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Solution structure of the RNA helix formed by the 5'-end of U1 snRNA and an A-1 bulged 5'-splice site in complex with SMN-CY
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H TOCSY 1 mM unlableled RNA helix, 1.5 mM unlabeld SMN-CY, 10 mM deuterated MES, 50 mM unlabeld sodium chloride 100% D2O 50 mM 5.5 atm atm 293 Bruker AVIII 700 2 2D 1H-1H NOESY 1 mM unlableled RNA helix, 1.5 mM unlabeld SMN-CY, 10 mM deuterated MES, 50 mM unlabeld sodium chloride 100% D2O 50 mM 5.5 atm atm 293 Bruker AVIII 900 3 2D 1H-13C HSQC 1 mM unlableled RNA helix, 1.5 mM unlabeld SMN-CY, 10 mM deuterated MES, 50 mM unlabeld sodium chloride 100% D2O 50 mM 5.5 atm atm 293 Bruker AVIII 700 4 2D 1H-1H COSY 1 mM unlableled RNA helix, 1.5 mM unlabeld SMN-CY, 10 mM deuterated MES, 50 mM unlabeld sodium chloride 100% D2O 50 mM 5.5 atm atm 293 Bruker AVIII 700
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVIII 900 2 Bruker AVIII 700
NMR Refinement Method Details Software simulated annealing Amber molecular dynamics Amber
NMR Ensemble Information Conformer Selection Criteria structures with acceptable covalent geometry Conformers Calculated Total Number 20 Conformers Submitted Total Number 14 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 refinement Amber 22 Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman 2 structure calculation CYANA 3.98 Guntert, Mumenthaler and Wuthrich 3 chemical shift assignment CARA Keller and Wuthrich 4 peak picking CARA Keller and Wuthrich 5 data analysis Amber 22 Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman