RVDB-prot, a reference viral protein database and its HMM profiles

Thomas Bigot; Sarah Temmam; Philippe Pérot; Marc Eloit

doi:10.12688/f1000research.18776.2

RVDB-prot, a reference viral protein database and its HMM profiles

F1000Res. 2019 Apr 23:8:530. doi: 10.12688/f1000research.18776.2. eCollection 2019.

Authors

Thomas Bigot¹, Sarah Temmam², Philippe Pérot², Marc Eloit^{2

3}

Affiliations

¹ Hub de Bioinformatique et Biostatistique - Département Biologie Computationnelle, Institut Pasteur, USR 3756 CNRS, Paris, France.
² Pathogen Discovery Laboratory, Institut Pasteur, Paris, 75015, France.
³ École Nationale Vétérinaire d'Alfort, Maisons-Alfort, 94700, France.

Abstract

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

Grants and funding

The author(s) declared that no grants were involved in supporting this work.