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. 2025 Jan 6;53(D1):D575-D581.
doi: 10.1093/nar/gkae965.

RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB

Damiano Clementel  1 , Paula Nazarena Arrías  2 , Soroush Mozaffari  1 , Zarifa Osmanli  1 , Ximena Aixa Castro  1 ; RepeatsDB curators; Carlo Ferrari  3 , Andrey V Kajava  4 , Silvio C E Tosatto  1   5 , Alexander Miguel Monzon  3
Collaborators, Affiliations

RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB

Damiano Clementel et al. Nucleic Acids Res. .

Abstract

RepeatsDB (URL: https://repeatsdb.org) stands as a key resource for the classification and annotation of Structured Tandem Repeat Proteins (STRPs), incorporating data from both the Protein Data Bank (PDB) and AlphaFoldDB. This latest release features substantial advancements, including annotations for over 34 000 unique protein sequences from >2000 organisms, representing a fifteenfold increase in coverage. Leveraging state-of-the-art structural alignment tools, RepeatsDB now offers faster and more precise detection of STRPs across both experimental and predicted structures. Key improvements also include a redesigned user interface and enhanced web server, providing an intuitive browsing experience with improved data searchability and accessibility. A new statistics page allows users to explore database metrics based on repeat classifications, while API enhancements support scalability to manage the growing volume of data. These advancements not only refine the understanding of STRPs but also streamline annotation processes, further strengthening RepeatsDB's role in advancing our understanding of STRP functions.

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Figures

Graphical Abstract
Graphical Abstract
Figure 1.
Figure 1.
Proportion of STRP topologies identified in the top 20 most frequently occurring organisms in AlphaFoldDB/SwissProt models.
Figure 2.
Figure 2.
AlphaFold model of the human leucine-rich repeat LGI family member 3 (UniProt accession: Q8N145). The feature viewer displays all information mapped onto the structure's reference sequence. The top track shows two distinct predicted repeat regions in this protein: a 3.2 alpha/beta solenoid and a 4.4 propeller, with repetitive units colored in alternating blue and red. The tracks below display various protein sequence features, including Pfam domains and InterPro annotations.
See this image and copyright information in PMC

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