1FKN Hydrolase Hydrolase Inhibitor date Aug 09, 2000
title Structure Of Beta-Secretase Complexed With Inhibitor
authors L.Hong, G.Koelsch, X.Lin, S.Wu, S.Terzyan, A.Ghosh, X.C.Zhang, J.Ta
compound source
Molecule: Memapsin 2
Chain: A, B
Fragment: Protease Domain
Synonym: Beta-Secretase
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a

Molecule: Inhibitor
Chain: C, D
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 1 21 1
R_factor 0.180 R_Free 0.224
length a length b length c angle alpha angle beta angle gamma
53.652 85.853 109.237 90.00 101.36 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand 1OL enzyme Hydrolase E.C. BRENDA
note 1FKN (Molecule of the Month:pdb79, pdb115)
related structures by homologous chain: 1TQF, 1XN2
A, B

Primary referenceStructure of the protease domain of memapsin 2 (beta-secretase) complexed with inhibitor., Hong L, Koelsch G, Lin X, Wu S, Terzyan S, Ghosh AK, Zhang XC, Tang J, Science 2000 Oct 6;290(5489):150-3. PMID:11021803
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (141 Kb) [Save to disk]
  • Biological Unit Coordinates (1fkn.pdb1.gz) 70 Kb
  • Biological Unit Coordinates (1fkn.pdb2.gz) 69 Kb
  • LPC: Ligand-Protein Contacts for 1FKN
  • CSU: Contacts of Structural Units for 1FKN
  • Likely Quarternary Molecular Structure file(s) for 1FKN
  • Structure Factors (980 Kb)
  • Retrieve 1FKN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1FKN from S2C, [Save to disk]
  • Re-refined 1fkn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1FKN 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 1FKN
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1FKN, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1fkna_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1fknb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1fkn from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1fkn_E] [1fkn_C] [1fkn_F] [1fkn] [1fkn_D] [1fkn_B] [1fkn_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 1FKN
  • Community annotation for 1FKN 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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