FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2006207911> ?p ?o ?g. }

• W2006207911 endingPage "10559" @default.
• W2006207911 startingPage "10547" @default.
• W2006207911 abstract "Heavy atom isotope effects are a valuable tool for probing chemical and enzymatic reaction mechanisms; yet, they are not widely applied to examine mechanisms of nucleophilic activation. We developed approaches for analyzing solvent 18O nucleophile isotope effects (18knuc) that allow, for the first time, their application to hydrolysis reactions of nucleotides and nucleic acids. Here, we report 18knuc for phosphodiester hydrolysis catalyzed by Mg2+ and by the Mg2+-dependent RNase P ribozyme and deamination by the Zn2+-dependent protein enzyme adenosine deaminase (ADA). Because ADA incorporates a single solvent molecule into the product inosine, this reaction can be used to monitor solvent 18O/16O ratios in complex reaction mixtures. This approach, combined with new methods for analysis of isotope ratios of nucleotide phosphates by whole molecule mass spectrometry, permitted determination of 18knuc for hydrolysis of thymidine 5‘-p-nitrophenyl phosphate and RNA cleavage by the RNase P ribozyme. For ADA, an inverse 18knuc of 0.986 ± 0.001 is observed, reflecting coordination of the nucleophile by an active site Zn2+ ion and a stepwise mechanism. In contrast, the observed 18knuc for phosphodiester reactions were normal: 1.027 ± 0.013 and 1.030 ± 0.012 for the Mg2+- and ribozyme-catalyzed reactions, respectively. Such normal effects indicate that nucleophilic attack occurs in the rate-limiting step for these reactions, consistent with concerted mechanisms. However, these magnitudes are significantly less than the 18knuc observed for nucleophilic attack by hydroxide (1.068 ± 0.007), indicating a “stiffer” bonding environment for the nucleophile in the transition state. Kinetic analysis of the Mg2+-catalyzed reaction indicates that a Mg2+−hydroxide complex is the catalytic species; thus, the lower 18knuc, in large part, reflects direct metal ion coordination of the nucleophilic oxygen. A similar value for the RNase P ribozyme catalyzed reaction provides support for nucleophilic activation by metal ion catalysis." @default.
• W2006207911 created "2016-06-24" @default.
• W2006207911 creator A5012071618 @default.
• W2006207911 creator A5012692916 @default.
• W2006207911 creator A5032635492 @default.
• W2006207911 date "2004-07-22" @default.
• W2006207911 modified "2023-10-10" @default.
• W2006207911 title "Analysis of Solvent Nucleophile Isotope Effects: Evidence for Concerted Mechanisms and Nucleophilic Activation by Metal Coordination in Nonenzymatic and Ribozyme-Catalyzed Phosphodiester Hydrolysis" @default.
• W2006207911 cites W1519899019 @default.
• W2006207911 cites W1790619717 @default.
• W2006207911 cites W1968580578 @default.
• W2006207911 cites W1973280220 @default.
• W2006207911 cites W1974052120 @default.
• W2006207911 cites W1975744482 @default.
• W2006207911 cites W1982346073 @default.
• W2006207911 cites W1998312246 @default.
• W2006207911 cites W2004653449 @default.
• W2006207911 cites W2008672684 @default.
• W2006207911 cites W2023267127 @default.
• W2006207911 cites W2026524671 @default.
• W2006207911 cites W2039248536 @default.
• W2006207911 cites W2051088843 @default.
• W2006207911 cites W2052263580 @default.
• W2006207911 cites W2052915805 @default.
• W2006207911 cites W2068067147 @default.
• W2006207911 cites W2080287570 @default.
• W2006207911 cites W2084129060 @default.
• W2006207911 cites W2087230704 @default.
• W2006207911 cites W2088659205 @default.
• W2006207911 cites W2108673734 @default.
• W2006207911 cites W2111332566 @default.
• W2006207911 cites W2124512134 @default.
• W2006207911 cites W2130327573 @default.
• W2006207911 cites W2144355056 @default.
• W2006207911 doi "https://doi.org/10.1021/bi049188f" @default.
• W2006207911 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/15301552" @default.
• W2006207911 hasPublicationYear "2004" @default.
• W2006207911 type Work @default.
• W2006207911 sameAs 2006207911 @default.
• W2006207911 citedByCount "71" @default.
• W2006207911 countsByYear W20062079112012 @default.
• W2006207911 countsByYear W20062079112013 @default.
• W2006207911 countsByYear W20062079112014 @default.
• W2006207911 countsByYear W20062079112015 @default.
• W2006207911 countsByYear W20062079112016 @default.
• W2006207911 countsByYear W20062079112017 @default.
• W2006207911 countsByYear W20062079112018 @default.
• W2006207911 countsByYear W20062079112020 @default.
• W2006207911 countsByYear W20062079112021 @default.
• W2006207911 countsByYear W20062079112022 @default.
• W2006207911 crossrefType "journal-article" @default.
• W2006207911 hasAuthorship W2006207911A5012071618 @default.
• W2006207911 hasAuthorship W2006207911A5012692916 @default.
• W2006207911 hasAuthorship W2006207911A5032635492 @default.
• W2006207911 hasConcept C104317684 @default.
• W2006207911 hasConcept C121332964 @default.
• W2006207911 hasConcept C161790260 @default.
• W2006207911 hasConcept C178790620 @default.
• W2006207911 hasConcept C178907741 @default.
• W2006207911 hasConcept C185592680 @default.
• W2006207911 hasConcept C21951064 @default.
• W2006207911 hasConcept C38441620 @default.
• W2006207911 hasConcept C55493867 @default.
• W2006207911 hasConcept C58364064 @default.
• W2006207911 hasConcept C62520636 @default.
• W2006207911 hasConcept C67705224 @default.
• W2006207911 hasConcept C69928629 @default.
• W2006207911 hasConcept C71240020 @default.
• W2006207911 hasConcept C76346623 @default.
• W2006207911 hasConceptScore W2006207911C104317684 @default.
• W2006207911 hasConceptScore W2006207911C121332964 @default.
• W2006207911 hasConceptScore W2006207911C161790260 @default.
• W2006207911 hasConceptScore W2006207911C178790620 @default.
• W2006207911 hasConceptScore W2006207911C178907741 @default.
• W2006207911 hasConceptScore W2006207911C185592680 @default.
• W2006207911 hasConceptScore W2006207911C21951064 @default.
• W2006207911 hasConceptScore W2006207911C38441620 @default.
• W2006207911 hasConceptScore W2006207911C55493867 @default.
• W2006207911 hasConceptScore W2006207911C58364064 @default.
• W2006207911 hasConceptScore W2006207911C62520636 @default.
• W2006207911 hasConceptScore W2006207911C67705224 @default.
• W2006207911 hasConceptScore W2006207911C69928629 @default.
• W2006207911 hasConceptScore W2006207911C71240020 @default.
• W2006207911 hasConceptScore W2006207911C76346623 @default.
• W2006207911 hasIssue "32" @default.
• W2006207911 hasLocation W20062079111 @default.
• W2006207911 hasLocation W20062079112 @default.
• W2006207911 hasOpenAccess W2006207911 @default.
• W2006207911 hasPrimaryLocation W20062079111 @default.
• W2006207911 hasRelatedWork W2014241579 @default.
• W2006207911 hasRelatedWork W2051131639 @default.
• W2006207911 hasRelatedWork W2062694490 @default.
• W2006207911 hasRelatedWork W2066526988 @default.
• W2006207911 hasRelatedWork W2096809498 @default.
• W2006207911 hasRelatedWork W2157558284 @default.
• W2006207911 hasRelatedWork W4247289303 @default.
• W2006207911 hasRelatedWork W4252069115 @default.
• W2006207911 hasRelatedWork W4383566821 @default.

• next