HHsearch alignment for GI: 254780933 and conserved domain: TIGR00440

>TIGR00440 glnS glutaminyl-tRNA synthetase; InterPro: IPR004514 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Glutaminyl-tRNA synthetase (6.1.1.18 from EC) is a class Ic synthetase and shows several similarities with glutamyl-tRNA synthetase concerning structure and catalytic properties. It is an alpha2 dimer. Glutaminyl-tRNA synthetase is a relatively rare synthetase, found in the cytosolic compartment of eukaryotes, in Escherichia coli and a number of other Gram-negative bacteria, and in Deinococcus radiodurans. In contrast, the pathway to Gln-tRNA in mitochondria, Archaea, Gram-positive bacteria, and a number of other lineages is by misacylation with Glu followed by transamidation to correct the aminoacylation to Gln.; GO: 0000166 nucleotide binding, 0004819 glutamine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006425 glutaminyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=96.87  E-value=0.00091  Score=45.95  Aligned_cols=90  Identities=26%  Similarity=0.322  Sum_probs=55.6

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHC-CCCHHHCCHHHHHHHHHHHHH
Q ss_conf             4499998654378896779999987670898356778815454089999999976745-998777798999999999999
Q gi|254780933|r   45 PPNVTGSLHMGHAFNTTIQDIMIRFERMRGKNVLWQPGTDHAGIATQITVESRLFAQS-SLTREDIGRDAFIEKVWEWKK  123 (947)
Q Consensus        45 pP~~nG~lHiGH~~~~t~~Di~~Ry~rm~G~~Vl~~~G~D~~GlPiE~~vek~l~~~~-~~~~~~~g~~~f~~~~~~~~~  123 (947)
T Consensus         6 PPEPNGYLHIGHaK~I~~---------------NFG~Ak~y~G~C-------~LRFDDTNP~KE--------------~~   49 (564)
T TIGR00440         6 PPEPNGYLHIGHAKSICL---------------NFGLAKEYKGTC-------NLRFDDTNPVKE--------------DV   49 (564)
T ss_pred             CCCCCCCEEHHHHHHHHH---------------HCCCCCCCCCCE-------EEECCCCCCCCC--------------CC
T ss_conf             855787300102431344---------------203202017636-------442167888646--------------60


Q ss_pred             HHHHHHHHHHHHHCCEEECCCCEECCCHHHHHHHHHHHHHHHHCCCEEEC
Q ss_conf             99999999999808366427981158867999999999999988943313
Q gi|254780933|r  124 ESGGSILSQLKRLGASCDWSRERFTMDEGMSNAVRNAFVVLYKDGLIYRD  173 (947)
Q Consensus       124 ~~~~~~~~~~~~lG~~~Dw~r~y~T~d~~y~~~v~~~F~~L~~~gliy~~  173 (947)
T Consensus        50 EY~eSIK~~V~WLGFkw~g~~---~YsSDYFD~Ly~~A~~LI~~G~AYV~   96 (564)
T TIGR00440        50 EYVESIKRDVEWLGFKWEGKI---RYSSDYFDELYRYAVELIKKGLAYVD   96 (564)
T ss_pred             HHHHHHHHHHHHCCCCCCCCE---EECHHHHHHHHHHHHHHHHCCCEEEE
T ss_conf             178887522222251247731---33304688999999999867960675