메뉴 건너뛰기




Volumn 2, Issue 6, 2007, Pages 1368-1386

Identifying specificity profiles for peptide recognition modules from phage-displayed peptide libraries

Author keywords

[No Author keywords available]

Indexed keywords

HYBRID PROTEIN; PDZ PROTEIN; PEPTIDE LIBRARY;

EID: 34250748507     PISSN: 17542189     EISSN: 17502799     Source Type: Journal    
DOI: 10.1038/nprot.2007.151     Document Type: Article
Times cited : (159)

References (43)
  • 2
    • 33644877451 scopus 로고    scopus 로고
    • SMART 5: Domains in the context of genomes and networks
    • Letunic, I. et al. SMART 5: Domains in the context of genomes and networks. Nucleic Acids Res. 34, D257-D260 (2006).
    • (2006) Nucleic Acids Res , vol.34
    • Letunic, I.1
  • 3
    • 0037453510 scopus 로고    scopus 로고
    • Assembly of cell regulatory systems through protein interaction domains
    • Pawson, T. & Nash, P. Assembly of cell regulatory systems through protein interaction domains. Science 300, 445-452 (2003).
    • (2003) Science , vol.300 , pp. 445-452
    • Pawson, T.1    Nash, P.2
  • 4
    • 0034740693 scopus 로고    scopus 로고
    • Mechanism and rote of PDZ domains in signaling complex assembly
    • Harris, B.Z. & Lim, W.A. Mechanism and rote of PDZ domains in signaling complex assembly. J. Cell Sci. 114, 3219-3231 (2001).
    • (2001) J. Cell Sci , vol.114 , pp. 3219-3231
    • Harris, B.Z.1    Lim, W.A.2
  • 5
    • 0013033597 scopus 로고    scopus 로고
    • The structure and function of proline recognition domains
    • Zarrinpar, A., Bhattacharyya, R.P. & Lim, W.A. The structure and function of proline recognition domains. Sci STKE 2003, RE8 (2003).
    • (2003) Sci STKE , vol.2003
    • Zarrinpar, A.1    Bhattacharyya, R.P.2    Lim, W.A.3
  • 6
    • 0037059461 scopus 로고    scopus 로고
    • A combined experimental and computational strategy to define protein interaction networks for peptide recognition modules
    • Tong, A.H. et al. A combined experimental and computational strategy to define protein interaction networks for peptide recognition modules. Science 295, 321-324 (2002).
    • (2002) Science , vol.295 , pp. 321-324
    • Tong, A.H.1
  • 7
    • 0034628508 scopus 로고    scopus 로고
    • A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
    • Uetz, P. et al. A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 403, 623-627 (2000).
    • (2000) Nature , vol.403 , pp. 623-627
    • Uetz, P.1
  • 8
    • 0035836765 scopus 로고    scopus 로고
    • A comprehensive two-hybrid analysis to explore the yeast protein interactome
    • Ito, T. et al. A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc. Natl. Acad. Sci. USA 98, 4569-4574 (2001).
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 4569-4574
    • Ito, T.1
  • 9
    • 9144264169 scopus 로고    scopus 로고
    • A map of the interactome network of the metazoan C. elegans
    • Li, S. et al. A map of the interactome network of the metazoan C. elegans. Science 303, 540-543 (2004).
    • (2004) Science , vol.303 , pp. 540-543
    • Li, S.1
  • 10
    • 0345600247 scopus 로고    scopus 로고
    • A protein interaction map of Drosophila melanogaster
    • Giot, L. et al. A protein interaction map of Drosophila melanogaster. Science 302, 1727-1736 (2003).
    • (2003) Science , vol.302 , pp. 1727-1736
    • Giot, L.1
  • 11
    • 27144530248 scopus 로고    scopus 로고
    • Towards a proteome-scale map of the human protein-protein interaction network
    • Rual, J.F. et al. Towards a proteome-scale map of the human protein-protein interaction network. Nature 437, 1173-1178 (2005).
    • (2005) Nature , vol.437 , pp. 1173-1178
    • Rual, J.F.1
  • 12
    • 25144498379 scopus 로고    scopus 로고
    • A human protein-protein interaction network: A resource for annotating the proteome
    • Stelzl, U. et al. A human protein-protein interaction network: A resource for annotating the proteome. Cell 122, 957-968 (2005).
    • (2005) Cell , vol.122 , pp. 957-968
    • Stelzl, U.1
  • 13
    • 0028924171 scopus 로고
    • Protein-peptide interactions analyzed with the yeast two-hybrid system
    • Yang, M., Wu, Z. & Fields, S. Protein-peptide interactions analyzed with the yeast two-hybrid system. Nucleic Acids Res. 23, 1152-1156 (1995).
    • (1995) Nucleic Acids Res , vol.23 , pp. 1152-1156
    • Yang, M.1    Wu, Z.2    Fields, S.3
  • 14
    • 33748322019 scopus 로고    scopus 로고
    • A high efficiency strategy for binding property characterization of peptide-binding domains
    • Song, E. et al. A high efficiency strategy for binding property characterization of peptide-binding domains. Mol. Cell. Proteomics 5, 1368-1381 (2006).
    • (2006) Mol. Cell. Proteomics , vol.5 , pp. 1368-1381
    • Song, E.1
  • 15
    • 19344377539 scopus 로고    scopus 로고
    • Protein interaction networks by proteome peptide scanning
    • Landgraf, C. et al. Protein interaction networks by proteome peptide scanning. PLoS Biol. 2, E14 (2004).
    • (2004) PLoS Biol , vol.2
    • Landgraf, C.1
  • 16
    • 33750987920 scopus 로고    scopus 로고
    • Screening for PTB domain binding partners and ligand specificity using proteome-derived NPXY peptide arrays
    • Smith, M.J., Hardy, W.R., Murphy, J.M., Jones, N. & Pawson, T. Screening for PTB domain binding partners and ligand specificity using proteome-derived NPXY peptide arrays. Mol. Cell. Biol. 26, 8461-8474 (2006).
    • (2006) Mol. Cell. Biol , vol.26 , pp. 8461-8474
    • Smith, M.J.1    Hardy, W.R.2    Murphy, J.M.3    Jones, N.4    Pawson, T.5
  • 17
    • 0033638492 scopus 로고    scopus 로고
    • Phage display in pharmaceutical biotechnology
    • Sidhu, S.S. Phage display in pharmaceutical biotechnology. Curr. Opin. Biotechnol. 11, 610-616 (2000).
    • (2000) Curr. Opin. Biotechnol , vol.11 , pp. 610-616
    • Sidhu, S.S.1
  • 19
    • 0031012062 scopus 로고    scopus 로고
    • Display of heterologous proteins on the surface of microorganisms: From the screening of combinatorial libraries to live recombinant vaccines
    • Georgiou, G. et al. Display of heterologous proteins on the surface of microorganisms: From the screening of combinatorial libraries to live recombinant vaccines. Nat. Biotechnol. 15, 29-34 (1997).
    • (1997) Nat. Biotechnol , vol.15 , pp. 29-34
    • Georgiou, G.1
  • 20
    • 0035424822 scopus 로고    scopus 로고
    • Protein engineering by cell-surface display
    • Wittrup, K.D. Protein engineering by cell-surface display. Curr. Opin. Biotechnol. 12, 395-399 (2001).
    • (2001) Curr. Opin. Biotechnol , vol.12 , pp. 395-399
    • Wittrup, K.D.1
  • 21
    • 0026546880 scopus 로고
    • Screening for receptor ligands using libraries of peptides linked to the C terminus of the lac repressor
    • Cull, M., Miller, J. & Schatz, P. Screening for receptor ligands using libraries of peptides linked to the C terminus of the lac repressor. Proc. Nat. Acad. Sci. USA 89, 1865-1869 (1992).
    • (1992) Proc. Nat. Acad. Sci. USA , vol.89 , pp. 1865-1869
    • Cull, M.1    Miller, J.2    Schatz, P.3
  • 22
    • 3142685154 scopus 로고    scopus 로고
    • In-vitro protein evolution by ribosome display and mRNA display
    • Lipovsek, D. & Pluckthun, A. In-vitro protein evolution by ribosome display and mRNA display. J. Immunol. Methods 290, 51-67 (2004).
    • (2004) J. Immunol. Methods , vol.290 , pp. 51-67
    • Lipovsek, D.1    Pluckthun, A.2
  • 24
    • 0035885238 scopus 로고    scopus 로고
    • Phage display: Increasing the rewards from genomic information
    • Sidhu, S.S. Phage display: Increasing the rewards from genomic information. Drug Discov. Today 6, 936 (2001).
    • (2001) Drug Discov. Today , vol.6 , pp. 936
    • Sidhu, S.S.1
  • 25
    • 0029589911 scopus 로고
    • Specific interactions outside the proline-rich core of two classes of Src homology 3 Ligands
    • Feng, S., Kasahara, C., Rickles, R.J. & Schreiber, S.L. Specific interactions outside the proline-rich core of two classes of Src homology 3 Ligands. Proc. Natl. Acad. Sci. USA 92, 12408-12415 (1995).
    • (1995) Proc. Natl. Acad. Sci. USA , vol.92 , pp. 12408-12415
    • Feng, S.1    Kasahara, C.2    Rickles, R.J.3    Schreiber, S.L.4
  • 26
    • 0028811162 scopus 로고
    • Phage display selection of ligand residues important for Src homology 3 domain binding specificity
    • Rickles, R.J. et al. Phage display selection of ligand residues important for Src homology 3 domain binding specificity. Proc. Natl. Acad. Sci. USA 92, 10909-10913 (1995).
    • (1995) Proc. Natl. Acad. Sci. USA , vol.92 , pp. 10909-10913
    • Rickles, R.J.1
  • 27
    • 0029959928 scopus 로고    scopus 로고
    • Distinct ligand preferences of Src homology 3 domains from Src, Yes, Abl, cortactin, p53bp2, PLCgamma, Crk, and Grb2
    • Sparks, A.B. et al. Distinct ligand preferences of Src homology 3 domains from Src, Yes, Abl, cortactin, p53bp2, PLCgamma, Crk, and Grb2. Proc. Natl. Acad. Sci. USA 93, 1540-1544 (1996).
    • (1996) Proc. Natl. Acad. Sci. USA , vol.93 , pp. 1540-1544
    • Sparks, A.B.1
  • 28
    • 0035071216 scopus 로고    scopus 로고
    • Characterizing class I WW domains defines key specificity determinants and generates mutant domains with novel specificities
    • Kasanov, J., Pirozzi, G., Uveges, A.J. & Kay, B.K. Characterizing class I WW domains defines key specificity determinants and generates mutant domains with novel specificities. Chem. Biol. 8, 231-241 (2001).
    • (2001) Chem. Biol , vol.8 , pp. 231-241
    • Kasanov, J.1    Pirozzi, G.2    Uveges, A.J.3    Kay, B.K.4
  • 29
    • 33746819780 scopus 로고    scopus 로고
    • Convergent and divergent ligand specificity among PDZ domains of the LAP and zonula occludens (ZO) families
    • Zhang, Y. et al. Convergent and divergent ligand specificity among PDZ domains of the LAP and zonula occludens (ZO) families. J. Biol. Chem. 281, 22299-22311 (2006).
    • (2006) J. Biol. Chem , vol.281 , pp. 22299-22311
    • Zhang, Y.1
  • 30
    • 33746861956 scopus 로고    scopus 로고
    • Comparative structural analysis of the Erbin PDZ domain and the first PDZ domain of ZO-1. Insights into determinants of PDZ domain specificity
    • Appleton, B.A. et al. Comparative structural analysis of the Erbin PDZ domain and the first PDZ domain of ZO-1. Insights into determinants of PDZ domain specificity. J. Biol. Chem. 281, 22312-22320 (2006).
    • (2006) J. Biol. Chem , vol.281 , pp. 22312-22320
    • Appleton, B.A.1
  • 32
    • 9144257886 scopus 로고    scopus 로고
    • The Pfam protein families database
    • Bateman, A. et al. The Pfam protein families database. Nucleic Acids Res. 32, D138-D141 (2004).
    • (2004) Nucleic Acids Res , vol.32
    • Bateman, A.1
  • 33
    • 0025085655 scopus 로고
    • Ligation-independent cloning of PCR products (LIC-PCR)
    • Astanidis, C. & de Jong, P.J. Ligation-independent cloning of PCR products (LIC-PCR). Nucleic Acids Res. 18, 6069-6074 (1990).
    • (1990) Nucleic Acids Res , vol.18 , pp. 6069-6074
    • Astanidis, C.1    de Jong, P.J.2
  • 34
    • 34250756467 scopus 로고    scopus 로고
    • Vectors and modes of display
    • ed. Sidhu, S.S, Taylor and Francis Group, Boca Raton, FL
    • Petrenko, V.A. & Smith, G.P. Vectors and modes of display. in Phage Display in Biotechnology and Drug Discovery Vol. 3 (ed. Sidhu, S.S.) 63-110 (Taylor and Francis Group, Boca Raton, FL, 2005).
    • (2005) Phage Display in Biotechnology and Drug Discovery , vol.3 , pp. 63-110
    • Petrenko, V.A.1    Smith, G.P.2
  • 35
    • 20444377503 scopus 로고    scopus 로고
    • Methods for the construction of phage-displayed libraries
    • ed. Sidhu, S.S, Taylor and Francis Group, Boca Raton, FL
    • Fellouse, F.A. & Pal, G. Methods for the construction of phage-displayed libraries. in Phage Display in Biotechnology and Drug Discovery Vol. 3 (ed. Sidhu, S.S.) 111-142 (Taylor and Francis Group, Boca Raton, FL, 2005).
    • (2005) Phage Display in Biotechnology and Drug Discovery , vol.3 , pp. 111-142
    • Fellouse, F.A.1    Pal, G.2
  • 36
    • 39049184127 scopus 로고    scopus 로고
    • Sidhu, S.S., Feld, B.K. & Weiss, G.A. M13 bacteriophage coat proteins engineered for improved phage display. Methods Mol. Biol. 352 205-219 (2007).
    • Sidhu, S.S., Feld, B.K. & Weiss, G.A. M13 bacteriophage coat proteins engineered for improved phage display. Methods Mol. Biol. 352 205-219 (2007).
  • 37
    • 0023613953 scopus 로고
    • Rapid and efficient site-specific mutagenesis without phenotypic selection
    • Kunkel, T.A., Roberts, J.D. & Zakour, R.A. Rapid and efficient site-specific mutagenesis without phenotypic selection. Methods Enzymol. 154, 367-382 (1987).
    • (1987) Methods Enzymol , vol.154 , pp. 367-382
    • Kunkel, T.A.1    Roberts, J.D.2    Zakour, R.A.3
  • 38
    • 0037066692 scopus 로고    scopus 로고
    • The Erbin PDZ domain binds with high affinity and specificity to the carboxyl termini of delta-catenin and ARVCF
    • Laura, R.P. et al. The Erbin PDZ domain binds with high affinity and specificity to the carboxyl termini of delta-catenin and ARVCF. J. Biol. Chem. 277, 12906-12914 (2002).
    • (2002) J. Biol. Chem , vol.277 , pp. 12906-12914
    • Laura, R.P.1
  • 39
    • 0029976603 scopus 로고    scopus 로고
    • Using CLUSTAL for multiple sequence alignments
    • Higgins, D.G., Thompson, J.D. & Gibson, T.J. Using CLUSTAL for multiple sequence alignments. Methods Enzymol. 266, 383-402 (1996).
    • (1996) Methods Enzymol , vol.266 , pp. 383-402
    • Higgins, D.G.1    Thompson, J.D.2    Gibson, T.J.3
  • 42
    • 0021112593 scopus 로고
    • Characterization of strand displacement synthesis catalyzed by bacteriophage T7 DNA potymerase
    • Lechner, R.L., Engler, M.J. & Richardson, C.C. Characterization of strand displacement synthesis catalyzed by bacteriophage T7 DNA potymerase. J. Biol. Chem. 258, 11174-11184 (1983).
    • (1983) J. Biol. Chem , vol.258 , pp. 11174-11184
    • Lechner, R.L.1    Engler, M.J.2    Richardson, C.C.3
  • 43
    • 2942716977 scopus 로고    scopus 로고
    • Comprehensive mutational analysis of the M13 major coat protein: Improved scaffolds for C-terminal phage display
    • Held, H.A. & Sidhu, S.S. Comprehensive mutational analysis of the M13 major coat protein: Improved scaffolds for C-terminal phage display. J. Mol. Biol. 340, 587-597 (2004).
    • (2004) J. Mol. Biol , vol.340 , pp. 587-597
    • Held, H.A.1    Sidhu, S.S.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.