Hera from Thermus thermophilus: The first thermostable DEAD-box helicase with an RNase P protein motif

Journal of Molecular Biology

Volumn 294, Issue 3, 1999, Pages 795-805

  Morlang, Susanne ^a   Weglöhner, Wolfgang ^a   Franceschi, François ^a  

^a MAX PLANCK INSTITUTE FOR MOLECULAR GENETICS   (Germany)

Author keywords

ATPase; DEAD box; RNA helicase; RNase P; Thermus thermophilus

Indexed keywords

ADENOSINE TRIPHOSPHATASE; GLYCINE CLEAVAGE SYSTEM; HELICASE; RIBONUCLEASE P; RNA HELICASE;

AMINO ACID SEQUENCE; ARTICLE; BIOGENESIS; CARBOXY TERMINAL SEQUENCE; CRYSTAL STRUCTURE; CRYSTALLIZATION; HYDROLYSIS; NONHUMAN; PRIORITY JOURNAL; PROTEIN STRUCTURE; PROTEIN SYNTHESIS; RIBOSOME; RNA SPLICING; THERMOSTABILITY; THERMUS THERMOPHILUS;

EID: 0344129033     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1999.3282     Document Type: Article

References (39)

1. Alix J. H., Guerin M. F. Mutant DnaK chaperones cause ribosome assembly defects in Escherichia coli. Proc. Natl Acad. Sci. USA. 90:1993;9725-9729.
2. Benz J., Trachsel H., Baumann U. Crystal structure of the ATPase domain of translation initiation factor 4A from Saccharomyces cerevisiae - the prototype of the DEAD box protein family. Struct. Fold. Des. 7:1999;671-679.
3. Böddeker N., Stade K., Franceschi F. Characterization of DbpA, an Escherichia coli DEAD box protein with ATP independent RNA unwinding activity. Nucl. Acids Res. 25:1997;537-544.
4. Bradford M. M. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 72:1976;248-254.
5. Brown J. W., Pace N. R. Ribonuclease P RNA and protein subunits from bacteria. Nucl. Acids Res. 20:1992;1451-1456.
6. Costa M., Ochem A., Staub A., Falaschi A. Human DNA helicase VIII: a DNA and RNA helicase corresponding to the G3BP protein, an element of the Ras transduction pathway. Nucl. Acids Res. 27:1999;817-821.
7. Daugeron M. C., Linder P. Dbp7p, a putative ATP-dependent RNA helicase from Saccharomyces cerevisiae, is required for 60S ribosomal subunit assembly. RNA. 4:1998;566-581.
8. Flores-Rozas H., Hurwitz J. Characterization of a new RNA helicase from nuclear extracts of HeLa cells which translocates in the 5′ to 3′ direction. J. Biol. Chem. 268:1993;21372-21383.
9. Fuller-Pace F. V., Nicol S. M., Reid A. D., Lane D. P. DbpA: a DEAD box protein specifically activated by 23S rRNA. EMBO J. 12:1993;3619-3626.
10. Gilliland G. L., Tung M., Blakeslee D. M., Ladner J. E. Biological macromolecule crystallization database, version 3.0: new features, data and the NASA archive for protein crystal growth data. Acta Crystallog. sect. D. 50:1994;408-413.
11. Grifo J. A., Abramson R. D., Satler A., Merrick W. C. RNA-stimulated ATPase activity of Eukaryotic initiation factor. J. Biol. Chem. 259:1984;8648-8654.
12. Gururajan R., Weeks D. L. An3 protein encoded by a localized maternal mRNA in Xenopus laevis is an ATPase with substrate-specific RNA helicase activity. Biochim. Biophys. Acta. 1359:1997;169-182.
13. Iggo R., Lane D. P. Nuclear protein p68 is an RNA-dependent ATPase. EMBO J. 8:1989;1827-1831.
14. Iggo R., Picksley S., Southgate L., Mcpheat J., Lane D. P. Identification of a putative RNA helicase in E. coli. Nucl. Acids Res. 18:1990;5413-5418.
15. Jones P. G., Mitta M., Kim Y., Jiang W., Inouye M. Cold shock induces a major ribosomal-associated protein that unwinds double-stranded RNA in Escherichia coli. Proc. Natl Acad. Sci. USA. 93:1996;76-80.
16. Kim J. L., Morgenstern K. A., Griffith J. P., Dwyer M. D., Thomson J. A., Murcko M. A., Lin C., Caron P. R. Hepatitis C virus NS3 RNA helicase domain with a bound oligonucleotide - the crystal structure provides insights into the mode of unwinding. Structure. 6:1998;89-100.
17. Kirsebom L. A. RNase P: a Scarlet Pimpernel. Mol. Microbiol. 17:1995;411-420.
18. Koonin E. V., Rudd F. E. Two domains of superfamily I helicases may exist as separate proteins. Protein Sci. 5:1996;178-180.
19. Kressler D., Delacruz L., Rojo M., Linder P. Fallp is an essential dead-box protein involved in 40S-ribosomal-subunit biogenesis in Saccharomyces cerevisiae. Mol. Cell. Biol. 17:1997;7283-7294.
20. Kressler D., De La Cruz J., Rojo M., Linder P. Dbp6p is an essential putative ATP-dependent RNA helicase required for 60S-ribosomal-subunit assembly in Saccharomyces cerevisiae. Mol. Cell. Biol. 18:1998;1855-1865.
21. Lee C. G., Hurwitz J. A new RNA helicase isolated from HeLa cells that catalytically translocates in the 3′ to 5′ direction. J. Biol. Chem. 267:1992;4398-4407.
22. Liang L., Diehl-Jones W., Lasko P. Localization of vasa protein to Drosophila pole plasm is independent of its RNA-binding and helicase activities. Development. 120:1994;1201-1211.
23. Linder P., Lasko P. E., Ashburner M., Leroy P., Nielen P. L., Nishi K., Schnier J., Slonimski P. P. Birth of the D-E-A-D box. Nature. 337:1989;121-122.
24. Nicol S. M., Fuller-Pace F. V. The DEAD box protein DbpA interacts specifically with the peptidyltransferase center in 23S rRNA. Proc. Natl Acad. Sci. USA. 92:1995;11681-11685.
25. Nierhaus K. H. The assembly of prokaryotic ribosomes. Biochimie. 73:1991;739-755.
26. Nishi K., Morel-Deville F., Hershey J. W., Leighton T., Schnier J. An eIF-4A-like protein is a suppressor of Escherichia coli mutant defective in 50S ribosomal subunit assembly. Nature. 336:1989;496-498.
27. Oday C. L., Chavanikamannil F., Abelson J. 18S rRNA processing requires the RNA helicase-like protein Rrp3. Nucl. Acids Res. 24:1996;3201-3207.
28. Pace N. R., Brown J. W. Evolutionary perspective on the structure and function of ribonuclease P, a ribozyme. J. Bacteriol. 177:1995;1919-1928.
29. Pause A., Sonenberg N. Mutational analysis of a DEAD box RNA helicase: the mammalian translation initiation factor eIF-4A. EMBO J. 11:1992;2643-2654.
30. Rickwood D., Hames B. D. Gel Electrophoresis of Nucleic Acids: A Practical Approach. 1982;IRL Press Limited, Oxford.
31. Sambrook L., Fritsch E. E., Maniatis T. Molecular Cloning: A Laboratory Manual, 2nd edit. 1989;Cold Spring Harbor Laboratory Press, Cold Spring Harbor.
32. Schwer B., Guthrie C. PRP 16 is an RNA-dependent ATPase that interacts transiently with the spliceosome. Nature. 349:1991;494-499.
33. Stams T., Niranjanakumari S., Fierke C. A., Christianson D. W. Ribonuclease P protein structure - evolutionary origins in the translational apparatus. Science. 280:1998;752-755.
34. Studier F. W., Rosenberg A. H., Dunn J. J., Dubendorff J. W. Use of T7 RNA polymerase to direct expression of cloned genes. Meth. Enzymol. 185:1990;60-89.
35. Toone W. M., Rudd K. E., Friesen J. D. deaD, a new Escherichia coli gene encoding a presumed ATP-dependent RNA helicase, can suppress a mutation in rpsB, the gene encoding ribosomal protein S2. J. Bacteriol. 173:1991;3291-3302.
36. Towbin H., Staehlin T., Dordon J. Electrophoretic transfer of proteins from polyacrylamide gels to nitrocellulose sheets: procedure and some applications. Proc. Natl Acad. Sci. USA. 76:1979;4350-4354.
37. Tsu C. A., Uhlenbeck O. C. Kinetic analysis of the RNA-dependent adenosinetriphosphatase activity of DbpA, an Escherichia coli DEAD protein specific for 23S ribosomal RNA. Biochemistry. 37:1998;16989-16996.
38. Yao N. H., Hesson T., Cable M., Hong Z., Kwong A. D., Le H. V., Weber P. C. Structure of the hepatitis C virus RNA helicase domain. Nature Struct. Biol. 4:1997;463-467.
39. Zoller M., Matzku S. Antigen and antibody purification by immunoadsorption elimination of non-biospecifically bound proteins. J. Immunol. Methods. 11:1976;287-295.