Repository of Enriched Structures of Proteins Involved in the Red Blood Cell Environment (RESPIRE)

PLoS One. 2019 Feb 22;14(2):e0211043. doi: 10.1371/journal.pone.0211043. eCollection 2019.

Abstract

The Red Blood Cell (RBC) is a metabolically-driven cell vital for processes such a gas transport and homeostasis. RBC possesses at its surface exposing antigens proteins that are critical in blood transfusion. Due to their importance, numerous studies address the cell function as a whole but more and more details of RBC structure and protein content are now studied using massive state-of-the art characterisation techniques. Yet, the resulting information is frequently scattered in many scientific articles, in many databases and specialized web servers. To provide a more compendious view of erythrocytes and of their protein content, we developed a dedicated database called RESPIRE that aims at gathering a comprehensive and coherent ensemble of information and data about proteins in RBC. This cell-driven database lists proteins found in erythrocytes. For a given protein entry, initial data are processed from external portals and enriched by using state-of-the-art bioinformatics methods. As structural information is extremely useful to understand protein function and predict the impact of mutations, a strong effort has been put on the prediction of protein structures with a special treatment for membrane proteins. Browsing the database is available through text search for reference gene names or protein identifiers, through pre-defined queries or via hyperlinks. The RESPIRE database provides valuable information and unique annotations that should be useful to a wide audience of biologists, clinicians and structural biologists. Database URL: http://www.dsimb.inserm.fr/respire.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Databases, Protein*
  • Erythrocytes / metabolism*
  • Humans
  • Membrane Proteins* / genetics
  • Membrane Proteins* / metabolism
  • Mutation
  • Protein Conformation

Substances

  • Membrane Proteins

Grants and funding

This work was funded by: Institut National de la Santé et la Recherche Médicale, Recurrent funding; Université Paris Diderot, Sorbonne Paris Cité, Recurrent funding; Institut National de la Transfusion Sanguine, Recurrent funding; Conseil Regional Ile de France (SESAME 2009); French National Research Agency [ANR-11-IDEX-0005-02], Program “Investissements d’avenir” for the Laboratory of Excellence GR-Ex who granted S.Teletchea [ANR-11-LABX-0051]; and University La Réunion, Recurrent funding.