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Solution Structure of DNA Containing Alpha-OH-PdG: the Mutagenic Adduct Produced by Acrolein
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 2.5 mM DNA duplex, alpha-OH-PdG-1 100% D2O 50mM NaCl 5.9 ambient 298 2 2D 1H-1H TOCSY 2.5 mM DNA duplex, alpha-OH-PdG-1 100% D2O 50mM NaCl 5.9 ambient 298 3 2D 1H-1H COSY 2.5 mM DNA duplex, alpha-OH-PdG-1 100% D2O 50mM NaCl 5.9 ambient 298 4 2D DQF-COSY 2.5 mM DNA duplex, alpha-OH-PdG-1 100% D2O 50mM NaCl 5.9 ambient 298 5 2D 1H-1H NOESY 2.5 mM DNA duplex, alpha-OH-PdG-2 90% H2O/10% D2O 50mM NaCl 5.9 ambient 278
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 500
NMR Refinement Method Details Software restrained molecular dynamics Felix
NMR Ensemble Information Conformer Selection Criteria all calculated structures submitted Conformers Calculated Total Number 25 Conformers Submitted Total Number 26 Representative Model 1 (minimized average)
Additional NMR Experimental Information Details AUTHOR STATES THAT 25 MODELS WERE CALCULATED BY RESTRAINED MD. MODEL 1 IS AN AVERAGED MINIMIZED STRUCTURE OF THESE 25 MODELS.
Computation: NMR Software # Classification Version Software Name Author 1 processing Felix Accelrys Software Inc. 2 data analysis Felix Accelrys Software Inc. 3 chemical shift assignment Felix Accelrys Software Inc. 4 peak picking Felix Accelrys Software Inc. 5 collection VNMR Varian 6 geometry optimization Insight II Accelrys Software Inc. 7 geometry optimization Chimera UCSF Chimera 8 refinement X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore 9 structure solution X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore