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Structure of the Major G-Quadruplex in the Human EGFR Oncogene Promoter Adopts a Unique Folding Topology with a Distinctive Snap-back Loop
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 1.3 mM no Pu26m1T 90% H2O/10% D2O 25 mM 7.0 1 atm 278 Bruker AVANCE III 600 2 2D 1H-1H NOESY 1.3 mM no Pu26m1T 90% H2O/10% D2O 25 mM 7.0 1 atm 288 Bruker AVANCE III 600 3 2D 1H-1H NOESY 1.3 mM no Pu26m1T 90% H2O/10% D2O 25 mM 7.0 1 atm 298 Bruker AVANCE III 600 4 2D 1H-1H NOESY 1.3 mM no Pu26m1T 90% H2O/10% D2O 25 mM 7.0 1 atm 308 Bruker AVANCE III 600 5 2D 1H-13C HSQC 1.3 mM no Pu26m1T 90% H2O/10% D2O 25 mM 7.0 1 atm 298 Bruker AVANCE III 600 6 2D 1H-13C HSQC 1.3 mM no Pu26m1T 90% H2O/10% D2O 25 mM 7.0 1 atm 308 Bruker AVANCE III 600 7 2D DQF-COSY 1.3 mM no Pu26m1T 90% H2O/10% D2O 25 mM 7.0 1 atm 298 Bruker AVANCE III 600
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE III 600
NMR Refinement Method Details Software simulated annealing TopSpin molecular dynamics NMRFAM-SPARKY
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 data analysis TopSpin Bruker Biospin 2 chemical shift assignment NMRFAM-SPARKY Lee W, Tonelli M, Markley JL 3 structure calculation X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore 4 refinement Amber Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman