HHsearch alignment for GI: 254780233 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=100.00  E-value=0  Score=411.28  Aligned_cols=145  Identities=37%  Similarity=0.576  Sum_probs=140.4

Q ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCC----C--CEECCCCHHHHHCCCEEEEEEEEEEECCEEEEEECCCC
Q ss_conf             43149998546898778899999983961423220----0--00038857798709606467999998997999972898
Q gi|254780233|r   18 QIRNIAIIAHVDHGKTTLVDELLKQSGVFRDNQRV----S--ERVMDCNDLEKERGITILAKVTSIVWNDVRINIVDTPG   91 (624)
Q Consensus        18 ~IRNiaIiaHvDhGKTTL~d~LL~~sG~~~~~~~v----~--~~vmD~~~~EreRGITI~a~~~~~~~~~~~iNiiDTPG   91 (624)
T Consensus         1 ~~Rniai~gH~gaGKTtL~EalL~~~G~i~r~G~V~~~~~~g~t~~D~~~eE~~R~iSi~~~~~~~~w~~~kinliDTPG   80 (267)
T cd04169           1 RRRTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPG   80 (267)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHCCCEEECCEEEEEECCEEEEEEECCC
T ss_conf             90179998479999899999999866863338546303688860468879998659448636378878998999997969


Q ss_pred             CCCCHHHHHHHHHHHCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHHHHHH
Q ss_conf             75407999999874217899997687886478999999997299789999754366740256899999888
Q gi|254780233|r   92 HADFGGEVERILCMVESVVVLVDAAEGPMPQTKFVVGKALKIGLRPIVVVNKVDRSDARADEVINEVFDLF  162 (624)
Q Consensus        92 H~DF~gEVer~l~~~DgaiLvVdA~eGv~~QT~~vl~~A~~~~l~~IvvINKiDr~~a~~~~v~~ei~dlf  162 (624)
T Consensus        81 ~~DF~~e~~~al~v~D~AviVv~a~~GVe~~T~~~w~~a~~~~iP~iifINKmDr~~adf~~~l~~i~~~l  151 (267)
T cd04169          81 HEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLDREGRDPLELLDEIEEEL  151 (267)
T ss_pred             CHHHHHHHHHHHHHHHCEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHHHHHH
T ss_conf             77899999999988645479952566653558999999997299979998534567898789999999986