3L5F Hydrolase date Dec 21, 2009
title Structure Of Bace Bound To Sch736201
authors C.Strickland, Z.Zhu
compound source
Molecule: Beta-Secretase 1
Chain: A, B
Synonym: Beta-Site Amyloid Precursor Protein Cleaving Enzym Site App Cleaving Enzyme 1, Membrane-Associated Aspartic Pr Memapsin-2, Aspartyl Protease 2, Asp 2, Asp2;
Ec: 3.4.23.46
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Bace, Bace1, Kiaa1149
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Pet11a
symmetry Space Group: P 21 21 21
R_factor 0.189 R_Free 0.215
crystal
cell
length a length b length c angle alpha angle beta angle gamma
86.306 89.034 130.776 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand BDX, TAR BindingDB enzyme Hydrolase E.C.3.4.23.46 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceDiscovery of Cyclic Acylguanidines as Highly Potent and Selective beta-Site Amyloid Cleaving Enzyme (BACE) Inhibitors: Part I-Inhibitor Design and Validation ( parallel) (1)., Zhu Z, Sun ZY, Ye Y, Voigt J, Strickland C, Smith EM, Cumming J, Wang L, Wong J, Wang YS, Wyss DF, Chen X, Kuvelkar R, Kennedy ME, Favreau L, Parker E, McKittrick BA, Stamford A, Czarniecki M, Greenlee W, Hunter JC, J Med Chem. 2010 Feb 11;53(3):951-65. PMID:20043696
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (149 Kb) [Save to disk]
  • Biological Unit Coordinates (3l5f.pdb1.gz) 75 Kb
  • Biological Unit Coordinates (3l5f.pdb2.gz) 74 Kb
  • LPC: Ligand-Protein Contacts for 3L5F
  • CSU: Contacts of Structural Units for 3L5F
  • Structure Factors (1774 Kb)
  • Retrieve 3L5F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3L5F from S2C, [Save to disk]
  • Re-refined 3l5f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3L5F 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 3L5F
  • 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 3L5F, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3l5f_B] [3l5f] [3l5f_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3L5F
  • Community annotation for 3L5F 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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