Biological membranes constitute a chemical barrier to the environment and are thus the prerequisite for the establishment and maintenance of a controlled intracellular milieu, the cytoplasm. In eukaryotes, membranes are also responsible for the formation of chemically distinct intracellular compartments. The lipid bilayer membranes contain a great diversity of proteins that fulfill different functions and serve as an interface to the environment and between different compartments. Among these membrane proteins are receptors involved in signaling cascades and pathogen defense reactions, enzymes such as the apparatus for cell wall biosynthesis, and transporters responsible for the import and export of solutes and ions and the establishment of electrochemical gradients across membranes, thereby connecting the different metabolic pathways of the cellular compartments and organelles.
Provides reference data, analysis tools and interactive diagrams. GPCRDB is a comprehensive information system, storing and analysing G protein-coupled receptors (GPCRs) data. This online resource holds three kinds of experimental data: sequences, mutation data and ligand binding data. It also allows for complementary data types to be assigned to receptor residue positions and visualized within uniform residue diagrams and tables.
Provides information about neuronal membrane properties and neuronal models. NeuronDB is a repository of published research information related to three neuronal membrane properties: voltage gated conductances, neurotransmitter receptors and neurotransmitter substances. The database provides information related to neuronal membrane properties for a fixed set of neurons in specific regions of the brain. The information in the repository is localized to specific neuronal compartments. It interoperates with Cell Centered Data Base (CCDB).
Gathers information related to the molecular and functional organization of the olfactory bulb from 2-deoxyglucose, c-fos and high-resolution fMRI experiments. OdorMapDB provides comparisons between activity patterns that result from odorant stimulation in the glomerular layer by the above-mentioned experimental methods. It contains more than 40 entries and includes links to ORDB and OdorDB.
A general tool for genome-wide definition of genomic gene clusters conserved in multiple species. Syntenic orthologs, defined as gene pairs showing conservation of both genomic location and coding sequence, were subjected to a graph theory algorithm for discovering CLICs (clusters in conservation). When applied to ORs in five mammals, including the marsupial opossum, more than 90% of the OR genes were found within a framework of 48 multi-species CLICs, invoking a general conservation of gene order and composition.
A central repository of olfactory receptor (OR) and olfactory receptor-like gene and protein sequences. ORDB began as a database of vertebrate OR genes and proteins and continues to support sequencing and analysis of these receptors by providing a comprehensive archive with search tools for this expanding family. Because of the associated growth of interest in other CRs, the database has grown over the years to include a broad range of chemosensory genes and proteins, that includes in addition to ORs the taste papilla receptors (TPRs), vomeronasal organ receptors (VNRs), insect olfactory receptors (IORs), Caenorhabditis elegans chemosensory receptors (CeCRs), fungal pheromone receptors (FPRs).
Provides information about odor molecules. OdorDB is a repository designed for reflecting the functional analysis of olfactory receptors (ORs), namely to identify odorants hat interacted with ORs. The database lists more than 200 odorants, and some of which are known to activate ORs. It allows users to access a list of receptors that have been identified as being associated with an ‘odorant’ listed in OdorMapDB.
A database of human Olfactory Receptors (ORs), the largest multigene family in vertebrates. ORs are G-Coupled Protein Receptors with a 7-transmembrane structure. The ORs are responsible for triggering the olfactory signal transduction pathway.
Provides a platform for identifying odorant receptors (ORs) for small molecules and for browsing existing OR-ligand pairs. ODORactor enables the prediction of ORs from the molecular structures of arbitrary chemicals. It permits to verify odorant and to recognize OR. The tool is capable to identify novel odorants and their receptors. It may provide an effective way to decipher olfactory coding and could be a useful server tool for both basic olfaction research in academia and for odorant discovery in industry.
A database for experimental restaints of GPCRs. GPCRRD is designed to systematically collect all experimental restraints (including residue orientation, contact and distance maps) available from the literature and primary GPCR resources using an automated text mining algorithm combined with manual validation, with the purpose of assisting GPCR 3D structure modeling and function annotation. The current dataset contains thousands of spatial restraints from mutagenesis, disulfide mapping distances, electron cryo-microscopy and Fourier-transform infrared spectroscopy experiments.
A resource designed for scientists, who look for a convenient way to access data about individual plant membrane proteins and membrane protein families. Currently, ARAMEMNON provides membrane protein data of nine plant species.
Provides information on glycoprotein hormone receptor (GPHR)-related topics. SSFA-GPHR is a database that contains protein sequences, multiple sequence alignments (MSA), protein structures, homology models and data from mutagenesis experiments of glycoprotein hormone receptors GPHRs. A web-application facilitates interactive linkage between unified functional and 3D structural information. It can be useful for exploring and recognizing spatial interrelationships between side-chains and causally-induced malfunctions of proteins.
Integrates data on natural variants in human GPCRs from online databases, the scientific literature, and patents. Where available, variants contain information on their location in the DNA (and protein sequence), the involved nucleotides (and amino acids), the average frequency of each allele, reported disease associations, and references to public databases and the scientific literature. The GPCR NaVa database aims to facilitate studies into pharmacogenetics, genotype-phenotype, and structure-function relationships of GPCRs.
Contains information on over 58000 PDZ-containing proteins as well as their known and putative interacting partners. PDZscape is an online repository that can be queried using the names and external identifiers of proteins. This database integrates information from several resources: Uniprot Knowledge Base, STRING functional protein association networks, Protein Data Bank, NCBI gene information, KEGG PATHWAY Database and IntAct Database.
Manages information and data relevant to the study of the biology of the receptors. GCRDb collects and stores entries from several online databases, including GenBank. G-protein-coupled receptors (GCRs) are classified in different families to simplify research and query of users.
A database for experimentally solved GPCR structures. GPCR-EXP is a manually curated database that contains all G protein-coupled receptors that have been solved so far. The database is updated weekly. Each entry contains information of PDB ID, resolution, release date, biological name and literature associated with the GPCR.
Contains 3D structural models of 1,026 putative G protein-coupled receptors (GPCRs) in the human genome generated by the GPCR-I-TASSER pipeline. In GPCR-I-TASSER, the GPCR sequences are first threaded through the GPCR template library to identify muliple structure templates by the LOMETS programs. When close homolgous templates are identified, full-length models will be constructed by the I-TASSER based fragment assembly simulations, assisted by a GPCR and membrane specific force field and spatial restraints collected from mutagenesis experiments in GPCR-RD.
Facilitates access to relevant data on G-protein coupled receptors (GPCRs) mutants. tGRAP is a database that provides all papers describing experiments (such as radioligand binding or functional testing) on mutant GPCRs, including splice variants and polymorphisms, have been incorporated into the database. Apart from these data, the database provides detailed information on the amino acids being altered, qualitative information on experiments and experimental conditions, and literature references.
A database of 7-transmembrane G-linked receptors (also known as G-protein coupled receptors (GPCR)) entries. 7tmrlist proposes various types of information which can be found in the following WWW servers: GCRDb, GPCRDB, ORDB, NIH, ExPASy, Yale, GRAP.
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