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