Detailed Information on Publication Record
2006
NMR Distance Restraints At Low Temperatures: Application To DNA Hairpin
MATEJKOVÁ, Michaela, Petr NOVÁK, Radovan FIALA, Petr PADRTA, Vladimír SKLENÁŘ et. al.Basic information
Original name
NMR Distance Restraints At Low Temperatures: Application To DNA Hairpin
Name in Czech
Měření a extrakce experimentálních dat z NMR spekter za nízkých teplot : Aplikace metody pro DNA hairpin
Authors
MATEJKOVÁ, Michaela, Petr NOVÁK, Radovan FIALA, Petr PADRTA and Vladimír SKLENÁŘ
Edition
Les Houches, France, International school on High field NMR spectroscopy for solids and liquids, p. 45-45, 1 pp. 2006
Publisher
Physics Centre, Les Houches
Other information
Language
English
Type of outcome
Stať ve sborníku
Field of Study
10600 1.6 Biological sciences
Country of publisher
France
Confidentiality degree
není předmětem státního či obchodního tajemství
Organization unit
Faculty of Science
Keywords in English
NMR;nucleic acid structure;DNA
Tags
Změněno: 6/7/2007 09:44, RNDr. JUDr. Vladimír Šmíd, CSc.
V originále
Number of the experimental NMR distance restraints extracted at the ambient temperature is remarkably decreased by an internal mobility in a molecule, mostly chemical exchange. This problem can be avoided by NMR measurements at lower temperatures. To achieve the lowest temperature while keeping the liquid state and minimize the chemical exchange, the NMR experiments can be performed using the slowly cooled capillaries. The aim of the present study is to investigate possibilities of NMR measurements in liquid state at the temperatures below 273 K and applicability of this approach to a nucleic acid fragment. For this purpose, the d(GCGAAGC) hairpin has been chosen because its structure has been previously solved precisely by NMR spectroscopy. We have performed a new structure calculation of this molecule using the low temperature NMR measurements and compared the precision of the newly calculated and known structures. A series of the 2D-NOESY spectra with the mixing times in a range of 50 to 400 ms has been measured at 268K. The NOESY cross-peaks for the different mixing times were integrated using the SPARKY program and the results were employed to derive the inter-proton distance restraints. Then, the numbers of distance restraints extracted at 268 K and 303 K were compared. In case of nonexchangeable protons, these numbers were comparable due to the significant spectral overlaps in the NOESY spectra measured at 268 K. While, there was almost twice higher number of exchangeable proton distances extracted at 268 K compared to 303 K and these restraints helped increase the precision of the calculated structure of the d(GCGAAGC).
In Czech
Cílem této studie bylo porovnat množství experimentálních dat získaných z NMR spekter hairpinu d(GCGAAGC), změřených při teplotách 303K a 268K. Při teplotách pod 273K dochází k spomalení chemické výměny a intramolekulárních pohybů, čímž se zvýší množství experimentálních NMR dat oproti situaci při běžné teplotě. To to se potrvdilo i v případě našeho vzorku.
Links
| GD204/03/H016, research and development project |
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| LC06030, research and development project |
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| MSM0021622413, plan (intention) |
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