Publication:
Prediction of protein-protein interactions by combining structure and sequence conservation in protein interfaces

Placeholder

Program

School College Institute

GRADUATE SCHOOL OF SCIENCES AND ENGINEERING
College of Engineering

KU Authors

Co-Authors

Advisor

Publication Date

Language

Embargo Status

Journal Title

Journal ISSN

Volume Title

item.page.alternative

Abstract

Motivation: Elucidation of the full network of protein- protein interactions is crucial for understanding of the principles of biological systems and processes. Thus, there is a need for in silico methods for predicting interactions. We present a novel algorithm for automated prediction of protein-protein interactions that employs a unique bottom-up approach combining structure and sequence conservation in protein interfaces. Results: Running the algorithm on a template dataset of 67 interfaces and a sequentially non-redundant dataset of 6170 protein structures, 62616 potential interactions are predicted. These interactions are compared with the ones in two publicly available interaction databases (Database of Interacting Proteins and Biomolecular Interaction Network Database) and also the Protein Data Bank. A significant number of predictions are verified in these databases. The unverified ones may correspond to (1) interactions that are not covered in these databases but known in literature, (2) unknown interactions that actually occur in nature and (3) interactions that do not occur naturally but may possibly be realized synthetically in laboratory conditions. Some unverified interactions, supported significantly with studies found in the literature, are discussed.

Source:

Publisher:

Oxford Univ Press

Subject

Biochemical research methods, Biotechnology, Applied microbiology, Computer science, Mathematical, Computational biology, Statistics, Probability

Citation

Has Part

Source:

Bioinformatics

Book Series Title

Edition

DOI

10.1093/bioinformatics/bti443

item.page.datauri

Link

Rights

Rights URL (CC Link)

Copyrights Note

Endorsement

Review

Supplemented By

Referenced By

0

Views

0

Downloads

View PlumX Details