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Solution structure of microRNA 20b pre-element
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 1 mM miR-20b, 10 mM sodium phosphate, 20 mM sodium chloride 90% H2O/10% D2O 6.5 ambient atm 279 2 2D 1H-1H NOESY 1 mM miR-20b, 10 mM sodium phosphate, 20 mM sodium chloride 100% D2O 6.5 ambient atm 298 3 2D 1H-1H TOCSY 1 mM miR-20b, 10 mM sodium phosphate, 20 mM sodium chloride 100% D2O 6.5 ambient atm 298 4 2D 1H-13C HSQC 1 mM [U-99% 13C; U-99% 15N] miR-20b, 10 mM sodium phosphate, 20 mM sodium chloride 100% D2O 6.5 ambient atm 298 5 3D 1H-13C NOESY 1 mM [U-99% 13C; U-99% 15N] miR-20b, 10 mM sodium phosphate, 20 mM sodium chloride 100% D2O 6.5 ambient atm 298 6 2D 1H-15N HSQC 1 mM [U-99% 13C; U-99% 15N] miR-20b, 10 mM sodium phosphate, 20 mM sodium chloride 90% H2O/10% D2O 6.5 ambient atm 279
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 600 2 Bruker AVANCE 800
NMR Refinement Method Details Software restrained simulated annealing TopSpin
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 20 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 collection TopSpin Bruker Biospin 2 structure solution CYANA Guntert, Mumenthaler and Wuthrich 3 chemical shift assignment CcpNMR CCPN 4 peak picking CcpNMR CCPN 5 data analysis CcpNMR CCPN 6 refinement Amber Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman 7 processing NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 8 geometry optimization TALOS Cornilescu, Delaglio and Bax