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Solution Structure of the ScYLV P1-P2 Frameshifting Pseudoknot, 20 Lowest Energy Structures
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D NOESY 2mM ScYLV pseudoknot RNA, 100mM KCl, 5mM MgCl2, pH 6.0 90% H2O/10% D2O 100mM KCl; 5mM MgCl2 6.0 ambient 283 2 2D NOESY 2mM ScYLV pseudoknot RNA, 100mM KCl, 5mM MgCl2, pH 6.0 100% D2O 100mM KCl; 5mM MgCl2 6.0 ambient 298 3 3D_13C-separated_NOESY 2mM ScYLV pseudoknot RNA, 100mM KCl, 5mM MgCl2, pH 6.0 100% D2O 100mM KCl; 5mM MgCl2 6.0 ambient 298 4 CT-TROSY and CT-antiTROSY 2mM ScYLV pseudoknot RNA, 100mM KCl, 5mM MgCl2, pH 6.0, 12.5mg/ml PF1 phage 100% D2O 100mM KCl; 5mM MgCl2 6.0 ambient 298 5 J-modulated HSQC 2mM ScYLV pseudoknot RNA, 100mM KCl, 5mM MgCl2, pH 6.0, 12.5mg/ml PF1 phage 100% D2O 100mM KCl; 5mM MgCl2 6.0 ambient 298 6 2D TOCSY 2mM ScYLV pseudoknot RNA, 100mM KCl, 5mM MgCl2, pH 6.0 100% D2O 100mM KCl; 5mM MgCl2 6.0 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 500 2 Varian INOVA 600 3 Bruker AVANCE 900
NMR Refinement Method Details Software simulated annealing NMRPipe
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 25 Conformers Submitted Total Number 20 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 processing NMRPipe 97.027.12.56 F. Delaglio, S. Grzesiek, G.W. Vuister, G. Zhu, J. Pfeifer and A. Bax 2 data analysis Sparky 3.110 T. D. Goddard and D. G. Kneller 3 structure solution X-PLOR-NIH 2.9.7 G.M. Clore , J.Kuszewski, C.D. Schwieters, and N.Tjandra 4 refinement X-PLOR-NIH 2.9.7 G.M. Clore , J.Kuszewski, C.D. Schwieters, and N.Tjandra