HHsearch alignment for GI: 254780928 and conserved domain: TIGR00458

>TIGR00458 aspS_arch aspartyl-tRNA synthetase; InterPro: IPR004523 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 . Aspartyl tRNA synthetase 6.1.1.12 from EC is an alpha2 dimer that belongs to class IIb. Structural analysis combined with mutagenesis and enzymology data on the yeast enzyme point to a tRNA binding process that starts by a recognition event between the tRNA anticodon loop and the synthetase anticodon binding module . This family represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). ; GO: 0000166 nucleotide binding, 0004815 aspartate-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006422 aspartyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=96.29  E-value=0.019  Score=35.11  Aligned_cols=102  Identities=25%  Similarity=0.456  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEEC-CCCCEEEECCCCHHHHHHHHHHHHH
Q ss_conf             899999999999999998598480165202288752026755433322168986-9998899988883899999995112
Q gi|254780928|r   22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQD-DDGQWISLRYDLTAPLARYVAENFD  100 (496)
Q Consensus        22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D-~~g~~l~LRpDlT~~~aR~~~~~~~  100 (496)
T Consensus       154 IF~I~~~~~~~vR~~L~~~~F~Ev~TPKl-----v~~~tEG----Gt~lF~i~YF~~~AfL~QSPQlyKQ~l--~~~g--  220 (466)
T TIGR00458       154 IFRIRSEVLESVREFLAEEGFIEVHTPKL-----VASATEG----GTELFPITYFEREAFLGQSPQLYKQVL--MAAG--  220 (466)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCE-----EECCCCC----CCCCCEEEEECCCCCCCCCCHHHHHHH--HHCC--
T ss_conf             25568999999999873088256307621-----4216688----853320122123000135703566877--6526--


Q ss_pred             HCCCCHHHHHHHHHHCCCCCCC-CCCCCCCCCCHHHHHCCC
Q ss_conf             0554112331013330258764-442111110001210000
Q gi|254780928|r  101 TIVFPCRTYRIGPVFRNEKHGP-GRFRQFIQCDVDNVGSSA  140 (496)
Q Consensus       101 ~~~~p~k~yy~g~vfR~e~p~~-Gr~REf~Q~g~eiiG~~~  140 (496)
T Consensus       221 ---~-~rVyEI~PiFRAE~~nT~RHl~E~~siDiE~~F~dh  257 (466)
T TIGR00458       221 ---L-ERVYEIGPIFRAEEHNTRRHLNEAISIDIEMAFEDH  257 (466)
T ss_pred             ---C-CCEEEECCEEECCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             ---5-203550552205666521455444442244442753