Literature DB >> 24259287

Bifacial PNA complexation inhibits enzymatic access to DNA and RNA.

Xin Xia1, Xijun Piao, Kurt Fredrick, Dennis Bong.   

Abstract

FULL STOP: Herein we report the effective in vitro inhibition of transcription, reverse-transcription and exonuclease function by formation of synthetic bPNA-nucleic acid triplex structures. Selective bPNA targeting of both DNA and RNA substrates suggests possible application of bPNAs as synthetic regulators of nucleic acid function.
Copyright © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Entities:  

Keywords:  bPNA; bifacial; hairpin; nucleobases; structure-activity relationships

Mesh：

Substances：

Year:  2013        PMID： 24259287      PMCID： PMC3896088          DOI： 10.1002/cbic.201300536

Source DB:  PubMed          Journal:  Chembiochem        ISSN： 1439-4227            Impact factor:   3.164


  39 in total

Review 1.  Thinking quantitatively about transcriptional regulation.

Authors:  Sandra J Greive; Peter H von Hippel
Journal:  Nat Rev Mol Cell Biol       Date:  2005-03       Impact factor: 94.444

2.  Conformationally constrained PNA analogues: structural evolution toward DNA/RNA binding selectivity.

Authors:  Vaijayanti A Kumar; Krishna N Ganesh
Journal:  Acc Chem Res       Date:  2005-05       Impact factor: 22.384

Review 3.  Transforming ligands into transcriptional regulators: building blocks for bifunctional molecules.

Authors:  Jonas W Højfeldt; Aaron R Van Dyke; Anna K Mapp
Journal:  Chem Soc Rev       Date:  2011-06-23       Impact factor: 54.564

4.  Single strand DNA specificity analysis of human nucleoside diphosphate kinase B.

Authors:  F Agou; S Raveh; S Mesnildrey; M Véron
Journal:  J Biol Chem       Date:  1999-07-09       Impact factor: 5.157

5.  Transcription termination at intrinsic terminators: the role of the RNA hairpin.

Authors:  K S Wilson; P H von Hippel
Journal:  Proc Natl Acad Sci U S A       Date:  1995-09-12       Impact factor: 11.205

6.  Sequence specific inhibition of DNA restriction enzyme cleavage by PNA.

Authors:  P E Nielsen; M Egholm; R H Berg; O Buchardt
Journal:  Nucleic Acids Res       Date:  1993-01-25       Impact factor: 16.971

7.  Protein assembly directed by synthetic molecular recognition motifs.

Authors:  Mingming Ma; Dennis Bong
Journal:  Org Biomol Chem       Date:  2011-09-13       Impact factor: 3.876

Review 8.  Ribozymes and riboswitches: modulation of RNA function by small molecules.

Authors:  Jinwei Zhang; Matthew W Lau; Adrian R Ferré-D'Amaré
Journal:  Biochemistry       Date:  2010-11-02       Impact factor: 3.162

9.  A Janus-Wedge DNA triplex with A-W1-T and G-W2-C base triplets.

Authors:  Han Chen; Larry W McLaughlin
Journal:  J Am Chem Soc       Date:  2008-09-11       Impact factor: 15.419

10.  A simple ligand that selectively targets CUG trinucleotide repeats and inhibits MBNL protein binding.

Authors:  Jonathan F Arambula; Sreenivasa Rao Ramisetty; Anne M Baranger; Steven C Zimmerman
Journal:  Proc Natl Acad Sci U S A       Date:  2009-09-08       Impact factor: 11.205
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  13 in total

1.  Synthetic bPNAs as allosteric triggers of hammerhead ribozyme catalysis.

Authors:  Yufeng Liang; Jie Mao; Dennis Bong
Journal:  Methods Enzymol       Date:  2019-05-22       Impact factor: 1.600

2.  Small Molecule Recognition Triggers Secondary and Tertiary Interactions in DNA Folding and Hammerhead Ribozyme Catalysis.

Authors:  Jie Mao; Chris DeSantis; Dennis Bong
Journal:  J Am Chem Soc       Date:  2017-07-13       Impact factor: 15.419

3.  Triplex Hybridization of siRNA with Bifacial Glycopolymer Nucleic Acid Enables Hepatocyte-Targeted Silencing.

Authors:  Xin Xia; Zhun Zhou; Chris DeSantis; John J Rossi; Dennis Bong
Journal:  ACS Chem Biol       Date:  2019-06-11       Impact factor: 5.100

4.  Synthetic Polymer Hybridization with DNA and RNA Directs Nanoparticle Loading, Silencing Delivery, and Aptamer Function.

Authors:  Zhun Zhou; Xin Xia; Dennis Bong
Journal:  J Am Chem Soc       Date:  2015-07-08       Impact factor: 15.419

5.  Duplex Stem Replacement with bPNA+ Triplex Hybrid Stems Enables Reporting on Tertiary Interactions of Internal RNA Domains.

Authors:  Shiqin Miao; Yufeng Liang; Ila Marathe; Jie Mao; Chris DeSantis; Dennis Bong
Journal:  J Am Chem Soc       Date:  2019-05-29       Impact factor: 15.419

Review 6.  Perspectives on conformationally constrained peptide nucleic acid (PNA): insights into the structural design, properties and applications.

Authors:  Chaturong Suparpprom; Tirayut Vilaivan
Journal:  RSC Chem Biol       Date:  2022-03-18

7.  Synthesis of Bifacial Peptide Nucleic Acids with Diketopiperazine Backbones.

Authors:  Shekaraiah Devari; Debmalya Bhunia; Dennis Bong
Journal:  Synlett       Date:  2022-04-28       Impact factor: 2.170

8.  Context-Sensitive Cleavage of Folded DNAs by Loop-Targeting bPNAs.

Authors:  Yufeng Liang; Shiqin Miao; Jie Mao; Chris DeSantis; Dennis Bong
Journal:  Biochemistry       Date:  2020-06-23       Impact factor: 3.162

Review 9.  Unnatural bases for recognition of noncoding nucleic acid interfaces.

Authors:  Shiqin Miao; Yufeng Liang; Sarah Rundell; Debmalya Bhunia; Shekar Devari; Oliver Munyaradzi; Dennis Bong
Journal:  Biopolymers       Date:  2020-09-24       Impact factor: 2.505

10.  Screening of Minimalist Noncanonical Sites in Duplex DNA and RNA Reveals Context and Motif-Selective Binding by Fluorogenic Base Probes.

Authors:  Yufeng Liang; Shiqin Miao; Jie Mao; Shekaraiah Devari; Maricarmen Gonzalez; Dennis Bong
Journal:  Chemistry       Date:  2021-11-24       Impact factor: 5.236
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