3IGB Hydrolase date Jul 27, 2009
title Bace-1 With Compound 3
authors A.M.Olland
compound source
Molecule: Beta-Secretase 1
Chain: A
Fragment: Bace-1 Catalytic Domain
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: Bace1, Bace, Kiaa1149
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.193 R_Free 0.247
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.137 104.330 49.551 90.00 94.69 90.00
method X-Ray Diffractionresolution 2.24 Å
ligand 454 BindingDB enzyme Hydrolase E.C.3.4.23.46 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAminoimidazoles as potent and selective human beta-secretase (BACE1) inhibitors., Malamas MS, Erdei J, Gunawan I, Barnes K, Johnson M, Hui Y, Turner J, Hu Y, Wagner E, Fan K, Olland A, Bard J, Robichaud AJ, J Med Chem. 2009 Oct 22;52(20):6314-23. PMID:19757823
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (65 Kb) [Save to disk]
  • Biological Unit Coordinates (3igb.pdb1.gz) 60 Kb
  • LPC: Ligand-Protein Contacts for 3IGB
  • CSU: Contacts of Structural Units for 3IGB
  • Structure Factors (221 Kb)
  • Retrieve 3IGB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3IGB from S2C, [Save to disk]
  • Re-refined 3igb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3IGB 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 3IGB
  • 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 3IGB, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3igb_A] [3igb]
  • 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 3IGB
  • Community annotation for 3IGB 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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