Structure of the guanine nucleotide exchange factor Sec7 domain of human Arno and analysis of the interaction with ARF GTPpase

Cell

Volumn 92, Issue 3, 1998, Pages 415-423

  Mossessova, Elena ^a   Gulbis, Jacqueline M ^a   Goldberg, Jonathan ^a  

^a Department of Obstetrics Gynecology   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GUANINE NUCLEOTIDE EXCHANGE FACTOR; GUANOSINE TRIPHOSPHATASE;

ALPHA HELIX; ARTICLE; DNA FOOTPRINTING; ENZYME ANALYSIS; GENE SWITCHING; HUMAN; HUMAN CELL; HYDROPHOBICITY; MEMBRANE BINDING; MEMBRANE VESICLE; MYRISTYLATION; PHYLOGENY; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN PROTEIN INTERACTION; PROTEIN STRUCTURE; SEQUENCE HOMOLOGY;

EID: 0032488847     PISSN: 00928674     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0092-8674(00)80933-2     Document Type: Article

References (52)

1. Achstetter, T., Franzusoff, A., Field, C., and Schekman, R. (1988). SEC7 encodes an unusual, high molecular weight protein required for membrane traffic from the yeast Golgi apparatus. J. Biol. Chem. 263, 11711-11717.
2. Amor, J.C., Harrison, D.H., Kahn, R.A., and Ringe, D. (1994). Structure of the human ADP-ribosylation factor 1 complexed with GDP. Nature 372, 704-708.
3. Boguski, M.S., and McCormick, F. (1993). Proteins regulating ras and its relatives. Nature 366, 643-654.
4. Boman, A.L., and Kahn, R.A. (1995). Arf proteins: the membrane traffic police? Trends Biochem. Sci. 20, 147-150.
5. Bourne, H.R., Sanders, D.A., and McCormick, F. (1991). The GTPase superfamily: conserved structure and molecular mechanism. Nature 349, 117-127.
6. Brünger, A.T. (1992). X-PLOR Version 3.1 Manual (New Haven: Yale University).
7. Brünger, A.T. (1993). Assessment of phase accuracy by cross validation: the free R value. Methods and applications. Acta Cryst. D49, 24-36.
8. Burton, J.L., Burns, M.E., Gatti, E., Augustine, G.J., and De Camilli, P. (1994). Specific interactions of Mss4 with members of the Rab GTPase subfamily. EMBO J. 13, 5547-5558.
9. CCP4 (1994). The CCP4 suite: programs for X-ray crystallography. Acta Crystallogr. D 50, 760-763.
10. Chardin, P., Paris, S., Antonny, B., Robineau, S., Beraud-Dufour, S., Jackson, C.L., and Chabre, M. (1996). A human exchange factor for ARF contains Sec7- and pleckstrin-homology domains. Nature 384, 481-484.
11. Crechet, J.B., Bernardi, A., and Parmeggiani, A. (1996). Distal switch II region of Ras2p is required for interaction with guanine nucleotide exchange factor. J. Biol. Chem. 271, 17234-17240.
12. Duronio, R.J., Jackson-Machelski, E., Heuckeroth, R.O., Olins, P.O., Devine, C.S., Yonemoto, W., Slice, L.W., Taylor, S.S., and Gordon, J.I. (1990). Protein N-myristoylation in Escherichia coli: reconstitution of a eukaryotic protein modification in bacteria. Proc. Natl. Acad. Sci. USA 87, 1506-1510.
13. Franco, M., Chardin, P., Chabre, M., and Paris, S. (1993). Myristoylation is not required for GTP-dependent binding of ADP-ribosylation factor ARF1 to phospholipids. J. Biol. Chem. 268, 24531-24534.
14. 2+ levels. J. Biol. Chem. 270, 1337-1341.
15. Franco, M., Chardin, P., Chabre, M., and Paris, S. (1996). Myristoylation-facilitated binding of the G protein ARF1 GDP to membrane phospholipids is required for its activation by a soluble nucleotide exchange factor. J. Biol. Chem. 271, 1573-1578.
16. Heyduk, E., and Heyduk, T. (1994). Mapping protein domains involved in macromolecular interactions: a novel protein footprinting approach. Biochemistry 33, 9643-9650.
17. Heyduk, T., Heyduk, E., Severinov, K., Tang, H., and Ebright, R.H. (1996). Determinants of RNA polymerase alpha subunit for interaction with beta, beta′, and sigma subunits: hydroxyl-radical protein footprinting. Proc. Natl. Acad. Sci. USA 93, 10162-10166.
18. Huber, A.H., Nelson, W.J., and Weis, W.I. (1997). Three-dimensional structure of the armadillo repeat region of beta-catenin. Cell 90, 871-882.
19. Janin, J., and Chothia, C. (1990). The structure of protein-protein recognition sites. J. Biol. Chem. 265, 16027-16030.
20. Kahn, R.A., Randazzo, P., Serafini, T., Weiss, O., Rulka, C., Clark, J., Amherdt, M., Roller, P., Orci, L., and Rothman, J.E. (1992). The amino terminus of ADP-ribosylation factor (ARF) is a critical determinant of ARF activities and is a potent and specific inhibitor of protein transport. J. Biol. Chem. 267, 13039-13046.
21. Kawashima, T., Berthet-Colominas, C., Wulff, M., Cusack, S., and Leberman, R. (1996). The structure of the Escherichia coli EF-Tu. EF-Ts complex at 2.5Å resolution. Nature 379, 511-518.
22. Klarlund, J.K., Guilherme, A., Holik, J.J., Virbasius, J.V., Chawla, A., and Czech, M.P. (1997). Signaling by phosphoinositide-3,4,5-trisphosphate through proteins containing pleckstrin and Sec7 homology domains. Science 275, 1927-1930.
23. Kleywegt, G.J., and Jones, T.A. (1994). In Proceedings of the CCP4 Study Weekend (Warrington, LJK: SERC Daresbury Laboratory), pp. 59-66.
24. Kleywegt, G.J., and Jones, T.A. (1997). Detecting folding motifs and similarities in protein structure. In Meth. Enzymol., C.W. Carter, Jr., and R.M. Sweet, eds. (San Diego, California: Academic Press), pp. 525-545.
25. Kraulis, P. (1991). MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures. J. Appl. Crystallogr. 24, 946-950.
26. Lai, C.C., Boguski, M., Broek, D., and Powers, S. (1993). Influence of guanine nucleotides on complex formation between Ras and CDC25 proteins. Mol. Cell. Biol. 13, 1345-1352.
27. Liemann, S., and Huber, R. (1997). Three-dimensional structure of annexins. Cell. Mol. Life Sci. 53, 516-521.
28. Mendenhall, W., and Sincich, T. (1988). Statistics for the Engineering and Computer Sciences (San Francisco: Dellen/MacMillan).
29. Miller, S., Janin, J., Lesk, A.M., and Chothia, C. (1987). Interior and surface of monomeric proteins. J. Mol. Biol. 196, 641-656.
30. Mistou, M.Y., Jacquet, E., Poullet, P., Rensland, H., Gideon, P., Schlichting, I., Wittinghofer, A., and Parmeggiani, A. (1992). Mutations of Ha-ras p21 that define important regions for the molecular mechanism of the SDC25 C-domain, a guanine nucleotide dissociation stimulator. EMBO J. 11, 2391-2397.
31. Mosteller, R.D., Han, J., and Broek, D. (1994). Identification of residues of the H-ras protein critical for functional interaction with guanine nucleotide exchange factors. Mol. Cell. Biol. 14, 1104-1112.
32. Nicholls, A., Sharp, K.A., and Honig, B. (1991). Protein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons. Proteins: Struct. Funct. Genet. 11, 281-296.
33. Novick, P., Field, C., and Schekman, R. (1980). Identification of 23 complementation groups required for post-translational events in the yeast secretory pathway. Cell 21, 205-215.
34. Otwinowski, Z., and Minor, W. (1993). In Data Collection and Processing, L. Sawyer, N. Isaacs, and S. Bailey, eds. (Warrington, UK: SERC Daresbury Laboratory), pp. 556-562.
35. Paris, S., Beraud-Dufour, S., Robineau, S., Bigay, J., Antonny, B., Chabre, M., and Chardin, P. (1997). Role of protein-phospholipid interactions in the activation of ARF1 by the guanine nucleotide exchange factor Arno. J. Biol. Chem. 272, 22221-22226.
36. Peyroche, A., Paris, S., and Jackson, C.L. (1996). Nucleotide exchange on ARF mediated by yeast Gea1 protein. Nature 384, 479-481.
37. Quilliam, L.A., Hisaka, M.M., Zhong, S., Lowry, A., Mosteller, R.D., Han, J., Drugan, J.K., Broek, D., Campbell, S.L., and Der, C.J. (1996). Involvement of the switch 2 domain of Ras in its interaction with guanine nucleotide exchange factors. J. Biol. Chem. 271, 11076-11082.
38. Randazzo, P.A., Terui, T., Sturch, S., and Kahn, R.A. (1994). The amino terminus of ADP-ribosylation factor (ARF) 1 is essential for interaction with Gs and ARF GTPase-activating protein. J. Biol. Chem. 269, 29490-29494.
39. Randazzo, P.A., Terui, T., Sturch, S., Fales, H.M., Ferrige, A.G., and Kahn, R.A. (1995). The myristoylated amino terminus of ADP-ribosylation factor 1 is a phospholipid- and GTP-sensitive switch. J. Biol. Chem. 270, 14809-14815.
40. Ranganathan, R., Lu, K.P., Hunter, T., and Noel, J.P. (1997). Structural and functional analysis of the mitotic rotamase Pin1 suggests substrate recognition is phosphorylation dependent. Cell 89, 875-886.
41. Rittinger, K., Walker, P.A., Eccleston, J.F., Smerdon, S.J., and Gamblin, S.J. (1997). Structure at 1.65Å of RhoA and its GTPase-activating protein in complex with a transition-state analogue. Nature 389, 758-762.
42. Rothman, J.E., and Wieland, F.T. (1996). Protein sorting by transport vesicles. Science 272, 227-234.
43. Schagger, H., and von Jagow, G. (1987). Tricine-sodium dodecyl sulfate-polyacrylamide gel electrophoresis for the separation of proteins in the range from 1 to 100 kDa. Anal. Biochem. 166, 368-379.
44. Scheffzek, K., Ahmadian, M.R., Kabsch, W., Wiesmüller, L., Lautwein, A., Schmitz, F., and Wittinghofer, A. (1997). The Ras-RasGAP complex: structural basis for GTPase activation and its loss in oncogenic Ras mutants. Science 277, 333-338.
45. Schekman, R., and Orci, L. (1996). Coat proteins and vesicle budding. Science 271, 1526-1533.
46. Schlichting, I., Almo, S.C., Rapp, G., Wilson, K., Petratos, K., Lentfer, A., Wittinghofer, A., Kabsch, W., Pai, E.F., Petsko, G.A., and Goody, R.S. (1990). Time-resolved X-ray crystallographic study of the conformational change in Ha-Ras p21 protein on GTP hydrolysis. Nature 345, 309-315.
47. Serafini, T., Orci, L., Amherdt, M., Brunner, M., Kahn, R.A., and Rothman, J.E. (1991). ADP-ribosylation factor is a subunit of the coat of Golgi-derived COP-coated vesicles: a novel role for a GTP-binding protein. Cell 67, 239-253.
48. Shevell, D.E., Leu, W.M., Gillmor, C.S., Xia, G., Feldmann, K.A., and Chua, N.H. (1994). EMB30 is essential for normal cell division, cell expansion, and cell adhesion in Arabidopsis and encodes a protein that has similarity to Sec7. Cell 77, 1051-1062.
49. Sulston, J., Du, Z., Thomas, K., Wilson, R., Hillier, L., Staden, R., Halloran, N., Green, P., Thierry-Mieg, J., Qiu, L., et al. (1992). The C. elegans genome sequencing project: a beginning. Nature 356, 37-41.
50. Wang, Y., Severinov, K., Loizos, N., Fenyo, D., Heyduk, E., Heyduk, T., Chait, B.T., and Darst, S.A. (1997). Determinants for Escherichia coli RNA polymerase assembly within the beta subunit. J. Mol. Biol. 270, 648-662.
51. Young, L., Jernigan, R.L., and Covell, D.G. (1994). A role for surface hydrophobicity in protein-protein recognition. Protein Sci. 3, 717-729.
52. Yu, H., and Schreiber, S.L. (1995). Structure of guanine-nucleotide-exchange factor human Mss4 and identification of its Rab-interacting surface. Nature 376, 788-791.