HHsearch alignment for GI: 254780582 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=96.89 E-value=0.0034 Score=38.30 Aligned_cols=97 Identities=20% Similarity=0.047 Sum_probs=63.3
Q ss_pred CCCEEEEECCCCCHHHHHH----HCCCCEEEEEECHHHHHHHHHCCCCCEEEECH----------HHCCCCCCCCCCHHH
Q ss_conf 8975999653881113553----12387488730589998323116862365333----------656775472020022
Q gi|254780582|r 36 TGCRLLGLGYAIPFFSCFH----GKVERTLAFMPAGQGATNWPDQYFSSTALVSE----------GNLPLADSSVDCVLM 101 (242)
Q Consensus 36 ~g~~vLdiGcg~g~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~----------~~LPf~~~sfD~Vi~ 101 (242)
T Consensus 32 ~G~~VlDLGAAPGGWsQva~~~~G~kG~ViA~Dl~~~---k~FP~~nv~fi~GDftdee~l~ki~~~~g~dekk~DVV~S 108 (192)
T TIGR00438 32 PGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPM---KGFPIENVDFIRGDFTDEEVLNKILERVGDDEKKVDVVMS 108 (192)
T ss_pred CCCEEEECCCCCCCHHHHHHHHHCCCCEEEEEECCCC---CCCCCCCEEEEECCCCCHHHHHHHHHHCCCCCCEEEEEEE
T ss_conf 7886786578987387788776068533899854557---8856466147544767878999999857898743778985
Q ss_pred H--------HHHHH---HCCHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 0--------24775---2299999999998469998899973387
Q gi|254780582|r 102 V--------HYLEF---AEDPFLMLHEIWRVLTSGGRMIVVVPNK 135 (242)
Q Consensus 102 ~--------h~LE~---~~dp~~~L~Ei~RvLkPgG~lii~~~n~ 135 (242)
T Consensus 109 DaaP~~SG~~~iDh~Rs~dLv~~aL~ia~~vL~~~GnfvvKvFqG 153 (192)
T TIGR00438 109 DAAPNISGIWDIDHLRSIDLVELALDIAKEVLKPKGNFVVKVFQG 153 (192)
T ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEC
T ss_conf 268887898754344379999999999999861589899998537