HHsearch alignment for GI: 254780711 and conserved domain: cd04169

>cd04169 RF3 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=97.02  E-value=0.00075  Score=49.58  Aligned_cols=152  Identities=15%  Similarity=0.168  Sum_probs=81.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEECC---CCC---CCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHH
Q ss_conf             1899623443334688999999998614895078205---422---1004779999851034742223321036899999
Q gi|254780711|r  101 LVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASL---DVH---RPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIR  174 (461)
Q Consensus       101 ~vIllvGl~GsGKTTT~aKLA~~~~~~~~~kV~lv~~---Dt~---R~aA~eQL~~~a~~~~v~~~~~~~~~dp~~i~~~  174 (461)
T Consensus         3 Rniai~gH~gaGKTtL~EalL~~~G~--i~r~G~V~~~~~~g~t~~D~~~eE~~R------~iSi~~~------------   62 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGA--IREAGAVKARKSRKHATSDWMEIEKQR------GISVTSS------------   62 (267)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCCC--CCCCCEEEECCCCCCCCCCCHHHHHHC------CCEEECC------------
T ss_conf             17999847999989999999986686--333854630368886046887999865------9448636------------


Q ss_pred             HHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHCCHHHH-HHHHHHHHHCCCC-CEEEEECCC
Q ss_conf             99999741588699833442221124689999998513851100031011122568-8889887635844-077641157
Q gi|254780711|r  175 ATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAV-HLARNFDKIVDLT-GIILTRMDG  252 (461)
Q Consensus       175 a~~~a~~~~~D~iiiDTaGR~~~d~~lm~El~~i~~~~~p~e~~lV~da~~Gq~a~-~~a~~F~~~~~i~-giIlTKlD~  252 (461)
T Consensus        63 -~~~~~w~~~kinliDTPG~----~DF~~e~~~al~v~--D~AviVv~a~~GVe~~T~~~w~~a~~~~iP~iifINKmDr  135 (267)
T cd04169          63 -VMQFEYRDCVINLLDTPGH----EDFSEDTYRTLTAV--DSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLDR  135 (267)
T ss_pred             -EEEEEECCEEEEEEECCCC----HHHHHHHHHHHHHH--HCEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECCCC
T ss_conf             -3788789989999979697----78999999999886--4547995256665355899999999729997999853456


Q ss_pred             -CCCCCHHH-HHHHHHCCCHHH----EECCCCC
Q ss_conf             -66330367-778884787302----6158672
Q gi|254780711|r  253 -DGRGGAAL-SMRTVTGKPIKA----IGTGEKI  279 (461)
Q Consensus       253 -~akgG~al-s~~~~~~~PI~f----ig~GE~~  279 (461)
T Consensus       136 ~~adf~~~l~~i~~~lg~~~vpi~lPig~~~~f  168 (267)
T cd04169         136 EGRDPLELLDEIEEELGIDCTPLTWPIGMGKDF  168 (267)
T ss_pred             CCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCE
T ss_conf             789878999999998687751168775169944