DOMIRE: a web server for identifying structural domains and their neighbors in proteins.
basic_science · Level V
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- Record sourced from PubMed, PMID 22345617.
- Also identified by DOI 10.1093/bioinformatics/bts076 and PMC identifier 3315711.
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Abstract
The DOMIRE web server implements a novel, automatic, protein structural domain assignment procedure based on 3D substructures of the query protein which are also found within structures of a non-redundant protein database. These common 3D substructures are transformed into a co-occurrence matrix that offers a global view of the protein domain organization. Three different algorithms are employed to define structural domain boundaries from this co-occurrence matrix. For each query, a list of structural neighbors and their alignments are provided. DOMIRE, by displaying the protein structural domain organization, can be a useful tool for defining protein common cores and for unravelling the evolutionary relationship between different proteins. http://genome.jouy.inra.fr/domire jean.garnier@jouy.inra.fr.
Medical subject headings
- Internet
- Protein Structure, Tertiary
- Proteins
- Software