2KTT | pdb_00002ktt

Solution Structure of a Covalently Bound Pyrrolo[2,1-c][1,4]benzodiazepine-Benzimidazole Hybrid to a 10mer DNA Duplex


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D 1H-1H NOESY1 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 PO4-4100% D2O0.287ambient295
22D DQF-COSY1 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 PO4-4100% D2O0.287ambient295
32D 1H-1H TOCSY1 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 PO4-4100% D2O0.287ambient295
42D 1H-1H NOESY1 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 PO4-890% H2O/10% D2O0.287ambient283
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE600
NMR Refinement
MethodDetailsSoftware
molecular dynamicsAmber
NMR Ensemble Information
Conformer Selection Criteriarepresentative conformers of clusters
Conformers Calculated Total Number15000
Conformers Submitted Total Number4
Representative Model1 (lowest energy)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1refinementAmber9Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo and Kollm