RegulonDB RegulonDB 10.8: smallRNA Form
   

RydC small RNA in Escherichia coli K-12 genome


Gene local context to scale (view description)

cybB ydcA rydC ydcAp7 ydcAp7 ydcAp6 ydcAp6 rydCp rydCp
small RNA      
Gene name: rydC    Texpresso search in the literature
Synonym(s): ig:877, small regulatory RNA RydC
Genome position: 1491443 <-- 1491506
Strand: reverse
Sequence: Get ribonucleotide sequence FastaFormat
GC content %:  
50.0
Note(s): RydC is a small RNA regulator of the expression of yejABEF, which encodes a predicted ABC permease Antal M,2005, and of the transcriptional regulator CsgD 24489123.
Hfq binds to RydC in vivo Zhang A,2003 and in vitro and stabilizes it Antal M,2005. RydC folds into a pseudoknot structure Zhang A,2003; Hfq facilitates unfolding of the pseudoknot and thereby enhances the interaction of RydC with its mRNA target 24489123. A crystal structure of the Salmonella RydC with E. coli Hfq has been solved 25551292. The yejABEF mRNA was found to bind the RydC-Hfq complex Zhang A,2003.
A rydC deletion strain has no detectable growth defect, but overexpression of RydC leads to a temperature-sensitive growth defect on minimal medium with glycerol, maltose, or ribose as the carbon source and leads to degradation of yejABEF mRNA Antal M,2005. Overexpression of RydC decreases swarming motility and expression of curli Bak G,2015.
RydC: RNA of unknown function at X position (10 minute) in the genome
Review: 25028968
Evidence: [IMP] Inferred from mutant phenotype
Reference(s): [1] Antal M., et al., 2005
[2] Zhang A., et al., 2003
External database links:  
ECOCYC:
RNA0-328
ECOLIWIKI:
b4597
M3D: RydC


Regulation exerted by the small RNA    
  Target Regulation Type Mechanism Function Binding Site Evidence
Code
Reference(s)
LeftPos RightPos Distance
to the gene
Sequence
 
antisense
post-transcriptional regulation
repressor
 
 
 
 
 
 
 
antisense
post-transcriptional regulation
repressor
 
 
 
 
 
 
 
antisense
post-transcriptional regulation
repressor
 
 
 
 
 
 
 
antisense
post-transcriptional regulation
repressor
 
 
 
 
 
 


Reference(s)    

 [1] Antal M., Bordeau V., Douchin V., Felden B., 2005, A small bacterial RNA regulates a putative ABC transporter., J Biol Chem 280(9):7901-8

 [2] Zhang A., Wassarman KM., Rosenow C., Tjaden BC., Storz G., Gottesman S., 2003, Global analysis of small RNA and mRNA targets of Hfq., Mol Microbiol 50(4):1111-24


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