3PDF Hydrolase Hydrolase Inhibitor date Oct 22, 2010
title Discovery Of Novel Cyanamide-Based Inhibitors Of Cathepsin C
authors B.Zhao, D.Laine
compound source
Molecule: Dipeptidyl Peptidase 1
Chain: A
Synonym: Cathepsin C
Ec: 3.4.14.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ctsc, Cppi
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029
Expression_system_cell: Cho-Lec Cell
symmetry Space Group: I 2 2 2
R_factor 0.189 R_Free 0.210
crystal
cell
length a length b length c angle alpha angle beta angle gamma
85.084 88.784 114.554 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand CL, LXV, NAG enzyme Hydrolase E.C.3.4.14.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • peptidase activator activity...
  • COPII vesicle coating

  • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (3pdf.pdb1.gz) 241 Kb
  • LPC: Ligand-Protein Contacts for 3PDF
  • CSU: Contacts of Structural Units for 3PDF
  • Structure Factors (561 Kb)
  • Retrieve 3PDF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3PDF from S2C, [Save to disk]
  • Re-refined 3pdf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3PDF 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 3PDF
  • 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 3PDF, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3pdf_A] [3pdf]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3PDF: [Pept_C1 ] by SMART
  • Other resources with information on 3PDF
  • Community annotation for 3PDF at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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