1JBF
Hairpin Peptide that Inhibits IgE Activity by Binding to the High Affinity IgE Receptor
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 2 mM IGE06 | 92% H2O/8% D2O, pH 5.7, 0.1 mM NaN3, 0.1 mM DSS | no salt | 5.7 | ambient | 288 | |
2 | DQF-COSY | 2 mM IGE06 | 92% H2O/8% D2O, pH 5.7, 0.1 mM NaN3, 0.1 mM DSS | no salt | 5.7 | ambient | 288 | |
3 | 2D TOCSY | 2 mM IGE06 | 92% H2O/8% D2O, pH 5.7, 0.1 mM NaN3, 0.1 mM DSS | no salt | 5.7 | ambient | 288 | |
4 | 2D COSY-35 | 2 mM IGE06 | 92% H2O/8% D2O, pH 5.7, 0.1 mM NaN3, 0.1 mM DSS | no salt | 5.7 | ambient | 288 | |
5 | 2D ROESY | 2 mM IGE06 | 92% H2O/8% D2O, pH 5.7, 0.1 mM NaN3, 0.1 mM DSS | no salt | 5.7 | ambient | 288 | |
6 | 2D NOESY | 2 mM IGE06 | 100% D2O, pH 5.7, 0.1 mM NaN3, 0.1 mM DSS | no salt | 5.7 | ambient | 288 | |
7 | 2D COSY-35 | 2 mM IGE06 | 100% D2O, pH 5.7, 0.1 mM NaN3, 0.1 mM DSS | no salt | 5.7 | ambient | 288 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AMX | 500 |
NMR Refinement | ||
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Method | Details | Software |
Hybrid distance geometry/simulated annealing followed by restrained molecular dynamics. | Structures were calculated based on a total of 109 distance and 16 dihedral angle restraints. The final ensemble of 20 models has no distance or dihedral angle restraint violations greater than 0.1 angstrom or 2 degrees, respectively. | Felix |
NMR Ensemble Information | |
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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 | |
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Details | 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. 3JHNHa for Gly8 and Gly11 were obtained from analysis of the COSY-35 spectrum acquired in H2O. 3JHaHb were extracted from a COSY-35 spectrum acquired in D2O. |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | data analysis | Felix | 97.0 | Molecular Simulations, Inc. |
2 | collection | UXNMR | Bruker, Inc. | |
3 | structure solution | DGII | 97.0 | Havel |
4 | refinement | Discover | 97.0 | Molecular Simulations, Inc. |