The SEA module: A new extracellular domain associated with O‐glycosylation

Using a variety of homology search methods and multiple alignments, a new extracellular module was identified in (1) agrin, (2) enterokinase, (3) a 63‐kDa sea urchin sperm protein, (4) perlecan, (5) the breast cancer marker MUC1 (episialin), (6) the cell surface antigen 114/A10, and (7/8) two functionally uncharacterized, probably extracellular, Caenorhabditis elegans proteins. Despite the functional diversity of these adhesive proteins, a common denominator seems to be their existence in heavily glycosylated environments. In addition, the better characterized proteins mentioned above contain all O‐glycosidiclinked carbohydrates such as heparan sulfate that contribute considerably to their molecular masses. The common module might regulate or assist binding to neighboring carbohydrate moieties.

[1]  P Bork,et al.  Ready for a motif submission? A proposed checklist. , 1995, Trends in biochemical sciences.

[2]  W. Halfter,et al.  Agrin Is a Heparan Sulfate Proteoglycan (*) , 1995, The Journal of Biological Chemistry.

[3]  J. Fallon,et al.  Building synapses: agrin and dystroglycan stick together , 1994, Trends in Neurosciences.

[4]  A. Yayon,et al.  Perlecan, basal lamina proteoglycan, promotes basic fibroblast growth factor-receptor binding, mitogenesis, and angiogenesis , 1994, Cell.

[5]  S. Altschul,et al.  Detection of conserved segments in proteins: iterative scanning of sequence databases with alignment blocks. , 1994, Proceedings of the National Academy of Sciences of the United States of America.

[6]  J. Thompson,et al.  CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. , 1994, Nucleic acids research.

[7]  D. Wigley,et al.  The third IgG-binding domain from streptococcal protein G. An analysis by X-ray crystallography of the structure alone and in a complex with Fab. , 1994, Journal of molecular biology.

[8]  R. Iozzo,et al.  The biology of perlecan: the multifaceted heparan sulphate proteoglycan of basement membranes and pericellular matrices. , 1994, The Biochemical journal.

[9]  O. Elroy-Stein,et al.  Characterization and molecular cloning of a novel MUC1 protein, devoid of tandem repeats, expressed in human breast cancer tissue. , 1994, European journal of biochemistry.

[10]  C. Sander,et al.  The FSSP database of structurally aligned protein fold families. , 1994, Nucleic acids research.

[11]  M. Matsushima,et al.  Structural characterization of porcine enteropeptidase. , 1994, The Journal of biological chemistry.

[12]  J. Sadler,et al.  Enterokinase, the initiator of intestinal digestion, is a mosaic protease composed of a distinctive assortment of domains. , 1994, Proceedings of the National Academy of Sciences of the United States of America.

[13]  P. Green,et al.  Ancient conserved regions in gene sequences , 1994 .

[14]  László Patthy,et al.  Introns and exons , 1994 .

[15]  B. Rost,et al.  Combining evolutionary information and neural networks to predict protein secondary structure , 1994, Proteins.

[16]  R. Durbin,et al.  2.2 Mb of contiguous nucleotide sequence from chromosome III of C. elegans , 1994, Nature.

[17]  C. Sander,et al.  Yeast chromosome III: new gene functions. , 1994, The EMBO journal.

[18]  R. Iozzo,et al.  Structural characterization of the complete human perlecan gene and its promoter. , 1993, Proceedings of the National Academy of Sciences of the United States of America.

[19]  P Bork,et al.  Evolutionarily mobile modules in proteins. , 1993, Scientific American.

[20]  R. Scheller,et al.  The ability of agrin to cluster AChRs depends on alternative splicing and on cell surface proteoglycans , 1993, Neuron.

[21]  D. Moerman,et al.  Products of the unc-52 gene in Caenorhabditis elegans are homologous to the core protein of the mammalian basement membrane heparan sulfate proteoglycan. , 1993, Genes & development.

[22]  V. Vacquier,et al.  A GPI-anchored sea urchin sperm membrane protein containing EGF domains is related to human uromodulin , 1993, The Journal of cell biology.

[23]  Peer Bork,et al.  A fast, sensitive pattern-matching approach for protein sequences , 1993, Comput. Appl. Biosci..

[24]  J. Fallon,et al.  Agrin and the molecular choreography of synapse formation , 1993, Trends in Neurosciences.

[25]  L. Patthy,et al.  Functions of agrin and agrin-related proteins , 1993, Trends in Neurosciences.

[26]  L. Patthy.  Modular design of proteases of coagulation, fibrinolysis, and complement activation: implications for protein engineering and structure-function studies. , 1993, Methods in enzymology.

[27]  J. Schilling,et al.  Isolation and characterization of a cDNA that encodes an agrin homolog in the marine ray , 1992, Molecular and Cellular Neuroscience.

[28]  M. Linial,et al.  Structure and chromosomal localization of the mammalian agrin gene , 1992, The Journal of neuroscience : the official journal of the Society for Neuroscience.

[29]  Peer Bork,et al.  Mobile modules and motifs , 1992, Current Biology.

[30]  M. Ruegg,et al.  cDNA that encodes active agrin , 1992, Neuron.

[31]  M. Ruegg,et al.  The agrin gene codes for a family of basal lamina proteins that differ in function and distribution , 1992, Neuron.

[32]  A. Gronenborn,et al.  A novel, highly stable fold of the immunoglobulin binding domain of streptococcal protein G. , 1993, Science.

[33]  S. Gendler,et al.  Molecular cloning and analysis of the mouse homologue of the tumor-associated mucin, MUC1, reveals conservation of potential O-glycosylation sites, transmembrane, and cytoplasmic domains and a loss of minisatellite-like polymorphism. , 1991, The Journal of biological chemistry.

[34]  P. Bork.  Shuffled domains in extracellular proteins , 1991, FEBS letters.

[35]  László Patthy,et al.  Modular exchange principles in proteins , 1991 .

[36]  R. Scheller,et al.  Structure and expression of a rat agrin , 1991, Neuron.

[37]  I D Campbell,et al.  Protein modules. , 1991, Trends in biochemical sciences.

[38]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[39]  R. Humphries,et al.  Molecular cloning of 114/A10, a cell surface antigen containing highly conserved repeated elements, which is expressed by murine hemopoietic progenitor cells and interleukin-3-dependent cell lines. , 1989, The Journal of biological chemistry.

[40]  A. Light,et al.  Enterokinase (enteropeptidase): comparative aspects. , 1989, Trends in biochemical sciences.

[41]  P. Wassarman,et al.  Zona pellucida glycoproteins. , 1988, Annual review of biochemistry.

[42]  L. Patthy,et al.  Detecting homology of distantly related proteins with consensus sequences. , 1987, Journal of molecular biology.

[43]  A. D. McLachlan,et al.  Profile analysis: detection of distantly related proteins. , 1987, Proceedings of the National Academy of Sciences of the United States of America.

[44]  L. Patthy.  Evolution of the proteases of blood coagulation and fibrinolysis by assembly from modules , 1985, Cell.

[45]  Russell F. Doolittle,et al.  The genealogy of some recently evolved vertebrate proteins , 1985 .

[46]  G J Williams,et al.  The Protein Data Bank: a computer-based archival file for macromolecular structures. , 1978, Archives of biochemistry and biophysics.