7OTD
Oxytocin NMR solution structure
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-1H COSY | 3.3 mM oxytocin, 5 mM ammonium acetate buffer, 10 % v/v [U-100% 2H] D2O, 90 % v/v H2O, 0.33 mM CuCl2 | 90% H2O/10% D2O | 14.9 mM | 6.7 | 1 atm | 293.2 | Bruker AVANCE II 500 |
2 | 2D 1H-1H TOCSY | 3.3 mM oxytocin, 5 mM ammonium acetate buffer, 10 % v/v [U-100% 2H] D2O, 90 % v/v H2O, 0.33 mM CuCl2 | 90% H2O/10% D2O | 14.9 mM | 6.7 | 1 atm | 293.2 | Bruker AVANCE II 500 |
3 | 2D 1H-1H ROESY | 3.3 mM oxytocin, 5 mM ammonium acetate buffer, 10 % v/v [U-100% 2H] D2O, 90 % v/v H2O, 0.33 mM CuCl2 | 90% H2O/10% D2O | 14.9 mM | 6.7 | 1 atm | 293.2 | Bruker AVANCE II 500 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE II | 500 |
NMR Refinement | ||
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Method | Details | Software |
DGSA-distance geometry simulated annealing | XPLOR-NIH | CNS |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 50 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | collection | TopSpin | Bruker Biospin | |
2 | peak picking | NMRFAM-SPARKY | 1.470 | Lee, W.; Tonelli, M.; Markley, J. L. NMRFAM-SPARKY: Enhanced Software for Biomolecular NMR Spectroscopy. Bioinformatics 2015, 31 (8), 1325-1327. |
3 | chemical shift assignment | NMRFAM-SPARKY | 1.470 | Lee, W.; Tonelli, M.; Markley, J. L. NMRFAM-SPARKY: Enhanced Software for Biomolecular NMR Spectroscopy. Bioinformatics 2015, 31 (8), 1325-1327. |
4 | chemical shift assignment | NMRFAM-SPARKY | 1.470 | Lee, W.; Tonelli, M.; Markley, J. L. NMRFAM-SPARKY: Enhanced Software for Biomolecular NMR Spectroscopy. Bioinformatics 2015, 31 (8), 1325-1327. |
5 | structure calculation | CNS | Schwieters, C. D.; Kuszewski, J. J.; Tjandra, N.; Clore, G. M. The Xplor-NIH NMR Molecular Structure Determination Package. J. Magn. Reson. 2003, 160 (1), 65 | |
6 | data analysis | UCSF Chimera | 1.14 | Pettersen, E. F.; Goddard, T. D.; Huang, C. C.; Couch, G. S.; Greenblatt, D. M.; Meng, E. C.; Ferrin, T. E. UCSF Chimera - A Visualization System for Exploratory Research and Analysis. J. Comput. Chem. 2004, 25 (13), 1605-1612. |