Chem 110L Introductory Biochemistry Laboratory

Lecturer:

Dr. Kalju Kahn
Office: 2623 PSB-N
Office hours:
Phone: 893-6157
E-mail: kalju@chem.ucsb.edu
Web site: http://www.chem.ucsb.edu/~kalju

Teaching Assistants

Section 1 (TR 2-5:50):		Joanna Deek			jdeek@chem.ucsb.edu
	Office hours: Mon 3-4 PM, MRL ???? 			

Section 2 (TR 6-9:50):		Tyronne	Martin			tmartin@chem.ucsb.edu
	Office hours: Mon 11-12 AM, PSB-N 4650A 	

Section 3 (WF 2-5:50):		Doug Matje			dmatje@chem.ucsb.edu
	Office hours: Mon 3-4, Thu 1-2, PSB-N 1005C 		    	

Section 4: (MW 6-9:50):		Robert Levenson			rlevenson@chem.ucsb.edu
	Office hours: Wed 10-11 AM, PSB-N 1005C 		    	

Mission statement

The purpose of Chem 110L is to offer hands-on experience with modern methods of separation, identification, and characterization of biomolecules. The course will strengthen your understanding of material taught in Chem 142A (Biochemistry Lecture). In Chem 110L, you will do experiments with biomolecules such as nucleic acids, proteins, sugars, and lipids. The 1 hour lecture series focuses on principles behind each experiment, and explains instrumental techniques and methods that you will use to accomplish your goals.

Schedule for Fall 2006

	Lecture:        Mon 2:00-2:50   Place:  Pheps Hall 3505
	
	Lab section 1:  Tue 2:00-5:50;  Thu 2:00-5:50;
	Lab section 2:  Tue 6:00-9:50;  Thu 6:00-9:50;
	Lab section 3:  Wed 2:00-5:50;  Fri 2:00-5:50;
	Lab section 4:  Mon 6:00-9:50;  Wed 6:00-9:50;
	  
	Lab sections are in PSB-N 2619 unless otherwise noted

Experiments

Students in the class do not have to purchase the laboratory manual. Each chapter of the lab manual can be downloaded here in the PDF format. Please note that you can follow hyperlinks that are in the PDF files by clicking on the link. Links to external literature sources are given later below.

Student Files

Lab Computer Mirror

Student files on the E:\ disk on the computer are mirrored in the MW6, TR2, TR6, and WF2 directories.

Microscopy Images: 2005

These images of bovine pulmonary arterial epithelial cells were recorded using a fluorescence microscope during visit to UCSB's Microscopy Facility. On the right is a color image obtained by combining three individual images, each showing one component of the cell. Below are three images of the same object, taken with a fluorescence microscope at three different wavelengths. An appropriate combination of these three files will give the color image of the cell, similar to the one shown on the right. You can click on each image to download the high-resolution file.

Nuclei	Microtubules	Actin

Brightfield	Nomarski	Darkfield

Microtubules	Nuclei	Combination

Unfiltered	Red Filter	Green Filter

Proteomics: Gel Images

One of the projects in Chem 110L involves "discovery" of cold-induced proteins in ivy. Students will identify proteins that show either up- or down-regulation in expression upon cold-treatment. The identification is based on the comparison of the protein composition of normal and cold-stressed plants using 2D electrophoresis. This technique separates proteins first according to their isoelectric point values, and then, in a perpendicular dimension, according to the molecular weight.

Two different isoelectric focusing strips (pH 4-7 and pH 3-10NL) were used by students in different sections. The file here shows the pH versus distance profiles in these strips. You may find this reference map of Arabidopsis proteins helpful for analysis of proteins in ivy. Keep in mind that these are different plants, but in general most plant proteins tend to be similar to each other, especially in moleculr weight. If you have trouble comparing the two gels, check out this visual guide.

Proteomics	Warm Plant pH 4-7 IEF	Cold Plant pH 4-7 IEF
Ivy Gels '06
Proteomics	Warm Plant pH 3-10 IEF	Cold Plant pH 3-10 IEF
Ivy Gels '06

Proteomics	Warm Plant pH 4-7 IEF	Cold Plant pH 4-7 IEF
Arabidopsis 2004

Thin layer chromatography

One of the projects in Chem 110L involves qualitative analysis of sugars present in grapes and milk using thin layer chromatography. The image below is a representative sample. Students in the class may use this image for preparing their "Scientific Communication" about the discovery of milk and grape sugars.

Student Plates TR2 Students TR6 Students WF2 Students MW6 Students

Biochemistry Links

Protein Data Bank
PyMOL Molecular Visualization Program
Biomolecular Visualization Examples with PyMol.
Chemscape Chime to view 3D structures online.
How To View Stereo Pair Photographs
Stereo Viewing
Hints for studying biochemistry

UCSB links

UCSB General Catalog
UCSB Campus Map
UCSB Gold Login
UCSB Umail Access
Electronic Journals
UCSB Environmental Health and Safety
UCSB Rape Prevention Education Program