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Duplex DNA containing an abasic site with an opposite dC (alpha anomer) in 5'-G_AC-3' (10 structure ensemble and averaged structure)
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D NOESY 2.5 mM duplex DNA 100% D2O 10 mM Sodium Phosphate, 0.2 mM EDTA 6.5 1 atm 298 2 2D TOCSY 2.5 mM duplex DNA 100% D2O 10 mM Sodium Phosphate, 0.2 mM EDTA 6.5 1 atm 298 3 E-COSY 2.5 mM duplex DNA 100% D2O 10 mM Sodium Phosphate, 0.2 mM EDTA 6.5 1 atm 298 4 H-P HSQC 2.5 mM duplex DNA 100% D2O 10 mM Sodium Phosphate, 0.2 mM EDTA 6.5 1 atm 298 5 H3'-selective HSQC 2.5 mM duplex DNA 100% D2O 10 mM Sodium Phosphate, 0.2 mM EDTA 6.5 1 atm 298 6 watergate-NOESY 2.5 mM duplex DNA 90% H2O/10% D2O 10 mM Sodium Phosphate, 0.2 mM EDTA 6.5 1 atm 277
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Custom-built Custom-built 591
NMR Refinement Method Details Software simulated annealing
molecular dynamics
matrix relaxation the structures are based on 478 NOE-derived
distance constraints, 63 dihedral angle restraints. Felix
NMR Ensemble Information Conformer Selection Criteria structures with the least restraint violations,structures with the lowest energy Conformers Calculated Total Number 30 Conformers Submitted Total Number 11 Representative Model 11 (minimized average structure)
Additional NMR Experimental Information Details This structure was determined using standard 2D homonuclear techniques and H-P heteronuclear experiments
Computation: NMR Software # Classification Version Software Name Author 1 data analysis Felix 2001 Accelrys Inc. 2 iterative matrix relaxation MARDIGRAS James 3 refinement Amber 8.0 Case et al.