2P3X Oxidoreductase date Mar 09, 2007
title Crystal Structure Of Grenache (Vitis Vinifera) Polyphenol Ox
authors J.P.Reyes Grajeda, V.M.Virador, A.Blanco-Labra, E.Mendiola-Olay G.M.Smith, A.Moreno, J.R.Whitaker
compound source
Molecule: Polyphenol Oxidase, Chloroplast
Chain: A
Fragment: Polyphenol Oxidase
Synonym: Ppo, Catechol Oxidase
Ec: 1.10.3.1
Organism_scientific: Vitis Vinifera
Organism_taxid: 29760
Other_details: Grape Berries
symmetry Space Group: C 2 2 21
R_factor 0.201 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
60.030 120.770 140.800 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand C2O enzyme Oxidoreductase E.C.1.10.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCloning, sequencing, purification, and crystal structure of Grenache (Vitis vinifera) polyphenol oxidase., Virador VM, Reyes Grajeda JP, Blanco-Labra A, Mendiola-Olaya E, Smith GM, Moreno A, Whitaker JR, J Agric Food Chem. 2010 Jan 27;58(2):1189-201. PMID:20039636
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (62 Kb) [Save to disk]
  • Biological Unit Coordinates (2p3x.pdb1.gz) 57 Kb
  • LPC: Ligand-Protein Contacts for 2P3X
  • CSU: Contacts of Structural Units for 2P3X
  • Likely Quarternary Molecular Structure file(s) for 2P3X
  • Structure Factors (395 Kb)
  • Retrieve 2P3X in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2P3X from S2C, [Save to disk]
  • Re-refined 2p3x structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2P3X 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 2P3X
  • 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 2P3X, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2p3x_A] [2p3x]
  • SWISS-PROT database: [P43311]
  • Domain organization of [PPO_VITVI] by SWISSPFAM
  • Other resources with information on 2P3X
  • Community annotation for 2P3X 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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