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Literature DB >> 24167045

A chemical perspective on transcriptional fidelity: dominant contributions of sugar integrity revealed by unlocked nucleic acids.

Liang Xu¹, Steven W Plouffe, Jenny Chong, Jesper Wengel, Dong Wang.

Abstract

Transcription unlocked: A synthetic chemical biology approach involving unlocked nucleic acids was used to dissect the contribution of sugar backbone integrity to the RNA Polymerase II (Pol II) transcription process. An unexpected dominant role for sugar-ring integrity in Pol II transcriptional efficiency and fidelity was revealed.

Entities: Chemical Species

Keywords: RNA polymerase II; nucleic acid analogues; sugar integrity; synthetic biology; transcriptional fidelity

Mesh：

Substances：

Year: 2013 PMID： 24167045 PMCID： PMC3866818 DOI： 10.1002/anie.201307661

Source DB: PubMed Journal: Angew Chem Int Ed Engl ISSN： 1433-7851 Impact factor: 15.336

18 in total

Review 1. Structure and function of noncanonical nucleobases.

Authors: Thomas Carell; Caterina Brandmayr; Antje Hienzsch; Markus Müller; David Pearson; Veronika Reiter; Ines Thoma; Peter Thumbs; Mirko Wagner
Journal: Angew Chem Int Ed Engl Date: 2012-06-28 Impact factor: 15.336

2. The RNA polymerase II trigger loop functions in substrate selection and is directly targeted by alpha-amanitin.

Authors: Craig D Kaplan; Karl-Magnus Larsson; Roger D Kornberg
Journal: Mol Cell Date: 2008-06-06 Impact factor: 17.970

3. Transient reversal of RNA polymerase II active site closing controls fidelity of transcription elongation.

Authors: Maria L Kireeva; Yuri A Nedialkov; Gina H Cremona; Yuri A Purtov; Lucyna Lubkowska; Francisco Malagon; Zachary F Burton; Jeffrey N Strathern; Mikhail Kashlev
Journal: Mol Cell Date: 2008-06-06 Impact factor: 17.970

4. Application of small interfering RNAs modified by unlocked nucleic acid (UNA) to inhibit the heart-pathogenic coxsackievirus B3.

Authors: Denise Werk; Jesper Wengel; Suzy L Wengel; Hans-Peter Grunert; Heinz Zeichhardt; Jens Kurreck
Journal: FEBS Lett Date: 2010-01-13 Impact factor: 4.124

5. UNA (unlocked nucleic acid): a flexible RNA mimic that allows engineering of nucleic acid duplex stability.

Authors: Niels Langkjaer; Anna Pasternak; Jesper Wengel
Journal: Bioorg Med Chem Date: 2009-06-27 Impact factor: 3.641

6. Utilization of unlocked nucleic acid (UNA) to enhance siRNA performance in vitro and in vivo.

Authors: Maria B Laursen; Malgorzata M Pakula; Shan Gao; Kees Fluiter; Olaf R Mook; Frank Baas; Niels Langklaer; Suzy L Wengel; Jesper Wengel; Jørgen Kjems; Jesper B Bramsen
Journal: Mol Biosyst Date: 2010-02-09

Review 7. Locked vs. unlocked nucleic acids (LNA vs. UNA): contrasting structures work towards common therapeutic goals.

Authors: Meghan A Campbell; Jesper Wengel
Journal: Chem Soc Rev Date: 2011-05-10 Impact factor: 54.564

8. Stepwise mechanism for transcription fidelity.

Authors: Yulia Yuzenkova; Aleksandra Bochkareva; Vasisht R Tadigotla; Mohammad Roghanian; Savva Zorov; Konstantin Severinov; Nikolay Zenkin
Journal: BMC Biol Date: 2010-05-07 Impact factor: 7.431

9. Thermodynamics of RNA duplexes modified with unlocked nucleic acid nucleotides.

Authors: Anna Pasternak; Jesper Wengel
Journal: Nucleic Acids Res Date: 2010-06-18 Impact factor: 16.971

Review 10. Redesigning the architecture of the base pair: toward biochemical and biological function of new genetic sets.

Authors: Andrew T Krueger; Eric T Kool
Journal: Chem Biol Date: 2009-03-27

11 in total

1. Impact of template backbone heterogeneity on RNA polymerase II transcription.

Authors: Liang Xu; Wei Wang; Lu Zhang; Jenny Chong; Xuhui Huang; Dong Wang
Journal: Nucleic Acids Res Date: 2015-02-06 Impact factor: 16.971

2. Strand-specific (asymmetric) contribution of phosphodiester linkages on RNA polymerase II transcriptional efficiency and fidelity.

Authors: Liang Xu; Lu Zhang; Jenny Chong; Jun Xu; Xuhui Huang; Dong Wang
Journal: Proc Natl Acad Sci U S A Date: 2014-07-29 Impact factor: 11.205

Review 3. Molecular basis of transcriptional fidelity and DNA lesion-induced transcriptional mutagenesis.

Authors: Liang Xu; Linati Da; Steven W Plouffe; Jenny Chong; Eric Kool; Dong Wang
Journal: DNA Repair (Amst) Date: 2014-04-21

Review 4. RNA polymerase II transcriptional fidelity control and its functional interplay with DNA modifications.

Authors: Liang Xu; Wei Wang; Jenny Chong; Ji Hyun Shin; Jun Xu; Dong Wang
Journal: Crit Rev Biochem Mol Biol Date: 2015-09-22 Impact factor: 8.250

5. Structural basis of transcriptional stalling and bypass of abasic DNA lesion by RNA polymerase II.

Authors: Wei Wang; Celine Walmacq; Jenny Chong; Mikhail Kashlev; Dong Wang
Journal: Proc Natl Acad Sci U S A Date: 2018-02-27 Impact factor: 11.205

6. RNA polymerase II senses obstruction in the DNA minor groove via a conserved sensor motif.

Authors: Liang Xu; Wei Wang; Deanna Gotte; Fei Yang; Alissa A Hare; Timothy R Welch; Benjamin C Li; Ji Hyun Shin; Jenny Chong; Jeffrey N Strathern; Peter B Dervan; Dong Wang
Journal: Proc Natl Acad Sci U S A Date: 2016-10-17 Impact factor: 11.205

7. Epigenetic DNA Modification N⁶-Methyladenine Causes Site-Specific RNA Polymerase II Transcriptional Pausing.

Authors: Wei Wang; Liang Xu; Lulu Hu; Jenny Chong; Chuan He; Dong Wang
Journal: J Am Chem Soc Date: 2017-10-03 Impact factor: 15.419

8. Functional interplay between NTP leaving group and base pair recognition during RNA polymerase II nucleotide incorporation revealed by methylene substitution.

Authors: Candy S Hwang; Liang Xu; Wei Wang; Sébastien Ulrich; Lu Zhang; Jenny Chong; Ji Hyun Shin; Xuhui Huang; Eric T Kool; Charles E McKenna; Dong Wang
Journal: Nucleic Acids Res Date: 2016-04-07 Impact factor: 16.971

9. Five checkpoints maintaining the fidelity of transcription by RNA polymerases in structural and energetic details.

Authors: Beibei Wang; Kristopher Opron; Zachary F Burton; Robert I Cukier; Michael Feig
Journal: Nucleic Acids Res Date: 2014-12-30 Impact factor: 16.971

10. Dissecting the chemical interactions and substrate structural signatures governing RNA polymerase II trigger loop closure by synthetic nucleic acid analogues.

Authors: Liang Xu; Kyle Vincent Butler; Jenny Chong; Jesper Wengel; Eric T Kool; Dong Wang
Journal: Nucleic Acids Res Date: 2014-04-01 Impact factor: 16.971