β-Strand-mediated Interactions of Protein Domains

Overview

Journal Proteins

Date 2020 Jun 17

PMID 32543729

Citations 1

Authors

Archana S Bhat

Lisa N Kinch

Nick V Grishin

Affiliations

Soon will be listed here.

Abstract

Protein domains exist by themselves or in combination with other domains to form complex multidomain proteins. Defining domain boundaries in proteins is essential for understanding their evolution and function but is not trivial. More specifically, partitioning domains that interact by forming a single β-sheet is known to be particularly troublesome for automatic structure-based domain decomposition pipelines. Here, we study edge-to-edge β-strand interactions between domains in a protein chain, to help define the boundaries for some more difficult cases where a single β-sheet spanning over two domains gives an appearance of one. We give a number of examples where β-strands belonging to a single β-sheet do not belong to a single domain and highlight the difficulties of automatic domain parsers on these examples. This work can be used as a baseline for defining domain boundaries in homologous proteins or proteins with similar domain interactions in the future.

Citing Articles

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PMID: 39543045 DOI: 10.1007/978-1-0716-4213-9_19.

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