Biochemistry 201

Advanced Molecular Biology

Winter 2000

Background Reading

Date Topics

January 5 & 7DNA Structure & Topology

Stryer Chapters 4 and 31

Lewin Chapters 4 & 5

Jan 10 Chromatin structure

Stryer Chapter 37

Lewin Chapters 26 & 27

January 12 Protein Structure, Architecture & Folds

Stryer Chapters 2 and 3

Lewin Chapter 1

Protein Functional Motifs

Stryer Chapters 8 and 9

Lewin Chapter 1

January 14 Literature Review on Chromatin Remodeling

Cairns, B. R., Lorch, Y., Li, Y., Zhang, M., Lacomis, L., Erdjument-Bromage, H., Tempst, P., Du, J., Laurent, B. and Kornberg, R. D. (1996). RSC, an essential, abundant chromatin-remodeling complex. Cell, 87(7), 1249-60.

Lorch, Y., Zhang, M. and Kornberg, R. D. (1999). Histone Octamer Transfer by a Chromatin-Remodeling Complex. Cell 96: 389-392.

January 19 Enzymology of DNA Replication

Stryer Chapter 31

Lewin Chapters 14 & 15

January 21 Eukaryotic DNA Replication

Lewin Chapters 14 & 15

January 24 Enzymology of DNA Repair

Lewin Chapter 16

January 26 Mechanisms of DNA Repair

Lewin Chapter 16

January 28 Literature Review on Repair

Lahue, R. S., Au, K. G. and Modrich, P. (1989). DNA Mismatch Correction in a Defined System. Science, 245(14 July), 160-164.

Wood, R. D., Robins, P. and Lindahl, T. (1988). Complementation of the xeroderma pigmentosum DNA repair defect in cell- free extracts. Cell, 53(1), 97-106.

January 31Bacterial Transcription

Stryer Chapter 5

Lewin Chapters 11 & 13

February 2 Regulation of transcription

Stryer Chapter 33

Lewin Chapter 12

February 4 Literature Review on Transcription & Regulation

 Papers to be announced

February 7 Eukaryotic Transcription

Stryer Chapters 5 & 33

Lewin Chapter 28

February 9 Transcriptional Activation

Lewin Chapter 29

February 11 Literature Review on Eukaryotic Transcription factors

Ito, et al., (1999) Identity between TRAP and SMCC Complexes Indicates Novel Pathways for the Function of Nuclear Receptors and Diverse Mammalian Activators. Molecular Cell, 3, 361-370.

Apone, et al., (1999) Broad, but Not Universal, Transcriptional Requirement for yTAFII17, a Histone H3-like TAFII Present in TFIID and SAGA Molecular Cell, 2, 653-661.

February 14 RNA Structure & Metabolism

Stryer Chapter 33

Lewin Chapter 30

February 16 RNA Modifications, Splicing

Lewin Chapter 31

February 18 Literature Review on RNA processing

Ferré-D'Amaré, A. R., Zhou, K. and Doudna, J.A.,(1998) Crystal Structure of a hepatitis delta virus ribozyme. Nature 395, 567-574.

Herschlag, D. (1998) Ribozyme crevices and catalysis. Nature 395, 548-549.

Raghunathan, P. L, Guthrie, C. (1998) A spliceosomal recycling factor that reanneals U4 and U6 small nuclear ribonucleoprotein particles.Science 279, 857-860.

February 21 Presidents Day

February 23 Eukaryotic Translation

Stryer Chapter 34

Lewin Chapters 8 & 9

February 25 Regulation of translation

Lewin Chapter 10

February 28 Genomics

Lewin Chapters 20-24

March 1 Functional Genomics

March 3 Literature Review on Genomic Expression

Wang, D. G., et al. (1998) Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome. Science 280, 1077-82 .

Eisen. M. B., Spellman, P.T., Brown, P. O., Botstein, D. (1998) Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci U S A 95 14863-8

March 6 Determining Function from sequence

March 8 Determining Structure from sequence