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Solution structure of the human mitochondrial tRNAMet ASL containing the 5-formylcytidine modification in position 34
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 1.0 mM RNA (5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(RSQ)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3')-1 90% H2O/10% D2O 20 6.8 ambient 298 2 2D 1H-1H NOESY 1 mM RNA (5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(RSQ)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3')-2 100% D2O 20 6.8 ambient 298 3 2D DQF-COSY 1 mM RNA (5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(RSQ)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3')-2 100% D2O 20 6.8 ambient 298 4 2D 1H-1H COSY 1.0 mM RNA (5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(RSQ)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3')-1 90% H2O/10% D2O 20 6.8 ambient 298 5 2D 1H-1H TOCSY 1.0 mM RNA (5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(RSQ)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3')-1 90% H2O/10% D2O 20 6.8 ambient 298 6 2D 1H-13C HSQC 1 mM RNA (5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(RSQ)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3')-2 100% D2O 20 6.8 ambient 298 7 2D 1H-31P HETCOR 1 mM RNA (5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(RSQ)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3')-2 100% D2O 20 6.8 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 600 2 Bruker AVANCE 500
NMR Refinement Method Details Software simulated annealing XwinNMR
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 10 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 collection XwinNMR Bruker Biospin 2 collection TopSpin Bruker Biospin 3 data analysis NMRDraw Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 4 processing NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 5 peak picking Sparky Goddard 6 chemical shift assignment Sparky Goddard 7 data analysis Sparky Goddard 8 structure solution CNS 1.21 Brunger, Adams, Clore, Gros, Nilges and Read 9 data analysis MOLMOL Koradi, Billeter and Wuthrich 10 refinement CNS 1.21 Brunger, Adams, Clore, Gros, Nilges and Read