3WAY Hydrolase Hydrolase Inhibitor date May 09, 2013
title Crystal Structure Of Autotaxin In Complex With 4boa
authors H.Nishimasu, R.Ishitani, O.Nureki
compound source
Molecule: Ectonucleotide Pyrophosphatasephosphodiesterase Member 2;
Chain: A
Synonym: Atx, E-Npp 2, Autotaxin, Extracellular Lysophospho Lysopld;
Ec: 3.1.4.39
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Enpp2
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293s Gnt1-
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcd-Cw
symmetry Space Group: P 1 21 1
R_factor 0.181 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.556 94.524 75.242 90.00 93.98 90.00
method X-Ray Diffractionresolution 1.75 Å
ligand BMA, CA, DWY, EDO, K, MAN, NA, NAG, SCN, ZN enzyme Hydrolase E.C.3.1.4.39 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • phosphodiesterase I activity...
  • scavenger receptor activity


  • Primary referenceScreening and X-ray Crystal Structure-based Optimization of Autotaxin (ENPP2) Inhibitors, Using a Newly Developed Fluorescence Probe., Kawaguchi M, Okabe T, Okudaira S, Nishimasu H, Ishitani R, Kojima H, Nureki O, Aoki J, Nagano T, ACS Chem Biol. 2013 Jun 3. PMID:23688339
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (148 Kb) [Save to disk]
  • Biological Unit Coordinates (3way.pdb1.gz) 140 Kb
  • LPC: Ligand-Protein Contacts for 3WAY
  • CSU: Contacts of Structural Units for 3WAY
  • Structure Factors (1114 Kb)
  • Retrieve 3WAY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3WAY from S2C, [Save to disk]
  • Re-refined 3way structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3WAY 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 3WAY
  • 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 3WAY, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3way] [3way_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3WAY: [Endonuclease_NS] [NUC] [SO ] by SMART
  • Other resources with information on 3WAY
  • Community annotation for 3WAY at PDBWiki (http://pdbwiki.org)

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