Sandbox3: Difference between revisions
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'''This sandbox is in use until June 1, 2009 for UMass Chemistry 490a. Others please do not edit this page. Thanks!''' | '''This sandbox is in use until June 1, 2009 for UMass Chemistry 490a. Others please do not edit this page. Thanks!''' | ||
Start by finding a protein with a known structure that interests you. Determine whether anyone else in the class has already started a sandbox page for your protein (not sure yet how to do this easily...). If so, join their page. If not, start a new sandbox page. | L Thompson 3/1/09 | ||
Start by finding a protein with a known structure that interests you (see assignment sheet instructions). Determine whether anyone else in the class has already started a sandbox page for your protein (not sure yet how to do this easily...). If so, join their page. If not, start a new sandbox page. | |||
Copy the message at the top into your sandbox page to "reserve" this sandbox for this course (others can still edit it but there is a way to go back -- not sure how yet). | Copy the message at the top into your sandbox page to "reserve" this sandbox for this course (others can still edit it but there is a way to go back -- not sure how yet). | ||
Give "credit" for all your entries: add your name and also the source of anything that you got from another source. | Give "credit" for all your entries: add your name (like mine above) and also the source of anything that you got from another source. | ||
Look of the pdb id for your protein in the Protein Data Bank. Use this code to find the Proteopedia entry: this is the "automatically seeded entry". Copy this into your sandbox as a starting point. | Look of the pdb id for your protein in the Protein Data Bank. Use this code to find the Proteopedia entry: this is the "automatically seeded entry". Copy this into your sandbox as a starting point. | ||
I looked for the earliest GFP structure I could find in the protein data bankc and found 1ema. I searched Proteopedia for 1ema, clicked "edit page" button at the top, and then copied the contents below. | |||
{{Seed}} | |||
[[Image:1ema.png|left|200px]] | |||
<!-- | |||
The line below this paragraph, containing "STRUCTURE_1ema", creates the "Structure Box" on the page. | |||
You may change the PDB parameter (which sets the PDB file loaded into the applet) | |||
or the SCENE parameter (which sets the initial scene displayed when the page is loaded), | |||
or leave the SCENE parameter empty for the default display. | |||
--> | |||
{{STRUCTURE_1ema| PDB=1ema | SCENE= }} | |||
===GREEN FLUORESCENT PROTEIN FROM AEQUOREA VICTORIA=== | |||
<!-- | |||
The line below this paragraph, {{ABSTRACT_PUBMED_8703075}}, adds the Publication Abstract to the page | |||
(as it appears on PubMed at http://www.pubmed.gov), where 8703075 is the PubMed ID number. | |||
--> | |||
{{ABSTRACT_PUBMED_8703075}} | |||
==About this Structure== | |||
1EMA is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria]. The June 2003 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Green Fluorescent Protein (GFP)'' by David S. Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2003_6 10.2210/rcsb_pdb/mom_2003_6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EMA OCA]. | |||
==Reference== | |||
<ref group="xtra">PMID:8703075</ref><references group="xtra"/> | |||
[[Category: Aequorea victoria]] | |||
[[Category: Ormo, M.]] | |||
[[Category: Remington, S J.]] | |||
[[Category: Autocatalytic]] | |||
[[Category: Beta-barrel]] | |||
[[Category: Bioluminescense fluorescent protein]] | |||
[[Category: Fluorophore]] | |||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 16:53:56 2009'' | |||
