HHsearch alignment for GI: 254780870 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=96.64  E-value=0.0043  Score=38.98  Aligned_cols=91  Identities=21%  Similarity=0.290  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHCCCCHHHHHHHCCHHH-CCCCCCEECCCCCCCCCCCHHHCCCCC
Q ss_conf             9999999999999998669889735751246898771973112222104021-378620003455543101100001342
Q gi|254780870|r   47 QKALDNVNAIIREEQNRTGAIEMSVPTLQSADLWVESGRYDSYGKEMLRLAD-RNDKAMIYGPTHEEVMTDIFRSHIKSY  125 (449)
Q Consensus        47 ~~i~~~le~~~r~~~~~~G~~ei~tP~l~~~eL~~~SGh~d~~~~em~~~~d-~~~~~~~LrP~~~e~~~~i~~~~~~SY  125 (449)
T Consensus       155 F~I~~~~~~~vR~~L~~~~F~Ev~TPKlv~~~---tEG-----Gt~lF~i~YF~~~AfL--------------~QSPQly  212 (466)
T TIGR00458       155 FRIRSEVLESVREFLAEEGFIEVHTPKLVASA---TEG-----GTELFPITYFEREAFL--------------GQSPQLY  212 (466)
T ss_pred             HHHHHHHHHHHHHHHHHCCCEEEECCCEEECC---CCC-----CCCCCEEEEECCCCCC--------------CCCCHHH
T ss_conf             55689999999998730882563076214216---688-----8533201221230001--------------3570356


Q ss_pred             CCC----CE-EEEECCCCCCCCCCCCCCCCCCEEEEEEECC
Q ss_conf             013----40-2641465334566767543453166874042
Q gi|254780870|r  126 RNL----PF-TFYQIQLKFRDELRPRFGVMRSREFLMKDAY  161 (449)
Q Consensus       126 r~L----Pl-r~y~ig~~fR~E~rp~~GL~R~ReF~q~D~~  161 (449)
T Consensus       213 KQ~l~~~g~~rVyEI~PiFRAE~~nT~R--Hl~E~~siDiE  251 (466)
T TIGR00458       213 KQVLMAAGLERVYEIGPIFRAEEHNTRR--HLNEAISIDIE  251 (466)
T ss_pred             HHHHHHCCCCCEEEECCEEECCCCCCHH--HHHHHHHHHHH
T ss_conf             6877652652035505522056665214--55444442244