JGI portals provide data for Transporter annotations for many of our organisms and organism group pages. These membrane transport proteins are classified using the Trasport Classification System which incorporates both functional and phylogenetic information, on the basis of five criteria: transporter class (channel, carrier, primary active transporter, or group translocator), transporter sub-class (eg. primary active transporters -> energy source used to drive transport), transporter family or superfamily, transporter subfamily, and transporter substrate or range of substrates transported. For more information on the TC-DB classification system please visit Transporter Classification Database Browser.
There are two pages containing information about Transporter annotations. Here, on the Transporter Annotations Summary Page you can search for and create lists of transporter annotations within fungal genomes of interest. These proteins have been assigned TC-DB numbers based on significant blast hits (e-value 1e-05, alignment coverage > 50%) of genome proteins against the TC-DB.
Selected proteins can be viewed on the Proteins Browser Page. where additional information can be found.
To access the Transporter Annotations Summary Page from the homepage tree, choose a group of interest and select the Transporters link from the pop-up menu.
To access this page from the organism page, select the ANNOTATIONS tab and then click TRANSPORTERS. The Proteins Browser Page. is accessed by selecting the proteins of interest from this annotations page as described below.
You are viewing a summary of all of or a subset of the Transporter Annotations in a portal. The group of annotations you are viewing is indicated here:
At the top of the page are controls to filter the displayed Transporter annotations.
By default the filter is empty and you can see all Transporter annotations available for the organism or organism group. The subset of Transporters you are viewing is indicated above the menu bar.
This button shows the top level Transporter annotation hierarchy with all lower levels collapsed. This is the default view for Transporter annotations when you first view the page.
This button shows the Transporter annotation hierarchy with all levels expanded. You can collapse or expand any individual node in the Transporter hierarchy at any moment by clicking anywhere in the first column except for the bottom level Transporter annotation code itself. Selecting the Transporter annotation code will direct you to the specific Transporter Classification Database page describing this Transporter annotation.
The blank input field is for filtering Transporter annotations. You can enter keywords like "azole" or "ATP-binding" (without double quotes) to identify proteins matching the filter terms
Widen or narrow your search results using these drop-down menus in conjunction with your keyword(s) search. 
After entering the filter value into the field, hit the Enter key on the keyboard or click this "Filter" button to apply your new filter and show only the matching results.
This button removes any filter and shows all Transporter annotations for the organism or organism group specified in the top right hand corner of the page..
Checking this box allows you to hide the whole Transporter hierarchy and shows only the part of the hierarchy matching the current filter. By default, this box is selected.
Checking this box allows you to see the totals for only the Transporter annotations matching the filter term. If you uncheck this check box you will see a pair of totals separated by a "/" character. The left number represents the total number of annotations matching the filter criteria, and the right number shows how many annotations total there are without the filter. By default, this box is selected. This table shows the Transporter hierarchy and the total number of Transporter Annotations for every organism in the group that is specified in the upper right hand corner of the page.
Every row represents one Transporter annotation or group of annotations. The first column titled Annotations/Genomes contains the Transporter name (bottom level) or Transporter family name (upper levels). The second set of columns each represent one organism, and the organism's name links to that organism's description. Every cell below the organism contains the total number of proteins with a given Transporter annotation for that organism and links to the Protein Browser for additional information.
Totals and sub-totals for Transporter class, sub-class, families and sub-families are shown according to the Transporter hierarchy. The Transporters row and the Totals column contain totals across the row or column, respectively.
The Annotation Description column contains a description of the transporter or group of transporters identified in the Annotations/Genomes column.
You can click on any value in the table to view the stated number of proteins in the Protein Browser. Here you can access additional information regarding the Transporters of interest.
