The file is quite detailed and it covers almost everything. For additional sources I have provided you with the links below that will help you with your research.
the name off the molecule is RNA Polymerase II
organism- Saccharomyces cerevisiae
NCBI Sequence link- https://www.ncbi.nlm.nih.gov/protein/P04050
RCSB Structure link- https://www.rcsb.org/structure/1i6h
In the molecule RNA Polymerase, I would want you to focus on the process of transmission of DNA to RNA molecule and basically what can go wrong in this. You also have to talk about gene therapy. (My tutor wants these things included)
The page limit, font and everything else has already been discussed in the file.
links that will help you in research are :-
ProtParam: Get information about the chemical makeup of your molecule (use the sequence of your protein to search, not the accession number)
BRENDA: Enzyme database allows you to search for reactions
UniprotKB: Provides overall information about abundance and interactions
FindMod: Determine potential protein post-translational modifications (PTM) and find potential single amino acid substitutions
PubMed Central: Find peer-reviewed scientific publications related to your protein of interest
neXtProt: Orovides information on human proteins such as function, involvement in diseases, expression, interactions, PTMs, protein variations and their phenotypic effects
Reactome.org: Provides curated informatino on pathways
NASC 116: Elements of Living Systems
Page 1 of 3
Systems Paper
Due Date(s): Tuesday, December 1, 2020 at 11:59 p.m. E.T.
Submission: Submit on Blackboard.
Systems Paper
The Systems Paper allows students to describe the biological systems underlying their topic and how those
biological systems are manipulated, harnessed, changed, or perturbed to provide value.
The goal of this assignment is to promote student understanding of the systems-level effects of their topic, including
the commercial potential.
The Systems Paper is worth 300 points. The breakdown of points is described below. All available resources
(including outside readings, class notes, and internet resources) may be used to complete this assignment. Under no
condition is plagiarism excusable. Any idea or language that did not originate with you must include a citation. Please
consult the Course Syllabus for more information about citing sources, including the citation format (APA standard).
Grading
Each Systems Paper is worth a total 300 pts:
• Biological Pathways and Mechanism (120 pts)
• Systems-Level Effects (200 pts)
• Relevance and Conclusions (50 pts)
• Bibliography/Glossary (30 pts)
The Exercise
Each student will be assigned a topic of inquiry, from which they should research the pathway involved in the topic.
The subsequent assignment will be to:
- Discuss the energy considerations and enzyme kinetics involved in the pathway of interest.
- Discuss the cellular signaling associated with the pathway.
- Describe the experiments that exist to study the functions and activities of the pathway.
- Explore commercial applications aided by knowledge of the pathway.
Leaning Objectives
• Discuss scientific background necessary to implement businesses and product development.
• Discuss the relevance of the molecule(s) involved in the topic of inquiry from a living systems perspective.
• Discuss the chemical, physical, and mechanistic background of the molecule(s) involved in the topic.
• Research and describe the function(s) of the molecule(s) involved in the topic of inquiry.
• Understand how the basic atomic elements of life are involved in complex living systems.
• Develop the skills required to search the scientific literature and find suitable sources for answering
complex questions.
Deliverables - Attend the Systems Paper review session on Wednesday, November 18 from 3:30 p.m. – 6:20 p.m.
ET and Monday, November 23 from 3:30 p.m. – 4:50 p.m. ET to review any questions about the work. In
this session, I will address any specific questions about your paper. As always, I am also available to meet
(use https://calendly.com/cskipwith to schedule an appointment). - Submit the Systems Paper section (described below) by Tuesday, December 1 at 11:59 p.m. ET.
Submitted through Blackboard.
NASC 116: Elements of Living Systems
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Paper Requirements (300 points)
*Note: The indicated page counts are a recommendation. All page counts are double-spaced, 10-point font.
You do not need to strictly adhere to the guidelines however the page numbers are found to sufficiently
allow you to address all of the report requirements.
**Another note: Write your response as a narrative paper, not as a bulleted response to the prompt. - Energetics and Kinetics of Pathway Involved (1-2 pages) (100 pts)
A. Discussion on the energy consumed or generated by the pathway
I. Does this pathway create energy? Does it consume energy? What is the role of energy in
making the pathway function?
II. What processes contribute to the energy used or generated in the pathway? What are the
major molecules involved?
III. Is the pathway considered to be energy efficient? Why or why not?
B. Discussion on pathway enzyme kinetics
I. What are the major enzymes involved in this pathway? What substrates do the enzymes
bind and act upon? What are the products of the enzyme reactions?
II. How do the enzymes perform their jobs? Are they adding elements to a substrate?
Breaking down a substrate? Cutting a substrate? Changing the chemical composition of a
substrate?
III. Are there inhibitors (natural or synthetic) of the enzymes in the pathway? How do the
inhibitors work? What kinds of inhibitors are they classified as?
C. Include 2-3 relevant figures showing the pathways you discussed and how the molecule works are
extremely helpful to the discussion. - Signaling in the Pathway and Experiments (1-2 pages) (120 pts)
A. Discussion on the cellular signaling associated with the pathway
I. What signaling molecules are associated with the pathway? What are their functions?
II. What kind of cellular signaling receptors are involved in the pathway? How do they transmit
the signal through the cell?
III. How can the signaling be altered in living systems?
B. Describe how the pathway functions can be measured experimentally
I. Based on your pathway analysis, can the function be measured experimentally, if so, how?
II. Are there any major studies that are linked to measuring the function of your pathway?
III. What are some questions that remain to be answered by scientific studies?
C. Include 2-3 relevant figures showing the pathways you discussed and some experimental results.
Make sure to provide your own interpretation of the experiments. - Commercial Relevance (1-2 pages) (50 pts)
A. Discussion of current commercial applications surrounding your pathway
I. Can you identify any specific companies developing products relevant to your pathway?
How do they take advantage of the knowledge of the pathway to develop a product?
NASC 116: Elements of Living Systems
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II. What are the potential risks and roadblocks for commercial development surrounding your
pathway? - Bibliography/Glossary (0.5-1 pages) (30 pts)
A. The bibliography should include at least 3 references identified in PUBMED or scholar.google.com.
You must use APA Formatting and in-text citation (as described above and in the Course
Syllabus). You must have in-text citations throughout your report. Please see the rubric for
scoring.
B. Glossary of terms that you had to look up in writing the report.
If you need answers to this assignment, WhatsApp/Text to +1 646 978 1313
or send us an email to admin@shrewdwriters.com and we will reply instantly. We provide original answers that are not plagiarized. Please, try our service. Thanks
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