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Solution structure of 7SK stem-loop 1
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 0.5 mM 7SK RNA, 10mM Phosphate, 70mM NaCl, 0.1mM EDTA, 90%H2O/10%D2O 90% H2O/10% D2O 10mM Phosphate, 70mM NaCl mM 5.4 100000 Pa 283 Bruker DMX 700 2 2D 1H-15N HSQC 0.5 mM [U-13C; U-15N] 7SK RNA, 10mM Phosphate, 70mM NaCl, 0.1mM EDTA, 90%H2O/10%D2O 90% H2O/10% D2O 10mM Phosphate, 70mM NaCl mM 5.4 100000 Pa 283 Bruker DMX 700 3 2D 1H-13C HSQC 0.5 mM [U-13C; U-15N] 7SK RNA, 10mM Phosphate, 70mM NaCl, 0.1mM EDTA 100% D2O 10mM Phosphate, 70mM NaCl mM 5.4 100000 Pa 283 Bruker DMX 700 4 2D 1H-1H NOESY 0.5 mM 7SK RNA, 10mM Phosphate, 70mM NaCl, 0.1mM EDTA 100% D2O 10mM Phosphate, 70mM NaCl mM 5.4 100000 Pa 283 Bruker DMX 700
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker DMX 700
NMR Refinement Method Details Software simulated annealing Amber
NMR Ensemble Information Conformer Selection Criteria target function Conformers Calculated Total Number 20 Conformers Submitted Total Number 10 Representative Model 1 (target function)
Computation: NMR Software # Classification Version Software Name Author 1 collection TopSpin Bruker Biospin 2 peak picking NMRView Johnson, One Moon Scientific 3 chemical shift assignment NMRView Johnson, One Moon Scientific 4 data analysis CYANA Guntert, Mumenthaler and Wuthrich 5 processing CYANA Guntert, Mumenthaler and Wuthrich 6 structure calculation CYANA Guntert, Mumenthaler and Wuthrich 7 refinement Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, and Kollman