1NZM
NMR structure of the parallel-stranded DNA quadruplex d(TTAGGGT)4 complexed with the telomerase inhibitor RHPS4
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 1.6mM 2:1 RHPS4-d(TTAGGGT)4, 100 mM KCl, 10 mM K2HPO4 buffer, 1 mM EDTA,90% H2O, 10% D2O | 90% H2O/10% D2O | 7.0 | 1 atm | 318 | ||
2 | 2D TOCSY | 1.6mM 2:1 RHPS4-d(TTAGGGT)4, 100 mM KCl, 10 mM K2HPO4 buffer, 1 mM EDTA,90% H2O, 10% D2O | 90% H2O/10% D2O | 7.0 | 1 atm | 318 | ||
3 | DQF-COSY | 1.6mM 2:1 RHPS4-d(TTAGGGT)4, 100 mM KCl, 10 mM K2HPO4 buffer, 1 mM EDTA,90% H2O, 10% D2O | 90% H2O/10% D2O | 7.0 | 1 atm | 318 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DRX | 500 |
2 | Bruker | AVANCE | 600 |
NMR Refinement | ||
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Method | Details | Software |
Restrained molecular dynamics | The structures are based on a set of 668 NOE restraints, 161 per strand of the quadruplex DNA (TTAGGGT)4 and 24 for both RHPS4 ligands.No hydrogen-bond restraints used. | ANSIG |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the least restraint violations |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 10 |
Representative Model | 10 (fewest violation) |
Additional NMR Experimental Information | |
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Details | This structure was determined using standard 2D NMR techniques |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | data analysis | ANSIG | 3.3 | |
2 | collection | XwinNMR | 2.7 | |
3 | processing | XwinNMR | 2.7 | |
4 | structure solution | Amber | 6 | |
5 | refinement | Amber | 6 |