PRRDB, pattern-recognition receptor
From DrugPedia: A Wikipedia for Drug discovery
PRRDB is a unique database of its kind, which provides comprehensive information about innate immunity. It is a database of pattern recognition receptors and their ligands. The database is developed by Dr. Raghava's group at Bioinformatics centre, Institute of microbial technology, Chandigarh.
The main aim of this database is to serve the academic community working in field of immunology (mainly subunit vaccine designing). This is a comprehensive database provides information about most of Pattern Recognition receptors and their ligands reported in literature. This information is essential as these ligands can be used as adjuvants along with the peptide vaccines to enhance their efficacy. It contains around 500 PRR sequences belonging to 77 distinct organisms, ranging from insects to humans. Out of these 177 are Toll-like receptors, 124 are Scavenger receptors, 20 are mannose receptors, 41 are C-type lectin like domain containing receptors, 17 are DC-SIGN receptors, 43 are Peptidoglycan recognition receptors and 67 are Nucleotide binding site-Leucine rich repeats rich receptors. Information about the PRRs includes their common names, synonymous names, organisms they belong to, sequence length and protein sequence. These receptors are further classified as single-pass type I/II membrane proteins, multi-pass membrane proteins, cytoplasmic or secreted proteins depending upon their site of expression. Each entry also bears a Swiss-Prot ID that is hyperlinked to its corresponding entry in Swiss-Prot. PRRDB also provides information about 266 ligands of PRRs. It provides complete information about ligands that include ligands name, source, binding receptor and its origin i.e. exogenous/endogenous. A total of 86 ligands out of 266 are endogenous in origin whereas the rest belong to the exogenous sources. The exogenous ligands may be bacterial, mycobacterial, fungal, viral, environmental or synthetic in nature. PRRDB cover a wide range of ligands, which are further classified into carbohydrates, proteins, nucleic acids, glycolipids, glycoproteins, lipopeptides, lipopolysaccharides, lipoteichoic acids, peptidoglycans, phospholipids, synthetic and others (ligands which could not be assigned to any group). A reference field is also added to the database where links are maintained to the relevant literature (Pubmed).
A number of web tools have been integrated in PRRDB in order to provide following services: i) searching on any field; ii) database browsing; and iii) BLAST search against the pattern-recognition receptors. PRRDB also provides external links to standard databases like Swiss-Prot and Pubmed.
This information in form of a database will be very useful for understanding the innate immune system and developing tools for predicting effective adjuvants. The database is available free at http://www.imtech.res.in/raghava/prrdb .
