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NMR solution structure of the 4:1 complex between an uncharged distamycin A analogue and [d(TGGGGT)]4
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H TOCSY 8 mM KVY-1, 2 mM DNA (5'-D(*DTP*DGP*DGP*DGP*DGP*DT)-3')-2, 100 % D2O-3, 10 mM potassium phosphate-4, 70 mM potassium chloride-5 90% H2O/10% D2O 80 7 ambient 298 2 2D 1H-1H COSY 8 mM KVY-1, 2 mM DNA (5'-D(*DTP*DGP*DGP*DGP*DGP*DT)-3')-2, 100 % D2O-3, 10 mM potassium phosphate-4, 70 mM potassium chloride-5 90% H2O/10% D2O 80 7 ambient 298 3 2D 1H-1H NOESY 8 mM KVY-6, 2 mM DNA (5'-D(*DTP*DGP*DGP*DGP*DGP*DT)-3')-7, 10 % D2O-8, 10 mM potassium phosphate-9, 70 mM potassium chloride-10, 90 % H2O-11 90% H2O/10% D2O 80 7 ambient 298 4 2D 1H-1H NOESY 8 mM KVY-1, 2 mM DNA (5'-D(*DTP*DGP*DGP*DGP*DGP*DT)-3')-2, 100 % D2O-3, 10 mM potassium phosphate-4, 70 mM potassium chloride-5 90% H2O/10% D2O 80 7 ambient 298 5 2D 1H-31P COSY 8 mM KVY-1, 2 mM DNA (5'-D(*DTP*DGP*DGP*DGP*DGP*DT)-3')-2, 100 % D2O-3, 10 mM potassium phosphate-4, 70 mM potassium chloride-5 90% H2O/10% D2O 80 7 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 700 2 Varian INOVA 500
NMR Refinement Method Details Software simulated annealing, molecular dynamics Amber
NMR Ensemble Information Conformer Selection Criteria structures with the least restraint violations Conformers Calculated Total Number 100 Conformers Submitted Total Number 10 Representative Model 1 (closest to the average)
Computation: NMR Software # Classification Version Software Name Author 1 refinement Amber 10.0 Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm 2 geometry optimization Amber 10.0 Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm 3 peak picking Felix Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm