NMR structure analysis of the DNA nine base pair duplex D(CATGAGTAC) D(GTAC(NP3)CATG)
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 4.5MM DUPLEX; 100MM NACL, 10MM NAOP, 1MM EDTA, PH 7 | 7 | AMBIENT | 285 | |||
| 2 | DQF-COSY | 4.5MM DUPLEX; 100MM NACL, 10MM NAOP, 1MM EDTA, PH 7 | 7 | AMBIENT | 285 | |||
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| SIMULATED ANNEALING MOLECULAR DYNAMICS | THE STRUCTURE IS BASED ON A TOTAL OF 624 RESTRAINTS, 198 ARE DERIVED FROM ASSIGNED NOES, 394 ARE LOWER BOUND NOE-DERIVED RESTRAINTS TO UNASSIGN 1H5*/2H5* PROTONS, AND 32 ARE DIHEDRAL ANGLE RESTRAINTS | CORMA |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | |
| Conformers Calculated Total Number | |
| Conformers Submitted Total Number | 1 |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | structure solution | CORMA | 5.2 | LIU |
| 2 | iterative matrix relaxation | MARDIGRAS | 5.2 | BORGIAS, JAMES |
| 3 | processing | NMRPipe | 1.7 | DELAGLIO |
| 4 | refinement | X-PLOR | V3.840 | BRUNGER |
| 5 | collection | VNMR | 6.1B | VARIAN |
| 6 | data analysis | Sparky | 3.74 | DAY, KNELLER |
