Literature DB >> 29221924

Unraveling co-translational protein folding: Concepts and methods.

Anton A Komar1.   

Abstract

Advances in techniques such as nuclear magnetic resonance spectroscopy, cryo-electron microscopy, and single-molecule and time-resolved fluorescent approaches are transforming our ability to study co-translational protein folding both in vivo in living cells and in vitro in reconstituted cell-free translation systems. These approaches provide comprehensive information on the spatial organization and dynamics of nascent polypeptide chains and the kinetics of co-translational protein folding. This information has led to an improved understanding of the process of protein folding in living cells and should allow remaining key questions in the field, such as what structures are formed within nascent chains during protein synthesis and when, to be answered. Ultimately, studies using these techniques will facilitate development of a unified concept of protein folding, a process that is essential for proper cell function and organism viability. This review describes current methods for analysis of co-translational protein folding with an emphasis on some of the recently developed techniques that allow monitoring of co-translational protein folding in real-time.
Copyright © 2017 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  Co-translational protein folding; Protein folding pathway; Real-time measurements; Reconstituted cell-free translation systems; Ribosome-bound nascent chain complexes (RNCs)

Mesh:

Substances:

Year:  2017        PMID: 29221924      PMCID: PMC5866750          DOI: 10.1016/j.ymeth.2017.11.007

Source DB:  PubMed          Journal:  Methods        ISSN: 1046-2023            Impact factor:   3.608


  124 in total

1.  A newly synthesized, ribosome-bound polypeptide chain adopts conformations dissimilar from early in vitro refolding intermediates.

Authors:  P L Clark; J King
Journal:  J Biol Chem       Date:  2001-04-23       Impact factor: 5.157

2.  N-linked glycans direct the cotranslational folding pathway of influenza hemagglutinin.

Authors:  Robert Daniels; Brad Kurowski; Arthur E Johnson; Daniel N Hebert
Journal:  Mol Cell       Date:  2003-01       Impact factor: 17.970

3.  Three-dimensional structures of translating ribosomes by Cryo-EM.

Authors:  Robert J C Gilbert; Paola Fucini; Sean Connell; Stephen D Fuller; Knud H Nierhaus; Carol V Robinson; Christopher M Dobson; David I Stuart
Journal:  Mol Cell       Date:  2004-04-09       Impact factor: 17.970

4.  Cotranslational protein folding on the ribosome monitored in real time.

Authors:  Wolf Holtkamp; Goran Kokic; Marcus Jäger; Joerg Mittelstaet; Anton A Komar; Marina V Rodnina
Journal:  Science       Date:  2015-11-27       Impact factor: 47.728

5.  In vitro and ribosome-bound folding intermediates of P22 tailspike protein detected with monoclonal antibodies.

Authors:  B Friguet; L Djavadi-Ohaniance; J King; M E Goldberg
Journal:  J Biol Chem       Date:  1994-06-03       Impact factor: 5.157

6.  Atomic force microscopy captures folded ribosome bound nascent chains.

Authors:  Anna Loksztejn; Zackary Scholl; Piotr E Marszalek
Journal:  Chem Commun (Camb)       Date:  2012-10-11       Impact factor: 6.222

Review 7.  Dynamic fluorescence depolarization: a powerful tool to explore protein folding on the ribosome.

Authors:  Sarah A Weinreis; Jamie P Ellis; Silvia Cavagnero
Journal:  Methods       Date:  2010-06-08       Impact factor: 3.608

8.  An efficient mRNA-dependent translation system from reticulocyte lysates.

Authors:  H R Pelham; R J Jackson
Journal:  Eur J Biochem       Date:  1976-08-01

9.  Cotranslational folding promotes beta-helix formation and avoids aggregation in vivo.

Authors:  Michael S Evans; Ian M Sander; Patricia L Clark
Journal:  J Mol Biol       Date:  2008-07-22       Impact factor: 5.469

Review 10.  Progress in the Correlative Atomic Force Microscopy and Optical Microscopy.

Authors:  Lulu Zhou; Mingjun Cai; Ti Tong; Hongda Wang
Journal:  Sensors (Basel)       Date:  2017-04-24       Impact factor: 3.576

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  13 in total

1.  Effect of Protein Structure on Evolution of Cotranslational Folding.

Authors:  Victor Zhao; William M Jacobs; Eugene I Shakhnovich
Journal:  Biophys J       Date:  2020-08-12       Impact factor: 4.033

2.  Multi-layer sequential network analysis improves protein 3D structural classification.

Authors:  Khalique Newaz; Jacob Piland; Patricia L Clark; Scott J Emrich; Jun Li; Tijana Milenković
Journal:  Proteins       Date:  2022-05-02

3.  De novo biosynthesis of a nonnatural cobalt porphyrin cofactor in E. coli and incorporation into hemoproteins.

Authors:  Lydia J Perkins; Brian R Weaver; Andrew R Buller; Judith N Burstyn
Journal:  Proc Natl Acad Sci U S A       Date:  2021-04-20       Impact factor: 11.205

4.  Synonymous but Not Silent: The Codon Usage Code for Gene Expression and Protein Folding.

Authors:  Yi Liu; Qian Yang; Fangzhou Zhao
Journal:  Annu Rev Biochem       Date:  2021-01-13       Impact factor: 23.643

Review 5.  A code within the genetic code: codon usage regulates co-translational protein folding.

Authors:  Yi Liu
Journal:  Cell Commun Signal       Date:  2020-09-09       Impact factor: 5.712

Review 6.  Protein ensembles link genotype to phenotype.

Authors:  Ruth Nussinov; Chung-Jung Tsai; Hyunbum Jang
Journal:  PLoS Comput Biol       Date:  2019-06-20       Impact factor: 4.475

7.  Single-molecule live cell imaging of Rep reveals the dynamic interplay between an accessory replicative helicase and the replisome.

Authors:  Aisha H Syeda; Adam J M Wollman; Alex L Hargreaves; Jamieson A L Howard; Jan-Gert Brüning; Peter McGlynn; Mark C Leake
Journal:  Nucleic Acids Res       Date:  2019-07-09       Impact factor: 16.971

8.  A Single Synonymous Variant (c.354G>A [p.P118P]) in ADAMTS13 Confers Enhanced Specific Activity.

Authors:  Ryan Hunt; Gaya Hettiarachchi; Upendra Katneni; Nancy Hernandez; David Holcomb; Jacob Kames; Redab Alnifaidy; Brian Lin; Nobuko Hamasaki-Katagiri; Aaron Wesley; Tal Kafri; Christina Morris; Laura Bouché; Maria Panico; Tal Schiller; Juan Ibla; Haim Bar; Amra Ismail; Howard Morris; Anton Komar; Chava Kimchi-Sarfaty
Journal:  Int J Mol Sci       Date:  2019-11-15       Impact factor: 5.923

9.  Investigating the Effect of Chain Connectivity on the Folding of a Beta-Sheet Protein On and Off the Ribosome.

Authors:  Andrew P Marsden; Jeffrey J Hollins; Charles O'Neill; Pavel Ryzhov; Sally Higson; Carolina A T F Mendonça; Tristan O Kwan; Lee Gyan Kwa; Annette Steward; Jane Clarke
Journal:  J Mol Biol       Date:  2018-10-23       Impact factor: 5.469

Review 10.  Degradation of proteins by PROTACs and other strategies.

Authors:  Yang Wang; Xueyang Jiang; Feng Feng; Wenyuan Liu; Haopeng Sun
Journal:  Acta Pharm Sin B       Date:  2019-08-13       Impact factor: 11.413

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