Solution structure of the complex formed by the two N-terminal RNA-binding domains of nucleolin and a pre-rRNA target
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 3D_13C-separated_NOESY | U-(15N,13C) nucleolin RBD12 in a 1 mM 1:1 complex with unlabeled b2NRE, 100% D2O | 50 mM phosphate buffer, 100% D2O | 150 mM KCl | 7.0 | ambient | 310 | |
| 2 | 3D_15N-separated_NOESY | U-(15N) nucleolin RBD12 in a 1 mM 1:1 complex with unlabeled b2NRE, 95% H2O, 5% D2O | 50 mM phosphate buffer, 95% H2O, 5% D2O | 150 mM KCl | 7.0 | ambient | 310 | |
| 3 | 2D_13C-filtered_NOESY | U-(15N,13C) nucleolin RBD12 in a 1 mM 1:1 complex with unlabeled b2NRE, 100% D2O | 50 mM phosphate buffer, 100% D2O | 150 mM KCl | 7.0 | ambient | 310 | |
| 4 | 2D_13C-filtered_NOESY | U-(15N,13C) nucleolin RBD12 in a 1 mM 1:1 complex with unlabeled b2NRE, 100% D2O | 50 mM phosphate buffer, 100% D2O | 50 mM KCl | 7.0 | ambient | 310 | |
| 5 | 2D_13C-filtered_NOESY | U-(15N,13C) nucleolin RBD12 in a 1 mM 1:1 complex with unlabeled b2NRE, 100% D2O | 50 mM phosphate buffer, 100% D2O | 200 mM KCl | 7.0 | ambient | 310 | |
| 6 | T1-coupled HSQC | U-(15N) nucleolin RBD12 in a 1 mM 1:1 complex with unlabeled b2NRE, 95% H2O, 5% D2O | 50 mM phosphate buffer, 95% H2O, 5% D2O | 150 mM KCl | 7.0 | ambient | 310 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | DRX | 600 |
| 2 | Bruker | DRX | 500 |
| 3 | Bruker | DRX | 750 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | The structures are based on 3744 restraints, 3222 are NOE-derived distance constraints, 160 hydrogen bond restraints, 80 protein NH residual dipolar couplings, 250 dihedral angle restraints. | XwinNMR |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 40 |
| Conformers Submitted Total Number | 14 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | XwinNMR | 2.6 | Bruker |
| 2 | processing | XwinNMR | 2.6 | Bruker |
| 3 | data analysis | Felix | 97 | BIOSYM Technologies |
| 4 | data analysis | AURELIA | 3.108 | Bruker |
| 5 | refinement | X-PLOR | NIH | Schwieters, C.D., Kuszewski, J.J., Tjandra, N., Clore, G.M. |
