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Title | PredictProtein--an open resource for online prediction of protein structural and functional features. |
Publication Type | Journal Article |
Year of Publication | 2014 |
Authors | Yachdav, G, Kloppmann, E, Kaján, L, Hecht, M, Goldberg, T, Hamp, T, Hönigschmid, P, Schafferhans, A, Roos, M, Bernhofer, M, Richter, L, Ashkenazy, H, Punta, M, Schlessinger, A, Bromberg, Y, Schneider, R, Vriend, G, Sander, C, Ben-Tal, N, Rost, B |
Journal | Nucleic Acids Res |
Volume | 42 |
Issue | Web Server issue |
Pagination | W337-43 |
Date Published | 2014 Jul |
ISSN | 1362-4962 |
Keywords | Amino Acid Substitution, Binding Sites, Gene Ontology, Internet, Intrinsically Disordered Proteins, Membrane Proteins, Mutation, Protein Conformation, Protein Interaction Mapping, Proteins, Sequence Alignment, Sequence Analysis, Protein, Sequence Homology, Amino Acid, Software |
Abstract | PredictProtein is a meta-service for sequence analysis that has been predicting structural and functional features of proteins since 1992. Queried with a protein sequence it returns: multiple sequence alignments, predicted aspects of structure (secondary structure, solvent accessibility, transmembrane helices (TMSEG) and strands, coiled-coil regions, disulfide bonds and disordered regions) and function. The service incorporates analysis methods for the identification of functional regions (ConSurf), homology-based inference of Gene Ontology terms (metastudent), comprehensive subcellular localization prediction (LocTree3), protein-protein binding sites (ISIS2), protein-polynucleotide binding sites (SomeNA) and predictions of the effect of point mutations (non-synonymous SNPs) on protein function (SNAP2). Our goal has always been to develop a system optimized to meet the demands of experimentalists not highly experienced in bioinformatics. To this end, the PredictProtein results are presented as both text and a series of intuitive, interactive and visually appealing figures. The web server and sources are available at http://ppopen.rostlab.org. |
DOI | 10.1093/nar/gku366 |
Alternate Journal | Nucleic Acids Res. |
PubMed ID | 24799431 |
PubMed Central ID | PMC4086098 |
Grant List | U54 GM095315 / GM / NIGMS NIH HHS / United States |