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SOLUTION STRUCTURE OF HCV IRES RNA DOMAIN IIID
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 P31-decoupled DQF COSY, HP COSY, D2O NOESY, H2O NOESY 1.5mM RNA, non-isotopically labelled 10mM sodium phosphate buffer, pH 6.40
96% H2O, 4% D2O or 100% D2O 10mM 6.40 ambient 283 2 P31-decoupled DQF COSY, HP COSY, D2O NOESY, H2O NOESY 1.5mM RNA, non-isotopically labelled 10mM sodium phosphate buffer, pH 6.40
96% H2O, 4% D2O or 100% D2O 10mM 6.40 ambient 298 3 3D HCP, 3D HMQC-TOCSY, 3D C13-edited NOESY 1mM RNA, U-15N,13C 10mM sodium phosphate buffer, pH 6.40
96% H2O, 4% D2O or 100% D2O 10mM 6.40 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 500 2 Varian INOVA 800
NMR Refinement Method Details Software Simulated annealing and restrained molecular dynamics SEE REFERENCE ABOVE X-PLOR
NMR Ensemble Information Conformer Selection Criteria structures with the least restraint violations,structures with the lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 25 Representative Model 21 (closest to the average)
Additional NMR Experimental Information Details THE STRUCTURE WAS DETERMINED USING TRIPLE
RESONANCE HCN AND HCP EXPERIMENTS ON N15,C13-LABELLED RNA
Computation: NMR Software # Classification Version Software Name Author 1 refinement X-PLOR 3.1 Brunger 2 data analysis Sparky 3.8 Goddard