Experiments for correlating quaternary carbons in RNA bases

Journal of Biomolecular NMR
Radovan FialaVladimír Sklenár

Abstract

The paper presents a set of triple-resonance two-dimensional experiments for correlating all quaternary carbons in RNA bases to one or more of the base protons. The experiments make use of either three-bond proton-carbon couplings and one selective INEPT step (the long-range selective HSQC experiment) to transfer the magnetization between a proton and the carbon of interest and back, or they rely on one- and/or two-bond heteronuclear (the H(CN)C and H(N)C experiments) or carbon-carbon (the H(C)C experiment) couplings and multiple INEPT transfer steps. The effect of the large one-bond carbon-carbon coupling in t(1) is removed by a constant time evolution or by a selective refocusing. The performance of the proposed approach is demonstrated on a 0.5 mM 25-mer RNA. The results show that the experiments are applicable to samples containing agents for weak molecular alignment. The design of the correlation experiments has been supported by ab initio calculations of scalar spin-spin couplings in the free bases and the AU and GC base pairs. The ab initio data reveal surprisingly high values of guanine (2)J(N1C5) and uracil (2)J(N3C5) couplings that are in a qualitative agreement with the experimental data. The sensitivity of the spin-...Continue Reading

Citations

Sep 1, 2005·Journal of Biomolecular NMR·Scott A ShowalterKathleen B Hall
Oct 8, 2005·Journal of Biomolecular NMR·Hélène Van MelckebekeBernhard Brutscher
Jul 26, 2006·Journal of Biomolecular NMR·Peter V CornishMirko Hennig
Aug 19, 2007·Journal of Biomolecular NMR·Radovan Fiala, Vladimír Sklenár
Oct 15, 2008·Journal of Biomolecular NMR·Eva BrumovskáLukás Trantírek
Dec 11, 2008·Journal of Biomolecular NMR·Michael P Latham, Arthur Pardi
Jan 29, 2014·Proceedings of the National Academy of Sciences of the United States of America·Mijeong KangJuli Feigon
Sep 3, 2005·Chembiochem : a European Journal of Chemical Biology·Michael P LathamArthur Pardi
Aug 18, 2012·Chemistry : a European Journal·Judith M FonvilleSybren S Wijmenga
Nov 28, 2014·Nucleic Acids Research·Martin BabinskýMichaela Vorlíčková
May 13, 2010·Journal of the American Chemical Society·Yan XuMakoto Komiyama
Oct 11, 2017·Physical Chemistry Chemical Physics : PCCP·Fernando A Martínez, Gustavo A Aucar
Dec 7, 2007·Journal of the American Chemical Society·Christophe FarèsTeresa Carlomagno
Dec 7, 2006·Journal of the American Chemical Society·Izabela Tworowska, Edward P Nikonowicz

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.