3DV1	Hydrolase	date	Jul 18, 2008
title	Crystal Structure Of Human Beta-Secretase In Complex With Nv
authors	J.M.Rondeau
compound		source
Molecule: Beta-Secretase 1 Chain: A, B, C Fragment: Catalytic Domain: Residues 48-447 Synonym: Beta-Site App Cleaving Enzyme 1, Beta-Site Amyloid Protein Cleaving Enzyme 1, Membrane-Associated Aspartic Pro Memapsin-2, Aspartyl Protease 2, Asp 2, Asp2; Ec: 3.4.23.46 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_taxid: 9606 Gene: Bace1, Bace Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet24
symmetry	Space Group: P 1 21 1	R_factor 0.207 R_Free 0.241
crystal cell	length a length b length c angle alpha angle beta angle gamma 82.027 102.945 99.916 90.00 103.66 90.00
method	X-Ray Diffraction	resolution	2.10 Å
ligand	AR9 BindingDB	enzyme	Hydrolase E.C.3.4.23.46 BRENDA
Gene Ontology	Chain Function Process Component A, C, B
Primary reference	Macrocyclic peptidomimetic beta-secretase (BACE-1) inhibitors with activity in vivo., Machauer R, Laumen K, Veenstra S, Rondeau JM, Tintelnot-Blomley M, Betschart C, Jaton AL, Desrayaud S, Staufenbiel M, Rabe S, Paganetti P, Neumann U, Bioorg Med Chem Lett. 2009 Mar 1;19(5):1366-70. Epub 2009 Jan 22. PMID:19195887

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (197 Kb) [Save to disk] Biological Unit Coordinates (3dv1.pdb1.gz) 66 Kb Biological Unit Coordinates (3dv1.pdb2.gz) 66 Kb Biological Unit Coordinates (3dv1.pdb3.gz) 67 Kb LPC: Ligand-Protein Contacts for 3DV1 CSU: Contacts of Structural Units for 3DV1 Likely Quarternary Molecular Structure file(s) for 3DV1 Structure Factors (871 Kb) Retrieve 3DV1 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3DV1 from S2C, [Save to disk] Re-refined 3dv1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3DV1 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 3DV1

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 3DV1, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3dv1] [3dv1_C] [3dv1_B] [3dv1_A] 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 3DV1

Community annotation for 3DV1 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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