Literature DB >> 3347496

Synthesis of a thymidine phosphoramidite labelled with 13C at C6: relaxation studies of the loop region in a 13C labelled DNA hairpin.

J R Williamson1, S G Boxer.   

Abstract

A thymidine phosphoramidite labelled at C6 with 13C has been synthesized, and incorporated into a synthetic oligonucleotide, d(CGCGT*T*GT*T*CGCG), which adopts a hairpin conformation. NMR relaxation measurements indicate that internal motion may be present in the loop region of the oligonucleotide. The relaxation behavior of a the C6 carbon in a model compound, N,N-1,3 dimethylthymine is examined in detail as a function of magnetic field strength to determine relative contributions of various mechanisms to the relaxation. The relaxation behaviour of the labelled carbons in the oligonucleotide is discussed in relation to these measurements.

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Year:  1988        PMID： 3347496      PMCID： PMC336332          DOI： 10.1093/nar/16.4.1529

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  9 in total

1.  Complete nuclear magnetic resonance signal assignments and initial structural studies of [13C]methyl-enriched yeast transfer ribonucleic acid.

Authors:  P F Agris; S A Kovacs; C Smith; R A Kopper; P G Schmidt
Journal:  Biochemistry       Date:  1983-03-15       Impact factor: 3.162

2.  An investigation by 1H NMR spectroscopy into the factors determining the beta:alpha ratio of the product in 2'-deoxynucleoside synthesis.

Authors:  A J Hubbard; A S Jones; R T Walker
Journal:  Nucleic Acids Res       Date:  1984-09-11       Impact factor: 16.971

3.  Carbon 13 spin-lattice relaxation, linewidth, and nuclear Overhauser enhancement measurements of nucleosome length DNA.

Authors:  G C Levy; P R Hilliard; L F Levy; R L Rill; R Inners
Journal:  J Biol Chem       Date:  1981-10-10       Impact factor: 5.157

4.  Polymer support oligonucleotide synthesis XVIII: use of beta-cyanoethyl-N,N-dialkylamino-/N-morpholino phosphoramidite of deoxynucleosides for the synthesis of DNA fragments simplifying deprotection and isolation of the final product.

Authors:  N D Sinha; J Biernat; J McManus; H Köster
Journal:  Nucleic Acids Res       Date:  1984-06-11       Impact factor: 16.971

5.  Internal dynamics of transfer ribonucleic acid determined by nuclear magnetic resonance of carbon-13-enriched ribose carbon 1.

Authors:  P G Schmidt; T Playl; P F Agris
Journal:  Biochemistry       Date:  1983-03-15       Impact factor: 3.162

6.  Natural abundance carbon-13 nuclear magnetic resonance studies of histone and DNA dynamics in nucleosome cores.

Authors:  P R Hilliard; R M Smith; R L Rill
Journal:  J Biol Chem       Date:  1986-05-05       Impact factor: 5.157

7.  Nuclear magnetic resonance signal assignments of purified [13C]methyl-enriched yeast phenylalanine transfer ribonucleic acid.

Authors:  C Smith; P G Schmidt; J Petsch; P F Agris
Journal:  Biochemistry       Date:  1985-03-12       Impact factor: 3.162

8.  Conformation and dynamics of short DNA duplexes: (dC-dG)3 and (dC-dG)4.

Authors:  P N Borer; N Zanatta; T A Holak; G C Levy; J H van Boom; A H Wang
Journal:  J Biomol Struct Dyn       Date:  1984-06

9.  Carbon-13 NMR relaxation studies of pre-melt structural dynamics in [4-13C-uracil] labeled E. coli transfer RNAIVal.

Authors:  J I Olsen; M P Schweizer; I J Walkiw; W D Hamill; W J Horton; D M Grant
Journal:  Nucleic Acids Res       Date:  1982-07-24       Impact factor: 16.971
  9 in total
  6 in total

1.  Selectively 13C-enriched DNA: evidence from 13C1' relaxation rate measurements of an internal dynamics sequence effect in the lac operator.

Authors:  F Paquet; F Gaudin; G Lancelot
Journal:  J Biomol NMR       Date:  1996-10       Impact factor: 2.835

2.  Structure of a small RNA hairpin.

Authors:  P W Davis; W Thurmes; I Tinoco
Journal:  Nucleic Acids Res       Date:  1993-02-11       Impact factor: 16.971

3.  Preparation and heteronuclear 2D NMR spectroscopy of a DNA dodecamer containing a thymidine residue with a uniformly 13C-labeled deoxyribose ring.

Authors:  A Ono; S Tate; Y Ishido; M Kainosho
Journal:  J Biomol NMR       Date:  1994-07       Impact factor: 2.835

4.  Synthesis and incorporation of 13C-labeled DNA building blocks to probe structural dynamics of DNA by NMR.

Authors:  Felix Nußbaumer; Michael Andreas Juen; Catherina Gasser; Johannes Kremser; Thomas Müller; Martin Tollinger; Christoph Kreutz
Journal:  Nucleic Acids Res       Date:  2017-09-06       Impact factor: 16.971

Review 5.  Isotope Labels Combined with Solution NMR Spectroscopy Make Visible the Invisible Conformations of Small-to-Large RNAs.

Authors:  Theodore K Dayie; Lukasz T Olenginski; Kehinde M Taiwo
Journal:  Chem Rev       Date:  2022-04-20       Impact factor: 72.087

6.  Preparation of selective and segmentally labeled single-stranded DNA for NMR by self-primed PCR and asymmetrical endonuclease double digestion.

Authors:  Frank H T Nelissen; Frederic C Girard; Marco Tessari; Hans A Heus; Sybren S Wijmenga
Journal:  Nucleic Acids Res       Date:  2009-06-24       Impact factor: 16.971
  6 in total

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