HHsearch alignment for GI: 254780648 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=99.33 E-value=1.3e-11 Score=90.24 Aligned_cols=110 Identities=19% Similarity=0.216 Sum_probs=72.5
Q ss_pred ECEEEEECCCCCCCEEEEEEC---CCCC-------------HHHHHH------HCCCEECCEEEEECCEEEEEECCCCCC
Q ss_conf 011244216777530354101---4540-------------121211------000000102663298689982264212
Q gi|254780648|r 160 ADIGIIGLPNAGKSTFLASVT---RAKP-------------KIADYP------FTTLYPNLGIVKEGYKEFILADIPGII 217 (335)
Q Consensus 160 aDVglVG~PNaGKSTLln~ls---~ak~-------------kIa~yp------FTT~~P~lGvv~~~~~~~~i~D~PGlI 217 (335)
T Consensus 3 Rniai~gH~gaGKTtL~EalL~~~G~i~r~G~V~~~~~~g~t~~D~~~eE~~R~iSi~~~~~~~~w~~~kinliDTPG~- 81 (267)
T cd04169 3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGH- 81 (267)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHCCCEEECCEEEEEECCEEEEEEECCCC-
T ss_conf 1799984799998999999998668633385463036888604688799986594486363788789989999979697-
Q ss_pred CCCCCCCCCHHHHHHHHHH----HHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCH
Q ss_conf 4731167751234433333----57887520222211013466678998777667505988999974658998
Q gi|254780648|r 218 KNAHQGAGIGDRFLKHTER----THVLLHIVSALEENVQAAYQCILDELSAYNSELRKKIEIVGLSQIDTVDS 286 (335)
Q Consensus 218 egA~~~~glG~~FLrhIer----~~vLl~VVD~s~~d~~~~~~~I~~EL~~y~~~L~~Kp~IIVlNKiDl~~~ 286 (335)
T Consensus 82 ----------~DF~~e~~~al~v~D~AviVv~a~~G-Ve~~T~~~w~~a~~-----~~iP~iifINKmDr~~a 138 (267)
T cd04169 82 ----------EDFSEDTYRTLTAVDSAVMVIDAAKG-VEPQTRKLFEVCRL-----RGIPIITFINKLDREGR 138 (267)
T ss_pred ----------HHHHHHHHHHHHHHHCEEEEEECCCC-CCHHHHHHHHHHHH-----CCCCEEEEEECCCCCCC
T ss_conf ----------78999999999886454799525666-53558999999997-----29997999853456789