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NMR structure of a new G-quadruplex forming sequence within the KRAS proto-oncogene promoter region
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 2 mM KRAS 22RT, 2 mM dG (5% 15N) KRAS 22RT 15N 90% H2O/10% D2O 90 mM 6.6 1 atm 293 Bruker AVANCE III 800 8 2D 1H-1H NOESY 2 mM KRAS 22RT, 2 mM dG (5% 15N) KRAS 22RT 15N 90% H2O/10% D2O 90 mM 6.6 1 atm 293 Bruker AVANCE III 700 2 2D 1H-1H COSY 2 mM KRAS 22RT, 2 mM dG (5% 15N) KRAS 22RT 15N 90% H2O/10% D2O 90 mM 6.6 1 atm 293 Bruker AVANCE III 800 3 2D 1H-13C HSQC 2 mM KRAS 22RT, 2 mM dG (5% 15N) KRAS 22RT 15N 90% H2O/10% D2O 90 mM 6.6 1 atm 293 Bruker AVANCE III 800 4 2D 1H-1H TOCSY 2 mM KRAS 22RT, 2 mM dG (5% 15N) KRAS 22RT 15N 90% H2O/10% D2O 90 mM 6.6 1 atm 293 Bruker AVANCE III 800 5 2D 1H-15N HSQC 2 mM KRAS 22RT, 2 mM dG (5% 15N) KRAS 22RT 15N 90% H2O/10% D2O 90 mM 6.6 1 atm 293 Bruker AVANCE III 800 6 2D 1H-13C HMBC 2 mM KRAS 22RT, 2 mM dG (5% 15N) KRAS 22RT 15N 90% H2O/10% D2O 90 mM 6.6 1 atm 293 Bruker AVANCE III 700 7 1D 1H-15N HSQC 2 mM KRAS 22RT, 2 mM dG (5% 15N) KRAS 22RT 15N 90% H2O/10% D2O 90 mM 6.6 1 atm 293 Bruker AVANCE III 700
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE III 700 2 Bruker AVANCE III 800
NMR Refinement Method Details Software simulated annealing
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 200 Conformers Submitted Total Number 11 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 chemical shift assignment Sparky Goddard 2 collection TopSpin Bruker Biospin 3 data analysis CcpNmr Analysis CCPN 4 structure calculation ARIA Linge, O'Donoghue and Nilges 5 structure calculation CNS Brunger, Adams, Clore, Gros, Nilges and Read 6 refinement Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman