Proteopedia:About: Difference between revisions
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==[[Proteopedia:Overview|Overview of Proteopedia]]== | |||
The [[Proteopedia:Overview|Overview]] '''briefly''' introduces Purpose, History, Unique Capabilities, Types of Contents, and Usage Statistics. More details follow below. | |||
==Proteopedia Mission Statement== | ==Proteopedia Mission Statement== | ||
To collect, organize and disseminate structural & functional knowledge about biomacromolecules, their assemblies and interactions with small molecules, in a user-friendly way to a broad scientific audience as a '''free, collaborative 3D-encyclopedia of proteins & other biomolecules.''' | To collect, organize and disseminate structural & functional knowledge about biomacromolecules, their assemblies and interactions with small molecules, in a user-friendly way to a broad scientific audience as a '''free, collaborative 3D-encyclopedia of proteins & other biomolecules.''' | ||
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* To maintain low barriers for contribution. | * To maintain low barriers for contribution. | ||
* To foster collaborative authorship. | * To foster collaborative authorship. | ||
* To complement published articles in journals via [[I3DC|Interactive 3D Complements - '''I3DCs''']]. | |||
* To develop new '''[[Teaching strategies using Proteopedia]]'''. | |||
==The Proteopedia Team== | ==The Proteopedia Team== | ||
For a gallery of the Proteopedia Team, [[Proteopedia:Team|click here]] Additional photos of Proteopedia enthusiasts are in the [[Proteopedia:Scrapbook|Scrapbook]]. | For a gallery of the Proteopedia Team, [[Proteopedia:Team|click here]] Additional photos of Proteopedia enthusiasts are in the [[Proteopedia:Scrapbook|Scrapbook]]. | ||
==Contents of Proteopedia== | ==Contents of Proteopedia== | ||
Currently, Proteopedia has {{NUMBEROFARTICLES}} [[Special:Allpages | articles]] (pages), and {{NUMBEROFUSERS}} [[Special:Listusers | registered users]]. | |||
==Most active contributors== | |||
<table border='1'> | |||
<tr><td style="margin:3px; background:#D7D7FE; font-size:1.25em; font-weight:bold; border:1px solid #a3b0bf; text-align:left; color:#000; padding:0.2em 0.4em;">The Scoreboard</td></tr> | |||
<tr><td><div id="Contribute">{{Special:ContributionScores}}Score based on pages-edited and number-of-edits.<br>List excludes members of the Proteopedia Team.<br>[[Special:ContributionScores|All scores...]]</div></td></tr> | |||
</table> | |||
===Seeded pages=== | ===Seeded pages=== | ||
Proteopedia contains one page for every entry in the [http://www.wwpdb.org World Wide Protein Data Bank], which contained > | Proteopedia contains one page for every entry in the [http://www.wwpdb.org World Wide Protein Data Bank], which contained >148,000 entries in January, 2019. Proteopedia is updated weekly with new entries shortly after they are released by the Protein Data Bank. Most of these pages, which are titled with a four-character [[PDB code|PDB identification code]], are "seeded" automatically to include a default view of the [[Biological Unit|quaternary assembly]] ("biological unit", or if not provided by [[PDBe]], the [[asymmetric unit]]), the abstract of the publication, green links to highlight sites and ligands, and molecule-specific links to other viewers and databases. If you click "Random" in the "navigation" box at the upper left, usually you will get an article titled with a PDB code, since they outnumber human-authored articles. | ||
===Authored pages=== | ===Authored pages=== | ||
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==Implementation== | ==Implementation== | ||
Proteopedia was built with [http://mediawiki.org Mediawiki], which was adapted by the Proteopedia team for macromolecular scene authoring and other special features. Proteopedia uses the [http://wiki.jmol.org/index.php/MediaWiki Jmol/JSmol Extension to MediaWiki] created by Nicolas Vervelle and adapted by the [[Proteopedia:Team|Proteopedia team]]. The [http://wiki.jmol.org/ JSmol object] is used to render the rotatable, zoomable macromolecular scenes. <!--The [http://kinemage.biochem.duke.edu/software/javamage.php MageJava] applet, by Jane and Dave Richardson is used to display kinemages.--> | Proteopedia was built with [http://mediawiki.org Mediawiki], which was adapted by the Proteopedia team for macromolecular scene authoring and other special features. Proteopedia uses the [http://wiki.jmol.org/index.php/MediaWiki Jmol/JSmol Extension to MediaWiki] created by Nicolas Vervelle and adapted by the [[Proteopedia:Team|Proteopedia team]]. The [http://wiki.jmol.org/ JSmol object] is used to render the rotatable, zoomable macromolecular scenes. <!--The [http://kinemage.biochem.duke.edu/software/javamage.php MageJava] applet, by Jane and Dave Richardson is used to display kinemages.--> | ||
==Policy== | |||
Please see [[Proteopedia:Policy]] | |||
==Credits== | ==Credits== | ||
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* [http://www.weizmann.ac.il Weizmann Institute of Science] | * [http://www.weizmann.ac.il Weizmann Institute of Science] | ||
* [http://www.elixir-europe.org ELIXIR] | * [http://www.elixir-europe.org ELIXIR] | ||
==How to cite Proteopedia== | |||
<ref group='xtra'>doi 10.1016/j.jsb.2011.04.011</ref> | |||
<ref group='xtra'>PMID 18673581 </ref><references group='xtra'/> | |||
<!-- Eran Hodis, Jaime Prilusky, Eric Martz, Israel Silman, John Moult and Joel L. Sussman: ''Proteopedia - a scientific 'wiki' bridging the rift between 3D structure and function of biomacromolecules'', Genome Biology 2008, 9:R121 [http://genomebiology.com/2008/9/8/R121 doi:10.1186/gb-2008-9-8-r121] --> | |||
==Additional key references about Proteopedia== | |||
<ref group='xtra'>Prilusky, J. & Sussman, J.L. BLOG in ''eLife'' [http://elifesciences.org/labs/a9c66d96/sharing-macromolecule-concepts-online-with-proteopedia ''Sharing macromolecule concepts online with Proteopedia'' (2016)].</ref><ref group='xtra'>doi: 10.1002/ijch.201300024</ref><ref group='xtra'>doi: 10.1007/978-94-007-2530-0_14</ref><ref group='xtra'>doi: 10.1016/j.jsb.2011.04.011</ref><ref group='xtra'>doi: 10.1002/bmb.20431</ref><ref group='xtra'>PMID 21567857 </ref><ref group='xtra'> Hodis, E., Prilusky, J., & Sussman, J.L. in From Molecules to Medicines (2009). [http://link.springer.com/chapter/10.1007/978-90-481-2339-1_11 Tools to Make 3D Structural Data More Comprehensible: Emovie & Proteopedia] pg. 169-182.</ref><ref group='xtra'>PMID 18673581 </ref><references group='xtra'/> | |||
==Contact== | ==Contact== | ||
If you have any questions, please contact {{Template:Contact}}. | If you have any questions, please contact {{Template:Contact}}. | ||
You are also welcome to contact any of the people listed on this page. Go to their personal page, and click "E-mail this user" in the "toolbox" at the left side of the page. | You are also welcome to contact any of the people listed on this page. Go to their personal page, and click "E-mail this user" in the "toolbox" at the left side of the page. | ||
