1TUT
J4/5 Loop from the Candida albicans and Candida dubliniensis Group I Introns
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | ~~2 mM RNA, 80 mM NaCl, 3 mM KH2PO4, 7 mM K2HPO4, 0.5 mM Na2EDTA, 3 mM cobalt hexamine, pH=6.1, 90% H2O, 10% D2O | 90% H2O/10% D2O | 80 mM NaCl, 3 mM cobalt hexamine | 6.1 | ambient | 298 | |
2 | 2D NOESY | ~~2 mM RNA, 80 mM NaCl, 3 mM KH2PO4, 7 mM K2HPO4, 0.5 mM Na2EDTA, 3 mM cobalt hexamine, pH=6.1 | 100% D2O | 80 mM NaCl, 3 mM cobalt hexamine | 6.1 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 500 |
NMR Refinement | ||
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Method | Details | Software |
molecular dynamics | The structures are based on a total of 217 NMR-derived interproton distance restraints (108 intranucleotide and 109 internucleotide). Hydrogn bond restraints were used for the six WC pairs and for the G8-U14 wobble pair. On the basis of NMR data that is consistent with the formation of tandem sheared AA pairs, two artificial hydrogen bonding restraints were used between each sheared AA pair. | VNMR |
NMR Ensemble Information | |
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Conformer Selection Criteria | closest to average |
Conformers Calculated Total Number | 50 |
Conformers Submitted Total Number | 1 |
Representative Model | 1 (closest to the average) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | collection | VNMR | 5.2 | Varian |
2 | data analysis | Felix | 2000 | Felix |
3 | structure solution | Discover | 95.0 | Insight |
4 | refinement | Discover | 95.0 | Insight |