HHsearch alignment for GI: 254780419 and conserved domain: cd00775

>cd00775 LysRS_core Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three characteristic sequence motifs in the core domain. It is found in eukaryotes as well as some prokaryotes and archaea. However, LysRS belongs to class I aaRS's in some prokaryotes and archaea. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.
Probab=100.00  E-value=0  Score=595.43  Aligned_cols=312  Identities=23%  Similarity=0.413  Sum_probs=236.2

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCC--CCCCCCCCCCCHHHHHHCCCCHHHHHHHHHCCCHHH
Q ss_conf             211112124589999999875203651462033211246456--645432222210344311238545644331057023
Q gi|254780419|r  135 RDTLHKNIVKRTRIINSMRCRMIAENFIECSTPILTASSPEG--ARDFLVPSRVNQGSFYALPQAPQQYKQLLMASGFDR  212 (622)
Q Consensus       135 ~~~~~~~l~~Rs~i~~~~R~~l~~~gF~EveTP~L~ksTpeG--ArdFlVPsR~~~g~fYALpQSPQlyKQlLmv~G~dr  212 (622)
T Consensus         1 n~~~~~~~~~Rs~i~~~iR~ff~~~gF~Ev~TPiL-~~~~~g~~~~~f~~~~~~~~~~~y-L~qSpQl~~q~l~~~g~~r   78 (329)
T cd00775           1 NEEVRQTFIVRSKIISYIRKFLDDRGFLEVETPML-QPIAGGAAARPFITHHNALDMDLY-LRIAPELYLKRLIVGGFER   78 (329)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCC-CCCCCCCCCCCEEECCCCCCCCCC-CCCCHHHHHHHHHHCCCCC
T ss_conf             97899999999999999999999889889979865-566887567531322446786723-0689899999998567776


Q ss_pred             HEEEHHHHCCCCCCCCCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCC---------CCCCCCCCCCCHHHHH
Q ss_conf             3110011037776655380000356541026899999999999999999998087---------2345773212189887
Q gi|254780419|r  213 YFQIAPCFRDEDPRSDRLPGEFYQLDMEMSFVEQDDILNTMENVLRGVFEEFSNG---------NTVSNNFLRICYDDAI  283 (622)
Q Consensus       213 yfqiarcFRdEd~R~dRqp~EFTqlD~EmsF~~~edvm~l~E~li~~i~~~v~~~---------~~i~~pF~rmtY~eAm  283 (622)
T Consensus        79 vfqI~p~FR~E~~~~rHl~-EFtmle~E~~f~d~~dvm~~~E~li~~i~~~~~~~~~~~~~~~~~d~~~pf~rit~~ea~  157 (329)
T cd00775          79 VYEIGRNFRNEGIDLTHNP-EFTMIEFYEAYADYNDMMDLTEDLFSGLVKKINGKTKIEYGGKELDFTPPFKRVTMVDAL  157 (329)
T ss_pred             EEEEEECCCCCCCCCCCCC-HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHH
T ss_conf             7998102247999977473-456345777447999999999999999999983887531466123568997437699999


Q ss_pred             HHC-CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             513-6777644476401244310178752456668740378479999627876652103567799987642024623552
Q gi|254780419|r  284 RRY-GTDKPDLRNPIIMHNVTEHFVHSEFRVFSKILSVNPGYEVWAIPAKGGGGNRAFCDRMNEWARSQGQPGLAYIFWR  362 (622)
Q Consensus       284 ~~Y-GsDKPDLR~~lei~dit~~~~~~~f~vf~~~~~~~~~~~v~~i~~~~~~~srk~~D~l~e~ak~~g~kgL~~i~~~  362 (622)
T Consensus       158 ~~~~g~~~~~~~~~----------------------------------------------~~~~~~k~~~~~-~~~---~  187 (329)
T cd00775         158 KEKTGIDFPELDLE----------------------------------------------QPEELAKLLAKL-IKE---K  187 (329)
T ss_pred             HHHHCCCCCCCCCC----------------------------------------------CHHHHHHHHHHH-CCC---C
T ss_conf             99858998766732----------------------------------------------389999998775-686---6


Q ss_pred             ECCCCCCCCCCCHHHHCCHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEECCC
Q ss_conf             04777533357025532527899999981887557269980885411001347889998773003557510288960770
Q gi|254780419|r  363 LDESGNVAGMGPVAKHLNIVNTEAIRVRLDMQDGDSCFFIAGDPLKFCSFAADARNHIAQELGIINCNCFEFCWIMDFPF  442 (622)
Q Consensus       363 ~~~~~~~~~~spi~K~l~~~~~~~l~~~~~~~~GD~i~f~a~~~~~~~~~lg~lR~~ia~~l~li~~~~~~flWV~DFPL  442 (622)
T Consensus       188 ~~~--~~~------------------------------------------~~~~~~~~~~--~~ie~~~~~p~fi~dyP~  221 (329)
T cd00775         188 IEK--PRT------------------------------------------LGKLLDKLFE--EFVEPTLIQPTFIIDHPV  221 (329)
T ss_pred             CCC--CCC------------------------------------------HHHHHHHHHH--HHHHHHCCCCEEEECCHH
T ss_conf             567--877------------------------------------------8999999999--999751379689947701


Q ss_pred             EEECCCCCCCCHHHCCCCCCCCCHHHHHCCCHHHHHHHCCCEEECCEEECCCCEECCCHHHHHHHHHHCC----CCHHHH
Q ss_conf             5354554700021100247664306554188777413136777756772125123156999999999859----998999
Q gi|254780419|r  443 YEWNEEEKKIDFAHNPFTMPQGGMESLKGNDLLSIKAFQYDLVCNGFEIASGGIRNHMSEVMLQAFSNVG----ISKEVV  518 (622)
Q Consensus       443 Fe~dee~~r~~s~HHPFTaP~~~~~~l~~~dp~~v~a~~YDLVlNG~EiggGSiRIHd~~iQ~~~f~~lg----l~~ee~  518 (622)
T Consensus       222 ------------~~~pf~~~~~~~-------~~--~~~~fdl~~~G~Ei~~G~~el~d~~~q~~r~~~~~~~~~~~~~~~  280 (329)
T cd00775         222 ------------EISPLAKRHRSN-------PG--LTERFELFICGKEIANAYTELNDPFDQRERFEEQAKQKEAGDDEA  280 (329)
T ss_pred             ------------HCCCHHHCCCCC-------CC--EEEECCCCCCCEEEECCEEEECCHHHHHHHHHHHHHHHHCCCCCH
T ss_conf             ------------118443129999-------77--010012456877984153311799999999999999985467511


Q ss_pred             HHHHHHHHHHHHCCCCCCCCEECCHHHHHHHHCCCCCCEEEECCCCCC
Q ss_conf             866778999986084973422246899999983739840321378999
Q gi|254780419|r  519 ENRFGGLYRAFQCGMPPHGGIAAGIDRIVMLLLGAKNVREVSLFPMSQ  566 (622)
Q Consensus       519 ~~~Fg~lL~Al~yG~PPHgG~alGlDRlvmll~g~~sIRdVIaFPKt~  566 (622)
T Consensus       281 ~~~de~yl~a~k~G~pPhgG~glGldRLvm~l~g~~nIRdvi~FP~~r  328 (329)
T cd00775         281 MMMDEDFVTALEYGMPPTGGLGIGIDRLVMLLTDSNSIRDVILFPAMR  328 (329)
T ss_pred             HHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHCCCHHHHCCCCCCCC
T ss_conf             242399999966799986114099999999993898187513799989