HHsearch alignment for GI: 254780634 and conserved domain: COG0030

>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis].
Probab=95.72  E-value=0.041  Score=34.08  Aligned_cols=129  Identities=15%  Similarity=0.093  Sum_probs=85.7

Q ss_pred             CCCCCCCCCCCCCEEEECCCCCCHHHHHHHHHHCCCCEEHHHHCCHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCC--
Q ss_conf             542112366666258601346882799999986168810055249899999999987502886088215543445723--
Q gi|254780634|r  221 QIVSNLTAITNSSQILDFCAGGGGKTLALSMLLNNKGQIHAWDNNKSRMAPIVARIKRAGIHNVQLHSSWESLRNLQE--  298 (429)
Q Consensus       221 ql~~~~l~~~~g~~vLD~CAapGGKt~~la~~~~~~g~i~A~D~~~~Rl~~l~~~~~r~g~~~v~~~~~~~~~~~~~~--  298 (429)
T Consensus        20 ~kIv~~a~~~~~d~VlEIGpG~GaLT~~Ll~~---~~~v~aiEiD~~l~~~L~~~~~--~~~n~~vi~~DaLk~d~~~l~   94 (259)
T COG0030          20 DKIVEAANISPGDNVLEIGPGLGALTEPLLER---AARVTAIEIDRRLAEVLKERFA--PYDNLTVINGDALKFDFPSLA   94 (259)
T ss_pred             HHHHHHCCCCCCCEEEEECCCCCHHHHHHHHH---CCEEEEEEECHHHHHHHHHHHC--CCCCEEEEECCHHCCCCHHHC
T ss_conf             99998557899986999789877889999960---6957999968899999997506--566559994724247513515


Q ss_pred             CCCEEEECCCCCCCHHHHHHHHHHHHCCHHHH-HHHHHHHHHHHHHHHHHHCCCCEEEEEECCC
Q ss_conf             24678962754450444442236672496789-9999987899999999608983899977588
Q gi|254780634|r  299 HFTTVLVDAPCSGTGTWRRRPDIKWRLSQKNL-IERTEEQKKILEESAQFVRPEGYLVYITCSI  361 (429)
Q Consensus       299 ~fd~vl~DaPCSg~G~~rr~Pe~~w~~~~~~~-~~~~~lQ~~iL~~a~~~lk~gG~lvYsTCS~  361 (429)
T Consensus        95 ~~~~vVaNlPY~Isspii~----kll~~~~~~~~~v~M~QkEvaeR---l~A~pgsk~Yg~LsV  151 (259)
T COG0030          95 QPYKVVANLPYNISSPILF----KLLEEKFIIQDMVLMVQKEVAER---LVAKPGSKDYGRLSV  151 (259)
T ss_pred             CCCEEEECCCCCCCHHHHH----HHHHCCCCCCEEEEEEHHHHHHH---HHCCCCCCCCCHHHH
T ss_conf             7888998089765679999----99846676542899829999999---717889865206655