2A0Y Transferase date Jun 17, 2005
title Structure Of Human Purine Nucleoside Phosphorylase H257d Mut
authors A.S.Murkin, W.Shi, V.L.Schramm
compound source
Molecule: Purine Nucleoside Phosphorylase
Chain: A
Synonym: Inosine Phosphorylase, Pnp
Ec: 2.4.2.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Np, Pnp
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: H 3 2
R_factor 0.243 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
142.467 142.467 166.029 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.28 Å
ligand DIH, SO4 BindingDB enzyme Transferase E.C.2.4.2.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceNeighboring group participation in the transition state of human purine nucleoside phosphorylase., Murkin AS, Birck MR, Rinaldo-Matthis A, Shi W, Taylor EA, Almo SC, Schramm VL, Biochemistry. 2007 May 1;46(17):5038-49. Epub 2007 Apr 4. PMID:17407325
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk]
  • Biological Unit Coordinates (2a0y.pdb1.gz) 135 Kb
  • LPC: Ligand-Protein Contacts for 2A0Y
  • CSU: Contacts of Structural Units for 2A0Y
  • Likely Quarternary Molecular Structure file(s) for 2A0Y
  • Structure Factors (422 Kb)
  • Retrieve 2A0Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2A0Y from S2C, [Save to disk]
  • Re-refined 2a0y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2A0Y in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 2A0Y
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2A0Y, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2a0y_A] [2a0y]
  • SWISS-PROT database: [P00491]
  • Domain organization of [PNPH_HUMAN] by SWISSPFAM
  • Other resources with information on 2A0Y
  • Community annotation for 2A0Y at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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