2LZV
DNA duplex containing mispair-aligned O4U-heptylene-O4U interstrand cross-link
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 0.5 mM DNA (5'-D(*CP*GP*AP*AP*AP*UP*TP*TP*TP*CP*G)-3') | 100% D2O | 0.1 | 7.5 | ambient | 298 | |
2 | 2D TOCSY | 0.5 mM DNA (5'-D(*CP*GP*AP*AP*AP*UP*TP*TP*TP*CP*G)-3') | 100% D2O | 0.1 | 7.5 | ambient | 298 | |
3 | 2D DQF-COSY | 0.5 mM DNA (5'-D(*CP*GP*AP*AP*AP*UP*TP*TP*TP*CP*G)-3') | 100% D2O | 0.1 | 7.5 | ambient | 298 | |
4 | 2D 1H-31P HSQC | 0.5 mM DNA (5'-D(*CP*GP*AP*AP*AP*UP*TP*TP*TP*CP*G)-3') | 100% D2O | 0.1 | 7.5 | ambient | 298 | |
5 | 2D NOESY | 0.5 mM DNA (5'-D(*CP*GP*AP*AP*AP*UP*TP*TP*TP*CP*G)-3') | 90% H2O/10% D2O | 0.1 | 7.5 | ambient | 273 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | Unity Inova | 500 |
2 | Varian | Unity Inova | 800 |
3 | Varian | VNMRS | 500 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
simulated annealing | CNS |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with the least restraint violations and the lowest energy |
Conformers Calculated Total Number | 20 |
Conformers Submitted Total Number | 11 |
Representative Model | 1 (minimized average structure) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | refinement | CNS | 1.2 | Brunger, Adams, Clore, Gros, Nilges and Read |
2 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
3 | data analysis | NMRView | Johnson, One Moon Scientific | |
4 | collection | VnmrJ | Varian |