7CSK
A 2:1 stoichiometric complex of anticancer drug Adriamycin bound to parallel G-quadruplex DNA [d-(TTGGGGT)]4.
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-1H NOESY | 1.15 mM DNA (5'-D(*TP*TP*GP*GP*GP*GP*T)-3'), 2.30 mM Adriamycin | 90% H2O/10% D2O | 100 mM | 7.0 | 1 atm | 298 | Bruker AVANCE 500 |
2 | 1D 1H | 1.15 mM DNA (5'-D(*TP*TP*GP*GP*GP*GP*T)-3'), 2.30 mM Adriamycin | 90% H2O/10% D2O | 100 mM | 7.0 | 1 atm | 298 | Bruker AVANCE 500 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 500 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | Amber |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 20 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | refinement | Amber | 16 | Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman |
2 | structure calculation | Amber | 16 | Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman |
3 | chemical shift assignment | TopSpin | 3.6.1 | Bruker Biospin |
4 | peak picking | TopSpin | 3.6.1 | Bruker Biospin |