Related ArticlesCharacterization of G-Quadruplex/Hairpin Transitions of RNAs by (19) F NMR Spectroscopy.
Chemistry. 2016 Sep 7;
Authors: Granqvist L, Virta P
Abstract
2'-O-[(4-Trifluoromethyl-triazol-1-yl)methyl] reporter groups have been incorporated into guanosine-rich RNA models (including a known bistable Qd/Hp RNA and two G-rich regions of mRNA of human prion protein, PrP) and applied for the (19) F NMR spectroscopic characterization of plausible G-quadruplex/hairpin (Qd/Hp) transitions in these RNA structures. For the synthesis of the CF3 -labeled RNAs, phosphoramidite building blocks of 2'-O-[(4-CF3 -triazol-1-yl)methyl] nucleosides (cytidine, adenosine, and guanosine) were prepared and used as an integral part of the standard solid-phase RNA synthesis. The obtained (19) F NMR spectra supported the usual characterization data (obtained by UV- and CD-melting profiles and by (1) H NMR spectra of the imino regions) and additionally gave more detailed information on the Qd/Hp transitions. The molar fractions of the secondary structural species (Qd, Hp) upon thermal denaturation and under varying ionic conditions could be determined from the intensities and shifts of the (19) F NMR signals. For a well-behaved Qd/Hp transition, thermodynamic parameters could be extracted.
PMID: 27603896 [PubMed - as supplied by publisher]
[NMR paper] NMR Structure of a Triangulenium-Based Long-Lived Fluorescence Probe Bound to a G-Quadruplex
NMR Structure of a Triangulenium-Based Long-Lived Fluorescence Probe Bound to a G-Quadruplex
An NMR structural study of the interaction between a small-molecule optical probe (DAOTA-M2) and a G-quadruplex from the promoter region of the c-myc oncogene revealed that they interact at 1:2 binding stoichiometry. NMR-restrained structural calculations show that binding of DAOTA-M2 occurs mainly through ?–? stacking between the polyaromatic core of the ligand and guanine residues of the outer G-quartets. Interestingly, the binding affinities of DAOTA-M2 differ by a factor of two for the outer...
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09-22-2016 06:24 AM
[NMR paper] Tracking Transitions in Spider Wrapping Silk Conformation and Dynamics by (19)F-NMR Spectroscopy.
Tracking Transitions in Spider Wrapping Silk Conformation and Dynamics by (19)F-NMR Spectroscopy.
Tracking Transitions in Spider Wrapping Silk Conformation and Dynamics by (19)F-NMR Spectroscopy.
Biochemistry. 2016 May 6;
Authors: Sarker M, Orrell KE, Xu L, Tremblay ML, Bak JJ, Liu XQ, Rainey JK
Abstract
Aciniform silk protein (AcSp1) is the primary component of wrapping silk, the toughest of the spider silks due to combined high tensile strength and extensibility. Argiope trifasciata AcSp1 contains a core repetitive domain with...
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05-07-2016 06:32 PM
19 F-labeling of the adenine H2-site to study large RNAs by NMR spectroscopy
19 F-labeling of the adenine H2-site to study large RNAs by NMR spectroscopy
Abstract
In comparison to proteins and protein complexes, the size of RNA amenable to NMR studies is limited despite the development of new isotopic labeling strategies including deuteration and ligation of differentially labeled RNAs. Due to the restricted chemical shift dispersion in only four different nucleotides spectral resolution remains limited in larger RNAs. Labeling RNAs with the NMR-active nucleus 19F has previously been introduced for small RNAs up to 40...
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12-28-2015 12:26 AM
[NMR paper] (19)F-labeling of the adenine H2-site to study large RNAs by NMR spectroscopy.
(19)F-labeling of the adenine H2-site to study large RNAs by NMR spectroscopy.
Related Articles (19)F-labeling of the adenine H2-site to study large RNAs by NMR spectroscopy.
J Biomol NMR. 2015 Dec 24;
Authors: Sochor F, Silvers R, Müller D, Richter C, Fürtig B, Schwalbe H
Abstract
In comparison to proteins and protein complexes, the size of RNA amenable to NMR studies is limited despite the development of new isotopic labeling strategies including deuteration and ligation of differentially labeled RNAs. Due to the restricted...
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12-28-2015 12:26 AM
[NMR paper] NMR Analysis of Tuning Cross-Strand Phe/Tyr/Trp - Trp Interactions in Designed ?-Hairpin Peptides: Terminal Switch from L- to D-Amino Acid as a Strategy for ?-Hairpin Capping.
NMR Analysis of Tuning Cross-Strand Phe/Tyr/Trp - Trp Interactions in Designed ?-Hairpin Peptides: Terminal Switch from L- to D-Amino Acid as a Strategy for ?-Hairpin Capping.
Related Articles NMR Analysis of Tuning Cross-Strand Phe/Tyr/Trp - Trp Interactions in Designed ?-Hairpin Peptides: Terminal Switch from L- to D-Amino Acid as a Strategy for ?-Hairpin Capping.
J Phys Chem B. 2015 Apr 7;
Authors: Makwana KM, Mahalakshmi R
Abstract
Interaction among the side chains of aromatic amino acids is a well-known mechanism of protein...
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04-09-2015 03:47 AM
[NMR paper] Direct Observation of Ca(2+) -Induced Calmodulin Conformational Transitions in Intact Xenopus laevis Oocytes by (19) F NMR Spectroscopy.
Direct Observation of Ca(2+) -Induced Calmodulin Conformational Transitions in Intact Xenopus laevis Oocytes by (19) F NMR Spectroscopy.
http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--media.wiley.com-assets-2250-98-WileyOnlineLibrary_FullTextOnline_120x27.gif Related Articles Direct Observation of Ca(2+) -Induced Calmodulin Conformational Transitions in Intact Xenopus laevis Oocytes by (19) F NMR Spectroscopy.
Angew Chem Int Ed Engl. 2015 Mar 5;
Authors: Ye Y, Liu X, Xu G, Liu M, Li C
Abstract
The...
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03-11-2015 09:59 PM
Investigating the Structural Dynamics Transitions of Human Adipocyte Fatty Acid Binding Protein by NMR Spectroscopy
Investigating the Structural Dynamics Transitions of Human Adipocyte Fatty Acid Binding Protein by NMR Spectroscopy
Publication date: 27 January 2015
Source:Biophysical Journal, Volume 108, Issue 2, Supplement 1</br>
Author(s): Kim N. Ha , Youlin Xia , Yenchi Tran , Adedolapo Ojoawo , Gianluigi Veglia , David A. Bernlohr</br>
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01-28-2015 05:28 PM
High-Pressure in Situ 129Xe NMR Spectroscopy and Computer Simulations of Breathing Transitions in the Metal–Organic Framework Ni2(2,6-ndc)2(dabco) (DUT-8(Ni))
High-Pressure in Situ 129Xe NMR Spectroscopy and Computer Simulations of Breathing Transitions in the Metal–Organic Framework Ni2(2,6-ndc)2(dabco) (DUT-8(Ni))
Herbert C. Hoffmann, Bassem Assfour, Fanny Epperlein, Nicole Klein, Silvia Paasch, Irena Senkovska, Stefan Kaskel, Gotthard Seifert and Eike Brunner
http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/ja201951t/aop/images/medium/ja-2011-01951t_0001.gif
Journal of the American Chemical Society
DOI: 10.1021/ja201951t
http://feeds.feedburner.com/~ff/acs/jacsat?d=yIl2AUoC8zA...
Characterization of G-Quadruplex/Hairpin Transitions of RNAs by (19) F NMR Spectroscopy.
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