6HMO
Solution structure of the RNA duplex formed by the 5'-end of U1snRNA and the 5'-splice site of SMN2 exon7 in complex with the SMN-C5 splicing modifier
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-1H TOCSY | 10 mM deuterated MES, 50 mM unlabelled sodium chloride, 6 % deuterated glycerol | 100% D2O | 50 mM | 5.5 | atm Pa | 293 | Bruker 900 Avance 900 |
2 | 2D 1H-1H NOESY | 10 mM deuterated MES, 50 mM unlabelled sodium chloride, 6 % deuterated glycerol | 100% D2O | 50 mM | 5.5 | atm Pa | 293 | Bruker 900 Avance 900 |
3 | 2D 1H-13C HSQC aliphatic | 10 mM deuterated MES, 50 mM unlabelled sodium chloride, 6 % deuterated glycerol | 100% D2O | 50 mM | 5.5 | atm Pa | 293 | Bruker 900 Avance 900 |
4 | 2D 1H-13C HSQC aromatic | 10 mM deuterated MES, 50 mM unlabelled sodium chloride, 6 % deuterated glycerol | 100% D2O | 50 mM | 5.5 | atm Pa | 293 | Bruker 900 Avance 900 |
5 | 3D 1H-13C NOESY aliphatic | 10 mM deuterated MES, 50 mM unlabled sodium chloride, 6 % deuterated glycerol | 100% D2O | 50 mM | 5.5 | atm Pa | 293 | Bruker 600 Avance 600 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | 900 Avance | 900 |
2 | Bruker | 600 Avance | 600 |
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 | 50 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | refinement | Amber | 12 | Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman |
2 | structure calculation | CYANA | 3.2 | Guntert, Mumenthaler and Wuthrich |
3 | chemical shift assignment | CARA | Keller and Wuthrich | |
4 | peak picking | CYANA | 3.2 | Guntert, Mumenthaler and Wuthrich |