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