Literature DB >> 33727970

Biochemistry of fluoroprolines: the prospect of making fluorine a bioelement.

Vladimir Kubyshkin1, Rebecca Davis1, Nediljko Budisa1,2.   

Abstract

Due to the heterocyclic structure and distinct conformational profile, proline is unique in the repertoire of the 20 amino acids coded into proteins. Here, we summarize the biochemical work on the replacement of proline with (4R)- and (4S)-fluoroproline as well as 4,4-difluoroproline in proteins done mainly in the last two decades. We first recapitulate the complex position and biochemical fate of proline in the biochemistry of a cell, discuss the physicochemical properties of fluoroprolines, and overview the attempts to use these amino acids as proline replacements in studies of protein production and folding. Fluorinated proline replacements are able to elevate the protein expression speed and yields and improve the thermodynamic and kinetic folding profiles of individual proteins. In this context, fluoroprolines can be viewed as useful tools in the biotechnological toolbox. As a prospect, we envision that proteome-wide proline-to-fluoroproline substitutions could be possible. We suggest a hypothetical scenario for the use of laboratory evolutionary methods with fluoroprolines as a suitable vehicle to introduce fluorine into living cells. This approach may enable creation of synthetic cells endowed with artificial biodiversity, containing fluorine as a bioelement.
Copyright © 2021, Kubyshkin et al.

Entities:  

Keywords:  amino acids; evolution; fluorine; proline; proteins

Year:  2021        PMID: 33727970      PMCID: PMC7934785          DOI: 10.3762/bjoc.17.40

Source DB:  PubMed          Journal:  Beilstein J Org Chem        ISSN: 1860-5397            Impact factor:   2.883


  142 in total

Review 1.  Combinatorial alanine-scanning.

Authors:  K L Morrison; G A Weiss
Journal:  Curr Opin Chem Biol       Date:  2001-06       Impact factor: 8.822

2.  Efforts towards the design of 'teflon' proteins: in vivo translation with trifluorinated leucine and methionine analogues.

Authors:  Nediljko Budisa; Olga Pipitone; Igor Siwanowicz; Marina Rubini; Prajna Paramita Pal; Tad A Holak; Maria Luisa Gelmi
Journal:  Chem Biodivers       Date:  2004-10       Impact factor: 2.408

Review 3.  Structure, function, and mechanism of proline utilization A (PutA).

Authors:  Li-Kai Liu; Donald F Becker; John J Tanner
Journal:  Arch Biochem Biophys       Date:  2017-07-14       Impact factor: 4.013

Review 4.  Prolyl cis-trans isomerization as a molecular timer.

Authors:  Kun Ping Lu; Greg Finn; Tae Ho Lee; Linda K Nicholson
Journal:  Nat Chem Biol       Date:  2007-10       Impact factor: 15.040

5.  Puckering transition of proline residue in water.

Authors:  Young Kee Kang
Journal:  J Phys Chem B       Date:  2007-08-16       Impact factor: 2.991

6.  The Use of Fluoroproline in MUC1 Antigen Enables Efficient Detection of Antibodies in Patients with Prostate Cancer.

Authors:  Víctor J Somovilla; Iris A Bermejo; Inês S Albuquerque; Nuria Martínez-Sáez; Jorge Castro-López; Fayna García-Martín; Ismael Compañón; Hiroshi Hinou; Shin-Ichiro Nishimura; Jesús Jiménez-Barbero; Juan L Asensio; Alberto Avenoza; Jesús H Busto; Ramón Hurtado-Guerrero; Jesús M Peregrina; Gonçalo J L Bernardes; Francisco Corzana
Journal:  J Am Chem Soc       Date:  2017-12-12       Impact factor: 15.419

7.  EF-P is essential for rapid synthesis of proteins containing consecutive proline residues.

Authors:  Lili K Doerfel; Ingo Wohlgemuth; Christina Kothe; Frank Peske; Henning Urlaub; Marina V Rodnina
Journal:  Science       Date:  2012-12-13       Impact factor: 47.728

8.  Collagen stability: insights from NMR spectroscopic and hybrid density functional computational investigations of the effect of electronegative substituents on prolyl ring conformations.

Authors:  Michele L DeRider; Steven J Wilkens; Michael J Waddell; Lynn E Bretscher; Frank Weinhold; Ronald T Raines; John L Markley
Journal:  J Am Chem Soc       Date:  2002-03-20       Impact factor: 15.419

Review 9.  Fluorinated proteins: from design and synthesis to structure and stability.

Authors:  E Neil G Marsh
Journal:  Acc Chem Res       Date:  2014-06-02       Impact factor: 22.384

Review 10.  Auxotrophy to Xeno-DNA: an exploration of combinatorial mechanisms for a high-fidelity biosafety system for synthetic biology applications.

Authors:  Christopher M Whitford; Saskia Dymek; Denise Kerkhoff; Camilla März; Olga Schmidt; Maximilian Edich; Julian Droste; Boas Pucker; Christian Rückert; Jörn Kalinowski
Journal:  J Biol Eng       Date:  2018-08-14       Impact factor: 4.355

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  2 in total

Review 1.  Natural and Synthetic Halogenated Amino Acids-Structural and Bioactive Features in Antimicrobial Peptides and Peptidomimetics.

Authors:  Mario Mardirossian; Marina Rubini; Mauro F A Adamo; Marco Scocchi; Michele Saviano; Alessandro Tossi; Renato Gennaro; Andrea Caporale
Journal:  Molecules       Date:  2021-12-06       Impact factor: 4.411

2.  Protein Design with Fluoroprolines: 4,4-Difluoroproline Does Not Eliminate the Rate-Limiting Step of Thioredoxin Folding.

Authors:  Jennie O' Loughlin; Silvia Napolitano; Marina Rubini
Journal:  Chembiochem       Date:  2021-10-08       Impact factor: 3.461

  2 in total

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