2KH4
Aflatoxin Formamidopyrimidine alpha anomer in single strand DNA
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-1H NOESY | 0.4 mM (5'-D(*DCP*DTP*(FAG)P*DA)-3')-1 | 100% D2O | 0.1 | 8.7 | ambient | 278 | |
2 | 2D 1H-1H COSY | 0.4 mM (5'-D(*DCP*DTP*(FAG)P*DA)-3')-1 | 100% D2O | 0.1 | 8.7 | ambient | 278 | |
3 | 2D 1H-1H NOESY | 0.4 mM (5'-D(*DCP*DTP*(FAG)P*DA)-3')-2 | 90% H2O/10% D2O | 0.1 | 8.7 | ambient | 278 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | Advance | 500 |
NMR Refinement | ||
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Method | Details | Software |
molecular dynamics | Amber |
NMR Ensemble Information | |
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Conformer Selection Criteria | back calculated data agree with experimental NOESY spectrum |
Conformers Calculated Total Number | 8 |
Conformers Submitted Total Number | 8 |
Representative Model | 1 (closest to the average) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | refinement | Amber | 9 | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm |
2 | chemical shift assignment | Sparky | Goddard | |
3 | data analysis | Sparky | Goddard | |
4 | processing | TopSpin | Bruker Biospin | |
5 | restraint generation | MARDIGRAS | Borgias, B.A. & James, T.L. | |
6 | structure validation | CORMA | James T.L. | |
7 | data analysis | Curves | Lavery, R. and Sklenar, H |