HHsearch alignment for GI: 254781118 and conserved domain: cd04322

>cd04322 LysRS_N LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Included in this group are E. coli LysS and LysU. These two isoforms of LysRS are encoded by distinct genes which are differently regulated. Eukaryotes contain 2 sets of aaRSs, both of which encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein
Probab=99.95  E-value=1.1e-27  Score=197.46  Aligned_cols=105  Identities=47%  Similarity=0.848  Sum_probs=99.0

Q ss_pred             EEEEEEEECCCCCCC--CEEEEECCCCEEEEEEECCCCCHHHHHHH-HHCCCCEEEEEEEEEECCCCCCCCCCCCEEEEE
Q ss_conf             899986881114877--21899779935999980542796788887-423743168996576305665534212201221
Q gi|254781118|r   62 MITVAGRVYSSRNSG--MFMDIHDASGKIQIFTHKDTADQDSQNLL-SMIDIGDIIGITGQVRRTKRGELTVNAQKIIML  138 (502)
Q Consensus        62 ~V~i~Grv~~~R~~G--~Fi~LrD~~g~iQv~~~~~~~~~~~~~~~-~~l~~gd~i~v~G~v~~~~~gelei~~~~~~~l  138 (502)
T Consensus         1 ~V~v~GrV~~~R~~G~l~FidLrD~~g~iQv~~~~~~~~~~~~~~~~~~~~~gDvv~v~G~v~~t~tGel~v~~~~~~lL   80 (108)
T cd04322           1 EVSVAGRIMSKRGSGKLSFADLQDESGKIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKTKTGELSIFVKEFTLL   80 (108)
T ss_pred             CEEEEEEEEEEECCCCCEEEEEEECCCCEEEEEECCCCCHHHHHHHHHCCCCCEEEEEEEEEECCCCCEEEEEEEEHHCC
T ss_conf             98999999847067982999999699618999975647756777776344434499999787517993499996491200


Q ss_pred             CCCCCCCCCCCCCCCHHHHHHHCCCHHH
Q ss_conf             1355543222125311445420110012
Q gi|254781118|r  139 SKALNSIPETYYGLSDVEIRYRKRYLDI  166 (502)
Q Consensus       139 ~~~~~~lP~~~~~~~d~e~rl~~R~LDl  166 (502)
T Consensus        81 sk~l~plP~~~~~~~~~e~r~r~RyLDL  108 (108)
T cd04322          81 SKSLRPLPEKFHGLTDVETRYRQRYLDL  108 (108)
T ss_pred             CCCCCCCCCCCCCCCCHHHEEHHHCCCC
T ss_conf             6667899944657779612401200369