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Structure of an intramolecular G-quadruplex containing a G.C.G.C tetrad formed by human telomeric variant CTAGGG repeats
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 0.5-2.0mM DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3')-1, 70mM potassium chloride, 20mM potassium phosphate 90% H2O/10% D2O 90mM K+ 7.0 ambient 298 2 2D 1H-1H NOESY 0.5-2.0mM DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3')-2, 70mM potassium chloride, 20mM potassium phosphate 100% D2O 90mM K+ 7.0 ambient 298 3 2D 1H-1H JR NOESY 0.5-2.0mM DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3')-2, 70mM potassium chloride, 20mM potassium phosphate 100% D2O 90mM K+ 7.0 ambient 298 4 2D 1H-1H COSY 0.5-2.0mM DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3')-2, 70mM potassium chloride, 20mM potassium phosphate 100% D2O 90mM K+ 7.0 ambient 298 5 2D 1H-1H TOCSY 0.5-2.0mM DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3')-2, 70mM potassium chloride, 20mM potassium phosphate 100% D2O 90mM K+ 7.0 ambient 298 6 2D 1H-13C HSQC 0.5-2.0mM DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3')-2, 70mM potassium chloride, 20mM potassium phosphate 100% D2O 90mM K+ 7.0 ambient 298 7 2D 1H-13C HMBC 0.5-2.0mM DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3')-2, 70mM potassium chloride, 20mM potassium phosphate 100% D2O 90mM K+ 7.0 ambient 298 8 2D 1H-13C JR HMBC 0.5-2.0mM DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3')-2, 70mM potassium chloride, 20mM potassium phosphate 100% D2O 90mM K+ 7.0 ambient 298 9 H-D EXCHANGE 0.5-2.0mM DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3')-2, 70mM potassium chloride, 20mM potassium phosphate 100% D2O 90mM K+ 7.0 ambient 298 10 15N-FILTERED 0.5-2.0mM DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3')-2, 70mM potassium chloride, 20mM potassium phosphate 100% D2O 90mM K+ 7.0 ambient 298 11 D-LABELED 0.5-2.0mM DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3')-2, 70mM potassium chloride, 20mM potassium phosphate 100% D2O 90mM K+ 7.0 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 700 2 Bruker AVANCE 600
NMR Refinement Method Details Software DGSA-distance geometry simulated annealing, molecular dynamics, matrix relaxation TopSpin
NMR Ensemble Information Conformer Selection Criteria back calculated data agree with experimental NOESY spectrum Conformers Calculated Total Number 100 Conformers Submitted Total Number 10 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 processing TopSpin Bruker Biospin 2 peak picking Felix 2007 Felix NMR, Inc. 3 structure solution X-PLOR NIH 2.21 Schwieters, Kuszewski, Tjandra, Clore 4 refinement X-PLOR NIH 2.21 Schwieters, Kuszewski, Tjandra, Clore