Description: The 245 nucleotide sRNA of Escherichia coli, CsrC, was discovered using a genetic screen for factors
that regulate glycogen biosynthesis. CsrC RNA binds multiple copies of CsrA Pfam:PF02599, a protein that
post-transcriptionally regulates central carbon flux, biofilm formation and motility in E. coli. CsrC antagonises the
regulatory effects of CsrA, presumably by sequestering this protein. The discovery of CsrC is intriguing,
in that a similar sRNA, CsrB, performs essentially the same function. Both sRNAs possess similar
imperfect repeat sequences (18 in CsrB, nine in CsrC), primarily localised in the loops of
predicted hairpins, which may serve as CsrA binding elements. Transcription of csrC increases as the
culture approaches the stationary phase of growth and is indirectly activated by CsrA via the
response regulator UvrY [1]. This RNA was also discovered in E. coli during a large
scale screen [2]. The gene called SraK, was highly abundant in stationary phase, but low
levels could be detected in exponentially growing cells as well [2]. |
Alignments: NC
::::<<<<____>>>>,,,,,,,,,,,<<<<<<_______>>>>>>,,,,<<<<____>>>>,,<<<<______>>>>,,,,,,,,,,<< CS
RF00084 1 auAugGCgaGGAcGCcaacAGGAUuAacGaCccAGGAuGAggGuCgGgAGCGCCAGGAGGCGAAgaccCAGGAUggucAGGAaGACaaaC 90
AUA :GCGAGGACGC:AACAGGA +AA:GAC:CAGGAUGAG:GUC:GGAGCGCCAGGAGGCGAAGAC: AGGAU:GUCAGGAAGACAAAC
CsrC_RyiB_SraK_tpk2 2 AUAGAGCGAGGACGCUAACAGGAACAAUGACUCAGGAUGAGGGUCAGGAGCGCCAGGAGGCGAAGACAGAGGAUUGUCAGGAAGACAAAC 91
****************************************************************************************** PP
NC
<<<____>>>>>,,,,,,,,,,,,,,,,,,,<<<<<<<--<<<<<<<________>>>--->>>>-->>>>>>>,,,,,,,<<_______ CS
RF00084 91 GuCuGGAGaCGuUauuAaAaGGAAAuGGAAacgacccgGacuGuuccAcGCUAAgggaaAaaCagGGcgggucguUaGCgAaCAGGGAua 180
GUC+GGAGACGU AUUAAA GGAAAUGGAA C:AC:C:GA UGUUCC +GCUAA+GGAAAAACA GG:G:GU:G GC CA GGAU+
CsrC_RyiB_SraK_tpk2 92 GUCCGGAGACGUAAUUAAACGGAAAUGGAAUCAACACGGAUUGUUCC-GGCUAAAGGAAAAACAGGGUGUGUUGGCGGCCUGCAAGGAUU 180
***********************************************.****************************************** PP
NC
>>,,,<<<<_____>>>>,,,,,,,,,,<<<<<<<<<<<<<<<<____>>>>>>>>>>>>>>>>:::~~~~~ CS
RF00084 181 GuagAaCCCGUUaAGGGugGUgAGUcAaGaaaaaaGGCGaCaGauUacuCuGuCGCCuuuuuuCUUU*[8]> 255
G A+ ACCCGUUAAGGGU UGAGUCA+GAAAAAAGGCGACAGA UA+UCUGUCGCCUUUUUUCUUU
CsrC_RyiB_SraK_tpk2 181 GUAAGACCCGUUAAGGGUUAUGAGUCAGGAAAAAAGGCGACAGAGUAAUCUGUCGCCUUUUUUCUUU*[0]> 247
*******************************************************************..... PP
|
