Literature DB >> 33500517

Breakdown of supersaturation barrier links protein folding to amyloid formation.

Masahiro Noji1,2, Tatsushi Samejima1, Keiichi Yamaguchi1,3, Masatomo So1, Keisuke Yuzu4, Eri Chatani4, Yoko Akazawa-Ogawa5, Yoshihisa Hagihara5, Yasushi Kawata6, Kensuke Ikenaka7, Hideki Mochizuki7, József Kardos8, Daniel E Otzen9, Vittorio Bellotti10,11, Johannes Buchner12, Yuji Goto13,14.   

Abstract

The thermodynamic hypothesis of protein folding, known as the "Anfinsen's dogma" states that the native structure of a protein represents a free energy minimum determined by the amino acid sequence. However, inconsistent with the Anfinsen's dogma, globular proteins can misfold to form amyloid fibrils, which are ordered aggregates associated with diseases such as Alzheimer's and Parkinson's diseases. Here, we present a general concept for the link between folding and misfolding. We tested the accessibility of the amyloid state for various proteins upon heating and agitation. Many of them showed Anfinsen-like reversible unfolding upon heating, but formed amyloid fibrils upon agitation at high temperatures. We show that folding and amyloid formation are separated by the supersaturation barrier of a protein. Its breakdown is required to shift the protein to the amyloid pathway. Thus, the breakdown of supersaturation links the Anfinsen's intramolecular folding universe and the intermolecular misfolding universe.

Entities:  

Year:  2021        PMID: 33500517      PMCID: PMC7838177          DOI: 10.1038/s42003-020-01641-6

Source DB:  PubMed          Journal:  Commun Biol        ISSN: 2399-3642


  63 in total

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Journal:  J Struct Biol       Date:  2003-04       Impact factor: 2.867

2.  Amyloid-like fibrils of ribonuclease A with three-dimensional domain-swapped and native-like structure.

Authors:  Shilpa Sambashivan; Yanshun Liu; Michael R Sawaya; Mari Gingery; David Eisenberg
Journal:  Nature       Date:  2005-09-08       Impact factor: 49.962

3.  Amyloid seeding of transthyretin by ex vivo cardiac fibrils and its inhibition.

Authors:  Lorena Saelices; Kevin Chung; Ji H Lee; Whitaker Cohn; Julian P Whitelegge; Merrill D Benson; David S Eisenberg
Journal:  Proc Natl Acad Sci U S A       Date:  2018-06-28       Impact factor: 11.205

4.  Structure of FUS Protein Fibrils and Its Relevance to Self-Assembly and Phase Separation of Low-Complexity Domains.

Authors:  Dylan T Murray; Masato Kato; Yi Lin; Kent R Thurber; Ivan Hung; Steven L McKnight; Robert Tycko
Journal:  Cell       Date:  2017-09-21       Impact factor: 41.582

5.  Both familial Parkinson's disease mutations accelerate alpha-synuclein aggregation.

Authors:  L Narhi; S J Wood; S Steavenson; Y Jiang; G M Wu; D Anafi; S A Kaufman; F Martin; K Sitney; P Denis; J C Louis; J Wypych; A L Biere; M Citron
Journal:  J Biol Chem       Date:  1999-04-02       Impact factor: 5.157

6.  Low temperature protein refolding suggested by molecular simulation.

Authors:  Daniel J Kozuch; Frank H Stillinger; Pablo G Debenedetti
Journal:  J Chem Phys       Date:  2019-11-14       Impact factor: 3.488

7.  Amyloid fibril proteins and amyloidosis: chemical identification and clinical classification International Society of Amyloidosis 2016 Nomenclature Guidelines.

Authors:  Jean D Sipe; Merrill D Benson; Joel N Buxbaum; Shu-Ichi Ikeda; Giampaolo Merlini; Maria J M Saraiva; Per Westermark
Journal:  Amyloid       Date:  2016-11-24       Impact factor: 7.141

Review 8.  Energetics of protein structure.

Authors:  G I Makhatadze; P L Privalov
Journal:  Adv Protein Chem       Date:  1995

9.  Transthyretin aggregation under partially denaturing conditions is a downhill polymerization.

Authors:  Amy R Hurshman; Joleen T White; Evan T Powers; Jeffery W Kelly
Journal:  Biochemistry       Date:  2004-06-15       Impact factor: 3.162

10.  Widespread aggregation and neurodegenerative diseases are associated with supersaturated proteins.

Authors:  Prajwal Ciryam; Gian Gaetano Tartaglia; Richard I Morimoto; Christopher M Dobson; Michele Vendruscolo
Journal:  Cell Rep       Date:  2013-10-31       Impact factor: 9.423

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  11 in total

1.  Targeting DNA topoisomerases or checkpoint kinases results in an overload of chaperone systems, triggering aggregation of a metastable subproteome.

Authors:  Suzanne L Dekker; Joris C J van der Lienden; Wouter Huiting; Rafaella Mergener; Maiara K Musskopf; Gabriel V Furtado; Emma Gerrits; David Coit; Mehrnoosh Oghbaie; Luciano H Di Stefano; Hein Schepers; Maria A W H van Waarde-Verhagen; Suzanne Couzijn; Lara Barazzuol; John LaCava; Harm H Kampinga; Steven Bergink
Journal:  Elife       Date:  2022-02-24       Impact factor: 8.140

Review 2.  Protein conformation and biomolecular condensates.

Authors:  Diego S Vazquez; Pamela L Toledo; Alejo R Gianotti; Mario R Ermácora
Journal:  Curr Res Struct Biol       Date:  2022-09-14

3.  Inflammasome assembly is required for intracellular formation of β2-microglobulin amyloid fibrils, leading to IL-1β secretion.

Authors:  Naoe Kaneko; Wakako Mori; Mie Kurata; Toshihiro Yamamoto; Tamotsu Zako; Junya Masumoto
Journal:  Int J Immunopathol Pharmacol       Date:  2022 Jan-Dec       Impact factor: 3.298

4.  Ionic heat dissipation in solid-state pores.

Authors:  Makusu Tsutsui; Akihide Arima; Kazumichi Yokota; Yoshinobu Baba; Tomoji Kawai
Journal:  Sci Adv       Date:  2022-02-11       Impact factor: 14.136

5.  Spidroin N-terminal domain forms amyloid-like fibril based hydrogels and provides a protein immobilization platform.

Authors:  Tina Arndt; Kristaps Jaudzems; Olga Shilkova; Juanita Francis; Mathias Johansson; Peter R Laity; Cagla Sahin; Urmimala Chatterjee; Nina Kronqvist; Edgar Barajas-Ledesma; Rakesh Kumar; Gefei Chen; Roger Strömberg; Axel Abelein; Maud Langton; Michael Landreh; Andreas Barth; Chris Holland; Jan Johansson; Anna Rising
Journal:  Nat Commun       Date:  2022-08-15       Impact factor: 17.694

6.  Ultrasound-induced protein restructuring and ordered aggregation to form amyloid crystals.

Authors:  Rachana Pathak; Sukhvir Kaur Bhangu; Gregory J O Martin; Frances Separovic; Muthupandian Ashokkumar
Journal:  Eur Biophys J       Date:  2022-05-16       Impact factor: 2.095

Review 7.  Supersaturation-Dependent Formation of Amyloid Fibrils.

Authors:  Yuji Goto; Masahiro Noji; Kichitaro Nakajima; Keiichi Yamaguchi
Journal:  Molecules       Date:  2022-07-19       Impact factor: 4.927

8.  Direct Analysis of Mitochondrial Damage Caused by Misfolded/Destabilized Proteins.

Authors:  Jannatul Aklima; Sawaros Onchaiya; Tomonori Saotome; Punitha Velmurugan; Taihei Motoichi; Jannatul Naima; Yutaka Kuroda; Yoshihiro Ohta
Journal:  Int J Mol Sci       Date:  2022-08-31       Impact factor: 6.208

9.  Macromolecular crowding and supersaturation protect hemodialysis patients from the onset of dialysis-related amyloidosis.

Authors:  Kichitaro Nakajima; Keiichi Yamaguchi; Masahiro Noji; César Aguirre; Kensuke Ikenaka; Hideki Mochizuki; Lianjie Zhou; Hirotsugu Ogi; Toru Ito; Ichiei Narita; Fumitake Gejyo; Hironobu Naiki; Suguru Yamamoto; Yuji Goto
Journal:  Nat Commun       Date:  2022-10-03       Impact factor: 17.694

10.  Polyphenol-solubility alters amyloid fibril formation of α-synuclein.

Authors:  Masatomo So; Yuto Kimura; Keiichi Yamaguchi; Toshihiko Sugiki; Toshimichi Fujiwara; Cesar Aguirre; Kensuke Ikenaka; Hideki Mochizuki; Yasushi Kawata; Yuji Goto
Journal:  Protein Sci       Date:  2021-06-02       Impact factor: 6.993

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