Literature DB >> 27889205

Structural Analysis of Multi-component Amyloid Systems by Chemometric SAXS Data Decomposition.

Fátima Herranz-Trillo1, Minna Groenning2, Andreas van Maarschalkerweerd2, Romà Tauler3, Bente Vestergaard4, Pau Bernadó5.   

Abstract

Formation of amyloids is the hallmark of several neurodegenerative pathologies. Structural investigation of these complex transformation processes poses significant experimental challenges due to the co-existence of multiple species. The additive nature of small-angle X-ray scattering (SAXS) data allows for probing the evolution of these mixtures of oligomeric states, but the decomposition of SAXS data into species-specific spectra and relative concentrations is burdened by ambiguity. We present an objective SAXS data decomposition method by adapting the multivariate curve resolution alternating least squares (MCR-ALS) chemometric method. The approach enables rigorous and robust decomposition of synchrotron SAXS data by simultaneously introducing these data in different representations that emphasize molecular changes at different time and structural resolution ranges. The approach has allowed the study of fibrillogenic forms of insulin and the familial mutant E46K of α-synuclein, and is generally applicable to any macromolecular mixture that can be probed by SAXS.
Copyright © 2016 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  amyloids; chemometrics; small-angle X-ray scattering; soluble oligomers; time-dependent oligomerization; α-synuclein

Mesh:

Substances:

Year:  2016        PMID: 27889205     DOI: 10.1016/j.str.2016.10.013

Source DB:  PubMed          Journal:  Structure        ISSN: 0969-2126            Impact factor:   5.006


  8 in total

Review 1.  The role of small-angle scattering in structure-based screening applications.

Authors:  Po-Chia Chen; Janosch Hennig
Journal:  Biophys Rev       Date:  2018-10-10

2.  Structural Analyses of Intrinsically Disordered Proteins by Small-Angle X-Ray Scattering.

Authors:  Amin Sagar; Dmitri Svergun; Pau Bernadó
Journal:  Methods Mol Biol       Date:  2020

3.  Small-angle X-ray scattering experiments of monodisperse intrinsically disordered protein samples close to the solubility limit.

Authors:  Erik W Martin; Jesse B Hopkins; Tanja Mittag
Journal:  Methods Enzymol       Date:  2020-08-04       Impact factor: 1.600

Review 4.  Evolving SAXS versatility: solution X-ray scattering for macromolecular architecture, functional landscapes, and integrative structural biology.

Authors:  Chris A Brosey; John A Tainer
Journal:  Curr Opin Struct Biol       Date:  2019-06-13       Impact factor: 6.809

5.  EFAMIX, a tool to decompose inline chromatography SAXS data from partially overlapping components.

Authors:  Petr V Konarev; Melissa A Graewert; Cy M Jeffries; Masakazu Fukuda; Taisiia A Cheremnykh; Vladimir V Volkov; Dmitri I Svergun
Journal:  Protein Sci       Date:  2021-11-22       Impact factor: 6.725

6.  Molecular and cellular insight into Escherichia coli SslE and its role during biofilm maturation.

Authors:  Paula M Corsini; Sunjun Wang; Saima Rehman; Katherine Fenn; Amin Sagar; Slobodan Sirovica; Leanne Cleaver; Charlotte J C Edwards-Gayle; Giulia Mastroianni; Ben Dorgan; Lee M Sewell; Steven Lynham; Dinu Iuga; W Trent Franks; James Jarvis; Guy H Carpenter; Michael A Curtis; Pau Bernadó; Vidya C Darbari; James A Garnett
Journal:  NPJ Biofilms Microbiomes       Date:  2022-02-25       Impact factor: 7.290

7.  Global fitting of multiple data frames from SEC-SAXS to investigate the structure of next-generation nanodiscs.

Authors:  Abigail Barclay; Nicolai Tidemand Johansen; Frederik Grønbæk Tidemand; Lise Arleth; Martin Cramer Pedersen
Journal:  Acta Crystallogr D Struct Biol       Date:  2022-03-11       Impact factor: 7.652

8.  Assembly of Capsids from Hepatitis B Virus Core Protein Progresses through Highly Populated Intermediates in the Presence and Absence of RNA.

Authors:  Ryan C Oliver; Wojciech Potrzebowski; Seyed Morteza Najibi; Martin Nors Pedersen; Lise Arleth; Najet Mahmoudi; Ingemar André
Journal:  ACS Nano       Date:  2020-08-04       Impact factor: 15.881

  8 in total

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