2F3F Hydrolase date Nov 21, 2005
title Crystal Structure Of The Bace Complex With Bdf488, A Macrocy Inhibitor
authors J.M.Rondeau
compound source
Molecule: Beta-Secretase 1
Chain: A, B, C
Fragment: Catalytic Domain
Synonym: Beta-Site App Cleaving Enzyme 1, Beta-Site Amyloid Protein Cleaving Enzyme 1, Aspartyl Protease 2, Asp 2, Asp2 Membrane-Associated Aspartic Protease 2, Memapsin-2;
Ec: 3.4.23.46
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Bace1, Bace
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet24
symmetry Space Group: P 1 21 1
R_factor 0.190 R_Free 0.220
crystal
cell
length a length b length c angle alpha angle beta angle gamma
82.250 103.202 100.997 90.00 103.03 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand AXF BindingDB enzyme Hydrolase E.C.3.4.23.46 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceStructure-based design and synthesis of macroheterocyclic peptidomimetic inhibitors of the aspartic protease beta-site amyloid precursor protein cleaving enzyme (BACE)., Hanessian S, Yang G, Rondeau JM, Neumann U, Betschart C, Tintelnot-Blomley M, J Med Chem. 2006 Jul 27;49(15):4544-67. PMID:16854060
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (199 Kb) [Save to disk]
  • Biological Unit Coordinates (2f3f.pdb1.gz) 68 Kb
  • Biological Unit Coordinates (2f3f.pdb2.gz) 68 Kb
  • Biological Unit Coordinates (2f3f.pdb3.gz) 68 Kb
  • LPC: Ligand-Protein Contacts for 2F3F
  • CSU: Contacts of Structural Units for 2F3F
  • Likely Quarternary Molecular Structure file(s) for 2F3F
  • Structure Factors (686 Kb)
  • Retrieve 2F3F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2F3F from S2C, [Save to disk]
  • Re-refined 2f3f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2F3F 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 2F3F
  • 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 2F3F, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2f3f_C] [2f3f] [2f3f_A] [2f3f_B]
  • SWISS-PROT database: [P56817]
  • Belongs to the β-amyloid cleaving enzyme (bace1) family according to TCDB.
  • Domain organization of [BACE1_HUMAN] by SWISSPFAM
  • Other resources with information on 2F3F
  • Community annotation for 2F3F at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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