.E., Nettleship, J.E., Owens, R.J., DeMarco, R., Pereira, H.M., Brandao-Neto, J.

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Funding Organization	Location	Grant Number
Sao Paulo Research Foundation (FAPESP)	Brazil	2012/14223-9
Brazilian National Council for Scientific and Technological Development (CNPq)	Brazil	474402/2013-4

Revision History  

• Version 1.0: 2017-03-15
  Type: Initial release
  
• Version 1.1: 2019-03-27
  Changes: Data collection, Database references
• Version 2.0: 2019-04-17
  Changes: Author supporting evidence, Data collection, Polymer sequence
• Version 2.1: 2020-01-01
  Changes: Author supporting evidence