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Structure of a bis-naphthalene bound to a thymine-thymine DNA mismatch
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H TOCSY 1.5 mM DNA (5'-D(*CP*GP*TP*CP*GP*TP*AP*GP*TP*GP*C)-3'), 1.5 mM DNA (5'-D(*GP*CP*AP*CP*TP*TP*CP*GP*AP*CP*G)-3'), 1.5 mM 2,7-bisnaphthalene 90% H2O/10% D2O 0.06 6 ambient 283 2 2D DQF-COSY 1.5 mM DNA (5'-D(*CP*GP*TP*CP*GP*TP*AP*GP*TP*GP*C)-3'), 1.5 mM DNA (5'-D(*GP*CP*AP*CP*TP*TP*CP*GP*AP*CP*G)-3'), 1.5 mM 2,7-bisnaphthalene 90% H2O/10% D2O 0.06 6 ambient 283 3 2D 1H-1H NOESY 1.5 mM DNA (5'-D(*CP*GP*TP*CP*GP*TP*AP*GP*TP*GP*C)-3'), 1.5 mM DNA (5'-D(*GP*CP*AP*CP*TP*TP*CP*GP*AP*CP*G)-3'), 1.5 mM 2,7-bisnaphthalene 90% H2O/10% D2O 0.06 6 ambient 283
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian UNITYPLUS 500 2 Varian UNITY 800
NMR Refinement Method Details Software simulated annealing, molecular dynamics Amber
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 5 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 structure solution Amber 10.1 Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm 2 refinement Amber 10.1 Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm