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