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NMR structure of uridine bulged RNA duplex
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3') 100% D2O 60 6.8 ambient 298 2 2D DQF-COSY 1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3') 100% D2O 60 6.8 ambient 298 3 2D 1H-1H TOCSY 1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3') 100% D2O 60 6.8 ambient 298 4 2D 1H-13C HSQC 1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3') 100% D2O 60 6.8 ambient 298 5 2D 1H-31P HSQC 1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3') 100% D2O 60 6.8 ambient 298 6 2D 1H-1H NOESY 1 mM RNA (5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3'), 1 mM RNA (5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3') 90% H2O/10% D2O 60 6.8 ambient 283
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 600
NMR Refinement Method Details Software torsion angle dynamics Felix
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 peak picking Felix Accelrys Software Inc. 2 chemical shift assignment Felix Accelrys Software Inc. 3 collection TopSpin Bruker Biospin 4 processing TopSpin Bruker Biospin 5 structure solution X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore 6 refinement X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore 7 data analysis Curves Lavery and Sklenar