2LWG
NMR Structure of the Self-Complementary 10 mer DNA Oligonucleotide 5'-GGATATATCC-3'.
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 | 0.9 mM DNA (5'-D(*GP*GP*AP*TP*AP*TP*AP*TP*CP*C)-3') | 100% D2O | 7 | ambient | 278 | ||
2 | 2D 1H-1H NOESY | 0.9 mM DNA (5'-D(*GP*GP*AP*TP*AP*TP*AP*TP*CP*C)-3') | 90% H2O/10% D2O | 7 | ambient | 278 | ||
3 | 2D DQF-COSY | 0.9 mM DNA (5'-D(*GP*GP*AP*TP*AP*TP*AP*TP*CP*C)-3') | 100% D2O | 7 | ambient | 278 | ||
4 | 2D 1H-1H NOESY | 1.2 mM DNA (5'-D(*GP*GP*AP*TP*AP*TP*AP*TP*CP*C)-3'), 11 mg/mL Pf1 phage | 100% D2O | 7 | ambient | 278 | ||
5 | 2D 1H-13C HSQC aliphatic | 1.2 mM DNA (5'-D(*GP*GP*AP*TP*AP*TP*AP*TP*CP*C)-3'), 11 mg/mL Pf1 phage | 100% D2O | 7 | ambient | 278 | ||
6 | 2D 1H-13C HSQC aromatic | 1.2 mM DNA (5'-D(*GP*GP*AP*TP*AP*TP*AP*TP*CP*C)-3'), 11 mg/mL Pf1 phage | 100% D2O | 7 | ambient | 278 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 600 |
2 | Bruker | AVANCE | 500 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing, molecular dynamics | Amber |
NMR Ensemble Information | |
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Conformer Selection Criteria | target function |
Conformers Calculated Total Number | 5000 |
Conformers Submitted Total Number | 11 |
Representative Model | 1 (minimized average structure) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | structure solution | Amber | 9 | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollman |
2 | refinement | Amber | 9 | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollman |