4YO4 Crystal Structure of DAPK1 catalytic domain in complex with the hinge binding fragment phthalazine date
authors Grum-Tokars, V.L., Roy, S.M., Minasov, G., Anderson, W.F., Watterson, D.M.
compound source
symmetry
R_factor
R_Free 0.18499
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.60
ligand 4FT, ACT, CL, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDevelopment of Novel Chemical Probes to Address CNS Protein Kinase Involvement in Synaptic Dysfunction., Watterson DM, Grum-Tokars VL, Roy SM, Schavocky JP, Bradaric BD, Bachstetter AD, Xing B, Dimayuga E, Saeed F, Zhang H, Staniszewski A, Pelletier JC, Minasov G, Anderson WF, Arancio O, Van Eldik LJ, PLoS One. 2013 Jun 26;8(6):e66226. Print 2013. PMID:23840427
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (106 Kb) [Save to disk]
  • Biological Unit Coordinates (4yo4.pdb1.gz) 100 Kb
  • LPC: Ligand-Protein Contacts for 4YO4
  • CSU: Contacts of Structural Units for 4YO4
  • Structure Factors (616 Kb)
  • Retrieve 4YO4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4YO4 from S2C, [Save to disk]
  • Re-refined 4yo4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4YO4 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 4YO4
  • 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 4YO4, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4yo4] [4yo4_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4YO4: [S_TKc ] by SMART
    • Other resources with information on 4YO4
  • Community annotation for 4YO4 at PDBWiki (http://pdbwiki.org)

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