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Solution structure of thrombin binding aptamer G-quadruplex bound a self-adaptive small molecule with rotated ligands
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D NOESY 1 mM TBA G4, 1 mM Pt compound, 75 mM potassium chloride, 25 mM potassium phosphate 90% H2O/10% D2O 100 mM 7.0 1 atm 298 Bruker AVANCE III 700 2 2D TOCSY 1 mM TBA G4, 1 mM Pt compound, 75 mM potassium chloride, 25 mM potassium phosphate 90% H2O/10% D2O 100 mM 7.0 1 atm 298 Bruker AVANCE III 600 3 2D NOESY 1 mM TBA G4, 1 mM Pt compound, 75 mM potassium chloride, 25 mM potassium phosphate 100% D2O 100 mM 7.0 1 atm 298 Bruker AVANCE III 700 4 2D TOCSY 1 mM TBA G4, 1 mM Pt compound, 75 mM potassium chloride, 25 mM potassium phosphate 100% D2O 100 mM 7.0 1 atm 298 Bruker AVANCE III 600 5 2D COSY 1 mM TBA G4, 1 mM Pt compound, 75 mM potassium chloride, 25 mM potassium phosphate 100% D2O 100 mM 7.0 1 atm 298 Bruker AVANCE III 600
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE III 600 2 Bruker AVANCE III 700
NMR Refinement Method Details Software DGSA-distance geometry simulated annealing X-PLOR NIH molecular dynamics Discovery Studio
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 refinement X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore 2 structure calculation Discovery Studio Accelrys Software Inc. 3 chemical shift assignment Sparky Goddard 4 peak picking Sparky Goddard