1IYT Protein Binding date Sep 06, 2002
title Solution Structure Of The Alzheimer'S Disease Amyloid Beta- Peptide (1-42)
authors O.Crescenzi, S.Tomaselli, R.Guerrini, S.Salvadori, A.M.D'Ursi, P.A.Temussi, D.Picone
compound source
Molecule: Alzheimer'S Disease Amyloid
Chain: A
Fragment: Beta-Peptide
Synonym: Alzheimer'S Disease Amyloid A4 Protein
Engineered: Yes
 Synthetic: Yes
Other_details: The Peptide Was Prepared By Solid-Phase Synthesis. The Sequence Of The Peptide Is Naturally Found In Homo Sapiens (Human).
methodSolution NMR
note 1IYT (Molecule of the Month:pdb79)
related structures by homologous chain: 1BA6
Primary referenceSolution structure of the Alzheimer amyloid beta-peptide (1-42) in an apolar microenvironment. Similarity with a virus fusion domain., Crescenzi O, Tomaselli S, Guerrini R, Salvadori S, D'Ursi AM, Temussi PA, Picone D, Eur J Biochem 2002 Nov;269(22):5642-8. PMID:12423364
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (110 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 1IYT
  • Retrieve 1IYT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1IYT from S2C, [Save to disk]
    • View 1IYT 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.
  • On AstexViewer, from MSD-EBI (viewer documentation).
  • On RasMol (Install RasMol freeware) Here's help on how to use RasMol.
    • Visual 3D analysis of 1IYT
  • 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 1IYT, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1iyta_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1iyt 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: [1iyt_A]
  • SWISS-PROT database: [P05067]
  • Belongs to the amyloid -protein peptide (app) family according to TCDB.
  • Domain organization of [A4_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 1IYT with the sequences similar proteins can be viewed for 1IYT's classification [A4_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [A4_HUMAN] at ProtoMap. Click on the Cluster number.
    • Other resources with information on 1IYT
  • Community annotation for 1IYT at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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