Ch341

09/06/2006: Wednesday

Install Chime on your computer:
Get Chime, or locally for Windows: MDLChimeProSP6 and for Macintosh Netscape 4: Chime 2.6 SP3 Installer. The Chime installer files are also in the \\fileserver1\Academics\CHEM\CH341\Chime folder on the server.
Try out Chime on a molecule of the month: Anatoxin

09/08/2006: Friday

Read
Molecular Mechanics Tutorial, Introduction sections 1 and 3 (Force Fields and comparing structures) : Reading Due date 09/11/2006.

Print off and bring to lab Molecular Mechanics Exercises, Chapters 1: Building and Minimizing, 2: Conformational Preference of Methylcyclohexane, and 3: Geometry (You don"t need to read them in advance) : Printing Due date 09/11/2006.


09/08/2006: Friday

SAB 1.1-1.9,1.11 (SAB=Silbey,Alberty,Bawendi, "Physical Chemistry.")

09/11/2006: Monday

Handin Homework 1, : Due date 09/15/2006.

Van der Waals plot,

09/12/2006: Tuesday

Lab lecture in Keyes 114 (astrophysics lab) at 12:30

09/14/2006: Thursday

Calculus review: 8:00

09/18/2006: Monday

Homework (not to turn in) SAB Ch 1:2,4,6,9,10,11,17,21
Handin 2, : Due date 09/22/2006.


09/20/2006: Wednesday

Reading: SAB Ch. 2.1-5,7,11-13

09/22/2006: Friday

Homework (not to turn in) SAB Ch 2: 10,30,31,34,37,38

09/25/2006: Monday

View these
Corot paintings,
Handin 3, : Due date 09/29/2006.


09/27/2006: Wednesday

Reading SAB Ch 2.6,8,9
Microcal Pressure Perturbation Calorimetry Introduction,
Read for lab: Molecular Mechanics Tutorial, sections 2,4, and Section 6 pp. 35-38: Reading Due date 10/02/2006.

Print off and bring to lab Molecular Mechanics Exercises, Exercises: Chapt.4,6,11,12 (you don"t need to read these carefully, but read the introduction section to get an idea what you will be doing.): Reading and Printing Due date 10/02/2006.


09/28/2006: Thursday

Calculus review 7:30 PM, K102

09/29/2006: Friday

Homework (not to hand in): SAB Ch 2: 4,9,15,20,21

10/02/2006: Monday

Handin 4, : Due date 10/06/2006.


10/04/2006: Wednesday

The Creative Class,

10/05/2006: Thursday

Calculus review session 8:00 PM Keyes 102

10/06/2006: Friday

Reading SAB: Ch 3.6, 3.9 only for the test

10/09/2006: Monday

Handin 5, Questions 1 and 2 only!! : Due date 10/13/2006.

Reading SAB Ch 3.1-3 (not for the first test though)

10/13/2006: Friday

Handin due

10/18/2006: Wednesday

Handin 5, questions 3 and 4. : Due date 10/20/2006.

reading SAB Ch 3.1-4,7,8, CH 4.1,2
Sign up for Monday"s Lab on the front wall of the P/Q Lab

10/20/2006: Friday

Handin due

10/23/2006: Monday

Handin 6, : Due date 10/27/2006.


10/27/2006: Friday

Homework (not to hand in): SAB Ch 3: 4,5,6,7,8,14,17,29,39,40
Homework (not to hand in): SAB Ch 4: 4,5,18,29,33,34,36,37,42,43,44 (Other good problems: 3,14,33,39,40)
Quick Check Report Sheets due
Reading SAB Ch 4.1-4,6,7,9

10/30/2006: Monday

Reading SAB Ch 1.10, Ch 3.5, Ch 4.8, Ch 6.1-4
Handin 7, Problem 2 only. : Due date 11/03/2006.


11/03/2006: Friday

Print out, read, and bring to lab on Monday/Tuesday:
Techniques for Searching Databases of Three-Dimensional (3D) Structures with Receptor-Based Queries, : Due date 11/6/2006.

Print out, read the Introduction, QSAR Introduction, and Design and QSAR sections in: CAMD Tutorial, We will do "QSAR of Antitumor Activity in Aziridinyl Benzoquinones" and "Building a Receptor Model" in Lab. : Due date 11/6/2006.
Reading SAB 6.7

11/06/2006: Monday

Homework (not to hand in): SAB Ch 6: 2,4,7,8,19,28,35,36,46,47
Here"s the
CAMD, presentation from lab.
Hand 8 part 1, Handin 8 part 2, Due Wednesday : Due date 11/08/2006.


11/08/2006: Wednesday

Handin due

11/13/2006: Monday

Handin 9, : Due date 11/17/2006.


11/17/2006: Friday

For the lab read:
Molecular Mechanics Tutorial, Sections 5 (Dynamics) and 8 (Continum Solvation) : Due date 11/20/2006.

For the lab: Read the Introductions to and bring to lab: Molecular Mechanics Exercises, Chapters 9 and 10:"Conformational Preference of Small Peptides" and "Dynamics in Small Peptides" and Chapter 13 "Henry"s Law and Gibbs Free Energy of Solvation," : Due date 11/20/2006.

Handin due

11/20/2006: Monday

Lab due Lab due

11/27/2006: Monday

Homework (not to hand in): SAB Ch 5: 1,4,13,18,23,28,31,32,38
Handin 10, : Due date 12/01/2006.

Do CAMD Tutorial, "Determining a Pharmachophore" (use the Isis account on the PC"s with the same password as for the database) : Due date 12/01/2006.

Reading SAB Ch 6.6, Ch 5.1-5.9 (skip 5.10 and 5.11)

12/01/2006: Friday

Handin 10
ACE Pharmachophore Answer,
Handin 10 Poisson Equation Answers,
Reading SAB Ch 7.1-8, 7.10 (skip 7.9)

12/04/2006: Monday

Handin 11, Kinetics Mechanism Simulation : Due date 12/08/2006.

Reading SAB Ch 18.1-5

12/06/2006: Wednesday

Reading Ch 18.6-9, 18.11-12
Homework (not to turn in) SAB Ch 18: 2,7,11,14,20,26,33 and Ch 20: 17,27,51
Homework (not to turn in) SAB Ch 7: 4,7,9,12,17a,18a,20,22,34
Homework (not to handin), here are a few problems from Chapter 6 that weren"t covered on the second test: Ch 6: 30, 34(use the Henry"s Law constant for propanol of 37 kPa and just do the X(n-propnaol)=0.02 data point)

12/08/2006: Friday

Handin due

12/11/2006: Monday

Now available
Formula Sheet 3, Revised-current formula sheet

12/12/2006: Tuesday

Don"t forget the Review session 3:00 Keyes 102