메뉴 건너뛰기




Volumn 14, Issue 2, 2004, Pages 103-114

Statistical analysis of the protein environment of N-glycosylation sites: Implications for occupancy, structure, and folding

Author keywords

Glycan protein linkage; N glycosylation sites; Occupancy; Protein folding; X ray diffraction

Indexed keywords

AROMATIC AMINO ACID; ASPARAGINE; GLYCAN; GLYCOPROTEIN; THREONINE;

EID: 1342327544     PISSN: 09596658     EISSN: None     Source Type: Journal    
DOI: 10.1093/glycob/cwh008     Document Type: Article
Times cited : (394)

References (51)
  • 1
    • 0032754473 scopus 로고    scopus 로고
    • On the frequency of protein glycosylation, as deduced from analysis of the SWISS-PROT database
    • Apweiler, R., Hermjakob, H., and Sharon, N. (1999) On the frequency of protein glycosylation, as deduced from analysis of the SWISS-PROT database. Biochim. Biophys. Acta, 1473, 4-8.
    • (1999) Biochim. Biophys. Acta , vol.1473 , pp. 4-8
    • Apweiler, R.1    Hermjakob, H.2    Sharon, N.3
  • 2
    • 0020713174 scopus 로고
    • Structural requirements of N-glycosylation of proteins. Studies with proline peptides as conformational probes
    • Bause, E. (1983) Structural requirements of N-glycosylation of proteins. Studies with proline peptides as conformational probes. Biochem. J., 209, 331-336.
    • (1983) Biochem. J. , vol.209 , pp. 331-336
    • Bause, E.1
  • 5
    • 18844470928 scopus 로고    scopus 로고
    • Structure of the hemagglutinin precursor cleavage site, a determinant of influenza pathogenicity and the origin of the labile conformation
    • Chen, J., Lee, K.H., Steinhauer, D.A., Stevens, D.J., Skehel, J.J., and Wiley, D.C. (1998) Structure of the hemagglutinin precursor cleavage site, a determinant of influenza pathogenicity and the origin of the labile conformation. Cell, 95, 409-417.
    • (1998) Cell , vol.95 , pp. 409-417
    • Chen, J.1    Lee, K.H.2    Steinhauer, D.A.3    Stevens, D.J.4    Skehel, J.J.5    Wiley, D.C.6
  • 6
    • 0035146448 scopus 로고    scopus 로고
    • Database analysis of O-glycosylation sites in proteins
    • Christlet, T.H.T. and Veluraja, K. (2001) Database analysis of O-glycosylation sites in proteins. Biophys. J., 80, 952-960.
    • (2001) Biophys. J. , vol.80 , pp. 952-960
    • Christlet, T.H.T.1    Veluraja, K.2
  • 7
    • 13044294041 scopus 로고    scopus 로고
    • A database analysis of potential glycosylating Asn-X-Ser/Thr consensus sequences
    • Christlet, T.H.T., Biswas, M., and Veluraja, K. (1999) A database analysis of potential glycosylating Asn-X-Ser/Thr consensus sequences. Acta Crystallog. D, 55, 1414-1420.
    • (1999) Acta Crystallog. D , vol.55 , pp. 1414-1420
    • Christlet, T.H.T.1    Biswas, M.2    Veluraja, K.3
  • 8
    • 0035170507 scopus 로고    scopus 로고
    • GlycoSuiteDB: A new curated relational database of glycoprotein glycan structures and their biological sources
    • Cooper, C.A., Harrison, M.J., Wilkins, M.R., and Packer, N.H. (2001) GlycoSuiteDB: a new curated relational database of glycoprotein glycan structures and their biological sources. Nucleic Acids Res., 29, 332-335.
    • (2001) Nucleic Acids Res. , vol.29 , pp. 332-335
    • Cooper, C.A.1    Harrison, M.J.2    Wilkins, M.R.3    Packer, N.H.4
  • 9
    • 0036815746 scopus 로고    scopus 로고
    • Siglecs: Sialic-acid-binding immunoglobulin-like lectins in cell-cell interactions and signalling
    • Crocker, P.R. (2002) Siglecs: sialic-acid-binding immunoglobulin-like lectins in cell-cell interactions and signalling. Curr. Opin. Struct. Biol., 12, 609-615.
    • (2002) Curr. Opin. Struct. Biol. , vol.12 , pp. 609-615
    • Crocker, P.R.1
  • 10
    • 0037245727 scopus 로고    scopus 로고
    • N-linked glycans direct the cotranslational folding pathway of influenza hemagglutinin
    • Daniels, R., Kurowski, B., Johnson, A.E., and Hebert, D.N. (2003) N-linked glycans direct the cotranslational folding pathway of influenza hemagglutinin. Mol. Cell, 11, 79-90.
    • (2003) Mol. Cell , vol.11 , pp. 79-90
    • Daniels, R.1    Kurowski, B.2    Johnson, A.E.3    Hebert, D.N.4
  • 14
    • 0034508404 scopus 로고    scopus 로고
    • Carbohydrate structural determination by NMR spectroscopy: Modern methods and limitations
    • Duus, J.O., Gotfredsen, C.H., and Bock, K. (2000) Carbohydrate structural determination by NMR spectroscopy: modern methods and limitations. Chem. Rev., 100, 4589-4614.
    • (2000) Chem. Rev. , vol.100 , pp. 4589-4614
    • Duus, J.O.1    Gotfredsen, C.H.2    Bock, K.3
  • 15
    • 0001094662 scopus 로고    scopus 로고
    • Glycobiology: Toward understanding the function of sugars
    • Dwek, R.A. (1996) Glycobiology: toward understanding the function of sugars. Chem. Rev., 96, 683-720.
    • (1996) Chem. Rev. , vol.96 , pp. 683-720
    • Dwek, R.A.1
  • 16
    • 0032763888 scopus 로고    scopus 로고
    • Evolutionary considerations in relating oligosaccharide diversity to biological function
    • Gagneux, P. and Varki, A. (1999) Evolutionary considerations in relating oligosaccharide diversity to biological function. Glycobiology, 9, 747-755.
    • (1999) Glycobiology , vol.9 , pp. 747-755
    • Gagneux, P.1    Varki, A.2
  • 17
    • 0032919585 scopus 로고    scopus 로고
    • O-GLYCBASE version 4.0: A revised database of O-glycosylated proteins
    • Gupta, R., Birch, H., Rapacki, K., Brunak, S., and Hansen, J.E. (1999) O-GLYCBASE version 4.0: a revised database of O-glycosylated proteins. Nucleic Acids Res., 27, 370-372.
    • (1999) Nucleic Acids Res. , vol.27 , pp. 370-372
    • Gupta, R.1    Birch, H.2    Rapacki, K.3    Brunak, S.4    Hansen, J.E.5
  • 18
    • 0027397187 scopus 로고
    • Crystal structure of glucose oxidase from Aspergillus niger refined at 2.3 Å resolution
    • Hecht, H.J., Kalisz, H.M., Hendle, J., Schmid, R.D., and Schomburg, D. (1993) Crystal structure of glucose oxidase from Aspergillus niger refined at 2.3 Å resolution. J. Mol. Biol., 229, 153-172.
    • (1993) J. Mol. Biol. , vol.229 , pp. 153-172
    • Hecht, H.J.1    Kalisz, H.M.2    Hendle, J.3    Schmid, R.D.4    Schomburg, D.5
  • 19
    • 0035937505 scopus 로고    scopus 로고
    • Intracellular functions of N-linked glycans
    • Helenius, A. and Aebi, M. (2001) Intracellular functions of N-linked glycans. Science, 291, 2364-2369.
    • (2001) Science , vol.291 , pp. 2364-2369
    • Helenius, A.1    Aebi, M.2
  • 20
    • 0031758846 scopus 로고    scopus 로고
    • A structural role for glycosylation: Lessons from the hp model
    • Hoffman, D. and Florke, H. (1998) A structural role for glycosylation: lessons from the hp model. Folding Design, 3, 337-343.
    • (1998) Folding Design , vol.3 , pp. 337-343
    • Hoffman, D.1    Florke, H.2
  • 21
    • 0025912338 scopus 로고
    • Molecular recognition. Conformational analysis of limited proteolytic sites and serine proteinase protein inhibitors
    • Hubbard, S.J., Campbell, S.F., and Thornton, J.M. (1991) Molecular recognition. Conformational analysis of limited proteolytic sites and serine proteinase protein inhibitors. J. Mol. Biol., 220, 507-530.
    • (1991) J. Mol. Biol. , vol.220 , pp. 507-530
    • Hubbard, S.J.1    Campbell, S.F.2    Thornton, J.M.3
  • 22
    • 0003742069 scopus 로고
    • NACCESS [computer software]
    • Department of Biochemistry and Molecular Biology, University College, London
    • Hubbard, S.J. and Thornton, J.M. (1993) NACCESS [computer software]. Department of Biochemistry and Molecular Biology, University College, London.
    • (1993)
    • Hubbard, S.J.1    Thornton, J.M.2
  • 23
    • 0028895099 scopus 로고
    • Stereochemistry of the N-glycosylation sites in glycoproteins
    • Imberty, A. and Perez, S. (1995) Stereochemistry of the N-glycosylation sites in glycoproteins. Protein Engin., 8, 699-709.
    • (1995) Protein Engin. , vol.8 , pp. 699-709
    • Imberty, A.1    Perez, S.2
  • 24
    • 0037681028 scopus 로고    scopus 로고
    • Structure, conformation and dynamics of bioactive oligosaccharides: Theroretical approaches and experimental validations
    • Imberty, A. and Perez, S. (2000) Structure, conformation and dynamics of bioactive oligosaccharides: theroretical approaches and experimental validations. Chem. Rev., 100, 4567-4588.
    • (2000) Chem. Rev. , vol.100 , pp. 4567-4588
    • Imberty, A.1    Perez, S.2
  • 25
    • 0032727842 scopus 로고    scopus 로고
    • Effect of N-linked glycosylation on glycopeptide and glycoprotein structure
    • Imperiali, B. and O'Connor, S.E. (1999) Effect of N-linked glycosylation on glycopeptide and glycoprotein structure. Curr. Opin. Chem. Biol., 3, 643-649.
    • (1999) Curr. Opin. Chem. Biol. , vol.3 , pp. 643-649
    • Imperiali, B.1    O'Connor, S.E.2
  • 26
    • 0028944878 scopus 로고
    • Conformational implications of asparagine-linked glycosylation
    • Imperiali, B. and Rickert, K.W. (1995) Conformational implications of asparagine-linked glycosylation. Proc. Natl Acad. Sci. USA, 92, 97-101.
    • (1995) Proc. Natl Acad. Sci. USA , vol.92 , pp. 97-101
    • Imperiali, B.1    Rickert, K.W.2
  • 27
    • 0036854512 scopus 로고    scopus 로고
    • Chaperone-like functions of high-mannose type and complex-type N-glycans and their molecular basis
    • Jitsuhara, Y., Toyoda, T., Itai, T., and Yamaguchi, H. (2002) Chaperone-like functions of high-mannose type and complex-type N-glycans and their molecular basis. J. Biochem., 132, 803-811.
    • (2002) J. Biochem. , vol.132 , pp. 803-811
    • Jitsuhara, Y.1    Toyoda, T.2    Itai, T.3    Yamaguchi, H.4
  • 28
    • 0020997912 scopus 로고
    • Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
    • Kabsch, W. and Sander, C. (1983) Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers, 22, 2577-2637.
    • (1983) Biopolymers , vol.22 , pp. 2577-2637
    • Kabsch, W.1    Sander, C.2
  • 29
    • 0029041308 scopus 로고
    • The hydroxy amino acid in an Asn-X-Ser/Thr sequon can influence N-linked core glycosylation efficiency and the level of expression of a cell surface glycoprotein
    • Kasturi, L., Eshleman, J.R., Wunner, W.H., and Shakin-Eshleman, S.H. (1995) The hydroxy amino acid in an Asn-X-Ser/Thr sequon can influence N-linked core glycosylation efficiency and the level of expression of a cell surface glycoprotein. J. Biol. Chem., 270, 14756-14761.
    • (1995) J. Biol. Chem. , vol.270 , pp. 14756-14761
    • Kasturi, L.1    Eshleman, J.R.2    Wunner, W.H.3    Shakin-Eshleman, S.H.4
  • 30
    • 0029001510 scopus 로고
    • Selectin-carbohydrate interactions and the initiation of the inflammatory response
    • Lasky, L.A. (1995) Selectin-carbohydrate interactions and the initiation of the inflammatory response. Annu. Rev. Biochem., 64, 113-139.
    • (1995) Annu. Rev. Biochem. , vol.64 , pp. 113-139
    • Lasky, L.A.1
  • 31
    • 0026787333 scopus 로고
    • Refined atomic model of wheat serine carboxypeptidase II at 2.2-Å resolution
    • Liao, D.I., Breddam, K., Sweet, R.M., Bullock, T., and Remington, S.J. (1992) Refined atomic model of wheat serine carboxypeptidase II at 2.2-Å resolution. Biochemistry, 31, 9796-9812.
    • (1992) Biochemistry , vol.31 , pp. 9796-9812
    • Liao, D.I.1    Breddam, K.2    Sweet, R.M.3    Bullock, T.4    Remington, S.J.5
  • 32
    • 0027426457 scopus 로고
    • Three-dimensional structure of rat acid phosphatase in complex with L(+)-tartrate
    • Lindqvist, Y., Schneider, G., and Vihko, P. (1993) Three-dimensional structure of rat acid phosphatase in complex with L(+)-tartrate. J. Biol. Chem., 268, 20744-20746.
    • (1993) J. Biol. Chem. , vol.268 , pp. 20744-20746
    • Lindqvist, Y.1    Schneider, G.2    Vihko, P.3
  • 33
    • 11544358874 scopus 로고    scopus 로고
    • Lectins: Carbohydrate-specific proteins that mediate cellular recognition
    • Lis, H. and Sharon, N. (1998) Lectins: carbohydrate-specific proteins that mediate cellular recognition. Chem. Rev., 98, 637-674.
    • (1998) Chem. Rev. , vol.98 , pp. 637-674
    • Lis, H.1    Sharon, N.2
  • 34
    • 16044363014 scopus 로고    scopus 로고
    • The alpha(1,3)fucosyltransferase Fuc-TVII controls leukocyte trafficking through an essential role in L-, E-, and P-selectin ligand biosynthesis
    • and others
    • Maly, P., Thall, A., Petryniak, B., Rogers, C.E., Smith, P.L., Marks, R.M., Kelly, R.J., Gersten, K.M., Cheng, G., Saunders, T.L., and others. (1996) The alpha(1,3)fucosyltransferase Fuc-TVII controls leukocyte trafficking through an essential role in L-, E-, and P-selectin ligand biosynthesis. Cell, 86, 643-653.
    • (1996) Cell , vol.86 , pp. 643-653
    • Maly, P.1    Thall, A.2    Petryniak, B.3    Rogers, C.E.4    Smith, P.L.5    Marks, R.M.6    Kelly, R.J.7    Gersten, K.M.8    Cheng, G.9    Saunders, T.L.10
  • 36
    • 0033782777 scopus 로고    scopus 로고
    • Protein glucosylation and its role in protein folding
    • Parodi, A.J. (2000a) Protein glucosylation and its role in protein folding. Annu. Rev. Biochem., 69, 69-93.
    • (2000) Annu. Rev. Biochem. , vol.69 , pp. 69-93
    • Parodi, A.J.1
  • 37
    • 0034657712 scopus 로고    scopus 로고
    • Role of N-oligosaccharide endoplasmic reticulum processing reactions in glycoprotein folding and degradation
    • Parodi, A.J. (2000b) Role of N-oligosaccharide endoplasmic reticulum processing reactions in glycoprotein folding and degradation. Biochem. J., 348(pt 1), 1-13.
    • (2000) Biochem. J. , vol.348 , Issue.PART 1 , pp. 1-13
    • Parodi, A.J.1
  • 38
    • 0031569829 scopus 로고    scopus 로고
    • The crystal structure of rhamnogalacturonase A from Aspergillus aculeatus: A right-handed parallel beta helix
    • Petersen, T.N., Kauppinen, S., and Larsen, S. (1997) The crystal structure of rhamnogalacturonase A from Aspergillus aculeatus: a right-handed parallel beta helix. Structure, 5, 533-544.
    • (1997) Structure , vol.5 , pp. 533-544
    • Petersen, T.N.1    Kauppinen, S.2    Larsen, S.3
  • 39
    • 0032937844 scopus 로고    scopus 로고
    • A statistical analysis of N- and O-glycan linkage conformations from crystallographic data
    • Petrescu, A.J., Petrescu, S.M., Dwek, R.A., and Wormald, M.R. (1999) A statistical analysis of N- and O-glycan linkage conformations from crystallographic data. Glycobiology, 9, 343-352.
    • (1999) Glycobiology , vol.9 , pp. 343-352
    • Petrescu, A.J.1    Petrescu, S.M.2    Dwek, R.A.3    Wormald, M.R.4
  • 40
    • 0034624961 scopus 로고    scopus 로고
    • Tyrosinase and glycoprotein folding: Roles of chaperones that recognize glycans
    • Petrescu, S.M., Branza-Nichita, N., Negroiu, G., Petrescu, A.J., and Dwek, R.A. (2000) Tyrosinase and glycoprotein folding: roles of chaperones that recognize glycans. Biochemistry, 39, 5229-5237.
    • (2000) Biochemistry , vol.39 , pp. 5229-5237
    • Petrescu, S.M.1    Branza-Nichita, N.2    Negroiu, G.3    Petrescu, A.J.4    Dwek, R.A.5
  • 41
    • 0027166270 scopus 로고
    • Empirical scale of side-chain conformational entropy in protein folding
    • Pickett, S.D. and Sternberg, M.J. (1993) Empirical scale of side-chain conformational entropy in protein folding. J. Mol. Biol., 231, 825-839.
    • (1993) J. Mol. Biol. , vol.231 , pp. 825-839
    • Pickett, S.D.1    Sternberg, M.J.2
  • 42
    • 0030839756 scopus 로고    scopus 로고
    • Rapid, sensitive sequencing of oligosaccharides from glycoproteins
    • Rudd, P.M. and Dwek, R.A. (1997) Rapid, sensitive sequencing of oligosaccharides from glycoproteins. Curr. Opin. Biotechnol., 8, 488-497.
    • (1997) Curr. Opin. Biotechnol. , vol.8 , pp. 488-497
    • Rudd, P.M.1    Dwek, R.A.2
  • 44
    • 0029126624 scopus 로고
    • The molecular basis for the recognition of misfolded glycoproteins by the UDP-Glc:glycoprotein glucosyltransferase
    • Sousa, M. and Parodi, A.J. (1995) The molecular basis for the recognition of misfolded glycoproteins by the UDP-Glc:glycoprotein glucosyltransferase. Eur. Mol. Biol. Org. J., 14, 4196-4203.
    • (1995) Eur. Mol. Biol. Org. J. , vol.14 , pp. 4196-4203
    • Sousa, M.1    Parodi, A.J.2
  • 45
    • 0038779355 scopus 로고    scopus 로고
    • Glycopeptide specificity of the secretory protein folding sensor UDP-glucose glycoprotein:glucosyltransferase
    • Taylor, S.C., Thibault, P., Tessier, D.C., Bergeron, J.J., and Thomas, D.Y. (2003) Glycopeptide specificity of the secretory protein folding sensor UDP-glucose glycoprotein:glucosyltransferase. EMBO Reports, 4, 405-411.
    • (2003) EMBO Reports , vol.4 , pp. 405-411
    • Taylor, S.C.1    Thibault, P.2    Tessier, D.C.3    Bergeron, J.J.4    Thomas, D.Y.5
  • 46
    • 0036236811 scopus 로고    scopus 로고
    • N-glycans stabilize human erythropoietin through hydrophobic interactions with the hydrophobic protein surface: Studies by surface plasmon resonance analysis
    • Toyoda, T., Arakawa, T., and Yamaguchi, H. (2002) N-glycans stabilize human erythropoietin through hydrophobic interactions with the hydrophobic protein surface: studies by surface plasmon resonance analysis. J. Biochem., 131, 511-515.
    • (2002) J. Biochem. , vol.131 , pp. 511-515
    • Toyoda, T.1    Arakawa, T.2    Yamaguchi, H.3
  • 48
    • 0033566020 scopus 로고    scopus 로고
    • Glycoproteins - Glycan presentation and protein stability
    • Wormald, M.R. and Dwek, R.A. (1999) Glycoproteins - glycan presentation and protein stability. Structure, 7, R155-R160.
    • (1999) Structure , vol.7
    • Wormald, M.R.1    Dwek, R.A.2
  • 49
    • 0036462598 scopus 로고    scopus 로고
    • Conformational studies of oligosaccharides and glycopeptides: Complementarity of NMR, X-ray crystallography, and molecular modelling
    • Wormald, M.R., Petrescu, A.J., Pao, Y.L., Glithero, A., Elliott, T., and Dwek, R.A. (2002) Conformational studies of oligosaccharides and glycopeptides: complementarity of NMR, X-ray crystallography, and molecular modelling. Chem. Rev., 102, 371-386.
    • (2002) Chem. Rev. , vol.102 , pp. 371-386
    • Wormald, M.R.1    Petrescu, A.J.2    Pao, Y.L.3    Glithero, A.4    Elliott, T.5    Dwek, R.A.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.