NAR Molecular Biology Database Collection entry number 1175

http://www.imtech.res.in/raghava/prrdb/

Lata S. and Raghava G.P.S.

Institute of Microbial Technology, Chandigarh, India

Contact raghava@imtech.res.in

In past number of databases (e.g. MHCPEP, MHCBN, AntijenDB, IEDB, BCIPEP, IMGT) have been developed to assists the researchers working in the field of adaptive immunity. Best of author’s knowledge no method have been developed in the field of innate immunity. Innate immune system has long been thought of just as the first line of defense whose only function is to contain the infection until the real player i.e. cells of adaptive immune response ready for defense. Recently, it has been demonstrated in number studies that the innate immune system does not merely acts as the first line of defense but provides critical signals for the development of specific adaptive immune response. In order to assist scientific community, we collected and compiled information related to innate immunity from literature and public databases (e.g. Swiss-Prot, TrEMBL).

Pattern-recognition receptors are germ-line encoded receptors, employed by the innate immune system to recognize evolutionarily conserved patterns from pathogens called Pathogen Associated Molecular Patterns (PAMPs). These receptors are necessary for guiding adaptive immune system for generating appropriate response against any pathogen. A database PRRDB has been developed that provides extensive information pattern recognizing receptors (PRRs) and their ligands. It contains around 500 PRRs sequences belonging to 77 distinct organisms ranging from insects to humans (See Figure 1). This includes 177 Toll-like receptors, 124 are Scavenger receptors, 20 are mannose receptors, 41 are C-type lectin like domain containing receptors, 17 are DC-SIGN, 43 are Peptidoglycan recognition receptors and 67 are Nucleotide Binding Site-Leucine repeats rich receptors. These receptors have been also classified as single-pass type I/II membrane proteins, multi-pass membrane protein, cytoplasmic or secreted proteins depending upon their site of expression. The database also provides information about 228 PRR ligands (79 endogenous and 149 exogenous). The database covers wide range of ligands including carbohydrates, proteins, nucleic acids, glycolipids, glycoproteins, lipopeptides. PRRDB also provides a number of online web tools that allow users to retrieve information and analyze data. It includes keyword search and browsing of PRRs and ligands, similarity search against PRRs. It provides external links to number of databases including Swiss-Prot and Pubmed. This databases is available for academic community via internet from URL http://www.imtech.res.in/raghava/prrdb/.

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