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Solution Structure of a Covalently Bound Pyrrolo[2,1-c][1,4]benzodiazepine-Benzimidazole Hybrid to a 10mer DNA Duplex
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 1 mM DNA (5'-D(*AP*AP*CP*AP*AP*TP*TP*GP*TP*T)-3')-1, 1 mM Pyrrolo[2,1-c][1,4]benzodiazepine-Benzimidazole Hybrid-2, 100 mM NaCl-3, 20 mM PO4-4 100% D2O 0.28 7 ambient 295 2 2D DQF-COSY 1 mM DNA (5'-D(*AP*AP*CP*AP*AP*TP*TP*GP*TP*T)-3')-1, 1 mM Pyrrolo[2,1-c][1,4]benzodiazepine-Benzimidazole Hybrid-2, 100 mM NaCl-3, 20 mM PO4-4 100% D2O 0.28 7 ambient 295 3 2D 1H-1H TOCSY 1 mM DNA (5'-D(*AP*AP*CP*AP*AP*TP*TP*GP*TP*T)-3')-1, 1 mM Pyrrolo[2,1-c][1,4]benzodiazepine-Benzimidazole Hybrid-2, 100 mM NaCl-3, 20 mM PO4-4 100% D2O 0.28 7 ambient 295 4 2D 1H-1H NOESY 1 mM DNA (5'-D(*AP*AP*CP*AP*AP*TP*TP*GP*TP*T)-3')-5, 1 mM Pyrrolo[2,1-c][1,4]benzodiazepine-Benzimidazole Hybrid-6, 100 mM NaCl-7, 20 mM PO4-8 90% H2O/10% D2O 0.28 7 ambient 283
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 600
NMR Refinement Method Details Software molecular dynamics Amber
NMR Ensemble Information Conformer Selection Criteria representative conformers of clusters Conformers Calculated Total Number 15000 Conformers Submitted Total Number 4 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 refinement Amber 9 Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo and Kollm