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Solution structure of an intermolecular leaped V-shape G-quadruplex
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 2 mM DNA (5'-D(*GP*GP*TP*TP*TP*TP*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*G)-3'), 2 mM DNA (5'-D(*TP*GP*GP*GP*GP*A)-3') 90% H2O/10% D2O 100 mM 6.8 1 atm 303 Bruker AVANCE III 600 2 2D 1H-1H NOESY 2 mM DNA (5'-D(*GP*GP*TP*TP*TP*TP*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*G)-3'), 2 mM DNA (5'-D(*TP*GP*GP*GP*GP*A)-3') 100% D2O 100 mM 6.8 1 atm 303 Bruker AVANCE III 600 3 2D 1H-15N HSQC 2 mM DNA (5'-D(*GP*GP*TP*TP*TP*TP*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*G)-3'), 2 mM DNA (5'-D(*TP*GP*GP*GP*GP*A)-3') 90% H2O/10% D2O 100 mM 6.8 1 atm 303 Bruker AVANCE III 600 4 2D 1H-13C HSQC 2 mM DNA (5'-D(*GP*GP*TP*TP*TP*TP*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*G)-3'), 2 mM DNA (5'-D(*TP*GP*GP*GP*GP*A)-3') 100% D2O 100 mM 6.8 1 atm 303 Bruker AVANCE III 600 5 2D DQF-COSY 2 mM DNA (5'-D(*GP*GP*TP*TP*TP*TP*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*G)-3'), 2 mM DNA (5'-D(*TP*GP*GP*GP*GP*A)-3') 100% D2O 100 mM 6.8 1 atm 303 Bruker AVANCE III 600 6 2D 1H-13C HMBC 2 mM DNA (5'-D(*GP*GP*TP*TP*TP*TP*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*G)-3'), 2 mM DNA (5'-D(*TP*GP*GP*GP*GP*A)-3') 90% H2O/10% D2O 100 mM 6.8 1 atm 303 Bruker AVANCE III 600
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE III 600
NMR Refinement Method Details Software DGSA-distance geometry simulated annealing Amber
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 200 Conformers Submitted Total Number 10 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 chemical shift assignment Sparky Goddard 2 structure calculation X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore 3 refinement Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman 4 data analysis Analysis CCPN 5 collection TopSpin Bruker Biospin 6 processing NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax