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Structure of DNA AGCGA-quadruplex adopted by 15-mer d(GCGAGGGAGCGAGGG), VK34, oligonucleotide found in regulatory region of the PLEKHG3 human gene
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 0.8 mM DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3') 90% H2O/10% D2O 100 mM 6.0 1 atm 273 Varian Uniform NMR System 800 2 1D 1H-15N HSQC 0.8 mM [10 % 15N] residue specific Gua DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3') 90% H2O/10% D2O 100 mM 6.0 1 atm 273 Varian Uniform NMR System 600 3 2D 1H-15N HSQC 0.8 mM [10 % 15N] residue specific Gua DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3') 90% H2O/10% D2O 100 mM 6.0 1 atm 273 Varian Uniform NMR System 600 4 2D 1H-13C HSQC 0.8 mM [10% 13C] residues specific adenine DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3') 90% H2O/10% D2O 100 mM 6.0 1 atm 273 Varian Uniform NMR System 800
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian Uniform NMR System 600 2 Varian Uniform NMR System 800
NMR Ensemble Information Conformer Selection Criteria Conformers Calculated Total Number Conformers Submitted Total Number 10
Computation: NMR Software # Classification Version Software Name Author 1 refinement Amber Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollman 2 structure calculation Amber Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollman 3 chemical shift assignment Sparky Goddard