Functional implications of structural predictions for alternative splice proteins expressed in Her2/neu-induced breast cancers.

ABSTRACT: Alternative splicing allows a single gene to generate multiple mRNA transcripts, which can be translated into functionally diverse proteins. However, experimentally determined structures of protein splice isoforms are rare, and homology modeling methods are poor at predicting atomic-level structural differences because of high sequence identity. Here we exploit the state-of-the-art structure prediction method I-TASSER to analyze the structural and functional consequences of alternative splicing of proteins differentially expressed in a breast cancer model. We first successfully benchmarked the I-TASSER pipeline for structure modeling of all seven pairs of protein splice isoforms, which are known to have experimentally solved structures. We then modeled three cancer-related variant pairs re

SUBMITTER: Menon R 

PROVIDER: S-EPMC3230717 | biostudies-literature | 2011 Dec

REPOSITORIES: biostudies-literature