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The objective is to develop a pipeline that detects protein repeats using sequence representations from protein language models.

April 10, 2026Protein ScienceOpen Access

pLM ‐Repeat: Exploiting the sequence representations of protein language models for sensitive repeat detection

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The objective is to develop a pipeline that detects protein repeats using sequence representations from protein language models.
Developed pLM-Repeat, utilizing pLM-BLAST for sequence representation.
Compared sensitivity and speed of pLM-Repeat with traditional methods like HHrepID.
Employed a pre-filtering model trained on repeat protein representations.
pLM-Repeat achieves comparable sensitivity to HHrepID while identifying more repeat units.
Significantly shorter runtimes help facilitate large-scale scans.
Enabled the detection of novel repeat proteins in the AlphaFold Protein Structure Database.

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Demonstrates a new approach for detecting protein repeats in large-scale datasets, indicating improved speed and sensitivity.

Qiu et al. (2026) studied this question.

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