6JWD
structure of RET G-quadruplex in complex with berberine
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 | 1.4 mM RET G4-DNA, 1.68 mM BERBERINE, 20 mM Potassium Phosphate Monobasic, 80 mM potassium chloride | 90% H2O/10% D2O | 100 mM | 6.8 | 1 atm | 293 | Agilent INOVA 600 |
2 | 2D 1H-1H TOCSY | 1.4 mM RET G4-DNA, 1.68 mM BERBERINE, 20 mM Potassium Phosphate Monobasic, 80 mM potassium chloride | 90% H2O/10% D2O | 100 mM | 6.8 | 1 atm | 293 | Agilent INOVA 600 |
3 | 2D 1H-1H COSY | 1.4 mM RET G4-DNA, 1.68 mM BERBERINE, 20 mM Potassium Phosphate Monobasic, 80 mM potassium chloride | 90% H2O/10% D2O | 100 mM | 6.8 | 1 atm | 293 | Agilent INOVA 600 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Agilent | INOVA | 600 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | X-PLOR NIH |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (closest to the average) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | NMRDraw | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
2 | chemical shift assignment | Sparky | Goddard | |
3 | structure calculation | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore |