Structure-function analysis of the yeast NAD+-dependent tRNA 2′-phosphotransferase Tpt1

RNA

Volumn 11, Issue 1, 2005, Pages 107-113

  Sawaya, Rana ^a   Schwer, Beate ^b   Shuman, Stewart ^a  

^a MEMORIAL SLOAN KETTERING CANCER CENTER   (United States)

^b WEILL CORNELL MEDICAL COLLEGE   (United States)

Author keywords

Mutagenics; Nicotinamide adenine dinucleotide; Phosphoryl transfer; tRNA splicing

Indexed keywords

2' PHOSPHOTRANSFERASE; ADENOSINE DIPHOSPHATE RIBOSE; ALANINE; AMINO ACID; ARGININE; HISTIDINE; NICOTINAMIDE; NICOTINAMIDE ADENINE DINUCLEOTIDE; PHOSPHOTRANSFERASE; TRANSFER RNA; UNCLASSIFIED DRUG;

AMINO ACID SUBSTITUTION; ARCHAEBACTERIUM; ARTICLE; BACTERIUM; CATALYST; ENZYME ACTIVITY; ESCHERICHIA COLI; FUNGUS; METAZOON; MUTAGENESIS; MUTATIONAL ANALYSIS; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTOZOON; RNA SPLICING; SACCHAROMYCES CEREVISIAE; STRUCTURE ACTIVITY RELATION; YEAST;

AMINO ACID MOTIFS; AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; BINDING SITES; CONSERVED SEQUENCE; DIPHTHERIA TOXIN; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; GENETIC COMPLEMENTATION TEST; MOLECULAR SEQUENCE DATA; MUTAGENESIS, SITE-DIRECTED; MUTATION, MISSENSE; NAD; PHOSPHOTRANSFERASES (ALCOHOL GROUP ACCEPTOR); PLASMIDS; RECOMBINANT PROTEINS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SEQUENCE DELETION; SEQUENCE HOMOLOGY, AMINO ACID;

ARCHAEA; BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; FUNGI; METAZOA; PROTOZOA; SACCHAROMYCES; SACCHAROMYCES CEREVISIAE;

EID: 11144324460     PISSN: 13558382     EISSN: None     Source Type: Journal    
DOI: 10.1261/rna.7193705     Document Type: Article

References (26)

1. Abelson, J., Trotta, C.R., and Li, H. 1998. tRNA splicing. J. Biol. Chem. 273: 12685-12688.
2. Apostol, B.L., Westaway, S.K., Abelson, J., and Greer, C.L. 1991. Deletion analysis of a multifunctional yeast tRNA ligase polypeptide: Identification of essential and dispensable functional domains. J. Biol. Chem. 266: 7445-7455.
3. Avalos, J.L., Celic, I., Muhammad, S., Cosgrove, M.S., Boeke, J.D., and Wolberger, C. 2002. Structure of a Sir2 enzyme bound to an acetylated p53 peptide. Mol. Cell 10: 523-535.
4. Avalos, J.L., Boeke, J.D., and Wolberger, C. 2004. Structural basis for the mechanism and regulation of Sir2 enzymes. Mol. Cell 13: 639-648.
5. Bell, C.E. and Eisenberg, D. 1996. Crystal structure of diphtheria toxin bound to nicotinamide adenine dinucleotide. Biochemistry 35: 1137-1149.
6. Cheng, C., Wang, L.K., Sekiguchi, J., and Shuman, S. 1997. Mutational analysis of 39 residues of vaccinia DNA topoisomerase identifies Lys-220, Arg-223, and Asn-228 as important for covalent catalysis. J. Biol. Chem. 272: 8263-8269.
7. Culver, G.M., McCraith, S.M., Zillman, M., Kierzek, R., Michaud, N., LaReau, R.D., Turner, D.H., and Phizicky, E.M. 1993. An NAD derivative produced during transfer RNA splicing: ADP-ribose 1″-2″ cyclic phosphate. Science 261: 206-208.
8. Culver, G.M., McCraith, S.M., Consaul, S.A., Stanford, D.R., and Phizicky, E.M. 1997. A 2′-phosphotransferase implicated in tRNA splicing is essential in Saccharomyces cerevisiae. J. Biol. Chem. 272: 13203-13210.
9. Greer, C.L., Peebles, C.L., Gegenheimer, P., and Abelson J. 1983. Mechanism of action of a yeast RNA ligase in tRNA splicing. Cell 32: 537-546.
10. Håkansson, K., Doherty, A.J., Shuman, S., and Wigley, D.B. 1997. X-ray crystallography reveals a large conformational change during guanyl transfer by mRNA capping enzymes. Cell 89: 545-553.
11. Krogh, B.O. and Shuman, S. 2000. Catalytic mechanism of DNA topoisomerase IB. Mol. Cell 5: 1035-1041.
12. -. 2002. Proton relay mechanism of general acid catalysis by DNA topoisomerase IB. J. Biol. Chem. 277: 5711-5714.
13. Odell, M., Sriskanda, V., Shuman, S., and Nikolov, D. 2000. Crystal structure of eukaryotic DNA ligase-adenylate illuminates the mechanism of nick sensing and strand joining. Mol. Cell 6: 1183-1193.
14. Peebles, C.L., Gegenheimer, P., and Abelson, J. 1983. Precise excision of intervening sequences from precursor tRNAs by a membrane-associated yeast endonuclease. Cell 32: 525-536.
15. Raines, R.T. 1998. Ribonuclease A. Chem. Rev. 98: 1045-1065.
16. +-dependent deacetylation reactions. Biochemistry 40: 15456-15463.
17. Sawaya, R., Schwer, B., and Shuman, S. 2003. Genetic and biochemical analysis of the functional domains of yeast tRNA ligase. J. Biol. Chem. 278: 43298-43398.
18. Schwer, B., Sawaya, R., Ho, C.K., and Shuman, S. 2004. Portability and fidelity of RNA-repair systems. Proc Natl. Acad. Sci. 101: 2788-2793.
19. Spinelli, S.L., Consaul, S.A., and Phizicky, E.M. 1997. A conditional lethal yeast phosphotransferase mutant accumulates tRNA with a 2′-phosphate and an unmodified base at the splice junction. RNA 3: 1388-1400.
20. 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 Escherichia coli. Proc. Natl. Acad. Sci. 95: 14136-14141.
21. 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.
22. Steiger, M.A., Kierzek, R., Turner, D.H., and Phizicky, E.M. 2001. Substrate recognition by a yeast 2′-phosphotransferase involved in tRNA splicing and its Escherichia coli homolog. Biochemistry 40: 14098-14105.
23. Steiger, M.A., Jackman, J.E., and Phizicky, E.M. 2005. Analysis of 2′-phosphotransferase (Tpt1p) from Saccharomyces cerevisiae: Evidence for a conserved two-step reaction mechanism. RNA (this issue).
24. Trotta, C.R., Miao, F., Arn, E.A., Stevens, S.W., Ho, C.K., Rauhut, R., and Abelson, J.N. 1997. The yeast tRNA splicing endonuclease: A tetrameric enzyme with two active site subunits homologous to the archaeal tRNA endonucleases. Cell 89: 849-858.
25. Zhao, K., Chai, X., and Marmorstein, R. 2003. Structure of the yeast Hst2 protein deacetylase in ternary complex with 2′-O-acetyl ADP ribose and histone peptide. Structure 11: 1403-1411.
26. +-dependent Sir2 histone/protein deacetylases. Proc. Natl. Acad. Sci. 101: 8563-8568.