Auer2010 - Correlation between lag time and aggregation rate in protein aggregation

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Auer2010 - Correlation between lag time and aggregation rate in protein aggregation

This model is described in the article:

Auer S, Kashchiev D.
Proteins 2010 Aug; 78(11): 2412-2416

Abstract:

Under favorable conditions, many proteins can assemble into macroscopically large aggregates such as the amyloid fibrils that are associated with Alzheimer's, Parkinson's, and other neurological and systemic diseases. The overall process of protein aggregation is characterized by initial lag time during which no detectable aggregation occurs in the solution and by maximal aggregation rate at which the dissolved protein converts into aggregates. In this study, the correlation between the lag time and the maximal rate of protein aggregation is analyzed. It is found that the product of these two quantities depends on a single numerical parameter, the kinetic index of the curve quantifying the time evolution of the fraction of protein aggregated. As this index depends relatively little on the conditions and/or system studied, our finding provides insight into why for many experiments the values of the product of the lag time and the maximal aggregation rate are often equal or quite close to each other. It is shown how the kinetic index is related to a basic kinetic parameter of a recently proposed theory of protein aggregation.

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Format
SBML (L2V4)
Related Publication
  • Insight into the correlation between lag time and aggregation rate in the kinetics of protein aggregation.
  • Auer S, Kashchiev D
  • Proteins , 8/ 2010 , Volume 78 , pages: 2412-2416
  • Centre for Molecular Nanoscience, University of Leeds, Leeds, LS2 9JT, United Kingdom. s.auer@leeds.ac.uk
  • Under favorable conditions, many proteins can assemble into macroscopically large aggregates such as the amyloid fibrils that are associated with Alzheimer's, Parkinson's, and other neurological and systemic diseases. The overall process of protein aggregation is characterized by initial lag time during which no detectable aggregation occurs in the solution and by maximal aggregation rate at which the dissolved protein converts into aggregates. In this study, the correlation between the lag time and the maximal rate of protein aggregation is analyzed. It is found that the product of these two quantities depends on a single numerical parameter, the kinetic index of the curve quantifying the time evolution of the fraction of protein aggregated. As this index depends relatively little on the conditions and/or system studied, our finding provides insight into why for many experiments the values of the product of the lag time and the maximal aggregation rate are often equal or quite close to each other. It is shown how the kinetic index is related to a basic kinetic parameter of a recently proposed theory of protein aggregation.
Contributors
Audald Lloret i Villas

Metadata information

is
BioModels Database MODEL1411100000
BioModels Database BIOMD0000000555
isDescribedBy
PubMed 20602358
hasTaxon
Taxonomy Homo sapiens
isVersionOf
Gene Ontology amyloid fibril formation
hasProperty
Human Disease Ontology Parkinson's disease
Human Disease Ontology Alzheimer's disease
Curation status
Curated
  • Model originally submitted by : Audald Lloret i Villas
  • Submitted: 10-Nov-2014 13:33:38
  • Last Modified: 08-Apr-2016 18:42:51
Revisions
  • Version: 2 public model Download this version
    • Submitted on: 08-Apr-2016 18:42:51
    • Submitted by: Audald Lloret i Villas
    • With comment: Current version of Auer2010 - Correlation between lag time and aggregation rate in protein aggregation
  • Version: 1 public model Download this version
    • Submitted on: 10-Nov-2014 13:33:38
    • Submitted by: Audald Lloret i Villas
    • With comment: Original import of Auer2010 - Correlation between lag time and aggregation rate in protein aggregation
Curator's comment:
(added: 10 Nov 2014, 15:15:48, updated: 10 Nov 2014, 15:15:48)
Figure 1 (upper panel) and Figure 2 (lower panel) have been reproduced here. Figure 1. Analysis of kinetic amyloid fibrils data for 80 hours protein aggregation. Figure 2. Dependence of the parameter a on the kinetic index n in overall aggregation. The simulation was done using Copasi v4.12 (Build 81) and the plots were generated using Gnuplot. The models with simulation settings can be downloaded from the below link: