Literature DB >> 30977472

Simple alkanoyl acylating agents for reversible RNA functionalization and control.

Hyun Shin Park1, Anna M Kietrys, Eric T Kool.   

Abstract

We describe the synthesis and RNA acylation activity of a series of minimalist azidoalkanoyl imidazole reagents, with the aim of functionalizing RNA at 2'-hydroxyl groups at stoichiometric to superstoichiometric levels. We find marked effects of small structural changes on their ability to acylate and be reductively removed, and identify reagents and methods that enable efficient RNA functionalization and control.

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Year:  2019        PMID: 30977472      PMCID: PMC6541391          DOI: 10.1039/c9cc01598a

Source DB:  PubMed          Journal:  Chem Commun (Camb)        ISSN: 1359-7345            Impact factor:   6.222


  38 in total

1.  Universal initiator nucleotides for the enzymatic synthesis of 5'-amino- and 5'-thiol-modified RNA.

Authors:  Jörg C Schlatterer; Andres Jäschke
Journal:  Biochem Biophys Res Commun       Date:  2006-04-19       Impact factor: 3.575

2.  RNA structure analysis at single nucleotide resolution by selective 2'-hydroxyl acylation and primer extension (SHAPE).

Authors:  Edward J Merino; Kevin A Wilkinson; Jennifer L Coughlan; Kevin M Weeks
Journal:  J Am Chem Soc       Date:  2005-03-30       Impact factor: 15.419

3.  Site-specific fluorescent labeling of RNA molecules by specific transcription using unnatural base pairs.

Authors:  Rie Kawai; Michiko Kimoto; Shuji Ikeda; Tsuneo Mitsui; Masayuki Endo; Shigeyuki Yokoyama; Ichiro Hirao
Journal:  J Am Chem Soc       Date:  2005-12-14       Impact factor: 15.419

4.  A fast-acting reagent for accurate analysis of RNA secondary and tertiary structure by SHAPE chemistry.

Authors:  Stefanie A Mortimer; Kevin M Weeks
Journal:  J Am Chem Soc       Date:  2007-03-17       Impact factor: 15.419

5.  Improved native affinity purification of RNA.

Authors:  Robert T Batey; Jeffrey S Kieft
Journal:  RNA       Date:  2007-06-04       Impact factor: 4.942

6.  Surface immobilization methods for aptamer diagnostic applications.

Authors:  Subramanian Balamurugan; Anne Obubuafo; Steven A Soper; David A Spivak
Journal:  Anal Bioanal Chem       Date:  2007-09-23       Impact factor: 4.142

7.  Photo-mediated gene activation using caged RNA/DNA in zebrafish embryos.

Authors:  H Ando; T Furuta; R Y Tsien; H Okamoto
Journal:  Nat Genet       Date:  2001-08       Impact factor: 38.330

8.  The effect of carbonyl substitution on the strain energy of small ring compounds and their six-member ring reference compounds.

Authors:  Robert D Bach; Olga Dmitrenko
Journal:  J Am Chem Soc       Date:  2006-04-12       Impact factor: 15.419

Review 9.  Fluorescent probes for live-cell RNA detection.

Authors:  Gang Bao; Won Jong Rhee; Andrew Tsourkas
Journal:  Annu Rev Biomed Eng       Date:  2009       Impact factor: 9.590

10.  Photoinduced RNA interference using DMNPE-caged 2'-deoxy-2'-fluoro substituted nucleic acids in vitro and in vivo.

Authors:  Richard A Blidner; Kurt R Svoboda; Robert P Hammer; W Todd Monroe
Journal:  Mol Biosyst       Date:  2008-03-31
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  8 in total

1.  DNA Tiling Enables Precise Acylation-Based Labeling and Control of mRNA.

Authors:  Lu Xiao; Yong Woong Jun; Eric T Kool
Journal:  Angew Chem Int Ed Engl       Date:  2021-11-16       Impact factor: 15.336

2.  Acylation probing of "generic" RNA libraries reveals critical influence of loop constraints on reactivity.

Authors:  Lu Xiao; Linglan Fang; Eric T Kool
Journal:  Cell Chem Biol       Date:  2022-06-02       Impact factor: 9.039

3.  Conjugation of RNA via 2'-OH acylation: Mechanisms determining nucleotide reactivity.

Authors:  Biswarup Jash; Eric T Kool
Journal:  Chem Commun (Camb)       Date:  2022-03-15       Impact factor: 6.065

4.  Site-Selective RNA Functionalization via DNA-Induced Structure.

Authors:  Lu Xiao; Maryam Habibian; Eric T Kool
Journal:  J Am Chem Soc       Date:  2020-09-14       Impact factor: 15.419

5.  Control of RNA with quinone methide reversible acylating reagents.

Authors:  Hyun Shin Park; Biswarup Jash; Lu Xiao; Yong Woong Jun; Eric T Kool
Journal:  Org Biomol Chem       Date:  2021-10-06       Impact factor: 3.890

6.  Programmable site-selective labeling of oligonucleotides based on carbene catalysis.

Authors:  Yang-Ha Lee; Eunsoo Yu; Cheol-Min Park
Journal:  Nat Commun       Date:  2021-03-16       Impact factor: 14.919

7.  Chemical reversible crosslinking enables measurement of RNA 3D distances and alternative conformations in cells.

Authors:  Ryan Van Damme; Kongpan Li; Minjie Zhang; Jianhui Bai; Wilson H Lee; Joseph D Yesselman; Zhipeng Lu; Willem A Velema
Journal:  Nat Commun       Date:  2022-02-17       Impact factor: 14.919

Review 8.  Conditionally Activated ("Caged") Oligonucleotides.

Authors:  Linlin Yang; Ivan J Dmochowski
Journal:  Molecules       Date:  2021-03-09       Impact factor: 4.411

  8 in total

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