ArticleProtein science : a publication of the Protein Society2025
DSSP 4: FAIR annotation of protein secondary structure.
Article in Protein science : a publication of the Protein Society, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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Who cites it
46 citing papers in PubMed.
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- Electrostatics and disease: Large-scale assessment of human missense variants causing protein charge alterations and their implications for disease.Biophysical journal · 2026Article
- Structure-Guided Discovery Reveals Recurrent Bioactive Peptide Architectures Across Coleoptera.International journal of molecular sciences · 2026Article
- Artificial intelligence aided design of peptides with custom secondary structure motifs and reduced amino acid alphabets.bioRxiv : the preprint server for biology · 2026Article
- The extra-terminal domain drives the role of BET proteins in transcription.Nucleic acids research · 2026Article
- PolyProline Predictor: A web server for empirical sequence-based prediction of polyproline II helices.Protein science : a publication of the Protein Society · 2026Article
- Incorporating Surfaced-Induced Dissociation Mass Spectrometry Data into an AlphaFold-derived deep learning network improves protein structure prediction.bioRxiv : the preprint server for biology · 2026Article
- Article
- Purification, Amino Acid Sequence, and Structural Features of a Novel Expansin-like A from the Seeds of Canihua (International journal of molecular sciences · 2026Article
- Sketching microprotein portraits.Protein science : a publication of the Protein Society · 2026Review
- Engineering Biosensors to Enhance Monoterpene Indole Alkaloid Production in Yeast.bioRxiv : the preprint server for biology · 2026Article
- AlphaInterp: Mechanistic Interpretability of AlphaFold 3 Reveals How Evolutionary Information Shapes Protein Structure Prediction.bioRxiv : the preprint server for biology · 2026Article
- evo3D R package: a spatial haplotype framework for structure-informed analysis of molecular evolution.Molecular biology and evolution · 2026Article
- Unveiling the Impact of Drug-Sensitive Mutations on HIV-1 Protease Dynamics: A Molecular Dynamics Simulation Study of the T12A, L63Q, and H69N Variants.International journal of molecular sciences · 2026Article
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4 authors.
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Abstract
Protein secondary structure annotation is essential for understanding protein architecture, serving as a cornerstone for structural classification, alignment, visualization, and machine learning applications. The Define Secondary Structure of Proteins (DSSP) algorithm has long been the standard for assigning secondary structure elements such as α-helices, β-sheets, and loops in protein models. Here, we introduce DSSP version 4, which recapitulates DSSP functionality in a modern computational framework, extending also to the detection of left-handed κ-helices (Poly-Proline II helices). To align with the Findable, Accessible, Interoperable, Reusable principles, DSSP 4 adopts mmCIF as its primary input and output format, while retaining compatibility with legacy Protein Data Bank (PDB) and DSSP formats. We applied this updated tool to analyze the distribution of secondary structure elements across the PDB, differentiating structures from diverse experimental methods, revealing insights into the prevalence and length of secondary structure elements, including the newly annotated κ-helices. The DSSP 4 software, databank, and server are freely accessible from https://pdb-redo.eu/dssp, ensuring broad utility and interoperability in structural biology research.
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