Chemistry 136 - Advanced Biochemistry

Chemistry Department

Saint Mary's College of California

 

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Please click on the day to view the daily assignment
   
      January    
     
Mon Tue Wed Th Fri

28

 

29

 

30

 

31  
   
      February
 
     
Mon Tue Wed Th Fri
   

 

 

 

 

1

 

4

5

6

 

7

 

8

 

11 Spring Term Drop/Add

1) Course Syllabus
2) Review: Aqueous Solutions, Buffers

 

12 Spring Term Drop/Add

13 Spring Term Drop/Add

1) Intro to Molecular Modeling
2) Protein Structure: amino acids & peptide bonds, 1o - 2o structure

Lab1: Modeling
Prep Buffers

14 Spring Term Drop/Add

15 Spring Term Drop/Add

1) Review: Among other things basic thermodynamics and IF

 

18 Quiz 1

1) Molecular Modeling
2) Protein Structure:
secondary, tertiary, quaternary protein structure, motifs

19

Last Day to turn in Add/Drop form

20

1) Molecular Modeling
2) Protein Structure:secondary, tertiary, quaternary protein structure, motifs

Lab2: Intro to TOP
Enzyme Kinetics - review
TOP Assay

21

 

22

Work on Activity Assays

25 Quiz 2

1) Molecular Modeling
2) Protein Structure:secondary, tertiary, quaternary protein structure, motifs

26


27

Homology Modeling and Structure Prediction

Lab3: Finish Assays
Begin mutant assays
Assign - calc kcat/Km

28

 

29

Homology Modeling and Structure Prediction

 

 
      March    
     
Mon Tue Wed Th Fri

3

Methods I - X-ray crystallography, NMR

 

4

5

Protein Folding: In vitro part 1

Science paper - intro folding diseases -------- nature review on folding

Lab4: Presentation of kinetic data
Produce homolgy model of ratTOP
Discuss prep of TOP for denaturation

6

 

7

Protein Folding: In vitro part 1

Science paper - intro folding diseases -------- nature review on folding

Protein Folding: Methods II FTIR, HD exchange. CD

10

Protein Folding: Methods II CD, HD exchange. fluorescence

 

11

 

12

Protein Folding: Methods II CD, HD exchange. fluorescence

 

Lab5: Intro to protein fluorescence

13

 

14

Exam I

17 Easter Recess

18 Easter Recess

 

19 Easter Recess

 

20 Easter Recess

 

21 Easter Recess

 

24 Easter Recess

 

25

 

26

Protein Folding: Chaperones/Fail safes

Lab6: Unfolding of TOP in GuHCl

27

 

28

Protein Folding: Chaperones/Fail safes

31

Protein Folding: Research article

 

 

 

 

 

 

 

 

 

   
      April    
     
Mon Tue Wed Th Fri

 

1

 

2

Protein Synthesis: Review of RNA and DNA structure

Lab7: 1) Plot denaturation data 2) modeling of Trp in TOP
3) Analysis of solvent exposed Trp by collisional quenching with acrylamide

3

 

4

Protein Synthesis: A Tour of the Ribosome

7

Lipids: Biological Molecules - Lipids, Membranes

Lipids- Intro to lipids and lipid structure

8

 

9

Membrane transport : transport proteins

Lab8: 1) Plot denaturation data 2) modeling of Trp in TOP
3) Analysis of solvent exposed Trp by collisional quenching with acrylamide

10

 

11

Transport Systems Membrane Transport ATP powered pumps

14

Signal Transduction - Pathways

15

 

--

16

Presentations Protein Folding and Disease

Lab9: Binding of ANS, Scatchard Plots

17

 

18

Presentations Protein Folding and Disease

 

21

Signal Transduction - Molecular Circuits and disease (paper)

22

 

23

Drug Design: Introduction, Structure-based methods

Lab10: Project proposals due Notebook Due

Detection of Zn2+ using PAR
 

24

25 Exam II

 

28

Exam II - Group Discussion

 

29

 

30

Drug Design: Introduction, Structure-based methods

Lab: Independent Projects

 

 

 

Drug Design: Introduction, Structure-based methods

 

   
      May    
     
Mon Tue Wed Th Fri

 

 

 

 

 

1

 

2

 

5

Carbohydrates- Carbohydrates, intro to function and structure

6

7

Carbohydrates - Carbohydrates, intro to function and structure

Lab: Independent Projects

 

8

 

9

Carbohydrates - O-linked carbohydrates in cell signaling

Defensive sugars of HIV

12

Carbohydrates - defensive sugars and drug design

The immune system

 

13

 

14 The immune system

Lab Presentations

15

 

16 Last day of Spring classes

Last Paper!

19

Final Exams Week

20

Final Exams Week

21

Adv Biochem Final

22

Final Exams Week

23

 

26 Commencement

 

27

28 Spring Grades on Gael

 

29

 

30