User:Shai Biran/Practice Proteopedia tutorial shai3
From Proteopedia
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== Adding Section Headings == | == Adding Section Headings == | ||
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#Delete the headings: Function, Disease, Relevance, Structural highlights | #Delete the headings: Function, Disease, Relevance, Structural highlights | ||
#Save the page using the “Save page” button. | #Save the page using the “Save page” button. | ||
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| + | '''Your page should look like this:''' ↓↓↓↓↓↓↓↓↓↓↓↓ | ||
==Your Heading Here (maybe something like 'Structure')== | ==Your Heading Here (maybe something like 'Structure')== | ||
<StructureSection load='1stp' size='340' side='right' caption='Caption for this structure' scene=''> | <StructureSection load='1stp' size='340' side='right' caption='Caption for this structure' scene=''> | ||
| - | This is a default text for your page ''' | + | This is a default text for your page '''Sandbox'''. Click above on '''edit this page''' to modify. Be careful with the < and > signs. |
You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue. | You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue. | ||
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| + | Green fluorescent protein ('''GFP'''), originally isolated from the jellyfish Aequorea victoria (PDB entry [[1ema]]), fluorsceses green (509nm) when exposed to blue light (395nm and 475nm). It is one of the most important proteins used in biological research because it can be used to tag otherwise invisible gene products of interest and thus observe their existence, location and movement. | ||
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| + | == Exploring the Structure == | ||
| + | GFP is a beta barrel protein with 11 beta sheets. It is a 26.9kDa protein made up of 238 amino acids. The | ||
| + | <scene name='Sandbox_4/Green_fp/1'>chromophore</scene>, responsible for the fluorescent properties of the protein, is buried inside the beta barrel as part of the central alpha helix passing through the barrel. The chromophore forms via spontaneous cyclization and oxidation of three residues in the central alpha helix: -Thr65 (or Ser65)-Tyr66-Gly67. This cyclization and oxidation creates the chromophore's five-membered ring via a new bond between the threonine and the glycine residues.<ref>PMID:8703075</ref> | ||
== Function == | == Function == | ||
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</StructureSection> | </StructureSection> | ||
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| + | == Next == | ||
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| + | In the next page we will learn to add '''''Section Headings''''' | ||
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| + | Previous page: [[User:Shai Biran/Practice Proteopedia tutorial shai2|3]] | ||
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| + | Next page: [[User:Shai Biran/Practice Proteopedia tutorial shai4|5]] | ||
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== References == | == References == | ||
<references/> | <references/> | ||
Revision as of 14:24, 8 January 2015
Contents |
Adding Section Headings
- In your assigned Sandbox page, now displaying your new text, click “edit this page”.
- We want to make “Introduction” and “Exploring the Structure” as a section headings.
- Type the text “Introduction” just before the words: “Green fluorescent protein (GFP),”and select the button from the toolbar above the text-editing area with a big “A”.
- The result should be two equals signs on either side of the words “Introduction”. It should look like this: ==Introduction==.
- In a similar way type, add a heading: “Exploring the Structure”, just before “GFP is a beta barrel protein with 11 beta sheets…”
- Delete the headings: Function, Disease, Relevance, Structural highlights
- Save the page using the “Save page” button.
Your page should look like this: ↓↓↓↓↓↓↓↓↓↓↓↓
Your Heading Here (maybe something like 'Structure')
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Next
In the next page we will learn to add Section Headings
Previous page: 3
Next page: 5
References
- ↑ Hanson, R. M., Prilusky, J., Renjian, Z., Nakane, T. and Sussman, J. L. (2013), JSmol and the Next-Generation Web-Based Representation of 3D Molecular Structure as Applied to Proteopedia. Isr. J. Chem., 53:207-216. doi:http://dx.doi.org/10.1002/ijch.201300024
- ↑ Herraez A. Biomolecules in the computer: Jmol to the rescue. Biochem Mol Biol Educ. 2006 Jul;34(4):255-61. doi: 10.1002/bmb.2006.494034042644. PMID:21638687 doi:10.1002/bmb.2006.494034042644
- ↑ Ormo M, Cubitt AB, Kallio K, Gross LA, Tsien RY, Remington SJ. Crystal structure of the Aequorea victoria green fluorescent protein. Science. 1996 Sep 6;273(5280):1392-5. PMID:8703075
