The outward-open structure of BjSemiSWEET in native cellular membranes determined by in situ solid-state NMR
SOLID-STATE NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 3D NCACX | 60 % w/w [U-13C; U-15N] Sucrose transport protein, Bradyrhizobium japonicum SemiSWEET (BjSemiSWEET) | H2O | 1 M | 8.2 | 1 mbar | 298 | Bruker Bruker AVANCE III 800 800 |
| 2 | 3D NCOCX | 60 % w/w [U-13C; U-15N] Sucrose transport protein, Bradyrhizobium japonicum SemiSWEET (BjSemiSWEET) | H2O | 1 M | 8.2 | 1 mbar | 298 | Bruker Bruker AVANCE III 800 800 |
| 3 | 3D CONCA | 60 % w/w [U-13C; U-15N] Sucrose transport protein, Bradyrhizobium japonicum SemiSWEET (BjSemiSWEET) | H2O | 1 M | 8.2 | 1 mbar | 298 | Bruker Bruker AVANCE III 800 800 |
| 5 | 2D 500ms CORD | 60 % w/w [U-13C; U-15N] Sucrose transport protein, Bradyrhizobium japonicum SemiSWEET (BjSemiSWEET) | H2O | 1 M | 8.2 | 1 mbar | 298 | Bruker Bruker AVANCE III 800 800 |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | Bruker AVANCE III 800 | 800 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | A total of 1000 structures were de novo generated through molecular dynamics simulated annealing in torsion angle space with two consecutive annealing schedules, followed by final gradient minimization in Cartesian space. Each structure was subject to specific constraints: 379*2 unique non-redundant 13C-13C distance constraints, 74*2 hydrogen bond constraints, and 81*2 TALOS-N derived torsion angle constrained chains for comformation I, per BjSemiSWEET dimer structure. | X-PLOR NIH |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 1000 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | chemical shift assignment | Sparky | Goddard | |
| 2 | structure calculation | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
| 3 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 4 | peak picking | Sparky | Goddard | |
