6SYK

Guanine-rich oligonucleotide with 5'- and 3'-GC ends form G-quadruplex with A(GGGG)A hexad, GCGC- and G-quartets and two symmetric GG and AA base pair


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D NOESY1 mM GCnCG, 175 mM sodium chloride, 10 mM sodium phosphate buffer90% H2O/10% D2O175 mM6.81 atm298Agilent Agilent Technologies VNMRS 800 MHz NMR spectrometer 800
22D NOESY1 mM GCnCG, 175 mM sodium chloride, 10 mM sodium phosphate buffer90% H2O/10% D2O175 mM6.81 atm298Agilent Agilent Technologies DD2 600 MHz NMR spectrometer 600
32D NOESY1 mM GCnCG, 175 mM sodium chloride, 10 mM sodium phosphate buffer100% D2O175 mM6.81 atm298Agilent Agilent Technologies VNMRS 800 MHz NMR spectrometer 800
42D NOESY1 mM GCnCG, 175 mM sodium chloride, 10 mM sodium phosphate buffer100% D2O175 mM6.81 atm298Agilent Agilent Technologies DD2 600 MHz NMR spectrometer 600
52D TOCSY1 mM GCnCG, 175 mM sodium chloride, 10 mM sodium phosphate buffer100% D2O175 mM6.81 atm298Agilent Agilent Technologies DD2 600 MHz NMR spectrometer 600
62D DQF-COSY1 mM GCnCG, 175 mM sodium chloride, 10 mM sodium phosphate buffer90% H2O/10% D2O175 mM6.81 atm298Agilent Agilent Technologies DD2 600 MHz NMR spectrometer 600
72D 1H-31P COSY1 mM GCnCG, 175 mM sodium chloride, 10 mM sodium phosphate buffer100% D2O175 mM6.81 atm298Agilent Agilent Technologies DD2 600 MHz NMR spectrometer 600
82D 1H-13C HSQC aromatic1 mM 8% 13C, 8% 15N GCnCG, 175 mM sodium chloride, 10 mM sodium phosphate buffer90% H2O/10% D2O175 mM6.81 atm298Agilent Agilent Technologies DD2 600 MHz NMR spectrometer 600
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1AgilentAgilent Technologies VNMRS 800 MHz NMR spectrometer800
2AgilentAgilent Technologies DD2 600 MHz NMR spectrometer600
NMR Refinement
MethodDetailsSoftware
simulated annealingAmber
NMR Ensemble Information
Conformer Selection Criteriastructures with the least restraint violations
Conformers Calculated Total Number200
Conformers Submitted Total Number10
Representative Model1 (lowest energy)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1collectionVNMRVarian
2processingVNMRVarian
3chemical shift assignmentVNMRVarian
4peak pickingSparkyGoddard
5structure calculationAmber14Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
6refinementAmber14Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman