3DGJ

NNFGAIL segment from Islet Amyloid Polypeptide (IAPP or amylin)

• PDB DOI: https://doi.org/10.2210/pdb3DGJ/pdb

• Classification: PROTEIN FIBRIL
• Mutation(s): No 


• Deposited: 2008-06-13 Released: 2008-07-01 
• Deposition Author(s): Wiltzius, J.J., Sievers, S.A., Sawaya, M.R., Cascio, D., Eisenberg, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.217 
• R-Value Work: 0.160 
• R-Value Observed: 0.166 

Literature

Atomic structure of the cross-beta spine of islet amyloid polypeptide (amylin).

Wiltzius, J.J., Sievers, S.A., Sawaya, M.R., Cascio, D., Popov, D., Riekel, C., Eisenberg, D.

(2008) Protein Sci 17: 1467-1474

• PubMed: 18556473 
• DOI: https://doi.org/10.1110/ps.036509.108
• Primary Citation of Related Structures:  
  3DG1, 3DGJ


• PubMed Abstract: 
  

  Human islet amyloid polypeptide (IAPP or amylin) is a 37-residue hormone found as fibrillar deposits in pancreatic extracts of nearly all type II diabetics. Although the cellular toxicity of IAPP has been established, the structure of the fibrillar form found in these deposits is unknown. Here we have crystallized two segments from IAPP, which themselves form amyloid-like fibrils. The atomic structures of these two segments, NNFGAIL and SSTNVG, were determined, and form the basis of a model for the most commonly observed, full-length IAPP polymorph.

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Organizational Affiliation: 

Howard Hughes Medical Institute, UCLA-DOE Institute for Genomics and Proteomics, Los Angeles, California 90095-1570, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 3-mer - A3 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 0.75 kDa 
• Atom Count: 60 
• Modelled Residue Count: 7 
• Deposited Residue Count: 7 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NNFGAIL peptide	A	7	N/A	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.217 
• R-Value Work: 0.160 
• R-Value Observed: 0.166 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 26.19	α = 90
b = 4.897	β = 90
c = 31.38	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-07-01 
Deposition Author(s): Wiltzius, J.J., Sievers, S.A., Sawaya, M.R., Cascio, D., Eisenberg, D.

Revision History  

• Version 1.0: 2008-07-01
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2024-02-21
  Changes: Data collection, Database references