HHsearch alignment for GI: 254780872 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=99.01 E-value=6.6e-09 Score=75.88 Aligned_cols=116 Identities=19% Similarity=0.414 Sum_probs=93.9
Q ss_pred HHHCHHHHHHHHHHHHHHCCCCCCCCCCHHHCCEEEECCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHCCCC-CC
Q ss_conf 75175659999999886518764445880016288856985699999973198169952135677888865310112-11
Q gi|254780872|r 37 HQINPVRIKYIQDKIMQHFQCKSDDTHPFKGLRILDLGCGGGLLSEPMAQMGATVTGIDPSTKNIAIAKNHANMKNI-NI 115 (254)
Q Consensus 37 h~~N~~R~~~I~~~i~~~~~~~~~~~~~l~g~~VLDiGCG~G~~s~~la~~g~~V~giD~S~~~i~~Ak~~a~~~~~-~i 115 (254)
T Consensus 272 ~QVN~~~~~~l~~~a~~~l~Lqg~-------e~V~DayCG~GtftLpLA~qak~v~G~E~v~e~v~~a~~NAe~Ng~~N~ 344 (434)
T TIGR00479 272 FQVNSEQTEKLVDRALEALELQGE-------EKVVDAYCGVGTFTLPLAKQAKSVVGVEVVPESVEDAKRNAELNGIANV 344 (434)
T ss_pred EECCHHHHHHHHHHHHHHHHCCCC-------CEEEEEECCCCCCHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCCH
T ss_conf 201876779999999999715986-------5578631575520044440121888871437678999888886035320
Q ss_pred CCCCCCCCC-CCC---CCCCHHHHEECCCHHCCCCH------HHHHHHHHHHCCCCCEEEEEC
Q ss_conf 112210012-321---11530130012431026888------899888875213332157743
Q gi|254780872|r 116 DYRVSCAEE-IAE---TDEKFDIILNMEVIEHVDNI------PYFIKTCCSLLLSNGLMFIST 168 (254)
Q Consensus 116 ~~~~~~~~~-l~~---~~~~FD~V~~~~vleHv~d~------~~~l~~~~~~LkpgG~liist 168 (254)
T Consensus 345 ~F~~g~~E~~~p~~~~e~~~~D~~ll--------DPPR~GCa~~~L~~I~~-~kP~rivYVSC 398 (434)
T TIGR00479 345 EFLAGTLETVLPKQPWEGISPDVVLL--------DPPRKGCAAEVLRTIIK-LKPKRIVYVSC 398 (434)
T ss_pred HHHHHHHHHHCCCCCCCCCCCCEEEE--------CCCCCCCHHHHHHHHHH-CCCEEEEEEEC
T ss_conf 13331232110144222677898888--------88898745899998862-07705999844