HHsearch alignment for GI: 254780666 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=98.03  E-value=2.7e-06  Score=66.44  Aligned_cols=83  Identities=18%  Similarity=0.161  Sum_probs=73.3

Q ss_pred             CCCCCCCCCEECCCCCCCCCEEEECCCCCCHHHHHCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCCC-----CCCCCEE
Q ss_conf             35632133100355644700001025684100010596798776544320488741772077445774-----3447668
Q gi|254780666|r  236 LFGTLNNLSVLDLCAAPGGKTAQLIVSGAKVTALDVSKRRLEKLRCNLDRLHLYAEDIIEMDAFDYCP-----KKLFDAV  310 (445)
Q Consensus       236 ~l~~~~g~~VLD~CAAPGGKT~~l~~~~~~i~A~D~~~~Rl~~l~~~~~R~g~~~~~~~~~D~~~~~~-----~~~fD~i  310 (445)
T Consensus       289 ~l~Lqg~e~V~DayCG~GtftLpLA~qak~v~G~E~v~e~v~~a~~NAe~Ng~~N~~F~~g~~E~~~p~~~~e~~~~D~~  368 (434)
T TIGR00479       289 ALELQGEEKVVDAYCGVGTFTLPLAKQAKSVVGVEVVPESVEDAKRNAELNGIANVEFLAGTLETVLPKQPWEGISPDVV  368 (434)
T ss_pred             HHHCCCCCEEEEEECCCCCCHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCCCCEE
T ss_conf             97159865578631575520044440121888871437678999888886035320133312321101442226778988


Q ss_pred             EECCCCCC
Q ss_conf             96167421
Q gi|254780666|r  311 LVDAPCSS  318 (445)
Q Consensus       311 LlDaPCSg  318 (445)
T Consensus       369 llDPPR~G  376 (434)
T TIGR00479       369 LLDPPRKG  376 (434)
T ss_pred             EECCCCCC
T ss_conf             88888987