6AC7
Structure of a (3+1) hybrid G-quadruplex in the PARP1 promoter
SOLUTION NMR
NMR Experiment | ||||||||
---|---|---|---|---|---|---|---|---|
Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-1H NOESY | 1 mM TP3-T6, 70 mM potassium chloride, 7.7 mM KH2PO4, 12.3 mM K2HPO4 | 90% H2O/10% D2O | 100 mM | 7 | 1 atm | 298 | Bruker AVANCE III 600 |
2 | 2D 1H-1H NOESY | 1 mM TP3-T6, 70 mM potassium chloride, 7.7 mM KH2PO4, 12.3 mM K2HPO4 | 90% H2O/10% D2O | 100 mM | 7 | 1 atm | 283 | Bruker AVANCE III 800 |
3 | 2D 1H-1H NOESY | 1 mM TP3-T6, 70 mM potassium chloride, 7.7 mM KH2PO4, 12.3 mM K2HPO4 | 100% D2O | 100 mM | 7 | 1 atm | 298 | Bruker AVANCE III 600 |
4 | 1D 1H-15N HMQC | 0.4 mM U-4% 15N Guanine TP3-T6, 70 mM potassium chloride, 7.7 mM KH2PO4, 12.3 mM K2HPO4 | 90% H2O/10% D2O | 100 mM | 7 | 1 atm | 298 | Bruker AVANCE III 600 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE III | 600 |
2 | Bruker | AVANCE III | 800 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
DGSA-distance geometry simulated annealing | X-PLOR NIH | |
molecular dynamics | X-PLOR NIH |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | refinement | X-PLOR NIH | 2.42 | Schwieters, Kuszewski, Tjandra and Clore |
2 | structure calculation | X-PLOR NIH | 2.42 | Schwieters, Kuszewski, Tjandra and Clore |
3 | chemical shift assignment | Sparky | 3.12 | Goddard |
4 | peak picking | Sparky | 3.12 | Goddard |