2MND
Recognition complex of DNA d(CGACGCGTCG)2 with thiazotropsin B
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-1H TOCSY | 2 mM Thiazotropsin B, 2 mM 5'-D(*CP*GP*AP*CP*GP*CP*GP*TP*CP*G)-3' | 90% H2O/10% D2O | 0.05 | 7.4 | ambient | 298 | |
2 | 2D 1H-1H COSY | 2 mM Thiazotropsin B, 2 mM 5'-D(*CP*GP*AP*CP*GP*CP*GP*TP*CP*G)-3' | 90% H2O/10% D2O | 0.05 | 7.4 | ambient | 298 | |
3 | 2D 1H-1H NOESY | 2 mM Thiazotropsin B, 2 mM 5'-D(*CP*GP*AP*CP*GP*CP*GP*TP*CP*G)-3' | 90% H2O/10% D2O | 0.05 | 7.4 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 600 |
NMR Refinement | ||
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Method | Details | Software |
molecular dynamics | TopSpin |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the least restraint violations |
Conformers Calculated Total Number | 1 |
Conformers Submitted Total Number | 1 |
Representative Model | 1 (minimized average structure) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | collection | TopSpin | 2.1 | Bruker Biospin |
2 | processing | TopSpin | 2.1 | Bruker Biospin |
3 | chemical shift assignment | Sparky | Goddard | |
4 | data analysis | Sparky | Goddard | |
5 | peak picking | Sparky | Goddard | |
6 | geometry optimization | SYBYL | Tripos | |
7 | geometry optimization | Amber | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman | |
8 | refinement | Amber | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman | |
9 | structure solution | Amber | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman | |
10 | structure solution | MARDIGRAS | Tripos |