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Solution Structure of HCV IRES Domain II
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D S-NOESY 0.5-1.5mM HCV IRES domain II RNA
10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride 96% D2O, 4% H2O 100mM NaCl, 5mM MgCl2 6.40 ambient 298 2 2D NOESY 0.5-1.5mM HCV IRES domain II RNA
10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride 100% D2O 100mM NaCl, 5mM MgCl2 6.40 ambient 303 3 DQF-COSY 0.5-1.5mM HCV IRES domain II RNA
10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride 100% D2O 100mM NaCl, 5mM MgCl2 6.40 ambient 303 4 2D HP-COSY 0.5-1.5mM HCV IRES domain II RNA
10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride 100% D2O 100mM NaCl, 5mM MgCl2 6.40 ambient 303 5 3D_13C-separated_NOESY 0.5-1.5mM HCV IRES domain II RNA
U-15N,13C
10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride 100% D2O 100mM NaCl, 5mM MgCl2 6.40 ambient 303 6 3D HCP 0.5-1.5mM HCV IRES domain II RNA
U-15N,13C
10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride 100% D2O 100mM NaCl, 5mM MgCl2 6.40 ambient 303 7 3D HMQC TOCSY 0.5-1.5mM HCV IRES domain II RNA
U-15N,13C
10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride 100% D2O 100mM NaCl, 5mM MgCl2 6.40 ambient 303
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 500 2 Varian INOVA 800
NMR Refinement Method Details Software see reference above see reference above VNMR
NMR Ensemble Information Conformer Selection Criteria lowest restraint violation and total energy Conformers Calculated Total Number 200 Conformers Submitted Total Number 12 Representative Model 1 (closest to the average)
Additional NMR Experimental Information Details The structure was solved using triple resonance, multidimensional NMR spectroscopy and TROSY-type experiments to measure residual dipolar couplings
Computation: NMR Software # Classification Version Software Name Author 1 processing VNMR 6.1C Varian 2 data analysis Sparky 3 Goddard, T.D. & Kneller D.G. 3 refinement X-PLOR 3.1 Brunger, A.T. 4 refinement CNS 1.1 Brunger, A.T. et al 5 refinement PALES 1 Zweckstetter, M. & Bax, A.