Chapter 3

Where to Start

Sanger, F. 1988. Sequences, sequences, sequences. Annu. Rev. Biochem. 57:1–28.

Merrifield, B. 1986. Solid phase synthesis. Science 232:341–347.

Hunkapiller, M. W., and Hood, L. E. 1983. Protein sequence analysis: Automated microsequencing. Science 219:650–659.

Milstein, C. 1980. Monoclonal antibodies. Sci. Am. 243(4):66–74.

Moore, S., and Stein, W. H. 1973. Chemical structures of pancreatic ribonuclease and deoxyribonuclease. Science 180:458–464.

Books

Methods in Enzymology. Academic Press.

Wilson, K., and Walker, J. (Eds.). 2010. Principles and Techniques of Practical Biochemistry (7th ed.). Cambridge University Press.

B2

Van Holde, K. E., Johnson, W. C., and Ho, P.-S. 1998. Principles of Physical Biochemistry. Prentice Hall.

Wilkins, M. R., Williams, K. L., Appel, R. D., and Hochstrasser, D. F. 1997. Proteome Research: New Frontiers in Functional Genomics (Principles and Practice). Springer Verlag.

Johnstone, R. A. W. 1996. Mass Spectroscopy for Chemists and Biochemists (2d ed.). Cambridge University Press.

Kyte, J. 1994. Structure in Protein Chemistry. Garland.

Creighton, T. E. 1993. Proteins: Structure and Molecular Properties (2d ed.). W. H. Freeman and Company.

Cantor, C. R., and Schimmel, P. R. 1980. Biophysical Chemistry. W. H. Freeman and Company.

Protein Purification and Analysis

Blackstock, W. P., and Weir, M. P. 1999. Proteomics: Quantitative and physical mapping of cellular proteins. Trends Biotechnol. 17:121–127.

Deutscher, M. (Ed.). 1997. Guide to Protein Purification. Academic Press.

Dunn, M. J. 1997. Quantitative two-dimensional gel electrophoresis: From proteins to proteomes. Biochem. Soc. Trans. 25:248–254.

Scopes, R. K., and Cantor, C. 1994. Protein Purification: Principles and Practice (3d ed.). Springer Verlag.

Aebersold, R., Pipes, G. D., Wettenhall, R. E., Nika, H., and Hood, L. E. 1990. Covalent attachment of peptides for high sensitivity solid-phase sequence analysis. Anal. Biochem. 187:56–65.

Ultracentrifugation and Mass Spectrometry

Steen, H., and Mann, M. 2004. The ABC’s (and XYZ’s) of peptide sequencing. Nat. Rev. Mol. Cell Biol. 5:699–711.

Glish, G. L., and Vachet, R. W. 2003. The basics of mass spectrometry in the twenty-first century. Nat. Rev. Drug Discov. 2:140–150.

Li, L., Garden, R. W., and Sweedler, J. V. 2000. Single-cell MALDI: A new tool for direct peptide profiling. Trends Biotechnol. 18:151–160.

Yates, J. R., 3d. 1998. Mass spectrometry and the age of the proteome. J. Mass Spectrom. 33:1–19.

Pappin, D. J. 1997. Peptide mass fingerprinting using MALDI-TOF mass spectrometry. Methods Mol. Biol. 64:165–173.

Schuster, T. M., and Laue, T. M. 1994. Modern Analytical Ultracentrifugation. Springer Verlag.

Arnott, D., Shabanowitz, J., and Hunt, D. F. 1993. Mass spectrometry of proteins and peptides: Sensitive and accurate mass measurement and sequence analysis. Clin. Chem. 39:2005–2010.

Chait, B. T., and Kent, S. B. H. 1992. Weighing naked proteins: Practical, high-accuracy mass measurement of peptides and proteins. Science 257:1885–1894.

Edmonds, C. G., Loo, J. A., Loo, R. R., Udseth, H. R., Barinaga, C. J., and Smith, R. D. 1991. Application of electrospray ionization mass spectrometry and tandem mass spectrometry in combination with capillary electrophoresis for biochemical investigations. Biochem. Soc. Trans. 19:943–947.

Jardine, I. 1990. Molecular weight analysis of proteins. Methods Enzymol. 193:441–455.

Proteomics

Yates, J. R., 3rd. 2004. Mass spectral analysis in proteomics. Annu. Rev. Biophys. Biomol. Struct. 33:297–316.

Weston, A. D., and Hood, L. 2004. Systems biology, proteomics, and the future of health care: Toward predictive, preventative, and personalized medicine. J. Proteome Res. 3:179–196.

Pandey, A., and Mann, M. 2000. Proteomics to study genes and genomes. Nature 405:837–846.

Dutt, M. J., and Lee, K. H. 2000. Proteomic analysis. Curr. Opin. Biotechnol. 11:176–179.

Rout, M. P., Aitchison, J. D., Suprapto, A., Hjertaas, K., Zhao, Y., and Chait, B. T. 2000. The yeast nuclear pore complex: Composition, architecture, and transport mechanism. J. Cell Biol. 148:635–651.

X-ray Crystallography and NMR Spectroscopy

Rhodes, G. 2006. Crystallography Made Crystal Clear. Elsevier/Academic Press.

Moffat, K. 2003. The frontiers of time-resolved macromolecular crystallography: Movies and chirped X-ray pulses. Faraday Discuss. 122:65–88.

Bax, A. 2003. Weak alignment offers new NMR opportunities to study protein structure and dynamics. Protein Sci. 12:1–16.

Wery, J. P., and Schevitz, R. W. 1997. New trends in macromolecular x-ray crystallography. Curr. Opin. Chem. Biol. 1:365–369.

Glusker, J. P. 1994. X-ray crystallography of proteins. Methods Biochem. Anal. 37:1–72.

Clore, G. M., and Gronenborn, A. M. 1991. Structures of larger proteins in solution: Three- and four-dimensional heteronuclear NMR spectroscopy. Science 252:1390–1399.

Wüthrich, K. 1989. Protein structure determination in solution by nuclear magnetic resonance spectroscopy. Science 243:45–50.

Wüthrich, K. 1986. NMR of Proteins and Nucleic Acids. Wiley-Interscience.

Monoclonal Antibodies and Fluorescent Molecules

Immunology Today. 2000. Volume 21, issue 8.

Tsien, R. Y. 1998. The green fluorescent protein. Annu. Rev. Biochem. 67:509–544.

Kendall, J. M., and Badminton, M. N. 1998. Aequorea victoria bioluminescence moves into an exciting era. Trends Biotechnol. 16:216–234.

Goding, J. W. 1996. Monoclonal Antibodies: Principles and Practice. Academic Press.

Köhler, G., and Milstein, C. 1975. Continuous cultures of fused cells secreting antibody of predefined specificity. Nature 256:495–497.

Chemical Synthesis of Proteins

Bang, D., Chopra, N., and Kent, S. B. 2004. Total chemical synthesis of crambin. J. Am. Chem. Soc. 126:1377–1383.

Dawson, P. E., and Kent, S. B. 2000. Synthesis of native proteins by chemical ligation. Annu. Rev. Biochem. 69:923–960.

Mayo, K. H. 2000. Recent advances in the design and construction of synthetic peptides: For the love of basics or just for the technology of it. Trends Biotechnol. 18:212–217.