HHsearch alignment for GI: 254780405 and conserved domain: TIGR00438

>TIGR00438 rrmJ ribosomal RNA large subunit methyltransferase J; InterPro: IPR004512 The ribosomal RNA large subunit methyltransferase J 2.1.1 from EC methylates the 23S rRNA. It specifically methylates the uridine in position 2552 of 23s rRNA in the 50S particle using S-adenosyl-L-methionine as a substrate. It was previously known as cell division protein ftsJ.; GO: 0016436 rRNA (uridine) methyltransferase activity, 0006364 rRNA processing.
Probab=94.35  E-value=0.031  Score=34.09  Aligned_cols=109  Identities=19%  Similarity=0.199  Sum_probs=69.7

Q ss_pred             HHHHHHHH--CCCCCCCCCEEEECCCCCCCCHHHHHCCCCC--CHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
Q ss_conf             99987763--3364558967861100122210011016873--3011100012356676420013322100223445665
Q gi|254780405|r   34 ALFDILTH--VYPVFLDSTRMLNIFAGTGSVGFEALSRGCH--YVLFVDNNSESIRLIRRNSELLGVEKNCNIFFRDVLR  109 (189)
Q Consensus        34 alFniL~~--~~~~~~~~~~vlDlfaGsG~lgiEalSrGA~--~v~~vE~~~~a~~~lk~N~~~~~~~~~~~ii~~D~~~  109 (189)
T Consensus        16 A~fKL~qln~~~kLik~G~~VlDLGAAPGGWsQva~~~~G~kG~ViA~Dl~~~k---------~FP~-~nv~fi~GDftd   85 (192)
T TIGR00438        16 ASFKLLQLNQKFKLIKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMK---------GFPI-ENVDFIRGDFTD   85 (192)
T ss_pred             HHHHHHHHCCCCCCEECCCEEEECCCCCCCHHHHHHHHHCCCCEEEEEECCCCC---------CCCC-CCEEEEECCCCC
T ss_conf             678999850215611078867865789873877887760685338998545578---------8564-661475447678


Q ss_pred             ------HHHHCCC--CCCCCCCCCH-HH----H-------HCCHHHHHHHHHHCCCCCCCEEEEE
Q ss_conf             ------4210034--4443101513-43----1-------0002888988874488889749999
Q gi|254780405|r  110 ------LGKIGNI--SPFQLVYLDP-PY----G-------QGLAQQALAIIDKEGWLEPNALVII  154 (189)
Q Consensus       110 ------~~~~~~~--~~fDiIf~DP-PY----~-------~~~~~~~l~~l~~~~~L~~~gliii  154 (189)
T Consensus        86 ee~l~ki~~~~g~dekk~DVV~SDaaP~~SG~~~iDh~Rs~dLv~~aL~ia~--~vL~~~Gnfvv  148 (192)
T TIGR00438        86 EEVLNKILERVGDDEKKVDVVMSDAAPNISGIWDIDHLRSIDLVELALDIAK--EVLKPKGNFVV  148 (192)
T ss_pred             HHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHH--HHHHCCCCEEE
T ss_conf             7899999985789874377898526888789875434437999999999999--98615898999