3UDN Hydrolase Hydrolase Inhibitor date Oct 28, 2011
title Crystal Structure Of Bace With Compound 9
authors I.V.Efremov, F.F.Vajdos, K.Borzilleri, S.Capetta, P.Dorff, J.Dutr M.Mansour, C.Oborski, T.O'Connell, T.J.O'Sullivan, J.Pandit, H.W J.Withka
compound source
Molecule: Beta-Secretase 1
Chain: A
Fragment: Unp Residues 58-453
Synonym: Bace, Aspartyl Protease 2, Asp2, Asp 2, Beta-Site Precursor Protein Cleaving Enzyme 1, Beta-Site App Cleaving Memapsin-2, Membrane-Associated Aspartic Protease 2;
Ec: 3.4.23.46
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Bace1, Bace, Kiaa1149
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
symmetry Space Group: C 2 2 21
R_factor 0.189 R_Free 0.288
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.432 103.397 98.548 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.19 Å
ligand 09B, EDO, PEG, ZN BindingDB enzyme Hydrolase E.C.3.4.23.46 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDiscovery and Optimization of a Novel Spiro-pyrrolidine Inhibitors of beta-Secretase (BACE1) Through Fragment Based Drug Design., Efremov IV, Vajdos FF, Borzilleri K, Capetta S, Dorff PH, Dutra JK, Mansour M, Chen H, Goldstein SW, Noell S, Oborski CE, O'Connell TN, O'Sullivan TJ, Pandit J, Wang H, Wei B, Withka JM, McColl A, J Med Chem. 2012 Apr 2. PMID:22468999
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (75 Kb) [Save to disk]
  • Biological Unit Coordinates (3udn.pdb1.gz) 70 Kb
  • LPC: Ligand-Protein Contacts for 3UDN
  • CSU: Contacts of Structural Units for 3UDN
  • Structure Factors (292 Kb)
  • Retrieve 3UDN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3UDN from S2C, [Save to disk]
  • Re-refined 3udn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3UDN 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 3UDN
  • 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 3UDN, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3udn_A] [3udn]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3UDN
  • Community annotation for 3UDN at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science