BioTechniquesVol. 40, No. 3 WebWatchOpen AccessWebWatchKevin AhernKevin AhernSearch for more papers by this authorPublished Online:21 May 2018https://doi.org/10.2144/06403WW01AboutSectionsPDF/EPUB ToolsAdd to favoritesDownload CitationsTrack Citations ShareShare onFacebookTwitterLinkedInRedditEmail Structural FEATUREsFor as long as protein structure has been studied, the dream of researchers has been to elucidate function from structure. Given the large percentage of genes identified in genomic sequences with unknown function, it is not an irrelevant theoretical exercise. Aimed at advanced users, Russ Altman's FEATURE web site allows one to enter a protein structure [Protein Data Bank (PDB) format or directly from the PDB database] and then specify a type of structure to scan for within it. Users play an active role in the process, defining functional sites and creating training sets (statistical models built from a site). Over 150 model sites are available, and the FEATURE program can be run from the web (WebFEATURE) or as a downloadable UNIX application.feature.stanford.edu/index.htmlA Better Mouse TrackerIt has been said that rodents are the organisms with the most widespread negative impact on humans. Whether or not that is true is fodder for philosophers, but molecular biologists obviously think the mouse is important, as witnessed by the rapid determination of its genomic sequence. A leader in that effort, the Jackson Laboratories, hosts Mouse Genome Informatics (MGI), a popular hub for mouse enthusiasts. Looking for sequences, maps, or expression data? You'll find them here. So too will you discover a whole page of search engines, sequence analysis tools (MouseBLAST) and an interactive genome map browser. The list of options to be found is longer than the space available here to describe them. Indeed, about the only mouse information missing from MGI is a better way to catch one.www.informatics.jax.orgAffinity ProteomicsYou've got to admire the chutzpah of the Human Protein Atlas, whose stated aim is to systematically generate “quality assured antibodies to all nonredundant human proteins and… to functionally explore human proteins, protein variants, and protein interactions.” A collection of such antibodies would marry the fields of cell biology and proteomics, allowing researchers to localize every expressed protein within tissues and cells and, at the same time, provide researchers with unprecedented opportunities for studying the biochemistry of molecular processes. That's no small order. Here's hoping they succeed.www.proteinatlas.orgMushroom CrowdFor every delicious mushroom that teases the palette, there is a fungal blight that destroys a food crop. Jekyll and Hyde might envy such opposites in a life form. The Pacific Northwest Fungi Database (PNFD), hosted at Washington State University, is home to information about the yins and yangs of fungi, at least in the Northwest. From the beautiful red Microstoma of the forest floor to the Opiostoma that causes Dutch Elm Disease, the PNFD has them all categorized. View alphabetized lists of genus names and host families at the site or search the database by fungus or host family/genus/species. Users can specify location (Alaska, Idaho, Montana, British Columbia, Washington, or Oregon) to narrow searches, if desired. Returned records include taxonomic classification, citations, IDs, and more.pnwfungi.wsu.eduTalking DockingPutting together two proteins or a protein and its ligand is not as simple as joining individually solved structures of each in a lock and key fashion. You knew that, of course, if you learned Koshland's induced fit model of catalysis. Garrett Morris’ Molecular Docking site provides visitors with tools (downloadable software), educational material, movies, and links to enough outside information that you'll learn a lot, just poking around. Anchored by the downloadable AutoDock software (Mac OS X, Windows, Linux, and others), Molecular Docking is the rare site that provides users with not only a considerable amount of information about its topic, but also a tool to find more. Drug designers and researchers studying protein-protein interactions will revel in the bounty.www.scripps.edu/mb/olson/people/gmmFiguresReferencesRelatedDetails Vol. 40, No. 3 Follow us on social media for the latest updates Metrics History Published online 21 May 2018 Published in print March 2006 Information© 2006 Author(s)PDF download
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