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Right-click in the display area invokes a contextual menu (image below). The menu allows to:
- visualise the structures of proteins (MolArt),
- add a comment on a map,
- download as map or image currently displayed map’s area,
Open MolArt
MolArt (MOLeculAR structure annoTator) is a JavaScript tool and library. It visualizes sequence-related annotations over available experimental or predicted structures (MolArt documentation is available here). MolArt is active only for the protein annotated with UniProt ID (image below left). The right image below displays context menu for the element without UniProt annotation.
To open MolArt window you need to click on the UniProt ID of the protein in the context menu. There will be open a new window, which displays in the left panel the molecule’s sequence, relevant annotations (including variation data) and the list of available structures (either experimental or predicted) for a given molecule. The right panel of MolArt window shows selected 3D structure over which any of the sequence annotations can be color-overlaid. See image below:
Add comment
This functionality allows to comment on contents in the display area. Clicking on Add comment invokes a form that can be filled out by the user and send to the administrators of the project (see below left). Type field is a drop-down menu, listing the elements nearby to the click location. This allows to choose and attach the comment to a particular element or interaction (see below middle). If particular type is selected, its name is displayed (see below right). The field Pinned controls whether the comment will be visible in the map.
After sending the comment by clicking on Send button, check the box Comments located in Information bar to display comments bubbles on the map (image below).
If the comment is placed in a submap, the main map shows its bubble also. It is placed on the anchor to the submap.
Click on the comment bubble displays details of annotated element and the text of the comment (see below). The mail is not disclosed, only project and platform administrators have access to it (see Administrator’s manual - Comments).
Export current view as image
This option creates an image of the map currently displayed on your screen. Export to vector and raster graphics is supported, allowing to modify and enhance the downloaded image.
Export current view as map
This option allows to produces a file acceptable by either CellDesigner, GPML, pure SBGN or SBML editors. The exported file contains the editable fragment of your display area, together with its contents and layout. Importantly, in the case of CellDesigner or SBML export, all additional annotations provided by MINERVA platform are downloaded as well.