1W50 Hydrolase date Aug 04, 2004
title Apo Structure Of Bace (Beta Secretase)
authors S.Patel, L.Vuillard, A.Cleasby, C.W.Murray, J.Yon
compound source
Molecule: Beta-Secretase 1
Chain: A
Fragment: Active Protease Domain, Residues 43-453
Synonym: Beta-Site App Cleaving Enzyme 1, Beta-Site Amyloid Precursor Protein Cleaving Enzyme 1, Aspartyl Protease 2, Asp2, Membrane-Associated Aspartic Protease 2, Memapsin-2;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Pet11a
symmetry Space Group: P 61 2 2
R_factor 0.244 R_Free 0.283
length a length b length c angle alpha angle beta angle gamma
103.243 103.243 169.108 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.75 Å
ligand IOD enzyme Hydrolase E.C. BRENDA
related structures by homologous chain: 1TQF

Primary referenceApo and inhibitor complex structures of BACE (beta-secretase)., Patel S, Vuillard L, Cleasby A, Murray CW, Yon J, J Mol Biol. 2004 Oct 15;343(2):407-16. PMID:15451669
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (1w50.pdb1.gz) 67 Kb
  • LPC: Ligand-Protein Contacts for 1W50
  • CSU: Contacts of Structural Units for 1W50
  • Likely Quarternary Molecular Structure file(s) for 1W50
  • Structure Factors (382 Kb)
  • Retrieve 1W50 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1W50 from S2C, [Save to disk]
  • Re-refined 1w50 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1W50 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 1W50
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1W50, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1w50a_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1w50 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1w50_A] [1w50]
  • 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 1W50
  • Community annotation for 1W50 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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