Literature DB >> 6195595

Carbon-13 NMR in conformational analysis of nucleic acid fragments. Heteronuclear chemical shift correlation spectroscopy of RNA constituents.

P P Lankhorst, C Erkelens, C A Haasnoot, C Altona.   

Abstract

The assignment of the non-quaternary 13C resonances by means of two-dimensional heteronuclear chemical shift correlation spectroscopy is presented for several oligoribonucleotides: The dimers m6(2)AU, m6(2)Am6(2)A and mpUm6(2)A and the trimers m6(2)AUm6(2)A and m4(2)Cm4(2)Cm6(2)A. The temperature and concentration dependency of the 13C chemical shifts are studied with emphasis on the behaviour of the dimer m6(2)AU. The present study shows that in the 5-50 mM range the concentration-dependent chemical shift changes of the ribose carbons are negligible compared to chemical shift changes due to intramolecular events. All compounds studied show a surprising correlation between the chemical shifts of the carbon atoms of the ribose ring and the sugar conformational equilibrium as expressed by the percentage N or S conformer. Thus the chemical shift data can be used to obtain the thermodynamical parameters of the two-state N/S equilibrium. Parameters deduced for m6(2)AU are Tm = 306 K and delta S = -25 cal mol-1 K-1, which values are in satisfactory agreement with results obtained earlier from 1H NMR and from Circular Dichroism.

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Year:  1983        PMID： 6195595      PMCID： PMC326457          DOI： 10.1093/nar/11.20.7215

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


  11 in total

1.  Conformational properties of the furanose phosphate backbone in nucleic acids. A carbon-13 nuclear magnetic resonance study.

Authors:  J L Alderfer; P O Ts'o
Journal:  Biochemistry       Date:  1977-05-31       Impact factor: 3.162

2.  A 13 C and 1 H nuclear magnetic resonance study of the conformations of 2',3'-cyclic nucleotides.

Authors:  R D Lapper; I C Smith
Journal:  J Am Chem Soc       Date:  1973-05-02       Impact factor: 15.419

3.  Conformational analysis of the sugar ring in nucleosides and nucleotides. Improved method for the interpretation of proton magnetic resonance coupling constants.

Authors:  C Altona; M Sundaralingam
Journal:  J Am Chem Soc       Date:  1973-04-04       Impact factor: 15.419

4.  Fourier-transformed 13 C NMR spectra of polyuridylic acid, uridine, and related nucleotides--the use of 31 POC 13 C couplings for conformational analysis.

Authors:  H H Mantsch; I C Smith
Journal:  Biochem Biophys Res Commun       Date:  1972-01-31       Impact factor: 3.575

5.  Conformational analysis of the sugar ring in nucleosides and nucleotides. A new description using the concept of pseudorotation.

Authors:  C Altona; M Sundaralingam
Journal:  J Am Chem Soc       Date:  1972-11-15       Impact factor: 15.419

6.  Nuclear magnetic resonance spectroscopy: 13C spectra of some common nucleotides.

Authors:  D E Dorman; J D Roberts
Journal:  Proc Natl Acad Sci U S A       Date:  1970-01       Impact factor: 11.205

7.  Proton NMR studies on the covalently linked RNA-DNA hybrid r(GCG)d(TATACGC). Assignment of proton resonances by application of the nuclear Overhauser effect.

Authors:  J R Mellema; C A Haasnoot; G A van der Marel; G Wille; C A van Boeckel; J H van Boom; C Altona
Journal:  Nucleic Acids Res       Date:  1983-08-25       Impact factor: 16.971

8.  Influence of the 2'-hydroxyl group and of 6-N-methylation on the conformation of adenine dinucleoside monophosphates in solution. A nuclear magnetic resonance and circular dichroism study.

Authors:  C S Olsthoorn; J Doornbos; H P de Leeuw; C Altona
Journal:  Eur J Biochem       Date:  1982-07

9.  Thermodynamics of stacking and of self-association of the dinucleoside monophosphate m2(6)A-U from proton NMR chemical shifts: differential concentration temperature profile method.

Authors:  A J Hartel; P P Lankhorst; C Altona
Journal:  Eur J Biochem       Date:  1982-12-15

10.  Circular dichroism studies of 6-N-methylated adenylyladenosine and adenylyluridine and their parent compounds. Thermodynamics of stacking.

Authors:  C S Olsthoorn; C A Haasnoot; C Altona
Journal:  Eur J Biochem       Date:  1980-05
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  7 in total

1.  Heteronuclear NMR of DNA with the heteronucleus in natural abundance: facilitated assignment and extraction of coupling constants.

Authors:  P Schmieder; J H Ippel; H van den Elst; G A van der Marel; J H van Boom; C Altona; H Kessler
Journal:  Nucleic Acids Res       Date:  1992-09-25       Impact factor: 16.971

2.  Carbon-13 NMR in conformational analysis of nucleic acid fragments. 3. The magnitude of torsional angle epsilon in d(TpA) from CCOP and HCOP NMR coupling constants.

Authors:  P P Lankhorst; C A Haasnoot; C Erkelens; C Altona
Journal:  Nucleic Acids Res       Date:  1984-07-11       Impact factor: 16.971

3.  Carbon-13 NMR in conformational analysis of nucleic acid fragments. 4. The torsion angle distribution about the C3'-O3' bond in DNA constituents.

Authors:  P P Lankhorst; C A Haasnoot; C Erkelens; H P Westerink; G A van der Marel; J H van Boom; C Altona
Journal:  Nucleic Acids Res       Date:  1985-02-11       Impact factor: 16.971

Review 4.  Magic angle spinning NMR of viruses.

Authors:  Caitlin M Quinn; Manman Lu; Christopher L Suiter; Guangjin Hou; Huilan Zhang; Tatyana Polenova
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2015-02-16       Impact factor: 9.795

5.  Influence of the glycosidic torsion angle on 13C and 15N shifts in guanosine nucleotides: investigations of G-tetrad models with alternating syn and anti bases.

Authors:  K L Greene; Y Wang; D Live
Journal:  J Biomol NMR       Date:  1995-06       Impact factor: 2.835

6.  Synthesis, complete 1H assignments and conformations of the self-complementary hexadeoxyribonucleotide [d(CpGpApTpCpG)]2 and its fragments by high field NMR.

Authors:  J W Lown; C C Hanstock; R C Bleackley; J L Imbach; B Rayner; J J Vasseur
Journal:  Nucleic Acids Res       Date:  1984-03-12       Impact factor: 16.971

7.  Assignment of the 13C nuclear magnetic resonance spectrum of a short DNA-duplex with 1H-detected two-dimensional heteronuclear correlation spectroscopy.

Authors:  W Leupin; G Wagner; W A Denny; K Wüthrich
Journal:  Nucleic Acids Res       Date:  1987-01-12       Impact factor: 16.971
  7 in total

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