2FDP	Hydrolase	date	Dec 14, 2005
title	Crystal Structure Of Beta-Secretase Complexed With An Amino- Inhibitor
authors	W.Yang, W.Lu, Y.Lu, M.Zhong, J.Sun, A.E.Thomas, J.M.Wilkinson, R.V. M.Lam, M.Randal, X.P.Shi, J.W.Jacobs, R.S.Mcdowell, E.M.Gordon, M.D.Ballinger
compound		source
Molecule: Beta-Secretase 1 Chain: A, B, C Synonym: Beta-Site App Cleaving Enzyme 1, Beta-Site Amyloid Protein Cleaving Enzyme 1, Aspartyl Protease 2, Asp 2, Asp2 Membrane-Associated Aspartic Protease 2, Memapsin-2; Ec: 3.4.23.46 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Bace1 Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid
symmetry	Space Group: P 1 21 1	R_factor 0.225 R_Free 0.254
crystal cell	length a length b length c angle alpha angle beta angle gamma 81.189 102.188 99.530 90.00 103.21 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	FRP BindingDB	enzyme	Hydrolase E.C.3.4.23.46 BRENDA
Gene Ontology	Chain Function Process Component A, C, B
Primary reference	Aminoethylenes: a tetrahedral intermediate isostere yielding potent inhibitors of the aspartyl protease BACE-1., Yang W, Lu W, Lu Y, Zhong M, Sun J, Thomas AE, Wilkinson JM, Fucini RV, Lam M, Randal M, Shi XP, Jacobs JW, McDowell RS, Gordon EM, Ballinger MD, J Med Chem. 2006 Feb 9;49(3):839-42. PMID:16451048

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (183 Kb) [Save to disk] Biological Unit Coordinates (2fdp.pdb1.gz) 63 Kb Biological Unit Coordinates (2fdp.pdb2.gz) 61 Kb Biological Unit Coordinates (2fdp.pdb3.gz) 62 Kb LPC: Ligand-Protein Contacts for 2FDP CSU: Contacts of Structural Units for 2FDP Likely Quarternary Molecular Structure file(s) for 2FDP Structure Factors (369 Kb) Retrieve 2FDP in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2FDP from S2C, [Save to disk] Re-refined 2fdp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2FDP 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 2FDP

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 2FDP, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2fdp] [2fdp_C] [2fdp_A] [2fdp_B] 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 2FDP

Community annotation for 2FDP at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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