4OC3 X-ray structure of of human glutamate carboxypeptidase II (GCPII) in a complex with CFIBzL, a urea-based inhibitor N~2~-{[(1S)-1-carboxy-2-(furan-2-yl)ethyl]carbamoyl}-N~6~-(4-iodobenzoyl)-L-lysine date
authors Pavlicek, J., Ptacek, J., Cerny, J., Byun, Y., Skultetyova, L., Pomper, M., Lubkowski, J., Barinka, C.
compound source
symmetry
R_factor
R_Free 0.18108
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.79
ligand 2QP, BMA, CA, CL, FUC, MAN, NAG, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural characterization of P1'-diversified urea-based inhibitors of glutamate carboxypeptidase II., Pavlicek J, Ptacek J, Cerny J, Byun Y, Skultetyova L, Pomper MG, Lubkowski J, Barinka C, Bioorg Med Chem Lett. 2014 May 15;24(10):2340-5. doi: 10.1016/j.bmcl.2014.03.066., Epub 2014 Mar 28. PMID:24731280
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (264 Kb) [Save to disk]
  • Biological Unit Coordinates (4oc3.pdb1.gz) 511 Kb
  • LPC: Ligand-Protein Contacts for 4OC3
  • CSU: Contacts of Structural Units for 4OC3
  • Structure Factors (1856 Kb)
  • Retrieve 4OC3 in mmCIF format [Save to disk]
  • Re-refined 4oc3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4OC3 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 4OC3
  • 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 4OC3, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4oc3_A] [4oc3]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4OC3
  • Community annotation for 4OC3 at PDBWiki (http://pdbwiki.org)

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