Crystal structures of an archaeal class I CCA-adding enzyme and its nucleotide complexes

Molecular Cell

Volumn 12, Issue 5, 2003, Pages 1165-1172

  Xiong, Yong ^a   Li, Fang ^a,d   Wang, Jimin ^a   Weiner, Alan M ^c   Steitz, Thomas A ^a,b  

^a YALE UNIVERSITY   (United States)

^b HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^c UNIVERSITY OF WASHINGTON SCHOOL OF MEDICINE   (United States)

^d BOSTON CHILDREN S HOSPITAL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; ARCHAEAL PROTEIN; BACTERIAL ENZYME; CCA ENZYME; CYTIDINE TRIPHOSPHATE; NUCLEOTIDE; PHOSPHATE; TRANSFER RNA; UNCLASSIFIED DRUG; URIDINE TRIPHOSPHATE;

ARCHAEOGLOBUS FULGIDUS; ARTICLE; CATALYSIS; CHEMICAL MODIFICATION; COMPLEX FORMATION; CONTROLLED STUDY; CRYSTAL STRUCTURE; ENZYME STRUCTURE; GEOBACILLUS STEAROTHERMOPHILUS; NONHUMAN; PROTEIN DOMAIN; PROTEIN RNA BINDING; STRUCTURE ANALYSIS;

ARCHAEA; ARCHAEOGLOBUS; ARCHAEOGLOBUS FULGIDUS; BACTERIA (MICROORGANISMS); EUKARYOTA; GEOBACILLUS STEAROTHERMOPHILUS;

EID: 0345171487     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1097-2765(03)00440-4     Document Type: Article

References (35)

1. Aebi M., Kirchner G., Chen J.Y., Vijayraghavan U., Jacobson A., Martin N.C., Abelson J. Isolation of a temperature-sensitive mutant with an altered tRNA nucleotidyltransferase and cloning of the gene encoding tRNA nucleotidyltransferase in the yeast Saccharomyces cerevisiae. J. Biol. Chem. 265:1990;16216-16220.
2. Aravind L., Koonin E.V. DNA polymerase beta-like nucleotidyltransferase superfamily. identification of three new families, classification and evolutionary history Nucleic Acids Res. 27:1999;1609-1618.
3. Augustin M.A., Reichert A.S., Betat H., Huber R., Morl M., Steegborn C. Crystal structure of the human CCA-adding enzyme. insights into template-independent polymerization J. Mol. Biol. 328:2003;985-994.
4. Bard J., Zhelkovsky A.M., Helmling S., Earnest T.N., Moore C.L., Bohm A. Structure of yeast poly(A) polymerase alone and in complex with 3 -dATP. Science. 289:2000;1346-1349.
5. The CCP4 (Collaborative Computational Project 4) suite. programs for protein crystallography Acta Crystallogr. D. 50:1994;760-763.
6. Cowtan K. Joint CCP4 and ESF-EACBM Newsletter on Protein Crystallography. 31:1994;34-38.
7. Delarue M., Boule J.B., Lescar J., Expert-Bezancon N., Jourdan N., Sukumar N., Rougeon F., Papanicolaou C. Crystal structures of a template-independent DNA polymerase. murine terminal deoxynucleotidyltransferase EMBO J. 21:2002;427-439.
8. Deutscher M.P. tRNA nucleotidyltransferase. The Enzymes. 15:1982;183-215.
9. Green R., Noller H.F. Ribosomes and translation. Annu. Rev. Biochem. 66:1997;679-716.
10. Holm L., Sander C. DNA polymerase β belongs to an ancient nucleotidyltransferase superfamily. Trends Biochem. Sci. 20:1995;345-347.
11. Holm L., Sander C. Touring protein fold space with Dali/FSSP. Nucleic Acids Res. 26:1998;316-319.
12. Jones T.A., Zou J.Y., Cowan S.W. Improved methods for binding protein models in electron density maps and the location of errors in these models. Acta Crystallogr. A. 47:1991;110-119.
13. Joyce C.M., Steitz T.A. Polymerase structures and function. variations on a theme? J. Bacteriol. 177:1995;6321-6329.
14. Li F., Wang J., Steitz T.A. Sulfolobus shibatae CCA-adding enzyme forms a tetramer upon binding two tRNA molecules. a scrunching-shuttling model of CCA specificity J. Mol. Biol. 304:2000;483-492.
15. Li F., Xiong Y., Wang J., Cho H.D., Tomita K., Weiner A.M., Steitz T.A. Crystal structures of the Bacillus stearothermophilus CCA-adding enzyme and its complexes with ATP or CTP. Cell. 111:2002;815-824.
16. Lindahl M., Svensson L.A., Liljas A., Sedelnikova S.E., Eliseikina I.A., Fomenkova N.P., Nevskaya N., Nikonov S.V., Garber M.B., Muranova T.A., et al. Crystal structure of the ribosomal protein S6 from Thermus thermophilus. EMBO J. 13:1994;1249-1254.
17. Martin G., Keller W. Mutational analysis of mammalian poly(A) polymerase identifies a region for primer binding and catalytic domain, homologous to the family X polymerases, and to other nucleotidyltransferases. EMBO J. 15:1996;2593-2603.
18. Martin G., Keller W., Doublie S. Crystal structure of mammalian poly(A) polymerase in complex with an analog of ATP. EMBO J. 19:2000;4193-4203.
19. Murshudov G.N., Vagin A., Dodson E.J. Refinement of macromolecular structures by the maximum-likelihood method. Acta Crystallogr. D. 53:1997;240-255.
20. Nissen P., Hansen J., Ban N., Moore P.B., Steitz T.A. The structural basis of ribosome activity in peptide bond synthesis. Science. 289:2000;920-930.
21. Otwinowski Z., Minor W. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 276:1997;307-326.
22. Pelletier H., Sawaya M.R., Kumar A., Wilson S.H., Kraut J. Structures of ternary complexes of rat DNA polymerase β, a DNA template-primer, and ddCTP. Science. 264:1994;1891-1903.
23. Raynal L.C., Krisch H.M., Carpousis A.J. The Bacillus subtilis nucleotidyltransferase is a tRNA CCA-adding enzyme. J. Bacteriol. 180:1998;6276-6282.
24. Reuven N.B., Zhou Z., Deutscher M.P. Functional overlap of tRNA nucleotidyltransferase, poly(A) polymerase I, and polynucleotide phosphorylase. J. Biol. Chem. 272:1997;33255-33259.
25. Sakon J., Liao H.H., Kanikula A.M., Benning M.M., Rayment I., Holden H.M. Molecular structure of kanamycin nucleotidyltransferase determined to 3.0 Å resolution. Biochemistry. 32:1993;11977-11984.
26. Seth M., Thurlow D.L., Hou Y.M. Poly(C) synthesis by class I and class II CCA-adding enzymes. Biochemistry. 41:2002;4521-4532.
27. Shi P.Y., Maizels N., Weiner A.M. CCA addition by tRNA nucleotidyltransferase. polymerization without translocation? EMBO J. 17:1998;3197-3206.
28. Sprinzl M., Cramer F. The -C-C-A end of tRNA and its role in protein biosynthesis. Prog. Nucleic Acid Res. Mol. Biol. 22:1979;1-16.
29. Steitz T.A. A mechanism for all polymerases. Nature. 391:1998;231-232.
30. Terwilliger T.C., Berendzen J. Automated MAD and MIR structure solution. Acta Crystallogr. D. 55:1999;849-861.
31. Varani G., Nagai K. RNA recognition by RNP proteins during RNA processing. Annu. Rev. Biophys. Biomol. Struct. 27:1998;407-445.
32. Yue D., Maizels N., Weiner A.M. CCA-adding enzymes and poly(A) polymerases are all members of the same nucleotidyltransferase superfamily. characterization of the CCA-adding enzyme from the archaeal hyperthermophile Sulfolobus shibatae RNA. 2:1996;895-908.
33. Yue D., Weiner A.M., Maizels N. The CCA-adding enzyme has a single active site. J. Biol. Chem. 273:1998;29693-29700.
34. Zhu L., Deutscher M.P. tRNA nucleotidyltransferase is not essential for Escherichia coli viability. EMBO J. 8:1987;2473-2477.
35. Zheltonosova J., Melnikova E., Garber M., Reinbolt J., Kern D., Ehresmann C., Ehresmann B. Threonyl-tRNA synthetase from Thermus thermophilus. purification and some structural and kinetic properties Biochimie. 76:1994;71-77.