HHsearch alignment for GI: 254780725 and conserved domain: cd04170
>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group
Probab=97.64 E-value=0.0019 Score=40.35 Aligned_cols=89 Identities=12% Similarity=0.205 Sum_probs=69.5
Q ss_pred HCCCEEEECCCCCCC--HHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCC-CHHHHH
Q ss_conf 128889973888889--89999986201254357877688999999999999819876753899956589875-200599
Q gi|254780725|r 273 QIFPLVILDVPHVWN--SWTQEVLTLSDKVVITTSLDLAGLRNSKNLIDVLKKLRPADKPPYLVLNQVKTPKK-PEISIS 349 (427)
Q Consensus 273 ~~yd~VIiD~p~~~~--~~~~~~L~~AD~vviV~~p~~~slr~a~~ll~~l~~~~~~~~~~~iVlNr~~~~~~-~~i~~~ 349 (427)
T Consensus 62 ~~~~inliDTPG~~DF~~e~~~aL~v~D~Av~Vida~~GVe~~T~~~w~~~~~~~i---P~i~fINKmDr~~ad~~~~l~ 138 (268)
T cd04170 62 KGHKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEAGI---PRIIFINKMDRERADFDKTLA 138 (268)
T ss_pred CCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHHHCCC---CEEEEEECCCCCCCCHHHHHH
T ss_conf 99799998698975799999998404783999941875476879999999998599---989999787878996477999
Q ss_pred HHHHHHCCCEE-EEEC
Q ss_conf 99998489537-9906
Q gi|254780725|r 350 DFCAPLGITPS-AIIP 364 (427)
Q Consensus 350 ~~~~~lg~~~~-~~IP 364 (427)
T Consensus 139 ~i~~~lg~~~vp~~~P 154 (268)
T cd04170 139 ALQEAFGRPVVPLQLP 154 (268)
T ss_pred HHHHHHCCCEEEEEEE
T ss_conf 9999868984999966