|
|
| Line 95: |
Line 95: |
| For the same reasons, results from the ConSurf Server will also change slightly with time, even when the job parameters are the same. Only if you upload the same MSA will the results be identical for a given chain when the jobs are run months or years apart. | | For the same reasons, results from the ConSurf Server will also change slightly with time, even when the job parameters are the same. Only if you upload the same MSA will the results be identical for a given chain when the jobs are run months or years apart. |
|
| |
|
|
| |
| ==How to Insert a ConSurf Result Into a Proteopedia Green Link==
| |
|
| |
| To create a green-linked scene with a molecule colored by evolutionary conservation use the button "evolutionary conservation" in the "color" tab of the Scene Authoring Tools.
| |
|
| |
| If for some reason you want to calculate the ConSurf coloring scheme on your own and want to insert that into a Proteopedia scene, here is how:
| |
|
| |
| # Using either the [http://consurfdb.tau.ac.il ConSurf Database] or the [http://consurf.tau.ac.il ConSurf Server], obtain the desired result.
| |
| # At the ConSurf result page, use the link ''RasMol Coloring Script'' to display either the script showing or hiding insufficient data. '''Block and copy''' the entire script.
| |
| # We assume that you already have an article in Proteopedia, with a Jmol applet in place for displaying your ConSurf result. (If not, see the [[Proteopedia:Video_Guide|Video Guides]] and [[Help:Editing]].)
| |
| # Edit your Proteopedia page, and open the Scene Authoring Tools.
| |
| # Load the desired molecule into Jmol in the Scene Authoring Tools.
| |
| # Click on "Jmol" (at the lower right of Jmol) to open Jmol's menu, and there, click on '"Console'".
| |
| # In the small white Console window, '''paste''' your RasMol Coloring Script into the bottom box, and click Execute. On Mac OS X, you may be unable to paste into the Console. In that case, drag the blocked script and drop it into the bottom box of the Console, the click Execute.
| |
| # Make any other changes you wish to this scene, and then '''save the scene'''.
| |
| # Copy the wikitext for the green link that will display your scene, and close the Scene Authoring Tool.
| |
| # Paste the green link wikitext into your page, and save the page.
| |
|
| |
| The color key that you see at the very top of this page can be inserted in any page using this wikitext:
| |
|
| |
| <nowiki>{{Template:ColorKey_ConSurf}}</nowiki>
| |
|
| |
| See also [[Help:Color_Keys]] for '''other variations on the color key'''. If something is not clear, please let us know at {{Template:Contact}}.
| |
|
| |
| See also [[Help:Copying FirstGlance Scenes into Proteopedia]].
| |
|
| |
|
| ==Other Evolutionary Conservation Servers== | | ==Other Evolutionary Conservation Servers== |