Biochemistry Enzyme Project Worksheet

I am working on an enzyme project, I did the first part of the project and it is in the file below, you can use the references or add new references

enzyme name:

1-to find more information to expand further on those aspects, by reading the published references you had collected before (not just what the three protein databases had provided in paragraphs)

2-For new things listed below, search and find the information. This new information may be either in the references that you had collected before or new ones you need to find from Brenda’s database menu and the references from this database

3-You can also use other databases of your choice, beyond the three you had used before.

the steps:

1)Introduction: You already have all of the following information from the previous submission (in the file below). Just reorganize to include ONLY the following aspects in the Introduction section.

Name of the enzyme or recommended name

Systematic name

Alternate names (= synonyms)

E.C. Number

Which Main Class, Subclass, or SubSubClass your enzyme belong to.

In addition to humans, which other organisms it is present in?

Within the eukaryotes, which organs/tissues/cells?

What is the subcellular localization?

The following expectations apply not only to Introduction section, but also for all other sections in your report:

Make sure proper references are cited (author, year) in the paragraph statements. These should be the actual publications. Do not simply cite the Database this time. If one student did not find reference in her specific database last time, your team mates will have it.

Make sure you use correct grammar and spelling. The information you found are paraphrased in your own words, no direct copy and paste for statements. No plagiarism.

When writing the statements, do NOT use first person (I, we, us, our, etc); Likewise, do not use second person either (they, then, their, etc). And do NOT use direct statements; they should all be indirect statements.

For e.g. this is wrong: “We found the enzyme name as “aldolase”. Instead write it as “the enzyme is known as aldolase.

Likewise, it is wrong to state: These researchers found the enzyme in kidney of humans. Instead, state is as “ the enzyme has been found to be present in kidneys in humans” and give the authors name and year.

2)Reactions Catalyzed by the enzyme: (you/your team already have this from previous step-2 of the project. Include it under this title, with actual publications references.)

Which major reaction or substrate it catalyzes (can be humans and other organisms if the enzyme is present in different organisms.

Other reactions or substrates it catalyzes (if any): Give 3 examples if more than 3 are found

Write the reaction equation for the main substrate catalysis

Include the structural diagrams (remember! A good way to insert it in your report is by inserting it in a text box).

Make sure the figure gets a figure number and title. At the end of the title, give the author name and year, to show from which reference this diagram was taken, not just the database).

3)Mechanism and Kinetics of the Main Reaction Catalyzed (for the main reaction you chose in previous section #3):

You must find allof the following new information listed below. If you cannot find it for human enzyme it is OK to include it for other organisms.

And you may have to go back to Brenda site, bring up your enzyme through the E.C. Number, and click on the “Cofactor” and “enzyme-ligand interactions” menu on the left side. You will find the information. But make sure you get those references listed and read them to find all the details needed. Database might not directly give the full information.

oCofactors and metal ions or other compounds the enzyme needs for its function

oActive site and allosteric sites information with regard to the binding of the substrate and cofactors.

oIntermediates formed (if any)

oThe mechanisms of the reaction (for example, if it is oxido-reductase Main class, how did the electron transfer happen, at which parts of the substrate and in the cofactor, and so on……

oAre there any conformational changes to the structure of the enzyme when the substrate binds?

oInclude any diagrams you find from the actual reference articles from these databases, and give figure numbers, description and author, year

oKinetics Details for at least one substrate and at least for one organism (human or another organism, if details are not available for human enzyme)

§In the Brenda site, look under “functional parameters” main menu on the left side of the enzyme page. All the kinetic details links are provided. But in this part of the report we need only:

o Km, Vmax, Kcat Turn over number, specific activity, pH and temperature information