Compounds and stocksNew users have by default a set of stocks at their disposal . These stocks are used to design new plates. You may want to remove those stocks that you will never use and adapt concentrations to those of the 'real' stocks you have available in your lab. To each stocks a number of component classes like 'precipitate', 'salt', or 'buffer' are assigned. These classes determine how the stock can be used in plates. You may at any time copy stocks from the set of standard stocks or create new stocks by clicking on 'make stock' in the compounds section . Stocks are always based on compounds and must have a valid reference to a compound. Compounds are unique and usually shared among all users. Users may create their own compounds. User-owned compounds are not shared from the beginning, but can at some point be included in the public set of shared compounds.
PlatesTo construct your first own plate you can either copy one of the standard plates (accessible via the 'view standard plates section') or create a new plate from scratch. To copy a plate just click on the copy icon in the 'view plates' section. to create a new plate click on the 'create plate' icon on the right hand side of the 'view plates' section. You will be presented the plate summary menu, where you can edit parameters that affect the whole plate. This would for instance include the plate dimensions, the number of drops per well, the reservoir volume or the type of components you would like to use in each of the drops.
In the next step you design the plate. This can be done either in the pipetting scheme view, where you define stock volumes to add to the reservoir or the drop, or in the setup view, where you define concentrations of all components in reservoir or drop. You must define a protein component in each drop. This can only be done in the pipetting scheme view and only if you have a protein stock solution available. Note that only stocks which are explicitely assigned to a certain type of drop or reservoir component (like precipitant, buffer, salt, ...) will appear in the drop down selection menus.
ProjectsProjects are used to organize your plates. Projects usually comprise all experiments with proteins that behave identically in crystallization. This table hosts all kinds of information about the protein (sequences, molecular weight, expression system, organism etc. )
BatchesThe batches table is used to describe a particular preparation of a protein batch. |