The membrane organization and subcellular location of a protein can provide information about its functional role. Historically, these data have been difficult to produce on a large scale for higher eukaryotic organisms. However, recent advances in membrane organization prediction methods and high-throughput subcellular localization assays have made it possible to generate these datasets. LOCATE is a curated, web-accessible database that houses data describing the membrane organization and subcellular localization of proteins from the FANTOM3 Isoform Protein Sequence set. Membrane organization is predicted by the high-throughput, computational pipeline MemO. The subcellular locations of selected proteins from this set were determined by a high-throughput, immunofluorescence-based assay and by manually reviewing over 1700 peer-reviewed publications. The results of the MemO pipeline and the subcellular localization methods are stored in the database with supporting information including a graphical depiction of the membrane organization juxtaposed with InterPro-predicted features and links to several external databases. The database is searchable by subcellular location, protein class, descriptive keyword, and sequence similarity. The data are retrievable in human- and machine-readable formats and in batch. ... [Information of the supplier]
The Membrane Protein Data Bank (MPDB) is an online, searchable, relational database of structural and functional information on integral, anchored and peripheral membrane proteins and peptides. Data originates from the Protein Data Bank and other databases, and from the literature. Structures are based on X-ray and electron diffraction, nuclear magnetic resonance and cryoelectron microscopy. The MPDB is searchable online by protein characteristic, structure determination method, crystallization technique, detergent, temperature, pH, author, etc. Record entries are hyperlinked to the PDB and Pfam for viewing sequence, three-dimensional structure and domain architecture, and for downloading coordinates. Links to PubMed are also provided. ... [Information of the supplier]
TCDB is a curated database of factual information from over 10,000 published references. The database contains about 3,000 protein sequences. The database details a comprehensive IUBMB approved classification system for membrane transport proteins known as the Transporter Classification (TC) system. The TC system is analogous to the Enzyme Commission (EC) system for classification of enzymes, but incorporates phylogenetic information additionally. TCDB is operated by the Saier Lab Bioinformatics Group. ... [Information of the supplier]
The p53 tumor suppressor gene was initially identified as being essential for the DNA damage checkpoint, but it was subsequently found to have a broader function after cellular stress, such as oncogene activation or hypoxia. The p53 protein functions as a tetrameric transcription factor found at very low levels in normal unstressed cells. After stress, different pathways lead to post-translational modification of the protein and its stabilization. p53 database contains 16,000+ entries corresponding to TP53 mutations found in tumors, normal skin, and noncancerous diseases such as rheumatoid arthritis. The database also includes germline mutations found in Li-Fraumeni syndrome (LFS) and LFS-like syndrome. ... [Information of the supplier, modified]
