Literature DB >> 31628033

Insight into the Structure of the "Unstructured" Tau Protein.

Konstantin I Popov1, Karl A T Makepeace2, Evgeniy V Petrotchenko3, Nikolay V Dokholyan4, Christoph H Borchers5.   

Abstract

Combining structural proteomics experimental data with computational methods is a powerful tool for protein structure prediction. Here, we apply a recently developed approach for de novo protein structure determination based on the incorporation of short-distance crosslinking data as constraints in discrete molecular dynamics simulations (CL-DMD), for the determination of the conformational ensemble of tau protein in solution. The predicted structures were in agreement with surface modification and long-distance crosslinking data. Tau in solution was found as an ensemble of rather compact globular conformations with distinct topology, inter-residue contacts, and a number of transient secondary-structure elements. Regions important for pathological aggregation consistently were found to contain β strands. The determined structures are compatible with the tau protein in solution being a molten globule at near-ground state with persistent residual structural features which we were able to capture by CL-DMD. The predicted structure may facilitate an understanding of the misfolding and oligomerization pathways of the tau protein.
Copyright © 2019. Published by Elsevier Ltd.

Entities:  

Keywords:  Alzheimer's disease; crosslinking; discrete molecular dynamics; intrinsically disordered proteins; protein structure determination; structural proteomics; tau protein

Mesh:

Substances:

Year:  2019        PMID: 31628033     DOI: 10.1016/j.str.2019.09.003

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


  13 in total

1.  Elevated amyloidoses of human IAPP and amyloid beta by lipopolysaccharide and their mitigation by carbon quantum dots.

Authors:  Kairi Koppel; Huayuan Tang; Ibrahim Javed; Mehrdad Parsa; Monika Mortimer; Thomas P Davis; Sijie Lin; Alan L Chaffee; Feng Ding; Pu Chun Ke
Journal:  Nanoscale       Date:  2020-06-18       Impact factor: 7.790

Review 2.  The structure and phase of tau: from monomer to amyloid filament.

Authors:  Yifan Zeng; Jing Yang; Bailing Zhang; Meng Gao; Zhengding Su; Yongqi Huang
Journal:  Cell Mol Life Sci       Date:  2020-10-19       Impact factor: 9.261

3.  Ligand-induced disorder-to-order transitions characterized by structural proteomics and molecular dynamics simulations.

Authors:  Karl A T Makepeace; Nicholas I Brodie; Konstantin I Popov; Geoff Gudavicius; Christopher J Nelson; Evgeniy V Petrotchenko; Nikolay V Dokholyan; Christoph H Borchers
Journal:  J Proteomics       Date:  2019-11-01       Impact factor: 4.044

4.  Computer Simulations Aimed at Exploring Protein Aggregation and Dissociation.

Authors:  Phuong H Nguyen; Philippe Derreumaux
Journal:  Methods Mol Biol       Date:  2022

Review 5.  The Structure Biology of Tau and Clue for Aggregation Inhibitor Design.

Authors:  Dan Wang; Xianlong Huang; Lu Yan; Luoqi Zhou; Chang Yan; Jinhu Wu; Zhengding Su; Yongqi Huang
Journal:  Protein J       Date:  2021-08-17       Impact factor: 2.371

6.  Structure of prion β-oligomers as determined by short-distance crosslinking constraint-guided discrete molecular dynamics simulations.

Authors:  Jason J Serpa; Konstantin I Popov; Evgeniy V Petrotchenko; Nikolay V Dokholyan; Christoph H Borchers
Journal:  Proteomics       Date:  2021-09-16       Impact factor: 5.393

Review 7.  Experimentally-driven protein structure modeling.

Authors:  Nikolay V Dokholyan
Journal:  J Proteomics       Date:  2020-04-05       Impact factor: 4.044

Review 8.  FRET-based dynamic structural biology: Challenges, perspectives and an appeal for open-science practices.

Authors:  Eitan Lerner; Anders Barth; Jelle Hendrix; Benjamin Ambrose; Victoria Birkedal; Scott C Blanchard; Richard Börner; Hoi Sung Chung; Thorben Cordes; Timothy D Craggs; Ashok A Deniz; Jiajie Diao; Jingyi Fei; Ruben L Gonzalez; Irina V Gopich; Taekjip Ha; Christian A Hanke; Gilad Haran; Nikos S Hatzakis; Sungchul Hohng; Seok-Cheol Hong; Thorsten Hugel; Antonino Ingargiola; Chirlmin Joo; Achillefs N Kapanidis; Harold D Kim; Ted Laurence; Nam Ki Lee; Tae-Hee Lee; Edward A Lemke; Emmanuel Margeat; Jens Michaelis; Xavier Michalet; Sua Myong; Daniel Nettels; Thomas-Otavio Peulen; Evelyn Ploetz; Yair Razvag; Nicole C Robb; Benjamin Schuler; Hamid Soleimaninejad; Chun Tang; Reza Vafabakhsh; Don C Lamb; Claus Am Seidel; Shimon Weiss
Journal:  Elife       Date:  2021-03-29       Impact factor: 8.140

Review 9.  Protein Aggregation Landscape in Neurodegenerative Diseases: Clinical Relevance and Future Applications.

Authors:  Niccolò Candelise; Silvia Scaricamazza; Illari Salvatori; Alberto Ferri; Cristiana Valle; Valeria Manganelli; Tina Garofalo; Maurizio Sorice; Roberta Misasi
Journal:  Int J Mol Sci       Date:  2021-06-02       Impact factor: 5.923

10.  Insight Into Seeded Tau Fibril Growth From Molecular Dynamics Simulation of the Alzheimer's Disease Protofibril Core.

Authors:  Cass Leonard; Christian Phillips; James McCarty
Journal:  Front Mol Biosci       Date:  2021-03-19
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