HHsearch alignment for GI: 254780546 and conserved domain: cd01998
>cd01998 tRNA_Me_trans tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs. This family of enzyme only presents in bacteria and eukaryote. The archaeal counterpart of this enzyme performs same function, but is completely unrelated in sequence.
Probab=99.48 E-value=8.9e-14 Score=116.45 Aligned_cols=168 Identities=18% Similarity=0.237 Sum_probs=117.0
Q ss_pred EEEEEECCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCC---C---CCCHHHHHHHHHHHHHHCCCCEEEEEEEC---
Q ss_conf 39999669424899999999999864899729999996677---9---87846899999999987189889999750---
Q gi|254780546|r 21 HILVAVSGGSDSMGLLIALHSVLSDRSFGKIKFSAISVDHC---L---RETAKDEVRYVSDVCSRLRIAHSVVSWKN--- 91 (423)
Q Consensus 21 ~i~vAvSGG~DS~aLl~ll~~~~~~~~~~~~~l~a~~vdHg---l---r~~s~~e~~~v~~~~~~lgi~~~~~~~~~--- 91 (423)
T Consensus 1 kV~v~mSGGVDSsvaA~LL~~~-------G~~V~gv~m~~w~~~~~~~~C~~~~d~~dA~~va~~LgIp~~v~d~~~ef~ 73 (349)
T cd01998 1 KVVVAMSGGVDSSVAAALLKEQ-------GYEVIGVFMKNWDEDDGKGGCCSEEDLKDARRVADQLGIPHYVVNFEKEYW 73 (349)
T ss_pred CEEEECCCCHHHHHHHHHHHHC-------CCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEECHHHHHH
T ss_conf 9899907789999999999877-------995799999967887667898867789999999998699679968099886
Q ss_pred --------------CCCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHH-HHHHHHHHCCCCC--C-CCCCCCC
Q ss_conf --------------47877803788854555543200123442012345666566-8999986236544--4-3322357
Q gi|254780546|r 92 --------------SKPQTGLMAAAREARYALISEHAKTINATLIMTAHTFDDQL-ETVYMRSQRDYAE--K-GMGLSGM 153 (423)
Q Consensus 92 --------------~~~~~~~~~~ar~~r~~~~~~~~~~~~~~~l~~ah~~dD~~-Et~l~rl~r~sg~--~-g~~l~~~ 153 (423)
T Consensus 74 ~~V~~~f~~~Y~~G~TPNPcv~CN-~~IKF~~l~~~A~~~g~d~iATGHYAri~~~~~~~~~L~r~~D~~KDQSYfL~~l 152 (349)
T cd01998 74 EKVFEPFLEEYKKGRTPNPDILCN-KEIKFGALLDYAKKLGADYIATGHYARIEEDNNGRYRLLRGVDPNKDQSYFLSQL 152 (349)
T ss_pred HHHHHHHHHHHHCCCCCCCCHHCC-CEEEHHHHHHHHHHCCCCEECCCCEEEEEECCCCCEEEEECCCCCCCCCEEEECC
T ss_conf 888999999997489998762118-7351999999998759986413514788975898489987689987820564012
Q ss_pred CCCCCCCCCCEEECCHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf 64100357968710121042899999899818932026678642210
Q gi|254780546|r 154 CDTILYDLNLWISRPFLRCRREDIRSFLLQRNISWCEDPSNTDDRFE 200 (423)
Q Consensus 154 ~~~~~~~~~~~i~RPLL~~~r~~l~~~~~~~~i~wveDpSN~d~~f~ 200 (423)
T Consensus 153 ~~~~L----~~~~FPLG~~~K~eVR~iA~~~gl~~a~K~dSq~ICFi 195 (349)
T cd01998 153 SQEQL----SRLIFPLGDLTKPEVREIAKELGLPVAKKKDSQGICFI 195 (349)
T ss_pred CHHHH----HHEECCCCCCCHHHHHHHHHHCCCCCCCCCCCCCEEEE
T ss_conf 48766----10387887865389999999859998997777760331