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LGICdb: a manually curated sequence database after the genomes
Marco Donizelli1, Marie-Ange Djite, Nicolas Le Novère
1European Bioinformatics Institute, EMBL Wellcome-Trust Genome Campus, Hinxton CB10 1SD, UK.
Nucleic Acids Research
|December 31, 2005
Summary
The LGICdb provides a manually curated database of ligand-gated ion channel subunits, including nicotinic, ATP, GABA, and glutamate receptors. This resource offers unique sequences not found elsewhere, enhancing research accessibility.
Area of Science:
- Neuroscience
- Molecular Biology
- Biochemistry
Background:
- Ligand-gated ion channels (LGICs) are crucial transmembrane proteins controlling ion flow across cell membranes.
- These channels are activated by the binding of specific chemical ligands, playing vital roles in neuronal signaling.
- A comprehensive and curated resource for LGIC subunits is essential for researchers.
Purpose of the Study:
- To present the LGICdb, a manually curated, non-redundant database of extracellularly activated ligand-gated ion channel subunits.
- To provide researchers with access to a unique collection of LGIC sequences, including those for nicotinic, ATP, GABA, and glutamate receptors.
Main Methods:
- Manual curation of LGIC subunit information.
- Database development and maintenance in XML format.
- Relocation and enhancement of the database at the European Bioinformatics Institute (EBI).
Main Results:
- The LGICdb contains over 500 human curated entries.
- The database features enhanced search functionalities, multiple sequence alignments, and protein structure manipulation tools.
- The LGICdb provides access to sequences not available in other general sequence resources.
Conclusions:
- The LGICdb remains a valuable and unique resource for studying ligand-gated ion channels.
- Enhanced features facilitate deeper investigation into LGIC subunit structure and function.
- The database supports ongoing research in neuroscience and related fields by offering specialized, high-quality data.