SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-15N HSQC | 120 uM [U-15N-distal11] Branched K11/K48-Linked Tri-Ubiquitin | 95% H2O/5% D2O | 0 M | 6.8 | 1 atm | 298 | Bruker AVANCE III 600 |
| 2 | 2D 1H-15N HSQC | 100 uM [U-15N-distal48] Branched K11/K48-Linked Tri-Ubiquitin | 95% H2O/5% D2O | 0 M | 6.8 | 1 atm | 298 | Bruker AVANCE III 800 |
| 3 | 2D 1H-15N HSQC | 60 uM [U-15N-distal11] Branched K11/K48-Linked Tri-Ubiquitin | 95% H2O/5% D2O | 0 M | 6.8 | 1 atm | 298 | Bruker AVANCE III 600 |
| 4 | 2D 1H-15N HSQC | 110 uM [U-15N-distal48] Branched K11/K48-Linked Tri-Ubiquitin | 95% H2O/5% D2O | 0 M | 6.8 | 1 atm | 298 | Bruker AVANCE III 800 |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE III | 800 |
| 2 | Bruker | AVANCE III | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | THE INITIAL HADDOCK INPUT WAS THE CRYSTAL STRUCTURE OF BRANCHED K11/K48-LINKED TRI-UBIQUITIN (PDB ID 6OQ1). AMBIGUOUS DISTANCE RESTRAINTS WERE FROM CHEMICAL SHIFT PERTURBATIONS AND DISTANCE RESTRAINTS WERE BASED ON PRES. | HADDOCK |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 400 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | processing | TopSpin | Bruker Biospin | |
| 2 | peak picking | Sparky | Goddard | |
| 3 | refinement | HADDOCK | Bonvin | |
| 4 | structure calculation | HADDOCK | Bonvin | |
