HHsearch alignment for GI: 254781004 and conserved domain: cd00774

>cd00774 GlyRS-like_core Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP binding and hydrolysis. This alignment contains only sequences from the GlyRS form which homodimerizes. The heterotetramer glyQ is in a different family of class II aaRS. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the N-terminus of the accessory subunit of mitochondrial polymerase gamma (Pol gamma b). Pol gamma b stimulates processive DNA synthesis and is functional as a homodimer, which can associate with the catalytic subunit Pol gamma alpha to form a heterotrimer. Despite significant both structural and sequence similarity with Gly
Probab=99.79  E-value=3.8e-19  Score=151.93  Aligned_cols=154  Identities=23%  Similarity=0.300  Sum_probs=129.3

Q ss_pred             CCCEEEEECCHHHHHHHHHHHHHHHH--HC-CCEEEECCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCEEEECC
Q ss_conf             87435650107899999999999887--68-9638555432443100011210012555420100145677782377434
Q gi|254781004|r  262 GSGVIFWHRKGWKIFQTLISYMRRKI--KD-DYEEINTPQVLDQHLWQQSGHWDSYRANMFAVKCADDTIKDLRTFALKP  338 (652)
Q Consensus       262 ~~G~~~wlP~G~~i~~~ie~~ir~~~--~~-G~~eV~tP~l~~~~Lw~~SGh~~~y~~~mf~~~~~~~~~~~~~~~~LkP  338 (652)
T Consensus        21 ~ag~yDyGPlG~~LK~Ni~~~W~~~fv~~~~~~~~id~~ii~p~L--------------mF~T~i-G~~~~~~~~~yLRP   85 (254)
T cd00774          21 VAGFYDYGPLGVELKNNIKSAWRKSFVLEEEDMLEIDSPIITPEL--------------MFKTSI-GPVESGGNLGYLRP   85 (254)
T ss_pred             HHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCC--------------CEECCC-CCCCCCCCCEEECH
T ss_conf             310615482379999999999999987437987995410036632--------------200121-56558986035363


Q ss_pred             CCHHHHHHHHHHCCCCHH-HCCHHHHHHEEEECCCCCCCCEEEEECCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             312577776520122223-1043200010001278764520001056353344210105376788789999998876655
Q gi|254781004|r  339 MNCPGHVAVFNHGLKSYR-ELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVFCTKEQMFNECLKIHNLIISIYKD  417 (652)
Q Consensus       339 mncp~h~~i~~~~~~SYr-dLPlrl~e~~~~~R~E~sg~l~GL~R~ReF~~~Dah~F~~~eq~~~e~~~~~~~~~~v~~~  417 (652)
T Consensus        86 ETAQGifvnFk~~~~~~r~kLPFGiaQIGk~FRNEIsP-r~~l~R~REF~q~EiE~F~~P~~~~~~~~~w~~~~l~~~~~  164 (254)
T cd00774          86 ETAQGIFVNFKNLLEFNRRKLPFGVAQIGKSFRNEISP-RNGLFRVREFTQAEIEFFVDPEKSHPWFDYWADQRLKWLPK  164 (254)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCC-CCCCCCHHCHHHHEEEEEECCCCCHHHHHHHHHHHHHHHHH
T ss_conf             45347798789999964888884456542022673477-76754000002125788857986425789999999866387


Q ss_pred             HCCCCCEECCCCCC
Q ss_conf             21332100014653
Q gi|254781004|r  418 FGFEKIMVKLSTRP  431 (652)
Q Consensus       418 ~g~~~~~~~ls~~~  431 (652)
T Consensus       165 ~~~~~~~~~~~~~~  178 (254)
T cd00774         165 FAQSPENLRLTDHE  178 (254)
T ss_pred             HCCCCCCEEEECCC
T ss_conf             38996653673046