High resolution structure of DsbB C41S by joint calculation with solid-state NMR and X-ray data
SOLID-STATE NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D CC DARR | 7 mg [U-100% 13C; U-100% 15N] DsbB, 2 mg DDM, 7 mg E. coli lipids | 90% H2O/10% D2O | 7.8 | ambient | 261 | ||
| 2 | 2D CC DARR | 5 mg [2-13C-glycerol; U-15N] DsbB, 2 mg DDM, 7 mg E. coli lipids | 90% H2O/10% D2O | 7.8 | ambient | 261 | ||
| 3 | 2D CC DARR | 4 mg [1,3-13C-glycerol; U-15N] DsbB, 2 mg DDM, 7 mg E. coli lipids | 90% H2O/10% D2O | 7.8 | ambient | 261 | ||
| 4 | 3D NCACX | 7 mg [U-100% 13C; U-100% 15N] DsbB, 2 mg DDM, 7 mg E. coli lipids | 90% H2O/10% D2O | 7.8 | ambient | 261 | ||
| 5 | 3D NCOCX | 7 mg [U-100% 13C; U-100% 15N] DsbB, 2 mg DDM, 7 mg E. coli lipids | 90% H2O/10% D2O | 7.8 | ambient | 261 | ||
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 750 |
| 2 | Varian | VXRS | 500 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | JOINT CALCULATION OF DSBB C41S FAB WITH SOLID-STATE NMR RESTRAINTS AND X-RAY REFLECTIONS (X-RAY DATA ARE FROM PDB ID: 2ZUQ) | Sparky |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 200 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (lowest energy) |
| Additional NMR Experimental Information | |
|---|---|
| Details | Chemical shifts assignments and CC correlations provide dihedral angle and distance restraints. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | chemical shift assignment | Sparky | Goddard | |
| 2 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 3 | refinement | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
| 4 | structure solution | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
| 5 | data analysis | TALOS+ | Shen, Cornilescu, Delaglio and Bax | |
| 6 | collection | VnmrJ | Varian | |
