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Structure of a Stable Interstrand DNA Crosslink Involving an dA Amino Group and an Abasic Site
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 500 uM deoxyribonucleic acid 100% D2O 120 mM 8 1 atm 298 Bruker AVANCE III 900 2 2D 1H-1H TOCSY 500 uM deoxyribonucleic acid 95% H2O/5% D2O 120 mM 8 1 atm 298 Bruker AVANCE III 900 3 2D 1H-1H NOESY 500 uM deoxyribonucleic acid 95% H2O/5% D2O 120 mM 8 1 atm 278 Bruker AVANCE III 900 4 2D 1H-1H COSY 500 uM deoxyribonucleic acid 100% D2O 120 mM 8 1 atm 298 Bruker AVANCE III 900
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE III 900
NMR Refinement Method Details Software 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 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 refinement Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, and Kollman 2 chemical shift assignment Sparky Goddard 3 data analysis Sparky Goddard 4 processing TopSpin Bruker Biospin 5 data analysis TopSpin Bruker Biospin 6 structure calculation Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, and Kollman 7 peak picking Sparky Goddard