HHsearch alignment for GI: 254780680 and conserved domain: TIGR00409

>TIGR00409 proS_fam_II prolyl-tRNA synthetase; InterPro: IPR004500 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 . Prolyl-tRNA synthetase (6.1.1.15 from EC) exists in two forms, which are loosely related. The first form, is present in the majority of eubacteria species. The second one, present in some eubacteria, is essentially present in archaea and eukaryota. Prolyl-tRNA synthetase belongs to class IIa. This family includes the enzyme from Escherichia coli that contains all three of the conserved consensus motifs characteristic of class II aminoacyl-tRNA synthetases and the enzyme from the spirochete Borrelia burgdorferi.; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=91.27  E-value=0.52  Score=28.25  Aligned_cols=70  Identities=24%  Similarity=0.369  Sum_probs=60.1

Q ss_pred             CCEEEEEEECCCCCHHHHHCCCEEECCCCCCCC-EEEEECCCHHHHHHHHHHHHHHCCCCCCCEECCCCCCCCC
Q ss_conf             833237531021007645326847338998410-1042004322899999999883468998386582223101
Q gi|254780680|r  345 NLYREISSCSTCGNFQSRRMNSRYRDPNSKSLK-FTHTLNGSGVAVGRCLIAILENYLNADGSVTIPTVLRPYM  417 (430)
Q Consensus       345 ~~y~Ev~S~Snc~D~QsrRl~iry~~~~~~~~~-~~htlNgt~~A~~R~l~ailEn~q~~dg~i~iP~~L~pym  417 (430)
T Consensus       449 ~~gIEVGHIF~LG~kYS~al~A~f~de~Gk~-~t~~~M-GCYGIGVSRl~~Ai~Eq~~D~~G-~~WP~~~APy~  519 (620)
T TIGR00409       449 AKGIEVGHIFKLGTKYSKALKATFLDENGKE-QTFLTM-GCYGIGVSRLVSAIAEQHYDERG-IIWPKAIAPYD  519 (620)
T ss_pred             CCCCEEEEEECCCHHHHHHHCCEEECCCCCC-CCEEEC-CCCCCHHHHHHHHHHHHCCCCCC-CCCCCCCCCCE
T ss_conf             0562341133022033333065564668850-252560-55571389999999985058786-36764538814