Alternative views of functional protein binding epitopes obtained by combinatorial shotgun scanning mutagenesis

Protein Science

Volumn 14, Issue 9, 2005, Pages 2405-2413

  Pál, Gábor ^a,c   Fong, Shun Yin ^b   Kossiakoff, Anthony A ^a   Sidhu, Sachdev S ^b  

^a UNIVERSITY OF CHICAGO   (United States)

^b GENENTECH INC   (United States)

^c EÖTVÖS LORÁND UNIVERSITY   (Hungary)

Author keywords

Functional epitope; Human growth hormone; Shotgun phage display scanning

Indexed keywords

EPITOPE; GROWTH HORMONE RECEPTOR; HUMAN GROWTH HORMONE; SERINE;

ANALYTIC METHOD; ARTICLE; BACTERIOPHAGE; BINDING SITE; COMBINATORIAL SHOTGUN SCANNING MUTAGENESIS; EPITOPE MAPPING; MUTAGENESIS; MUTANT; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN FUNCTION; RECEPTOR BINDING; WILD TYPE;

ALANINE; BACTERIOPHAGES; BASE SEQUENCE; BINDING SITES; CARRIER PROTEINS; COMBINATORIAL CHEMISTRY TECHNIQUES; EPITOPES; HUMAN GROWTH HORMONE; MOLECULAR SEQUENCE DATA; MUTAGENESIS; PEPTIDE LIBRARY; PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID; SERINE;

EID: 24344495780     PISSN: 09618368     EISSN: 1469896X     Source Type: Journal    
DOI: 10.1110/ps.051519805     Document Type: Article

References (26)

1. Clackson, T. and Wells, J.A. 1995. A hot spot of binding energy in a hormone-receptor interface. Science 267: 383-386.
2. Cunningham, B.C. and Wells, J.A. 1989. High-resolution epitope mapping of hGH-receptor interactions by alanine-scanning mutagenesis. Science 244: 1081-1085.
3. Cunningham, B.C. and Wells, J.A. 1993. Comparison of a structural and a functional epitope. J. Mol. Biol. 234: 554-563.
4. Cunningham, B.C., Jhurani, P., Ng, P., and Wells, J.A. 1989. Receptor and antibody epitopes in human growth hormone identified by homolog-scanning mutagenesis. Science 243: 1330-1336.
5. Davies, D.R. and Cohen, G.H. 1996. Interactions of protein antigens with antibodies. Proc. Natl. Acad. Sci. 93: 7-12.
6. Dayhoff, M.O., Schwartz, R.M., and Orcutt, B.C. 1978. A model of evolutionary change in proteins. pp. 345-358. Washington, D.C., National Biomedical Research Foundation.
7. de Vos, A.M., Ultsch, M., and Kossiakoff, A.A. 1992. Human growth hormone and extracellular domain of its receptor: Crystal structure of the complex. Science 255: 306-312.
8. Fellouse, F.A., Wiesmann, C., and Sidhu, S.S. 2004. Synthetic antibodies from a four-amino-acid code: A dominant role for tyrosine in antigen recognition. Proc. Natl. Acad. Sci. 101: 12467-12472.
9. Fellouse, F.A., Li, B., Compaan, D.M., Peden, A.A., Hymowitz, S.G., and Sidhu, S.S. 2005. Molecular recognition by a binary code. J. Mol. Biol. 348: 1153-1162.
10. Gascoigne, N.R. and Zal, T. 2004. Molecular interactions at the T cell-antigen-presenting cell interface. Curr. Opin. Immunol. 16: 114-119.
11. Henikoff, S. and Henikoff, J.G. 1992. Amino acid substitution matrices from protein blocks. Proc. Natl. Acad. Sci. 89: 10915-10919.
12. Jin, L., Fendly, B.M., and Wells, J.A. 1992. High resolution functional analysis of antibody-antigen interactions. J. Mol. Biol. 226: 851-865.
13. Kunkel, T.A., Bebenek, K., and McClary, J. 1991. Efficient site-directed mutagenesis using uracil-containing DNA. Methods Enzymol. 204: 125-139.
14. Lowman, H.B. and Wells, J.A. 1993. Affinity maturation of human growth hormone by monovalent phage display. J. Mol. Biol. 234: 564-578.
15. Mian, I.S., Bradwell, A.R., and Olson, A.J. 1991. Structure, function and properties of antibody binding sites. J. Mol. Biol. 217: 133-151.
16. Padlan, E.A. 1994. Anatomy of the antibody molecule. Mol. Immunol. 31: 169-217.
17. Pal, G., Kossiakoff, A.A., and Sidhu, S.S. 2003. The functional binding epitope of a high affinity variant of human growth hormone mapped by shotgun alanine-scanning mutagenesis: Insights into the mechanisms responsible for improved affinity. J. Mol. Biol. 332: 195-204.
18. Pal, G., Ultsch, M.H., Clark, K.P., Currell, B., Kossiakoff, A.A., and Sidhu, S.S. 2005. Intramolecular cooperativity in a protein binding site assessed by combinatorial shotgun scanning mutagenesis. J. Mol. Biol. 347: 489-494.
19. Pawson, T. and Nash, P. 2000. Protein-protein interactions define specificity in signal transduction. Genes & Dev. 14: 1027-1047.
20. Sato, K., Simon, M.D., Levin, A.M., Shokat, K.M., and Weiss, G.A. 2004. Dissecting the Engrailed homeodomain-DNA interaction by phage-displayed shotgun scanning. Chem. Biol. 11: 1017-1023.
21. Schiffer, C., Ultsch, M., Walsh, S., Somers, W., de Vos, A.M., and Kossiakoff, A. 2002. Structure of a phage display-derived variant of human growth hormone complexed to two copies of the extracellular domain of its receptor: Evidence for strong structural coupling between receptor binding sites. J. Mol. Biol. 316: 277-289.
22. Sidhu, S.S., Lowman, H.B., Cunningham, B.C., and Wells, J.A. 2000. Phage display for selection of novel binding peptides. Methods Enzymol. 328: 333-363.
23. Vajdos, F.F., Adams, C.W., Breece, T.N., Presta, L.G., de Vos, A.M., and Sidhu, S.S. 2002. Comprehensive functional maps of the antigen-binding site of an anti-ErbB2 antibody obtained with shotgun scanning mutagenesis. J. Mol. Biol. 320: 415-428.
24. Warren, A.J. 2002. Eukaryotic transcription factors. Curr. Opin. Struct. Biol. 12: 107-114.
25. Weiss, G.A., Watanabe, C.K., Zhong, A., Goddard, A., and Sidhu, S.S. 2000. Rapid mapping of protein functional epitopes by combinatorial alanine scanning. Proc. Natl. Acad. Sci. 97: 8950-8954.
26. Yoshida, M., Muneyuki, E., and Hisabori, T. 2001. ATP synthase - A marvelous rotary engine of the cell. Nat. Rev. Mol. Cell. Biol. 2: 669-677.