Precision and accuracy in smFRET based structural studies—A benchmark study of the Fast-Nano-Positioning System
Modern hybrid structural analysis methods have opened new possibilities to analyze and resolve flexible protein complexes where conventional crystallographic methods have reached their limits. Here, the Fast-Nano-Positioning System (Fast-NPS), a Bayesian parameter estimation-based analysis method an...
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| Veröffentlicht in: | The Journal of chemical physics 2018-03, Vol.148 (12), p.123308-123308 |
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| container_title | The Journal of chemical physics |
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| creator | Nagy, Julia Eilert, Tobias Michaelis, Jens |
| description | Modern hybrid structural analysis methods have opened new possibilities to analyze and resolve flexible protein complexes where conventional crystallographic methods have reached their limits. Here, the Fast-Nano-Positioning System (Fast-NPS), a Bayesian parameter estimation-based analysis method and software, is an interesting method since it allows for the localization of unknown fluorescent dye molecules attached to macromolecular complexes based on single-molecule Förster resonance energy transfer (smFRET) measurements. However, the precision, accuracy, and reliability of structural models derived from results based on such complex calculation schemes are oftentimes difficult to evaluate. Therefore, we present two proof-of-principle benchmark studies where we use smFRET data to localize supposedly unknown positions on a DNA as well as on a protein-nucleic acid complex. Since we use complexes where structural information is available, we can compare Fast-NPS localization to the existing structural data. In particular, we compare different dye models and discuss how both accuracy and precision can be optimized. |
| doi_str_mv | 10.1063/1.5006477 |
| format | Article |
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| ispartof | The Journal of chemical physics, 2018-03, Vol.148 (12), p.123308-123308 |
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| subjects | Accuracy Bayesian analysis Benchmarks Crystallography Deoxyribonucleic acid DNA Dyes Energy transfer Fluorescence Fluorescence Resonance Energy Transfer - methods Fluorescence Resonance Energy Transfer - standards Fluorescent dyes Fluorescent Dyes - chemistry Hybrid systems Localization Model accuracy Nanotechnology Parameter estimation Position (location) Proteins Reliability engineering Structural analysis Structural reliability Time Factors |
| title | Precision and accuracy in smFRET based structural studies—A benchmark study of the Fast-Nano-Positioning System |
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