Difference between revisions of "SIR2 Week 3"
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| − | Provide the following additional information about your gene on your wiki page: | + | ====Provide the following additional information about your gene on your wiki page:==== |
| − | What is the standard name, systematic name, and name description for your gene (from SGD)? | + | ====What is the standard name, systematic name, and name description for your gene (from SGD)?==== |
| − | What is the gene ID (identifier) for your gene in all four databases (SGD, NCBI Gene, Ensembl, UniProt)? | + | ====What is the gene ID (identifier) for your gene in all four databases (SGD, NCBI Gene, Ensembl, UniProt)?==== |
| − | Provide hyperlinks to the specific pages for your gene in each of the above databases. | + | ====Provide hyperlinks to the specific pages for your gene in each of the above databases.==== |
| − | What is the DNA sequence of your gene? | + | ====What is the DNA sequence of your gene?==== |
| − | What is the protein sequence corresponding to your gene? | + | ====What is the protein sequence corresponding to your gene?==== |
| − | Go to the ExPASy tool and translate the DNA sequence of your gene. Which reading frame encodes the protein sequence? Take a screenshot of your results, display it on your wiki page, and state which frame it is. | + | ====Go to the ExPASy tool and translate the DNA sequence of your gene. Which reading frame encodes the protein sequence? Take a screenshot of your results, display it on your wiki page, and state which frame it is.==== |
| − | What is the function of your gene? | + | ====What is the function of your gene?==== |
| − | What was different about the information provided about your gene in each of the parent databases? | + | ====What was different about the information provided about your gene in each of the parent databases?==== |
Were there differences in content, the information or data itself? | Were there differences in content, the information or data itself? | ||
Revision as of 19:49, 30 January 2024
Here is some info about SIR2 from the page
NAD-dependent histone deacetylase involved in chromatin assembly, organization and silencing. Also involved in sister chromatid cohesion, double-strand break repair, and the tethering of telomeres at the nuclear periphery. Source: ? one of the ones from class
Conserved NAD+ dependent histone deacetylase of the Sirtuin family; deacetylation targets are primarily nuclear proteins; required for telomere hypercluster formation in quiescent yeast cells; involved in regulation of lifespan; plays roles in silencing at HML, HMR, telomeres, and rDNA; negatively regulates initiation of DNA replication; functions as regulator of autophagy like mammalian homolog SIRT1, and also of mitophagy [Source:SGD;Acc:S000002200]
Contents
- 1 Summary:
- 1.1 WIP Section
- 1.1.1 Provide the following additional information about your gene on your wiki page:
- 1.1.2 What is the standard name, systematic name, and name description for your gene (from SGD)?
- 1.1.3 What is the gene ID (identifier) for your gene in all four databases (SGD, NCBI Gene, Ensembl, UniProt)?
- 1.1.4 Provide hyperlinks to the specific pages for your gene in each of the above databases.
- 1.1.5 What is the DNA sequence of your gene?
- 1.1.6 What is the protein sequence corresponding to your gene?
- 1.1.7 Go to the ExPASy tool and translate the DNA sequence of your gene. Which reading frame encodes the protein sequence? Take a screenshot of your results, display it on your wiki page, and state which frame it is.
- 1.1.8 What is the function of your gene?
- 1.1.9 What was different about the information provided about your gene in each of the parent databases?
- 1.2 Charlotte's WIP Section
- 1.1 WIP Section
Summary:
Sir 2 is a member of the Sirtuin family. Sir2 is crucial for cellular function, as it deacetylates nuclear proteins, facilitating telomere formation during cell dormancy and regulating lifespan. It also silences genes at specific chromosomal sites and suppresses early DNA replication, contributing to genome stability. Similar to its mammalian counterpart SIRT1, it regulates autophagy and mitophagy, promoting cellular health. Additionally, it influences chromatin structure through histone deacetylase activity and participates in processes like protein complex localization and metabolic regulation. Found in various cellular regions, including chromosomes and nucleoli, it's part of the RENT complex. Interestingly, it's associated with diseases like Alzheimer's, Parkinson's, diabetes mellitus, and Huntington's disease in humans, with SIRT1 being its counterpart present in humans.
WIP Section
Provide the following additional information about your gene on your wiki page:
What is the standard name, systematic name, and name description for your gene (from SGD)?
What is the gene ID (identifier) for your gene in all four databases (SGD, NCBI Gene, Ensembl, UniProt)?
Provide hyperlinks to the specific pages for your gene in each of the above databases.
What is the DNA sequence of your gene?
What is the protein sequence corresponding to your gene?
Go to the ExPASy tool and translate the DNA sequence of your gene. Which reading frame encodes the protein sequence? Take a screenshot of your results, display it on your wiki page, and state which frame it is.
What is the function of your gene?
What was different about the information provided about your gene in each of the parent databases?
Were there differences in content, the information or data itself?
Were there differences in presentation of the information?
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).
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 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.
You need to cite the specific database page from which you derived your information for each of the questions.
When answering the free-form questions, be sure to paraphrase.
Charlotte's WIP Section
Edit here so we don't overwrite each other
