The N-terminal domain of the rne gene product has RNase E activity and is non-overlapping with the arginine-rich RNA-binding site

Journal of Molecular Biology

Volumn 255, Issue 3, 1996, Pages 349-355

  McDowall, Kenneth J ^a   Cohen, Stanley N ^a  

^a STANFORD UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Endoribonucleolytic cleavage; RNA binding; RNA processing and decay; RNase E; rne (ams of hmp1) gene

Indexed keywords

ARGININE; COMPLEMENTARY RNA; GENE PRODUCT; MESSENGER RNA; OLIGORIBONUCLEOTIDE; RIBONUCLEASE; RNA BINDING PROTEIN; TRANSFER RNA;

AMINO TERMINAL SEQUENCE; ARTICLE; CARBOXY TERMINAL SEQUENCE; CELL VIABILITY; ENZYME ACTIVITY; ESCHERICHIA COLI; NONHUMAN; PRIORITY JOURNAL; RNA PROCESSING;

EID: 0029962989     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1996.0027     Document Type: Editorial

References (39)

1. Apirion, D. & Lassar, A. B. (1978). A conditional lethal mutant of Escherichia coli which affects the processing of ribosomal RNA. J. Biol. Chem. 253, 1738-1742.
2. Babitzke, P. & Kushner, S. R. (1991). The Ams (altered mRNA stability) protein and ribonuclease E are encoded by the same structural gene of Escherichia coli. Proc. Natl Acad. Sci. USA, 88, 1-5.
3. Calnan, B. J., Tidor, B., Biancalana, S., Hudson, D. & Frankel, A. D. (1991). Arginine-mediated RNA recognition: the arginine fork. Science, 252, 1167-1171.
4. Carpousis, A. J., Van, H. G., Ehretsmann, C. & Krisch, H. M. (1994). Copurification of E. coli RNAase E and PNPase: evidence for a specific association between two enzymes important in RNA processing and degradation. Cell, 76, 889-900.
5. Casaregola, S., Jacq, A., Laoudj, D., McGurk, G., Margarson, S., Tempete, M., Norris, V. & Holland, I. B. (1992). Cloning and analysis of the entire Escherichia coli ams gene, ams is identical to hmp1 and encodes a 114 kDa protein that migrates as a 180 kDa protein. J. Mol. Biol. 228, 30-40.
6. Casaregola, S., Jacq, A., Laoudj, D., McGurk, G., Margarson, S., Tempete, M., Norris, V. & Holland, I. B. (1994). Corrigendum: Clonging and analysis of the entire Escherichia coli ams gene. J. Mol. Biol. 238, 867.
7. Cesareni, G., Helmer, C. M. & Castagnoli, L. (1991). Control of ColE1 plasmid replication by antisense RNA. Trends Genet. 7, 230-235.
8. Chauhan, A. K. & Apirion, D. (1991). The me gene is the structural gene for the processing endoribonuclease RNase E of Escherichia coli. Mol. Gen. Genet. 228, 49-54.
9. Chen, L. & Frankel, A. D. (1994). An RNA-binding peptide from bovine immunodeficiency virus Tat protein recognizes an unusual RNA structure. Biochem. J. 33, 2708-2715.
10. Claverie-Martin, F., Diaz-Torres, M.R., Yancey S. D. & Kushner, S. R. (1989). Cloning of the altered mRNA stability (ams) gene of Escherichia coli K-12. J. Bacteriol. 171, 5479-5486.
11. Claverie-Martin, F., Diaz-Torres. M.R., Yancey, S. D. & Kushner, S. R. (1991). Analysis of the altered mRNA stability (ams) gene from Escherichia coli. Nucleotide sequence, transcriptional analysis, and homology of its product to MRP3, a mitochondrial ribosomal protein from Neurospora crassa. J. Biol. Chem. 266, 2843-2851.
12. Cormack, R. S. & Mackie, G. A. (1992). Structural requirements for the processing of Escherichia coli 5 S ribosomal RNA by RNase E in vitro. J. Mol. Biol. 228, 1078-1090.
13. Cormack, R. S., Genereaux, J. L. & Mackie, G. A. (1993). RNase E activity is conferred by a single polypeptide: overexpression, purification, and properties of the ams/rne/hmp1 gene product. Proc. Natl Acad. Sci. USA, 90, 9006-9010.
14. Dunn, S. D. (1986). Effects of the modification of transfer buffer composition and the renaturation of proteins in gels on the recognition of proteins on Western blots by monoclonal antibodies. Anal. Biochem. 157, 144-153.
15. Ehretsmann, C. P., Carpousis, A. J. & Krisch, H. M. (1992a). mRNA degradation in procaryotes. FASEB J. 6, 3186-3192.
16. Ehretsmann, C. P., Carpousis, A. J. & Krisch, H. M. (1992b). Specificity of Escherichia coli endoribonuclease RNase E: in vivo and in vitro analysis of mutants in a bacteriophage T4 mRNA processing site. Genes Dev. 6, 149-159.
17. Gegenheimer, P., Watson, N. & Apirion, D. (1977). Multiple pathways for primary processing of ribosomal RNA in Escherichia coli. J. Biol. Chem. 252, 3064-3073.
18. Ghora, B. K. & Apirion, D. (1978). Structural analysis and in vitro processing to p5 rRNA of a 9S RNA molecule isolated from an rne mutant of E. coli. Cell, 15, 1055-1066.
19. Helmer-Citterich, M., Anceschi, M. M., Banner, D. W. & Cesareni, G. (1988). Control of ColE1 replication: low affinity specific binding of Rop (Rom) to RNA I and RNA II. EMBO J. 7, 557-566.
20. Jain, C. & Belasco, J. G. (1995). RNase E autoregulates its synthesis by controlling the degradation rate of its own mRNA in Escherichia coli: unusual sensitivity of the rne transcript to RNase E activity. Genes Dev. 9, 84-96.
21. Laemmli, U. K. (1970). Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature, 227, 680-685.
22. Lin-Chao, S. & Cohen, S. N. (1991). The rate of processing and degradation of antisense RNAI regulates the replication of ColE1-type plasmids in vivo. Cell, 5, 1233-1242.
23. Mackie, G. A. (1992). Secondary structure of the mRNA for ribosomal protein S20. J. Biol. Chem. 267, 1054-1061.
24. McDowall, K. J., Hernandez, R. G., Lin-Chao, S. & Cohen, S. N. (1993). The ams-1 and rne-3071 temperature-sensitive mutations in the ams gene are in close proximity to each other and cause substitutions within a domain that resembles a product of the Escherichia coli mre locus. J. Bacteriol. 175, 4245-4249.
25. McDowall, K. J., Kaberdin, V. R., Wu, S. W., Cohen, S. N. & Lin-Chao, S. (1995). Site-specific RNase E cleavage of oligonucleotides and inhibition by stem-loops. Nature, 374, 287-290.
26. Melefors, O. & von Gabain, A. (1991). Genetic studies of cleavage-initiated mRNA decay and processing of ribosomal 9S RNA show that the Escherichia coli ams and rne loci are the same. Mol. Microbiol. 5, 857-864.
27. Melefors, O., Lundberg, U. & von Gabain, A. (1992). RNA processing and degradation by RNase K and RNase E. In Control of Messenger RNA Stability (Belasco, J. & Brawerman, G., eds), pp. 53-70, Academic Press, New York.
28. Mudd, E. A., Krisch, H. M. & Higgins, C. F. (1990). RNase E, an endoribonuclease, has a general role in the chemical decay of Escherichia coli mRNA: evidence that rne and ams are the same genetic locus. Mol. Microbiol. 4, 2127-2135.
29. Ono, M. & Kuwano, M. (1979). A conditional lethal mutation in Escherichia coli strain with a longer chemical lifetime of mRNA. J. Mol. Biol. 129, 343-357.
30. Py B., Causton, H., Mudd, E. A. & Higgins, C. F. (1994). A protein complex mediating mRNA degradation in Escherichia coli. Mol. Microbiol. 14, 717-729.
31. Roth, J. R. (1970). Genetic techniques in studies of bacterial metabolism. Methods Enzymol. 17, 3-35.
32. Sambrook, J., Fritsch, E. F. & Maniatis, T. (1989). Molecular Cloning: A Laboratory Manual, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
33. Sohlberg, B., Lundberg, U., Hartl, F. U. & von Gabain, A. (1993). Functional interaction of heat shock protein GroEL with an RNase E-like activity in Escherichia coli. Proc. Natl Acad. Sci. USA, 90, 277-281.
34. Tan, R., Chen, L., Buettner, J. A., Hudson, D. & Frankel, A. D. (1993). RNA recognition by an isolated alpha helix. Cell, 73, 1031-1040.
35. Taraseviciene, L., Miczak, A. & Apirion, D. (1991). The gene specifying RNase E (rne) and a gene affecting mRNA stability (ams) are the same gene. Mol. Microbiol. 5, 851-855.
36. Tomcsanyi, T. & Apirion, D. (1985). Processing enzyme ribonuclease E specifically cleaves RNA I. An inhibitor of primer formation in plasmid DNA synthesis. J. Mol. Biol. 185, 713-720.
37. Wachi, M., Doi, M., Tamaki, S., Park, W., Nakajima-Iijima, S. & Matsuhashi, M. (1988). Mutant isolation and molecular cloning of mre genes, which determine cell shape, sensitivity to mecillinam, and the amount of penicillin-binding proteins in E. coli. J. Bacteriol. 169, 4935-4940.
38. Wang, M. & Cohen, S. N. (1994). ard-1: a human gene that reverses the effects of temperature-sensitive and deletion mutations in the Escherichia coli me gene and encodes an activity producing RNase E-like cleavages. Proc. Natl Acad. Sci. USA, 91, 10591-10595.
39. Xu, F. & Cohen, S. N. (1995). RNA degradation in Escherichia coli regulated by 3′ adenylation and 5′ phosphorylation. Nature, 374, 180-183.