3K5C	Hydrolase Hydrolase Inhibitor	date	Oct 07, 2009
title	Human Bace-1 Complex With Nb-216
authors	J.M.Rondeau
compound		source
Molecule: Beta-Secretase 1 Chain: A, B, C Fragment: 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: Bace, Bace1, Kiaa1149 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21 Tuner (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet24
symmetry	Space Group: P 1 21 1	R_factor 0.200 R_Free 0.220
crystal cell	length a length b length c angle alpha angle beta angle gamma 81.752 103.186 100.144 90.00 104.44 90.00
method	X-Ray Diffraction	resolution	2.12 Å
ligand	0BI BindingDB	enzyme	Hydrolase E.C.3.4.23.46 BRENDA
Gene Ontology	Chain Function Process Component A, C, B
Primary reference	Macrocyclic BACE-1 inhibitors acutely reduce Abeta in brain after po application., Lerchner A, Machauer R, Betschart C, Veenstra S, Rueeger H, McCarthy C, Tintelnot-Blomley M, Jaton AL, Rabe S, Desrayaud S, Enz A, Staufenbiel M, Paganetti P, Rondeau JM, Neumann U, Bioorg Med Chem Lett. 2010 Jan 15;20(2):603-7. Epub 2009 Nov 22. PMID:19963375

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (200 Kb) [Save to disk] Biological Unit Coordinates (3k5c.pdb1.gz) 68 Kb Biological Unit Coordinates (3k5c.pdb2.gz) 67 Kb Biological Unit Coordinates (3k5c.pdb3.gz) 69 Kb LPC: Ligand-Protein Contacts for 3K5C CSU: Contacts of Structural Units for 3K5C Structure Factors (873 Kb) Retrieve 3K5C in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3K5C from S2C, [Save to disk] Re-refined 3k5c structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3K5C 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 3K5C

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 3K5C, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3k5c_B] [3k5c_A] [3k5c] [3k5c_C] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 3K5C

Community annotation for 3K5C at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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