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NMR structure of the P4 hairpin of the CPEB3 ribozyme
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 0.7-0.8 mM RNA (natural abundance) 10% D2O/90% H2O 50 6.8 ambient 298 2 2D 1H-1H NOESY 0.7-0.8 mM RNA (natural abundance) 10% D2O/90% H2O 50 6.8 ambient 298 3 2D 1H-1H TOCSY 0.7-0.8 mM RNA (natural abundance) 10% D2O/90% H2O 50 6.8 ambient 298 4 2D 1H-1H NOESY 0.7-0.8 mM RNA (natural abundance) 100% D2O 50 6.8 ambient 298 5 2D 1H-1H NOESY 0.7-0.8 mM RNA (natural abundance) 100% D2O 50 6.8 ambient 298 6 1D 31P 0.7-0.8 mM RNA (natural abundance) 10% D2O/90% H2O 50 6.8 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 700 2 Bruker AVANCE 600 3 Bruker AVANCE 500
NMR Refinement Method Details Software molecular dynamics DYANA
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 150 Conformers Submitted Total Number 15 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 structure solution DYANA 1.5 Guntert, Braun and Wuthrich 2 structure solution CNS 1.2 Brunger, Adams, Clore, Gros, Nilges and Read 3 refinement X-PLOR NIH 2.3 Schwieters, Kuszewski, Tjandra and Clore 4 data analysis TopSpin 3.0 Bruker Biospin 5 peak picking Sparky Goddard 6 collection TopSpin 3.0 Bruker Biospin 7 processing TopSpin 3.0 Bruker Biospin