2Y3J Protein Fibril date Dec 21, 2010
title Structure Of Segment Aiiglm From The Amyloid-Beta Peptide (A Residues 30-35)
authors J.P.Colletier, A.Laganowsky, M.R.Sawaya, D.Eisenberg
compound source
Molecule: Amyloid Beta A4 Protein
Chain: A, B, C, D, E, F, G, H
Fragment: Residues 701-706
Synonym: Amyloid Beta Peptide, Abpp, Appi, App, Alzheimer D Amyloid Protein, Cerebral Vascular Amyloid Peptide, Cvap, Protease Nexin-II, Pn-II
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Brain
Cell: Neuron
symmetry Space Group: P 1
R_factor 0.22194 R_Free 0.26710
crystal
cell
length a length b length c angle alpha angle beta angle gamma
9.560 15.640 45.230 89.87 90.02 89.91
method X-Ray Diffractionresolution 1.99 Å
subcellular loc. Membrane localization by OPM: Secreted
out side
in side
Primary referenceMolecular basis for amyloid-{beta} polymorphism., Colletier JP, Laganowsky A, Landau M, Zhao M, Soriaga AB, Goldschmidt L, Flot D, Cascio D, Sawaya MR, Eisenberg D, Proc Natl Acad Sci U S A. 2011 Oct 11;108(41):16938-43. Epub 2011 Sep 23. PMID:21949245
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (12 Kb) [Save to disk]
  • Biological Unit Coordinates (2y3j.pdb1.gz) 4 Kb
  • Biological Unit Coordinates (2y3j.pdb2.gz) 4 Kb
  • CSU: Contacts of Structural Units for 2Y3J
  • Structure Factors (11 Kb)
  • Retrieve 2Y3J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Y3J from S2C, [Save to disk]
  • Re-refined 2y3j structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Y3J 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 2Y3J
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2Y3J, from MSDmotif at EBI
  • Fold representative 2y3j from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2y3j_C] [2y3j_H] [2y3j_B] [2y3j_E] [2y3j_D] [2y3j_G] [2y3j] [2y3j_A] [2y3j_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2Y3J
  • Community annotation for 2Y3J at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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