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A TALE-inspired computational screen for proteins that contain approximate tandem repeats

Perycz, Malgorzata and Krwawicz, Joanna and Bochtler, Matthias (2017) A TALE-inspired computational screen for proteins that contain approximate tandem repeats. PloS one, 12 (6). e0179173 -(21p.). ISSN 1932-6203

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Official URL: https://doi.org/10.1371/journal.pone.0179173


TAL (transcription activator-like) effectors (TALEs) are bacterial proteins that are secreted from bacteria to plant cells to act as transcriptional activators. TALEs and related proteins (RipTALs, BurrH, MOrTL1 and MOrTL2) contain approximate tandem repeats that differ in conserved positions that define specificity. Using PERL, we screened ~47 million protein sequences for TALE-like architecture characterized by approximate tandem repeats (between 30 and 43 amino acids in length) and sequence variability in conserved positions, without requiring sequence similarity to TALEs. Candidate proteins were scored according to their propensity for nuclear localization, secondary structure, repeat sequence complexity, as well as covariation and predicted structural proximity of variable residues. Biological context was tentatively inferred from co-occurrence of other domains and interactome predictions. Approximate repeats with TALE-like features that merit experimental characterization were found in a protein of chestnut blight fungus, a eukaryotic plant pathogen.

Item Type:Article
Subjects:Q Science > Q Science (General)
Divisions:Department of Bioinformatics
ID Code:1487
Deposited By: dr Malgorzata Perycz
Deposited On:19 Jan 2018 13:43
Last Modified:19 Jan 2018 13:43

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