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

• Published in: PloS one 2019-02, Vol.14 (2), p.e0211043-e0211043
• Main Authors: Téletchéa, S, Santuz, H, Léonard, S, Etchebest, C
• Format: Article
• Language: English
• Subjects: Amino acids; Antigens; Bioinformatics; Biologists; Biology; Biology and Life Sciences; Blood transfusion; Browsing; Cell adhesion & migration; Computational biology; Databases, Protein; Erythrocytes; Erythrocytes - metabolism; Gas transport; Genes; Homeostasis; Humans; Hyperlinks; Laboratories; Membrane proteins; Membrane Proteins - genetics; Membrane Proteins - metabolism; Metabolites; Mutation; Natural gas transmission; Ontology; Protein Conformation; Protein structure; Proteins; Proteomics; Red blood cells; Research and Analysis Methods; Servers (Computers); Transfusion
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0211043

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.