3D structure of cap-gly domain of mammalian dynactin determined by magic angle spinning NMR spectroscopy
SOLID-STATE NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | DARR | 4.2 mM [U-100% 13C; U-100% 15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 271 | |
| 2 | NCA | 4.2 mM [U-100% 13C; U-100% 15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 256.3 | |
| 3 | NCO | 4.2 mM [U-100% 13C; U-100% 15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 256.3 | |
| 4 | NCACB | 4.2 mM [U-100% 13C; U-100% 15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 256.3 | |
| 5 | NCACX | 4.2 mM [U-100% 13C; U-100% 15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 256.3 | |
| 6 | CTUC-COCA | 4.2 mM [U-100% 13C; U-100% 15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 256.3 | |
| 7 | CTUC-CACB | 4.2 mM [U-100% 13C; U-100% 15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 256.3 | |
| 8 | CTUC-NCOCA | 4.2 mM [U-100% 13C; U-100% 15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 256.3 | |
| 9 | NCOCX | 4.2 mM [U-100% 13C; U-100% 15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 256.3 | |
| 10 | DARR | 4.2 mM [U-100% 13C; U-100% 15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 256.3 | |
| 11 | RDSD | 4.2 mM [2-13C]-glycerol; U-100% 15N CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 271 | |
| 12 | RDSD | 4.2 mM [1,3-13C]-glycerol; U-100% 15N CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 271 | |
| 13 | NCACX | 4.2 mM [U-13C; U-15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 276 | |
| 14 | NCOCX | 4.2 mM [U-13C; U-15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 276 | |
| 15 | DARR | 4.2 mM [U-13C; U-15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 276 | |
| 16 | CANCX | 4.2 mM [U-13C; U-15N] CAP-Gly | 100% H2O | 30 | 6.0 | ambient | 276 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | InfinityPlus | 600 |
| 2 | Varian | INOVA | 900 |
| 3 | Bruker | AVANCE III | 850 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing, torsion angle dynamics, molecular dynamics | X-PLOR NIH | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 500 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 2 | chemical shift assignment | Sparky | Goddard | |
| 3 | processing | Roland_NMR_Toolkit | (RNMRTK)-Hoch, Stern, Li, Mobli, Maciejewski, Gryk | |
| 4 | structure calculation | X-PLOR NIH | 2.29 | Schwieters, Kuszewski, Tjandra and Clore |
| 5 | torsion angle prediction | TALOS+ | 3.70F1 | Cornilescu, Delaglio and Bax |
| 6 | refinement | X-PLOR NIH | 2.29 | Schwieters, Kuszewski, Tjandra and Clore |
