SIR2 Week 3 - Revision history

Asandle1: /* Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures. */ cleaning up acknowledgements

2024-02-01T07:19:23Z

‎Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures.: cleaning up acknowledgements

Asandle1: /* Why did you choose your particular gene? i.e., why is it interesting to you and your partner? Include an image related to your gene (be careful that you do not violate any copyright restrictions!) */ fixed alt text

2024-02-01T07:18:52Z

‎Why did you choose your particular gene? i.e., why is it interesting to you and your partner? Include an image related to your gene (be careful that you do not violate any copyright restrictions!): fixed alt text

Asandle1: /* Why did you choose your particular gene? i.e., why is it interesting to you and your partner? Include an image related to your gene (be careful that you do not violate any copyright restrictions!) */ text of alt text

2024-02-01T07:17:40Z

Asandle1: /* Why did you choose your particular gene? i.e., why is it interesting to you and your partner? Include an image related to your gene (be careful that you do not violate any copyright restrictions!) */ boghog text added

2024-02-01T07:16:48Z

Asandle1: /* Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures. */ added Boghod acknowledgement

2024-02-01T07:15:26Z

‎Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures.: added Boghod acknowledgement

Asandle1: /* Why did you choose your particular gene? i.e., why is it interesting to you and your partner? Include an image related to your gene (be careful that you do not violate any copyright restrictions!) */ added image

2024-02-01T07:12:26Z

Asandle1: /* Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures. */ added wikipedia (for image)

2024-02-01T07:09:39Z

‎Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures.: added wikipedia (for image)

Asandle1: /* Why did you choose your particular gene? i.e., why is it interesting to you and your partner? Include an image related to your gene (be careful that you do not violate any copyright restrictions!) */ fixed #

2024-02-01T07:08:09Z

Asandle1: /* Why did you choose your particular gene? i.e., why is it interesting to you and your partner? Include an image related to your gene (be careful that you do not violate any copyright restrictions!) */ explained why we chose SIR 2

2024-02-01T07:07:53Z

Asandle1: /* Summary: */ removing unintentional headings

2024-02-01T07:05:44Z

‎Summary:: removing unintentional headings

@@ Line 147: / Line 147: @@
 [[File:Sir2_Protein_Image.png|1000px|Created by Wikipedia user Boghog, "using PyMol based on the PDB: 1SZD coordinates. Crystallographic structure of yeast sir2 (rainbow colored cartoon, N-terminus = blue, C-terminus = red) complexed with ADP (space-filling model, carbon = white, oxygen = red, nitrogen = blue, phosphorous = orange) and a histone H4 peptide (magenta) containing an acylated lysine residue (displayed as spheres)"]]
-====Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures.====
+====Acknowledgments and References====
 Guarente, L. (2013). Calorie restriction and sirtuins revisited. Genes & Development, 27(19), 2072–2085. https://doi.org/10.1101/gad.227439.113

@@ Line 145: / Line 145: @@
 Due to this, we included an image of SIR2 from the Sirtuin Wikipedia page.
-[[File:Sir2_Protein_Image.png|1000px|alt text Created by Wikipedia user Boghog, "using PyMol based on the PDB: 1SZD coordinates. Crystallographic structure of yeast sir2 (rainbow colored cartoon, N-terminus = blue, C-terminus = red) complexed with ADP (space-filling model, carbon = white, oxygen = red, nitrogen = blue, phosphorous = orange) and a histone H4 peptide (magenta) containing an acylated lysine residue (displayed as spheres)"]]
+[[File:Sir2_Protein_Image.png|1000px|Created by Wikipedia user Boghog, "using PyMol based on the PDB: 1SZD coordinates. Crystallographic structure of yeast sir2 (rainbow colored cartoon, N-terminus = blue, C-terminus = red) complexed with ADP (space-filling model, carbon = white, oxygen = red, nitrogen = blue, phosphorous = orange) and a histone H4 peptide (magenta) containing an acylated lysine residue (displayed as spheres)"]]
 ====Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures.====

@@ Line 145: / Line 145: @@
 Due to this, we included an image of SIR2 from the Sirtuin Wikipedia page.
-[[File:Sir2_Protein_Image.png|1000px|Created by Wikipedia user Boghog, "using PyMol based on the PDB: 1SZD coordinates. Crystallographic structure of yeast sir2 (rainbow colored cartoon, N-terminus = blue, C-terminus = red) complexed with ADP (space-filling model, carbon = white, oxygen = red, nitrogen = blue, phosphorous = orange) and a histone H4 peptide (magenta) containing an acylated lysine residue (displayed as spheres)"]]
+[[File:Sir2_Protein_Image.png|1000px|alt text Created by Wikipedia user Boghog, "using PyMol based on the PDB: 1SZD coordinates. Crystallographic structure of yeast sir2 (rainbow colored cartoon, N-terminus = blue, C-terminus = red) complexed with ADP (space-filling model, carbon = white, oxygen = red, nitrogen = blue, phosphorous = orange) and a histone H4 peptide (magenta) containing an acylated lysine residue (displayed as spheres)"]]
 ====Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures.====

@@ Line 145: / Line 145: @@
 Due to this, we included an image of SIR2 from the Sirtuin Wikipedia page.
-[[File:Sir2_Protein_Image.png|1000px]]
+[[File:Sir2_Protein_Image.png|1000px|Created by Wikipedia user Boghog, "using PyMol based on the PDB: 1SZD coordinates. Crystallographic structure of yeast sir2 (rainbow colored cartoon, N-terminus = blue, C-terminus = red) complexed with ADP (space-filling model, carbon = white, oxygen = red, nitrogen = blue, phosphorous = orange) and a histone H4 peptide (magenta) containing an acylated lysine residue (displayed as spheres)"]]
 ====Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures.====

← Older revision		Revision as of 07:15, 1 February 2024
Line 166:		Line 166:

	https://en.wikipedia.org/wiki/Sirtuin		https://en.wikipedia.org/wiki/Sirtuin
		+
		+	I want to provide an acknowledgement to the Wikipedia user Boghog, this user created the image I took from wikipedia of the structure of SIR 2. Link is here: https://commons.wikimedia.org/wiki/User:Boghog
		+

	LMU BioDb 2024. (2024). Week 3. Retrieved January 31, 2024, from https://xmlpipedb.cs.lmu.edu/biodb/spring2024/index.php/Week_3		LMU BioDb 2024. (2024). Week 3. Retrieved January 31, 2024, from https://xmlpipedb.cs.lmu.edu/biodb/spring2024/index.php/Week_3

← Older revision		Revision as of 07:09, 1 February 2024
Line 166:		Line 166:

	https://www.ncbi.nlm.nih.gov/gene/851520		https://www.ncbi.nlm.nih.gov/gene/851520
		+
		+	https://en.wikipedia.org/wiki/Sirtuin

	LMU BioDb 2024. (2024). Week 3. Retrieved January 31, 2024, from https://xmlpipedb.cs.lmu.edu/biodb/spring2024/index.php/Week_3		LMU BioDb 2024. (2024). Week 3. Retrieved January 31, 2024, from https://xmlpipedb.cs.lmu.edu/biodb/spring2024/index.php/Week_3

@@ Line 136: / Line 136: @@
 We chose our gene because we wanted to learn about a gene that fit two qualifications:
 # We decided our gene had to have a related human gene.
-## We wanted our gene to play a role in aging and if we could also have a gene related to disease that was a plus.
+# We wanted our gene to play a role in aging and if we could also have a gene related to disease that was a plus.
 This gene satisfied both of those criteria directly.

@@ Line 133: / Line 133: @@
 ====Why did you choose your particular gene? i.e., why is it interesting to you and your partner? Include an image related to your gene (be careful that you do not violate any copyright restrictions!)====
 Please make the image something scientific (not like the random images seen on the SGD blog posts).
@@ Line 142: / Line 148: @@
 The NCBI Structure database and RSCB Protein Databank also display structures.
 ====Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures.====

@@ Line 134: / Line 134: @@
 ====Why did you choose your particular gene? i.e., why is it interesting to you and your partner? Include an image related to your gene (be careful that you do not violate any copyright restrictions!)====
-====Please make the image something scientific (not like the random images seen on the SGD blog posts).====
+Please make the image something scientific (not like the random images seen on the SGD blog posts).
-====If a 3D structure of the protein your gene encodes is available, you can choose to embed a rotating image of the structure on your page using the FirstGlance in Jmol software. This is optional, a different static image would be OK, too.====
+If a 3D structure of the protein your gene encodes is available, you can choose to embed a rotating image of the structure on your page using the FirstGlance in Jmol software. This is optional, a different static image would be OK, too.
 The 3D structure of SIR2 is shown on the structure section of it's UniProt entry. The issue is that the Alphafold rendering that is shown is labeled as low confidence, and the x-ray determined structures available from PDB do not show the entire section from positions 1-562, they only show chunks of the positions.
-====The NCBI Structure database and RSCB Protein Databank also display structures.====
+The NCBI Structure database and RSCB Protein Databank also display structures.