3TPJ Hydrolase date Sep 08, 2011
title Apo Structure Of Bace1
authors Y.C.Xu, M.J.Li, H.Greenblatt, T.T.Chen, I.Silman, J.L.Sussman
compound source
Molecule: Beta-Secretase 1
Chain: A
Fragment: Unp Residues 43-454
Synonym: Aspartyl Protease 2, Asp2, Asp 2, Beta-Site Amyloi Precursor Protein Cleaving Enzyme 1, Beta-Site App Cleaving Memapsin-2, Membrane-Associated Aspartic Protease 2;
Ec: 3.4.23.46
Engineered: Yes
Mutation: 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: Plasmid
Expression_system_plasmid: Pet28a
symmetry Space Group: C 2 2 21
R_factor 0.177 R_Free 0.196
crystal
cell
length a length b length c angle alpha angle beta angle gamma
104.428 128.690 76.662 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.61 Å
ligand CL, SO4, URE enzyme Hydrolase E.C.3.4.23.46 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceFlexibility of the flap in the active site of BACE1 as revealed by crystal structures and molecular dynamics simulations., Xu Y, Li MJ, Greenblatt H, Chen W, Paz A, Dym O, Peleg Y, Chen T, Shen X, He J, Jiang H, Silman I, Sussman JL, Acta Crystallogr D Biol Crystallogr. 2012 Jan;68(Pt 1):13-25. Epub 2011 Dec 9. PMID:22194329
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (74 Kb) [Save to disk]
  • Biological Unit Coordinates (3tpj.pdb1.gz) 68 Kb
  • LPC: Ligand-Protein Contacts for 3TPJ
  • CSU: Contacts of Structural Units for 3TPJ
  • Structure Factors (1026 Kb)
  • Retrieve 3TPJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3TPJ from S2C, [Save to disk]
  • Re-refined 3tpj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3TPJ 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 3TPJ
  • 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 3TPJ, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3tpj_A] [3tpj]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3TPJ
  • Community annotation for 3TPJ at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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