gi_545778205_gb_U000_224

cmsearch-Rfam

Family :

RydC

Id:

RF00505

Type:

Gene; sRNA;

Taxonomy:

Bacteria;

Ontology:

Not found

Description:

This family represents a bacterial non-coding RNA called RydC. RydC is thought to regulate an mRNA,
yejABEF which encodes an ABC transporter protein. RydC is known to bind the protein Hfq
which causes a conformational change in the RNA molecule. The Hfq/RydC complex is then thought
to bind to the target mRNA and induce its degradation [1].

Score:

94.7

E-value:

2.6e-18

From sequence:

1491506

To sequence:

1491443

Alignments:

                                                                                                NC
                               :::::::::::<<<<<<<________________>>>>>>>::::::::::::::::::::::: CS
               RF00505       1 CUUCCGAUGUAGaCCCGUaUuCUUCGCCUGuacCACGGGuCgGuUUuaguaCAGGCGUUUUCUu 64     
                               CUUCCGAUGUAGACCCGUAUUCUUCGCCUGUACCACGGGUCGGUUUUAGUACAGGCGUUUUCUU
  gi_545778205_gb_U000 1491506 CUUCCGAUGUAGACCCGUAUUCUUCGCCUGUACCACGGGUCGGUUUUAGUACAGGCGUUUUCUU 1491443
                               **************************************************************** PP

RNAfold
>gi_545778205_gb_U000_224
AGAAAACGCCUGUACUAAAACCGACCCGUGGUACAGGCGAAGAAUACGGG
UCUACAUCGGAAG
......(((((((((((...........))))))))))).......(((.......))).... (-17.60)

Length sequence

: 63

Length match:

62