Classification of transmembrane protein families in the Caenorhabditis elegans genome and identification of human orthologs.

ABSTRACT: The complete genome sequence of the nematode Caenorhabditis elegans provides an excellent basis for studying the distribution and evolution of protein families in higher eukaryotes. Three fundamental questions are as follows: How many paralog clusters exist in one species, how many of these are shared with other species, and how many proteins can be assigned a functional counterpart in other species? We have addressed these questions in a detailed study of predicted membrane proteins in C. elegans and their mammalian homologs. All worm proteins predicted to contain at least two transmembrane segments were clustered on the basis of sequence similarity. This resulted in 189 groups with two or more sequences, containing, in total, 2647 worm proteins. Hidden Markov models (HMMs) were created f

SUBMITTER: Remm M 

PROVIDER: S-EPMC310950 | biostudies-literature | 2000 Nov

REPOSITORIES: biostudies-literature