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