Structure of e131 Zeta Peptide, a Potent Antagonist of the High-Affinity IgE Receptor
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 1 mM e131 peptide, pH 6.0, 0.1 mM NaN3, 0.1 mM DSS 85%H2O/7%D2O/8%acetonitrile-d3 | 85%H2O/7%D2O/8%acetonitrile-d3 | 6.0 | ambient | 308 | ||
| 2 | DQF-COSY | 1 mM e131 peptide, pH 6.0, 0.1 mM NaN3, 0.1 mM DSS 85%H2O/7%D2O/8%acetonitrile-d3 | 85%H2O/7%D2O/8%acetonitrile-d3 | 6.0 | ambient | 308 | ||
| 3 | 2D TOCSY | 1 mM e131 peptide, pH 6.0, 0.1 mM NaN3, 0.1 mM DSS 85%H2O/7%D2O/8%acetonitrile-d3 | 85%H2O/7%D2O/8%acetonitrile-d3 | 6.0 | ambient | 308 | ||
| 4 | 2D ROESY | 1 mM e131 peptide, pH 6.0, 0.1 mM NaN3, 0.1 mM DSS 85%H2O/7%D2O/8%acetonitrile-d3 | 85%H2O/7%D2O/8%acetonitrile-d3 | 6.0 | ambient | 308 | ||
| 5 | 2D NOESY | 1 mM e131 peptide, pH 6.0, 0.1 mM NaN3, 0.1 mM DSS | 92%D2O/8%acetonitrile-d3 | 6.0 | ambient | 308 | ||
| 6 | 2D COSY-35 | 1 mM e131 peptide, pH 6.0, 0.1 mM NaN3, 0.1 mM DSS | 92%D2O/8%acetonitrile-d3 | 6.0 | ambient | 308 | ||
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | DRX | 500 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| hybrid distance geometry/simulated annealing, then further refined by restrained molecular dynamics | The structures are based on a total of 143 NOE-derived distance restraints and 24 dihedral angle restraints. | XwinNMR |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with acceptable covalent geometry,structures with the least restraint violations |
| Conformers Calculated Total Number | 50 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (closest to the average) |
| Additional NMR Experimental Information | |
|---|---|
| Details | This structure was determined using standard 2D homonuclear techniques. 3JHNHA WERE OBTAINED BY FITTING LORENTZIAN LINES TO THE ANTIPHASE DOUBLETS OF HN-HA PEAKS IN A 2QF-COSY SPECTRUM PROCESSED TO HIGH DIGITAL RESOLUTION IN F2. 3JHAHB WERE EXTRACTED FROM A COSY-35 SPECTRUM ACQUIRED IN D2O |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | XwinNMR | 2.1 | Bruker, Inc. |
| 2 | data analysis | Felix | 98.0 | Molecular Simulations, Inc. |
| 3 | structure solution | DGII | 98.0 | Molecular Simulations, Inc. |
| 4 | refinement | Discover | 98.0 | Molecular Simulations, Inc. |
