5E61 | pdb_00005e61

Structure of amyloid-forming peptide FGAILSS (residues 23-29) from islet amyloid polypeptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.79 Å
  • R-Value Free: 
    0.218 (Depositor), 0.240 (DCC) 
  • R-Value Work: 
    0.167 (Depositor), 0.180 (DCC) 
  • R-Value Observed: 
    0.172 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 5E61

This is version 1.3 of the entry. See complete history

Literature

Crystal Structures of IAPP Amyloidogenic Segments Reveal a Novel Packing Motif of Out-of-Register Beta Sheets.

Soriaga, A.B.Sangwan, S.Macdonald, R.Sawaya, M.R.Eisenberg, D.

(2016) J Phys Chem B 120: 5810-5816

  • DOI: https://doi.org/10.1021/acs.jpcb.5b09981
  • Primary Citation Related Structures: 
    5E5V, 5E5X, 5E5Z, 5E61

  • PubMed Abstract: 

    Structural studies of amyloidogenic segments by X-ray crystallography have revealed a novel packing motif, consisting of out-of-register β sheets, which may constitute one of the toxic species in aggregation related diseases. Here we sought to determine the presence of such a motif in islet amyloid polypeptide (IAPP), whose amyloidogenic properties are associated with type 2 diabetes. We determined four new crystal structures of segments within IAPP, all forming steric zippers. Most interestingly, one of the segments in the fibril core of IAPP forms an out-of-register steric zipper. Analysis of this structure reveals several commonalities with previously solved out-of-register fibrils. Our results provide additional evidence of out-of-register β sheets as a common structural motif in amyloid aggregates.


  • Organizational Affiliation
    • Howard Hughes Medical Institute, ‡UCLA-DOE Institute of Genomics and Proteomics, §Department of Biological Chemistry, and ∥Department of Chemistry & Biochemistry, UCLA , Los Angeles, California 90095, United States.

Macromolecule Content 

  • Total Structure Weight: 1.39 kDa 
  • Atom Count: 98 
  • Modeled Residue Count: 14 
  • Deposited Residue Count: 14 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
FGAILSS (residues 23-29) from islet amyloid polypeptide
A, B
7Homo sapiensMutation(s): 0 

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.79 Å
  • R-Value Free:  0.218 (Depositor), 0.240 (DCC) 
  • R-Value Work:  0.167 (Depositor), 0.180 (DCC) 
  • R-Value Observed: 0.172 (Depositor) 
Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 8.77α = 88.22
b = 9.5β = 80
c = 24.74γ = 70.34
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-12-16
    Type: Initial release
  • Version 1.1: 2016-01-20
    Changes: Database references
  • Version 1.2: 2016-07-20
    Changes: Database references
  • Version 1.3: 2024-03-06
    Changes: Data collection, Database references, Derived calculations