3NME Hydrolase date Jun 22, 2010
title Structure Of A Plant Phosphatase
authors C.W.Vander Kooi
compound source
Molecule: Sex4 Glucan Phosphatase
Chain: A, B
Fragment: Unp Residues 90-379
Synonym: Ptpkis1 Protein
Engineered: Yes
Mutation: Yes
Organism_scientific: Arabidopsis Thaliana
Organism_common: Mouse-Ear Cress
Organism_taxid: 3702
Gene: At3g52180
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28
symmetry Space Group: P 21 21 21
R_factor 0.199 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.408 73.943 162.382 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand MSE, PO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis for the glucan phosphatase activity of Starch Excess4., Vander Kooi CW, Taylor AO, Pace RM, Meekins DA, Guo HF, Kim Y, Gentry MS, Proc Natl Acad Sci U S A. 2010 Aug 31;107(35):15379-84. Epub 2010 Aug 2. PMID:20679247
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (199 Kb) [Save to disk]
  • Biological Unit Coordinates (3nme.pdb1.gz) 192 Kb
  • LPC: Ligand-Protein Contacts for 3NME
  • CSU: Contacts of Structural Units for 3NME
  • Structure Factors (414 Kb)
  • Retrieve 3NME in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3NME from S2C, [Save to disk]
  • Re-refined 3nme structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3NME 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 3NME
  • 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 3NME, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3nme_B] [3nme_A] [3nme]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3NME: [PTPc_DSPc ] by SMART
  • Other resources with information on 3NME
  • Community annotation for 3NME 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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