HHsearch alignment for GI: 254781004 and conserved domain: cd00768

>cd00768 class_II_aaRS-like_core Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial ATP phosphoribosyltransferase regulatory subunit HisZ.
Probab=100.00  E-value=2.9e-38  Score=283.87  Aligned_cols=209  Identities=26%  Similarity=0.367  Sum_probs=176.1

Q ss_pred             HHHHHHHHHHHHHH-CCCEEEECCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCEEEECCCCHHHHHHHHHHCCC
Q ss_conf             99999999998876-89638555432443100011210012555420100145677782377434312577776520122
Q gi|254781004|r  275 IFQTLISYMRRKIK-DDYEEINTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKDLRTFALKPMNCPGHVAVFNHGLK  353 (652)
Q Consensus       275 i~~~ie~~ir~~~~-~G~~eV~tP~l~~~~Lw~~SGh~~~y~~~mf~~~~~~~~~~~~~~~~LkPmncp~h~~i~~~~~~  353 (652)
T Consensus         1 ~r~~ie~~~r~~~~~~G~~ev~~P~l~~~~~~~~sg~~~~~~~~~--------~~~~~~~~~L~pt~e~~~~~~~~~~~-   71 (211)
T cd00768           1 IRSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPV--------GAENEEDLYLRPTLEPGLVRLFVSHI-   71 (211)
T ss_pred             CHHHHHHHHHHHHHHCCCEEEECCEECCHHHHHHCCCCHHHHHHH--------CCCCCCEEEEECCCCHHHHHHHHHHH-
T ss_conf             978999999999998699899998342799997506762223011--------04679769995168499999975247-


Q ss_pred             CHHHCCHHHHHHEEEECCCCCCCCEEEEECCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCCC
Q ss_conf             22310432000100012787645200010563533442101053767887899999988766552133210001465311
Q gi|254781004|r  354 SYRELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVFCTKEQMFNECLKIHNLIISIYKDFGFEKIMVKLSTRPEK  433 (652)
Q Consensus       354 SYrdLPlrl~e~~~~~R~E~sg~l~GL~R~ReF~~~Dah~F~~~eq~~~e~~~~~~~~~~v~~~~g~~~~~~~ls~~~~~  433 (652)
T Consensus        72 --~dLP~r~~~~~~~fR~E~~~--~Gl~RvreF~~~e~~~f~~~~~~~~~~~~~~~~~~~i~~~lgl~~~~~~~~~~~--  145 (211)
T cd00768          72 --RKLPLRLAEIGPAFRNEGGR--RGLRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLRALGIKLDIVFVEKTP--  145 (211)
T ss_pred             --HHCCHHHHEECCEECCCCCC--CCCCCCCCEEEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECC--
T ss_conf             --65777864320056057888--884460468898479998848889999999999999999749988869999778--


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCHHHH-CCCCCCCEEEE
Q ss_conf             25860357789999999998502121256675205555554554321100211033100121101110-22346741673
Q gi|254781004|r  434 RVGSDALWDDAENIMKGVLDTIKNSSQDRINTGVLLGEGAFYGPKFEYILKDAIGRDWQCGTIQVDFN-LPSRFNAFYVN  512 (652)
Q Consensus       434 ~~g~~~~~~~ae~~l~~~l~~~~~~~~~~~~~~~~~g~~afygpkid~~~~d~~gr~~~~~tiq~df~-~p~~f~l~y~~  512 (652)
T Consensus       146 ----------------------------------~~~~~~~a~~~~Die~~~p~~~~~Ev~s~~~~~d~qsr~~~i~y~~  191 (211)
T cd00768         146 ----------------------------------GEFSPGGAGPGFEIEVDHPEGRGLEIGSGGYRQDEQARAADLYFLD  191 (211)
T ss_pred             ----------------------------------CCCCCCCCEEEEEEEEECCCCCEEEEECEECCCCHHHHHCCCEEEC
T ss_conf             ----------------------------------6766645235455789837897999935461677878846989999


Q ss_pred             ECCCEEEEEEEEECCCHHHHHH
Q ss_conf             1797213799640341037899
Q gi|254781004|r  513 SHSEKCHPVMIHRAVFGSIERF  534 (652)
Q Consensus       513 ~dg~~~~pvmihr~~~Gs~eR~  534 (652)
T Consensus       192 ~dg~~~~~~~~~~gl--~v~Rl  211 (211)
T cd00768         192 EALEYRYPPTIGFGL--GLERL  211 (211)
T ss_pred             CCCCEEEEEEEECEE--CCCCC
T ss_conf             999998755630324--13669