ArticleMolecular systems biology2025
Viro3D: a comprehensive database of virus protein structure predictions.
Article in Molecular systems biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
11 citing papers in PubMed.
- From sites to structure to serology: a roadmap for structure-aware molecular evolution of antigenically evolving viruses.Journal of virology · 2026Review
- Decoding viral protein sequences by large language models.Briefings in bioinformatics · 2026Review
- Evolving strategies for virus discovery.Microbial genomics · 2026Review
- The evolutionary dynamics between viral mimics and host proteins.Molecular systems biology · 2026Article
- Review
- Sequence to structure insights into Lassa virus population-level biophysical properties and glycoprotein structure catalogue.Npj viruses · 2026Article
- Article
- Protein structure-informed bacteriophage genome annotation with Phold.Nucleic acids research · 2026Article
- Recent advances in the inference of deep viral evolutionary history.Journal of virology · 2025Review
- Global cis-regulatory landscape of double-stranded DNA viruses.bioRxiv : the preprint server for biology · 2025Article
- Emerging frontiers in protein structure prediction following the AlphaFold revolution.Journal of the Royal Society, Interface · 2025Review
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
Viruses are genetic parasites of cellular life. Tolerance to genetic change, high mutation rates, adaptations to hosts, and immune escape have driven extensive sequence divergence of viral genes, hampering phylogenetic inference and functional annotation. Protein structure, however, is more conserved, allowing searches for distant homologs and revealing otherwise obscured evolutionary histories. Viruses are underrepresented in current protein structure databases, but this can be addressed by recent advances in machine learning. Using AlphaFold2-ColabFold and ESMFold, we predicted structures for >85,000 proteins from >4400 viruses, expanding viral coverage 30 times compared to experimental structures. Using this data, we map form and function across the human and animal virosphere and examine the evolutionary history of viral class-I fusion glycoproteins, revealing the potential origins of coronavirus spike glycoprotein. Our database, Viro3D ( https://viro3d.cvr.gla.ac.uk/ ), will allow the virology community to fully benefit from the structure prediction revolution, facilitating fundamental molecular virology and structure-informed design of therapies and vaccines.
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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.