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Solution structure of the Complex Formed between a Left-Handed Wedge-Shaped Spirocyclic Molecule and Bulged DNA
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D NOESY 1.2 mM ent-DDI-bulged DNA complex, 0.1M NaCl, 10mM sodium phosphate and 0.1mM EDTA buffer, 90% H2O/10% D2O, 99.96% D2O 90% H2O/10% D2O; 99.96% D2O 0.1M NaCl, 10mM sodium phosphate and 0.1mM EDTA buffer 6.5 ambient 298 2 2D TOCSY 1.2 mM ent-DDI-bulged DNA complex, 0.1M NaCl, 10mM sodium phosphate and 0.1mM EDTA buffer, 90% H2O/10% D2O, 99.96% D2O 90% H2O/10% D2O; 99.96% D2O 0.1M NaCl, 10mM sodium phosphate and 0.1mM EDTA buffer 6.5 ambient 298 3 DQF-COSY 1.2 mM ent-DDI-bulged DNA complex, 0.1M NaCl, 10mM sodium phosphate and 0.1mM EDTA buffer, 90% H2O/10% D2O, 99.96% D2O 90% H2O/10% D2O; 99.96% D2O 0.1M NaCl, 10mM sodium phosphate and 0.1mM EDTA buffer 6.5 ambient 298 4 H-P CPSY 1.2 mM ent-DDI-bulged DNA complex, 0.1M NaCl, 10mM sodium phosphate and 0.1mM EDTA buffer, 90% H2O/10% D2O, 99.96% D2O 90% H2O/10% D2O; 99.96% D2O 0.1M NaCl, 10mM sodium phosphate and 0.1mM EDTA buffer 6.5 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 600 2 Varian INOVA 750 3 Varian INOVA 500
NMR Refinement Method Details Software distance geometry, simulated annealing The structures are based on a total of 427 NOE restraints and 166 dihedral angle restraints. NMRPipe
NMR Ensemble Information Conformer Selection Criteria all calculated structures submitted Conformers Calculated Total Number 10 Conformers Submitted Total Number 10 Representative Model 1 (all calculated structures submited have the least restraint violation and the lowst energy.)
Additional NMR Experimental Information Details This structure was determined using 2D homonuclear and heteronuclear techniques.
Computation: NMR Software # Classification Version Software Name Author 1 processing NMRPipe 2002.044.17.08 Delaglio, F. 2 data analysis Sparky 3.106 Goddard, T.D. and Kneller. D.G. 3 refinement CNS 1.0 Brunger, A.T. et al