HHsearch alignment for GI: 254780414 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=99.63 E-value=1.2e-15 Score=131.95 Aligned_cols=158 Identities=28% Similarity=0.385 Sum_probs=113.5
Q ss_pred CEEEEECCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCC--------CCHHHHHHHHHHCCCCCEEEEEHHHHHHH----
Q ss_conf 036640564047799999986223656999973895515--------62789999886236985799758899999----
Q gi|254780414|r 224 RVICAVSGGVDSTVAAFLIYEAIGINLTCVLVDHGFMRK--------NEVENIISLFKGYPNFPLRVVDASERFIR---- 291 (520)
Q Consensus 224 kVi~~lSGGVDStV~A~Ll~kAig~~l~~vfVD~GllRk--------nE~~~v~~~~~~~~~~~l~~vda~~~Fl~---- 291 (520)
T Consensus 1 kV~v~mSGGVDSsvaA~LL~~~-G~~V~gv~m~~w~~~~~~~~C~~~~d~~dA~~va-~~LgIp~~v~d~~~ef~~~V~~ 78 (349)
T cd01998 1 KVVVAMSGGVDSSVAAALLKEQ-GYEVIGVFMKNWDEDDGKGGCCSEEDLKDARRVA-DQLGIPHYVVNFEKEYWEKVFE 78 (349)
T ss_pred CEEEECCCCHHHHHHHHHHHHC-CCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHH-HHCCCCEEEECHHHHHHHHHHH
T ss_conf 9899907789999999999877-9957999999678876678988677899999999-9869967996809988688899
Q ss_pred -----HHCCCC-CHHHHHHHHHHHHHHH--HHHHHHHCCCCEEEEECCCCCHHHHHHCC---CCCCCCEEEEEEC-CCCH
Q ss_conf -----966898-8899998875658999--99999743997099864622024542024---6777630344302-3201
Q gi|254780414|r 292 -----KLKNIV-DPETKRKVIGQLFIEV--FEEEAKKIGGAQFLGQGTLYPDVIESISF---FGGPSSIIKSHHN-VGGL 359 (520)
Q Consensus 292 -----~L~gv~-DPE~KRkiIG~~Fi~v--f~~~a~~~~~~~~L~QGTlypDvIES~~~---~~~~~~~IKsHHN-vggl 359 (520)
T Consensus 79 ~f~~~Y~~G~TPNPc----v~CN~~IKF~~l~~~A~~~-g~d~iATGH-YAri~~~~~~~~~L~r~~D~~KDQSYfL~~l 152 (349)
T cd01998 79 PFLEEYKKGRTPNPD----ILCNKEIKFGALLDYAKKL-GADYIATGH-YARIEEDNNGRYRLLRGVDPNKDQSYFLSQL 152 (349)
T ss_pred HHHHHHHCCCCCCCC----HHCCCEEEHHHHHHHHHHC-CCCEECCCC-EEEEEECCCCCEEEEECCCCCCCCCEEEECC
T ss_conf 999999748999876----2118735199999999875-998641351-4788975898489987689987820564012
Q ss_pred HHHHCCCHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 132032022378987389999999981999
Q gi|254780414|r 360 PEHMDMKLVEPLKELFKDEVRLLGKELRLP 389 (520)
Q Consensus 360 p~~~~~~liEPl~~l~KdEVR~lg~~Lglp 389 (520)
T Consensus 153 ~~~~L~~~~FPLG~~~K~eVR~iA~~~gl~ 182 (349)
T cd01998 153 SQEQLSRLIFPLGDLTKPEVREIAKELGLP 182 (349)
T ss_pred CHHHHHHEECCCCCCCHHHHHHHHHHCCCC
T ss_conf 487661038788786538999999985999