4JVF The Crystal structure of PDE6D in complex with the inhibitor (s)-5 date
authors Gunther, Z., Papke, B., Ismail, S., Vartak, N., Chandra, A., Hoffmann, M., Hahn, S., Triola, G., Wittinghofer, A., Bastiaens, P., Waldmann, H.
compound source
symmetry
R_factor
R_Free 0.25659
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.40
ligand 17X enzyme
Gene
Ontology
ChainFunctionProcessComponent
B
  • GTPase inhibitor activity


    • Primary referenceSmall molecule inhibition of the KRAS-PDEdelta interaction impairs oncogenic KRAS signalling., Zimmermann G, Papke B, Ismail S, Vartak N, Chandra A, Hoffmann M, Hahn SA, Triola G, Wittinghofer A, Bastiaens PI, Waldmann H, Nature. 2013 May 30;497(7451):638-42. doi: 10.1038/nature12205. Epub 2013 May 22. PMID:23698361
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (31 Kb) [Save to disk]
  • Biological Unit Coordinates (4jvf.pdb1.gz) 26 Kb
  • LPC: Ligand-Protein Contacts for 4JVF
  • CSU: Contacts of Structural Units for 4JVF
  • Structure Factors (64 Kb)
  • Retrieve 4JVF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4JVF from S2C, [Save to disk]
  • Re-refined 4jvf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4JVF 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 4JVF
  • 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 4JVF, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4jvf] [4jvf_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4JVF
  • Community annotation for 4JVF at PDBWiki (http://pdbwiki.org)

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science