# BIOL398-01/S11:Week 4

### From OpenWetWare

**This journal entry is due on Monday, February 07 at midnight PST** *(Sunday night/Monday morning)*. NOTE that the server records the time as Eastern Standard Time (EST). Therefore, midnight will register as 03:00.

## Contents |

## Individual Journal Assignment

- Store this journal entry as "
*username*Week 4" (i.e., this is the text to place between the square brackets when you link to this page). - Create the following set of links. (HINT: you can do all of this easily by adding them to your template and then using the template on your pages.)
- Link to your journal entry from your user page.
- Link back from your journal entry to your user page.
- Link to this assignment from your journal entry.
- Don't forget to add the "BIOL398-01/S11" category to the end of your wiki page.

### Terminology

- Explain the following terms in your own words.

- The Michaelis-Menten model of enzyme kinetics.
- The experiment required for the Lineweaver-Burk approach to estimating parameters for Michaelis-Menten.
- Chemostat reactor.
- Exponential growth.

### Applying Michealis-Menten Models

- Consider a single substrate being converted to product.

*E* + *S* ↔ *ES* → *E* + *P*
with an initial substrate concentration of 1.0 and an initial enzyme concentration of 0.05. Use the Michaelis-Menten matlab model to explore the following.

- Set k
_{1}= 2.0, k_{-1}= 0.0. Plot the substrate dynamics for k_{2}= 1.0, k_{2}= 2.0, k_{2}= 5.0, k_{2}= 10.0 all on the same graph to see the effect of this parameter. - Set k
_{1}= 2.0, k_{-1}= 1.0. Plot the substrate dynamics for k_{2}= 1.0, k_{2}= 2.0, k_{2}= 5.0, k_{2}= 10.0 all on the same graph to see the effect of this parameter. - Set k
_{1}= 2.0, k_{-1}= 5.0. Plot the substrate dynamics for k_{2}= 1.0, k_{2}= 2.0, k_{2}= 5.0, k_{2}= 10.0 all on the same graph to see the effect of this parameter.

You may use the matlab code provided at my lionshare folder.

### Estimating Michaelis-Menten Parameters

- Consider the following data:

[S] = 11.0, 16.7, 20.0, 25.0, 33.3, 50.0

V = 0.00952, 0.01111, 0.01282, 0.01515, 0.01852, 0.02128

Apply the Lineweaver-Burk technique to determine Vmax and K.

## Shared Journal Assignment

- Store your journal entry in the shared Class Journal Week 4 page. If this page does not exist yet, go ahead and create it (congratulations on getting in first
**:)**) - Link to your journal entry from your user page.
- Link back from the journal entry to your user page.
- Sign your portion of the journal with the standard wiki signature shortcut (
`~~~~`

). - Add the "BIOL398-01/S11" category to the end of the wiki page (if someone has not already done so).

### Reflection

- What was the purpose of this assignment?
- What aspect of this assignment came most easily to you?
- What aspect of this assignment was the most challenging for you?
- What (yet) do you not understand?