Goals of Course: Prepare students for work in a laboratory setting
 Give students an understanding of the behavior of proteins in the laboratory

Expected Outcomes of Course: Students should be able
To learn how to maintain a laboratory notebook
 To understand of the basic laboratory techniques used in the field of protein chemistry
 To learn to plan, prepare and complete a laboratory using resources available on the web and from the literature
 To learn to use chemicals and equipment in a safe manner.
 To write effective reports presenting laboratory results clearly and succinctly.
  To relate topics discussed in the lecture course to real applications in the laboratory.
 To improve problem solving and data analysis skills.
  To develop the ability to investigate chemical literature.
 To present laboratory results orally.
Credit-Hours:  1-3hour laboratory each week.
Course Description: Designed to accompany CHEM 415, this course focuses on laboratory protocols for the purification, quantification, and analysis of protein structure function used in industry and research. Computer-assisted structure prediction and analysis will also be used. Prerequisites: CHEM 315; 317; 350(co requisite) and 352 or 353. Concurrent registration in CHEM 415 is required.

Required Materials:
Laboratory safety glasses or goggles, bound notebook.  Suggested Materials: Lab coat or apron, or old clothing
 

Calender

Week	start Date	Laboratory  Prelab write ups are due at noon the school day before the lab
1	31 Aug	Check-in; notebook discussion; course discussion/laboratory preparation  Lab Clean up.   Calculations preparation for Buffer laboratory  Lec. week One
2	Sept 7	Preparation and analysis of Buffers. Lec. week two answers to problem set
3,4,	Sept 14 Sept 21	Preparation of reagents for protein assays. Standard Curves - Comparison of assays for the determination of protein biomass Protein assay spread sheet   UV vis discussionWeek 3   Problem set 2  Due Oct 1
5,6	28Sept 5Oct	Size determination of proteins SDS-PAGE  and Gel filtration  Additional info SDS PAGE  and Gel filtration, SDS PAGE  direct links to:  GE PDF  and O'Farrall
7	12 Oct	Semester slide week Built in to give us time to catch up if needed Buffer problem set 3 if we are all caught up see next lab
8,9	19 Oct, 26 Oct	Lab Info Crystallization Screening  (You will follow this for 2 weeks) Protein choices Information on the kit we are using and instructions for use New buffer problem set  :-D.  Crystallization Data
10, 11	2 Nov, 9 Nov	Designing a Binding constant laboratory Experimental constraints.  Read sections 3.1 3.2 and 3.4 of Robyt and White.    Paper on NAD NADH fluoressence
12,13	16 nov 23 nov, 30 nov	Basic protein purification
14		Presentations/lab cleanup
15		Presentations/lab cleanup

Philosophy:
This laboratory may be different than others you have taken. You will be responsible for planning, setting up and completing your laboratories. For each experiment you will be give a task and some resources to allow you to begin to plan your work. You must seek additional resources as needed. In the laboratory, you will make your own solutions, standards, etc. You will also figure out how to make these solutions and preparations you may work as teams on this but all of you need to record the methods and materials used. This laboratory will begin to prepare you for a laboratory technical position or for graduate research training. Of course this means that the laboratory will not always operate smoothly. Sometimes you will be confused and even frustrated, but if you persevere you will accomplish the assignment.  I am willing to spend time with you to help you parse out the details for the experiments  for the first few experiments I will provide some guidelines as to how to accomplish this.

Laboratory notebooks:
This is a summary, please see linked page for details.  A laboratory notebook MUST be kept. This notebook should have a permanent binding with numbered pages (if not already numbered, you may do so in ink). Three ring binders or spiral notebooks are not acceptable. No carbon Copy books. If you are unsure whether a book is appropriate, show it to me BEFORE using it. A table of contents MUST be included; keep the table of contents current. Use pen only to write in your notebook. Never enter anything in pencil. Never erase or scribble out any entry your notebook.  Use of white out in a notebook will result in no credit for the days work.   If an error is made cross it out using a SINGLE line through the error, INITIAL and DATE the cross-out and write the correction above, below or to the right of the error. The error MUST be readable even after correction. You must use indelible ink to write in the notebook.  Use of a felt tipped marker is not acceptable. You laboratory notebook will probably get wet at least once this semester. Marker ink runs and smears when wet. NEVER enter your laboratory data on a separate sheet for later entry in the notebook. Data MUST be entered in the notebook directly. Print outs should be taped into the notebook with the initials date and page written on the print out. The print out should be initialed and dated such that it spans both the print out and the page it is taped to. If you are working in pairs you should refer to your partners notebook and include a copy of the data in your notebook treated in the same fashion as the original data.  Notebooks will be collected Tuesday evening (under my door when I arrive on Wednesday morning.) during the semester and checked for completeness of preparatory work and collected again after laboratory on a irregular basis to check on completeness of data collection. The grade will be based on organization and completeness. Notebooks should be readable; however, as this is a working document, I realize that it will not be as neat as a handed in assignment. All calculations which are part of the laboratory book MUST be included in your notebook. Incomplete notebooks will be penalized. Do not leave the laboratory without a complete record of your data. Do not rely on a laboratory partner to keep the data or provide data later. Lack of data or problems with a lab partner are not valid excuses for late or incomplete assignments. More details on
Preparation for Lab:
YOU MUST COME TO LAB PREPARED. This includes reading, studying, planning and preparing the laboratory in your notebook.  Your notebook must contain your preliminary procedure and instructions/calculations needed to complete the work.  All calculations which are part of the laboratory book MUST be included in your notebook.  This procedure should be included in your laboratory notebook in the format suggested.  The procedure should be in your own words, not copied directly from the text/web or other handouts/papers.  You may bring your handouts and text to lab for reference; however, you should follow the procedure as directed in your notebook Completing these labs in the time required will be challenging. If you are unprepared, it will be impossible.  "Extra" time will not be granted.  If you are unprepared you will be excused from lab for that day and a grade of 0 will be recorded for that laboratory, no exceptions. Laboratory notebooks will be worth 50% of each laboratory.
Laboratory Reports and Due Dates:
Each laboratory report will be worth 50 % of the points for a given assignment. Laboratory reports must be typed/word processed. They WILL NOT be accepted hand written. Laboratory report instructions specific to each assignment will be accessible on the web page in the course schedule section of the syllabus.

Due Dates:
Laboratory report due dates are generally two weeks after completion of the laboratory, allowing ample time to complete the assignment. Laboratory reports are due at the BEGINNING of the laboratory period or if we do not meet on a particular date by 3:00 PM. Reports turned in after this time will be docked 10 points for each 24 hour period late. After 3 days (Saturday and Sunday are two days!), a late report will not be accepted and a grade of 0 will be entered for the assignment.  Short Report

Grading
Each Laboratory will be worth 200 points 100 for the note book and 100 for the report for a total of 1200 pts. Grades will be assigned at the pleasure of the instructor.  The following point percentages will result in the corresponding minimum grades because they presumably demonstrate the corresponding understanding.
>85% A Student demonstrates an ability to understand the course material and to apply the material to new problems and situations. Student understands the connections between this course and other science courses and how the material relates to the world today,
>70% B Student demonstrates an ability to understand the course material. Student is able to apply the material to new problems and situations to a limited extent.
>65% C Student demonstrates an ability to understand facts relative to course material.
>50% D Student demonstrates a partial ability to understand facts relative to course

material.
<50% Failing grade Unacceptable