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NMR structure of a DNA G-quadruplex containing two SP1 binding sites from HIV-1 promoter
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 857 uM None HIVpro3 90% H2O/10% D2O 70 KCl; 20 KPi mM 6.9 1 atm 293 Bruker AVANCE III 800 2 2D 1H-1H NOESY 2.4 mM None HIVpro3 100% D2O 70 KCl; 20 KPi mM 6.9 1 atm 293 Bruker AVANCE III 800 3 2D 1H-13C HSQC aromatic 2.4 mM None HIVpro3 100% D2O 70 KCl; 20 KPi mM 6.9 1 atm 293 Bruker AVANCE III 700 4 2D 1H-13C HSQC aliphatic 2.4 mM None HIVpro3 100% D2O 70 KCl; 20 KPi mM 6.9 1 atm 293 Bruker AVANCE III 700 5 2D 1H-1H TOCSY 2.4 mM None HIVpro3 100% D2O 70 KCl; 20 KPi mM 6.9 1 atm 293 Bruker AVANCE III 700
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE III 400 2 Bruker AVANCE III 700 3 Bruker AVANCE III 800
NMR Refinement Method Details Software molecular dynamics Amber
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 750 Conformers Submitted Total Number 10 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 data analysis TopSpin Bruker Biospin 2 chemical shift assignment Sparky Goddard 3 structure calculation ARIA Linge, O'Donoghue and Nilges 4 refinement Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman