Exploring the sequence determinants of amyloid structure using position-specific scoring matrices

Maurer-Stroh, Sebastian, Debulpaep, Maja, Kuemmerer, Nico, de la Paz, Manuela Lopez, Martins, Ivo Cristiano, Reumers, Joke, Morris, Kyle L, Copland, Alastair, Serpell, Louise, Serrano, Luis, Schymkowitz, Joost W H and Rousseau, Frederic (2010) Exploring the sequence determinants of amyloid structure using position-specific scoring matrices. Nature Methods, 7 (3). 237-U109. ISSN 1548-7091

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Abstract

Protein aggregation results in beta-sheet-like assemblies that adopt either a variety of amorphous morphologies or ordered amyloid-like structures. These differences in structure also reflect biological differences; amyloid and amorphous beta-sheet aggregates have different chaperone affinities, accumulate in different cellular locations and are degraded by different mechanisms. Further, amyloid function depends entirely on a high intrinsic degree of order. Here we experimentally explored the sequence space of amyloid hexapeptides and used the derived data to build Waltz, a web-based tool that uses a position-specific scoring matrix to determine amyloid-forming sequences. Waltz allows users to identify and better distinguish between amyloid sequences and amorphous beta-sheet aggregates and allowed us to identify amyloid-forming regions in functional amyloids.

Item Type: Article
Schools and Departments: School of Life Sciences > Biochemistry
Subjects: Q Science
Depositing User: Kyle Morris
Date Deposited: 06 Feb 2012 20:05
Last Modified: 26 Jun 2013 10:51
URI: http://sro.sussex.ac.uk/id/eprint/24017
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