ArticleJournal of virology2017
Nucleic and Amino Acid Sequences Support Structure-Based Viral Classification.
Article in Journal of virology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
19 citing papers in PubMed, 30 citations in OpenAlex.
- Genetic diversity ofFrontiers in cellular and infection microbiology · 2025Article
- A critique of the use of species and below-species taxonomic terms for viruses-time for change?Virus evolution · 2024Article
- Structural Insights into the Assembly of the African Swine Fever Virus Inner Capsid.Journal of virology · 2023Article
- Four principles to establish a universal virus taxonomy.PLoS biology · 2023Article
- The viral capsid as novel nanomaterials for drug delivery.Future science OA · 2021Review
- The genomes of nucleocytoplasmic large DNA viruses: viral evolution writ large.Microbial genomics · 2021Review
- Phylogeny of theFrontiers in microbiology · 2021Article
- Cryo-electron microscopy for the study of virus assembly.Nature chemical biology · 2020Review
- Phage diversity, genomics and phylogeny.Nature reviews. Microbiology · 2020Review
- Computer-Assisted and Data Driven Approaches for Surveillance, Drug Discovery, and Vaccine Design for the Zika Virus.Pharmaceuticals (Basel, Switzerland) · 2019Review
- Half a Century of Research on Membrane-Containing Bacteriophages: Bringing New Concepts to Modern Virology.Viruses · 2019Review
- Comparative genetic and genomic analysis of the novel fusellovirus Sulfolobus spindle-shaped virus 10.Virus evolution · 2018Article
- Diversity and evolution of the emerging Pandoraviridae family.Nature communications · 2018Article
- The genomic underpinnings of eukaryotic virus taxonomy: creating a sequence-based framework for family-level virus classification.Microbiome · 2018Article
- Review
- A Large Open Pangenome and a Small Core Genome for Giant Pandoraviruses.Frontiers in microbiology · 2018Article
- The enigmatic archaeal virosphere.Nature reviews. Microbiology · 2017Review
- A Novel Type of Polyhedral Viruses Infecting Hyperthermophilic Archaea.Journal of virology · 2017Article
- Homologous Capsid Proteins Testify to the Common Ancestry of Retroviruses, Caulimoviruses, Pseudoviruses, and Metaviruses.Journal of virology · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Viral capsids ensure viral genome integrity by protecting the enclosed nucleic acids. Interactions between the genome and capsid and between individual capsid proteins (i.e., capsid architecture) are intimate and are expected to be characterized by strong evolutionary conservation. For this reason, a capsid structure-based viral classification has been proposed as a way to bring order to the viral universe. The seeming lack of sufficient sequence similarity to reproduce this classification has made it difficult to reject structural convergence as the basis for the classification. We reinvestigate whether the structure-based classification for viral coat proteins making icosahedral virus capsids is in fact supported by previously undetected sequence similarity. Since codon choices can influence nascent protein folding cotranslationally, we searched for both amino acid and nucleotide sequence similarity. To demonstrate the sensitivity of the approach, we identify a candidate gene for the pandoravirus capsid protein. We show that the structure-based classification is strongly supported by amino acid and also nucleotide sequence similarities, suggesting that the similarities are due to common descent. The correspondence between structure-based and sequence-based analyses of the same proteins shown here allow them to be used in future analyses of the relationship between linear sequence information and macromolecular function, as well as between linear sequence and protein folds.
Indexed as
Identifiers
What OpenQuestion holds
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.