1I11
SOLUTION STRUCTURE OF THE DNA BINDING DOMAIN, SOX-5 HMG BOX FROM MOUSE
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D_1H_NOESY | 3 mM Sox-5 HMG Box, 75 mM potassium phosphate buffer, 0.5 mM DTT | 100% D2O | 75 mM KPO4 | 6.20 | Ambient | 298.00 | |
2 | 2D_1H_NOESY | 3 mM Sox-5 HMG Box, 75 mM potassium phosphate buffer, 0.5 mM DTT | 90% H2O/10% D2O | 75 mM KPO4 | 6.20 | Ambient | 298.00 | |
3 | 2D_15N-1H_HMQC-J | 1 mM [U-100% 15N] Sox-5 HMG Box, 75 mM potassium phosphate buffer, 0.5 mM DTT | 90% H2O/10% D2O | 75 mM KPO4 | 6.20 | Ambient | 298.00 | |
4 | 3D_15N-1H_NOESY | 2-3 mM [U-100% 15N] Sox-5 HMG Box, 75 mM potassium phosphate buffer, 0.5 mM DTT | 90% H2O/10% D2O | 75 mM KPO4 | 6.20 | Ambient | 298.00 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | GE | OMEGA | 600 |
2 | Bruker | AM | 600 |
3 | Varian | UNITYPLUS | 500 |
NMR Refinement | ||
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Method | Details | Software |
SIMULATING ANNEALING | Structures are based on a total of 1383 nonredundant distance NOE restraints, 61 dihedral angle restraints and 24 paired distance restraints for hydrogen bonds. | X-PLOR |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the least restraint violations,structures with the lowest energy |
Conformers Calculated Total Number | 50 |
Conformers Submitted Total Number | 30 |
Representative Model | 1 (lowest energy) |
Additional NMR Experimental Information | |
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Details | This Structure was determined using a combination of 2D and 3D NMR spectra. THE 30 STRUCTURES ARE ALIGNED OVER ALL BACKBONE ATOMS FOR RESIDUES 10-25 AND 32-43. MODEL 1 IS THE MINIMUM ENERGY AND REFERENCE STRUCTURE FOR THE OTHER 29 STRUCTURES. |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | refinement | X-PLOR | 3.851 | BRUNGER |
2 | data analysis | Felix | 2.30 | Molecular Simulations |
3 | data analysis | NMRView | 3 | JOHNSON, BRUCE A. |
4 | data analysis | Insight II | 97.0 | Molecular Simulations |