A unified approach to protein domain parsing with inter-residue distance matrix.

ABSTRACT:

Motivation

It is fundamental to cut multi-domain proteins into individual domains, for precise domain-based structural and functional studies. In the past, sequence-based and structure-based domain parsing was carried out independently with different methodologies. The recent progress in deep learning-based protein structure prediction provides the opportunity to unify sequence-based and structure-based domain parsing.

Results

Based on the inter-residue distance matrix, which can be either derived from the input structure or predicted by trRosettaX, we can decode the domain boundaries under a unified framework. We name the proposed method UniDoc. The principle of UniDoc is based on the well-accepted physical concept of maximizing intra-domain interaction while minimizing int

SUBMITTER: Zhu K 

PROVIDER: S-EPMC9919455 | biostudies-literature | 2023 Feb

REPOSITORIES: biostudies-literature