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Resource:Ligand-Gated Ion Channel Database

Name: Resource:Ligand-Gated Ion Channel Database
Description: Database providing access to information about transmembrane proteins that exist under different conformations, with three primary subfamilies: the cys-loop superfamily, the ATP gated channels superfamily, and the glutamate activated cationic channels superfamily. Due to the lack of evolutionary relationship, these three superfamilies are treated separately. It currently contains 554 entries of ligand-activated ion channel subunits.

In this database one may find: the nucleic and proteic sequences of the subunits. Multiple sequence alignments can be generated, and some phylogenetic studies of the superfamilies are provided. Additionally, the atomic coordinates of subunits, or portion of subunits, are provided when available. Redundancy is kept to a minimum, i.e. one entry per gene. Each entry in the database has been manually constructed and checked by a researcher of the field in order to reduce the inaccuracies to a minimum.

NOTE: This database is not actively maintained anymore. People should not consider it as an up-to-date trustable resource. For any new work, they should consider using alternative sources, such as UniProt, Ensembl, Protein Databank etc.
Other Name(s): LGIC Database
Abbreviation: LGICdb
Parent Organization: Resource:European Bioinformatics Institute
Supporting Agency: College of France; Paris; France, Centre National de la Recherche Scientifique, European Commission, (Biotech and Biomed contracts), French Ministry of Higher Education and Research, Institut Pasteur
Resource Type(s): Database
Resource: Resource
URL: http://www.ebi.ac.uk/compneur-srv/LGICdb/
*Id: nif-0000-00037
PMID: PMID 16381861, 11125117
Publication link: http://lenoverelab.org/perso/lenov/PUBLIS/Lenov1999a.pdf
Listed By: Resource:re3data.org
Address: The Babraham Institute, Babraham Research Campus, Cambridge CB22 3AT, United-Kingdom Tel: +44 (0)1223 496 000 Fax: +44 (0)1223 496 002 E-mail: lenov (at) ebi.ac.uk
Keywords: equilibrium, extracellular, gabaa, gated, gene, genetics, 3d model, alignment, anionic, atomic, atp, cationic, cellular, molecular, channel, compartment, computation, conformation, coordinate, cys-loop, glutamate, glycine, histamine, homologous, ion, ion channel, ligand, membrane, nicotinic, nucleic acid, phylogenetic, pore, portion, proteic, Nucleic acid, Protein, Phylogeny, receptor, segment, sequence, sequence data, serotonin, subunit, superfamily, transmembrane
Link to OWL / RDF: Download this content as OWL/RDF

Curation status: Curated

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Notes

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Contributors

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*Note: Neurolex imports many terms and their ids from existing community ontologies, e.g., the Gene Ontology. Neurolex, however, is a dynamic site and any content beyond the identifier should not be presumed to reflect the content or views of the source ontology. Users should consult with the authoritative source for each ontology for current information.

Facts about Resource:Ligand-Gated Ion Channel DatabaseRDF feed
AbbrevLGICdb  +
AddressThe Babraham Institute  +, Babraham Research Campus  +, Cambridge CB22 3AT  +, and United-Kingdom Tel: +44 (0)1223 496 000 Fax: +44 (0)1223 496 002 E-mail: lenov (at) ebi.ac.uk  +
CommentAccess: Open
Reuse: Open- http://www.ebi.ac.uk/compneur-srv/LGICdb/FAQ.php for information
Start date: 1994
Type: Disciplinary
Deposit: Closed
(info provided by re3data.org)
CurationStatuscurated  +
DefiningCitationhttp://www.ebi.ac.uk/compneur-srv/LGICdb/  +
DefinitionDatabase providing access to information a Database providing access to information about transmembrane proteins that exist under different conformations, with three primary subfamilies: the cys-loop superfamily, the ATP gated channels superfamily, and the glutamate activated cationic channels superfamily. Due to the lack of evolutionary relationship, these three superfamilies are treated separately. It currently contains 554 entries of ligand-activated ion channel subunits.

In this database one may find: the nucleic and proteic sequences of the subunits. Multiple sequence alignments can be generated, and some phylogenetic studies of the superfamilies are provided. Additionally, the atomic coordinates of subunits, or portion of subunits, are provided when available. Redundancy is kept to a minimum, i.e. one entry per gene. Each entry in the database has been manually constructed and checked by a researcher of the field in order to reduce the inaccuracies to a minimum.

NOTE: This database is not actively maintained anymore. People should not consider it as an up-to-date trustable resource. For any new work, they should consider using alternative sources, such as UniProt, Ensembl, Protein Databank etc.
as UniProt, Ensembl, Protein Databank etc.
ExampleImageLGICdb.PNG  +
Has default formThis property is a special property in this wiki.Resource  +
Has roleDatabase  +
Idnif-0000-00037  +
Is part ofResource:European Bioinformatics Institute  +
KeywordsEquilibrium  +, Extracellular  +, Gabaa  +, Gated  +, Gene  +, Genetics  +, 3d model  +, Alignment  +, Anionic  +, Atomic  +, Atp  +, Cationic  +, Cellular  +, Molecular  +, Channel  +, Compartment  +, Computation  +, Conformation  +, Coordinate  +, Cys-loop  +, Glutamate  +, Glycine  +, Histamine  +, Homologous  +, Ion  +, Ion channel  +, Ligand  +, Membrane  +, Nicotinic  +, Nucleic acid  +, Phylogenetic  +, Pore  +, Portion  +, Proteic  +, Protein  +, Phylogeny  +, Receptor  +, Segment  +, Sequence  +, Sequence data  +, Serotonin  +, Subunit  +, Superfamily  +, and Transmembrane  +
LabelResource:Ligand-Gated Ion Channel Database  +
ListedbyResource:re3data.org  +
ModifiedDate21 July 2014  +
PMID16381861, 11125117  +
Page has default formThis property is a special property in this wiki.Resource  +
PublicationLinkhttp://lenoverelab.org/perso/lenov/PUBLIS/Lenov1999a.pdf  +
SuperCategoryResource  +
Supporting AgencyCollege of France; Paris; France  +, Centre National de la Recherche Scientifique  +, European Commission  +, (Biotech and Biomed contracts)  +, French Ministry of Higher Education and Research  +, and Institut Pasteur  +
SynonymLGIC Database  +