Structural analysis of the human Golgi-associated plant pathogenesis related protein GAPR-1 implicates dimerization as a regulatory mechanism

Journal of Molecular Biology

Volumn 339, Issue 1, 2004, Pages 173-183

  Serrano, Ramon L ^a,c   Kuhn, Audrey ^b   Hendricks, Astrid ^a   Helms, J Bernd ^a,d   Sinning, Irmgard ^a,b   Groves, Matthew R ^a,b,e  

^a UNIVERSITY OF HEIDELBERG   (Germany)

^b EUROPEAN MOLECULAR BIOLOGY LABORATORY   (Germany)

^c STANFORD UNIVERSITY SCHOOL OF MEDICINE   (United States)

^d UTRECHT UNIVERSITY   (Netherlands)

^e DESY   (Germany)

Author keywords

MALDI TOF, matrix assisted laser desorption time of flight mass spectroscopy; plant pathogenesis related protein; PR, pathogenesis related; PR 1; quasi elastic light scattering; X ray crystallography; yeast two hybrid screening

Indexed keywords

AMINO ACID; GOLGI ASSOCIATED PLANT PATHOGENESIS RELATED PROTEIN 1; PROTEIN; SERINE PROTEINASE; UNCLASSIFIED DRUG;

ARTICLE; CHEMICAL ANALYSIS; CRYSTAL STRUCTURE; DIMERIZATION; ENZYME ACTIVITY; MOLECULAR INTERACTION; MUTAGENESIS; NONHUMAN; PLANT DISEASE; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN STRUCTURE; REGULATORY MECHANISM; STRUCTURAL HOMOLOGY; TWO HYBRID SYSTEM; YEAST;

MAMMALIA;

EID: 2342453841     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2004.03.015     Document Type: Article

References (51)

1. Gianinazzi S., Martin C., Vallee J.C. Hypersensitivity to viruses, temperature and soluble proteins in Nicotiana xanthi n.c. Appearance of new macromolecules at the repression of viral synthesis. C. R. Acad. Sci. Hebd. Seances Acad. Sci. D. 270:1970;2383-2386
2. van Loon L.C., van Kammen A. Polyacrylamide disc electrophoresis of the soluble leaf proteins from Nicotiana tabacum var. "Samsun" and "Samsun NN". II. Changes in protein constitution after infection with tobacco mosaic virus. Virology. 40:1970;190-211
3. Stintzi A., Heitz T., Prasad V., Wiedemann-Merdinoglu S., Kauffmann S., Geoffroy P., et al. Plant "pathogenesis-related" proteins and their role in defense against pathogens. Biochimie. 75:1993;687-706
4. Dangl J.L., Dietrich R.A., Richberg M.H. Death don't have no mercy: cell death programs in plant microbe interactions. Plant Cell. 8:1996;1793-1807
5. Ryals J.A., Neuenschwander U.H., Willits M.G., Molina A., Steiner H.Y., Hunt M.D. Systemic aquired resistance. Plant Cell. 8:1996;1809-1819
6. van Loon L.C. Pathogenesis-related proteins. Plant Mol. Biol. 4:1985;111-116
7. Bol J.F., Linthorst H.J.M., Cornelissen B.J.C. Plant pathogenesis-related proteins induced by virus infection. Annu. Rev. Phytopathol. 28:1990;113-138
8. Linthorst H.J.M. Pathogenesis related proteins of plants. Crit. Rev. Plant Sci. 10:1991;123-150
9. Van Loon L.C., Van Strien E.A. The families of pathogenesis-related proteins, their activities, and comparative analysis of PR-1 type proteins. Physiol. Mol. Plant Pathol. 55:1999;85-97
10. Kitajima S., Sato F. Plant pathogenesis-related proteins: molecular mechanisms of gene expression and protein function. J. Biochem. (Tokyo). 125:1999;1-8
11. Niderman T., Genetet I., Bruyere T., Gees R., Stintzi A., Legrand M., et al. Pathogenesis-related PR-1 proteins are antifungal. Isolation and characterization of three 14-kilodalton proteins of tomato and of a basic PR-1 of tobacco with inhibitory activity against Phytophthora infestans. Plant Physiol. 108:1995;17-27
12. Zhang Y., Fan W., Kinkema M., Li X., Dong X. Interaction of NPR1 with basic leucine zipper protein transcription factors that bind sequences required for salicylic acid induction of the PR-1 gene. Proc. Natl Acad. Sci. USA. 96:1999;6523-6528
13. Klessig D.F., Durner J., Noad R., Navarre D.A., Wendehenne D., Kumar D., et al. Nitric oxide and salicylic acid signaling in plant defense. Proc. Natl Acad. Sci. USA. 97:2000;8849-8855
14. Maleck K., Levine A., Eulgem T., Morgan A., Schmid J., Lawton K.A., et al. The transcriptome of Arabidopsis thaliana during systemic acquired resistance. Nature Genet. 26:2000;403-410
15. Maleck K., Neuenschwander U., Cade R.M., Dietrich R.A., Dangl J.L., Ryals J.A. Isolation and characterization of broad-spectrum disease-resistant Arabidopsis mutants. Genetics. 160:2002;1661-1671
16. Milne T.J., Abbenante G., Tyndall J.D., Halliday J., Lewis R.J. Isolation and characterization of a cone snail protease with homology to CRISP proteins of the pathogenesis-related protein superfamily. J. Biol. Chem. 278:2003;31105-31110
17. Schuren F.H., Asgeirsdottir S.A., Kothe E.M., Scheer J.M., Wessels J.G. The Sc7/Sc14 gene family of Schizophyllum commune codes for extracellular proteins specifically expressed during fruit-body formation. J. Gen. Microbiol. 139:1993;2083-2090
18. Lu G., Villalba M., Coscia M.R., Hoffman D.R., King T.P. Sequence analysis and antigenic cross-reactivity of a venom allergen, antigen 5, from hornets, wasps, and yellow jackets. J. Immunol. 150:1993;2823-2830
19. Schreiber M.C., Karlo J.C., Kovalick G.E. A novel cDNA from Drosophila encoding a protein with similarity to mammalian cysteine-rich secretory proteins, wasp venom antigen 5, and plant group 1 pathogenesis-related proteins. Gene. 191:1997;135-141
20. Kjeldsen L., Cowland J.B., Johnsen A.H., Borregaard N. SGP28, a novel matrix glycoprotein in specific granules of human neutrophils with similarity to a human testis-specific gene product and a rodent sperm-coating glycoprotein. FEBS Letters. 380:1996;246-250
21. Kratzschmar J., Haendler B., Eberspaecher U., Roosterman D., Donner P., Schleuning W.D. The human cysteine-rich secretory protein (CRISP) family. Primary structure and tissue distribution of CRISP-1, CRISP-2 and CRISP-3. Eur. J. Biochem. 236:1996;827-836
22. Murphy E.V., Zhang Y., Zhu W., Biggs J. The human glioma pathogenesis-related protein is structurally related to plant pathogenesis-related proteins and its gene is expressed specifically in brain tumors. Gene. 159:1995;131-135
23. Rich T., Chen P., Furman F., Huynh N., Israel M.A. RTVP-1, a novel human gene with sequence similarity to genes of diverse species, is expressed in tumor cell lines of glial but not neuronal origin. Gene. 180:1996;125-130
24. Morrissette J., Kratzschmar J., Haendler B., el-Hayek R., Mochca-Morales J., Martin B.M., et al. Primary structure and properties of helothermine, a peptide toxin that blocks ryanodine receptors. Biophys. J. 68:1995;2280-2288
25. Brown R.L., Haley T.L., West K.A., Crabb J.W. Pseudechetoxin: a peptide blocker of cyclic nucleotide-gated ion channels. Proc. Natl Acad. Sci. USA. 96:1999;754-759
26. Gkantiragas I., Brugger B., Stuven E., Kaloyanova D., Li X.Y., Lohr K., Lottspeich F., et al. Sphingomyelin-enriched microdomains at the Golgi complex. Mol. Biol. Cell. 12:2001;1819-1833
27. Eberle H.B., Serrano R.L., Fullekrug J., Schlosser A., Lehmann W.D., Lottspeich F., et al. Identification and characterization of a novel human plant pathogenesis-related protein that localizes to lipid-enriched microdomains in the Golgi complex. J. Cell Sci. 115:2002;827-838
28. Fernandez C., Szyperski T., Bruyere T., Ramage P., Mosinger E., Wuthrich K. NMR solution structure of the pathogenesis-related protein P14a. J. Mol. Biol. 266:1997;576-593
29. Henriksen A., King T.P., Mirza O., Monsalve R.I., Meno K., Ipsen H., et al. Major venom allergen of yellow jackets, Ves v 5: structural characterization of a pathogenesis-related protein superfamily. Proteins: Struct. Funct. Genet. 45:2001;438-448
30. Fersht A.R., Sperling J. The charge relay system in chymotrypsin and chymotrypsinogen. J. Mol. Biol. 74:1973;137-149
31. Nagar B., Hantschel O., Young M.A., Scheffzek K., Veach D., Bornmann W., et al. Structural basis for the autoinhibition of c-Abl tyrosine kinase. Cell. 112:2003;859-871
32. Matsubara M., Nakatsu T., Kato H., Taniguchi H. Crystal structure of a myristoylated CAP-23/NAP-22 N-terminal domain complexed with Ca(2+)/calmodulin. EMBO J. 23:2004;712-718
33. Groves M.R., Kuhn A., Hendricks A., Radke S., Serrano R.L., Helms J.B., Sinning I. Crystallization of a Golgi-associated PR-1 related protein (GAPR-1) that localizes to lipid-enriched microdomains. Acta Crystallog. sect. D. 60:2004;730-732
34. vol. 26 Leslie A.G.W. Recent changes to the MOSFLM package for processing film and image plate data. Joint CCP4 & ESF-EAMCB Newsletter on Protein Crystallography. 1992
35. Evans P.R. Scala. Joint CCP4 & ESF-EAMCB Newsletter on Protein Crystallography. 33:1997;22-24
36. Fortelle E.L., Bricogne G. SHARP: A Statistical Heavy Atom Phasing and Refinement Program. Sweet R.M., Carter C.W. Jr. Macromolecular Crystallography: Methods in Enzymology. Macromolecular Crystallography: Methods in Enzymology. vol. 276:1997;472-494 Academic Press, New York
37. Jones T.A., Zou J.Y., Cowan S.W., Kjeldgaard M. Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallog. sect. D. 47:1991;110-119
38. Brunger A.T., Adams P.D., Clore G.M., DeLano W.L., Gros P., Grosse-Kunstleve R.W., et al. Crystallography & NMR system: a new software suite for macromolecular structure determination. Acta Crystallog. sect. D. 54:1998;905-921
39. Brunger A.T. Free R values: cross validation in crystallography. Carter C.W. Jr, Sweet R.M. Macromolecular Crystallography: Methods in Enzymology. Macromolecular Crystallography: Methods in Enzymology. vol. 277:1997;366-396 Academic Press, New York
40. Ito H., Fukuda Y., Murata K., Kimura A. Transformation of intact yeast cells treated with alkali cations. J. Bacteriol. 153:1983;163-168
41. Ausubel F.M., Brent R., Kingston R.E., Moore D.D., Seidman J.G., Kevin S. Current Protocols in Molecular Biology. 1988;John Wiley & Sons, New York
42. Serafini T., Stenbeck G., Brecht A., Lottspeich F., Orci L., Rothman J.E., Wieland F.T. A coat subunit of Golgi-derived non-clathrin-coated vesicles with homology to the clathrin-coated vesicle coat protein β-adaptin. Nature. 349:1991;215-220
43. Berman H.M., Westbrook J., Feng Z., Gilliland G., Bhat T.N., Weissig H., et al. The Protein Data Bank. Nucl. Acids Res. 28:2000;235-242
44. Esnouf R.M. An extensively modified version of MolScript that includes greatly enhanced coloring capabilities. J. Mol. Graph. 15:1997;133-138
45. Merrit E.A.B., D J. Raster3D: photorealistic molecular graphics. Macromol. Crystallog. 277:1997;505-524
46. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., Higgins D.G. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucl. Acids Res. 25:1997;4876-4882
47. Barton G.J. ALSCRIPT: a tool to format multiple sequence alignments. Protein Eng. 6:1993;37-40
48. Schroder H.K., Willasen N.P., Smalas A.O. Structure of a non-psychrophilic trypsin from a cold-adapted fish species. Acta Crystallog. sect. D. 54:1998;780-798
49. Nicholls A., Sharp K.A., Honig B. Protein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons. Proteins: Struct. Funct. Genet. 11:1991;281-296
50. Lee B., Richards F.M. The interpretation of protein structures: estimation of static accessibility. J. Mol. Biol. 55:1971;379-400
51. Collaborative Computing Project Number 4. The CCP4 suite: programs for protein crystallography. Acta Crystallog. sect. D. 50:1994;760-763