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NanoFAST: Structure-based design of a small fluorogen-activating protein with only 98 amino acids

Konstantin S. Mineev, Sergey A. Goncharuk, Marina V. Goncharuk, Natalia V. Povarova, Nadezhda S. Baleeva, Alexander Yu. Smirnov, Ivan N Myasnyanko, Dmitry A. Ruchkin, Sergey Bukhdruker, Alina Remeeva, Alexey Mishin, Valentin Borshchevskiy, Valentin Gordeliy, Alexander S. Arseniev, Dmitriy A. Gorbachev, Alexey S. Gavrikov, View ORCID ProfileAlexander S. Mishin, Mikhail S. Baranov
doi: https://doi.org/10.1101/2020.12.29.424647
Konstantin S. Mineev
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
bResearch Сenter for Molecular Mechanisms of Aging and Age-related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, 141701, Russia
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Sergey A. Goncharuk
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
bResearch Сenter for Molecular Mechanisms of Aging and Age-related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, 141701, Russia
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Marina V. Goncharuk
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
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Natalia V. Povarova
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
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Nadezhda S. Baleeva
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
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Alexander Yu. Smirnov
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
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Ivan N Myasnyanko
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
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Dmitry A. Ruchkin
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
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Sergey Bukhdruker
bResearch Сenter for Molecular Mechanisms of Aging and Age-related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, 141701, Russia
cInstitute of Biological Information Processing (IBI-7: Structural Biochemistry), Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
dJuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
eESRF-The European Synchrotron, Grenoble, 38000, France
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Alina Remeeva
bResearch Сenter for Molecular Mechanisms of Aging and Age-related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, 141701, Russia
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Alexey Mishin
bResearch Сenter for Molecular Mechanisms of Aging and Age-related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, 141701, Russia
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Valentin Borshchevskiy
bResearch Сenter for Molecular Mechanisms of Aging and Age-related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, 141701, Russia
cInstitute of Biological Information Processing (IBI-7: Structural Biochemistry), Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
dJuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
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Valentin Gordeliy
bResearch Сenter for Molecular Mechanisms of Aging and Age-related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, 141701, Russia
cInstitute of Biological Information Processing (IBI-7: Structural Biochemistry), Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
dJuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
fInstitut de Biologie Structurale J.-P. Ebel, Université Grenoble Alpes-CEA-CNRS, Grenoble, France
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Alexander S. Arseniev
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
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Dmitriy A. Gorbachev
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
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Alexey S. Gavrikov
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
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Alexander S. Mishin
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
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  • ORCID record for Alexander S. Mishin
Mikhail S. Baranov
aInstitute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russia
gPirogov Russian National Research Medical University, Ostrovitianov 1, Moscow 117997, Russia
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  • For correspondence: baranovmikes@gmail.com
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Abstract

One of the essential characteristics of any tag used in bioscience and medical applications is its size. The larger the label, the more it may affect the studied object, and the more it may distort its behavior. In this paper, using NMR spectroscopy and X-ray crystallography, we have studied the structure of fluorogen-activating protein FAST both in the apo form and in complex with the fluorogen. We shown that significant change in the protein occurs upon interaction with the ligand. While the protein is completely ordered in the complex, its apo form is characterized by higher mobility and disordering of its N-terminus. We used structural information to design the shortened FAST (which we named nanoFAST) by truncating 26 N-terminal residues. Thus, we created the shortest genetically encoded tag among all known fluorescent and fluorogen-activating proteins, which is composed of only 98 amino acids.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • Supporting information for this article is given via a link at the end of the document

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NanoFAST: Structure-based design of a small fluorogen-activating protein with only 98 amino acids
Konstantin S. Mineev, Sergey A. Goncharuk, Marina V. Goncharuk, Natalia V. Povarova, Nadezhda S. Baleeva, Alexander Yu. Smirnov, Ivan N Myasnyanko, Dmitry A. Ruchkin, Sergey Bukhdruker, Alina Remeeva, Alexey Mishin, Valentin Borshchevskiy, Valentin Gordeliy, Alexander S. Arseniev, Dmitriy A. Gorbachev, Alexey S. Gavrikov, Alexander S. Mishin, Mikhail S. Baranov
bioRxiv 2020.12.29.424647; doi: https://doi.org/10.1101/2020.12.29.424647
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NanoFAST: Structure-based design of a small fluorogen-activating protein with only 98 amino acids
Konstantin S. Mineev, Sergey A. Goncharuk, Marina V. Goncharuk, Natalia V. Povarova, Nadezhda S. Baleeva, Alexander Yu. Smirnov, Ivan N Myasnyanko, Dmitry A. Ruchkin, Sergey Bukhdruker, Alina Remeeva, Alexey Mishin, Valentin Borshchevskiy, Valentin Gordeliy, Alexander S. Arseniev, Dmitriy A. Gorbachev, Alexey S. Gavrikov, Alexander S. Mishin, Mikhail S. Baranov
bioRxiv 2020.12.29.424647; doi: https://doi.org/10.1101/2020.12.29.424647

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