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Structure of a high affinity anti-NFkB RNA aptamer
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 1 mM RNA 100% D2O 0.05 7.0 ambient 298 2 2D 1H-1H NOESY 1 mM [U-99% 13C; U-99% 15N] RNA, 1 mM RNA 90% H2O/10% D2O 0.05 7.0 ambient 298 3 2D 1H-1H TOCSY 1 mM RNA 100% D2O 0.05 7.0 ambient 298 4 2D 1H-13C HSQC 1 mM [U-99% 13C; U-99% 15N] RNA, 1 mM RNA 90% H2O/10% D2O 0.05 7.0 ambient 298 5 3D 1H-13C NOESY 1 mM [U-99% 13C; U-99% 15N] RNA, 1 mM RNA 90% H2O/10% D2O 0.05 7.0 ambient 298 6 3D HCCH-TOCSY 1 mM [U-99% 13C; U-99% 15N] RNA, 1 mM RNA 90% H2O/10% D2O 0.05 7.0 ambient 298 7 2D 1H-1H COSY 1 mM [U-99% 13C; U-99% 15N] RNA, 1 mM RNA 90% H2O/10% D2O 0.05 7.0 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 900 2 Bruker DMX 750
NMR Refinement Method Details Software simulated annealing CNS 1.1-simulated annealing followed by a XPLOR-NIH refinement protocol CNS
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 structure solution CNS 1.1 Brunger, Adams, Clore, Gros, Nilges and Read 2 refinement X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore