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Dodecamer DNA containing the synthetic base pair P-Z
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 1.3 mM ZP-DNA 100% D2O 100 mM 7.5 1 atm 298 Bruker AVANCE II 600 2 2D DQF-COSY 1.3 mM ZP-DNA 100% D2O 100 mM 7.5 1 atm 298 Bruker AVANCE II 600 3 2D 1H-1H TOCSY 1.3 mM ZP-DNA 100% D2O 100 mM 7.5 1 atm 298 Bruker AVANCE II 600 4 2D 1H-13C HSQC 1.3 mM ZP-DNA 100% D2O 100 mM 7.5 1 atm 298 Bruker AVANCE II 600 5 2D 1H-1H NOESY 1.3 mM ZP-DNA 90% H2O/10% D2O 100 mM 7.5 1 atm 298 Bruker AVANCE II 600 6 2D 31P-1H COSY 1.3 mM ZP-DNA 100% D2O 100 mM 7.5 1 atm 298 Bruker AVANCE II 600
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE II 600
NMR Refinement Method Details Software simulated annealing Amber molecular dynamics Amber
NMR Ensemble Information Conformer Selection Criteria clustering of MD Conformers Calculated Total Number 5000 Conformers Submitted Total Number 10 Representative Model 1 (most represented cluster)
Computation: NMR Software # Classification Version Software Name Author 1 chemical shift assignment Sparky Goddard 2 processing TopSpin Bruker 4 refinement Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman 5 refinement MARDIGRAS Brandan A. Borgias
Paul D. Thomas
He Liu
Anil Kumar 6 refinement Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman