4D9H Crystal structure of the hexameric purine nucleoside phosphorylase from Bacillus subtilis in complex with adenosine date 2012-01-11
authors Giuseppe, P.O., Martins, N.H., Meza, A.N., Murakami, M.T.
compound source
symmetry
R_factor
R_Free 0.1748
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.91
ligand ADN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceInsights into phosphate cooperativity and influence of substrate modifications on binding and catalysis of hexameric purine nucleoside phosphorylases., de Giuseppe PO, Martins NH, Meza AN, Dos Santos CR, Pereira HD, Murakami MT, PLoS One. 2012;7(9):e44282. Epub 2012 Sep 5. PMID:22957058
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (79 Kb) [Save to disk]
  • Biological Unit Coordinates (4d9h.pdb1.gz) 220 Kb
  • LPC: Ligand-Protein Contacts for 4D9H
  • CSU: Contacts of Structural Units for 4D9H
  • Structure Factors (688 Kb)
  • Retrieve 4D9H in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4D9H from S2C, [Save to disk]
  • Re-refined 4d9h structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4D9H 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 4D9H
  • 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 4D9H, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4d9h_A] [4d9h] [4d9h_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4D9H
  • Community annotation for 4D9H at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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