Use of a Probabilistic Motif Search to Identify Histidine Phosphotransfer Domain-Containing Proteins.

ABSTRACT: The wealth of newly obtained proteomic information affords researchers the possibility of searching for proteins of a given structure or function. Here we describe a general method for the detection of a protein domain of interest in any species for which a complete proteome exists. In particular, we apply this approach to identify histidine phosphotransfer (HPt) domain-containing proteins across a range of eukaryotic species. From the sequences of known HPt domains, we created an amino acid occurrence matrix which we then used to define a conserved, probabilistic motif. Examination of various organisms either known to contain (plant and fungal species) or believed to lack (mammals) HPt domains established criteria by which new HPt candidates were identified and ranked. Search results usin

SUBMITTER: Surujon D 

PROVIDER: S-EPMC4709007 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature