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NMR Structure of a 21 bp DNA duplex preferentially cleaved by Human Topoisomerase II
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 46mM sodium phosphate; 1mM EDTA; 1.5mM Strand1; 1.5mM Strand2; 90% H2O/10% D2O 90% H2O/10% D2O 0.1 7.00 1 atm 303 2 2D 1H-1H NOESY 46mM sodium phosphate; 1mM EDTA; 1.5mM Strand1; 1.5mM Strand2; 100% D2O 100% D2O 0.1 7.00 1 atm 303 3 2D DQF-COSY 46mM sodium phosphate; 1mM EDTA; 1.5mM Strand1; 1.5mM Strand2; 100% D2O 100% D2O 0.1 7.00 1 atm 303 4 2D 1H-1H TOCSY 46mM sodium phosphate; 1mM EDTA; 1.5mM Strand1; 1.5mM Strand2; 100% D2O 100% D2O 0.1 7.00 1 atm 303 5 2D 1H-13C HSQC 46mM sodium phosphate; 1mM EDTA; 1.5mM Strand1; 1.5mM Strand2; 100% D2O 100% D2O 0.1 7.00 1 atm 303 6 2D 1H-31P HETCOR 46mM sodium phosphate; 1mM EDTA; 1.5mM Strand1; 1.5mM Strand2; 100% D2O 100% D2O 0.1 7.00 1 atm 303
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 500
NMR Refinement Method Details Software SIMULATED ANNEALING, MOLECULAR DYNAMICS THE STRUCTURE IS BASED ON A TOTAL OF 670 NOE, 102 HYDROGEN
BOND, AND 286 DIHEDRAL RESTRAINTS X-PLOR NIH
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 50 Conformers Submitted Total Number 10 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 refinement X-PLOR NIH 2.16 Schwieters, Kuszewski, Tjandra and Clore 2 data analysis MORASS 2.51 Luxon