HHsearch alignment for GI: 254780725 and conserved domain: cd04168
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=97.62 E-value=0.001 Score=42.00 Aligned_cols=85 Identities=14% Similarity=0.136 Sum_probs=65.3
Q ss_pred HCCCEEEECCCCCC--CHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCC-CHHHHH
Q ss_conf 12888997388888--989999986201254357877688999999999999819876753899956589875-200599
Q gi|254780725|r 273 QIFPLVILDVPHVW--NSWTQEVLTLSDKVVITTSLDLAGLRNSKNLIDVLKKLRPADKPPYLVLNQVKTPKK-PEISIS 349 (427)
Q Consensus 273 ~~yd~VIiD~p~~~--~~~~~~~L~~AD~vviV~~p~~~slr~a~~ll~~l~~~~~~~~~~~iVlNr~~~~~~-~~i~~~ 349 (427)
T Consensus 62 ~~~~~n~iDtPG~~dF~~e~~~al~~~D~av~Vv~a~~Gv~~~t~~~~~~~~~~~~P---~iifiNKmDre~adf~~~l~ 138 (237)
T cd04168 62 EDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNIP---TIIFVNKIDRAGADLEKVYQ 138 (237)
T ss_pred CCEEEEEEECCCCHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHHHHCCCC---EEEEEECCCCCCCCHHHHHH
T ss_conf 998799988988465666898897634816999965888223449999999985998---59986244578999999999
Q ss_pred HHHHHHCCCEE
Q ss_conf 99998489537
Q gi|254780725|r 350 DFCAPLGITPS 360 (427)
Q Consensus 350 ~~~~~lg~~~~ 360 (427)
T Consensus 139 ~i~~~l~~~~~ 149 (237)
T cd04168 139 EIKEKLSSDIV 149 (237)
T ss_pred HHHHHHCCCEE
T ss_conf 99999789747