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Structure and Stability of Duplex DNA Containing (5'S) 5',8-Cyclo-2'-Deoxyadenosine: An Oxidative Lesion Repair by NER
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 0.7 mM 11 mer DNA duplex 100% D2O 6.7 ambient 298 2 2D 1H-1H COSY 0.7 mM 11 mer DNA duplex 100% D2O 6.7 ambient 298 3 2D 1H-1H TOCSY 0.7 mM 11 mer DNA duplex 100% D2O 6.7 ambient 298 4 2D 1H-15N HSQC 0.7 mM 11 mer DNA duplex 100% D2O 6.7 ambient 298 5 2D 1H-1H NOESY 0.7 mM 11 mer DNA duplex 90% H2O/10% D2O 6.7 ambient 278
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 600 2 Bruker AVANCE 400 3 Bruker AVANCE 700
NMR Refinement Method Details Software molecular dynamics VNMR
NMR Ensemble Information Conformer Selection Criteria all calculated structures submitted Conformers Calculated Total Number 26 Conformers Submitted Total Number 26 Representative Model 1 (minimized average structure)
Computation: NMR Software # Classification Version Software Name Author 1 collection VNMR Varian 2 collection TopSpin Bruker Biospin 3 processing NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 4 processing Felix Accelrys Software Inc. 5 peak picking Sparky Goddard 6 chemical shift assignment Sparky Goddard 7 data analysis Sparky Goddard 8 geometry optimization X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore 9 refinement X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore 10 structure solution X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore 11 geometry optimization HYPER Tejero, Monleon, Celda, Powers and Montelione 12 data analysis HYPER Tejero, Monleon, Celda, Powers and Montelione 13 data analysis Insight II Accelrys Software Inc.