2RMQ
Solution structure of fully modified 4'-thioDNA with the sequence of d(CGCGAATTCGCG)
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D DQF-COSY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 100% D2O | 100% D2O | 20 | 6.5 | ambient | 298 | |
2 | 2D 1H-1H TOCSY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 100% D2O | 100% D2O | 20 | 6.5 | ambient | 298 | |
3 | 2D 1H-1H NOESY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 100% D2O | 100% D2O | 20 | 6.5 | ambient | 298 | |
4 | 2D 1H-1H NOESY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 100% D2O | 100% D2O | 20 | 6.5 | ambient | 298 | |
5 | 2D 1H-13C HSQC | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 100% D2O | 100% D2O | 20 | 6.5 | ambient | 298 | |
6 | 2D 1H-1H NOESY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 95% H2O, 5% D2O | 95% H2O/5% D2O | 20 | 6.5 | ambient | 278 | |
7 | 2D 1H-1H NOESY | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 95% H2O, 5% D2O | 95% H2O/5% D2O | 20 | 6.5 | ambient | 278 | |
8 | 2D 1H-13C JR-HMBC | 0.42mM 4'-thio DNA; 10mM sodium phosphate; 10mM sodium chloride; 0.01mM DSS; 95% H2O, 5% D2O | 95% H2O/5% D2O | 20 | 6.5 | ambient | 278 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DRX | 800 |
2 | Bruker | DRX | 600 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | XwinNMR |
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 | collection | XwinNMR | 3.5 | Bruker Biospin |
2 | collection | TopSpin | 1.0 | Bruker Biospin |
3 | processing | NMRPipe | 2.4 | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |
4 | processing | NMRDraw | 2.4 | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |
5 | data analysis | Sparky | 3.111 | Goddard |
6 | peak picking | Sparky | 3.111 | Goddard |
7 | structure solution | CNSSOLVE | 1.1 | Brunger, Adams, Clore, Gros, Nilges and Read |
8 | refinement | CNSSOLVE | 1.1 | Brunger, Adams, Clore, Gros, Nilges and Read |