Literature DB >> 26859380

Isotope effect analyses provide evidence for an altered transition state for RNA 2'-O-transphosphorylation catalyzed by Zn(2+).

Shuming Zhang1, Hong Gu1, Haoyuan Chen2, Emily Strong1, Edward W Ollie1, Daniel Kellerman1, Danni Liang1, Masaru Miyagi3, Vernon E Anderson1, Joseph A Piccirilli4, Darrin M York2, Michael E Harris1.   

Abstract

Solvent D2O and (18)O kinetic isotope effects on RNA 2'-O-transphosphorylation catalyzed by Zn(2+) demonstrate an altered transition state relative to specific base catalysis. A recent model from DFT calculations involving inner sphere coordination to the non-bridging and leaving group oxygens is consistent with the data.

Entities:  

Mesh：

Substances：

Year:  2016        PMID： 26859380      PMCID： PMC4916458          DOI： 10.1039/c5cc10212j

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


  36 in total

Review 1.  Isotope effects in the study of enzymatic phosphoryl transfer reactions.

Authors:  A C Hengge
Journal:  FEBS Lett       Date:  2001-07-20       Impact factor: 4.124

2.  A common speed limit for RNA-cleaving ribozymes and deoxyribozymes.

Authors:  Ronald R Breaker; Gail Mitchell Emilsson; Denis Lazarev; Shingo Nakamura; Izabela J Puskarz; Adam Roth; Narasimhan Sudarsan
Journal:  RNA       Date:  2003-08       Impact factor: 4.942

Review 3.  Enzymatic mechanisms of phosphate and sulfate transfer.

Authors:  W Wallace Cleland; Alvan C Hengge
Journal:  Chem Rev       Date:  2006-08       Impact factor: 60.622

4.  Altered transition state for the reaction of an RNA model catalyzed by a dinuclear zinc(II) catalyst.

Authors:  Tim Humphry; Subashree Iyer; Olga Iranzo; Janet R Morrow; John P Richard; Piotr Paneth; Alvan C Hengge
Journal:  J Am Chem Soc       Date:  2008-12-31       Impact factor: 15.419

5.  The chemical versatility of RNA.

Authors:  David A Hiller; Scott A Strobel
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2011-10-27       Impact factor: 6.237

Review 6.  Mechanistic investigations of the hydrolysis of amides, oxoesters and thioesters via kinetic isotope effects and positional isotope exchange.

Authors:  Lori I Robins; Emily J Fogle; John F Marlier
Journal:  Biochim Biophys Acta       Date:  2014-12-24

7.  Kinetic isotope effects for RNA cleavage by 2'-O- transphosphorylation: nucleophilic activation by specific base.

Authors:  Michael E Harris; Qing Dai; Hong Gu; Daniel L Kellerman; Joseph A Piccirilli; Vernon E Anderson
Journal:  J Am Chem Soc       Date:  2010-08-25       Impact factor: 15.419

Review 8.  Why nature really chose phosphate.

Authors:  Shina C L Kamerlin; Pankaz K Sharma; Ram B Prasad; Arieh Warshel
Journal:  Q Rev Biophys       Date:  2013-01-15       Impact factor: 5.318

9.  Experimental and computational analysis of the transition state for ribonuclease A-catalyzed RNA 2'-O-transphosphorylation.

Authors:  Hong Gu; Shuming Zhang; Kin-Yiu Wong; Brian K Radak; Thakshila Dissanayake; Daniel L Kellerman; Qing Dai; Masaru Miyagi; Vernon E Anderson; Darrin M York; Joseph A Piccirilli; Michael E Harris
Journal:  Proc Natl Acad Sci U S A       Date:  2013-07-22       Impact factor: 11.205

10.  Efficient synthesis of [2'-18O]uridine and its incorporation into oligonucleotides: a new tool for mechanistic study of nucleotidyl transfer reactions by isotope effect analysis.

Authors:  Qing Dai; John K Frederiksen; Vernon E Anderson; Michael E Harris; Joseph A Piccirilli
Journal:  J Org Chem       Date:  2007-12-04       Impact factor: 4.354
View more
  3 in total

1.  Cleaning Up Mechanistic Debris Generated by Twister Ribozymes Using Computational RNA Enzymology.

Authors:  Colin S Gaines; Timothy J Giese; Darrin M York
Journal:  ACS Catal       Date:  2019-05-22       Impact factor: 13.084

Review 2.  RNA Structural Dynamics As Captured by Molecular Simulations: A Comprehensive Overview.

Authors:  Jiří Šponer; Giovanni Bussi; Miroslav Krepl; Pavel Banáš; Sandro Bottaro; Richard A Cunha; Alejandro Gil-Ley; Giovanni Pinamonti; Simón Poblete; Petr Jurečka; Nils G Walter; Michal Otyepka
Journal:  Chem Rev       Date:  2018-01-03       Impact factor: 60.622

Review 3.  Phosphodiester models for cleavage of nucleic acids.

Authors:  Satu Mikkola; Tuomas Lönnberg; Harri Lönnberg
Journal:  Beilstein J Org Chem       Date:  2018-04-10       Impact factor: 2.883
  3 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.