Chapter 31

Where to Start

Ptashne, M. 2014. The chemistry of regulation of genes and other things. J. Biol. Chem. 289:5417–5435.

Pabo, C. O., and Sauer, R. T. 1984. Protein–DNA recognition. Annu. Rev. Biochem. 53:293–321.

Ptashne, M., Johnson, A. D., and Pabo, C. O. 1982. A genetic switch in a bacterial virus. Sci. Am. 247:128–140.

Ptashne, M., Jeffrey, A., Johnson, A. D., Maurer, R., Meyer, B. J., Pabo, C. O., Roberts, T. M., and Sauer, R. T. 1980. How the lambda repressor and Cro work. Cell 19:1–11.

Books

Ptashne, M. 2004. A Genetic Switch: Phage 3 Revisited (3d ed.). Cold Spring Harbor Laboratory Press.

B37

McKnight, S. L., and Yamamoto, K. R. (Eds.). 1992. Transcriptional Regulation (vols. 1 and 2). Cold Spring Harbor Laboratory Press.

Lodish, H., Berk, A., Kaiser, C. A., Krieger, M., Bretscher, A., Pleogh, H., Amon, A., and Scott, M. P. 2012. Molecular Cell Biology (7th ed.). W. H. Freeman and Company.

DNA-Binding Proteins

Balaeff, A., Mahadevan, L., and Schulten, K. 2004. Structural basis for cooperative DNA binding by CAP and lac repressor. Structure 12:123–132.

Bell, C. E., and Lewis, M. 2001. The Lac repressor: A second generation of structural and functional studies. Curr. Opin. Struct. Biol. 11:19–25.

Lewis, M., Chang, G., Horton, N. C., Kercher, M. A., Pace, H. C., Schumacher, M. A., Brennan, R. G., and Lu, P. 1996. Crystal structure of the lactose operon repressor and its complexes with DNA and inducer. Science 271:1247–1254.

Niu, W., Kim, Y., Tau, G., Heyduk, T., and Ebright, R. H. 1996. Transcription activation at class II CAP-dependent promoters: Two interactions between CAP and RNA polymerase. Cell 87:1123–1134.

Schultz, S. C., Shields, G. C., and Steitz, T. A. 1991. Crystal structure of a CAP-DNA complex: The DNA is bent by 90 degrees. Science 253:1001–1007.

Parkinson, G., Wilson, C., Gunasekera, A., Ebright, Y. W., Ebright, R. E., and Berman, H. M. 1996. Structure of the CAP-DNA complex at 2.5 Å resolution: A complete picture of the protein–DNA interface. J. Mol. Biol. 260:395–408.

Busby, S., and Ebright, R. H. 1999. Transcription activation by catabolite activator protein (CAP). J. Mol. Biol. 293:199–213.

Somers, W. S., and Phillips, S. E. 1992. Crystal structure of the met repressor-operator complex at 2.8 Å resolution reveals DNA recognition by β-strands. Nature 359:387–393.

Gene-Regulatory Circuits

Johnson, A. D., Poteete, A. R., Lauer, G., Sauer, R. T., Ackers, G. K., and Ptashne, M. 1981. Lambda repressor and Cro: Components of an efficient molecular switch. Nature 294:217–223.

Stayrook, S., Jaru-Ampornpan, P., Ni, J., Hochschild, A., and Lewis, M. 2008. Crystal structure of the lambda repressor and a model for pairwise cooperative operator binding. Nature 452:1022–1025.

Arkin, A., Ross, J., and McAdams, H. H. 1998. Stochastic kinetic analysis of developmental pathway bifurcation in phage lambda-infected Escherichia coli cells. Genetics 149:1633–1648.

Post-transcriptional Regulation

Kolter, R., and Yanofsky, C. 1982. Attenuation in amino acid biosynthetic operons. Annu. Rev. Genet. 16:113–134.

Yanofsky, C. 1981. Attenuation in the control of expression of bacterial operons. Nature 289:751–758.

Miller, M. B., and Bassler, B. L. 2001. Quorum sensing in bacteria. Annu. Rev. Microbiol. 55:165–199.

Zhang, R. G., Pappas, T., Brace, J. L., Miller, P. C., Oulmassov, T., Molyneaux, J. M., Anderson, J. C., Bashkin, J. K., Winans, S. C., and Joachimiak, A. 2002. Structure of a bacterial quorum-sensing transcription factor complexed with pheromone and DNA. Nature 417:971–974.

Soberon-Chavez, G., Aguirre-Ramirez, M., and Ordonez, L. 2005. Is Pseudomonas aeruginosa only “sensing quorum”? Crit. Rev. Microbiol. 31:171–182.

Historical Aspects

Lewis, M. 2005. The lac repressor. C. R. Biol. 328:521–548.

Jacob, F., and Monod, J. 1961. Genetic regulatory mechanisms in the synthesis of proteins. J. Mol. Biol. 3:318–356.

Ptashne, M., and Gilbert, W. 1970. Genetic repressors. Sci. Am. 222(6):36–44.

Lwoff, A., and Ullmann, A. (Eds.). 1979. Origins of Molecular Biology: A Tribute to Jacques Monod. Academic Press.

Judson, H. 1996. The Eighth Day of Creation: Makers of the Revolution in Biology. Cold Spring Harbor Laboratory Press.