Nucleotide sequence at the end of the gene for the RNA polymerase beta' subunit (rpoC) - PubMed

Nucleotide sequence at the end of the gene for the RNA polymerase beta' subunit (rpoC)

C Squires et al. Nucleic Acids Res. 1981.

Abstract

We have determined the DNA sequence surrounding the transcription terminator following rpoC, the gene that codes for the beta' subunit of RNA polymerase in E. coli K12. The 2044 bp sequence obtained contains the distal 335 codons of rpoC followed by a 212 bp non-coding region and a second open reading frame (ORFa) of 179 codons. The final 181 nucleotides of the sequence form the 5' end of a third open reading frame (ORFb). The in vivo 3' end of the rpoC mRNA was located by analysis of RNA/DNA hybrids cleaved with nuclease S1 (S1 mapping). These results indicated that the major transcription termination of the rplJL-rpoBC transcription unit occurs a short distance past the translation stop codon for rpoC. Four regions of symmetry, suggesting secondary structure in the mRNA, were found in the DNA sequence near the rpoC translation termination codon. The last of these hairpin structures is similar to other rho-independent transcription terminators and its 3' end coincides with the end of the rpoC mRNA as predicted by S1-mapping. Inspection of the open reading frames indicates that rpoC uses a high percentage of codons that are recognized by the major tRNA species of E. coli while ORFa and ORFb contain many codons recognized by minor tRNA species. ORFa specifies a very basic peptide.

Similar articles

• The primary structure of E. coli RNA polymerase, Nucleotide sequence of the rpoC gene and amino acid sequence of the beta'-subunit.

  Ovchinnikov YuA, Monastyrskaya GS, Gubanov VV, Guryev SO, Salomatina IS, Shuvaeva TM, Lipkin VM, Sverdlov ED. Ovchinnikov YuA, et al. Nucleic Acids Res. 1982 Jul 10;10(13):4035-44. doi: 10.1093/nar/10.13.4035. Nucleic Acids Res. 1982. PMID: 6287430 Free PMC article.

• Sequence analysis of an aphid endosymbiont DNA fragment containing rpoB (beta-subunit of RNA polymerase) and portions of rplL and rpoC.

  Clark MA, Baumann L, Baumann P. Clark MA, et al. Curr Microbiol. 1992 Nov;25(5):283-90. doi: 10.1007/BF01575863. Curr Microbiol. 1992. PMID: 1369199

• Nucleotide sequence of the structural gene for dihydroorotase of Escherichia coli K12.

  Bäckström D, Sjöberg RM, Lundberg LG. Bäckström D, et al. Eur J Biochem. 1986 Oct 1;160(1):77-82. doi: 10.1111/j.1432-1033.1986.tb09942.x. Eur J Biochem. 1986. PMID: 2876892

• [Nucleotide sequence of the rpoC-gene coding for RNA polymerase beta'-subunit of Pseudomonas putida].

  Danilkovich AV, Borodin AM, Allikmets RL, Rostapshov VM, Chernov IP. Danilkovich AV, et al. Dokl Akad Nauk SSSR. 1988 Nov-Dec;303(1):241-5. Dokl Akad Nauk SSSR. 1988. PMID: 3069416 Russian. No abstract available.

• [Primary structure of Escherichia coli RNA-polymerase. The nucleotide sequence of the rpoC gene and the amino acid sequence of the beta'-subunit].

  Ovchinnikov IuA, Monastyrskaia GS, Gubanov VV, Gur'ev SO, Salomatina IS. Ovchinnikov IuA, et al. Dokl Akad Nauk SSSR. 1981;261(3):763-8. Dokl Akad Nauk SSSR. 1981. PMID: 7032868 Russian. No abstract available.

Cited by

• virG, an Agrobacterium tumefaciens transcriptional activator, initiates translation at a UUG codon and is a sequence-specific DNA-binding protein.

  Pazour GJ, Das A. Pazour GJ, et al. J Bacteriol. 1990 Mar;172(3):1241-9. doi: 10.1128/jb.172.3.1241-1249.1990. J Bacteriol. 1990. PMID: 2307647 Free PMC article.

• Identification of high-specificity H-NS binding site in LEE5 promoter of enteropathogenic Esherichia coli (EPEC).

  Bhat AP, Shin M, Choy HE. Bhat AP, et al. J Microbiol. 2014 Jul;52(7):626-9. doi: 10.1007/s12275-014-3562-x. Epub 2014 Mar 7. J Microbiol. 2014. PMID: 24610333

• The spc ribosomal protein operon of Escherichia coli: sequence and cotranscription of the ribosomal protein genes and a protein export gene.

  Cerretti DP, Dean D, Davis GR, Bedwell DM, Nomura M. Cerretti DP, et al. Nucleic Acids Res. 1983 May 11;11(9):2599-616. doi: 10.1093/nar/11.9.2599. Nucleic Acids Res. 1983. PMID: 6222285 Free PMC article.

• Linkage map of Escherichia coli K-12, edition 10: the traditional map.

  Berlyn MK. Berlyn MK. Microbiol Mol Biol Rev. 1998 Sep;62(3):814-984. doi: 10.1128/MMBR.62.3.814-984.1998. Microbiol Mol Biol Rev. 1998. PMID: 9729611 Free PMC article. Review.

• DNA looping-dependent autorepression of LEE1 P1 promoters by Ler in enteropathogenic Escherichia coli (EPEC).

  Bhat A, Shin M, Jeong JH, Kim HJ, Lim HJ, Rhee JH, Paik SY, Takeyasu K, Tobe T, Yen H, Lee G, Choy HE. Bhat A, et al. Proc Natl Acad Sci U S A. 2014 Jun 24;111(25):E2586-95. doi: 10.1073/pnas.1322033111. Epub 2014 Jun 11. Proc Natl Acad Sci U S A. 2014. PMID: 24920590 Free PMC article.

References

Publication types

MeSH terms

Substances

LinkOut - more resources

• Full Text Sources

  • Europe PubMed Central
  • PubMed Central
  • Silverchair Information Systems

• Other Literature Sources

  • The Lens - Patent Citations Database

• Molecular Biology Databases

  • BioCyc

• Miscellaneous

  • NCI CPTAC Assay Portal