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| DOI | 10.1016/J.JSB.2016.05.004 | ||
| Año | 2016 | ||
| Tipo | artículo de investigación |
Citas Totales
Autores Afiliación Chile
Instituciones Chile
% Participación
Internacional
Autores
Afiliación Extranjera
Instituciones
Extranjeras
Despite impressive successes in protein design, designing a well-folded protein of more 100 amino acids de novo remains a formidable challenge. Exploiting the promising biophysical features of the artificial protein Octarellin V, we improved this protein by directed evolution, thus creating a more stable and soluble protein: Octarellin V.1. Next, we obtained crystals of Octarellin V.1 in complex with crystallization chaperons and determined the tertiary structure. The experimental structure of Octarellin V.1 differs from its in silico design: the (alpha beta alpha) sandwich architecture bears some resemblance to a Rossman-like fold instead of the intended TIM-barrel fold. This surprising result gave us a unique and attractive opportunity to test the state of the art in protein structure prediction, using this artificial protein free of any natural selection. We tested 13 automated webservers for protein structure prediction and found none of them to predict the actual structure. More than 50% of them predicted a TIM-barrel fold, i.e. the structure we set out to design more than 10 years ago. In addition, local software runs that are human operated can sample a structure similar to the experimental one but fail in selecting it, suggesting that the scoring and ranking functions should be improved. We propose that artificial proteins could be used as tools to test the accuracy of protein structure prediction algorithms, because their lack of evolutionary pressure and unique sequences features. (C) 2016 Elsevier Inc. All rights reserved.
| Ord. | Autor | Género | Institución - País |
|---|---|---|---|
| 1 | FIGUEROA-YEVENES, MAXIMILIANO | Hombre |
Univ Liege - Bélgica
Universidad de Concepción - Chile |
| 2 | Sleutel, Mike | Hombre |
Vrije Univ Brussel - Bélgica
|
| 3 | Vandevenne, Marylene | - |
Univ Liege - Bélgica
|
| 4 | Parvizi, Gregory | Hombre |
Univ Liege - Bélgica
|
| 5 | Attout, Sophie | Mujer |
Univ Liege - Bélgica
|
| 6 | Jacquin, Olivier | Hombre |
Univ Liege - Bélgica
|
| 7 | Vandenameele, Julie | Mujer |
Univ Liege - Bélgica
|
| 8 | Fischer, Axel W. | Hombre |
Vanderbilt Univ - Estados Unidos
|
| 9 | Damblon, Christian | Hombre |
Univ Liege - Bélgica
|
| 10 | Goormaghtigh, Erik | Hombre |
Univ Libre Bruxelles - Bélgica
|
| 11 | Valerio-Lepiniec, Marie | Mujer |
Univ Paris 11 - Francia
|
| 12 | Urvoas, Agathe | Mujer |
Univ Paris 11 - Francia
|
| 13 | Durand, Dominique | - |
Univ Paris 11 - Francia
|
| 14 | Pardon, Els | Mujer |
Vrije Univ Brussel - Bélgica
VIB - Bélgica |
| 15 | Steyaert, Jan | Hombre |
Vrije Univ Brussel - Bélgica
VIB - Bélgica |
| 16 | Minard, Philippe | Hombre |
Univ Paris 11 - Francia
|
| 17 | Maes, Dominique | - |
Vrije Univ Brussel - Bélgica
|
| 18 | Meiler, Jens | Hombre |
Vanderbilt Univ - Estados Unidos
|
| 19 | Matagne, Andre | Hombre |
Univ Liege - Bélgica
|
| 20 | Martial, Joseph A. | Hombre |
Univ Liege - Bélgica
|
| 21 | van de Weerdt, C. | Mujer |
Univ Liege - Bélgica
|
| Fuente |
|---|
| European Space Agency |
| Belgian Science Policy (BELSPO) |
| Wallonie-Bruxelles International (WBI) |
| Agradecimiento |
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| The present work was supported in part by the European Space Agency under contract No. ESA AO-2004-070. M.F. acknowledges Wallonie-Bruxelles International (WBI) and Belgian Science Policy (BELSPO) for postdoctoral fellowships. We also thank Piriscucha D'Esneux for streak seeding assistance, Jordane Delbecq for technical assistance and Aline Lausberg for her comments regarding the manuscript. |