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     Cell & Molecular Physiology (PBIO-534)

Fall 2009 Syllabus

Thomas G. Sherman, PhD
Department of Physiology & Biophysics
office:    233 Basic Science Building
telephone:    202-687-7044
e-mail:    shermant@georgetown.edu

Lectures: Monday & Wednesday, 1:00 – 3:00 pm, C104 Med/Dent

                             Textbooks:      Required Texts:
                                                        Lehninger Principles of Biochemistry, Nelsen & Cox, 4th edition, or an equivalent text

                                                        Molecular Biology of the Cell, Alberts et al., 4th edition, Garland Science Publishing

                                                        Recommended Text:
                                                        Metabolism at a Glance, J.G. Salway, 2nd edition, Blackwell Science 

              On-line Textbooks:      Supplemental Texts (http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Books):

                                                        Biochemistry, Berg, Tymoczko & Stryer, 5th edition
 http://www.ncbi.nlm.nih.gov/books/bv.fcgi?call=bv.View..ShowTOC&rid=stryer.TOC&depth=2

                                                         Molecular Biology of the Cell, Alberts et al., 4rd edition, Garland Science Publishing
 http://www.ncbi.nlm.nih.gov/books/bv.fcgi?call=bv.View..ShowTOC&rid=mboc4.TOC&depth=2

                                                        Molecular Cell Biology, Lodish et al., 4rd edition, Freeman Press
http://www.ncbi.nlm.nih.gov/books/bv.fcgi?call=bv.View..ShowToc&rid=mcb.TOC&depth=2

               SECTION 1:                          PROTEIN STRUCTURE AND FUNCTION

   1        Wed     Sept 02                      Introduction & Overview: Cell Theory, Cell Signaling, Organic Chemistry Review
General Reference: MCB Chapter 1, pp 3-44; Chapter 15, pp 831-838

   2                                                          Water, Molecular Interactions, Amino acids & the Peptide Bond
Lehninger Section 1.2; Chapter 2-2.2, pp 45-65; Chapter 3-3.1, pp 75-85
MBC Chapter 2, pp 47-64; MBC Panels 2-1, 2-2, and 2-3, pp 110-115

   3        Wed     Sept 09                      Protein Structure
Lehninger Chapter 3.2, pp 85-89; Chapter 4, pp 116-153

   4                                                          Structure/Function Relationships of Proteins: Myoglobin & Hemoglobin
Lehninger Chapter 5-5.1, pp 157-174

   5        Mon     Sept 14                      Enzyme Kinetics 1: properties of enzymes
Lehninger Chapter 1, pp 23-27; Chapter 6-6.3, 6.5, pp 190-213

   6                                                          Enzyme Kinetics 2: Michaelis-Menten kinetics
Lehninger Chapter 6-6.3, 6.5, pp 190-213

   7        Wed     Sept 16                      Enzyme Kinetics 3: regulatory strategies – allosteric control
Lehninger Chapter 6, p 213-233
http://www.ncbi.nlm.nih.gov/books/bv.fcgi?call=bv.View..ShowSection&rid=stryer.section.1323

   8                                                          Enzyme Kinetics 4: regulatory strategies – isozymes, modification, proteolysis
Lehninger Chapter 6, p 228-233
http://www.ncbi.nlm.nih.gov/books/bv.fcgi?call=bv.View..ShowSection&rid=stryer.chapter.1317

              SECTION 2:                          INTRODUCTION TO CELL & MOLECULAR BIOLOGY

   9        Mon     Sept 21                      Nucleic acids, DNA & Gene Structure
Lehninger Chapter 8-8.2, pp 273-291; Chapter 24, pp 921-931
MBC Panel 2-6; Chapter 4, pp 191-234; Chapter 5, pp 235-266

10                                                          Transcription & RNA Processing
Lehninger Chapter 26-26.2, pp 995-1021
MBC Chapter 6, pp 299-335

11        Wed     Sept 23                      Regulation of Gene Expression
Lehninger Chapter 28-28.1, pp 1081-1092
MBC Chapter 7, pp 375-415

12                                                          Protein Translation, Precursor Processing, Targeting, and Degradation
Lehninger Chapter 27.3, pp 1068-1077; Handout

              SECTION 3:                          INTRODUCTION TO TNSPORT AND SIGNAL TNSDUCTION

13        Mon     Sept 28                      Biological Membranes, Membrane Lipids and Membrane Proteins
Lehninger Chapter 10-10.2, pp 343-357; Chapter 11, pp 369-382
MBC Panel 2-5, pp 118-119; Chapter 10, pp 583-593; Chapter 12, pp 707-709

14                                                          Carrier Proteins and Active Membrane Transport
Lehninger Section 11.3, pp 389-416; Section 12.2, pp 425-429
MBC Chapter 10, pp 593-605, pp 608-613; Chapter 11, pp 615-631; Chapter 12, pp 689-701

15        Wed     Sept 30                      Introduction to Signal Transduction (MBC Chapter 15, pp 831-838)
Structure & Function of Ion Channels: Signaling via the Action Potential
Lehninger Section 12.2, pp 425-429; MBC Chapter 11, pp 631-656

16                                                          G Proteins, Adenylate Cyclase, and G-Protein-linked Cell Surface Receptors
Lehninger Chapter 12.4, pp 435-437, pp 462-463; MBC Chapter 15, pp 852-854

17        Mon     Oct 05                        Protein Kinases: cAMP-dependent Protein Kinase; Serine/Threonine Phosphatases
Lehninger Chapter 12, pp 437-442
MBC Chapter 3, pp 177-179; Chapter 15, pp 856-859, Figure 15-66

18                                                          Phospholipase Cb: Inositol Signaling, Calcium Homeostasis and Protein Kinase C
Lehninger Chapter 10.3, pp 357-358; 12, pp 442-445; MBC Chapter 15, pp 859-864

19        Wed     Oct 07                        Calcium/Calmodulin-dependent Protein Kinase
Lehninger Chapter 12, pp 442-445; MBC Chapter 15, pp 864-865

20                                                          Steroid Hormone Receptors and Coactivators
Lehninger Chapter 12, pp 424, 465-466
MBC Chapter 15, pp 839-841; Figure 15-14, p 842

   h        Wed     Oct 14                       Midterm Exam #1, 01:00 – 03:00 PM
 

              SECTION 4:                          INTERMEDIARY METABOLISM

22        Mon     Oct 19                        Introduction to Metabolism: bioenergetics & coenzymes
Lehninger Chapter 1.3, pp 21-26; Part II, pp 481-488; Chapter 13, 489-507
MCB Chapter 2, pp 68-75, pp 91-93; Salway Chapter 1, pp 10-11

23                                                          Carbohydrates: mono-, di- & polysaccharides
Lehninger Chapter 7, pp 238-254

24        Wed     Oct 21                        Glycolysis: overview & pathway
Lehninger Chapter 14-14.3, pp 521-543; Salway Chapters 5-6, pp 18-21
MCB Chapter 2, pp 94-99; Panel 2-8, pp 124-125; pp 106-108

25                                                          Gluconeogenesis: overview & pathway
Lehninger Chapter 14.4, pp 543-549

26        Mon     Oct 26                        Pentose Phosphate Pathway
Lehninger Chapter 14.5, pp 549-555

27                                                          The Coordinate Regulation of Glycolysis and Gluconeogenesis
Lehninger Chapter 15.2-15.3, pp 571-583; Chapter 23.1, pp 881-892    

28        Wed     Oct 28                        Citric Acid Cycle: overview & pathway
Lehninger Chapter 16, pp 601-620, p 671; MCB Chapter 14, pp 653–662; Panel 2-9

29                                                          Citric Acid Cycle: symmetrical reactions & regulation
Lehninger Chapter 16.3, pp 621-623; Salway Chapter 31; MCB Chapter 2, pp 99-102

30        Mon     Nov 02                      Oxidative Phosphorylation: reduction potentials & electron transport
Lehninger Chapter 19-19.1, pp 690-704
MCB Chapter 2, pp 102-103; Chapter 14, pp 767-793, pp 821-828

31                                                          Oxidative Phosphorylation: ATP formation
Lehninger Chapter 19.2-19.4, pp 704-722; Salway Chapter 2-3, pp 12-15

32        Wed     Nov 04                      Glycogen Metabolism: overview & pathways
Lehninger Chapter 15.1, pp 560-570; MCB Chapter 2, pp 103-104;

33                                                          Glycogen Metabolism: hormonal control & regulation
Lehninger Chapter 15.4, pp 583-591; Salway Chapters 28 and 29

34        Mon     Nov 16                      Lipid & Fatty Acid Metabolism: fatty acid catabolism
Lehninger Chapter 17, pp 631-639, pp 650-652; Salway Chapters 15, 33, 34, 35, 36, 37

35                                                          Lipid & Fatty Acid Metabolism: fatty acid biosynthesis
Lehninger Chapter 21-21.2, pp 787-808; Salway Chapters 10, 11, 13, 39

38        Wed     Nov 18                      Integration of Metabolism 2: starvation & diabetes
Lehninger Chapter 23.3, pp 902-910; Salway Chapters 20, 45, 46, 47, 48 and 49

39                                                          Integration of Metabolism 3: exercise & alcoholism
Salway Chapter 44 handout

   h        Mon     Nov 23                      Midterm Exam #2, 01:00 – 03:00 PM

              SECTION 5:          ADVANCED STTEGIES OF SIGNAL TNSDUCTION

41        Mon     Nov 30                      Nitric Oxide Signaling

                                                                Lehninger Chapter 12, p 433-435; Chapter 22, pp 860-861; Chapter 23, p 889;
MBC Chapter 15, pp 838-839

42                                                          Receptor Tyrosine Kinases, Receptor-Associated Tyrosine Kinases & Phosphatases
Lehninger Chapter 12.3, pp 429-433; MBC Chapter 15, pp 871-876, pp 886-887

43        Wed     Dec 02                       Proto-Oncogenes & Tumor Suppressors

                                                                Lehninger Chapter 12.10, pp 471-473; Chapter 26, pp 1021-1024
MBC Chapter 5, pp 289-293; Chapter 23, pp 1333-1340

44                                                          ras-Dependent Signaling Pathways

                                                                MBC Chapter 12.10, pp 429-431; Chapter 24, pp 1278–1280

45        Mon     Dec 07                       Signal Transduction-Coupled Transcription Factors

                                                                MBC Chapter 7, pp 395-415            

46                                                          Signaling Strategies: Insulin and the Insulin Receptor
Lehninger Chapter 12.10, pp 429-433; Chapter 12.5, pp 448-451

47        Wed     Dec 09                       The Cell Division Cycle
Lehninger Chapter 12.9, pp 466-470
MBC Chapter 17, pp 983-1009, pp 1014-1022; Panel 18-1, pp 1034-1035

48                                                          Programmed Cell Death (Apoptosis)
Lehninger Chapter 12.10, pp 473-474; MBC Chapter 17, 1010-1026

   h        ???        Dec ??                       Final Exam