Local unfolding of Cu, Zn superoxide dismutase monomer determines the morphology of fibrillar aggregates

Feng Ding, Yoshiaki Furukawa, Nobuyuki Nukina, Nikolay V. Dokholyan

Research output: Contribution to journalArticle

55 Citations (Scopus)

Abstract

Aggregation of Cu, Zn superoxide dismutase (SOD1) is often found in amyotrophic lateral sclerosis patients. The fibrillar aggregates formed by wild type and various disease-associated mutants have recently been found to have distinct cores and morphologies. Previous computational and experimental studies of wild-type SOD1 suggest that the apo-monomer, highly aggregation prone, displays substantial local unfolding dynamics. The residual folded structure of locally unfolded apoSOD1 corresponds to peptide segments forming the aggregation core as identified by a combination of proteolysis and mass spectroscopy. Therefore, we hypothesize that the destabilization of apoSOD1 caused by various mutations leads to distinct local unfolding dynamics. The partially unfolded structure, exposing the hydrophobic core and backbone hydrogen bond donors and acceptors, is prone to aggregate. The peptide segments in the residual folded structures form the building block for aggregation, which in turn determines the morphology of the aggregates. To test this hypothesis, we apply a multiscale simulation approach to study the aggregation of three typical SOD1 variants: wild type, G37R, and I149T. Each of these SOD1 variants has distinct peptide segments forming the core structure and features different aggregate morphologies. We perform atomistic molecular dynamics simulations to study the conformational dynamics of apoSOD1 monomer and coarse-grained molecular dynamics simulations to study the aggregation of partially unfolded SOD1 monomers. Our computational studies of monomer local unfolding and the aggregation of different SOD1 variants are consistent with experiments, supporting the hypothesis of the formation of aggregation building blocks via apo-monomer local unfolding as the mechanism of SOD1 fibrillar aggregation.

Original languageEnglish
Pages (from-to)548-560
Number of pages13
JournalJournal of Molecular Biology
Volume421
Issue number4-5
DOIs
Publication statusPublished - 2012 Aug 24

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Molecular Dynamics Simulation
Peptides
Amyotrophic Lateral Sclerosis
Proteolysis
Hydrogen
Mass Spectrometry
Tissue Donors
Mutation
Superoxide Dismutase-1

Keywords

  • aggregation building block
  • fibrillar aggregate
  • molecular dynamics
  • multiscale modeling
  • SOD1 misfolding and aggregation

ASJC Scopus subject areas

  • Molecular Biology

Cite this

Local unfolding of Cu, Zn superoxide dismutase monomer determines the morphology of fibrillar aggregates. / Ding, Feng; Furukawa, Yoshiaki; Nukina, Nobuyuki; Dokholyan, Nikolay V.

In: Journal of Molecular Biology, Vol. 421, No. 4-5, 24.08.2012, p. 548-560.

Research output: Contribution to journalArticle

Ding, Feng ; Furukawa, Yoshiaki ; Nukina, Nobuyuki ; Dokholyan, Nikolay V. / Local unfolding of Cu, Zn superoxide dismutase monomer determines the morphology of fibrillar aggregates. In: Journal of Molecular Biology. 2012 ; Vol. 421, No. 4-5. pp. 548-560.
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