ArticleJournal of structural and functional genomics2012
Assessing the accuracy of template-based structure prediction metaservers by comparison with structural genomics structures.
Article in Journal of structural and functional genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed.
- Practical Considerations for Atomistic Structure Modeling with Cryo-EM Maps.Journal of chemical information and modeling · 2020Article
- Cross-activating c-Met/β1 integrin complex drives metastasis and invasive resistance in cancer.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- A Template-Based Protein Structure Reconstruction Method Using Deep Autoencoder Learning.Journal of proteomics & bioinformatics · 2016Article
- The value of protein structure classification information-Surveying the scientific literature.Proteins · 2015Article
- Modularity of Protein Folds as a Tool for Template-Free Modeling of Structures.PLoS computational biology · 2015Article
- Covering complete proteomes with X-ray structures: a current snapshot.Acta crystallographica. Section D, Biological crystallography · 2014Article
- Structural biology of TRP channels.Handbook of experimental pharmacology · 2014Review
- The quality and validation of structures from structural genomics.Methods in molecular biology (Clifton, N.J.) · 2014Article
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6 authors.
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Abstract
The explosion of the size of the universe of known protein sequences has stimulated two complementary approaches to structural mapping of these sequences: theoretical structure prediction and experimental determination by structural genomics (SG). In this work, we assess the accuracy of structure prediction by two automated template-based structure prediction metaservers (genesilico.pl and bioinfo.pl) by measuring the structural similarity of the predicted models to corresponding experimental models determined a posteriori. Of 199 targets chosen from SG programs, the metaservers predicted the structures of about a fourth of them "correctly." (In this case, "correct" was defined as placing more than 70 % of the alpha carbon atoms in the model within 2 Å of the experimentally determined positions.) Almost all of the targets that could be modeled to this accuracy were those with an available template in the Protein Data Bank (PDB) with more than 25 % sequence identity. The majority of those SG targets with lower sequence identity to structures in the PDB were not predicted by the metaservers with this accuracy. We also compared metaserver results to CASP8 results, finding that the models obtained by participants in the CASP competition were significantly better than those produced by the metaservers.
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