Journal of Proteomics & Bioinformatics
Open Access
ISSN: 0974-276X
+44 1223 790975
ISSN: 0974-276X
+44 1223 790975
Michael P. Thelen
L452, Livermore, CA
Tanzania
Research Article
Functional Insights from Computational Modeling of Orphan Proteins Expressed in a Microbial Community
Author(s): Korin E. Wheeler, Adam Zemla, Yongqin Jiao, Daniela S. Aliaga Goltsman, Steven W.Singer, Jillian F. Banfi eld and Michael P. ThelenKorin E. Wheeler, Adam Zemla, Yongqin Jiao, Daniela S. Aliaga Goltsman, Steven W.Singer, Jillian F. Banfi eld and Michael P. Thelen
Environmental genomics and proteomics data are heavily populated with proteins that are not homologous to experimentally characterized proteins. We approached this problematic area by investigating a natural microbial community from a highly constrained niche in which critical roles are likely carried out by proteins of unknown function (ORFans). Based on several criteria, these proteins were not statistically similar to any protein sequences in the SwissProt database. We selected a target set of 545 ORFans and weakly annotated proteins expressed by the dominant bacterial member of the community, Leptospirillum Group II, and used an automated modeling system (AS2TS) incorporated with other computational tools to predict structures. This generated 484 models, 89% of the target set. Structure-based superfamilies, general functional categorizations, and specifi c gene on.. View More»
DOI:
10.4172/jpb.1000150