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Pathway Description
Operon: Pyridoxal 5'-Phosphate Biosynthesis
Escherichia coli
Signaling Pathway
The rnc-era-recO-pdxJ-acpS operon in E. coli contains five genes which encode various proteins. The operon can be transcribed in its entirety, or it can be transcribed from a second promoter before pdxJ, in which case only pdxJ and acpS are transcribed. There are no currently known activators or inhibitors of this operon.
The first gene in the operon, rnc, encodes ribonuclease 3, an enzyme that digests dsRNA, and is involved in the formation of 16S rRNA and 23S rRNA.
The second gene, era, encodes a GTPase that is involved in many cellular processes such as the regulation of the cell cycle and metabolism, and binds GDP and GTP. It is also used as a chapeone for formation of 16S rRNA and ribosomal subunit formation.
The third gene, recO, encodes the DNA repair protein RecO, which is involved in DNA repair. It is also present in the RecFOR pathway that repairs bacterial DNA via homologous recombination. In this pathway, along with the RecF DNA replication and repair protein, and RecR recombination protein.
The fourth gene, pdxJ, encodes pyridoxine 5'-synthase, which catalyzes formation of the ring of pyridoxine 5'-phosphate (PNP) from 1-deoxy-D-xylulose 5-phosphate (DXP) and 3-amino-2-oxopropyl phosphate. PNP is then used in cofactor biosynthesis.
The final gene, acpS, encodes holo-[acyl-carrier-protein] synthase, an enzyme that transfers a 4'-phosphopanthethine from CoA to an acyl-carrier protein
References
Operon: Pyridoxal 5'-Phosphate Biosynthesis References
Matsunaga J, Dyer M, Simons EL, Simons RW: Expression and regulation of the rnc and pdxJ operons of Escherichia coli. Mol Microbiol. 1996 Dec;22(5):977-89.
Pubmed: 8971718
Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muniz-Rascado L, Garcia-Sotelo JS, Weiss V, Solano-Lira H, Martinez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernandez S, Alquicira-Hernandez K, Lopez-Fuentes A, Porron-Sotelo L, Huerta AM, Bonavides-Martinez C, Balderas-Martinez YI, Pannier L, Olvera M, Labastida A, Jimenez-Jacinto V, Vega-Alvarado L, Del Moral-Chavez V, Hernandez-Alvarez A, Morett E, Collado-Vides J: RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more. Nucleic Acids Res. 2013 Jan;41(Database issue):D203-13. doi: 10.1093/nar/gks1201. Epub 2012 Nov 29.
Pubmed: 23203884
Regnier P, Grunberg-Manago M: RNase III cleavages in non-coding leaders of Escherichia coli transcripts control mRNA stability and genetic expression. Biochimie. 1990 Nov;72(11):825-34. doi: 10.1016/0300-9084(90)90192-j.
Pubmed: 2085545
Griffiths-Jones S, Moxon S, Marshall M, Khanna A, Eddy SR, Bateman A: Rfam: annotating non-coding RNAs in complete genomes. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D121-4. doi: 10.1093/nar/gki081.
Pubmed: 15608160
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