Genome-wide analysis of membrane targeting by S. cerevisiae pleckstrin homology domains

Molecular Cell

Volumn 13, Issue 5, 2004, Pages 677-688

  Yu, Jong W ^a   Mendrola, Jeannine M ^a   Audhya, Anjon ^b   Singh, Shaneen ^c   Keleti, David ^a   DeWald, Daryll B ^d   Murray, Diana ^c   Emr, Scott D ^b   Lemmon, Mark A ^a  

^a UNIVERSITY OF PENNSYLVANIA   (United States)

^b HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^c WEILL CORNELL MEDICAL COLLEGE   (United States)

^d UTAH STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

FUNGAL PROTEIN; PHOSPHATIDYLINOSITIDE; PLECKSTRIN;

ARTICLE; BINDING AFFINITY; CELL MEMBRANE; CELLULAR DISTRIBUTION; ELECTRICITY; FUNGAL GENE; GENOME; MEMBRANE BINDING; NONHUMAN; PROTEIN DOMAIN; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEIN TARGETING; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY;

BINDING SITES; BLOOD PROTEINS; CALCIUM-BINDING PROTEINS; CELL MEMBRANE; GENE EXPRESSION REGULATION, FUNGAL; GENOME, FUNGAL; PHOSPHATIDYLINOSITOLS; PHOSPHOPROTEINS; PROTEIN BINDING; PROTEIN STRUCTURE, TERTIARY; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID;

SACCHAROMYCES; SACCHAROMYCES CEREVISIAE;

EID: 1642367563     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1097-2765(04)00083-8     Document Type: Article

References (41)

1. Audhya A., Emr S.D. Stt4 PI 4-kinase localizes to the plasma membrane and functions in the Pkc1-mediated MAP kinase cascade. Dev. Cell. 2:2002;593-605.
2. Audhya A., Foti M., Emr S.D. Distinct roles for the yeast phosphatidylinositol 4-kinases, Stt4p and Pik1p, in secretion, cell growth, and organelle membrane dynamics. Mol. Biol. Cell. 11:2000;2673-2689.
3. Balla T., Bondeva T., Varnai P. How accurately can we image inositol lipids in living cells? Trends Pharmacol. Sci. 21:2000;238-241.
4. Blomberg N., Baraldi E., Nilges M., Saraste M. The PH superfold. a structural scaffold for multiple functions Trends Biochem. Sci. 24:1999;441-445.
5. Bloom K. Nuclear migration. cortical anchors for cytoplasmic dynein Curr. Biol. 11:2001;R326-R329.
6. Chiu V.K., Bivona T., Hach A., Sajous J.B., Silletti J., Wiener H., Johnson R.L. 2nd, Cox A.D., Philips M.R. Ras signalling on the endoplasmic reticulum and the Golgi. Nat. Cell Biol. 4:2002;343-350.
7. Cowles C.R., Odorizzi G., Payne G.S., Emr S.D. The AP-3 adaptor complex is essential for cargo-selective transport to the yeast vacuole. Cell. 91:1997;109-118.
8. Desrivieres S., Cooke F.T., Parker P.J., Hall M.N. MSS4, a phosphatidylinositol-4-phosphate 5-kinase required for organization of the actin cytoskeleton in Saccharomyces cerevisiae. J. Biol. Chem. 273:1998;15787-15793.
9. Dowler S., Currie R.A., Campbell D.G., Deak M., Kular G., Downes C.P., Alessi D.R. Identification of pleckstrin-homology-domain-containing proteins with novel phosphoinositide-binding specificities. Biochem. J. 351:2000;19-31.
10. Erb E.M., Chen X., Allen S., Roberts C.J., Tendler S.J., Davies M.C., Forsen S. Characterization of the surfaces generated by liposome binding to the modified dextran matrix of a surface plasmon resonance sensor chip. Anal. Biochem. 280:2000;29-35.
11. Farkasovsky M., Kuntzel H. Yeast Num1p associates with the mother cell cortex during S/G2 phase and affects microtubular functions. J. Cell Biol. 131:1995;1003-1014.
12. Ferguson K.M., Lemmon M.A., Schlessinger J., Sigler P.B. Structure of the high affinity complex of inositol trisphosphate with a phospholipase C pleckstrin homology domain. Cell. 83:1995;1037-1046.
13. Foti M., Audhya A., Emr S.D. Sac1 lipid phosphatase and Stt4 phosphatidylinositol 4-kinase regulate a pool of phosphatidylinositol 4-phosphate that functions in the control of the actin cytoskeleton and vacuole morphology. Mol. Biol. Cell. 12:2001;2396-2411.
14. Hallett M.A., Lo H.S., Bender A. Probing the importance and potential roles of the binding of the PH-domain protein Boi1 to acidic phospholipids. BMC Cell Biol. 3:2002;16.
15. Hama H., Schnieders E.A., Thorner J., Takemoto J.Y., DeWald D.B. Direct involvement of phosphatidylinositol 4-phosphate in secretion in the yeast Saccharomyces cerevisiae. J. Biol. Chem. 274:1999;34294-34300.
16. Homma K., Terui S., Minemura M., Qadota H., Anraku Y., Kanaho Y., Ohya Y. Phosphatidylinositol-4-phosphate 5-kinase localized on the plasma membrane is essential for yeast cell morphogenesis. J. Biol. Chem. 273:1998;15779-15786.
17. Huh W.K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Global analysis of protein localization in budding yeast. Nature. 425:2003;686-691.
18. International Human Genome Consortium Initial sequencing and analysis of the human genome. Nature. 409:2001;860-921.
19. Isakoff S.J., Cardozo T., Andreev J., Li Z., Ferguson K.M., Abagyan R., Lemmon M.A., Aronheim A., Skolnik E.Y. Identification and analysis of PH domain-containing targets of phosphatidylinositol 3-kinase using a novel in vivo assay in yeast. EMBO J. 17:1998;5374-5387.
20. Kavran J.M., Klein D.E., Lee A., Falasca M., Isakoff S.J., Skolnik E.Y., Lemmon M.A. Specificity and promiscuity in phosphoinositide binding by pleckstrin homology domains. J. Biol. Chem. 273:1998;30497-30508.
21. Klein D.E., Lee A., Frank D.W., Marks M.S., Lemmon M.A. The pleckstrin homology domains of dynamin isoforms require oligomerization for high affinity phosphoinositide binding. J. Biol. Chem. 273:1998;27725-27733.
22. Lemmon M.A., Ferguson K.M. Signal-dependent membrane targeting by pleckstrin homology (PH) domains. Biochem. J. 350:2000;1-18.
23. Lemmon M.A., Ferguson K.M., O'Brien R., Sigler P.B., Schlessinger J. Specific and high-affinity binding of inositol phosphates to an isolated pleckstrin homology domain. Proc. Natl. Acad. Sci. USA. 92:1995;10472-10476.
24. Levine T.P., Munro S. Dual targeting of Osh1p, a yeast homologue of oxysterol-binding protein, to both the Golgi and the nucleus-vacuole junction. Mol. Biol. Cell. 12:2001;1633-1644.
25. Levine T.P., Munro S. Targeting of Golgi-specific pleckstrin homology domains involves both PtdIns 4-kinase-dependent and independent components. Curr. Biol. 12:2002;695-704.
26. Lodowski D.T., Pitcher J.A., Capel W.D., Lefkowitz R.J., Tesmer J.J. Keeping G proteins at bay. a complex between G protein-coupled receptor kinase 2 and Gbetagamma Science. 300:2003;1256-1262.
27. Macias M.J., Musacchio A., Ponstingl H., Nilges M., Saraste M., Oschkinat H. Structure of the pleckstrin homology domain from β-spectrin. Nature. 369:1994;675-677.
28. Nicholls A., Sharp K.A., Honig B. Protein folding and association. insights from the interfacial and thermodynamic properties of hydrocarbons Proteins. 11:1991;281-296.
29. Odorizzi G., Babst M., Emr S.D. Phosphoinositide signaling and the regulation of membrane trafficking in yeast. Trends Biochem. Sci. 25:2000;229-235.
30. βγ subunits and lipid. J. Biol. Chem. 270:1995;11707-11710.
31. Rameh L.E., Arvidsson A.-K., Carraway K.L. III, Couvillon A.D., Rathbun G., Cromptoni A., VanRenterghem B., Czech M.P., Ravichandran K.S., Burakoff S.J.et al. A comparative analysis of the phosphoinositide binding specificity of pleckstrin homology domains. J. Biol. Chem. 272:1997;22059-22066.
32. Ron D., Dressler H. PGSTag - a versatile bacterial expression plasmid for enzymatic labeling of recombinant proteins. Biotechniques. 13:1992;866-869.
33. Schultz J., Copley R.R., Doerks T., Ponting C.P., Bork P. Smart. a web-based tool for the study of genetically mobile domains Nucleic Acids Res. 28:2000;231-234.
34. Singh S.M., Murray D. Molecular modeling of the membrane targeting of phospholipase C pleckstrin homology domains. Protein Sci. 12:2003;1934-1953.
35. Stefan C.J., Audhya A., Emr S.D. The yeast synaptojanin-like proteins control the cellular distribution of phosphatidylinositol (4,5)-bisphosphate. Mol. Biol. Cell. 13:2002;542-557.
36. Stolt P.C., Jeon H., Song H.K., Herz J., Eck M.J., Blacklow S.C. Origins of peptide selectivity and phosphoinositide binding revealed by structures of disabled-1 PTB domain complexes. Structure. 11:2003;569-579.
37. Stolz L.E., Kuo W.J., Longchamps J., Sekhon M.K., York J.D. INP51, a yeast inositol polyphosphate 5-phosphatase required for phosphatidylinositol 4,5-bisphosphate homeostasis and whose absence confers a cold-resistant phenotype. J. Biol. Chem. 273:1998;11852-11861.
38. Takeuchi H., Kanematsu T., Misumi Y., Sakane F., Konishi H., Kikkawa U., Watanabe Y., Katan M., Hirata M. Distinct specificity in the binding of inositol phosphates by pleckstrin homology domains of pleckstrin, RAC-protein kinase, diacylglycerol kinase and a new 130 kDa protein. Biochim. Biophys. Acta. 1359:1997;275-285.
39. Walch-Solimena C., Novick P. The yeast phosphatidylinositol-4-OH kinase pik1 regulates secretion at the Golgi. Nat. Cell Biol. 1:1999;523-525.
40. Yu J.W., Lemmon M.A. All phox homology (PX) domains from Saccharomyces cerevisiae specifically recognize phosphatidylinositol 3-phosphate. J. Biol. Chem. 276:2001;44179-44184.
41. Yun M., Keshvara L., Park C.G., Zhang Y.M., Dickerson J.B., Zheng J., Rock C.O., Curran T., Park H.W. Crystal structures of the Dab homology domains of mouse disabled 1 and 2. J. Biol. Chem. 278:2003;36572-36581.