Literature DB >> 23200186

Bringing single-molecule spectroscopy to macromolecular protein complexes.

Chirlmin Joo1, Mohamed Fareh, V Narry Kim.   

Abstract

Single-molecule fluorescence spectroscopy offers real-time, nanometer-resolution information. Over the past two decades, this emerging single-molecule technique has been rapidly adopted to investigate the structural dynamics and biological functions of proteins. Despite this remarkable achievement, single-molecule fluorescence techniques must be extended to macromolecular protein complexes that are physiologically more relevant for functional studies. In this review, we present recent major breakthroughs for investigating protein complexes within cell extracts using single-molecule fluorescence. We outline the challenges, future prospects and potential applications of these new single-molecule fluorescence techniques in biological and clinical research.
Copyright © 2012 Elsevier Ltd. All rights reserved.

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Year:  2012        PMID: 23200186      PMCID: PMC3558732          DOI: 10.1016/j.tibs.2012.10.005

Source DB:  PubMed          Journal:  Trends Biochem Sci        ISSN: 0968-0004            Impact factor:   13.807


  69 in total

1.  Dynamic association of ORCA with prereplicative complex components regulates DNA replication initiation.

Authors:  Zhen Shen; Arindam Chakraborty; Ankur Jain; Sumanprava Giri; Taekjip Ha; Kannanganattu V Prasanth; Supriya G Prasanth
Journal:  Mol Cell Biol       Date:  2012-05-29       Impact factor: 4.272

2.  Nonblinking and long-lasting single-molecule fluorescence imaging.

Authors:  Ivan Rasnik; Sean A McKinney; Taekjip Ha
Journal:  Nat Methods       Date:  2006-10-01       Impact factor: 28.547

Review 3.  Electronic cameras for low-light microscopy.

Authors:  Ivan Rasnik; Todd French; Ken Jacobson; Keith Berland
Journal:  Methods Cell Biol       Date:  2007       Impact factor: 1.441

4.  Continuous base identification for single-molecule nanopore DNA sequencing.

Authors:  James Clarke; Hai-Chen Wu; Lakmal Jayasinghe; Alpesh Patel; Stuart Reid; Hagan Bayley
Journal:  Nat Nanotechnol       Date:  2009-02-22       Impact factor: 39.213

Review 5.  Solid-state nanopores.

Authors:  Cees Dekker
Journal:  Nat Nanotechnol       Date:  2007-03-04       Impact factor: 39.213

Review 6.  Single-molecule force spectroscopy: optical tweezers, magnetic tweezers and atomic force microscopy.

Authors:  Keir C Neuman; Attila Nagy
Journal:  Nat Methods       Date:  2008-06       Impact factor: 28.547

7.  Single-molecule fluorescence experiments determine protein folding transition path times.

Authors:  Hoi Sung Chung; Kevin McHale; John M Louis; William A Eaton
Journal:  Science       Date:  2012-02-24       Impact factor: 47.728

Review 8.  Counting protein molecules using quantitative fluorescence microscopy.

Authors:  Valerie C Coffman; Jian-Qiu Wu
Journal:  Trends Biochem Sci       Date:  2012-09-02       Impact factor: 13.807

9.  A general approach to break the concentration barrier in single-molecule imaging.

Authors:  Anna B Loveland; Satoshi Habuchi; Johannes C Walter; Antoine M van Oijen
Journal:  Nat Methods       Date:  2012-09-09       Impact factor: 28.547

10.  Glioblastoma microvesicles transport RNA and proteins that promote tumour growth and provide diagnostic biomarkers.

Authors:  Johan Skog; Tom Würdinger; Sjoerd van Rijn; Dimphna H Meijer; Laura Gainche; Miguel Sena-Esteves; William T Curry; Bob S Carter; Anna M Krichevsky; Xandra O Breakefield
Journal:  Nat Cell Biol       Date:  2008-11-16       Impact factor: 28.824

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  12 in total

Review 1.  Diversifying microRNA sequence and function.

Authors:  Stefan L Ameres; Phillip D Zamore
Journal:  Nat Rev Mol Cell Biol       Date:  2013-06-26       Impact factor: 94.444

2.  Evaluation of fluorophores to label SNAP-tag fused proteins for multicolor single-molecule tracking microscopy in live cells.

Authors:  Peter J Bosch; Ivan R Corrêa; Michael H Sonntag; Jenny Ibach; Luc Brunsveld; Johannes S Kanger; Vinod Subramaniam
Journal:  Biophys J       Date:  2014-08-19       Impact factor: 4.033

3.  Oligomerization of the tetramerization domain of p53 probed by two- and three-color single-molecule FRET.

Authors:  Hoi Sung Chung; Fanjie Meng; Jae-Yeol Kim; Kevin McHale; Irina V Gopich; John M Louis
Journal:  Proc Natl Acad Sci U S A       Date:  2017-07-31       Impact factor: 11.205

4.  An in vitro single-molecule assay for eukaryotic cap-dependent translation initiation kinetics.

Authors:  Hongyun Wang; Lexi Sun; Anthony Gaba; Xiaohui Qu
Journal:  Nucleic Acids Res       Date:  2020-01-10       Impact factor: 16.971

5.  Viral suppressors of RNAi employ a rapid screening mode to discriminate viral RNA from cellular small RNA.

Authors:  Mohamed Fareh; Jasper van Lopik; Iason Katechis; Alfred W Bronkhorst; Anna C Haagsma; Ronald P van Rij; Chirlmin Joo
Journal:  Nucleic Acids Res       Date:  2018-04-06       Impact factor: 16.971

6.  Two distinct DNA binding modes guide dual roles of a CRISPR-Cas protein complex.

Authors:  Timothy R Blosser; Luuk Loeff; Edze R Westra; Marnix Vlot; Tim Künne; Małgorzata Sobota; Cees Dekker; Stan J J Brouns; Chirlmin Joo
Journal:  Mol Cell       Date:  2015-03-05       Impact factor: 17.970

7.  AutoStepfinder: A fast and automated step detection method for single-molecule analysis.

Authors:  Luuk Loeff; Jacob W J Kerssemakers; Chirlmin Joo; Cees Dekker
Journal:  Patterns (N Y)       Date:  2021-04-30

8.  Single-molecule dataset (SMD): a generalized storage format for raw and processed single-molecule data.

Authors:  Max Greenfeld; Jan-Willem van de Meent; Dmitri S Pavlichin; Hideo Mabuchi; Chris H Wiggins; Ruben L Gonzalez; Daniel Herschlag
Journal:  BMC Bioinformatics       Date:  2015-01-16       Impact factor: 3.169

9.  Surface passivation for single-molecule protein studies.

Authors:  Stanley D Chandradoss; Anna C Haagsma; Young Kwang Lee; Jae-Ho Hwang; Jwa-Min Nam; Chirlmin Joo
Journal:  J Vis Exp       Date:  2014-04-24       Impact factor: 1.355

Review 10.  Making connections--strategies for single molecule fluorescence biophysics.

Authors:  Dina Grohmann; Finn Werner; Philip Tinnefeld
Journal:  Curr Opin Chem Biol       Date:  2013-06-13       Impact factor: 8.822

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