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Solution NMR structure of an antiparallel chair-type G-quadruplex from NOP56 intron
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 0.5 mM DNA (5'-D(*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*G)-3'), 1 mM sodium phosphate, 0.02 mM DSS 99.96%D2O 1 mM 5.0 1 atm 298 Bruker AVANCE 600 2 2D 1H-1H COSY 0.5 mM DNA (5'-D(*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*G)-3'), 1 mM sodium phosphate, 0.02 mM DSS 99.96%D2O 1 mM 5.0 1 atm 298 Bruker AVANCE 600 3 2D 1H-1H TOCSY 0.5 mM DNA (5'-D(*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*G)-3'), 1 mM sodium phosphate, 0.02 mM DSS 99.96%D2O 1 mM 5.0 1 atm 298 Bruker AVANCE 600 4 2D 1H-13C HSQC 0.5 mM DNA (5'-D(*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*G)-3'), 1 mM sodium phosphate, 0.02 mM DSS 99.96%D2O 1 mM 5.0 1 atm 298 Bruker AVANCE 600 5 2D 1H-15N HSQC 0.5 mM DNA (5'-D(*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*G)-3'), 1 mM sodium phosphate, 0.02 mM DSS 99.96%D2O 1 mM 5.0 1 atm 298 Bruker AVANCE 600
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 600
NMR Refinement Method Details Software simulated annealing Amber
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 500 Conformers Submitted Total Number 10 Representative Model 1 (closest to the average)
Computation: NMR Software # Classification Version Software Name Author 1 chemical shift assignment TopSpin Bruker Biospin 2 structure calculation Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman