Eric M. Phizicky, Ph.D.

Eric M. Phizicky, Ph.D.

Contact Information

University of Rochester Medical Center
School of Medicine and Dentistry
601 Elmwood Ave, Box 712
Rochester, NY 14642

Office: (585) 275-7268
Fax: (585) 271-2683

Journal Articles

Showing all 61 journal articles available.

2015 Jan
Guy MP, Phizicky EM. "Conservation of an intricate circuit for crucial modifications of the tRNAPhe anticodon loop in eukaryotes." RNA. 2015 Jan; 21(1):61-74. Epub 2014 Nov 17.
2014 Aug 12
Zhang X, Walker RC, Phizicky EM, Mathews DH. "Influence of Sequence and Covalent Modifications on Yeast tRNA Dynamics." Journal of chemical theory and computation. 2014 Aug 12; 10(8):3473-3483. Epub 2014 May 28.
2014 Aug 1
Guy MP, Young DL, Payea MJ, Zhang X, Kon Y, Dean KM, Grayhack EJ, Mathews DH, Fields S, Phizicky EM. "Identification of the determinants of tRNA function and susceptibility to rapid tRNA decay by high-throughput in vivo analysis." Genes & development. 2014 Aug 1; 28(15):1721-32.
2014
Han L, Kon Y, Phizicky EM. "Functional importance of ?38 and ?39 in distinct tRNAs, amplified for tRNAGln(UUG) by unexpected temperature sensitivity of the s2U modification in yeast." RNA. 2014 Epub 2014 Dec 12.
2012 Oct
Dewe JM, Whipple JM, Chernyakov I, Jaramillo LN, Phizicky EM. "The yeast rapid tRNA decay pathway competes with elongation factor 1A for substrate tRNAs and acts on tRNAs lacking one or more of several modifications." RNA. 2012 Oct; 18(10):1886-96. Epub 2012 Aug 15.
2012 Apr
Grant TD, Snell EH, Luft JR, Quartley E, Corretore S, Wolfley JR, Elizabeth Snell M, Hadd A, Perona JJ, Phizicky EM, Grayhack EJ. "Structural conservation of an ancient tRNA sensor in eukaryotic glutaminyl-tRNA synthetase." Nucleic acids research. 2012 Apr; 40(8):3723-31. Epub 2011 Dec 17.
2011 Jun 1
Whipple JM, Lane EA, Chernyakov I, D'Silva S, Phizicky EM. "The yeast rapid tRNA decay pathway primarily monitors the structural integrity of the acceptor and T-stems of mature tRNA." Genes & development. 2011 Jun 1; 25(11):1173-84.
2011 Jun
D'Silva S, Haider SJ, Phizicky EM. "A domain of the actin binding protein Abp140 is the yeast methyltransferase responsible for 3-methylcytidine modification in the tRNA anti-codon loop." RNA. 2011 Jun; 17(6):1100-10. Epub 2011 Apr 25.
2010 Sep 1
Phizicky EM, Hopper AK. "tRNA biology charges to the front." Genes & development. 2010 Sep 1; 24(17):1832-60.
2010 May
Preston MA, Phizicky EM. "The requirement for the highly conserved G-1 residue of Saccharomyces cerevisiae tRNAHis can be circumvented by overexpression of tRNAHis and its synthetase." RNA. 2010 May; 16(5):1068-77. Epub 2010 Apr 01.
2010 Jan 21
Phizicky EM, Alfonzo JD. "Do all modifications benefit all tRNAs?" FEBS letters. 2010 Jan 21; 584(2):265-71.
2008
Jackman, J. E.; Grayhack, E. J.; Phizicky, E. M.;. "The use of Saccharomyces cerevisiae proteomic libraries to identify RNA-modifying proteins". Methods Mol Biol. 2008; 488(3): 383-93. Link
2008
Chernyakov, I.; Baker, M. A.; Grayhack, E. J.; Phizicky, E. M.;. "Chapter 11. Identification and analysis of tRNAs that are degraded in Saccharomyces cerevisiae due to lack of modifications". Methods Enzymol. 2008; 449(3): 221-37. Link
2008
Jackman, J. E.; Phizicky, E. M.;. "Identification of critical residues for G-1 addition and substrate recognition by tRNA(His) guanylyltransferase". Biochemistry. 2008; 47(316): 4817-25. Link
2008
Phizicky, E. M.;. "Waste not, want not: a case for tRNA repair". Nat Struct Mol Biol. 2008; 15(38): 783-4. Link
2008
Kotelawala, L.; Grayhack, E. J.; Phizicky, E. M.;. "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. 2008; 14(31): 158-69. Link
2008
Merritt, E. A.; Holmes, M.; Buckner, F. S.; Van Voorhis, W. C.; Quartly, E.; Phizicky, E. M.; Lauricella, A.; Luft, J.; DeTitta, G.; Neely, H.; Zucker, F.; Hol, W. G.;. "Structure of a Trypanosoma brucei alpha/beta-hydrolase fold protein with unknown function". Acta Crystallogr Sect F Struct Biol Cryst Commun. 2008; 64(3Pt 6): 474-8. Link
2008
Chernyakov, I.; Whipple, J. M.; Kotelawala, L.; Grayhack, E. J.; Phizicky, E. M.;. "Degradation of several hypomodified mature tRNA species in Saccharomyces cerevisiae is mediated by Met22 and the 5'-3' exonucleases Rat1 and Xrn1". Genes Dev. 2008; 22(310): 1369-80. Link
2007 Apr 17
Malkowski MG, Quartley E, Friedman AE, Babulski J, Kon Y, Wolfley J, Said M, Luft JR, Phizicky EM, DeTitta GT, Grayhack EJ. "Blocking S-adenosylmethionine synthesis in yeast allows selenomethionine incorporation and multiwavelength anomalous dispersion phasing." Proceedings of the National Academy of Sciences of the United States of America. 2007 Apr 17; 104(16):6678-83. Epub 2007 Apr 10.
2007 Mar
Wilkinson ML, Crary SM, Jackman JE, Grayhack EJ, Phizicky EM. "The 2'-O-methyltransferase responsible for modification of yeast tRNA at position 4." RNA. 2007 Mar; 13(3):404-13. Epub 2007 Jan 22.
2007
Jackman JE, Kotelawala L, Grayhack EJ, Phizicky EM. "Identification and characterization of modification enzymes by biochemical analysis of the proteome." Methods in enzymology. 2007 425:139-52.
2006 Jun 6
Jackman JE, Phizicky EM. "tRNAHis guanylyltransferase catalyzes a 3'-5' polymerization reaction that is distinct from G-1 addition." Proceedings of the National Academy of Sciences of the United States of America. 2006 Jun 6; 103(23):8640-5. Epub 2006 May 26.
2006 Jun
Jackman JE, Phizicky EM. "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. 2006 Jun; 12(6):1007-14. Epub 2006 Apr 19.
2006 Jan 6
Alexandrov A, Chernyakov I, Gu W, Hiley SL, Hughes TR, Grayhack EJ, Phizicky EM. "Rapid tRNA decay can result from lack of nonessential modifications." Molecular cell. 2006 Jan 6; 21(1):87-96.
2006
Arakaki, T.; Le Trong, I.; Phizicky, E. M.; Quartley, E.; DeTitta, G.; Luft, J.; Lauricella, A.; Anderson, L.; Kalyuzhniy, O.; Worthey, E.; Myler, P. J.; Kim, D.; Baker, D.; Hol, W. G.; Merritt, E. A.;. "Structure of Lmaj006129AAA, a hypothetical protein from Leishmania major". Acta Crystallograph Sect F Struct Biol Cryst Commun. 2006; 62(Pt 3)(3): 175-179. Link
2005 Sep
Gu W, Hurto RL, Hopper AK, Grayhack EJ, Phizicky EM. "Depletion of Saccharomyces cerevisiae tRNA(His) guanylyltransferase Thg1p leads to uncharged tRNAHis with additional m(5)C." Molecular and cellular biology. 2005 Sep; 25(18):8191-201.
2005 May 4
Cartlidge RA, Knebel A, Peggie M, Alexandrov A, Phizicky EM, Cohen P. "The tRNA methylase METTL1 is phosphorylated and inactivated by PKB and RSK in vitro and in cells." The EMBO journal. 2005 May 4; 24(9):1696-705. Epub 2005 Apr 14.
2005 May
Alexandrov A, Grayhack EJ, Phizicky EM. "tRNA m7G methyltransferase Trm8p/Trm82p: evidence linking activity to a growth phenotype and implicating Trm82p in maintaining levels of active Trm8p." RNA. 2005 May; 11(5):821-30. Epub 2005 Apr 05.
2005 Jan
Steiger MA, Jackman JE, Phizicky EM. "Analysis of 2'-phosphotransferase (Tpt1p) from Saccharomyces cerevisiae: evidence for a conserved two-step reaction mechanism." RNA. 2005 Jan; 11(1):99-106.
2005
Gelperin DM, White MA, Wilkinson ML, Kon Y, Kung LA, Wise KJ, Lopez-Hoyo N, Jiang L, Piccirillo S, Yu H, Gerstein M, Dumont ME, Phizicky EM, Snyder M, Grayhack EJ. "Biochemical and genetic analysis of the yeast proteome with a movable ORF collection." Genes & development. 2005 19(23):2816-26.
2005
Shull NP, Spinelli SL, Phizicky EM. "A highly specific phosphatase that acts on ADP-ribose 1''-phosphate, a metabolite of tRNA splicing in Saccharomyces cerevisiae." Nucleic acids research. 2005 33(2):650-60. Epub 2005 Jan 31.
2004 Sep
Alexandrov A, Vignali M, LaCount DJ, Quartley E, de Vries C, De Rosa D, Babulski J, Mitchell SF, Schoenfeld LW, Fields S, Hol WG, Dumont ME, Phizicky EM, Grayhack EJ. "A facile method for high-throughput co-expression of protein pairs." Molecular & cellular proteomics : MCP. 2004 Sep; 3(9):934-8. Epub 2004 Jul 07.
2004 Apr 23
Xing F, Hiley SL, Hughes TR, Phizicky EM. "The specificities of four yeast dihydrouridine synthases for cytoplasmic tRNAs." The Journal of biological chemistry. 2004 Apr 23; 279(17):17850-60. Epub 2004 Feb 16.
2003 May
Jackman JE, Montange RK, Malik HS, Phizicky EM. "Identification of the yeast gene encoding the tRNA m1G methyltransferase responsible for modification at position 9." RNA. 2003 May; 9(5):574-85.
2003
Gu W, Jackman JE, Lohan AJ, Gray MW, Phizicky EM. "tRNAHis maturation: an essential yeast protein catalyzes addition of a guanine nucleotide to the 5' end of tRNAHis." Genes & development. 2003 17(23):2889-901. Epub 2003 Nov 21.
2002 Oct
Alexandrov A, Martzen MR, Phizicky EM. "Two proteins that form a complex are required for 7-methylguanosine modification of yeast tRNA." RNA. 2002 Oct; 8(10):1253-66.
2002 Mar
Xing F, Martzen MR, Phizicky EM. "A conserved family of Saccharomyces cerevisiae synthases effects dihydrouridine modification of tRNA." RNA. 2002 Mar; 8(3):370-81.
2002
Phizicky EM, Martzen MR, McCraith SM, Spinelli SL, Xing F, Shull NP, Van Slyke C, Montagne RK, Torres FM, Fields S, Grayhack EJ. "Biochemical genomics approach to map activities to genes." Methods in enzymology. 2002 350:546-59.
2001 Nov 20
Steiger MA, Kierzek R, Turner DH, Phizicky EM. "Substrate recognition by a yeast 2'-phosphotransferase involved in tRNA splicing and by its Escherichia coli homolog." Biochemistry. 2001 Nov 20; 40(46):14098-105.
2000 Jul 7
Polevoda B, Martzen MR, Das B, Phizicky EM, Sherman F. "Cytochrome c methyltransferase, Ctm1p, of yeast." The Journal of biological chemistry. 2000 Jul 7; 275(27):20508-13.
2000
Kierzek R, Steiger MA, Spinelli SL, Turner DH, Phizicky EM. "The chemical synthesis of oligoribonucleotides with selectively placed 2'-O-phosphates." Nucleosides, nucleotides & nucleic acids. 2000 19(5-6):917-33.
1999 Nov 5
Martzen MR, McCraith SM, Spinelli SL, Torres FM, Fields S, Grayhack EJ, Phizicky EM. "A biochemical genomics approach for identifying genes by the activity of their products." Science. 1999 Nov 5; 286(5442):1153-5.
1999 Jan 29
Spinelli SL, Kierzek R, Turner DH, Phizicky EM. "Transient ADP-ribosylation of a 2'-phosphate implicated in its removal from ligated tRNA during splicing in yeast." The Journal of biological chemistry. 1999 Jan 29; 274(5):2637-44.
1998 Nov 24
Spinelli SL, Malik HS, Consaul SA, Phizicky EM. "A functional homolog of a yeast tRNA splicing enzyme is conserved in higher eukaryotes and in Escherichia coli." Proceedings of the National Academy of Sciences of the United States of America. 1998 Nov 24; 95(24):14136-41.
1998
Robinson MK, Phizicky EM. "Purification and assay of the Ptc1/Tpd1 protein phosphatase 2C from the yeast Saccharomyces cerevisiae." Methods in molecular biology. 1998 93:235-42.
1997 May 16
Culver GM, McCraith SM, Consaul SA, Stanford DR, Phizicky EM. "A 2'-phosphotransferase implicated in tRNA splicing is essential in Saccharomyces cerevisiae." The Journal of biological chemistry. 1997 May 16; 272(20):13203-10.
1997
Spinelli SL, Consaul SA, Phizicky EM. "A conditional lethal yeast phosphotransferase (tpt1) mutant accumulates tRNAs with a 2'-phosphate and an undermodified base at the splice junction." RNA. 1997 3(12):1388-400.
1994 Oct 7
Culver GM, Consaul SA, Tycowski KT, Filipowicz W, Phizicky EM. "tRNA splicing in yeast and wheat germ. A cyclic phosphodiesterase implicated in the metabolism of ADP-ribose 1",2"-cyclic phosphate." The Journal of biological chemistry. 1994 Oct 7; 269(40):24928-34.
1994 Jun
Robinson MK, van Zyl WH, Phizicky EM, Broach JR. "TPD1 of Saccharomyces cerevisiae encodes a protein phosphatase 2C-like activity implicated in tRNA splicing and cell separation." Molecular and cellular biology. 1994 Jun; 14(6):3634-45.
1993 Jul 9
Culver GM, McCraith SM, Zillmann M, Kierzek R, Michaud N, LaReau RD, Turner DH, Phizicky EM. "An NAD derivative produced during transfer RNA splicing: ADP-ribose 1"-2" cyclic phosphate." Science. 1993 Jul 9; 261(5118):206-8.
1992 May 25
Zillmann M, Gorovsky MA, Phizicky EM. "HeLa cells contain a 2'-phosphate-specific phosphotransferase similar to a yeast enzyme implicated in tRNA splicing." The Journal of biological chemistry. 1992 May 25; 267(15):10289-94.
1992 Mar 5
Phizicky EM, Consaul SA, Nehrke KW, Abelson J. "Yeast tRNA ligase mutants are nonviable and accumulate tRNA splicing intermediates." The Journal of biological chemistry. 1992 Mar 5; 267(7):4577-82.
1991 Nov
Zillmann M, Gorovsky MA, Phizicky EM. "Conserved mechanism of tRNA splicing in eukaryotes." Molecular and cellular biology. 1991 Nov; 11(11):5410-6.
1991 Jun 25
McCraith SM, Phizicky EM. "An enzyme from Saccharomyces cerevisiae uses NAD+ to transfer the splice junction 2'-phosphate from ligated tRNA to an acceptor molecule." The Journal of biological chemistry. 1991 Jun 25; 266(18):11986-92.
1990 Mar
McCraith SM, Phizicky EM. "A highly specific phosphatase from Saccharomyces cerevisiae implicated in tRNA splicing." Molecular and cellular biology. 1990 Mar; 10(3):1049-55.
1990
Xu Q, Phizicky EM, Greer CL, Abelson JN. "Purification of yeast transfer RNA ligase." Methods in enzymology. 1990 181:463-71.
1988 Mar 5
Westaway SK, Phizicky EM, Abelson J. "Structure and function of the yeast tRNA ligase gene." The Journal of biological chemistry. 1988 Mar 5; 263(7):3171-6.
1986 Feb 25
Phizicky EM, Schwartz RC, Abelson J. "Saccharomyces cerevisiae tRNA ligase. Purification of the protein and isolation of the structural gene." The Journal of biological chemistry. 1986 Feb 25; 261(6):2978-86.
1981 Jul
Phizicky EM, Roberts JW. "Induction of SOS functions: regulation of proteolytic activity of E. coli RecA protein by interaction with DNA and nucleoside triphosphate." Cell. 1981 Jul; 25(1):259-67.
1980 May 25
Phizicky EM, Roberts JW. "Kinetics of RecA protein-directed inactivation of repressors of phage lambda and phage P22." Journal of molecular biology. 1980 May 25; 139(3):319-28.
1979
Roberts JW, Roberts CW, Craig NL, Phizicky EM. "Activity of the Escherichia coli recA-gene product." Cold Spring Harbor symposia on quantitative biology. 1979 43 Pt 2:917-20.