ffs

cmscan-Rfam

Family :

Bacteria_small_SRP

Id:

RF00169

Type:

Gene;

Taxonomy:

Eukaryota; Bacteria; Archaea;

Ontology:

GO:0006617 SRP-dependent cotranslational protein targeting to membrane, signal sequence recognitionRF00169

Description:

The signal recognition particle (SRP) is a universally conserved ribonucleoprotein involved in the co-translational targeting of
proteins to membranes. The eukaryotic SRP consists of a 300-nucleotide 7S RNA (RFAM:RF00017) and six
proteins: SRPs 72, 68, 54, 19, 14, and 9. Archaeal SRP consists of a 7S
RNA and homologues of the eukaryotic SRP19 and SRP54 proteins. In most bacteria, the SRP
consists of a 4.5S RNA and the Ffh protein (a homologue of the eukaryotic SRP54
protein). Some Gram-positive bacteria (e.g. Bacillus subtilis) have a longer eukaryote-like SRP RNA that includes
an Alu domain [2]. The Alu domain of the longer SRP RNAs is not included
in this model and therefore the reported bounds of some members are incorrect. The Signal
Recognition Particle Database (SRPDB) [1] provides compilations of SRP components, with phylogenetic data and structural
illustrations.

Score:

65.5

E-value:

1.4e-15

From sequence:

33

To sequence:

129

Alignments:

                      v           vvv         vv                        vv      v  vv             v              NC
              :::<<<<<<<<<<<<-<<<<<<<<<<<<<---<<<<<----<<<____>>>---->>>>>>>>>>>>-->>>>>>>--.>>>>>>-->>>>>:::::: CS
  RF00169   1 uauggggccccgcGcAacgccaccccgccAAcccgGUCAGGgCcGGAAgGcAGCAGCcggggcgggguuuggcgugUG.Cgcggguugccccuuuuuu 97 
              U+U::G:: :C:CGCAACGC   :C:G:: AC  GGUCAGG:CCGGAAGG:AGCAGCC  ::C:G:     GCGUGUG CG:G:  U::C::+++   
      ffs  33 UGUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAU-GACGCGUGUGcCGGGAUGUAGCUGGCAGGG 129
              ******************************************************************9.9***************************** PP

RNAfold
>ffs
GUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGA
AGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGG
(((((((((((((((((((..((((((((....(((....(((....)))....))).))))))).)..)))).)).))))).).))))))).... (-32.00)

Length sequence

: 96

Length match:

95