4YZU Rapid development of two Factor IXa inhibitors from Hit to Lead date
authors Hruza, A., Reichert, P.
compound source
symmetry
R_factor
R_Free 0.161
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.41
ligand 4K6, CL, NA, NHE enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceRapid development of two factor IXa inhibitors from hit to lead., Parker DL Jr, Walsh S, Li B, Kim E, Sharipour A, Smith C, Chen YH, Berger R, Harper B, Zhang T, Park M, Shu M, Wu J, Xu J, Dewnani S, Sherer EC, Hruza A, Reichert P, Geissler W, Sonatore L, Ellsworth K, Balkovec J, Greenlee W, Wood HB, Bioorg Med Chem Lett. 2015 Jun 1;25(11):2321-5. doi: 10.1016/j.bmcl.2015.04.025. , Epub 2015 Apr 13. PMID:25937013
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (202 Kb) [Save to disk]
  • Biological Unit Coordinates (4yzu.pdb1.gz) 197 Kb
  • LPC: Ligand-Protein Contacts for 4YZU
  • CSU: Contacts of Structural Units for 4YZU
  • Structure Factors (1671 Kb)
  • Retrieve 4YZU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4YZU from S2C, [Save to disk]
  • Re-refined 4yzu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4YZU 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 4YZU
  • 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 4YZU, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4yzu_A] [4yzu_B] [4yzu]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4YZU: [EGF] [Tryp_SPc ] by SMART
    • Other resources with information on 4YZU
  • Community annotation for 4YZU at PDBWiki (http://pdbwiki.org)

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