HSF1/YGL073W Week 3 - Revision history

Ymesfin: /* References */ added ExPasy reference

2019-09-17T22:59:44Z

‎References: added ExPasy reference

Ymesfin: /* Additional Information */ added pymol link and changed external link format

2019-09-17T22:57:47Z

‎Additional Information: added pymol link and changed external link format

Ymesfin: /* Additional Information */ added ncbi link

2019-09-17T22:55:10Z

‎Additional Information: added ncbi link

Ymesfin: /* Additional Information */ added expasy link

2019-09-17T22:53:12Z

‎Additional Information: added expasy link

Imacarae: /* Acknowledgments */ updated first bullet

2019-09-17T22:53:08Z

‎Acknowledgments: updated first bullet

Imacarae: /* Acknowledgments */ added second bullet

2019-09-17T22:51:40Z

‎Acknowledgments: added second bullet

Imacarae: deleted space

2019-09-17T22:48:53Z

deleted space

Imacarae: fixed numbering bullet

2019-09-17T22:29:21Z

fixed numbering bullet

Ymesfin: /* Additional Information */ small change to an answer

2019-09-17T22:28:20Z

‎Additional Information: small change to an answer

Imacarae: made ref and ack titles bigger

2019-09-17T22:07:12Z

made ref and ack titles bigger

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 *Q00613 (HSF1_Human). (2019). UniProt. Retrieved from [[https://www.uniprot.org/uniprot/Q00613 https://www.uniprot.org/uniprot/Q00613]].
 *The PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC.
 Instructions for Week 3 assignment provided by LMU BioDB 2019. (2019). Week 3. Retrieved September 16, 2019, from [[https://xmlpipedb.cs.lmu.edu/biodb/fall2019/index.php/Week_3 https://xmlpipedb.cs.lmu.edu/biodb/fall2019/index.php/Week_3]].

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 #*Ensembl: P10961 [[https://uswest.ensembl.org/Saccharomyces_cerevisiae/Gene/Summary?db=core;g=YGL073W;r=VII:368753-371254;t=YGL073W_mRNA https://uswest.ensembl.org/Saccharomyces_cerevisiae/Gene/Summary?db=core;g=YGL073W;r=VII:368753-371254;t=YGL073W_mRNA]]
 #*UniProt: Q00613 [[https://www.uniprot.org/uniprot/Q00613 https://www.uniprot.org/uniprot/Q00613]]
-#What is the DNA sequence of your gene? [https://www.ncbi.nlm.nih.gov/gene/852806]
+#What is the DNA sequence of your gene? [https://www.ncbi.nlm.nih.gov/gene/852806/ NCBI]
 #*ATGAATAATGCTGCAAATACAGGGACGACCAATGAGTCAAACGTGAGCGATGCTCCCCGTATTGAGCCTT TACCAAGCTTGAATGATGATGACATTGAAAAAATCTTACAACCGAACGATATCTTTACGACCGATCGTAC CGATGCAAGTACTACATCTTCCACAGCCATTGAAGATATTATTAACCCCTCATTGGATCCGCAGTCAGCA GCATCGCCGGTTCCTTCTTCCTCTTTTTTCCATGACTCAAGGAAACCTTCCACCAGTACACATTTAGTAA GGAGAGGTACTCCATTGGGAATTTACCAAACCAATCTATACGGTCACAATAGCAGAGAAAATACTAATCC TAATAGTACATTATTATCTTCTAAGTTACTCGCGCATCCACCAGTTCCTTATGGGCAAAATCCCGATTTA CTACAACATGCTGTGTACAGGGCACAGCCGTCAAGTGGAACCACTAACGCGCAACCGCGCCAAACCACAA GAAGATATCAATCCCATAAATCACGGCCTGCATTTGTTAATAAACTATGGAGCATGTTAAACGATGATTC TAATACGAAACTTATACAGTGGGCGGAGGATGGAAAATCTTTTATTGTCACGAATAGGGAGGAATTTGTG CACCAAATTTTACCAAAATATTTTAAACATTCCAATTTCGCTTCCTTTGTAAGACAATTGAACATGTATG GATGGCATAAAGTTCAAGATGTCAAGTCAGGATCAATTCAAAGTAGTTCAGATGATAAGTGGCAATTTGA AAATGAAAACTTCATTAGAGGTAGAGAAGATTTGCTGGAAAAAATAATCAGGCAGAAAGGTTCCTCCAAT AACCATAATAGCCCTAGTGGTAACGGTAATCCAGCGAATGGTAGCAACATCCCTCTGGACAATGCCGCAG GAAGTAATAATAGCAATAATAACATCAGTAGTAGTAATTCATTTTTTAACAATGGTCATTTATTGCAGGG TAAAACACTAAGATTAATGAACGAAGCGAATCTTGGAGATAAGAATGATGTCACCGCGATTTTGGGGGAA TTAGAGCAAATAAAATATAACCAGATTGCAATTTCCAAAGATTTACTAAGAATAAACAAAGATAATGAGT TATTATGGCAAGAGAATATGATGGCCAGGGAAAGACATAGAACCCAACAGCAAGCCTTGGAAAAAATGTT CAGATTCTTGACATCTATAGTCCCACACTTAGATCCCAAAATGATTATGGACGGGCTGGGAGATCCGAAA GTTAATAATGAAAAGCTAAACAGTGCGAATAACATTGGGTTAAATCGCGACAACACAGGCACTATAGATG AACTAAAATCCAACGATTCTTTCATAAACGATGATCGTAATTCTTTCACCAATGCTACAACCAACGCCCG TAATAACATGAGTCCCAACAATGATGACAATAGTATTGACACCGCTAGCACTAATACCACCAACAGAAAG AAAAATATAGATGAAAACATCAAAAATAACAACGACATAATTAATGACATTATATTTAATACCAACCTTG CCAACAATCTCAGCAATTACAATTCCAACAATAATGCTGGCTCGCCAATAAGGCCCTATAAACAAAGATA TCTTTTGAAAAATAGAGCCAATTCCTCGACATCGAGTGAGAATCCAAGCCTAACGCCCTTTGATATCGAA TCTAATAATGACCGCAAAATTTCAGAAATTCCTTTTGATGACGAAGAAGAAGAAGAAACGGATTTTAGGC CTTTTACCTCGCGAGATCCTAATAACCAAACGAGTGAAAACACTTTTGATCCAAACAGATTTACGATGCT CTCTGATGATGATTTAAAAAAAGATTCTCATACCAATGACAATAAACACAACGAAAGTGATCTTTTTTGG GACAACGTACATAGAAATATAGACGAACAAGATGCAAGACTCCAGAACTTGGAAAATATGGTTCACATAC TTTCTCCTGGATATCCTAATAAGTCGTTCAACAACAAAACTTCCTCGACAAACACTAATTCCAATATGGA AAGTGCTGTCAACGTTAATAGCCCTGGTTTCAACTTACAGGATTATTTAACTGGAGAGTCTAATTCCCCC AATTCTGTTCATTCTGTTCCCTCCAATGGCAGCGGCTCCACACCGTTGCCCATGCCAAATGATAATGACA CCGAGCACGCAAGTACAAGTGTCAATCAAGGCGAAAATGGAAGCGGATTAACGCCCTTCCTCACGGTAGA TGATCACACACTAAACGACAATAACACTAGTGAGGGAAGTACAAGGGTGTCCCCCGATATAAAGTTCAGC GCCACTGAAAACACTAAAGTGAGTGATAACCTGCCAAGCTTTAATGACCACAGTTATTCCACCCAGGCCG ACACGGCGCCCGAGAACGCTAAGAAAAGATTTGTGGAGGAAATACCGGAACCGGCTATAGTCGAAATACA GGACCCGACAGAGTACAACGATCACCGCCTGCCCAAACGAGCTAAGAAATAG
 #What is the protein sequence corresponding to your gene? ([https://web.expasy.org/translate/ ExPASy tool]) [[Image:HSF1_amino_acid.png|1000 px|center]]
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 #*Were there differences in presentation of the information?
 #**There were very few to no differences in the presentation of the information across the databases. Each one starts off with identification and summary of HSF1 and then goes into more and more details in an organized way.
-#HSF1/YGL073W Image:
+#HSF1/YGL073W Image: ([https://pymol.org/2// PyMOL])
 [[Image: HSF1.PNG|500 px|center]]

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 #*Ensembl: P10961 [[https://uswest.ensembl.org/Saccharomyces_cerevisiae/Gene/Summary?db=core;g=YGL073W;r=VII:368753-371254;t=YGL073W_mRNA https://uswest.ensembl.org/Saccharomyces_cerevisiae/Gene/Summary?db=core;g=YGL073W;r=VII:368753-371254;t=YGL073W_mRNA]]
 #*UniProt: Q00613 [[https://www.uniprot.org/uniprot/Q00613 https://www.uniprot.org/uniprot/Q00613]]
-#What is the DNA sequence of your gene?
+#What is the DNA sequence of your gene? [https://www.ncbi.nlm.nih.gov/gene/852806]
 #*ATGAATAATGCTGCAAATACAGGGACGACCAATGAGTCAAACGTGAGCGATGCTCCCCGTATTGAGCCTT TACCAAGCTTGAATGATGATGACATTGAAAAAATCTTACAACCGAACGATATCTTTACGACCGATCGTAC CGATGCAAGTACTACATCTTCCACAGCCATTGAAGATATTATTAACCCCTCATTGGATCCGCAGTCAGCA GCATCGCCGGTTCCTTCTTCCTCTTTTTTCCATGACTCAAGGAAACCTTCCACCAGTACACATTTAGTAA GGAGAGGTACTCCATTGGGAATTTACCAAACCAATCTATACGGTCACAATAGCAGAGAAAATACTAATCC TAATAGTACATTATTATCTTCTAAGTTACTCGCGCATCCACCAGTTCCTTATGGGCAAAATCCCGATTTA CTACAACATGCTGTGTACAGGGCACAGCCGTCAAGTGGAACCACTAACGCGCAACCGCGCCAAACCACAA GAAGATATCAATCCCATAAATCACGGCCTGCATTTGTTAATAAACTATGGAGCATGTTAAACGATGATTC TAATACGAAACTTATACAGTGGGCGGAGGATGGAAAATCTTTTATTGTCACGAATAGGGAGGAATTTGTG CACCAAATTTTACCAAAATATTTTAAACATTCCAATTTCGCTTCCTTTGTAAGACAATTGAACATGTATG GATGGCATAAAGTTCAAGATGTCAAGTCAGGATCAATTCAAAGTAGTTCAGATGATAAGTGGCAATTTGA AAATGAAAACTTCATTAGAGGTAGAGAAGATTTGCTGGAAAAAATAATCAGGCAGAAAGGTTCCTCCAAT AACCATAATAGCCCTAGTGGTAACGGTAATCCAGCGAATGGTAGCAACATCCCTCTGGACAATGCCGCAG GAAGTAATAATAGCAATAATAACATCAGTAGTAGTAATTCATTTTTTAACAATGGTCATTTATTGCAGGG TAAAACACTAAGATTAATGAACGAAGCGAATCTTGGAGATAAGAATGATGTCACCGCGATTTTGGGGGAA TTAGAGCAAATAAAATATAACCAGATTGCAATTTCCAAAGATTTACTAAGAATAAACAAAGATAATGAGT TATTATGGCAAGAGAATATGATGGCCAGGGAAAGACATAGAACCCAACAGCAAGCCTTGGAAAAAATGTT CAGATTCTTGACATCTATAGTCCCACACTTAGATCCCAAAATGATTATGGACGGGCTGGGAGATCCGAAA GTTAATAATGAAAAGCTAAACAGTGCGAATAACATTGGGTTAAATCGCGACAACACAGGCACTATAGATG AACTAAAATCCAACGATTCTTTCATAAACGATGATCGTAATTCTTTCACCAATGCTACAACCAACGCCCG TAATAACATGAGTCCCAACAATGATGACAATAGTATTGACACCGCTAGCACTAATACCACCAACAGAAAG AAAAATATAGATGAAAACATCAAAAATAACAACGACATAATTAATGACATTATATTTAATACCAACCTTG CCAACAATCTCAGCAATTACAATTCCAACAATAATGCTGGCTCGCCAATAAGGCCCTATAAACAAAGATA TCTTTTGAAAAATAGAGCCAATTCCTCGACATCGAGTGAGAATCCAAGCCTAACGCCCTTTGATATCGAA TCTAATAATGACCGCAAAATTTCAGAAATTCCTTTTGATGACGAAGAAGAAGAAGAAACGGATTTTAGGC CTTTTACCTCGCGAGATCCTAATAACCAAACGAGTGAAAACACTTTTGATCCAAACAGATTTACGATGCT CTCTGATGATGATTTAAAAAAAGATTCTCATACCAATGACAATAAACACAACGAAAGTGATCTTTTTTGG GACAACGTACATAGAAATATAGACGAACAAGATGCAAGACTCCAGAACTTGGAAAATATGGTTCACATAC TTTCTCCTGGATATCCTAATAAGTCGTTCAACAACAAAACTTCCTCGACAAACACTAATTCCAATATGGA AAGTGCTGTCAACGTTAATAGCCCTGGTTTCAACTTACAGGATTATTTAACTGGAGAGTCTAATTCCCCC AATTCTGTTCATTCTGTTCCCTCCAATGGCAGCGGCTCCACACCGTTGCCCATGCCAAATGATAATGACA CCGAGCACGCAAGTACAAGTGTCAATCAAGGCGAAAATGGAAGCGGATTAACGCCCTTCCTCACGGTAGA TGATCACACACTAAACGACAATAACACTAGTGAGGGAAGTACAAGGGTGTCCCCCGATATAAAGTTCAGC GCCACTGAAAACACTAAAGTGAGTGATAACCTGCCAAGCTTTAATGACCACAGTTATTCCACCCAGGCCG ACACGGCGCCCGAGAACGCTAAGAAAAGATTTGTGGAGGAAATACCGGAACCGGCTATAGTCGAAATACA GGACCCGACAGAGTACAACGATCACCGCCTGCCCAAACGAGCTAAGAAATAG
 #What is the protein sequence corresponding to your gene? ([https://web.expasy.org/translate/ ExPASy tool]) [[Image:HSF1_amino_acid.png|1000 px|center]]

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 #What is the DNA sequence of your gene?
 #*ATGAATAATGCTGCAAATACAGGGACGACCAATGAGTCAAACGTGAGCGATGCTCCCCGTATTGAGCCTT TACCAAGCTTGAATGATGATGACATTGAAAAAATCTTACAACCGAACGATATCTTTACGACCGATCGTAC CGATGCAAGTACTACATCTTCCACAGCCATTGAAGATATTATTAACCCCTCATTGGATCCGCAGTCAGCA GCATCGCCGGTTCCTTCTTCCTCTTTTTTCCATGACTCAAGGAAACCTTCCACCAGTACACATTTAGTAA GGAGAGGTACTCCATTGGGAATTTACCAAACCAATCTATACGGTCACAATAGCAGAGAAAATACTAATCC TAATAGTACATTATTATCTTCTAAGTTACTCGCGCATCCACCAGTTCCTTATGGGCAAAATCCCGATTTA CTACAACATGCTGTGTACAGGGCACAGCCGTCAAGTGGAACCACTAACGCGCAACCGCGCCAAACCACAA GAAGATATCAATCCCATAAATCACGGCCTGCATTTGTTAATAAACTATGGAGCATGTTAAACGATGATTC TAATACGAAACTTATACAGTGGGCGGAGGATGGAAAATCTTTTATTGTCACGAATAGGGAGGAATTTGTG CACCAAATTTTACCAAAATATTTTAAACATTCCAATTTCGCTTCCTTTGTAAGACAATTGAACATGTATG GATGGCATAAAGTTCAAGATGTCAAGTCAGGATCAATTCAAAGTAGTTCAGATGATAAGTGGCAATTTGA AAATGAAAACTTCATTAGAGGTAGAGAAGATTTGCTGGAAAAAATAATCAGGCAGAAAGGTTCCTCCAAT AACCATAATAGCCCTAGTGGTAACGGTAATCCAGCGAATGGTAGCAACATCCCTCTGGACAATGCCGCAG GAAGTAATAATAGCAATAATAACATCAGTAGTAGTAATTCATTTTTTAACAATGGTCATTTATTGCAGGG TAAAACACTAAGATTAATGAACGAAGCGAATCTTGGAGATAAGAATGATGTCACCGCGATTTTGGGGGAA TTAGAGCAAATAAAATATAACCAGATTGCAATTTCCAAAGATTTACTAAGAATAAACAAAGATAATGAGT TATTATGGCAAGAGAATATGATGGCCAGGGAAAGACATAGAACCCAACAGCAAGCCTTGGAAAAAATGTT CAGATTCTTGACATCTATAGTCCCACACTTAGATCCCAAAATGATTATGGACGGGCTGGGAGATCCGAAA GTTAATAATGAAAAGCTAAACAGTGCGAATAACATTGGGTTAAATCGCGACAACACAGGCACTATAGATG AACTAAAATCCAACGATTCTTTCATAAACGATGATCGTAATTCTTTCACCAATGCTACAACCAACGCCCG TAATAACATGAGTCCCAACAATGATGACAATAGTATTGACACCGCTAGCACTAATACCACCAACAGAAAG AAAAATATAGATGAAAACATCAAAAATAACAACGACATAATTAATGACATTATATTTAATACCAACCTTG CCAACAATCTCAGCAATTACAATTCCAACAATAATGCTGGCTCGCCAATAAGGCCCTATAAACAAAGATA TCTTTTGAAAAATAGAGCCAATTCCTCGACATCGAGTGAGAATCCAAGCCTAACGCCCTTTGATATCGAA TCTAATAATGACCGCAAAATTTCAGAAATTCCTTTTGATGACGAAGAAGAAGAAGAAACGGATTTTAGGC CTTTTACCTCGCGAGATCCTAATAACCAAACGAGTGAAAACACTTTTGATCCAAACAGATTTACGATGCT CTCTGATGATGATTTAAAAAAAGATTCTCATACCAATGACAATAAACACAACGAAAGTGATCTTTTTTGG GACAACGTACATAGAAATATAGACGAACAAGATGCAAGACTCCAGAACTTGGAAAATATGGTTCACATAC TTTCTCCTGGATATCCTAATAAGTCGTTCAACAACAAAACTTCCTCGACAAACACTAATTCCAATATGGA AAGTGCTGTCAACGTTAATAGCCCTGGTTTCAACTTACAGGATTATTTAACTGGAGAGTCTAATTCCCCC AATTCTGTTCATTCTGTTCCCTCCAATGGCAGCGGCTCCACACCGTTGCCCATGCCAAATGATAATGACA CCGAGCACGCAAGTACAAGTGTCAATCAAGGCGAAAATGGAAGCGGATTAACGCCCTTCCTCACGGTAGA TGATCACACACTAAACGACAATAACACTAGTGAGGGAAGTACAAGGGTGTCCCCCGATATAAAGTTCAGC GCCACTGAAAACACTAAAGTGAGTGATAACCTGCCAAGCTTTAATGACCACAGTTATTCCACCCAGGCCG ACACGGCGCCCGAGAACGCTAAGAAAAGATTTGTGGAGGAAATACCGGAACCGGCTATAGTCGAAATACA GGACCCGACAGAGTACAACGATCACCGCCTGCCCAAACGAGCTAAGAAATAG
-#What is the protein sequence corresponding to your gene? [[Image:HSF1_amino_acid.png|1000 px|center]]
+#What is the protein sequence corresponding to your gene? ([https://web.expasy.org/translate/ ExPASy tool]) [[Image:HSF1_amino_acid.png|1000 px|center]]
 #What is the function of your gene?
 #*The gene HSF1 is a transcription factor that activates specific genes which in turn promote the ability of Saccharomyces cerevisiae to maintain homeostasis when exposed to high temperature stressors. Its expression stimulates the further expression of heat shock proteins as well as chaperone proteins that maintain homeostasis despite suboptimal thermal conditions for the cells.

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 ==Acknowledgments==
-*We would like to acknowledge Dr. Dahlquist for her instruction.
+*We would like to acknowledge Dr. Dahlquist for her instruction on bioinformatics as well as her help with wiki formatting.
 *We met with each other during class to discuss formatting and status of the wiki page. Other communication included answering questions on a shared Google Doc.

@@ Line 56: / Line 56: @@
 [[Image:HSF1_amino_acid.png|1000 px|center]]
 #What is the function of your gene?
-#*The gene HSF1 is a transcription factor that activates specific genes which in turn promote the ability of Saccharomyces cerevisiae to maintain homeostasis when exposed to particular environmental stressors. Its expression stimulates the further expression of heat shock proteins as well as chaperone proteins that maintain homeostasis despite suboptimal thermal conditions for the cells.
+#*The gene HSF1 is a transcription factor that activates specific genes which in turn promote the ability of Saccharomyces cerevisiae to maintain homeostasis when exposed to high temperature stressors. Its expression stimulates the further expression of heat shock proteins as well as chaperone proteins that maintain homeostasis despite suboptimal thermal conditions for the cells.
 #What was different about the information provided about your gene in each of the parent databases?
 #*SGD and Ensembl had matching summaries of HSF1. NCBI mentioned that it was a gene that regulated cell lifespan and is repressed by phosphorylation. UniProt focuses on its role as a chaperone protein during different types of cell stress as well as its effect on different mRNA molecules.

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 [[Image: HSF1.PNG|500 px|center]]
-===Acknowledgments===
+==Acknowledgments==
 *We would like to acknowledge Dr. Dahlquist for her instruction.
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 [[User:Imacarae|Imacarae]] ([[User talk:Imacarae|talk]]) 23:17, 16 September 2019 (PDT)
-===References===
+==References==
 Information of HSF1/YGL073 obtained from databases:
 *HSF1/YGL073W Overview. (2019). Saccharomyces Genome Database. Retrieved from [[https://www.yeastgenome.org/locus/S000003041#resources https://www.yeastgenome.org/locus/S000003041#resources]].