Professor Dan Hebert will start teaching the second part of the course: Cellular Biochemistry.

From now on enter in Cellular Biochemistry when checking the web page.

Exams will be handed in on Wednesday 9.05AM. Exam 2 average 85, SD of 10.

X-Ray crystallography is a fundamental technique in biochemistry. Learn how to "read" and "interpret" the X-ray structural information provided in the literature.

BRING YOUR LAPTOP TO CLASS!!

Guest Lecture: Professor Karsten Theis: "Extracting information from published crystallographic data"

Read P&R Chapter 5.

Exam 2 next Wed 12 in class.

Office hours Monday 4-6PM and Tuesday 3 to 4 PM and 5 to 6PM. (MCB seminar from 4 to 5PM)

Review session.

Study Lecture 11 to Lecture 17 and discussed papers.

Last day for graduate students to drop with a "DR".

Exam 2 will cover from Lecture 11 to Lecture 17. Including the discussed papers.

Lipids, lipids mixtures, and membranes. Review on Localization and timing of signal transduction mediated by Protein-lipid Interactions.

Voet & Voet Chapter 12 (1,2,3A to C).

Review on membrane lipids.

Exam like problems to study Enzymes.

Paper Discussion. March 5. Protein Kinase C as a Molecular Machine for Decoding Calcium and Diacylglycerol Signals. 1) Cell. 1998; 95:307-18. 2) Review 3) Slides

Read Petsko and Ringe Chapter 3. Pay attention to the terms defined in this chapter.

Study examples of control of protein funtion and be prepare to describe them.

Paper Discussion. March 5. Protein Kinase C as a Molecular Machine for Decoding Calcium and Diacylglycerol Signals. 1) Cell. 1998; 95:307-18. 2) Review 3) Slides

Control of protein function.

Read Petsko and Ringe Chapter 3

Exam 1 key

Enzyme kinetics and control of protein function

Read Petsko and Ringe Chapter 2.6 to 2.9, and Voet and Voet Chapter 14.1-14.2 ( but I prefer the Lehninger

Principles of Biochemistry 3rd Edition. Chapter 8 Enzymes, pages 243 to 264, for this section).

Study guide for kinetics and thermodinamics.

Paper discussion: Scanning the membrane-bound conformation of helix 1 in the colicin E1 channel domain by site-directed fluorescence labeling.

Paper : 1) J.Biol. Chem. 2006 281, 885. 2) Review. 3) Study guide.

We will review the exam in class. Exam avearge 74 with SD of 14.

From structure to function: Binding and catalysis. Review.

Read Petsko and Ringe Chapter 2.6 to 2.9, and Voet and Voet Chapter 14.1-14.2 ( but I prefer the Lehninger

Principles of Biochemistry 3rd Edition. Chapter 8 Enzymes, pages 243 to 264, for this section).

Paper for next Wednesday: 1) J.Biol. Chem. 2006 281, 885. 2) Review. 3) Study guide.

Exams' results will be provided on Monday.

From structure to function: Binding and catalysis

Read Petsko and Ringe Chapter 2.6 to 2.9, and Voet and Voet Chapter 14.1-14.2 ( but I prefer the Lehninger

Principles of Biochemistry 3rd Edition. Chapter 8 Enzymes, pages 243 to 264, for this section).

Paper for next Wednesday: 1) J.Biol. Chem. 2006 281, 885. 2) Review. 3) Study guide.

Our first exam will be tomorrow Wednesday 20th in class. It will cover the first 9 lectures.

Review session

Review the posted power point slides. Practice Exam. Answer Key.

Our first exam will be next Wednesday 20th in class. It will cover the first 9 lectures. Review session next Tuesday (Monday schedule). Practice Exam.

Intramolecular interactions and interactions with other molecules: cooperativity.

Read Creighton Chapter 4.4 (page162-7) and 8.2.1 (page 338-340)

Our first exam will be next Wednesday 20th in class. It will cover the first 9 lectures. Review session next Tuesday (Monday schedule). Practice Exam.

Paper discussion: PNAS 2006 103, 9802. Review on the topic.

Use the Guide for paper discussion to analyze the paper.

Last day for graduates to drop with "DR".

Practice Exam. Assigment answers.

Paper for next week: PNAS 2006 103, 9802. Review on the topic.

Spectral Methods for Characterizing Protein Conformation and Conformational Changes

CD and Fluorescence spectroscopy. References.

Check this web page to visualize the effect of CD.

The book used for this lecture is on reserve. Paper for next week: PNAS 2006 103, 9802. Review on the topic.

Spectral Methods for Characterizing Protein Conformation and Conformational Changes

Absorption Spectroscopy.

Reading: Spectrophotometry & spectrofluorometry: a practical approach. Bashford and Harris editors.

Chapter 1 (1, 2, and 3 to 3.4). Chapter 2 (1 and 3 to 3.5). Chapter 3 (1 and 2)

Assigment is due on Wednesday. Sequences ADP-Glc PPase.

Paper discussion. JBC 2005, 280, 10189.

Assigment is due on Wednesday. Sequences ADP-Glc PPase.

Proteins domains, motifs, and quaternary structure.

Petsko and Ringe Chapter 1, sections 1.5-1.11

Paper for next Wednesday discussion: JBC 2005, 280, 10189. Review on ADP GlcPPases

Assigment is due next Wednesday. Sequences ADP-Glc PPase.

Physical interactions that determine the properties of proteins

Petsko and Ringe Chapter 1, sections 1.0, 1.1, 1.2, 1.3, 1.4, 1.9

Proteins. Creigthon Chapter 4

Paper for next Wednesday discussion: JBC 2005, 280, 10189. Review on ADP GlcPPases

Remember to bring your laptop to work on sequence alignments in class

Dot plots alignment: PDI

Sequences ADP-Glc PPase. To do in class. (Assigment is due next Wednesday).

Evolutionary and Genetic Origin of Protein Sequences. Sequence alignment.

Voet & Voet Chapter 7.4. Bioinformatics: An Introduction.

Interesting historical article on BLAST. Multiple Sequence Alignment Programs.

First day of classes

Get familiar with the web page. Voet & Voet Chapter 7.3 and 7.4 and Petsko and Ringe

Chapter 4, sections 4.0, 4.1, 4.2, 4.3

Movies Web site: click here.