Target highlights in CASP9: Experimental target structures for the critical assessment of techniques for protein structure prediction

Kryshtafovych, Andriy and Moult, John and Bartual, Sergio G. and Bazan, J. Fernando and Berman, Helen and Casteel, Darren E. and Christodoulou, Evangelos and Everett, John K. and Hausmann, Jens and Heidebrecht, Tatjana and Hills, Tanya and Hui, Raymond and Hunt, John F. and Seetharaman, Jayaraman and Joachimiak, Andrzej and Kennedy, Michael A. and Kim, Choel and Lingel, Andreas and Michalska, Karolina and Montelione, Gaetano T. and Otero, José M. and Perrakis, Anastassis and Pizarro, Juan C. and van Raaij, Mark J. and Ramelot, Theresa A. and Rousseau, Francois and Tong, Liang and Wernimont, Amy K. and Young, Jasmine and Schwede, Torsten. (2011) Target highlights in CASP9: Experimental target structures for the critical assessment of techniques for protein structure prediction. Proteins: Structure, Function, and Bioinformatics , 79 (S10). pp. 6-20.

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One goal of the CASP community wide experiment on the critical assessment of techniques for protein structure prediction is to identify the current state of the art in protein structure prediction and modeling. A fundamental principle of CASP is blind prediction on a set of relevant protein targets, that is, the participating computational methods are tested on a common set of experimental target proteins, for which the experimental structures are not known at the time of modeling. Therefore, the CASP experiment would not have been possible without broad support of the experimental protein structural biology community. In this article, several experimental groups discuss the structures of the proteins which they provided as prediction targets for CASP9, highlighting structural and functional peculiarities of these structures: the long tail fiber protein gp37 from bacteriophage T4, the cyclic GMP-dependent protein kinase I? dimerization/docking domain, the ectodomain of the JTB (jumping translocation breakpoint) transmembrane receptor, Autotaxin in complex with an inhibitor, the DNA-binding J-binding protein 1 domain essential for biosynthesis and maintenance of DNA base-J (?-D-glucosyl-hydroxymethyluracil) in Trypanosoma and Leishmania, an so far uncharacterized 73 residue domain from Ruminococcus gnavus with a fold typical for PDZ-like domains, a domain from the phycobilisome core-membrane linker phycobiliprotein ApcE from Synechocystis, the heat shock protein 90 activators PFC0360w and PFC0270w from Plasmodium falciparum, and 2-oxo-3-deoxygalactonate kinase from Klebsiella pneumoniae. Proteins 2011; © 2011 Wiley-Liss, Inc.
Faculties and Departments:05 Faculty of Science > Departement Biozentrum > Computational & Systems Biology > Bioinformatics (Schwede)
UniBasel Contributors:Schwede, Torsten
Item Type:Article, refereed
Article Subtype:Research Article
Note:Publication type according to Uni Basel Research Database: Journal article
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Last Modified:30 Nov 2017 10:29
Deposited On:30 Nov 2017 10:29

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