Monitoring Protein Interactions and Dynamics with Solvatochromic Fluorophores

Overview

Journal Trends Biotechnol

Specialty Biochemistry

Date 2009 Dec 8

PMID 19962774

Citations 65

Authors

Galen S Loving

Matthieu Sainlos

Barbara Imperiali

Affiliations

Soon will be listed here.

Abstract

Solvatochromic fluorophores possess emission properties that are sensitive to the nature of the local microenvironment. These dyes have been exploited in applications ranging from the study of protein structural dynamics to the detection of protein-binding interactions. Although the solvatochromic indole fluorophore of tryptophan has been utilized extensively for in vitro studies to advance our understanding of basic protein biochemistry, the emergence of new extrinsic synthetic dyes with improved properties, in conjunction with recent developments in site-selective methods to incorporate these chemical tools into proteins, now open the way for studies in more complex systems. Herein, we discuss recent technological advancements and their application in the design of powerful reporters, which serve critical roles in modern cell biology and assay development.

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References

Nguyen A, Nguyen V, Kamio Y, Higuchi H . Single-molecule visualization of environment-sensitive fluorophores inserted into cell membranes by staphylococcal gamma-hemolysin. Biochemistry. 2006; 45(8):2570-6. DOI: 10.1021/bi0514156. View

Carrico I, Carlson B, Bertozzi C . Introducing genetically encoded aldehydes into proteins. Nat Chem Biol. 2007; 3(6):321-2. DOI: 10.1038/nchembio878. View

Garrett S, Hodgson L, Rybin A, Toutchkine A, Hahn K, Lawrence D . A biosensor of S100A4 metastasis factor activation: inhibitor screening and cellular activation dynamics. Biochemistry. 2007; 47(3):986-96. PMC: 3227476. DOI: 10.1021/bi7021624. View

Mannuzzu L, Moronne M, Isacoff E . Direct physical measure of conformational rearrangement underlying potassium channel gating. Science. 1996; 271(5246):213-6. DOI: 10.1126/science.271.5246.213. View

Chin J, Cropp T, Anderson J, Mukherji M, Zhang Z, Schultz P . An expanded eukaryotic genetic code. Science. 2003; 301(5635):964-7. DOI: 10.1126/science.1084772. View

Zhu J, Pei D . A LuxP-based fluorescent sensor for bacterial autoinducer II. ACS Chem Biol. 2008; 3(2):110-9. DOI: 10.1021/cb7002048. View

Noble J, Ganju P, Cass A . Fluorescent peptide probes for high-throughput measurement of protein phosphatases. Anal Chem. 2003; 75(9):2042-7. DOI: 10.1021/ac025838e. View

Wadum M, Villadsen J, Feddersen S, Moller R, Neergaard T, Kragelund B . Fluorescently labelled bovine acyl-CoA-binding protein acting as an acyl-CoA sensor: interaction with CoA and acyl-CoA esters and its use in measuring free acyl-CoA esters and non-esterified fatty acids. Biochem J. 2002; 365(Pt 1):165-72. PMC: 1222666. DOI: 10.1042/BJ20011727. View

Vazquez M, Nitz M, Stehn J, Yaffe M, Imperiali B . Fluorescent caged phosphoserine peptides as probes to investigate phosphorylation-dependent protein associations. J Am Chem Soc. 2003; 125(34):10150-1. DOI: 10.1021/ja0351847. View

10.

ELLMAN J, MENDEL D, Noren C, Schultz P . Biosynthetic method for introducing unnatural amino acids site-specifically into proteins. Methods Enzymol. 1991; 202:301-36. DOI: 10.1016/0076-6879(91)02017-4. View

11.

Tamrazi A, Carlson K, Katzenellenbogen J . Molecular sensors of estrogen receptor conformations and dynamics. Mol Endocrinol. 2003; 17(12):2593-602. DOI: 10.1210/me.2003-0239. View

12.

Jares-Erijman E, Jovin T . FRET imaging. Nat Biotechnol. 2003; 21(11):1387-95. DOI: 10.1038/nbt896. View

13.

Fernandez-Suarez M, Ting A . Fluorescent probes for super-resolution imaging in living cells. Nat Rev Mol Cell Biol. 2008; 9(12):929-43. DOI: 10.1038/nrm2531. View

14.

Noren , Wang , Perler . Dissecting the Chemistry of Protein Splicing and Its Applications. Angew Chem Int Ed Engl. 2000; 39(3):450-466. View

15.

Renard M, Belkadi L, Hugo N, England P, Altschuh D, Bedouelle H . Knowledge-based design of reagentless fluorescent biosensors from recombinant antibodies. J Mol Biol. 2002; 318(2):429-42. DOI: 10.1016/S0022-2836(02)00023-2. View

16.

Shvadchak V, Klymchenko A, de Rocquigny H, Mely Y . Sensing peptide-oligonucleotide interactions by a two-color fluorescence label: application to the HIV-1 nucleocapsid protein. Nucleic Acids Res. 2009; 37(3):e25. PMC: 2647317. DOI: 10.1093/nar/gkn1083. View

17.

Lord S, Conley N, Lee H, Nishimura S, Pomerantz A, Willets K . DCDHF fluorophores for single-molecule imaging in cells. Chemphyschem. 2008; 10(1):55-65. PMC: 2688640. DOI: 10.1002/cphc.200800581. View

18.

Nalbant P, Hodgson L, Kraynov V, Toutchkine A, Hahn K . Activation of endogenous Cdc42 visualized in living cells. Science. 2004; 305(5690):1615-9. DOI: 10.1126/science.1100367. View

19.

Sherman D, Pitner J, Ambroise A, Thomas K . Synthesis of thiol-reactive, long-wavelength fluorescent phenoxazine derivatives for biosensor applications. Bioconjug Chem. 2006; 17(2):387-92. DOI: 10.1021/bc050309d. View

20.

Hahn K, DeBiasio R, Taylor D . Patterns of elevated free calcium and calmodulin activation in living cells. Nature. 1992; 359(6397):736-8. DOI: 10.1038/359736a0. View