1Y8D
Dimeric parallel-stranded tetraplex with 3+1 5' G-tetrad interface, single-residue chain reversal loops and GAG triad in the context of A(GGGG) pentad
SOLUTION NMR
NMR Experiment | ||||||||
---|---|---|---|---|---|---|---|---|
Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | DNA 15N,13C | 90 MM KCL pH 7; 90%H2O,10% D2O | 90 mM KCl | 7 | 1 atm | 298 | |
2 | 2D NOESY | DNA 15N,13C | 90 MM KCL pH 7; 100% D2O | |||||
3 | 2D TOCSY | DNA 15N,13C | 90 MM KCL pH 7; 90%H2O,10% D2O | 90 mM KCl | 7 | 1 atm | 298 | |
4 | 1H-31P COSY | DNA 15N,13C | 90 MM KCL pH 7; 100% D2O | |||||
5 | 1H-15N JRHMQC | DNA 15N,13C | 90 MM KCL pH 7; 90%H2O,10% D2O | 90 mM KCl | 7 | 1 atm | 298 | |
6 | 1H-13C JRHMBC | DNA 15N,13C | 90 MM KCL pH 7; 90%H2O,10% D2O | 90 mM KCl | 7 | 1 atm | 298 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 600 |
2 | Varian | UNITY | 600 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
distance geometry; simulated annealing; molecular dynamics; matrix relaxation | the structures are based on a total of 1689 restraints, 283 are NOE-derived distance constraints, 3 negative restraints, 84 dihedral angle restraints,104 distance restraints from hydrogen bonds, 243 intensity restraints (each of five mixing times) | Felix |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | all calculated structures submitted,back calculated data agree with experimental NOESY spectrum,structures with acceptable covalent geometry,structures with favorable non-bond energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (fewest violations,lowest energy) |
Additional NMR Experimental Information | |
---|---|
Details | The experiments 1H-15N HMBC, 1H-13C HMBC, 1H-13C HSQC, 1H-13C sHMBC were performed for assignments |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | processing | Felix | 2000 | Accelrys |
2 | refinement | X-PLOR | 3.851 | A.T.Brunger |
3 | collection | VNMR | 6.1 | Varian |