1ZBN
Solution structure of BIV TAR hairpin complexed to JDV Tat arginine-rich motif
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | DQF-COSY | 1.5mM RNA, 1.5mM peptide | 100% D2O | 50mM NaCl, 10mM sodium phosphate | 6.5 | ambient | 290 | |
2 | 2D TOCSY | 1.5mM RNA, 1.5mM peptide | 100% D2O | 50mM NaCl, 10mM sodium phosphate | 6.5 | ambient | 290 | |
3 | 2D NOESY | 1.5mM RNA, 1.5mM peptide | 100% D2O | 50mM NaCl, 10mM sodium phosphate | 6.5 | ambient | 290 | |
4 | 2D NOESY | 1.5mM RNA, 1.5mM peptide | 100% D2O | 50mM NaCl, 10mM sodium phosphate | 6.5 | ambient | 300 | |
5 | 2D NOESY | 1.5mM RNA, 1.5mM peptide, 90% H2O, 10% D2O | 90% H2O/10% D2O | 50mM NaCl, 10mM sodium phosphate | 6.5 | ambient | 285 | |
6 | 2D TOCSY | 1.5mM RNA, 1.5mM peptide, 90% H2O, 10% D2O | 90% H2O/10% D2O | 50mM NaCl, 10mM sodium phosphate | 6.5 | ambient | 290 | |
7 | DQF-COSY | 1.5mM RNA, 1.5mM peptide, 90% H2O, 10% D2O | 90% H2O/10% D2O | 50mM NaCl, 10mM sodium phosphate | 6.5 | ambient | 290 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | UNITY | 600 |
NMR Refinement | ||
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Method | Details | Software |
distance geometry and restrained molecular dynamics | Structures were calculated beginning with 1,000 random structures and incrementally adding distance constraints in four iterations. The final 30 structures with the lowest number of violations were subjected to RMD. The structures are based on a total of 700 distance constraints, 61 dihedral angle restraints. | CYANA |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 30 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Additional NMR Experimental Information | |
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Details | This structure was determined using standard 2D homonuclear techniques. |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | structure solution | CYANA | 1.x | Guentert |
2 | refinement | CNS | 1.1 | Brunger |
3 | processing | NMRPipe | NA | Delaglio |
4 | data analysis | Sparky | 3 | Goddard |