Escherichia coli K-12 substr. MG1655 RNA: RdlD antisense regulatory RNA of the LdrD-RdlD toxin-antitoxin system

Gene: rdlD Accession Numbers: G0-9042 (EcoCyc), b4454, ECK3525

Superclasses: a regulatory RNA

Regulation Summary Diagram: ?

Regulation summary diagram for rdlD

The LdrD peptide and RdlD antisense regulatory RNA are encoded within one of a set of four Long Direct Repeats (LDRs); RdlD acts as the antitoxin of a Type I toxin-antitoxin pair [Kawano02].

Overproduction of LdrD causes toxicity, manifesting as condensation of the nucleoid and cell death. RdlD RNA is complementary to the upstream region of the ldrD gene, and it acts to regulate LdrD translation. The ldrD mRNA is stable, whereas the RdlD antisense RNA is unstable [Kawano02]. [Gerdes07] proposed the hypothesis that translation of LdrD is regulated by RdlD RNA via regulation of translation of the larger ORF ldrX.

RdlD: "regulator detected in LDR-D" [Kawano02]

Reviews: [Gottesman04, Gerdes07, Kawano12]

Citations: [Kawano05]

Map Position: [3,698,159 -> 3,698,222] (79.71 centisomes, 287°)
Length: 64 bp

Unification Links: ASAP:ABE-0047273 , EchoBASE:EB4545 , EcoGene:EG31142 , EcoliWiki:b4454 , PortEco:rdlD , RegulonDB:G0-9042

GO Terms:

Molecular Function: GO:0000499 - base pairing with mRNA Inferred from experiment [Kawano02]
GO:0048027 - mRNA 5'-UTR binding Inferred from experiment [Kawano02]

MultiFun Terms: information transfer RNA related antisense RNA
regulation type of regulation posttranscriptional antisense RNA

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Unit:

Transcription-unit diagram


Ingrid Keseler on Mon Oct 16, 2006:
Gene position corrected based on Riley et al. (2006).
Suzanne Paley on Thu Oct 21, 2004:
Position updated based on U00096.2 release of genome

Last-Curated ? 24-Jun-2014 by Keseler I , SRI International


Gerdes07: Gerdes K, Wagner EG (2007). "RNA antitoxins." Curr Opin Microbiol 10(2);117-24. PMID: 17376733

Gottesman04: Gottesman S (2004). "The Small RNA Regulators of Escherichia coli: Roles and Mechanisms*." Annu Rev Microbiol 58;303-28. PMID: 15487940

Kawano02: Kawano M, Oshima T, Kasai H, Mori H (2002). "Molecular characterization of long direct repeat (LDR) sequences expressing a stable mRNA encoding for a 35-amino-acid cell-killing peptide and a cis-encoded small antisense RNA in Escherichia coli." Mol Microbiol 45(2);333-49. PMID: 12123448

Kawano05: Kawano M, Reynolds AA, Miranda-Rios J, Storz G (2005). "Detection of 5'- and 3'-UTR-derived small RNAs and cis-encoded antisense RNAs in Escherichia coli." Nucleic Acids Res 33(3);1040-50. PMID: 15718303

Kawano12: Kawano M (2012). "Divergently overlapping cis-encoded antisense RNA regulating toxin-antitoxin systems from E. coli: hok/sok, ldr/rdl, symE/symR." RNA Biol 9(12);1520-7. PMID: 23131729

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 SRI International Pathway Tools version 19.0 on Mon Oct 5, 2015, BIOCYC14B.