Database InterPro

InterPro (http //www.ebi.ac.uk/interpro), database of protein families, domains, and functional sites allows prediction of the function or structure of a new protein on the basis of its sequence homology to sequences of known proteins. 

Mulder NJ, Apweiler R, Attwood TK et al. The InterPro Database, 2003 brings increased coverage and new features. Nucleic Acids Res 2003 31(1) 315 18. 

Apweiler, R., et al., The InterPro database, an integrated documentation resource for protein families, domains and functional sites. Nucleic Acids Res, 2001. 29(1) p. 37-40. 

InterPro Databases of protein families and domains http //www.ebi.ac.uk/interpro/... 

The EU funded Interpro project is a collaboration between many of the domain family databases and the SWISS-PROT sequence database. The Interpro collaboration aims to have a centralized annotation resources to reduce the amount of duplication between the database re-... 

There are many different domain database resources, each with their own priorities and strengths. There is currently no effective way to search them all with a single query. Several should be tested to get the most complete results possible. The Interpro collaboration should facilitate the creation of methods to query all the major domain databases in a single action. 

When a novel homology domain has been discovered, it is possible to store the corresponding domain descriptor (profile or HMM) in a number of dedicated domain databases, which can be used to analyze newly identified sequences for their domain content [9, 10]. Several competing domain- and motif-databases exist, including PROSITE, PFAM, SMART, and Superfam, which contain descriptors for most, if not all, of the known domains involved in the ubiquitin system [11-14]. Recently, a new meta-database named INTERPRO has been established, which tries to combine the descriptors of several domain databases under a single user interface [15]. Pointers to the very useful search engines of the domain databases are provided in Table 12.1. 

Data sources Expasy and InterPro, and NCBI databases, accessed August 2002. 

Databases for protein families, domains and functional sites InterPro 103... 

Interpro Combination of the major protein family databases (PRINTS, PROSITE, Pfam, ProDom) Cl dl. http // www.ebi.ac.uk/ interpro/ EBI, Cambridge, R. Apweiler et al. [76, 300]... 

The links provided by the SWISS-PROT entries to other proteomics databases like SWISS-2DPAGE, PROSITE/InterPro and about 30 other databases allow for rapid access to experimental proteomic data, like position and number of protein spots on a 2-D gel, other members of the same family, or the 3-D structure of the protein, etc. 

Protein-pattern databases cover both motifs or functional domains and secondary structure. We have included the entire InterPro family of databases, as well as BLOCKS, CDD, and a description of patterns found in Swiss-Prot sequences. DSSP, ISSD, PSSD, and CATH are covered in the secondary-structure section. 

Mulder N. J., R. Apweiler, T. K. Attwood, A. Bairoch, A. Bateman, D. Binns, P. Bradley, et al. 2005. InterPro, progress and status in 2005. Nucleic Acids Res 33, Database Issue D201-5. 

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