HHsearch alignment for GI: 254780322 and conserved domain: TIGR00479
>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA; InterPro: IPR001566 This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from Escherichia coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA .; GO: 0003723 RNA binding, 0008173 RNA methyltransferase activity, 0006396 RNA processing.
Probab=96.41 E-value=0.0067 Score=36.23 Aligned_cols=99 Identities=18% Similarity=0.197 Sum_probs=65.7
Q ss_pred HHHHHHHHHHH-HCCCCC-CCEEEECCCCCHHHHHHHHHCCCCEEEEECCHHHHHHHHH-----------HCCCCCHHH-
Q ss_conf 99999997898-636898-7099985998589999986269708997200113577531-----------100120011-
Q gi|254780322|r 31 RVAKEIAFRLN-MINQTF-ENALELHGITGIVGYTCMETKKIHRMIRAEISTEFSTLKR-----------EVISCPLEE- 96 (273)
Q Consensus 31 ~~a~~l~~~l~-~~~~~~-~~vLdlGcGtG~~~~~l~~~~~~~~v~~~D~s~~~~~~~~-----------~~~~~d~e~- 96 (273)
T Consensus 277 ~~~~~l~~~a~~~l~Lqg~e~V~DayCG~GtftLpLA~qa--k~v~G~E~v~e~v~~a~~NAe~Ng~~N~~F~~g~~E~~ 354 (434)
T TIGR00479 277 EQTEKLVDRALEALELQGEEKVVDAYCGVGTFTLPLAKQA--KSVVGVEVVPESVEDAKRNAELNGIANVEFLAGTLETV 354 (434)
T ss_pred HHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHCC--CEEEEEECCHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf 6779999999999715986557863157552004444012--18888714376789998888860353201333123211
Q ss_pred ---HCCCCCCCCHHHHHHHHHCCCCHH------HHHHHHHHHHCCCCEEEEEE
Q ss_conf ---014333522266666742223469------99999999818787089840
Q gi|254780322|r 97 ---IPSISQSVDLILSPLNLHIINDTL------EMFSKINHMLKPGGMFLAAI 140 (273)
Q Consensus 97 ---l~~~~~sfDli~s~~~l~w~~d~~------~~l~~~~r~LkpgG~~~~s~ 140 (273)
T Consensus 355 ~p~~~~e~~~~D~~ll--------DPPR~GCa~~~L~~I~~-~kP~rivYVSC 398 (434)
T TIGR00479 355 LPKQPWEGISPDVVLL--------DPPRKGCAAEVLRTIIK-LKPKRIVYVSC 398 (434)
T ss_pred CCCCCCCCCCCCEEEE--------CCCCCCCHHHHHHHHHH-CCCEEEEEEEC
T ss_conf 0144222677898888--------88898745899998862-07705999844