NMR structure of yersinia pestis Ail (attachment invasion locus) in decylphosphocholine micelles
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-15N HSQC | 0.4-0.5 mM [U-100% 13C; U-100% 15N] Yersinia pestis Ail, 20 mM sodium phosphate, 5 mM sodium chloride, 170 mM decyl-phosphocholine (DePC) | 90% H2O/10% D2O | 25 | 6.8 | ambient | 318 | |
| 2 | 3D HNCA | 0.4-0.5 mM [U-100% 13C; U-100% 15N] Yersinia pestis Ail, 20 mM sodium phosphate, 5 mM sodium chloride, 170 mM decyl-phosphocholine (DePC) | 90% H2O/10% D2O | 25 | 6.8 | ambient | 318 | |
| 3 | 3D HNCACB | 0.4-0.5 mM [U-100% 13C; U-100% 15N] Yersinia pestis Ail, 20 mM sodium phosphate, 5 mM sodium chloride, 170 mM decyl-phosphocholine (DePC) | 90% H2O/10% D2O | 25 | 6.8 | ambient | 318 | |
| 4 | 3D 1H-15N NOESY | 0.4-0.5 mM [U-100% 13C; U-100% 15N] Yersinia pestis Ail, 20 mM sodium phosphate, 5 mM sodium chloride, 170 mM decyl-phosphocholine (DePC) | 90% H2O/10% D2O | 25 | 6.8 | ambient | 318 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | Structures were folded and refined using the standard nonbonded potential REPEL | NMRPipe |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the least restraint violations |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | data analysis | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 2 | chemical shift assignment | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 3 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 4 | chemical shift calculation | TALOS | Cornilescu, Delaglio and Bax | |
| 5 | structure solution | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
| 6 | refinement | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
