HHsearch alignment for GI: 254780999 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=99.39 E-value=2.9e-12 Score=99.45 Aligned_cols=147 Identities=27% Similarity=0.358 Sum_probs=96.8
Q ss_pred EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCC--------CCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHH--H
Q ss_conf 0575215872368999999841495446797324666--------65221356999999721354267758999998--8
Q gi|254780999|r 294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKY--------TSPQSLEDAAACAKALGCKYDVLPIHDLVNHF--F 363 (562)
Q Consensus 294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~--------~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~--~ 363 (562)
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-GYE-VIGVFMKNWDEDDGKGGCCSEEDLKDARRVADQLGIPHYVVNFEKEYWEKVFE 78 (349)
T ss_pred CEEEECCCCHHHHHHHHHHHHC-CCC-EEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEECHHHHHHHHHHH
T ss_conf 9899907789999999999877-995-79999996788766789886778999999999869967996809988688899
Q ss_pred HHHCCCCCCCCC--CHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHH---H-HCCCCC-C---------------
Q ss_conf 631323468743--10110123304667798887516954436432447754---1-102366-6---------------
Q gi|254780999|r 364 SLMSQFLQEEPS--GIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISV---G-YGTLYG-D--------------- 421 (562)
Q Consensus 364 ~~~~~~~~~~~~--~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~---G-y~T~~G-D--------------- 421 (562)
T Consensus 79 ~f~~~Y~~G~TPNPcv~C-N--~~IKF~~l~~~A~~~g~d~iATGHYAri~~~~~~~~~L~r~~D~~KDQSYfL~~l~~~ 155 (349)
T cd01998 79 PFLEEYKKGRTPNPDILC-N--KEIKFGALLDYAKKLGADYIATGHYARIEEDNNGRYRLLRGVDPNKDQSYFLSQLSQE 155 (349)
T ss_pred HHHHHHHCCCCCCCCHHC-C--CEEEHHHHHHHHHHCCCCEECCCCEEEEEECCCCCEEEEECCCCCCCCCEEEECCCHH
T ss_conf 999999748999876211-8--7351999999998759986413514788975898489987689987820564012487
Q ss_pred -CCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf -555401017763365899999963
Q gi|254780999|r 422 -MSGGFNPLKDLYKTQVFQLASWRN 445 (562)
Q Consensus 422 -~~g~~~p~~~l~Kt~v~~la~~~n 445 (562)
T Consensus 156 ~L~~~~FPLG~~~K~eVR~iA~~~g 180 (349)
T cd01998 156 QLSRLIFPLGDLTKPEVREIAKELG 180 (349)
T ss_pred HHHHEECCCCCCCHHHHHHHHHHCC
T ss_conf 6610387887865389999999859