1IG4
Solution Structure of the Methyl-CpG-Binding Domain of Human MBD1 in Complex with Methylated DNA
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 4D_13C/15N-separated_NOESY | 1.3mM MBD1(U-15N,13C)-DNA Complex; 20mM phosphate buffer | 90% H2O/10% D2O | 6.5 | 303 | |||
2 | 4D_13C-separated_NOESY | 1.3mM MBD1(U-15N,13C)-DNA Complex; 20mM phosphate buffer | 100% D2O | 6.5 | 303 | |||
3 | 3D_15N-separated_NOESY | 1mM MBD1(U-15N)-DNA Complex; 20mM phosphate buffer | 90% H2O/10% D2O | 6.5 | 303 | |||
4 | 3D_13C-filtered_13C-separated_NOESY | 1.3mM MBD1(U-15N,13C)-DNA Complex; 20mM phosphate buffer | 100% D2O | 6.5 | 303 | |||
5 | HNHA | 1mM MBD1(U-15N)-DNA Complex; 20mM phosphate buffer | 90% H2O/10% D2O | 6.5 | 303 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DRX | 500 |
2 | Bruker | DMX | 500 |
3 | Bruker | DRX | 800 |
NMR Refinement | ||
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Method | Details | Software |
Structure calculations were performed following simulated annealing protocols using X-PLOR. | The structure was determined from a total of 2,022 distance and dihedral angle restraints, including 91 intermolecular NOE restraints. | NMRPipe |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 200 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Additional NMR Experimental Information | |
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Details | The structure was determined using multi-dimensional heteronuclear techniques. |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | NMRPipe | 1.8 | Delaglio |
2 | data analysis | PIPP | 4.0.4 | Garrett |
3 | data analysis | NMRView | 4 | Johnson |
4 | refinement | X-PLOR | 3.8 | Brunger |