HHsearch alignment for GI: 254781066 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=655.32  Aligned_cols=325  Identities=29%  Similarity=0.478  Sum_probs=291.9

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCEECCCCCCCCCCCEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             54899999999999999999987988984782105689854454124102478867832000028589999898744688
Q gi|254781066|r   17 RRRPFLLKRNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFSTELIIQDHIRKPLYLQTSPEFSCKKLLAAGEEK   96 (355)
Q Consensus        17 r~R~~l~~Rs~i~~~iR~ff~~~gF~EV~TPiL~~~~~g~~~~~~f~t~~~~~~~~~~~~yL~~SPql~lK~ll~~G~~r   96 (355)
T Consensus         3 ~~~~~~~~Rs~i~~~iR~ff~~~gF~Ev~TPiL~~~~~g~-~~~~f~~~~---~~~~~~~yL~qSpQl~~q~l~~~g~~r   78 (329)
T cd00775           3 EVRQTFIVRSKIISYIRKFLDDRGFLEVETPMLQPIAGGA-AARPFITHH---NALDMDLYLRIAPELYLKRLIVGGFER   78 (329)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCC-CCCCEEECC---CCCCCCCCCCCCHHHHHHHHHHCCCCC
T ss_conf             8999999999999999999998898899798655668875-675313224---467867230689899999998567776


Q ss_pred             HHHHHHHHCCCCCCCCCCCCEEEECEEECCCCHHHHHHHHHHHHHHHHHHHC-CCEECCCCCCCCCCCCCCCCCHHHHHH
Q ss_conf             9998864245677754484300200011577657877755788877666418-830002234332467732078888656
Q gi|254781066|r   97 IFCFAHAWRNGEQGCLHQPEFTMLEWYRAHESYEQLMKDCMNIIRCAAEVAN-QKIFSFQNVNCNPFSEPEYITVAEAFA  175 (355)
Q Consensus        97 vyqig~~FRaE~~~~rHlpEFtmLE~e~af~d~~dlm~~~E~li~~~~~~~~-~~~~~~~~~~~~~~~~~~~i~~~e~~~  175 (355)
T Consensus        79 vfqI~p~FR~E~~~~rHl~EFtmle~E~~f~d~~dvm~~~E~li~~i~~~~~~~~~~~~~~~~~d~~~pf~rit~~ea~~  158 (329)
T cd00775          79 VYEIGRNFRNEGIDLTHNPEFTMIEFYEAYADYNDMMDLTEDLFSGLVKKINGKTKIEYGGKELDFTPPFKRVTMVDALK  158 (329)
T ss_pred             EEEEEECCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf             79981022479999774734563457774479999999999999999999838875314661235689974376999999


Q ss_pred             HHCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCEECCCCCCCCCCCCCCCCHHHHHHCCCCCCC
Q ss_conf             66087653234555623279999999976887787653478987664300362237675443257688886413678778
Q gi|254781066|r  176 RYANIDLGTTLDNPDQPDRHLLYLQAQQAGIRVAHDDTWSDIFSRILIEKIEPNLGINCCTILDRYPAPESALANIYPAD  255 (355)
Q Consensus       176 ~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ie~~l~~~~pvfi~~yP~~~~plak~~~~~  255 (355)
T Consensus       159 ~~~g~~~~~~~~~---~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~~~--~~p~fi~dyP~~~~pf~~~~~~~  233 (329)
T cd00775         159 EKTGIDFPELDLE---QPEELAKLLAKLIKEKIEKPRTLGKLLDKLFEEFVEPTL--IQPTFIIDHPVEISPLAKRHRSN  233 (329)
T ss_pred             HHHCCCCCCCCCC---CHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHC--CCCEEEECCHHHCCCHHHCCCCC
T ss_conf             9858998766732---389999998775686656787789999999999997513--79689947701118443129999


Q ss_pred             CCCCCCCEEEECCEECCCCCHHCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHC-CCCCCCEEECCHHHHHHHHH
Q ss_conf             36330220223671225640210699999999999999997288853010189999861-88963245315999989981
Q gi|254781066|r  256 PRFTKRFELYACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNETYPIDEDFLACLT-EMPQSSGIAMGFDRLVMLVT  334 (355)
Q Consensus       256 ~~va~rfdl~i~G~El~ng~~El~d~~~q~~rf~~q~~~k~~~~~e~~~~D~~fl~al~-G~PPhgG~glGidRLvm~l~  334 (355)
T Consensus       234 ~~~~~~fdl~~~G~Ei~~G~~el~d~~~q~~r~~~~~~~~~~~~~~~~~~de~yl~a~k~G~pPhgG~glGldRLvm~l~  313 (329)
T cd00775         234 PGLTERFELFICGKEIANAYTELNDPFDQRERFEEQAKQKEAGDDEAMMMDEDFVTALEYGMPPTGGLGIGIDRLVMLLT  313 (329)
T ss_pred             CCEEEECCCCCCCEEEECCEEEECCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHH
T ss_conf             77010012456877984153311799999999999999985467511242399999966799986114099999999993


Q ss_pred             CCCCHHHHCCCCCCCC
Q ss_conf             5597131115856487
Q gi|254781066|r  335 GANNINEVIWTPFSQS  350 (355)
Q Consensus       335 g~~~Irdvi~FP~~r~  350 (355)
T Consensus       314 g~~nIRdvi~FP~~r~  329 (329)
T cd00775         314 DSNSIRDVILFPAMRP  329 (329)
T ss_pred             CCCHHHHCCCCCCCCC
T ss_conf             8981875137999897