Solution structure of a membrane-targeting peptide designed based on the N-terminal sequence of E. coli enzyme IIA (Glucose)
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 2mM peptide, 80mM sodium dodecylsulfate | 90% H2O and 10% D2O | 5.4 | ambient | 298 | ||
| 2 | TOCSY | 2mM peptide, 80mM sodium dodecylsulfate | 90% H2O and 10% D2O | 5.4 | ambient | 298 | ||
| 3 | DQF-COSY | 2mM peptide, 80mM sodium dodecylsulfate | 90% H2O and 10% D2O | 5.4 | ambient | 298 | ||
| 4 | (1H,15N)HSQC | 2mM peptide, 80mM sodium dodecylsulfate | 90% H2O and 10% D2O | 5.4 | ambient | 298 | ||
| 5 | (1H,13C)HSQC | 2mM peptide, 80mM sodium dodecylsulfate | 90% H2O and 10% D2O | 5.4 | ambient | 298 | ||
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | The structures are based on 104 distances derived from the NOESY spectra, 20 backbone dihedral angles derived from a set of chemical shifts using the NMR program TALOS, and 5 chi1 angle restraints. | NMRPipe/nmrDraw |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | No NOE violations greater than 0.50 A, rms difference for bond deviations from ideality less than 0.01 A, rms difference for angle deviations from ideality less than 5 degrees, Structures with the lowerest energies in the ensemble. |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 5 |
| Representative Model | 1 (most resemble the average structure) |
| Additional NMR Experimental Information | |
|---|---|
| Details | This structure was determined using standard 2D homonuclear NMR techniques, plus the use of backbone angle restraints derived from a set of heteronuclear chemical shifts measured on the natural abundance peptide bound to micelles. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | data processing | NMRPipe/nmrDraw | 2.1 | Delaglio, F. |
| 2 | noe picking | PIPP | 1.0 | Garrett, D. |
| 3 | refinement | XPLOR-NIH | 1.06 | Schwieters, C.D., Kuszewski, J., Tjandra, N, Clore, G.M. |
| 4 | structural analysis and viewing | MOLMOL | 2K.1 | Koradi, R. |
