4OEX Crystal structure of the PDE5A1 catalytic domain in complex with novel inhibitors date
authors Chen, T.T., Ren, J., Xu, Y.C.
compound source
symmetry
R_factor
R_Free 0.2396
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.14
ligand 5EO, MG, ZN enzyme
note 4OEX supersedes 3TSE
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThermodynamic and structural characterization of halogen bonding in protein-ligand interactions: a case study of PDE5 and its inhibitors., Ren J, He Y, Chen W, Chen T, Wang G, Wang Z, Xu Z, Luo X, Zhu W, Jiang H, Shen J, Xu Y, J Med Chem. 2014 Apr 24;57(8):3588-93. doi: 10.1021/jm5002315. Epub 2014 Apr 15. PMID:24702184
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (57 Kb) [Save to disk]
  • Biological Unit Coordinates (4oex.pdb1.gz) 52 Kb
  • LPC: Ligand-Protein Contacts for 4OEX
  • CSU: Contacts of Structural Units for 4OEX
  • Structure Factors (208 Kb)
  • Retrieve 4OEX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4OEX from S2C, [Save to disk]
  • Re-refined 4oex structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4OEX 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 4OEX
  • 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 4OEX, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4oex] [4oex_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4OEX: [HDc ] by SMART
    • Other resources with information on 4OEX
  • Community annotation for 4OEX at PDBWiki (http://pdbwiki.org)

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