SH3-Hunter: discovery of SH3 domain interaction sites in proteins
| Autor: | Allegra Via, Daniele Peluso, Gabriele Ausiello, Enrico Ferraro, Manuela Helmer-Citterich |
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| Jazyk: | angličtina |
| Rok vydání: | 2007 |
| Předmět: |
Models
Molecular Web server Protein Structure animal structures Selection (relational algebra) education Protein domain Amino Acid Motifs macromolecular substances Biology computer.software_genre Bioinformatics environment and public health Sensitivity and Specificity SH3 domain src Homology Domains Upload Models Peptide Library Genetics Humans Amino Acid Sequence Computational Biology Protein Structure Tertiary Peptides Neural Networks (Computer) Binding Sites Protein Binding Sequence Information retrieval Artificial neural network Settore BIO/11 Interaction site Molecular Articles ComputingMethodologies_PATTERNRECOGNITION Neural Networks Computer computer Tertiary |
| Zdroj: | Nucleic Acids Research |
| Popis: | SH3-Hunter (http://cbm.bio.uniroma2.it/SH3-Hunter/) is a web server for the recognition of putative SH3 domain interaction sites on protein sequences. Given an input query consisting of one or more protein sequences, the server identifies peptides containing poly-proline binding motifs and associates them to a list of SH3 domains, in order to compose peptide–domain pairs. The server can accept a list of peptides and allows users to upload an input file in a proper format. An accurate selection of SH3 domains is available and users can also submit their own SH3 domain sequence. SH3-Hunter evaluates which peptide–domain pair represents a possible interaction pair and produces as output a list of significant interaction sites for each query protein. Each proposed interaction site is associated to a propensity score and sensitivity and precision levels for the prediction. The server prediction capability is based on a neural network model integrating high-throughput pep-spot data with structural information extracted from known SH3-peptide complexes. |
| Databáze: | OpenAIRE |
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