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L12 G-quadruplex-forming aptamer targeting HMGB1 protein
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 1.0 mM DNA (26-MER), 20 mM potassium phosphate, 100 mM KCl 90% H2O/10% D2O 120 mM 7.0 1 bar 298 Bruker AVANCE NEO 600 2 2D 1H-1H NOESY 1.0 mM DNA (26-MER), 20 mM potassium phosphate, 100 mM KCl 90% H2O/10% D2O 120 mM 7.0 1 bar 298 Bruker AVANCE NEO 800 3 2D 1H-15N HSQC 0.2 mM NA-95%,U-5% 13C, U-5% 15N DNA (26-MER), 20 mM potassium phosphate, 100 mM KCl 90% H2O/10% D2O 120 mM 7.0 1 bar 298 Bruker AVANCE NEO 600
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE NEO 600 2 Bruker AVANCE NEO 800
NMR Refinement Method Details Software simulated annealing Amber
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 10 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 chemical shift assignment NMRFAM-SPARKY Lee W., Tonelli M., Makley J.L. 2 structure calculation Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman 3 data analysis TopSpin Bruker Biospin