2JVY
Solution Structure of the EDA-ID-related C417F mutant of human NEMO zinc finger
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-1H NOESY | 1 mM NEMO ZF-C417F, 2 mM ZnS04, 2 mM TCEP | 90% H2O/10% D2O | 0 | 6.6 | ambient | 298 | |
2 | 2D 1H-1H TOCSY | 1 mM NEMO ZF-C417F, 2 mM ZnS04, 2 mM TCEP | 90% H2O/10% D2O | 0 | 6.6 | ambient | 298 | |
3 | 2D purged-COSY | 1 mM NEMO ZF-C417F, 2 mM ZnS04, 2 mM TCEP | 90% H2O/10% D2O | 0 | 6.6 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 600 |
NMR Refinement | ||
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Method | Details | Software |
torsion angle dynamics | The structure was determined using NOEs and dihedral angles data. Tetrahedral geometry of the zinc coordination was assumed involving only the thiol groups of C6 and C9 and the NE2 atom of H22. Of the 200 calculated conformers, the 80 conformers with the lowest total energy were refined in water. The 10 refined conformers of lowest energy represent the final ensemble. | VNMR |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 200 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (closest to the average) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | collection | VNMR | 6.1C | Varian |
2 | processing | NMRPipe | 2.2 | Delaglio, F. et al. |
3 | data analysis | NMRView | 5.03 | Johnson, B.A. et al. |
4 | peak picking | NMRView | 5.03 | Johnson, B.A. et al. |
5 | chemical shift assignment | NMRView | 5.03 | Johnson, B.A. et al. |
6 | structure solution | ARIA | 1.2 | Linge, J.P. et al. |
7 | refinement | ARIA | 1.2 | Linge, J.P. et al. |