2MQT
Solution NMR structure of the U5-primer binding site (U5-PBS) domain of murine leukemia virus RNA genome
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-13C HSQC | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 | |
2 | 2D 1H-13C HSQC | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 | |
3 | 2D 1H-13C HSQC | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 | |
4 | 2D 1H-13C HSQC | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 | |
5 | 2D 1H-1H NOESYin H2O | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 | |
6 | 2D 1H-1H NOESYin D2O | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 | |
7 | 3D 1H-13C NOESY | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 | |
8 | 3D 1H-13C NOESY | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 | |
9 | 3D 1H-13C NOESY | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 | |
10 | 3D 1H-13C NOESY | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 | |
11 | 2D 1H-15N HSQC | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 | |
12 | 2D 1H-15N HSQC | 0.8 mM [U-100% 13C; U-100% 15N] U5-PBS | 100% D2O | 10mM Tris, 10mM NaCl | 7.2 | ambient | 311 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DMX | 700 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
distance geometry | CYANA |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the least restraint violations |
Conformers Calculated Total Number | 20 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | structure solution | CYANA | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman | |
2 | data analysis | CYANA | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman | |
3 | processing | CYANA | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman | |
4 | structure solution | CYANA | Guntert, Mumenthaler and Wuthrich | |
5 | data analysis | CYANA | Guntert, Mumenthaler and Wuthrich | |
6 | processing | CYANA | Guntert, Mumenthaler and Wuthrich | |
7 | structure solution | CYANA | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
8 | data analysis | CYANA | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
9 | processing | CYANA | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
10 | structure solution | CYANA | Johnson, One Moon Scientific | |
11 | data analysis | CYANA | Johnson, One Moon Scientific | |
12 | processing | CYANA | Johnson, One Moon Scientific | |
13 | refinement | Amber |