1SSJ
A DNA DUPLEX CONTAINING A CHOLESTEROL ADDUCT (BETA-ANOMER)
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 2mM duplex, 100mM NaCl | 90% H2O, 10% D2O or 100% D2O | 100 mM NaCl | 7.0 | 1 atm | 278 | |
2 | DQF-COSY | 2mM duplex, 100mM NaCl | 90% H2O, 10% D2O or 100% D2O | 100 mM NaCl | 7.0 | 1 atm | 278 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DMX | 600 |
NMR Refinement | ||
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Method | Details | Software |
relaxation matrix restrained molecular dynamics | THE STRUCTURES ARE BASED ON A TOTAL OF 380 NOE-DERIVED DISTANCE CONSTRAINTS OBTAINED FROM A COMPLETE RELAXATION MATRIX REFINEMENT. THE STRUCTURES WERE CALCULATED BY USING RESTRAINED MOLECULAR DYNAMICS WITH EXPLICIT SOLVENT, AND APPLYING THE PARTICLE MESH EWALD METHOD | DYANA |
NMR Ensemble Information | |
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Conformer Selection Criteria | all calculated structures submitted |
Conformers Calculated Total Number | 10 |
Conformers Submitted Total Number | 10 |
Representative Model | 3 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | structure solution | DYANA | 5.1 | Gunter P., et al. |
2 | iterative matrix relaxation | MARDIGRAS | 5.2 | James, T.L., et al. |
3 | refinement | Amber | 5.0 | Kollman P., et al. |
4 | collection | XwinNMR | 1.3 | BRUKER |
5 | data analysis | XEASY | 1.0 | Bartels, et al. |