User:Eric Martz/Sandbox 5

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<StructureSection load='' size='350' side='right' caption='' scene=''>
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<table width='100%' border='0'>
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==Caption Rules==
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<tr><td>
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These rules are concluded from the tests below.
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<big>Welcome to Proteopedia,</big>
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</td><td width='40%'>
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{{Template:News Item}}
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</td></tr>
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</table>
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<!--
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==Your Heading Here (maybe something like 'Structure')==
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The line below this paragraph, containing "STRUCTURE_1eve", creates the "Structure Box" on the page.
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<StructureSection load='3rec' size='350' side='right' caption='Escherichia coli reca protein-bound DNA (PDB entry [[3rec]])' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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or leave the SCENE parameter empty for the default display.
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-->
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{{STRUCTURE_1eve | PDB= 1eve | SCENE=Main_Page/E2020_in_ache_spinning/1 }}
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The collaborative, 3D encyclopedia of proteins and other molecules.
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===<span style="color:green">Green</span> links change the 3D image!===
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<big>''Here's an excerpt from one of our pages ([[1eve]]):''</big>
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The anti-Alzheimer's drug E2020 (marketed as Aricept&reg;) is an inhibitor that binds acetylcholinesterase (AChE) with high affinity. The X-ray structure of the E2020-AChE (AChE from ''Torpedo california'') complex shows that E2020 has a '''<scene name='1eve/E2020_close_up_with_84_279/12'>unique orientation</scene>''' along the active-site gorge, extending from the anionic subsite ('''<scene name='1eve/E2020_close_up_with_84lbld/6'>W84</scene>''') of the active site, at the bottom, to the peripheral anionic site ('''<scene name='1eve/E2020_close_up_with_84_279lbld/4'>near W279</scene>'''), at the top, via aromatic stacking interactions with conserved aromatic acid residues. E2020 does not, however, interact directly with either the catalytic triad or the 'oxyanion hole' but only '''<scene name='1eve/E20_interactionshown/7'>indirectly via solvent molecules</scene>'''.
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Anything in this section will appear adjacent to the 3D structure and will be scrollable.
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----
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===See more!===
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</StructureSection>
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<big>The [[Proteopedia:Video_Guide | Proteopedia Video Guide]] is a narrated video guide that serves both as a starting point as well as a reference. </big>
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[[Image:Ipodtouch_hero_20080205.png|left|100px]]
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===Coloring Caption Text===
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===Page of the Year Competition===
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We're giving away a top-of-the-line [http://www.apple.com/ipodtouch/ 32Gb iPod touch] (generously donated by [http://www.idigital.co.il iDigital], [http://www.apple.com Apple's] representatives in Israel) to the winner of Proteopedia's Page of the Year Competition! To learn more and to enter, visit [[Proteopedia:Page of the Year Competition]].
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{{Clear}}
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====Favorites====
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Caption text can be <font color="red">colored</font> using HTML:
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Here are several of our favorite pages. Visit them to get a feeling for Proteopedia:
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*<nowiki><font color="red">Oxygen</font>.</nowiki> displays <font color="red">Oxygen</font>.
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<table border="0"><tr><td>
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* [[Hemoglobin]]
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* [[HIV-1 protease]]
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* [[1eve | Acetylcholinesterase with the anti-Alzheimer's drug Aricept bound]]
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* [[Photosystem II]]
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* [[DNA]]
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&nbsp; &nbsp;
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* [[1v04 | Serum Paraoxonase-1 created by directed evolution]].
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* [[Recoverin, a calcium-activated myristoyl switch]] with [[Morphs|morphs]] of a dramatic conformational change.
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* [[1ogs | Human acid-beta-glucosidase]]
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* See also: [[Personal_favorites | Personal favorites pages]]
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</td></tr></table>
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====Browse!====
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Colored text is easier to see in boldface. You can use either HTML or wikitext bold markup:
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*HTML: <nowiki><font color="red"><b>Oxygen</b></font>.</nowiki> displays <font color="red"><b>Oxygen</b></font>.
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* [[Proteopedia:Interesting_Pages | Topic pages]]
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*Three single quotes: <nowiki><font color="red">'''Oxygen'''</font>.</nowiki> displays: <font color="red">'''Oxygen'''</font>.
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* [[Personal_favorites | Personal favorites]]
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* [[Highest_impact_structures | Highest impact structures of all time]]
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* [[About Macromolecular Structure]]
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&nbsp; &nbsp;
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</td><td>
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* [[Special:Popularpages | Most-popular pages]]
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* [[Special:Mostrevisions | Most-revised pages]]
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* [[Special:Longpages | Longest pages]]
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* [[Special:Recentchanges | Most-recent changes]]
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</td><td>
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&nbsp; &nbsp;
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</td><td>
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* [[Special:Newpages | Newest pages]]
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* [[Special:Random | Random page]]
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* [[Special:Listusers | User list]]
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* [[Believe_It_or_Not%21 | Believe It or Not!]]
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</td><td>
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&nbsp; &nbsp;
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</td><td>
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* [[Proteopedia:News|News]]
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* [[Special:Statistics | Statistics]]
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</td></tr></table>
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----
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===How can I find my protein/molecule?===
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Light colors may be unreadable on a white background, so use a black background. But there seems to be '''no way to specify a background color in a caption'''. So you will need to put the color key in the text of the page. For standard color keys, templates are provided: see [[Help:Color Keys]]. Proteopedia page text does not support HTML bgcolor, but it supports CSS font color:
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<big>'''Search'''</big> Proteopedia using the search box in the toolbar to the left. See also [[Help:Searching]].
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*Yellow on white: <nowiki><font color="yellow"><b>Sulfur</b></font>.</nowiki> displays <font color="yellow"><b>yellow</b></font>.
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Proteopedia already contains '''>50,000 pages''', including an automatically-generated page for every published macromolecular 3D structure (to see some of these, click ''Random Page'' in the navigation box at the upper left), plus [[Proteopedia:Topic Pages | Topic Pages]] providing an overview of a class of molecules or other structural topics.
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<!--*Yellow on black: <nowiki><font color="yellow" bgcolor="black"><b>yellow</b></font>.</nowiki> displays <font color="yellow" bgcolor="black">Sulfur</font>.-->
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*Yellow on black: <nowiki><font style="background-color:black;color:yellow;padding: 3px 4px 2px 4px;">Sulfur</font>.</nowiki> displays <font style="background-color:black;color:yellow;padding: 3px 4px 2px 4px;">Sulfur</font>.
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===Want to contribute?===
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===Links to Proteopedia Pages===
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Links to Proteopedia pages, such as [[6zgi]] (in wikitext, <nowiki>[[6zgi]]</nowiki>, are NOT supported in captions. Put those links in the page text.
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<font color='green'>Green links</font> are easy to make! We encourage you to '''edit pages freely''' and to '''[[Help:Editing#How_To_Create_A_New_Page | add new pages]].
 
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You will need a user account in order to edit or add pages. Please go ahead and '''[[Special:RequestAccount|request a user account]]'''.
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==Caption Tests==
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If you have any questions, you can email {{Template:Contact}}.
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Scene 1. <scene name='32/324686/1/1'>Wikitext color* and boldface</scene>
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*SCENE OK. CAPTION BAD FORMAT.
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*<nowiki><b>{{font color|#ef7000|426 pockets and cavities}}</b> in 6zgi generated with the command <tt><b>isosurface cavity</b></tt>.</nowiki>
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*Proteopedia does not support this wikitext color method.
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These resources may help you familiarize yourself with the editing process. Trust us, the editing process is very simple: All text is edited the same way that Wikipedia is edited, so it must be easy! And all scenes (green links) are created using our user-friendly ''Scene authoring tools''. Of course it helps to familiarize yourself with the site and how to go about editing, so check out these resources:
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Scene 2. <scene name='32/324686/1/2'>HTML color, escaped double quotes, and 6zgi linked</scene>
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*<big>The [[Proteopedia:Video_Guide | Proteopedia Video Guide]] is a narrated video guide that serves both as a starting point as well as a reference. </big>
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*NO SCENE, NO CAPTION.
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*The [[Help:Editing | '''Editing Help Page''']].
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*<nowiki><b><font color=\"#ef7000\">426 pockets and cavities</font></b> in [[6zgi]] generated with the command <tt><b>isosurface cavity</b></tt>.</nowiki>
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*The help page for the [[Scene authoring tools]].
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* [[Proteopedia:Policies]]
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===What Can Proteopedia Do For Me?===
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Scene 4. <scene name='32/324686/1/4'>HTML color, double quotes NOT escaped, and 6zgi linked</scene>
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* Scientists and Students: a reference resource for understanding protein 3D structure-function relationships. Example: [[1eve | Acetylcholinesterase bound to Aricept, an anti-Alzheimer's drug]].
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*SCENE OK. CAPTION COLORED BUT NO 6zgi LINK.
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* Educators: develop tutorials or molecular scenes to project during lectures, or for student use. Examples: [[Teaching Scenes, Tutorials, and Educators' Pages]]. Assign students to construct pages in Proteopedia for class projects or reports: see [[Student Projects]]. See also [[Teaching Strategies Using Proteopedia]].
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*<nowiki><b><font color="#ef7000">426 pockets and cavities</font></b> in [[6zgi]] generated with the command <tt><b>isosurface cavity</b></tt>.</nowiki>
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You may protect your teaching pages from unwanted editing by others -- see [[Help:Protected Pages]].
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* Structural Researchers: create supplementary materials for your journal publications, and pages about your research team or institute, highlighting structures you have researched. For examples, see [[Research Groups]].
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You may protect such pages from unwanted editing by others -- see [[Help:Protected Pages]].
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===Proteopedia Mission Statement===
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Scene 5. <scene name='32/324686/1/5'>CSS span style colors, double quotes</scene>.
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To collect, organize and disseminate structural and functional knowledge about protein, RNA, DNA, and other macromolecules, and their assemblies and interactions with small molecules, in a manner that is relevant and broadly accessible to students and scientists.
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*NO SCENE. NO CAPTION.
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*<nowiki>Here is <span style="color:yellow;background-color:black;">yellow text on a black background</span> as a test.</nowiki>
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===Goals for Proteopedia===
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* To serve as a forum for the scientific community to share, retrieve and discuss information related to proteins, macromolecules, and small molecules and chemicals of interest.
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* NO SCENE. NO CAPTION.
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* To continue to develop the concept of tying text to three-dimensional, interactive images.
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*<nowiki>Here is <font style="color:yellow;background-color:black;">yellow text on a black background</font> as a test.</nowiki>
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* To maintain low barriers for contribution.
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* To foster collaborations between students and experts, signed with their real names.
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===About Proteopedia: How to Cite Proteopedia / News/ Contact ===
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Scene 7. <scene name='32/324686/1/7'>CSS font style colors, single quotes</scene>.
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On the page '''[[Proteopedia:About | About Proteopedia]]''' you will find information about how to cite Proteopedia, and its contents, implementation, policies and credits. At '''[[Proteopedia: News]]''' you will find current events concerning Proteopedia, such as press reports, blogs, meeting reports and seminars, training workshops, and a list of databases and structural bioinformatics resources that offer links to Proteopedia.
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* NO SCENE. NO CAPTION.
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*<nowiki>Here is <font style='color:yellow;background-color:black;'>yellow text on a black background</font> as a test.</nowiki>
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If you have any questions, please contact {{Template:Contact}}.
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Scene 8. <scene name='32/324686/1/8'>CSS font style colors, '''escaped''' single quotes</scene>.
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* NO SCENE. NO CAPTION.
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*<nowiki>Here is <font style=\'color:yellow;background-color:black;\'>yellow text on a black background</font> as a test.</nowiki>
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===Mugs and T-Shirts===
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<gallery widths="150px" align="left">
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Proudly show your love for Proteopedia and help spread Proteopedia's wonders with highly coveted mugs and T-shirts from [http://www.cafepress.com/molviz4 cafepress.com], featuring the original Proteopedia logo by Tali Wiesel. Cafepress is a website that prints custom images on mugs and T-shirts, and is unaffiliated with Proteopedia. Proteopedia collects no money from your purchase.
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Current revision

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Coloring Caption Text

Caption text can be colored using HTML:

  • <font color="red">Oxygen</font>. displays Oxygen.

Colored text is easier to see in boldface. You can use either HTML or wikitext bold markup:

  • HTML: <font color="red"><b>Oxygen</b></font>. displays Oxygen.
  • Three single quotes: <font color="red">'''Oxygen'''</font>. displays: Oxygen.

Light colors may be unreadable on a white background, so use a black background. But there seems to be no way to specify a background color in a caption. So you will need to put the color key in the text of the page. For standard color keys, templates are provided: see Help:Color Keys. Proteopedia page text does not support HTML bgcolor, but it supports CSS font color:

  • Yellow on white: <font color="yellow"><b>Sulfur</b></font>. displays yellow.
  • Yellow on black: <font style="background-color:black;color:yellow;padding: 3px 4px 2px 4px;">Sulfur</font>. displays Sulfur.

Links to Proteopedia Pages

Links to Proteopedia pages, such as 6zgi (in wikitext, [[6zgi]], are NOT supported in captions. Put those links in the page text.


Caption Tests

Scene 1.

  • SCENE OK. CAPTION BAD FORMAT.
  • <b>{{font color|#ef7000|426 pockets and cavities}}</b> in 6zgi generated with the command <tt><b>isosurface cavity</b></tt>.
  • Proteopedia does not support this wikitext color method.

Scene 2.

  • NO SCENE, NO CAPTION.
  • <b><font color=\"#ef7000\">426 pockets and cavities</font></b> in [[6zgi]] generated with the command <tt><b>isosurface cavity</b></tt>.

Scene 4.

  • SCENE OK. CAPTION COLORED BUT NO 6zgi LINK.
  • <b><font color="#ef7000">426 pockets and cavities</font></b> in [[6zgi]] generated with the command <tt><b>isosurface cavity</b></tt>.

Scene 5. .

  • NO SCENE. NO CAPTION.
  • Here is <span style="color:yellow;background-color:black;">yellow text on a black background</span> as a test.

Scene 6. .

  • NO SCENE. NO CAPTION.
  • Here is <font style="color:yellow;background-color:black;">yellow text on a black background</font> as a test.

Scene 7. .

  • NO SCENE. NO CAPTION.
  • Here is <font style='color:yellow;background-color:black;'>yellow text on a black background</font> as a test.

Scene 8. .

  • NO SCENE. NO CAPTION.
  • Here is <font style=\'color:yellow;background-color:black;\'>yellow text on a black background</font> as a test.


</StructureSection>

Proteopedia Page Contributors and Editors (what is this?)

Eric Martz

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