ArticleJournal of the American Chemical Society2014
Isomorphic emissive GTP surrogate facilitates initiation and elongation of in vitro transcription reactions.
Article in Journal of the American Chemical Society, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
20 citing papers in PubMed.
- Fluorescent cAMP Analogs: Enzymatic Synthesis, Unexpected Photophysical Behavior and Protein Kinase A Recognition.Angewandte Chemie (International ed. in English) · 2026Article
- Site-specific RNA modificationRSC chemical biology · 2024Article
- Isomorphic Fluorescent Nucleosides.Accounts of chemical research · 2024Article
- CRISPR-Cas9 recognition of enzymatically synthesized base-modified nucleic acids.Nucleic acids research · 2023Article
- Stealth Fluorescence Labeling for Live Microscopy Imaging of mRNA Delivery.Journal of the American Chemical Society · 2021Article
- Covalent labeling of nucleic acids.Chemical Society reviews · 2020Review
- Enzymatic Syntheses and Applications of Fluorescent Cyclic Dinucleotides.Chemistry (Weinheim an der Bergstrasse, Germany) · 2020Article
- Methionine Adenosyltransferase Engineering to Enable Bioorthogonal Platforms for AdoMet-Utilizing Enzymes.ACS chemical biology · 2020Article
- Nucleotide Analog ARL67156 as a Lead Structure for the Development of CD39 and Dual CD39/CD73 Ectonucleotidase Inhibitors.Frontiers in pharmacology · 2020Article
- Probing of Nucleic Acid Structures, Dynamics, and Interactions With Environment-Sensitive Fluorescent Labels.Frontiers in chemistry · 2020Review
- tRNA deamination by ADAT requires substrate-specific recognition mechanisms and can be inhibited by tRFs.RNA (New York, N.Y.) · 2019Article
- Emissive Synthetic Cofactors: A Highly Responsive NADChemistry (Weinheim an der Bergstrasse, Germany) · 2019Article
- Genetic basis of mycotoxin susceptibility differences between budding yeast isolates.Scientific reports · 2017Article
- Fluorescent RNA cytosine analogue - an internal probe for detailed structure and dynamics investigations.Scientific reports · 2017Article
- Expanding a fluorescent RNA alphabet: synthesis, photophysics and utility of isothiazole-derived purine nucleoside surrogates.Chemical science · 2017Article
- Polymerase-Mediated Site-Specific Incorporation of a Synthetic Fluorescent Isomorphic G Surrogate into RNA.Angewandte Chemie (International ed. in English) · 2017Article
- Enzymatic incorporation and utilization of an emissive 6-azauridine.Organic & biomolecular chemistry · 2017Article
- Chemical Mutagenesis of an Emissive RNA Alphabet.Journal of the American Chemical Society · 2015Article
- Development of bright fluorescent quadracyclic adenine analogues: TDDFT-calculation supported rational design.Scientific reports · 2015Article
- Cellular activity of siRNA oligonucleotides containing synthetic isomorphic nucleoside surrogates.Chemical communications (Cambridge, England) · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
The fastidious behavior of T7 RNA polymerase limits the incorporation of synthetic nucleosides into RNA transcripts, particularly at or near the promoter. The practically exclusive use of GTP for transcription initiation further compounds this challenge, and reactions with GTP analogs, where the heterocyclic nucleus has been altered, have not, to our knowledge, been demonstrated. The enzymatic incorporation of (th)GTP, a newly synthesized isomorphic fluorescent nucleotide with a thieno[3,4-d]pyrimidine core, is explored. The modified nucleotide can initiate and maintain transcription reactions, leading to the formation of fully modified and highly emissive RNA transcripts with (th)G replacing all guanosine residues. Short and long modified transcripts are synthesized in comparable yields to their natural counterparts. To assess proper folding and function, transcripts were used to assemble a hammerhead ribozyme with all permutations of natural and modified enzyme and substrate strands. The (th)G modified substrate was effectively cleaved by the natural RNA enzyme, demonstrating the isomorphic features of the nucleoside and its ability to replace G residues while retaining proper folding. In contrast, the (th)G modified enzyme showed little cleavage ability, suggesting the modifications likely disrupted the catalytic center, illustrating the significance of the Hoogsteen face in mediating appropriate contacts. Importantly, the ribozyme cleavage reaction of the emissive fluorescent transcripts could be followed in real time by fluorescence spectroscopy. Beyond their utility as fluorescent probes in biophysical and discovery assays, the results reported point to the potential utility of such isomorphic nucleosides in probing specific mechanistic questions in RNA catalysis and RNA structural analysis.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.