RNA structures are significantly underrepresented in public repositories (~ 100-fold compared to proteins) despite their importance for mechanistic understanding and for development of structure prediction/validation tools. A substantial portion of deposited RNA structures have been determined by NMR (~ 30%), but most comprise fewer than 60 nucleotides due to complications associated with NMR signal overlap. A promising approach for applying NMR to larger RNAs involves use of a mutated DNA...
E. coli â??Stablelabelâ?? S30 lysate for optimized cell-free NMR sample preparation
E. coli â??Stablelabelâ?? S30 lysate for optimized cell-free NMR sample preparation
Abstract
Cell-free (CF) synthesis with highly productive E. coli lysates is a convenient method to produce labeled proteins for NMR studies. Despite reduced metabolic activity in CF lysates, a certain scrambling of supplied isotope labels is still notable. Most problematic are conversions of 15N labels of the amino acids L-Asp, L-Asn, L-Gln, L-Glu and L-Ala, resulting in ambiguous NMR signals as well as in label dilution. Specific inhibitor cocktails suppress most...
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06-14-2023 10:14 PM
NMR probing of invisible excited states using selectively labeled RNAs
NMR probing of invisible excited states using selectively labeled RNAs
Abstract
Carrâ??Purcellâ??Meiboomâ??Gill (CPMG) relaxation dispersion NMR experiments are invaluable for probing sparsely and transiently populated biomolecular states that cannot be directly detected by traditional NMR experiments and that are invisible by other biophysical approaches. A notable gap for RNA is the absence of CPMG experiments for measurement of methine base 1H and methylene C5â?² chemical shifts of ribose moieties in the excited state, partly because of...
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06-02-2018 12:51 AM
[NMR paper] Filamentous Bacteriophage Viruses: Preparation, Magic-Angle Spinning Solid-State NMR Experiments, and Structure Determination.
Filamentous Bacteriophage Viruses: Preparation, Magic-Angle Spinning Solid-State NMR Experiments, and Structure Determination.
http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--production.springer.de-OnlineResources-Logos-springerlink.gif Related Articles Filamentous Bacteriophage Viruses: Preparation, Magic-Angle Spinning Solid-State NMR Experiments, and Structure Determination.
Methods Mol Biol. 2018;1688:67-97
Authors: Morag O, Sgourakis NG, Abramov G, Goldbourt A
Abstract
Filamentous bacteriophages are...
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11-21-2017 10:10 PM
[NMR paper] Untangling a Repetitive Amyloid Sequence: Correlating Biofilm-Derived and Segmentally Labeled Curli Fimbriae by Solid-State NMR Spectroscopy.
Untangling a Repetitive Amyloid Sequence: Correlating Biofilm-Derived and Segmentally Labeled Curli Fimbriae by Solid-State NMR Spectroscopy.
Related Articles Untangling a Repetitive Amyloid Sequence: Correlating Biofilm-Derived and Segmentally Labeled Curli Fimbriae by Solid-State NMR Spectroscopy.
Angew Chem Int Ed Engl. 2015 Oct 16;
Authors: Schubeis T, Yuan P, Ahmed M, Nagaraj M, van Rossum BJ, Ritter C
Abstract
Curli are functional bacterial amyloids produced by an intricate biogenesis machinery. Insights into their...
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10-17-2015 03:40 PM
High resolution 4D HPCH experiment for sequential assignment of 13 C-labeled RNAs via phosphodiester backbone
High resolution 4D HPCH experiment for sequential assignment of 13 C-labeled RNAs via phosphodiester backbone
Abstract
The three-dimensional structure determination of RNAs by NMR spectroscopy requires sequential resonance assignment, often hampered by assignment ambiguities and limited dispersion of 1H and 13C chemical shifts, especially of C4â?²/H4â?². Here we present a novel through-bond 4D HPCH NMR experiment involving phosphate backbone where C4â?²â??H4â?² correlations are resolved along the 1H3â?²â??31P spectral planes. The experiment provides...
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09-27-2015 03:49 PM
C4â?²/H4â?² selective, non-uniformly sampled 4D HC(P)CH experiment for sequential assignments of 13C-labeled RNAs
C4â?²/H4â?² selective, non-uniformly sampled 4D HC(P)CH experiment for sequential assignments of 13C-labeled RNAs
Abstract
A through bond, C4â?²/H4â?² selective, â??out and stayâ?? type 4D HC(P)CH experiment is introduced which provides sequential connectivity via H4â?²(i)â??C4â?²(i)â??C4â?²(iâ??1)â??H4â?²(iâ??1) correlations. The 31P dimension (used in the conventional 3D HCP experiment) is replaced with evolution of better dispersed C4â?² dimension. The experiment fully utilizes 13C-labeling of RNA by inclusion of two C4â?² evolution periods. An...
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09-11-2014 12:06 AM
[NMR paper] Preparation and characterization of a uniformly 2 H/ 15 N-labeled RNA oligonucleotide
Preparation and characterization of a uniformly 2 H/ 15 N-labeled RNA oligonucleotide for NMR studies.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--highwire.stanford.edu-icons-externalservices-pubmed-custom-oxfordjournals_final_free.gif http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.pubmedcentral.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles Preparation and characterization of a uniformly 2 H/ 15 N-labeled RNA oligonucleotide for NMR studies.
Nucleic Acids Res. 1997 Apr 1;25(7):1390-6
Authors: Nikonowicz EP,...
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08-22-2010 03:31 PM
[NMR paper] Preparation and characterization of a uniformly 2 H/ 15 N-labeled RNA oligonucleotide
Preparation and characterization of a uniformly 2 H/ 15 N-labeled RNA oligonucleotide for NMR studies.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--highwire.stanford.edu-icons-externalservices-pubmed-custom-oxfordjournals_final_free.gif http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.pubmedcentral.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles Preparation and characterization of a uniformly 2 H/ 15 N-labeled RNA oligonucleotide for NMR studies.
Nucleic Acids Res. 1997 Apr 1;25(7):1390-6
Authors: Nikonowicz EP,...
Optimized Preparation of Segmentally Labeled RNAs for NMR Structure Determination
Linear Mode
