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The InterPro protein families database: the classification resource after 15 years.

Mitchell A, Chang HY, Daugherty L, Fraser M, Hunter S, Lopez R, McAa C, McMenamin C, Nuka G, Pesseat S, Sangrador-Vegas A, Scheremetjew M, Rato C, Yong SY, Bateman A, Punta M, Attwood TK, Sigrist CJ, Redaschi N, Rivoire C, Xenarios I, Kahn D, Guyot D, Bork P, Letunic I, Gough J, Oates M, Haft D, Huang H, Natale DA, Wu CH, Orengo C, Sillitoe I, Mi H, Thomas PD, Finn RD - Nucleic Acids Res. (2014)

Bottom Line: Here, we report on the status of InterPro as it enters its 15th year of operation, and give an overview of new developments with the database and its associated Web interfaces and software.We also discuss the challenges faced by the resource given the explosive growth in sequence data in recent years.InterPro (version 48.0) contains 36,766 member database signatures integrated into 26,238 InterPro entries, an increase of over 3993 entries (5081 signatures), since 2012.

View Article: PubMed Central - PubMed

Affiliation: European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.

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The InterPro Domain Architecture tool add/remove domains pop-up window. The list of domains can be refined using either the search box (A) or drop down menu (B). Domains can be added or removed from the query using plus or minus buttons (C). The number of copies of a particular domain to add to the query is indicated (D). Selecting the Apply button (E) performs the query.
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Figure 4: The InterPro Domain Architecture tool add/remove domains pop-up window. The list of domains can be refined using either the search box (A) or drop down menu (B). Domains can be added or removed from the query using plus or minus buttons (C). The number of copies of a particular domain to add to the query is indicated (D). Selecting the Apply button (E) performs the query.

Mentions: Users can launch the tool using an interactive panel on the left-hand side of the page. Clicking on this launches a pop-up window with a searchable list of all of the domains in the database (see Figure 4). Once an appropriate domain has been identified from the list, it can be added to or removed from the query using plus and minus buttons next to its name. The same domain can be added to a query multiple times (e.g. to identify all of the proteins in UniProtKB predicted to have two or more pleckstrin homology domains).


The InterPro protein families database: the classification resource after 15 years.

Mitchell A, Chang HY, Daugherty L, Fraser M, Hunter S, Lopez R, McAa C, McMenamin C, Nuka G, Pesseat S, Sangrador-Vegas A, Scheremetjew M, Rato C, Yong SY, Bateman A, Punta M, Attwood TK, Sigrist CJ, Redaschi N, Rivoire C, Xenarios I, Kahn D, Guyot D, Bork P, Letunic I, Gough J, Oates M, Haft D, Huang H, Natale DA, Wu CH, Orengo C, Sillitoe I, Mi H, Thomas PD, Finn RD - Nucleic Acids Res. (2014)

The InterPro Domain Architecture tool add/remove domains pop-up window. The list of domains can be refined using either the search box (A) or drop down menu (B). Domains can be added or removed from the query using plus or minus buttons (C). The number of copies of a particular domain to add to the query is indicated (D). Selecting the Apply button (E) performs the query.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4383996&req=5

Figure 4: The InterPro Domain Architecture tool add/remove domains pop-up window. The list of domains can be refined using either the search box (A) or drop down menu (B). Domains can be added or removed from the query using plus or minus buttons (C). The number of copies of a particular domain to add to the query is indicated (D). Selecting the Apply button (E) performs the query.
Mentions: Users can launch the tool using an interactive panel on the left-hand side of the page. Clicking on this launches a pop-up window with a searchable list of all of the domains in the database (see Figure 4). Once an appropriate domain has been identified from the list, it can be added to or removed from the query using plus and minus buttons next to its name. The same domain can be added to a query multiple times (e.g. to identify all of the proteins in UniProtKB predicted to have two or more pleckstrin homology domains).

Bottom Line: Here, we report on the status of InterPro as it enters its 15th year of operation, and give an overview of new developments with the database and its associated Web interfaces and software.We also discuss the challenges faced by the resource given the explosive growth in sequence data in recent years.InterPro (version 48.0) contains 36,766 member database signatures integrated into 26,238 InterPro entries, an increase of over 3993 entries (5081 signatures), since 2012.

View Article: PubMed Central - PubMed

Affiliation: European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.

Show MeSH