Updated BioCyc iOS App now
available in iTunes store
Updated BioCyc iOS App now
available in iTunes store
Updated BioCyc iOS App now
available in iTunes store
Updated BioCyc iOS App now
available in iTunes store
Updated BioCyc iOS App now
available in iTunes store

Escherichia coli K-12 substr. MG1655 Pathway: tRNA processing
Inferred from experiment

Pathway diagram: tRNA processing

If an enzyme name is shown in bold, there is experimental evidence for this enzymatic activity.

Locations of Mapped Genes:

Schematic showing all replicons, marked with selected genes

Genetic Regulation Schematic

Genetic regulation schematic for tRNA processing

Superclasses: BiosynthesisNucleosides and Nucleotides BiosynthesisNucleic Acid Processing

tRNAs are the molecular adapters that allow the synthesis of proteins based on mRNAs transcribed from protein-coding genes. The active form of tRNA is generated by a combination of nuclease-based processing, the modification of select nucleosides, and finally charging via the tRNA charging.

tRNA processing is a multi-step pathway carried out by a mix of endonucleases and exonucleases. Processing begins with the endonucleolytic cleavage of individual tRNA precursors from RNAs containing multiple tRNAs. This initial cleavage can generate precursor molecules with a long 5' trailing end or with a short 5' extension. Precursors with a long trailer require additional exonucleolytic processing before the other nucleases in the pathway can act.

Following this initial processing step, a suite of ribonucleases cut down the 5' and 3' ends to yield the final, processed tRNA.

Although this processing pathway can function with as a few as one of its constituent exonucleases, the final tRNA product may be "imperfect," with a 3' end that may be longer or shorter than normal.

Created 16-Jun-2010 by Shearer A, SRI International
Last-Curated 14-Jul-2010 by Shearer A, SRI International


Kelly92a: Kelly KO, Deutscher MP (1992). "The presence of only one of five exoribonucleases is sufficient to support the growth of Escherichia coli." J Bacteriol 174(20);6682-4. PMID: 1400219

Li02b: Li Z, Deutscher MP (2002). "RNase E plays an essential role in the maturation of Escherichia coli tRNA precursors." RNA 8(1);97-109. PMID: 11871663

Li94: Li Z, Deutscher MP (1994). "The role of individual exoribonucleases in processing at the 3' end of Escherichia coli tRNA precursors." J Biol Chem 269(8);6064-71. PMID: 7509797

Other References Related to Enzymes, Genes, Subpathways, and Substrates of this Pathway

Afonyushkin05: Afonyushkin T, Vecerek B, Moll I, Blasi U, Kaberdin VR (2005). "Both RNase E and RNase III control the stability of sodB mRNA upon translational inhibition by the small regulatory RNA RyhB." Nucleic Acids Res 33(5);1678-89. PMID: 15781494

AitBara10: Ait-Bara S, Carpousis AJ (2010). "Characterization of the RNA degradosome of Pseudoalteromonas haloplanktis: conservation of the RNase E-RhlB interaction in the gammaproteobacteria." J Bacteriol 192(20);5413-23. PMID: 20729366

Alifano94: Alifano P, Rivellini F, Piscitelli C, Arraiano CM, Bruni CB, Carlomagno MS (1994). "Ribonuclease E provides substrates for ribonuclease P-dependent processing of a polycistronic mRNA." Genes Dev 8(24);3021-31. PMID: 8001821

Altman86: Altman S, Guerrier-Takada C (1986). "M1 RNA, the RNA subunit of Escherichia coli ribonuclease P, can undergo a pH-sensitive conformational change." Biochemistry 25(6);1205-8. PMID: 2421764

Altman95: Altman S (1995). "RNase P in research and therapy." Biotechnology (N Y) 13(4);327-9. PMID: 9634774

Amblar05: Amblar M, Arraiano CM (2005). "A single mutation in Escherichia coli ribonuclease II inactivates the enzyme without affecting RNA binding." FEBS J 272(2);363-74. PMID: 15654875

Amblar06: Amblar M, Barbas A, Fialho AM, Arraiano CM (2006). "Characterization of the functional domains of Escherichia coli RNase II." J Mol Biol 360(5);921-33. PMID: 16806266

Andersen92: Andersen JT, Poulsen P, Jensen KF (1992). "Attenuation in the rph-pyrE operon of Escherichia coli and processing of the dicistronic mRNA." Eur J Biochem 206(2);381-90. PMID: 1375912

Ando01: Ando T, Tanaka T, Hori Y, Sakai E, Kikuchi Y (2001). "Human tyrosine tRNA is also internally cleavable by E. coli ribonuclease P RNA ribozyme in vitro." Biosci Biotechnol Biochem 65(12);2798-801. PMID: 11826982

Ando02: Ando T, Tanaka T, Hori Y, Kikuchi Y (2002). "Kinetics of hyperprocessing reaction of human tyrosine tRNA by ribonuclease P ribozyme from Escherichia coli." Biosci Biotechnol Biochem 66(9);1967-71. PMID: 12400701

Ando03: Ando T, Tanaka T, Kikuchi Y (2003). "Comparative analyses of hairpin substrate recognition by Escherichia coli and Bacillus subtilis ribonuclease P ribozymes." Biosci Biotechnol Biochem 67(8);1825-7. PMID: 12951523

Ando03a: Ando T, Tanaka T, Kikuchi Y (2003). "Substrate shape specificity of E coli RNase P ribozyme is dependent on the concentration of magnesium ion." J Biochem (Tokyo) 133(4);445-51. PMID: 12761291

Ando03b: Ando T, Tanaka T, Kikuchi Y (2003). "Bacterial ribonuclease P reaction is affected by substrate shape and magnesium ion concentration." Nucleic Acids Res Suppl (3);293-4. PMID: 14510496

Apirion78: Apirion D (1978). "Isolation, genetic mapping and some characterization of a mutation in Escherichia coli that affects the processing of ribonuleic acid." Genetics 90(4);659-71. PMID: 369943

Apirion80: Apirion D, Gitelman DR (1980). "Decay of RNA in RNA processing mutants of Escherichia coli." Mol Gen Genet 177(2);339-43. PMID: 6154228

Apirion80a: Apirion D (1980). "Genetic mapping and some characterization of the rnpA49 mutation of Escherichia coli that affects the RNA-processing enzyme ribonuclease P." Genetics 94(2);291-9. PMID: 6156104

Apirion93: Apirion D, Miczak A (1993). "RNA processing in prokaryotic cells." Bioessays 15(2);113-20. PMID: 7682412

Arraiano88: Arraiano CM, Yancey SD, Kushner SR (1988). "Stabilization of discrete mRNA breakdown products in ams pnp rnb multiple mutants of Escherichia coli K-12." J Bacteriol 170(10);4625-33. PMID: 2459106

Asha83: Asha PK, Blouin RT, Zaniewski R, Deutscher MP (1983). "Ribonuclease BN: identification and partial characterization of a new tRNA processing enzyme." Proc Natl Acad Sci U S A 80(11);3301-4. PMID: 6344080

Babitzke91: Babitzke P, Kushner SR (1991). "The Ams (altered mRNA stability) protein and ribonuclease E are encoded by the same structural gene of Escherichia coli." Proc Natl Acad Sci U S A 88(1);1-5. PMID: 1846032

Showing only 20 references. To show more, press the button "Show all references".

Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by Pathway Tools version 19.5 (software by SRI International) on Tue May 3, 2016, biocyc14.