Phizicky Lab
Publications
2008
Chernyakov I, Whipple JM, Kotelawala L, Grayhack EJ, Phizicky EM (2008)
Degradation of several hypomodified mature tRNA species in Saccharomyces cerevisiae is mediated by Met22 and the 5'-3' exonucleases Rat1 and Xrn1. Genes Dev, 22:1369-80
Jackman JE, Phizicky EM (2008)
Identification of Critical Residues for G-1 Addition and Substrate Recognition by tRNA(His) Guanylyltransferase. Biochemistry
Kotelawala L, Grayhack EJ, Phizicky EM (2008)
Identification of yeast tRNA Um(44) 2'-O-methyltransferase (Trm44) and demonstration of a Trm44 role in sustaining levels of specific tRNA(Ser) species. Rna, 14:158-69
2007
Wilkinson ML, Crary SM, Jackman JE, Grayhack EJ, Phizicky EM (2007)
The 2'-O-methyltransferase responsible for modification of yeast tRNA at position 4.Rna, 13:404-13
Malkowski MG, Quartley E, Friedman AE, Babulski J, Kon Y, Wolfley J, Said M, Luft JR, Phizicky EM, DeTitta GT, Grayhack EJ (2007)
Blocking S-adenosylmethionine synthesis in yeast allows selenomethionine incorporation and multiwavelength anomalous dispersion phasing. Proc Natl Acad Sci U S A, 104:6678-83
Jackman JE, Kotelawala L, Grayhack EJ, Phizicky EM (2007)
Identification and characterization of modification enzymes by biochemical analysis of the proteome. Methods Enzymol, 425:139-52
2006
Phizicky, E.M. and Grayhack, E.J. (2006)
Proteome-scale analysis of biochemical activity. Crit Rev Biochem Mol Biol, 41:315-27
Jackman, J.E. and Phizicky, E.M. (2006)
tRNAHis guanylyltransferase catalyzes a 3'-5' polymerization reaction that is distinct from G-1 addition. Proc Natl Acad Sci U S A, 103:8640-5
Jackman, J.E. and Phizicky, E.M. (2006)
tRNAHis guanylyltransferase adds G-1 to the 5' end of tRNAHis by recognition of the anticodon, one of several features unexpectedly shared with tRNA synthetases. Rna, 12:1007-14
Alexandrov, A., Chernyakov, I., Gu, W., Hiley, S.L., Hughes, T.R., Grayhack, E.J. and Phizicky, E.M. (2006)
Rapid tRNA decay can result from lack of nonessential modifications. Mol Cell, 21:87-96
2005
Gu, W., Hurto, R.L., Hopper, A.K., Grayhack, E.J. and Phizicky, E.M. (2005)
Depletion of Saccharomyces cerevisiae tRNA(His) guanylyltransferase Thg1p leads to uncharged tRNAHis with additional m(5)C. Mol Cell Biol, 25:8191-201
Cartlidge, R.A., Knebel, A., Peggie, M., Alexandrov, A., Phizicky, E.M. and Cohen, P. (2005)
The tRNA methylase METTL1 is phosphorylated and inactivated by PKB and RSK in vitro and in cells. Embo J,
Alexandrov, A., Grayhack, E.J. and Phizicky, E.M. (2005)
tRNA m7G methyltransferase Trm8p/Trm82p: evidence linking activity to a growth phenotype and implicating Trm82p in maintaining levels of active Trm8p. Rna, 11:821-30
Gelperin, D.M., White, M.A., Wilkinson, M.L., Kon, Y., Kung, L.A., Wise, K.J., Lopez-Hoyo, N., Jiang, L., Piccirillo, S., Yu, H., Gerstein, M., Dumont, M.E., Phizicky, E.M., Snyder, M. and Grayhack, E.J. (2005)
Biochemical and genetic analysis of the yeast proteome with a movable ORF collection. Genes Dev, 19:2816-26
Phizicky, E.M. (2005)
Have tRNA, will travel. Proc Natl Acad Sci U S A, 102:11127-8
Steiger M.A., Jackman J.E., Phizicky E.M. (2005)
Analysis of 2'-phosphotransferase (Tpt1p) from Saccharomyces cerevisiae: evidence for a conserved two-step reaction mechanism. Rna, 11:99-106
Shull N.P., Spinelli S.L., Phizicky E.M. (2005)
A highly specific phosphatase that acts on ADP-ribose 1''-phosphate, a metabolite of tRNA splicing in Saccharomyces cerevisiae. Nucleic Acids Res, 33:650-60
2004
Alexandrov A., Vignali M., LaCount D.J., Quartley E., de Vries C., De Rosa D., Babulski J., Mitchell S.F., Schoenfeld L.W., Fields S., Hol W.G., Dumont M.E., Phizicky E.M., Grayhack E.J. (2004)
A facile method for high-throughput co-expression of protein pairs. Mol Cell Proteomics, 3:934-8
Xing F., Hiley S.L., Hughes T.R., Phizicky E.M. (2004)
The specificities of four yeast dihydrouridine synthases for cytoplasmic tRNAs. J Biol Chem, 279:17850-60
2003
Jackman J.E., Montange R.K., Malik H.S., Phizicky E.M. (2003)
Identification of the yeast gene encoding the tRNA m1G methyltransferase responsible for modification at position 9. Rna, 9:574-85
Phizicky E., Bastiaens P.I., Zhu H., Snyder M., Fields S. (2003)
Protein analysis on a proteomic scale. Nature, 422:208-15
Hopper A.K., Phizicky E.M. (2003)
tRNA transfers to the limelight. Genes Dev, 17:162-80
Gu W, Jackman JE, Lohan AJ, Gray MW, Phizicky EM (2003)
tRNAHis maturation: an essential yeast protein catalyzes addition of a guanine nucleotide to the 5' end of tRNAHis. Genes Dev, 17:2889-901
2002
Alexandrov A., Martzen M.R., Phizicky E.M. (2002)
Two proteins that form a complex are required for 7-methylguanosine modification of yeast tRNA. Rna, 8:1253-66i
Xing F., Martzen M.R., Phizicky E.M. (2002)
A conserved family of Saccharomyces cerevisiae synthases effects dihydrouridine modification of tRNA. Rna, 8:370-81
Phizicky E.M., Martzen M.R., McCraith S.M., Spinelli S.L., Xing F., Shull N.P., Van Slyke C., Montagne R.K., Torres F.M., Fields S., Grayhack E.J. (2002)
Biochemical genomics approach to map activities to genes. Methods Enzymol. 350:546-59
2001
Grayhack, E. J. and Phizicky, E. M.(2001)
Genomic Analysis of biochemical function. Curr. Opin. Chem. Biol. 5:34-39.
Steiger MA, Kierzek R, Turner DH, Phizicky EM. (2001)
Substrate recognition by a yeast 2'-phosphotransferase involved in tRNA splicing and by its Escherichia coli homolog. Biochemistry. 40:14098-105.
2000
Kierzek R, Steiger MA, Spinelli SL, Turner DH, Phizicky EM. (2000)
The chemical synthesis of oligoribonucleotides with selectively placed 2'-O-phosphates.
Nucleosides Nucleotides Nucleic Acids. 19:917-33.
Polevoda B, Martzen MR, Das B, Phizicky EM, Sherman F. (2000)
Cytochrome c methyltransferase, Ctm1p, of yeast. J Biol Chem. 275:20508-13.
1999
M. R. Martzen, S. M. McCraith, S. L. Spinelli, F. M. Torres, S. Fields, E. J. Grayhack and E. M. Phizicky(1999)
A biochemical genomics approach for identifying genes by the activity of their products.
Science 286: 1153-5
Spinelli, S. L., Kierzek, R., Turner, D. H. and Phizicky, E. M. (1999)
Transient ADP-ribosylation of a 2'-phosphate implicated in its removal from ligated tRNA during splicing in yeast. J. Biol. Chem. 274:2637-2644.
1998
Spinelli, S. L., Malik, H. S., Consaul, S. A. and Phizicky, E. M. (1998)
A functional homolog of a yeast tRNA splicing enzyme is conserved in higher eukaryotes and in E. coli. Proc. Natl. Acad. Sci. USA 95:14136-14141.
Robinson MK, Phizicky EM. (1998)
Purification and assay of the Ptc1/Tpd1 protein phosphatase 2C from the yeast Saccharomyces cerevisiae.
Methods Mol Biol. 93:235-42.
1997
Spinelli, S. L., Consaul, S. A. and Phizicky, E. M. (1997)
A conditional lethal yeast phosphotransferase (tpt1) mutant accumulates tRNAs with a 2'-phosphate and an undermodified base at the splice junction. RNA 3:1388-1400.
Culver GM, McCraith SM, Consaul SA, Stanford DR, Phizicky EM. (1997)
A 2'-phosphotransferase implicated in tRNA splicing is essential in Saccharomyces cerevisiae.
J Biol Chem. 272:13203-10.
1995
Phizicky EM, Fields S. (1995)
Protein-protein interactions: methods for detection and analysis. Microbiol Rev. 59:94-123. Review.
1994
Culver GM, Consaul SA, Tycowski KT, Filipowicz W, Phizicky EM. (1994)
tRNA splicing in yeast and wheat germ. A cyclic phosphodiesterase implicated in the metabolism of ADP-ribose 1",2"-cyclic phosphate. J Biol Chem. 269:24928-34.
Robinson MK, van Zyl WH, Phizicky EM, Broach JR. (1994)
TPD1 of Saccharomyces cerevisiae encodes a protein phosphatase 2C-like activity implicated in tRNA splicing and cell separation. Mol Cell Biol. 14:3634-45.
1993
Culver GM, McCraith SM, Zillmann M, Kierzek R, Michaud N, LaReau RD, Turner DH, Phizicky EM. (1993)
An NAD derivative produced during transfer RNA splicing: ADP-ribose 1"-2" cyclic phosphate. Science. 261:206-8.
Phizicky EM, Greer CL. (1993)
Pre-tRNA splicing: variation on a theme or exception to the rule? Trends Biochem Sci. 18:31-4. Review.