2LKU
Solution structure of reduced poplar apo GrxS14
SOLUTION NMR
NMR Experiment | ||||||||
---|---|---|---|---|---|---|---|---|
Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-15N HSQC | 0.2 mM [U-13C; U-15N] apo GrxS14 protein-1, 30 mM TRIS-2, 50 mM sodium chloride-3, 20 mM GSH-4, 95 % H2O-5, 5 % [U-2H] D2O-6 | 95% H2O/5% D2O | 80 | 7.5 | 1 atm | 298 | |
2 | 3D 1H-15N NOESY | 0.2 mM [U-13C; U-15N] apo GrxS14 protein-1, 30 mM TRIS-2, 50 mM sodium chloride-3, 20 mM GSH-4, 95 % H2O-5, 5 % [U-2H] D2O-6 | 95% H2O/5% D2O | 80 | 7.5 | 1 atm | 298 | |
3 | 3D 1H-13C NOESY aliphatic | 0.2 mM [U-13C; U-15N] apo GrxS14 protein-1, 30 mM TRIS-2, 50 mM sodium chloride-3, 20 mM GSH-4, 95 % H2O-5, 5 % [U-2H] D2O-6 | 95% H2O/5% D2O | 80 | 7.5 | 1 atm | 298 | |
4 | 3D 1H-13C NOESY aromatic | 0.2 mM [U-13C; U-15N] apo GrxS14 protein-1, 30 mM TRIS-2, 50 mM sodium chloride-3, 20 mM GSH-4, 95 % H2O-5, 5 % [U-2H] D2O-6 | 95% H2O/5% D2O | 80 | 7.5 | 1 atm | 298 | |
5 | 3D 1H-15N TOCSY | 0.2 mM [U-13C; U-15N] apo GrxS14 protein-1, 30 mM TRIS-2, 50 mM sodium chloride-3, 20 mM GSH-4, 95 % H2O-5, 5 % [U-2H] D2O-6 | 95% H2O/5% D2O | 80 | 7.5 | 1 atm | 298 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 500 |
2 | Bruker | AVANCE | 800 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
simulated annealing | using AMBER ff03 force filed refinement | Amber |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | refinement | Amber | 9.0 | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm |
2 | structure solution | CYANA | 3.0 | Guntert, Mumenthaler and Wuthrich |
3 | structure solution | DYANA | 3.0 | Guntert, Braun and Wuthrich |
4 | processing | NMRDraw | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
5 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
6 | peak picking | NMRView | Johnson, One Moon Scientific | |
7 | geometry optimization | ProcheckNMR | Laskowski and MacArthur | |
8 | chemical shift assignment | SANE | Duggan, Legge, Dyson & Wright | |
9 | collection | TopSpin | Bruker Biospin | |
10 | geometry optimization | TALOS | Cornilescu, Delaglio and Bax |