HHsearch alignment for GI: 255764482 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=99.58 E-value=4.5e-14 Score=98.60 Aligned_cols=140 Identities=15% Similarity=0.198 Sum_probs=111.5
Q ss_pred HHCCCCCCCEEEEECCCHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCCCCCCCCC
Q ss_conf 43899855789995878438999999867998899998898999988999998066452225302004442353100001
Q gi|255764482|r 5 SLVNATGSFHLADLGAGAGAAGLAVASRLHEAQILLAERSPLMAHYARKTLALPANAQISKRISLIEVDVTLVGENRNLA 84 (225)
Q Consensus 5 ~~~~~~~~~~VLDlGcG~G~~~l~la~r~~~~~v~gvD~~~~~~~~A~~n~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~ 84 (225)
T Consensus 288 ~~l~Lqg~e~V~DayCG~GtftLpLA~q--ak~v~G~E~v~e~v~~a~~NAe~Ng~~N----~~F~~g~~E~~~p~~~~- 360 (434)
T TIGR00479 288 EALELQGEEKVVDAYCGVGTFTLPLAKQ--AKSVVGVEVVPESVEDAKRNAELNGIAN----VEFLAGTLETVLPKQPW- 360 (434)
T ss_pred HHHHCCCCCEEEEEECCCCCCHHHHHHC--CCEEEEEECCHHHHHHHHHHHHHCCCCC----HHHHHHHHHHHCCCCCC-
T ss_conf 9971598655786315755200444401--2188887143767899988888603532----01333123211014422-
Q ss_pred CCCCCCCCEEEECCCCCCCCCCCCCCHHHHHHHCCCCCCHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHH-HCC-CC
Q ss_conf 2357652057722654464465478854556520566898999999998624698378702888899999985-217-88
Q gi|255764482|r 85 GLKNNFYDHVIMNPPFNERIGTMTPDKIKEEAHVMLEDSFEKWIRTACAIMRSSGQLSLIARPQSLIQIVNAC-ARR-IG 162 (225)
Q Consensus 85 ~~~~~~fDlii~nPPy~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~a~~lLkpgG~~~~i~~~~~l~~~l~~~-~~~-~~ 162 (225)
T Consensus 361 --e~~~~D~~llDPPR--------------------~GCa~~~L~~I~~-~kP~rivYVSCNP~TLARDl~~L~~~GfY~ 417 (434)
T TIGR00479 361 --EGISPDVVLLDPPR--------------------KGCAAEVLRTIIK-LKPKRIVYVSCNPATLARDLEVLCKEGFYK 417 (434)
T ss_pred --CCCCCCEEEECCCC--------------------CCCHHHHHHHHHH-CCCEEEEEEECCCHHHHHHHHHHHHCCCEE
T ss_conf --26778988888889--------------------8745899998862-077059998448534799999997379626
Q ss_pred CEEEEEECCCCC
Q ss_conf 469998145896
Q gi|255764482|r 163 SLEITPLHPREG 174 (225)
Q Consensus 163 ~~~i~~v~~~~~ 174 (225)
T Consensus 418 i~~~q~~DmFPh 429 (434)
T TIGR00479 418 IEKVQPVDMFPH 429 (434)
T ss_pred EEEEEEEECCCC
T ss_conf 788854305788