Bke2 Biochemistry Exercises

Web/computer intro
The purpose of this exercise is to familiarize yourself with the Bke2 course web site, and to make sure you master basic computer skills. You will also come across a few questions related to biochemistry.

The rest of this page is a web-form that you shall fill in. Finally you press the send button at the bottom of the page and your answers will be sent by e-mail to the course leader. Be careful while surfing around, not to loose the browser window with this page and your answers. It is not fun if you must start all over again. Often you can recover by pressing the "Back" button in the window where you had your answers. If you are lucky they have been saved and will pop up again. And do not press "Send" many times because that will send many e-mails to me and my In-box will be full enough anyway.

Sometimes when you click on a link you dont see that anything happens. Often the page actually has been retreived, but is opened in another window, which is minimized at the bottom of your screen or hidden behind other windows. Look around and you will probably find it.

First read through all this page, then start following the instructions and answer the questions.

Do you have your own computer?
Yes No

Do you have access to internet and the web from home?
Yes No

Previous experience of the WWW:

Previous experience of email:

For the rest of the exercise you need to open a second Netscape Navigator (or Explorer) window for browsing. Go the the Bke2 web site. Keep this window open and answer the questions below as you go along.

In the new window, click "Home" on the green menu to the left, which will take you back to the Bke2 starting page. Look under "News" on this page if there are any news since last time you visited.

Click "Course Elements" on the green menu to the left, and then go to the Info page. You have already been given a printout of this page. You should read this page carefully since it contains important information about the course.

Find and follow the link to the web companion for the course textbook. Find the first set of multiple choice questions ("Practice Exercises I") for chapter 1, and answer question 5:

As you have by now seen and heard several times, the "Course Elements" section of the web site has information about the scheduled parts of the course, such as lectures, labs, exercises etc. The "Self Study Resources" contains material that you can and should use to help you in your biochemistry studies. Go to this section of the site now. Take a look at the table of contents to find out what this section contains.

Now go to the Structure Gallery. Look at ATP (link under "Co-enzymes). Make sure that you are able to rotate the molecule. Try some of the options to change how the molecule is displayed. (You might want to look at the Chemscape Chime instructions to find out how to do this).

What sugar residue does ATP contain?

What is the main use of ATP in living cells?

Now look at the redox protein cytochrome c in the Structure Gallery. What does this molecule have in common with myoglobin?

Go to the Links page.
What kind of information can be found in the PDB data base?

Follow the link to the PDB. How many structures are currently stored at the PDB?

On the left side of the page there is a picture. Save a copy of this picture in a Word document.

Click on the "SearchLite" link under the heading "Search the Archive" below the input text-box in the middle of the PDB window. Do a search for "myoglobin". How many myoglobin structures are there in the PDB? What does myoglobin do?

Enter the answers in the same document where you saved the picture. Send the document as an attachment with an e-mail (Subject/Ämne: Web intro bild) to jerry@xray.bmc.uu.se

Go to the Tables page in the Self Study section of the Bke2 web site.

What type of molecule is Histidine? What pKa does it have?
(Hint: Use the browser to find the word on the page)

What is the charge of a carboxylic acid under normal biological conditions?

What is a typical length of a hydrogen bond?

Go to the Dictionary page and look up the word "buffer" in the Biochemical glossary. What did this glossary tell you about "buffer"? Why are buffers important in biochemistry?

What does Biotech's Life Science Dictionary say that an essential amino acid is?

Go to the People section.
Send email to yourself and confirm that it worked. If OK, just write OK.
- If you have another e-mail address that you prefer would be on the list, write it down below.
- If you didn't recieve your mail, or if your name is not on the list please state the problem here.

Enter your name here:

Enter your email address here:

If you're done with the exercise, click "Send"

You shall get up a page that confirms that the form has been sent and a list of the answers that you have filled in. Dont panic if you dont see the confirmation. It was probably opened in another window. Look around before you try the "Send" button again.

Exercise index

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