1ULA

APPLICATION OF CRYSTALLOGRAPHIC AND MODELING METHODS IN THE DESIGN OF PURINE NUCLEOSIDE PHOSPHORYLASE INHIBITORS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Observed: 0.202 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Application of crystallographic and modeling methods in the design of purine nucleoside phosphorylase inhibitors.

Ealick, S.E.Babu, Y.S.Bugg, C.E.Erion, M.D.Guida, W.C.Montgomery, J.A.Secrist 3rd., J.A.

(1991) Proc Natl Acad Sci U S A 88: 11540-11544

  • DOI: 10.1073/pnas.88.24.11540
  • Primary Citation of Related Structures:  
    1ULB, 1ULA

  • PubMed Abstract: 
  • Competitive inhibitors of the salvage pathway enzyme purine-nucleoside phosphorylase (purine-nucleoside:orthophosphate ribosyltransferase, EC 2.4.2.1) have been designed by using the three-dimensional structure of the enzyme as determined by x-ray crystallography ...

    Competitive inhibitors of the salvage pathway enzyme purine-nucleoside phosphorylase (purine-nucleoside:orthophosphate ribosyltransferase, EC 2.4.2.1) have been designed by using the three-dimensional structure of the enzyme as determined by x-ray crystallography. The process was an iterative one that utilized interactive computer graphics, Monte Carlo-based conformational searching, energy minimization, and x-ray crystallography. The proposed compounds were synthesized and tested by an in vitro assay. Among the compounds designed and synthesized are the most potent competitive inhibitors of purine nucleoside phosphorylase thus far reported.


    Related Citations: 
    • Three-Dimensional Structure of Human Erythrocytic Purine Nucleoside Phosphorylase at 3.2 Angstroms Resolution
      Ealick, S.E., Rule, S.A., Carter, D.C., Greenhough, T.J., Babu, Y.S., Cook, W.J., Habash, J., Helliwell, J.R., Stoeckler, J.D., Parksjunior, R.E., Chen, S.-F., Bugg, C.E.
      (1990) J Biol Chem 265: 1812
    • Crystallization and Preliminary X-Ray Investigation of Human Erythrocyte Purine Nucleoside Phosphorylase
      Cook, W.J., Ealick, S.E., Bugg, C.E., Stoeckler, J.D., Parksjunior, R.E.
      (1981) J Biol Chem 256: 4079

    Organizational Affiliation

    University of Alabama, Birmingham 35294.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PURINE NUCLEOSIDE PHOSPHORYLASEA289Homo sapiensMutation(s): 0 
Gene Names: PNPNP
EC: 2.4.2.1
UniProt & NIH Common Fund Data Resources
Find proteins for P00491 (Homo sapiens)
Explore P00491 
Go to UniProtKB:  P00491
PHAROS:  P00491
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download Ideal Coordinates CCD File 
B [auth A], C [auth A]SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Observed: 0.202 
  • Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 142.9α = 90
b = 142.9β = 90
c = 165.2γ = 120
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1993-01-15
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance