Mutagenesis and selection of PDZ domains that bind new protein targets

Nature Biotechnology

Volumn 17, Issue 2, 1999, Pages 170-175

  Schneider, Stefan ^a   Buchert, Michael ^a   Georgiev, Oleg ^a   Catimel, Bruno ^b   Halford, Michael ^b   Stacker, Steven A ^b   Baechi, Thomas ^a   Moelling, Karin ^a   Hovens, Christopher M ^b  

^a UNIVERSITY OF ZURICH   (Switzerland)

^b ROYAL MELBOURNE HOSPITAL   (Australia)

Author keywords

In vivo screening; Intracellular targeting; PDZ domains; Protein engineering

Indexed keywords

MEMBRANE PROTEIN; PROTEIN;

ARTICLE; CELLULAR DISTRIBUTION; HUMAN; HUMAN CELL; MUTAGENESIS; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN MODIFICATION; PROTEIN PROTEIN INTERACTION; PROTEIN TARGETING; SCREENING;

AMINO ACID SEQUENCE; ANIMALS; BASE SEQUENCE; CELL LINE; DNA PRIMERS; HUMANS; MICE; MUTAGENESIS; PROTEIN BINDING; PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID; SUBCELLULAR FRACTIONS;

MAMMALIA;

EID: 0032966813     PISSN: 10870156     EISSN: None     Source Type: Journal    
DOI: 10.1038/6172     Document Type: Article

References (36)

1. Shao, Z. and Arnold, F.H. 1996. Engineering new functions and altering existing functions. Curr. Opin. Struct. Biol. 6:513-518.
2. Kast, P. and Hilvert, D. 1997. 3D structural information as a guide to protein engineering using genetic selection. Curr. Opin. Struct. Biol. 7:470-479.
3. Nygren, P.A. and Uhlen, M. 1997, Scaffolds for engineering novel binding sites in proteins. Curr. Opin. Struct. Biol. 7:463-469.
4. Nord, K., Gunneriusson, E., Ringdahl, J., Stahl, S., Uhlen, M., and Nygren P-A. 1997. Binding proteins selected from combinatorial libraries of an alpha-helical bacterial receptor domain. Nat. Biotechnol. 15:772-777.
5. Ponting, C.P., Phillips, C., Davies, K.E., and Blake, D.J. 1997. PDZ domains: targeting signalling molecules to sub-membranous sites. Bioessays 19:469-479.
6. Saras, J. and Heldin, C.H. 1996. PDZ domains bind carboxy-terminal sequences of target proteins. Trends Biochem. Sci. 21:455-458.
7. Songyang, Z., Fanning, A.S., Fu, C., Xu, J., Marfatia, S.M., Chisti, A.H. et al. 1997. Recognition of unique carboxyl-terminal motifs by distinct PDZ domains. Science 275:73-77.
8. Kornau, H.C., Schenker, L.T., Kennedy, M.B., and Seeburg, P.M. 1995. Domain interaction between NMDA receptor subunits and the postsynaptic density protein PSD-95. Science 269:1737-1740.
9. Stricker, N.L., Christopherson, K.S., Yi, B.A., Schatz, P.J., Raab, R.W., Dawes, D. et al. 1997. POZ domain of neuronal nitric oxide synthase recognizes novel C-terminal peptide sequences. Nat. Biotechnol. 15:336-342.
10. Fanning, A.S. and Anderson, J.M. 1998. PDZ domains and the formation of protein networks at the plasma membrane. Curr. Top. Microbiol. Immunol. 228:209-233.
11. Cohen, G.B., Ren, R., and Baltimore, D. 1995. Modular binding domains in signal transduction proteins. Cell 80:237-248.
12. Pawson, T. 1995. Protein modules and signalling networks. Nature 373:573-580.
13. Kurian, J. and Cowburn, D. 1997. Modular peptide recognition domains in eukaryotic signaling. Annu. Rev. Biophys. Biomol. Struct. 16:6141-6150.
14. Prasad, R., Gu. Y., Alder, H., Nakamura, T., Canaani, O., Saito, H. et al. 1993. Cloning of the ALL-1 fusion partner, the AF-6 gene, involved in acute myeloid leukemias with the t(6;11) chromosome translocation. Cancer Res. 53:5624-5628.
15. Cadwell, R.C. and Joyce, G.F. 1992. Randomization of genes by PCR mutagenesis. PCR Methods Appl. 26:259-288.
16. Durfee, T., Becherer, K., Chen, P.L., Yen, S.H., Yang, Y., Kilburn, A.E. et al. 1993. The retinoblastoma protein associates with the protein phosphatase type 1 catalytic subunit. Genes Dev. 7:555-569.
17. Callahan, C.A., Muralidhar, M.G., Lundgren, S.E., Scully, A.L., and Thomas, J.B. 1995. Control of neuronal pathway selection by a Drosophila receptor protein-tyrosine kinase family member. Nature 376:171-174.
18. Holland, S.J. Gale, N.W., Mbamalu, G., Yancopoulos, G.D., Henkemeyer, M., and Pawson, T. 1996. Bidirectional signalling through the EPH-family receptor Nuk and its transmembrane ligands. Nature 383:722-725.
19. Buchert, M., Schneider, S., Adams, M.T., Hefti H.P., Moelling, K., and Hovens, C.M. 1997. Useful vectors for the two-hybrid system in mammalian cells. Biotechniques 23:396-402.
20. Müller, B.M., Bistner, U., Kindler, S., Chung, W.K., Kuhlendahl, S., Fenster, S.D. et al. 1996. SAP102. a novel postsynaptic protein that interacts with NMDA receptor complexes in vivo. Neuron 17:255-265.
21. Doyle, D.A., Lee, A., Lewis, J., Kim, E., Sheng, M., and McKinnon R. 1996. Crystal structures of a complexed and peptide-free membrane protein-binding domain: molecular basis of peptide recognition by PDZ. Cell 85:1067-1076.
22. Marasco, W.A. 1997. Intrabodies: turning the humoral immune system outside in for intracellular immunization. Gene. Ther. 4:11-15.
23. Jannot, C.B. and Hynes, N.E. 1997. Characterization of scFv-421, a single-chain antibody targeted to p53. Biochem. Biophys. Res. Commun. 230:242-246.
24. Clackson, T. and Wells, J.A. 1994. In vitro selection from protein and peptide libraries. Trends Biotechnol. 12:173-184.
25. Tsunoda, S., Sierralta, J., Sun, Y., Bodner, R., Suzuki, E., Becker, A. et al. 1997. A multivalent PDZ-domain protein assembles signalling complexes in a G-protein-coupled cascade. Nature 388:243-249.
26. Kunes, S., Botstein, D., and Fox, M.S. 1985. Transformation of yeast with linearized plasmid DNA. Formation of inverted dimers and recombinant plasmid products. J. Mol. Biol. 184:375-387.
27. Gstaiger, M., Knoepfel, L., Georgiev, O., Schaffner, W., and Hovens, C.M. 1995. A B-cell coactivator of octamer-binding transcription factors. Nature 373:360-362.
28. Schneider, S., Buchert, M., and Hovens, C.M. 1996. An in vitro assay of betagalactosidase from yeast. Biotechniques 20:960-962.
29. Bradford, M.M. 1976. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 72:248-254.
30. Miller, J.H. 1972. Experiments in molecular genetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
31. Ridley, A.J., Paterson, H.F., Johnston, C.L., Diekmann, D., and Hall, A. 1992. The small GTP-binding protein rac regulates growth factor-induced membrane ruffling. Cell 70:401-410.
32. Schneider, S., Georgiev, O., Buchert, M., Adams, M.T., Moelling, K., and Hovens, C.M. 1997. An epitope tagged mammalian/ prokaryotic expression vector with positive selection of cloned inserts. Gene 197:337-341.
33. Jones, T.L., Karavanova, I., Chong, L., Zhou, R.P., and Daar, I.O. 1997. Identification of XLerk, an Eph family ligand regulated during mesoderm induction and neurogenesis in Xenopus laevis. Oncogene 14:2159-2166.
34. Lofas, S., Johnsson, B., Edstrom, A., Hansson, A., Lindquist, G., Muller, R.M., and Stigh, L. 1995. Methods for sites controlled coupling to carboxymethylated dextran surfaces in surface plasmon resonance sensors. Biosens. Bioelect. 10:813-822.
35. Catimel, B., Nerrie, M., Lee, F.T., Scott, A.M., Ritter, G., Welt, S. et al. 1997. Kinetic analysis of the interaction between the monoclonal antibody A33 and its colonic epithelial antigen by the use of an optical biosensor. A comparison of immobilisation strategies. J. Chromatogr. A. 776:15-30.
36. Morten, T.A., Myszka, D.G., and Chalken, I.M. 1995. Interpreting complex binding kinetics from optical biosensors: a comparison of analysis by linearization, the integrated rate equation, and numerical integration. Anal. Biochem. 227:176-185.