RVDB-prot, a reference viral protein database and its HMM profiles [version 2; peer review: 2 approved]

Thomas Bigot (1) , Sarah Temmam (2) , Philippe Pérot (2) , Marc Eloit (2, 3)

1 Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics HUB
2 Découverte de pathogènes – Pathogen discovery
3 ENVA - École nationale vétérinaire - Alfort

We present RVDB-prot, a database corresponding to the protein equivalent of the nucleic acid reference virus database RVDB. Protein databases can be helpful to perform more sensitive protein sequence comparisons. Similarly to its homologous public repository, RVDB-prot aims to provide reliable and accurately annotated unique entries, while including also an Hidden Markov Model (HMM) protein profiles database for distant protein searching.

Keywords: virus; genomes; proteins; hmm; clusters; annotations; database

Domains: Computer Science [cs]; Bioinformatics [q-bio.QM]; Life Sciences [q-bio]; Quantitative Methods [q-bio.QM]

Thomas Bigot, Sarah Temmam, Philippe Pérot, Marc Eloit. RVDB-prot, a reference viral protein database and its HMM profiles [version 2; peer review: 2 approved]. F1000Research, 2020, 8, pp.530. ⟨10.12688/f1000research.18776.2⟩. ⟨pasteur-02946473⟩