Journal of Biosciences

, Volume 26, Issue 2, pp 277–284

Application of InterPro for the functional classification of the proteins of fish origin in SWISS-PROT and TrEMBL


DOI: 10.1007/BF02703652

Cite this article as:
Biswas, M., Kanapin, A. & Apweiler, R. J Biosci (2001) 26: 277. doi:10.1007/BF02703652


InterPro ( is an integrated documentation resource for protein families, domains and sites, developed initially as a means of rationalizing the complementary efforts of the PROSITE, PRINTS, Pfam and ProDom database projects. It is a useful resource that aids the functional classification of proteins. Almost 90% of theactinopterygii protein sequences from SWISS-PROT and TrEMBL can be classified using InterPro. Over 30% of theactinopterygii protein sequences currently in SWISS-PROT and TrEMBL are of mitochondrial origin, the majority of which belong to the cytochrome b/b6 family. InterPro also gives insights into the domain composition of the classified proteins and has applications in the functional classification of newly determined sequences lacking biochemical characterization, and in comparative genome analysis. A comparison of theactinopterygii protein sequences against the sequences of other eukaryotes confirms the high representation of eukaryotic protein kinase in the organisms studied. The comparisons also show that, based on InterPro families, thetrans-species evolution of MHC class I and II molecules in mammals and teleost fish can be recognized.


Actinopterygii (ray-finned fish)fish proteinsfunctional classificationInterProSWISS-PROTTrEMBL

Abbreviations used


G-coupled protein receptors


polycystic kidney disease


major histocompatibility complex

Copyright information

© Indian Academy of Sciences 2001

Authors and Affiliations

  1. 1.EMBL OutstationThe European Bioinformatics InstituteHinxtonUK