A Novel Geometry-Based Approach to Infer Protein Interface Similarity.

ABSTRACT: The protein interface is key to understand protein function, providing a vital insight on how proteins interact with each other and with other molecules. Over the years, many computational methods to compare protein structures were developed, yet evaluating interface similarity remains a very difficult task. Here, we present PatchBag - a geometry based method for efficient comparison of protein surfaces and interfaces. PatchBag is a Bag-Of-Words approach, which represents complex objects as vectors, enabling to search interface similarity in a highly efficient manner. Using a novel framework for evaluating interface similarity, we show that PatchBag performance is comparable to state-of-the-art alignment-based structural comparison methods. The great advantage of PatchBag is that it does n

SUBMITTER: Budowski-Tal I 

PROVIDER: S-EPMC5974305 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature