HHsearch alignment for GI: 254780466 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=95.98  E-value=0.021  Score=34.73  Aligned_cols=79  Identities=22%  Similarity=0.315  Sum_probs=55.0

Q ss_pred             CHHHHHHHHHHCC-CCCCEEEECCCCCHHHHHHHHHHCCEEEEEEECHHHHHHHHHHHHHCCCCCHHHHCCCCCCCCCCC
Q ss_conf             1899999998528-998889986888517999999809816999728999999999996305687656302444333775
Q gi|254780466|r  209 PEALLSRILVSST-KPGDIILDPFFGSGTSGAVAKKLRRSFIGIEMKQDYIDIATKRIASVQPLGNIELTVLTGKRTEPR  287 (375)
Q Consensus       209 P~~LleriI~~~S-~~gDiVLDPF~GSGTT~~aA~~lgR~~IGiE~~~~Y~~~a~~Rl~~~~~~~~~~~~~~~~~~~~~r  287 (375)
T Consensus       279 ~~~l~~~a~~~l~Lqg~e~V~DayCG~GtftLpLA~qak~v~G~E~v~e~v~~a~~NAe~Ng-~~N~~F~~g~~E~~~p~  357 (434)
T TIGR00479       279 TEKLVDRALEALELQGEEKVVDAYCGVGTFTLPLAKQAKSVVGVEVVPESVEDAKRNAELNG-IANVEFLAGTLETVLPK  357 (434)
T ss_pred             HHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHCCC
T ss_conf             79999999999715986557863157552004444012188887143767899988888603-53201333123211014


Q ss_pred             C
Q ss_conf             5
Q gi|254780466|r  288 V  288 (375)
Q Consensus       288 v  288 (375)
T Consensus       358 ~  358 (434)
T TIGR00479       358 Q  358 (434)
T ss_pred             C
T ss_conf             4