2E4I
Human Telomeric DNA mixed-parallel/antiparallel quadruplex under Physiological Ionic Conditions Stabilized by Proper Incorporation of 8-Bromoguanosines
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 0.6mM DNA; 100mM KCl; 10mM K-phosphate (pH 6.3); 0.01mM DSS | 100% D2O | 110mM Potassium Ion | 6.3 | ambient | 298 | |
2 | 2D TOCSY | 0.6mM DNA; 100mM KCl; 10mM K-phosphate (pH 6.3); 0.01mM DSS | 100% D2O | 110mM Potassium Ion | 6.3 | ambient | 298 | |
3 | DQF-COSY | 0.6mM DNA; 100mM KCl; 10mM K-phosphate (pH 6.3); 0.01mM DSS | 100% D2O | 110mM Potassium Ion | 6.3 | ambient | 298 | |
4 | 2D NOESY | 0.6mM DNA; 100mM KCl; 10mM K-phosphate (pH 6.3); 0.01mM DSS, 95% H2O, 5% D2O | 95% H2O/5% D2O | 110mM Potassium Ion | 6.3 | ambient | 298 | |
5 | JR-HMBC | 1.3mM DNA; 100mM KCl; 10mM K-phosphate (pH 6.3); 0.01mM DSS, 95% H2O, 5% D2O | 95% H2O/5% D2O | 110mM Potassium Ion | 6.3 | ambient | 298 | |
6 | 13C-HSQC | 1.3mM DNA; 100mM KCl; 10mM K-phosphate (pH 6.3); 0.01mM DSS, 95% H2O, 5% D2O | 95% H2O/5% D2O | 110mM Potassium Ion | 6.3 | ambient | 298 | |
7 | H, P HSQC | 0.6mM DNA; 100mM KCl; 10mM K-phosphate (pH 6.3); 0.01mM DSS | 100% D2O | 110mM Potassium Ion | 6.3 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 800 |
2 | Bruker | AVANCE | 600 |
3 | Bruker | AVANCE | 500 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | the structures are based on a total of 752 restraints, 582 are NOE-derived distance constraints, 110 dihedral angle restraints,48 distance restraints from hydrogen bonds, 12 planarity restraints for tetrad planes. | NMRPipe |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 1 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | NMRPipe | 2.4 | F. Delaglio |
2 | processing | XwinNMR | 3.5 | Bruker |
3 | data analysis | PIPP | 4.3.2 | D. Garrett |
4 | data analysis | Spaky | 3.112 | T.D. Goddard |
5 | structure solution | X-PLOR | 3.851 | A.T. Brunger |
6 | refinement | X-PLOR | 3.851 | A.T. Brunger |