SOLUTION STRUCTURE OF THE ANALOGUE RETRO-INVERSO (mA-R)REGRIGGC IN CONTACT WITH THE MONOCLONAL ANTIBODY MAB 4X11, NMR, 6 STRUCTURES
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | COSY, TOCSY, NOESY | 5 mM peptide, 0.1 mM mAb; 100 mM phosphate buffer containning 0.02% sodium azide | 95% H2O/5% D2O | 0.1M phosphate | 7 | 1 atm | 277 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | DRX | 400 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| Energy minimisation Molecular dynamics (Simulated Annealing) | The structures are based on a set of 35 to 60 backbone-backbone, backbone-side chain and side chain-side chain distance restraints. The phi angle for the non glycine D-residues was constrained between 0 and 175. A distance dependent dielectric constant equal to 4r was applied. The net electric charges were decreased, while those of the N and C terminal charged groups were neglected. | DYANA |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 50 |
| Conformers Submitted Total Number | 6 |
| Representative Model | 5 (lowest energy) |
| Additional NMR Experimental Information | |
|---|---|
| Details | The peptide/mAb molar ratio was adjusted to 50/1(i.e. 5 mM of peptide and 0.1 mM of mAb) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | structure solution | DYANA | 1.4 | Guntert, Wuthrich |
| 2 | structure solution | Discover | 3 | Molecular Simulations Inc., San Diego, CA |
| 3 | refinement | Discover | 3 | Molecular Simulations Inc., San Diego, CA |
| 4 | collection | XwinNMR | 1.2 | Bruker |
