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| The section headed "Proteopedia Page Contributors and Editors" (on the bottom of the entry) lists all authors of the entry. If you are interested to learn who wrote what and when the entry was last updated, go to the history tab. Occasionally, the discussion tab contains information about how the entry was created or suggestions for improvement. | | The section headed "Proteopedia Page Contributors and Editors" (on the bottom of the entry) lists all authors of the entry. If you are interested to learn who wrote what and when the entry was last updated, go to the history tab. Occasionally, the discussion tab contains information about how the entry was created or suggestions for improvement. |
Revision as of 02:25, 16 February 2021
Proteopedia is the 3D encyclopedia of proteins and other biological molecules. This is the directory of help pages for visitors and for registered users.
Navigating ProteopediaNavigating Proteopedia
Proteopedia is organized like an encyclopedia, with entries (also called pages or articles) on different topics. If you already know the topic you are interested in, you can search for relevant entries using the search box on the left side of the page. For help, go to Help:Searching. You can also browse the entries, starting with the suggestions on the Main Page or the table of contents or the structure index available in the navigation box on the left. Entries have links to other entries (if you right-click them, the current entry will stay available and the linked entry will open in a new tab). This is a way to browse entries on related topics.
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Reading and viewing entriesReading and viewing entries
The special feature of Proteopedia entries are the interactive 3D representations of molecules viewable on most pages. They appear in a window integrated into the page (often called "Jmol window"). As you read through the text of an entry, you will find "green links". When you click on them, you stay on the same page but the interactive 3D scene. To learn how to get the most out of the interactive 3D scenes, reference the Viewing guide and the cheat sheet that comes with it. If you encounter technical terms you are unfamiliar with, try searching for them to learn more about them (the About Macromolecular Structure entry is a good start.
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Who wrote the entry when?Who wrote the entry when?
The section headed "Proteopedia Page Contributors and Editors" (on the bottom of the entry) lists all authors of the entry. If you are interested to learn who wrote what and when the entry was last updated, go to the history tab. Occasionally, the discussion tab contains information about how the entry was created or suggestions for improvement.
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Becoming a registered user on ProteopediaBecoming a registered user on Proteopedia
To edit pages or create new ones, you need an account. At the top right of each page, there is a link to login in or request an account. With an account, you can edit pages and create new ones. You will also have a user page to introduce yourself, and access to sandboxes where you can try out creating content.
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For authors: contributing contentFor authors: contributing content
Proteopedia entries contain text and 3D scenes (interactive images). Help for editing text is in this section, and help for creating 3D scenes is in the section on the right. To get started, read Help:Getting Started in Proteopedia, or watch the videos linked there. You can start editing in a sandbox (see Help:Sandboxes). If you are copying or paraphrasing content from other authors, consult Proteopedia:Guidelines for Ethical Writing for ethical aspects, and Help:Editing#Citing_Literature_References for formatting references. The text on Proteopedia has an open license that encourages remixing with attribution, see Remixing. For some suggestions how to improve the quality of a page, see Proteopedia:How to Make a Page.
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For authors: creating 3D scenesFor authors: creating 3D scenes
Proteopedia entries contain text and 3D scenes (interactive images). Help for creating 3D scenes is in this section, and help for editing text is in the section on the left.To show a 3D scene, you need structural data (typically from the protein database PDB) and need to decide how to show it. This is described in Proteopedia:DIY:Scenes. The 3D scenes are created and previewed using the Scene authoring tools. If you want to show a structure not in the PDB, you have to upload the structure first (Help:Uploading molecules). Tips how to make 3D scenes that have a lot of information yet are easy to understand is available at Proteopedia:How to Make a Scene/
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For authors: multimediaFor authors: multimedia
You can insert static images (and other media) and embed videos. Proteopedia hosts images as long as they come with the appropriate licence (see Proteopedia:Terms of Service). For uploading images, see Video Guide 5. For help on formatting the image within the page, see Wiki markup: Images or for even more detail, Wikipedia:Extended image syntax. Embedding videos is described in the Proteopedia:Cookbook in the section called Embedded Youtube.
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For authors: advanced topicsFor authors: advanced topics
Some advanced topics are discussed in Proteopedia:Cookbook, e.g. integrated quizzes (for details, see Help:Quiz), how to construct a URL showing a specific scene, and inserting interactive buttons (for details, see Jmol/Interactivity). For more help on using Jmol to achieve advanced representations in 3D scenes, see the pages listed under Special:Allpages/Jmol. To use other entries as examples for your own pages, go to those pages and choose the tab "edit this page" to see the source code. Sometimes, templates [1] and macros can help to achieve effects with less typing. If you encounter error messages, consult Help:Errors, feel free to contact us directly, or subscribe to, and post questions on the Proteopedia:Email list.
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For teachers
For teachers