3V16 Lyase date Dec 09, 2011
title An Intramolecular Pi-Cation Latch In Phosphatidylinositol-Sp Phospholipase C From S.Aureus Controls Substrate Access To Site
authors R.I.Goldstein, J.Cheng, B.Stec, M.F.Roberts
compound source
Molecule: 1-Phosphatidylinositol Phosphodiesterase
Chain: A
Synonym: Phosphatidylinositol Diacylglycerol-Lyase, Phosphatidylinositol-Specific Phospholipase C, Pi-Plc;
Ec: 4.6.1.13
 Organism_scientific: Staphylococcus Aureus Subsp. Aureus
Organism_taxid: 426430
Strain: Newman
symmetry Space Group: P 21 21 21
R_factor 0.156 R_Free 0.213
crystal
cell
length a length b length c angle alpha angle beta angle gamma
104.161 43.607 62.218 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.05 Å
ligand CL, INS enzyme Lyase E.C.4.6.1.13 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure of the S. aureus PI-Specific Phospholipase C Reveals Modulation of Active Site Access by a Titratable pi-Cation Latched Loop., Goldstein R, Cheng J, Stec B, Roberts MF, Biochemistry. 2012 Mar 27;51(12):2579-87. Epub 2012 Mar 16. PMID:22390775
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (57 Kb) [Save to disk]
  • Biological Unit Coordinates (3v16.pdb1.gz) 53 Kb
  • LPC: Ligand-Protein Contacts for 3V16
  • CSU: Contacts of Structural Units for 3V16
  • Structure Factors (449 Kb)
  • Retrieve 3V16 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3V16 from S2C, [Save to disk]
  • Re-refined 3v16 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3V16 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 3V16
  • 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 3V16, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3v16] [3v16_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3V16: [PLCXc ] by SMART
    • Other resources with information on 3V16
  • Community annotation for 3V16 at PDBWiki (http://pdbwiki.org)
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