HHsearch alignment for GI: 255764511 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=95.93 E-value=0.029 Score=35.28 Aligned_cols=90 Identities=16% Similarity=0.249 Sum_probs=73.3
Q ss_pred CCCHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHCCEEEEECCCHHHHHHHHHHHHHCC-CCEEEECCCHHHH-HHH
Q ss_conf 34009868866083888889983768828899999748909998099899999999852148-8527711327889-876
Q gi|255764511|r 21 VPVLLEKVIALLNPAPGKVILDATFGAGGYSRSFCKMGSNVIALDRDPFAVSCGQETMRDYK-EQFSLFQATFSQL-QDY 98 (341)
Q Consensus 21 ~PVll~Evl~~l~~~~~g~~iD~TlG~GGHS~~iL~~~~~liaiDrD~~ai~~a~~~l~~~~-~r~~~~~~~F~~i-~~~ 98 (341)
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~~ 358 (434)
T TIGR00479 279 TEKLVDRALEALELQGEEKVVDAYCGVGTFTLPLAKQAKSVVGVEVVPESVEDAKRNAELNGIANVEFLAGTLETVLPKQ 358 (434)
T ss_pred HHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCC
T ss_conf 79999999999715986557863157552004444012188887143767899988888603532013331232110144
Q ss_pred HHH-CCCCEEEEE
Q ss_conf 531-233247862
Q gi|255764511|r 99 VPD-KGVDGVVFD 110 (341)
Q Consensus 99 l~~-~~vdgIl~D 110 (341)
T Consensus 359 ~~e~~~~D~~llD 371 (434)
T TIGR00479 359 PWEGISPDVVLLD 371 (434)
T ss_pred CCCCCCCCEEEEC
T ss_conf 2226778988888