8R63
Solution structure of branaplam bound to the RNA duplex formed upon 5'-splice site recognition
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 | 0.001 M unlabled RNA duplex, 0.001 M unlabled Branaplam, 0.01 M unlabled MES, 0.05 M unlabled NaCl | 100% D2O | 50 mM | 5.5 | atm atm | 293 | Bruker AVANCE III HD 900 |
2 | 2D 1H-13C HSQC aliphatic | 0.001 M unlabled RNA duplex, 0.001 M unlabled Branaplam, 0.01 M unlabled MES, 0.05 M unlabled NaCl | 100% D2O | 50 mM | 5.5 | atm atm | 293 | Bruker AVANCE III HD 900 |
3 | 2D 1H-13C HSQC aromatic | 0.001 M unlabled RNA duplex, 0.001 M unlabled Branaplam, 0.01 M unlabled MES, 0.05 M unlabled NaCl | 100% D2O | 50 mM | 5.5 | atm atm | 293 | Bruker AVANCE III HD 900 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE III HD | 900 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | AmberTools |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with the least restraint violations |
Conformers Calculated Total Number | 50 |
Conformers Submitted Total Number | 15 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | refinement | AmberTools | 2023 | Case D |
2 | structure calculation | CYANA | 3 | Guntert, Mumenthaler and Wuthrich |
3 | chemical shift assignment | CARA | Keller and Wuthrich | |
4 | peak picking | CYANA | Guntert, Mumenthaler and Wuthrich |