gi_545778205_gb_U000_23

cmsearch-Rfam

Family :

Bacteria_large_SRP

Id:

RF01854

Type:

Gene;

Taxonomy:

Eukaryota; Bacteria; Archaea;

Ontology:

GO:0006617 SRP-dependent cotranslational protein targeting to membrane, signal sequence recognitionRF01854

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:

47.6

E-value:

4.7e-06

From sequence:

476445

To sequence:

476558

Alignments:

                                                   v           vvv         vv                        vv       v   NC
                              --<<<<<-----<<<<<<<<<<<<<<<<<-<<<<<<<<<<<<---<<<<<----<<<____>>>---->>>>>->>>>>>>-- CS
               RF01854     98 aAgggGcGuuGAcgcccgGGcccugcGcaAcgggaacccgugAACcccGuCAGGuCCGGAAGGaAGCAgCgguAagcgggucu 180   
                              AA:GGG:G U  C:::::G : :::CGCAACG: A :C:GU  ACC :GUCAGGUCCGGAAGGAAGCAGC:  A GC:G:   
  gi_545778205_gb_U000 476445 AAUGGGGGCU--CUGUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCA-AGGCAGAUGA 476524
                              ****999987..889999999**************9***********************************5.99*****987 PP

                              vv             v                     NC
                              >>>>>>>--->>>>>>--->>>>>>>>>-->>>->> CS
               RF01854    181 ucccgugUGCCgcaggguugCCcgggcggAgCcAcc 216   
                                :CGUGUGCCG::: G U: C:::::GG :CC C:
  gi_545778205_gb_U000 476525 -CGCGUGUGCCGGGAUG-UAGCUGGCAGGGCCCCCA 476558
                              .59***********965.5889999999979999** PP

RNAfold
>gi_545778205_gb_U000_23
GCACGCGAUGGGUUGCAAUUAGCCGGGGCAGCAGUGAUAAUGCGCCUGCG
CGUUGGUUCUCAACGCUCUCAAUGGGGGCUCUGUUGGUUCUCCCGCAACG
CUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGA
CGCGUGUGCCGGGAUGUAGCUGGCAGGGCCCCCACCCAUUUCUGCCUCCC
ACCGUUUCGUCAAAAAAUCCCAACAUGGCUAAACUUUAACCACAACUGAC
GUCGC
....(((((((((((...(((((((((((((.((((.....((....))((((((.....))))))......(((((((((((((((((((((((((((((..((((((((....(((....(((....)))....))).))))))).)..)))).)).))))).).)))))))))))))))))..)))).)))))))............................))))))....)))))........)))))) (-93.00)

Length sequence

: 255

Length match:

112