ArticleNucleic acids research2014
SCOPe: Structural Classification of Proteins--extended, integrating SCOP and ASTRAL data and classification of new structures.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 374 papers, 3 of them syntheses that pooled it.
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Who cites it
374 citing papers in PubMed, 3 syntheses or guidelines pooled it, 814 citations in OpenAlex.
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- Tandem-repeat lectins: structural and functional insights.Glycobiology · 2024Pooled it
- Pooled it
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- Systematic discovery of circular permutations across the protein universe using CIRPIN.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Conserved protein folds underpin the diversification of secreted proteins in a fungal pathogen.BMC microbiology · 2026Article
- RCSB protein data Bank: Next-generation advanced search for exploration of experimental structures and computed structure models.Protein science : a publication of the Protein Society · 2026Article
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- Predicting the evolutionary and functional landscapes of viruses with a unified nucleotide-protein language model: LucaVirus.National science review · 2026Article
- SplitSeek-Pro: accurate prediction of splittable sites on protein structures.Nature communications · 2026Article
- Detection of protein symmetry and structural rearrangements using secondary structure elements.Protein science : a publication of the Protein Society · 2026Article
- Limitations of the refolding pipeline for de novo protein design.Protein science : a publication of the Protein Society · 2026Article
- Mechanistic insights on spatiotemporal control of Ras-signaling.Biological chemistry · 2026Review
- Toward the regularization of E value from BLAST similarity search into a dissimilarity measure as distance function, and the metrication of protein sequence space.Briefings in bioinformatics · 2026Article
- Protein foundation models: a comprehensive survey.Science China. Life sciences · 2026Review
- Controllable Protein Design by Prefix-Tuning Protein Language Models.Journal of chemical information and modeling · 2026Article
- Identification of hot spring Obelisk-like RNA replicons and expanded diversity of the Obelisk superfamily.Nature communications · 2026Article
- DefensePredictor: A machine learning model to discover prokaryotic immune systems.Science (New York, N.Y.) · 2026Article
314 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
Structural Classification of Proteins-extended (SCOPe, http://scop.berkeley.edu) is a database of protein structural relationships that extends the SCOP database. SCOP is a manually curated ordering of domains from the majority of proteins of known structure in a hierarchy according to structural and evolutionary relationships. Development of the SCOP 1.x series concluded with SCOP 1.75. The ASTRAL compendium provides several databases and tools to aid in the analysis of the protein structures classified in SCOP, particularly through the use of their sequences. SCOPe extends version 1.75 of the SCOP database, using automated curation methods to classify many structures released since SCOP 1.75. We have rigorously benchmarked our automated methods to ensure that they are as accurate as manual curation, though there are many proteins to which our methods cannot be applied. SCOPe is also partially manually curated to correct some errors in SCOP. SCOPe aims to be backward compatible with SCOP, providing the same parseable files and a history of changes between all stable SCOP and SCOPe releases. SCOPe also incorporates and updates the ASTRAL database. The latest release of SCOPe, 2.03, contains 59 514 Protein Data Bank (PDB) entries, increasing the number of structures classified in SCOP by 55% and including more than 65% of the protein structures in the PDB.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.