Literature DB >> 23000031

Red fluorescent proteins: chromophore formation and cellular applications.

Atsushi Miyawaki1, Daria M Shcherbakova, Vladislav V Verkhusha.   

Abstract

In the last decade, a number of red fluorescent proteins (RFPs) that emit orange, red, and far-red fluorescence have been isolated from anthozoans (corals), and developed through directed molecular evolution. An attractive property possessed by some RFPs is that their red fluorescence can be turned on or modulated by illumination at specific wavelengths. Recent progress in the development of RFPs has been accompanied with detailed studies of chromophore chemistry. A thorough understanding of the molecular mechanisms involved in the post-translational modifications of red chromophores would enable scientists to design RFPs with the desired properties to advance imaging applications. This article provides a broad perspective on the chemistry and applications of RFPs.
Copyright © 2012 Elsevier Ltd. All rights reserved.

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Year:  2012        PMID: 23000031      PMCID: PMC3737244          DOI: 10.1016/j.sbi.2012.09.002

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  59 in total

1.  The structure of the chromophore within DsRed, a red fluorescent protein from coral.

Authors:  L A Gross; G S Baird; R C Hoffman; K K Baldridge; R Y Tsien
Journal:  Proc Natl Acad Sci U S A       Date:  2000-10-24       Impact factor: 11.205

2.  Diversity and evolution of the green fluorescent protein family.

Authors:  Y A Labas; N G Gurskaya; Y G Yanushevich; A F Fradkov; K A Lukyanov; S A Lukyanov; M V Matz
Journal:  Proc Natl Acad Sci U S A       Date:  2002-04-02       Impact factor: 11.205

3.  An optical marker based on the UV-induced green-to-red photoconversion of a fluorescent protein.

Authors:  Ryoko Ando; Hiroshi Hama; Miki Yamamoto-Hino; Hideaki Mizuno; Atsushi Miyawaki
Journal:  Proc Natl Acad Sci U S A       Date:  2002-09-23       Impact factor: 11.205

4.  Expanded dynamic range of fluorescent indicators for Ca(2+) by circularly permuted yellow fluorescent proteins.

Authors:  Takeharu Nagai; Shuichi Yamada; Takashi Tominaga; Michinori Ichikawa; Atsushi Miyawaki
Journal:  Proc Natl Acad Sci U S A       Date:  2004-07-09       Impact factor: 11.205

5.  Photoconversion of the chromophore of a fluorescent protein from Dendronephthya sp.

Authors:  A A Pakhomov; N Yu Martynova; N G Gurskaya; T A Balashova; V I Martynov
Journal:  Biochemistry (Mosc)       Date:  2004-08       Impact factor: 2.487

6.  Two-photon dual-color imaging using fluorescent proteins.

Authors:  Hiroyuki Kawano; Takako Kogure; Yukiko Abe; Hideaki Mizuno; Atsushi Miyawaki
Journal:  Nat Methods       Date:  2008-05       Impact factor: 28.547

7.  The first mutant of the Aequorea victoria green fluorescent protein that forms a red chromophore.

Authors:  Alexander S Mishin; Fedor V Subach; Ilia V Yampolsky; William King; Konstantin A Lukyanov; Vladislav V Verkhusha
Journal:  Biochemistry       Date:  2008-03-27       Impact factor: 3.162

8.  Monomeric red fluorescent proteins with a large Stokes shift.

Authors:  Kiryl D Piatkevich; James Hulit; Oksana M Subach; Bin Wu; Arian Abdulla; Jeffrey E Segall; Vladislav V Verkhusha
Journal:  Proc Natl Acad Sci U S A       Date:  2010-03-08       Impact factor: 11.205

9.  Crystallographic evidence for water-assisted photo-induced peptide cleavage in the stony coral fluorescent protein Kaede.

Authors:  Ikuko Hayashi; Hideaki Mizuno; Kit I Tong; Toshiaki Furuta; Fujie Tanaka; Masato Yoshimura; Atsushi Miyawaki; Mitsuhiko Ikura
Journal:  J Mol Biol       Date:  2007-06-19       Impact factor: 5.469

10.  Photo-induced peptide cleavage in the green-to-red conversion of a fluorescent protein.

Authors:  Hideaki Mizuno; Tapas Kumar Mal; Kit I Tong; Ryoko Ando; Toshiaki Furuta; Mitsuhiko Ikura; Atsushi Miyawaki
Journal:  Mol Cell       Date:  2003-10       Impact factor: 17.970

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  27 in total

Review 1.  Super-resolution localization microscopy with photoactivatable fluorescent marker proteins.

Authors:  Per Niklas Hedde; G Ulrich Nienhaus
Journal:  Protoplasma       Date:  2013-10-27       Impact factor: 3.356

2.  Reversibly switchable fluorescence microscopy with enhanced resolution and image contrast.

Authors:  Junjie Yao; Daria M Shcherbakova; Chiye Li; Arie Krumholz; Ramon A Lorca; Erin Reinl; Sarah K England; Vladislav V Verkhusha; Lihong V Wang
Journal:  J Biomed Opt       Date:  2014-08       Impact factor: 3.170

Review 3.  Genetically encoded molecular probes to visualize and perturb signaling dynamics in living biological systems.

Authors:  Vedangi Sample; Sohum Mehta; Jin Zhang
Journal:  J Cell Sci       Date:  2014-03-15       Impact factor: 5.285

4.  Multiparameter screening method for developing optimized red-fluorescent proteins.

Authors:  Daphne S Bindels; Marten Postma; Lindsay Haarbosch; Laura van Weeren; Theodorus W J Gadella
Journal:  Nat Protoc       Date:  2020-01-15       Impact factor: 13.491

5.  Characterization of a spectrally diverse set of fluorescent proteins as FRET acceptors for mTurquoise2.

Authors:  Marieke Mastop; Daphne S Bindels; Nathan C Shaner; Marten Postma; Theodorus W J Gadella; Joachim Goedhart
Journal:  Sci Rep       Date:  2017-09-20       Impact factor: 4.379

6.  Optically modulatable blue fluorescent proteins.

Authors:  Amy E Jablonski; Russell B Vegh; Jung-Cheng Hsiang; Bettina Bommarius; Yen-Cheng Chen; Kyril M Solntsev; Andreas S Bommarius; Laren M Tolbert; Robert M Dickson
Journal:  J Am Chem Soc       Date:  2013-10-25       Impact factor: 15.419

Review 7.  Beta-barrel scaffold of fluorescent proteins: folding, stability and role in chromophore formation.

Authors:  Olesya V Stepanenko; Olga V Stepanenko; Irina M Kuznetsova; Vladislav V Verkhusha; Konstantin K Turoverov
Journal:  Int Rev Cell Mol Biol       Date:  2013       Impact factor: 6.813

8.  Photoswitchable red fluorescent protein with a large Stokes shift.

Authors:  Kiryl D Piatkevich; Brian P English; Vladimir N Malashkevich; Hui Xiao; Steven C Almo; Robert H Singer; Vladislav V Verkhusha
Journal:  Chem Biol       Date:  2014-09-18

Review 9.  Detection of Rare Objects by Flow Cytometry: Imaging, Cell Sorting, and Deep Learning Approaches.

Authors:  Denis V Voronin; Anastasiia A Kozlova; Roman A Verkhovskii; Alexey V Ermakov; Mikhail A Makarkin; Olga A Inozemtseva; Daniil N Bratashov
Journal:  Int J Mol Sci       Date:  2020-03-27       Impact factor: 5.923

10.  A palette of fluorescent proteins optimized for diverse cellular environments.

Authors:  Lindsey M Costantini; Mikhail Baloban; Michele L Markwardt; Megan A. Rizzo; Feng Guo; Vladislav V Verkhusha; Erik L Snapp
Journal:  Nat Commun       Date:  2015-07-09       Impact factor: 14.919

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