1EVO
NMR OBSERVATION OF A NOVEL C-TETRAD
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 10 mM sodium phosphate, 0.2 mM EDTA and 200 mM NaCl | 90% H2O/10% D2O | 7.0 | 1 atm | |||
2 | 2D NOESY | 10 mM sodium phosphate, 0.2 mM EDTA and 200 mM NaCl | D2O | 7.0 | 1 atm | |||
3 | 2D TOCSY | 10 mM sodium phosphate, 0.2 mM EDTA and 200 mM NaCl | D2O | 7.0 | 1 atm | |||
4 | DQF-COSY | 10 mM sodium phosphate, 0.2 mM EDTA and 200 mM NaCl | D2O | 7.0 | 1 atm |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | UNITYPLUS | 600 |
NMR Refinement | ||
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Method | Details | Software |
Relaxaxtion matrix refinement | After simulated annealing-restrained molecular dynamics 16 structures for the quadruplex were selected on the basis of proper covalent geometries, symmetries and low energies for relaxation matrix refinement using IRMA (Iterative Relxation Matrix Analysis) protocol in DISCOVER. The input data included NOEs from 80, 120, 200 and 300 ms NOESY spectra. Three to four sets of calculations were performed by choosing different reference peaks for intensity normalizations. The isotropic correlation time was optimized for best NOE fits, which yielded a value of 5.0 ns.Finally 10 convergent quadruplex structures were selected on the basis of R1-factor and symmetry | VNMR |
NMR Ensemble Information | |
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Conformer Selection Criteria | all calculated structures submitted |
Conformers Calculated Total Number | 10 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (closest to the average) |
Additional NMR Experimental Information | |
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Details | Temperatyre dependent 1D spectra. Temperature was varied between -5 and 50 C |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | collection | VNMR | 6.1 | Varian |
2 | processing | VNMR | 6.1 | Varian |
3 | processing | Felix | 230 and 97 | BIOSYM |
4 | structure solution | Discover | 3.1 | BIOSYM |
5 | refinement | IRMA | 2.3 | BIOSYM |