The Systems Biology of COVID-19 and the SARS-CoV-2 virus. The class will build a foundation that includes the emergence of complexity, simple biological subsystems, their reductionist and equivalent toy and organ-chip models, and the measurements required to specify model architecture and parameters. Applications to biology, physiology, medicine, chemical and biological defense, pharmacology, drug discovery, and toxicology. UGrad: PHYS 240 01 and BME 290B; Grad: PHYS 326 and BME 395C.
0. Knew very little about Kinesin and microtubules
ReplyDelete1. Kinesins are important a variety of cellular functions including mitosis and transport of cellular cargo.
2. To me the pressing question is the way energy in the form of ATP is transformed into mechanical work and can the energy in the form of ATP be mimicked.
3. None at this point.
4. Still developing my thoughts and overall application of kinesins
0. kinesin moves step by step, and such steps quantified in wet-lab by both step size and frequency.
ReplyDelete1. kinesin uses the energy from the hydrolysis of ATP to transport cargo from the center of cell the the peripherals.
SysBio134 Asgn_6A_Class_06_Wikipedia_01_2013_09_10
ReplyDelete0. Knew: Kinesin is a motor protein that moves along microtubles driven by ATP. Part of transport system in the cell.
1. Learned: Kinesins and G proteins are similar structurally. Microtubles are polar.
2. Question: a. If the force of binding to the microtuble is what pulls the cargo, then what is the use for the energy released by hydrolyzing ATP? Is it just for binding of the motor head to the microtuble and not movement?
b. What is the point of the polarization of microtubles?
3. Presentation: ---
4. Thoughts: Seems strange that kinesins move microtubles in cell division since the microtubles are usually just a "track." Does the kinesin pull along one microtuble while moving another?
0. Knew: How kinesins move (from youtube video)
ReplyDelete1. Learned: It is actually a dimer. The "head" domain of each subunit is what I would have called the "feet".
2. Pressing ?: This is probably pretty silly, but what do motor proteins do in the cell? They give a very vague example of its use in mitosis, but I don't quite understand. Are the spindles microtubules?
0 Knew: Kinesins are motor proteins that travel on microtubules in cells.
ReplyDelete1 Learned: The mechanism kinesins use to move (use of ATP, hand over hand motion)
2 Pressing: How does computer modeling of kinesins work? What does this contribute to systems biology? Hoping to model from molecule -> cell -> organ?
3 Presentation: -
4 Thoughts: If kinesins move microtubules during mitosis, what provides energy for this movement? What pulls the kinesins?
Frank "Edad" Block, Jr.
ReplyDeleteAsgn_6A_Class_06_Wikipedia_01_2013_09_10
0. Knew: None of this.
1. Learned: Wikipedia doesn't think the mechanism is so clear. Reasoning from the collected molecules to the individual molecule.
2. Most go to the + end of the microtubule. How do they "know" to do that? Are the binding sites on the microtubules arranged so that they can only bind facing "forward" (that is, in the right direction)?
What happens when the organelle gets where it is going? How does it stop? What happens to the kinesin at the end of the microtubule? How is it degraded / recycled?
3. Presentation: Kinesins vs. Dineins.
4. Thoughts: Binding site distances and orientation are critical for this to work. Whatever gets to the periphery of the cell has to either leave the cell or come back toward the center in one form or another.
0.Knew the basics of active transport and the basic structure of kinesins.
ReplyDelete1. Learned the vast numbers of different kinesins
2. Pressing: how is the mechanical force of a conformation change transferred to directed motion?
3. The basics of kinesin movement
4. Active transport within a cell is extremely important for creating gradients that aren't possible with diffusion. Also active transport will be quicker over long distances for large molecules
0. Knew: Kinesin movement was polar; That Kinesin "walks."
ReplyDelete1. Leraned: Polarity of movement is determined by microtubule polarity
2. In cells, do microtubules run to and from transport loci; that is, are they like the antiparallel lanes on a bi-directional highway?
3. Microtubule formation in the cell.
4. Kinesins could be useful for assembling nano or micro humans or organs.
0. Knew: Kinesin travels along microtubules carrying to transport intracellular material.
ReplyDelete1. Learned: Directionality is important, the exothermic uncoupling of a phosphate induces conformational changes in the protein, this drives kinesin movement.
2. Pressing: How does a cell ‘talk’ to a kinesin? Are there any options are there other than stop/go?
3. Presentation: Mechanics of transport by multiple kinesins.
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ReplyDeleteJPW