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Database (Oxford). 2015 Mar 16;2015. pii: bav014. doi: 10.1093/database/bav014. Print 2015.

LMPID: a manually curated database of linear motifs mediating protein-protein interactions.

Author information

1
Bioinformatics Centre, Bose Institute, Kolkata, India.
2
Bioinformatics Centre, Bose Institute, Kolkata, India ssaha4@jcbose.ac.in.

Abstract

Linear motifs (LMs), used by a subset of all protein-protein interactions (PPIs), bind to globular receptors or domains and play an important role in signaling networks. LMPID (Linear Motif mediated Protein Interaction Database) is a manually curated database which provides comprehensive experimentally validated information about the LMs mediating PPIs from all organisms on a single platform. About 2200 entries have been compiled by detailed manual curation of PubMed abstracts, of which about 1000 LM entries were being annotated for the first time, as compared with the Eukaryotic LM resource. The users can submit their query through a user-friendly search page and browse the data in the alphabetical order of the bait gene names and according to the domains interacting with the LM. LMPID is freely accessible at http://bicresources.jcbose. ac.in/ssaha4/lmpid and contains 1750 unique LM instances found within 1181 baits interacting with 552 prey proteins. In summary, LMPID is an attempt to enrich the existing repertoire of resources available for studying the LMs implicated in PPIs and may help in understanding the patterns of LMs binding to a specific domain and develop prediction model to identify novel LMs specific to a domain and further able to predict inhibitors/modulators of PPI of interest.

PMID:
25776024
PMCID:
PMC4360622
DOI:
10.1093/database/bav014
[Indexed for MEDLINE]
Free PMC Article

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