2WK3 Hydrolase date Jun 05, 2009
title Crystal Structure Of Human Insulin-Degrading Enzyme In Complex With Amyloid-Beta (1-42)
authors Q.Guo, W.J.Tang
compound source
Molecule: Insulin Degrading Enzyme
Chain: A, B
Synonym: Insulin Protease, Insulysin, Insulinase
Ec: 3.4.24.56
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Pex

Molecule: Beta-Amyloid Protein 42
Chain: C, D
Fragment: Beta-Amyloid Protein 42, Residues 672-713
Synonym: Beta-App42, Amyloid Beta A4 Protein Synonym: Amyloid Beta, Alzheimer Disease Amyloid Protein, Abpp, Appi, App, Prea4, Cerebral Vascular Amyloid Peptide, Cvap,
Protease Nexin-II, Pn-II Synonym: App, Abpp, Alzheimer'S Disease Amyloid Protein, Cerebral Vascular Amyloid Peptide, Cvap, Protease Nexin-II, Pn-II, Appi;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_strain: Bl21(De3)
symmetry Space Group: P 65
R_factor 0.187 R_Free 0.232
crystal
cell
length a length b length c angle alpha angle beta angle gamma
261.628 261.628 90.675 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.59 Å
ligand ZN enzyme Hydrolase E.C.3.4.24.56 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


D, C


Primary referenceMolecular Basis for the Recognition and Cleavages of IGF-II, TGF-alpha, and Amylin by Human Insulin-Degrading Enzyme., Guo Q, Manolopoulou M, Bian Y, Schilling AB, Tang WJ, J Mol Biol. 2009 Nov 5. PMID:19896952
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (329 Kb) [Save to disk]
  • Biological Unit Coordinates (2wk3.pdb1.gz) 162 Kb
  • Biological Unit Coordinates (2wk3.pdb2.gz) 163 Kb
  • LPC: Ligand-Protein Contacts for 2WK3
  • CSU: Contacts of Structural Units for 2WK3
  • Structure Factors (1583 Kb)
  • Retrieve 2WK3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WK3 from S2C, [Save to disk]
  • Re-refined 2wk3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2WK3 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 2WK3
  • 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 2WK3, from MSDmotif at EBI
  • Fold representative 2wk3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wk3_B] [2wk3_C] [2wk3] [2wk3_D] [2wk3_A]
  • SWISS-PROT database: [P05067] [P14735]
  • Belongs to the amyloid -protein peptide (app) family according to TCDB.
  • Domain organization of [A4_HUMAN] [IDE_HUMAN] by SWISSPFAM
  • Other resources with information on 2WK3
  • Community annotation for 2WK3 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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