KRÄHENBÜHL, Barbara, Peter LUKAVSKY a Gerhard WIDER. Strategy for automated NMR resonance assignment of RNA: application to 48-nucleotide K10. Journal of Biomolecular NMR. Netherlands: Springer Netherlands, 2014, roč. 59, č. 4, s. 231-240. ISSN 0925-2738. Dostupné z: https://dx.doi.org/10.1007/s10858-014-9841-3.
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Základní údaje
Originální název Strategy for automated NMR resonance assignment of RNA: application to 48-nucleotide K10
Autoři KRÄHENBÜHL, Barbara (756 Švýcarsko), Peter LUKAVSKY (40 Rakousko, garant, domácí) a Gerhard WIDER (756 Švýcarsko).
Vydání Journal of Biomolecular NMR, Netherlands, Springer Netherlands, 2014, 0925-2738.
Další údaje
Originální jazyk angličtina
Typ výsledku Článek v odborném periodiku
Obor 10600 1.6 Biological sciences
Stát vydavatele Nizozemské království
Utajení není předmětem státního či obchodního tajemství
WWW URL
Impakt faktor Impact factor: 3.141
Kód RIV RIV/00216224:14740/14:00077315
Organizační jednotka Středoevropský technologický institut
Doi http://dx.doi.org/10.1007/s10858-014-9841-3
UT WoS 000339909200003
Klíčová slova anglicky Nucleic acids; NMR; Projection spectroscopy; APSY; Automated assignment; FLYA; Novel sampling methods
Štítky kontrola MP, MP, rivok
Příznaky Mezinárodní význam, Recenzováno
Změnil Změnila: Martina Prášilová, učo 342282. Změněno: 14. 11. 2014 12:38.
Anotace
A procedure is presented for automated sequence-specific assignment of NMR resonances of uniformly [C-13, N-15]-labeled RNA. The method is based on a suite of four through-bond and two through-space high-dimensional automated projection spectroscopy (APSY) experiments. The approach is exemplified with a 0.3 mM sample of an RNA stem-loop with 48 nucleotides, K10, which is responsible for dynein-mediated localization of Drosophila fs(1)K10 mRNA transcripts. The automated analysis of the APSY data led to highly accurate and precise 3- to 4-dimensional peak lists. They provided a reliable basis for the subsequent sequence-specific resonance assignment with the algorithm FLYA and resulted in the fully automated resonance assignment of more than 80 % of the resonances of the C-13-H-1 moieties at the 1', 2', 5, 6, and 8 positions in the nucleotides. The procedure was robust with respect to numerous impurity peaks, low concentration of this for NMR comparably large RNA, and structural features such as a loop, single-nucleotide bulges and a non-Watson-Crick wobble base pairs. Currently, there is no precise chemical shift statistics (as used by FLYA) for RNA regions which deviate from the regular A-form helical structure. Reliable and precise peak lists are thus required for automated sequence-specific assignment, as provided by APSY.
VytisknoutZobrazeno: 21. 5. 2024 13:12