HHsearch alignment for GI: 254780582 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=91.24 E-value=0.35 Score=26.86 Aligned_cols=153 Identities=12% Similarity=0.067 Sum_probs=96.7
Q ss_pred HHHHHHCCHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCHHHHHHHC-CCCEEEEEECHHHHHHHHHCCCCC-----
Q ss_conf 99996128898999999999999750104897599965388111355312-387488730589998323116862-----
Q gi|254780582|r 7 ELRQFYSSFLGKCTTDAISKVLSTTWDDVTGCRLLGLGYAIPFFSCFHGK-VERTLAFMPAGQGATNWPDQYFSS----- 80 (242)
Q Consensus 7 ~l~~wY~s~~G~~~~~~~~~~l~~~l~~~~g~~vLdiGcg~g~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~----- 80 (242)
T Consensus 267 saR~F~QVN~~~--~~~l~~~a~~~l~Lqg~e~V~DayCG~GtftLpLA~qak~v~G~E~v~e~v~~a~~NAe~Ng~~N~ 344 (434)
T TIGR00479 267 SARDFFQVNSEQ--TEKLVDRALEALELQGEEKVVDAYCGVGTFTLPLAKQAKSVVGVEVVPESVEDAKRNAELNGIANV 344 (434)
T ss_pred CCCCCEECCHHH--HHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCCH
T ss_conf 576502018767--799999999997159865578631575520044440121888871437678999888886035320
Q ss_pred -EEEECH----HHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHCCCCCCCCCCH
Q ss_conf -365333----656775472020022024775229999999999846999889997338774034565327665655788
Q gi|254780582|r 81 -TALVSE----GNLPLADSSVDCVLMVHYLEFAEDPFLMLHEIWRVLTSGGRMIVVVPNKRGMWARMEHTPFGSGQPYSW 155 (242)
Q Consensus 81 -~~~~d~----~~LPf~~~sfD~Vi~~h~LE~~~dp~~~L~Ei~RvLkPgG~lii~~~n~~s~w~~~~~~~~~~~r~~~~ 155 (242)
T Consensus 345 ~F~~g~~E~~~p~~~~e~~~~D~~llDPPR--~GCa~~~L~~I~~-~kP~rivYVS-CNP~TL----------------- 403 (434)
T TIGR00479 345 EFLAGTLETVLPKQPWEGISPDVVLLDPPR--KGCAAEVLRTIIK-LKPKRIVYVS-CNPATL----------------- 403 (434)
T ss_pred HHHHHHHHHHCCCCCCCCCCCCEEEECCCC--CCCHHHHHHHHHH-CCCEEEEEEE-CCCHHH-----------------
T ss_conf 133312321101442226778988888889--8745899998862-0770599984-485347-----------------
Q ss_pred HHHHHHHHHCC-CCCEEEEEEEEECCCC
Q ss_conf 89999999628-7621257898308655
Q gi|254780582|r 156 YQMISLLREAN-FTLSITSRSLFFPPTH 182 (242)
Q Consensus 156 ~~l~~~l~~~g-f~~~~~~~~~~~pp~~ 182 (242)
T Consensus 404 ARDl~~L~~~GfY~i~~~q~~DmFPhT~ 431 (434)
T TIGR00479 404 ARDLEVLCKEGFYKIEKVQPVDMFPHTA 431 (434)
T ss_pred HHHHHHHHHCCCEEEEEEEEEECCCCCC
T ss_conf 9999999737962678885430578876