X-ray structure of a bacterial oligosaccharyltransferase

Asparagine-linked glycosylation is a post-translational modification of proteins containing the conserved sequence motif Asn-X-Ser/Thr. The attachment of oligosaccharides is implicated in diverse processes such as protein folding and quality control, organism development or host–pathogen interactions. The reaction is catalysed by oligosaccharyltransferase (OST), a membrane protein complex located in the endoplasmic reticulum. The central, catalytic enzyme of OST is the STT3 subunit, which has homologues in bacteria and archaea. Here we report the X-ray structure of a bacterial OST, the PglB protein of Campylobacter lari, in complex with an acceptor peptide. The structure defines the fold of STT3 proteins and provides insight into glycosylation sequon recognition and amide nitrogen activation, both of which are prerequisites for the formation of the N-glycosidic linkage. We also identified and validated catalytically important, acidic amino acid residues. Our results provide the molecular basis for understanding the mechanism of N-linked glycosylation.

[1]  E Bause,et al.  The role of the hydroxy amino acid in the triplet sequence Asn-Xaa-Thr(Ser) for the N-glycosylation step during glycoprotein biosynthesis. , 1981, The Biochemical journal.

[2]  Markus Aebi,et al.  Relaxed acceptor site specificity of bacterial oligosaccharyltransferase in vivo. , 2011, Glycobiology.

[3]  Daisuke Kohda,et al.  Comparative Structural Biology of Eubacterial and Archaeal Oligosaccharyltransferases* , 2009, The Journal of Biological Chemistry.

[4]  Collaborative Computational,et al.  The CCP4 suite: programs for protein crystallography. , 1994, Acta crystallographica. Section D, Biological crystallography.

[5]  M. Aebi,et al.  STT3, a highly conserved protein required for yeast oligosaccharyl transferase activity in vivo. , 1995, The EMBO journal.

[6]  Martin Phillips,et al.  Toward the structural genomics of complexes: crystal structure of a PE/PPE protein complex from Mycobacterium tuberculosis. , 2006, Proceedings of the National Academy of Sciences of the United States of America.

[7]  Piotr Sliz,et al.  Structure of human O-GlcNAc transferase and its complex with a peptide substrate , 2010, Nature.

[8]  A. Helenius,et al.  Role of ribosome and translocon complex during folding of influenza hemagglutinin in the endoplasmic reticulum of living cells. , 2000, Molecular biology of the cell.

[9]  Simon J North,et al.  N-linked glycosylation in Campylobacter jejuni and its functional transfer into E. coli. , 2002, Science.

[10]  A. Imberty,et al.  Structure/function studies of glycosyltransferases. , 1999, Current opinion in structural biology.

[11]  R. E. Rosenberg,et al.  Resonance interactions in acyclic systems , 1989 .

[12]  R. Glockshuber,et al.  Oxidoreductase activity of oligosaccharyltransferase subunits Ost3p and Ost6p defines site-specific glycosylation efficiency , 2009, Proceedings of the National Academy of Sciences.

[13]  C. Breneman,et al.  Resonance interactions in acyclic systems. 3. Formamide internal rotation revisited. Charge and energy redistribution along the C-N bond rotational pathway , 1992 .

[14]  Florian Gnad,et al.  Precision Mapping of an In Vivo N-Glycoproteome Reveals Rigid Topological and Sequence Constraints , 2010, Cell.

[15]  B. Imperiali,et al.  Conformational implications of asparagine-linked glycosylation. , 1995, Proceedings of the National Academy of Sciences of the United States of America.

[16]  B. Imperiali,et al.  From peptide to protein: comparative analysis of the substrate specificity of N-linked glycosylation in C. jejuni. , 2007, Biochemistry.

[17]  G. von Heijne,et al.  A Nascent Secretory Protein 5 Traverse the Ribosome/Endoplasmic Reticulum Translocase Complex as an Extended Chain (*) , 1996, The Journal of Biological Chemistry.

[18]  R. A. Klein,et al.  Oligosaccharyltransferase is highly specific for the hydroxy amino acid in Asn‐Xaa‐Thr/Ser , 2001, FEBS letters.

[19]  J. Eichler,et al.  Protein N‐glycosylation in Archaea: defining Haloferax volcanii genes involved in S‐layer glycoprotein glycosylation , 2006, Molecular microbiology.

[20]  M. Valvano,et al.  Construction and Evaluation of Plasmid Vectors Optimized for Constitutive and Regulated Gene Expression in Burkholderia cepacia Complex Isolates , 2002, Applied and Environmental Microbiology.

[21]  C. Szymanski,et al.  Evidence for a system of general protein glycosylation in Campylobacter jejuni , 1999, Molecular microbiology.

[22]  Alain Balland,et al.  Asparagine-linked Oligosaccharides Present on a Non-consensus Amino Acid Sequence in the CH1 Domain of Human Antibodies , 2009, The Journal of Biological Chemistry.

[23]  R. Gilmore,et al.  Biochemistry, molecular biology, and genetics of the oligosaccharyltransferase , 1996, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[24]  R Apweiler,et al.  On the frequency of protein glycosylation, as deduced from analysis of the SWISS-PROT database. , 1999, Biochimica et biophysica acta.

[25]  S. High,et al.  Ribophorin I acts as a substrate-specific facilitator of N-glycosylation , 2007, Journal of Cell Science.

[26]  D. Kelleher,et al.  An evolving view of the eukaryotic oligosaccharyltransferase. , 2006, Glycobiology.

[27]  Raymond A Dwek,et al.  Statistical analysis of the protein environment of N-glycosylation sites: implications for occupancy, structure, and folding. , 2003, Glycobiology.

[28]  Randy J. Read,et al.  Acta Crystallographica Section D Biological , 2003 .

[29]  Markus Aebi,et al.  Definition of the bacterial N‐glycosylation site consensus sequence , 2006, The EMBO journal.

[30]  W. Yi,et al.  Overexpression and topology of bacterial oligosaccharyltransferase PglB. , 2010, Biochemical and biophysical research communications.

[31]  E. Bause Model studies on N-glycosylation of proteins. , 1984, Biochemical Society transactions.

[32]  F. Gamarro,et al.  All in one: Leishmania major STT3 proteins substitute for the whole oligosaccharyltransferase complex in Saccharomyces cerevisiae. , 2008, Molecular biology of the cell.

[33]  J. Strominger,et al.  Purification and characterization of a prokaryotic glycoprotein from the cell envelope of Halobacterium salinarium. , 1976, The Journal of biological chemistry.

[34]  井倉 真由美 Structure-guided identification of a new catalytic motif of oligosaccharyltransferase , 2008 .

[35]  W. Tanner,et al.  N-Glycosylation of yeast proteins. Characterization of the solubilized oligosaccharyl transferase. , 1981, European journal of biochemistry.

[36]  Anastassis Perrakis,et al.  Developments in the CCP4 molecular-graphics project. , 2004, Acta crystallographica. Section D, Biological crystallography.

[37]  A. Helenius,et al.  Roles of N-linked glycans in the endoplasmic reticulum. , 2004, Annual review of biochemistry.

[38]  Arcady Mushegian,et al.  Three monophyletic superfamilies account for the majority of the known glycosyltransferases , 2003, Protein science : a publication of the Protein Society.

[39]  G. Barton,et al.  Distinct donor and acceptor specificities of Trypanosoma brucei oligosaccharyltransferases , 2009, The EMBO journal.

[40]  G. Davies,et al.  Structure of the nucleotide-diphospho-sugar transferase, SpsA from Bacillus subtilis, in native and nucleotide-complexed forms. , 1999, Biochemistry.

[41]  G J Davies,et al.  Glycosyltransferases: structures, functions, and mechanisms. , 2008, Annual review of biochemistry.

[42]  J. Rini,et al.  Glycosyltransferase structure and mechanism. , 2000, Current opinion in structural biology.

[43]  J. Zou,et al.  Improved methods for building protein models in electron density maps and the location of errors in these models. , 1991, Acta crystallographica. Section A, Foundations of crystallography.

[44]  M. Aebi,et al.  N-Linked glycosylation of antibody fragments in Escherichia coli. , 2011, Bioconjugate chemistry.

[45]  C. Szymanski,et al.  Protein glycosylation in bacterial mucosal pathogens , 2005, Nature Reviews Microbiology.

[46]  C. Ruiz-Cañada,et al.  Cotranslational and Posttranslational N-Glycosylation of Polypeptides by Distinct Mammalian OST Isoforms , 2009, Cell.

[47]  A. Varki,et al.  Biological roles of oligosaccharides: all of the theories are correct , 1993, Glycobiology.

[48]  S. Kornfeld,et al.  Assembly of asparagine-linked oligosaccharides. , 1985, Annual review of biochemistry.

[49]  R. Watanabe,et al.  PIG‐M transfers the first mannose to glycosylphosphatidylinositol on the lumenal side of the ER , 2001, The EMBO journal.

[50]  B. Imperiali,et al.  Role of peptide conformation in asparagine-linked glycosylation , 1992 .

[51]  Huilin Li,et al.  Structure of the oligosaccharyl transferase complex at 12 A resolution. , 2008, Structure.

[52]  Randy J. Read,et al.  Phaser crystallographic software , 2007, Journal of applied crystallography.

[53]  W. Cleland,et al.  Low-barrier hydrogen bonds and enzymic catalysis. , 1994, Science.

[54]  Benjamin L Schulz,et al.  N-Linked Glycosylation of Folded Proteins by the Bacterial Oligosaccharyltransferase , 2006, Science.

[55]  W. Cleland Low-barrier hydrogen bonds and enzymatic catalysis. , 2000, Archives of biochemistry and biophysics.