Challenging the state-of-the-art in protein structure prediction: Highlights of experimental target structures for the 10(th) Critical Assessment of Techniques for Protein Structure Prediction Experiment CASP10.

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TitleChallenging the state-of-the-art in protein structure prediction: Highlights of experimental target structures for the 10(th) Critical Assessment of Techniques for Protein Structure Prediction Experiment CASP10.
Publication TypeJournal Article
Year of Publication2013
AuthorsKryshtafovych, A, Moult, J, Bales, P, J Bazan, F, Biasini, M, Burgin, A, Chen, C, Cochran, FV, Craig, TK, Das, R, Fass, D, Garcia-Doval, C, Herzberg, O, Lorimer, D, Luecke, H, Ma, X, Nelson, DC, van Raaij, MJ, Rohwer, F, Segall, A, Seguritan, V, Zeth, K, Schwede, T
JournalProteins
Date Published2013 Dec 8
ISSN1097-0134
Abstract<p>For the last two decades, CASP has assessed the state of the art in techniques for protein structure prediction and identified areas which required further development. CASP would not have been possible without the prediction targets provided by the experimental structural biology community. In the latest experiment, CASP10, over 100 structures were suggested as prediction targets, some of which appeared to be extraordinarily difficult for modeling. In this paper, authors of some of the most challenging targets discuss which specific scientific question motivated the experimental structure determination of the target protein, which structural features were especially interesting from a structural or functional perspective, and to what extent these features were correctly reproduced in the predictions submitted to CASP10. Specifically, the following targets will be presented: the acid-gated urea channel, a difficult to predict trans-membrane protein from the important human pathogen Helicobacter pylori; the structure of human interleukin IL-34, a recently discovered helical cytokine; the structure of a functionally uncharacterized enzyme OrfY from Thermoproteus tenax formed by a gene duplication and a novel fold; an ORFan domain of mimivirus sulfhydryl oxidase R596; the fibre protein gp17 from bacteriophage T7; the Bacteriophage CBA-120 tailspike protein; a virus coat protein from metagenomic samples of the marine environment; and finally an unprecedented class of structure prediction targets based on engineered disulfide-rich small proteins. © Proteins 2013;. © 2013 Wiley Periodicals, Inc.</p>
DOI10.1002/prot.24489
Alternate JournalProteins
PubMed ID24318984