1DSI
Solution structure of a duocarmycin sa-indole-alkylated dna dupleX
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | NOESY | 150mM | 7.0 | 300 | ||||
2 | COSY | 150mM | 7.0 | 300 | ||||
3 | TOCSY | 150mM | 7.0 | 300 | ||||
4 | 2Q | 150mM | 7.0 | 300 | ||||
5 | P.E. COSY | 150mM | 7.0 | 300 | ||||
6 | 1H-13C HSQC | 150mM | 7.0 | 300 | ||||
7 | 1D 31P | 150mM | 7.0 | 300 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AMX600 | 600 |
NMR Refinement | ||
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Method | Details | Software |
NAB TO GENERATE A FAMILY OF CONFOMRERS THAT SAMPLE A WIDE RANGE OF CONFORMATIONAL SPACE. RESTRAINED MOLECULAR DYNAMICS TO GENERATE A RANGE OF STARTING STRUCTURES FOR DSI. PAIRS OF DNA AND DSI STRUCTURES WERE THEN DOCKED AND ITERATIVELY REFINED BY A SERIES OF RESTRAINED MOLECULAR DYNAMICS CALCULATIONS. | REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE. | Amber |
NMR Ensemble Information | |
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Conformer Selection Criteria | LOWEST RESTRAINT VIOLATIONS |
Conformers Calculated Total Number | 40 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (n/a) |
Additional NMR Experimental Information | |
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Details | THE STRUCTURE WAS DETERMINED USING HOMONUCLEAR 1H NMR DATA. RESONANCE ASSIGNMENTS WERE AIDED BY A 1H - 13C HSQC EXPERIMENT PERFORMED AT NATURAL ISOTOPE ABUNDANCE. |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | refinement | Amber | 5.1 | PEARLMAN,CASE,CALDWELL,ROSS,CHEATHAM, FERGUSON,SEIBEL,SINGH,WEINER,KOLLMAN |
2 | structure solution | Felix | 97 | |
3 | structure solution | NAB | 2.1 | |
4 | structure solution | MARDIGRAS | 5.21 | |
5 | structure solution | Amber | 5.1 |