Solution structure of the R3H domain from human Smubp-2 in complex with 2'-deoxyguanosine-5'-monophosphate
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-15N HSQC | 0.9 mM [U-99% 15N] Smubp2_R3H, 5.5 mM 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE, 5 % [U-100% 2H] D2O, 10 mM sodium phosphate, 100 mM sodium chloride, 0.03 % sodium azide | 95% H2O/5% D2O | 0.12 | 6.3 | ambient | 298 | |
| 2 | 2D 1H-1H TOCSY | 0.9 mM [U-99% 15N] Smubp2_R3H, 5.5 mM 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE, 5 % [U-100% 2H] D2O, 10 mM sodium phosphate, 100 mM sodium chloride, 0.03 % sodium azide | 95% H2O/5% D2O | 0.12 | 6.3 | ambient | 298 | |
| 3 | 2D 1H-1H NOESY | 0.9 mM [U-99% 15N] Smubp2_R3H, 5.5 mM 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE, 5 % [U-100% 2H] D2O, 10 mM sodium phosphate, 100 mM sodium chloride, 0.03 % sodium azide | 95% H2O/5% D2O | 0.12 | 6.3 | ambient | 298 | |
| 4 | 3D 1H-15N NOESY | 0.9 mM [U-99% 15N] Smubp2_R3H, 5.5 mM 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE, 5 % [U-100% 2H] D2O, 10 mM sodium phosphate, 100 mM sodium chloride, 0.03 % sodium azide | 95% H2O/5% D2O | 0.12 | 6.3 | ambient | 298 | |
| 5 | 3D HNHA | 0.9 mM [U-99% 15N] Smubp2_R3H, 5.5 mM 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE, 5 % [U-100% 2H] D2O, 10 mM sodium phosphate, 100 mM sodium chloride, 0.03 % sodium azide | 95% H2O/5% D2O | 0.12 | 6.3 | ambient | 298 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| torsion angle dynamics, simulated annealing | VnmrJ | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | target function |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (closest to the average) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | VnmrJ | 2.1b | Varian |
| 2 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 3 | chemical shift assignment | XEASY | Bartels et al. | |
| 4 | peak picking | XEASY | Bartels et al. | |
| 5 | structure solution | CYANA | 2.1 | Guntert, Mumenthaler and Wuthrich |
| 6 | data analysis | CYANA | 2.1 | Guntert, Mumenthaler and Wuthrich |
| 7 | refinement | CNS | Brunger, Adams, Clore, Gros, Nilges and Read | |
| 8 | refinement | CYANA | 2.1 | Guntert, Mumenthaler and Wuthrich |
