5OLB Hydrolase date Jul 27, 2017
title Crystal Structure Of Autotaxin In Complex With Pf-8380
authors S.Hoerer, A.Lammens
compound source
Molecule: Ectonucleotide Pyrophosphatasephosphodiesterase Member 2;
Chain: A
Synonym: E-Npp 2,Autotaxin,Extracellular Lysophospholipase
Ec: 3.1.4.39
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Gene: Enpp2, Npps2, Pdnp2
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
symmetry Space Group: P 21 21 21
R_factor 0.172 R_Free 0.191
crystal
cell
length a length b length c angle alpha angle beta angle gamma
124.734 100.045 78.778 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.82 Å
ligand 6ZO, BMA, CA, CL, FUC, K, MAN, NA, NAG, PGE, SO4, ZN enzyme Hydrolase E.C.3.1.4.39 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • phosphodiesterase I activity...
  • scavenger receptor activity


  • Primary referenceDiscovery of BI-2545: A Novel Autotaxin Inhibitor That Significantly Reduces LPA Levels in Vivo., Kuttruff CA, Ferrara M, Bretschneider T, Hoerer S, Handschuh S, Nosse B, Romig H, Nicklin P, Roth GJ, ACS Med Chem Lett. 2017 Nov 8;8(12):1252-1257. doi:, 10.1021/acsmedchemlett.7b00312. eCollection 2017 Dec 14. PMID:29259743
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (289 Kb) [Save to disk]
  • Biological Unit Coordinates (5olb.pdb1.gz) 281 Kb
  • LPC: Ligand-Protein Contacts for 5OLB
  • CSU: Contacts of Structural Units for 5OLB
  • Structure Factors (2947 Kb)
  • Retrieve 5OLB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5OLB from S2C, [Save to disk]
  • View 5OLB 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 5OLB
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5olb_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5OLB
  • Community annotation for 5OLB at PDBWiki (http://pdbwiki.org)

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