Development of a prediction system for tail-anchored proteins

4Citations
Citations of this article
20Readers
Mendeley users who have this article in their library.

Abstract

Background: "Tail-anchored (TA) proteins" is a collective term for transmembrane proteins with a C-terminal transmembrane domain (TMD) and without an N-terminal signal sequence. TA proteins account for approximately 3-5 % of all transmembrane proteins that mediate membrane fusion, regulation of apoptosis, and vesicular transport. The combined use of TMD and signal sequence prediction tools is typically required to predict TA proteins. Results: Here we developed a prediction system named TAPPM that predicted TA proteins solely from target amino acid sequences according to the knowledge of the sequence features of TMDs and the peripheral regions of TA proteins. Manually curated TA proteins were collected from published literature. We constructed hidden markov models of TA proteins as well as three different types of transmembrane proteins with similar structures and compared their likelihoods as TA proteins. Conclusions: Using the HMM models, we achieved high prediction accuracy; area under the receiver operator curve values reaching 0.963. A command line tool written in Python is available at https://github.com/davecao/tappm_cli.

Cite

CITATION STYLE

APA

Shigemitsu, S., Cao, W., Terada, T., & Shimizu, K. (2016). Development of a prediction system for tail-anchored proteins. BMC Bioinformatics, 17(1). https://doi.org/10.1186/s12859-016-1202-7

Register to see more suggestions

Mendeley helps you to discover research relevant for your work.

Already have an account?

Save time finding and organizing research with Mendeley

Sign up for free