HHsearch alignment for GI: 254780809 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=98.79  E-value=1.8e-08  Score=78.57  Aligned_cols=106  Identities=19%  Similarity=0.259  Sum_probs=70.5

Q ss_pred             CEEEECCCCCCHHHHHHHHHCCHHCC-----CC--CCCCCC-EEECC-------------CCCCCCCEEEEEEECCHHCC
Q ss_conf             02431146631888999985520002-----34--546872-11000-------------12456835899950810002
Q gi|254780809|r  221 KIVILGHSNAGKSSLFNALAKKDVAI-----VT--DIPGTT-RDVLT-------------IDLDLEGYLVKISDTAGIRE  279 (440)
Q Consensus       221 ~v~i~G~pN~GKSSL~N~L~~~~~aI-----Vs--~~~GTT-RD~i~-------------~~~~i~g~~~~l~DTaGir~  279 (440)
T Consensus         4 niai~gH~gaGKTtL~EalL~~~G~i~r~G~V~~~~~~g~t~~D~~~eE~~R~iSi~~~~~~~~w~~~kinliDTPG~~D   83 (267)
T cd04169           4 TFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHED   83 (267)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHCCCEEECCEEEEEECCEEEEEEECCCCHH
T ss_conf             79998479999899999999866863338546303688860468879998659448636378878998999997969778


Q ss_pred             CCHHHHHHHHHHHHHHHHHHCCEEECCCCCCHH-------H-HHHHCCCCCCCCCCCCCCCCC
Q ss_conf             410356666788899850301102013589856-------6-343128985322223334465
Q gi|254780809|r  280 TDDIVEKEGIKRTFLEVENADLILLLKEINSKK-------E-ISFPKNIDFIFIGTKSDLYST  334 (440)
Q Consensus       280 t~d~IE~~GI~ra~~~i~~aDlil~v~D~~~~~-------~-~~~~~~~~~i~V~NK~Dl~~~  334 (440)
T Consensus        84 F~--------~e~~~al~v~D~AviVv~a~~GVe~~T~~~w~~a~~~~iP~iifINKmDr~~a  138 (267)
T cd04169          84 FS--------EDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLDREGR  138 (267)
T ss_pred             HH--------HHHHHHHHHHHCEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCC
T ss_conf             99--------99999998864547995256665355899999999729997999853456789