1I35
SOLUTION STRUCTURE OF THE RAS-BINDING DOMAIN OF THE PROTEIN KINASE BYR2 FROM SCHIZOSACCHAROMYCES POMBE
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 1.2 mM Byr2 unlabeled,25 mM DTE, 200 mM deuterated glycine, 20 mM phosphate buffer, 0.5 mM EDTA, 0.5 mM NaN3, 0.1 mM DSS | 90% H2O/10% D2O | 200 mM deuterated glycine, 20 mM phosphate buffer | 6.9 | ambient | 298 | |
2 | 2D NOESY | 1.2 mM Byr2 unlabeled,25 mM DTE, 200 mM deuterated glycine, 20 mM phosphate buffer, 0.5 mM EDTA, 0.5 mM NaN3, 0.1 mM DSS | 100% D2O | 200 mM deuterated glycine, 20 mM phosphate buffer | 6.9 | ambient | 298 | |
3 | 3D_15N-separated_NOESY | 1.0 mM Byr2 15N-labeled,25 mM DTE, 200 mM deuterated glycine, 20 mM phosphate buffer, 0.5 mM EDTA, 0.5 mM NaN3, 0.1 mM DSS | 90% H2O/10% D2O | 200 mM deuterated glycine, 20 mM phosphate buffer | 6.9 | ambient | 298 | |
4 | HNHA | 1.0 mM Byr2 15N-labeled,25 mM DTE, 200 mM deuterated glycine, 20 mM phosphate buffer, 0.5 mM EDTA, 0.5 mM NaN3, 0.1 mM DSS | 90% H2O/10% D2O | 200 mM deuterated glycine, 20 mM phosphate buffer | 6.9 | ambient | 298 | |
5 | 3D_13C-separated_NOESY | 0.7 mM Byr2 15N-13C-labeled,25 mM DTE, 200 mM deuterated glycine, 20 mM phosphate buffer, 0.5 mM EDTA, 0.5 mM NaN3, 0.1 mM DSS | 100% D2O | 200 mM deuterated glycine, 20 mM phosphate buffer | 6.9 | ambient | 298 | |
6 | 2D-HSQC with no decoupling of 1H during t1(measurement of residual dipolar couplings) | 1.0 mM Byr2 15N-labeled,25 mM DTE, 200 mM deuterated glycine, 20 mM phosphate buffer, 0.5 mM EDTA, 0.5 mM NaN3, 0.1 mM DSS, 5 wt.-% phospholipid bicelles, 90% H2O/10% D2O | 90% H2O/10% D2O | 200 mM deuterated glycine, 20 mM phosphate buffer | 6.9 | ambient | 305 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DRX | 600 |
2 | Bruker | DRX | 800 |
NMR Refinement | ||
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Method | Details | Software |
High temperature torsion angle dynamics. First cooling stage using torsion angle dynamics. Second cooling stage using Cartesian dynamics. Final energy minimization. | Structures are based on a total of 824 NOE-restraints, 88 backbone dihedral angle restrains, 29 hydrogen bonds and 28 residual dipolar couplings | UXNMR |
NMR Ensemble Information | |
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Conformer Selection Criteria | The submitted conformer models are the 10 structures with the lowest total energy |
Conformers Calculated Total Number | 200 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | collection | UXNMR | 2.6 | Bruker software department |
2 | processing | UXNMR | 2.6 | Bruker software department |
3 | data analysis | AURELIA | 2.7.1 | Neidig, K.-P., Geyer, M., Goerler, A., Antz, C., Saffrich, R., Beneicke, W. & Kalbitzer, H.R |
4 | data analysis | AUREMOL | 0.6 | Ganslmeier, B., Gronwald, W., Ried, A., Neidig, K.-P., Fischer, C. & Kalbitzer, H.R. |
5 | structure solution | CNS | 1.0 | Bruenger, A.T., Adams, P.D., Clore, G.M., DeLano, W.L., Gros, P., Grosse-Kunstleve, Jiang, R.W., Kuszewski, J., Nilges, M., Pannu, N.S., Read, R.J., Rice, L.M., Simonson, T. & Warren, G.L. |
6 | refinement | CNS | 1.0 | Bruenger, A.T., Adams, P.D., Clore, G.M., DeLano, W.L., Gros, P., Grosse-Kunstleve, Jiang, R.W., Kuszewski, J., Nilges, M., Pannu, N.S., Read, R.J., Rice, L.M., Simonson, T. & Warren, G.L. |