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dc.contributor.authorKosinski, Jan
dc.contributor.authorBarbato, Alessandro
dc.contributor.authorTramontano, Anna
dc.date.accessioned2016-02-21T08:50:59Z
dc.date.available2016-02-21T08:50:59Z
dc.date.issued2013-02-08
dc.identifier.citationKosinski J, Barbato A, Tramontano A (2013) MODexplorer: an integrated tool for exploring protein sequence, structure and function relationships. Bioinformatics 29: 953–954. Available: http://dx.doi.org/10.1093/bioinformatics/btt062.
dc.identifier.issn1367-4803
dc.identifier.issn1460-2059
dc.identifier.pmid23396123
dc.identifier.doi10.1093/bioinformatics/btt062
dc.identifier.urihttp://hdl.handle.net/10754/596803
dc.description.abstractSUMMARY: MODexplorer is an integrated tool aimed at exploring the sequence, structural and functional diversity in protein families useful in homology modeling and in analyzing protein families in general. It takes as input either the sequence or the structure of a protein and provides alignments with its homologs along with a variety of structural and functional annotations through an interactive interface. The annotations include sequence conservation, similarity scores, ligand-, DNA- and RNA-binding sites, secondary structure, disorder, crystallographic structure resolution and quality scores of models implied by the alignments to the homologs of known structure. MODexplorer can be used to analyze sequence and structural conservation among the structures of similar proteins, to find structures of homologs solved in different conformational state or with different ligands and to transfer functional annotations. Furthermore, if the structure of the query is not known, MODexplorer can be used to select the modeling templates taking all this information into account and to build a comparative model. AVAILABILITY AND IMPLEMENTATION: Freely available on the web at http://modorama.biocomputing.it/modexplorer. Website implemented in HTML and JavaScript with all major browsers supported. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
dc.description.sponsorshipKAUST Award No. KUK-I1-012-43 made by King Abdullah University of Science and Technology (KAUST), Fondazione Roma, FIRB Italbionet and RBIN06E9Z8_005, and European Molecular Biology Organization (EMBO) Long-Term Fellowship to J.K.
dc.publisherOxford University Press (OUP)
dc.rightsThis is an Open Access article distributed under the terms of the Creative Commons Attribution License (), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
dc.rights.urihttp://creativecommons.org/licenses/by/3.0
dc.subject.meshStructural Homology, Protein
dc.subject.meshSoftware
dc.titleMODexplorer: an integrated tool for exploring protein sequence, structure and function relationships.
dc.typeArticle
dc.identifier.journalBioinformatics
dc.identifier.pmcidPMC3605600
dc.contributor.institutionDepartment of Physics, Sapienza University, 00185 Rome, Italy.
kaust.grant.numberKUK-I1-012-43
refterms.dateFOA2018-06-13T12:07:26Z
dc.date.published-online2013-02-08
dc.date.published-print2013-04-01


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This is an Open Access article distributed under the terms of the Creative Commons Attribution License (), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
Except where otherwise noted, this item's license is described as This is an Open Access article distributed under the terms of the Creative Commons Attribution License (), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.