HHsearch alignment for GI: 254780933 and conserved domain: TIGR00435

>TIGR00435 cysS cysteinyl-tRNA synthetase; InterPro: IPR002308 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 . Cysteinyl-tRNA synthetase (6.1.1.16 from EC) is an alpha monomer and belongs to class Ia.; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=96.21  E-value=0.0019  Score=43.65  Aligned_cols=46  Identities=22%  Similarity=0.315  Sum_probs=39.8

Q ss_pred             EEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHH-CCCCCCCCCCCC
Q ss_conf             0899728449999865437889677999998767-089835677881
Q gi|254780933|r   38 VFCIAMPPPNVTGSLHMGHAFNTTIQDIMIRFER-MRGKNVLWQPGT   83 (947)
Q Consensus        38 ~f~~~~ppP~~nG~lHiGH~~~~t~~Di~~Ry~r-m~G~~Vl~~~G~   83 (947)
T Consensus        22 ~V~~Y~CGpTVYd~~HiGhaR~~i~fD~~~R~L~d~~GY~V~yV~Ni   68 (660)
T TIGR00435        22 KVKMYVCGPTVYDYAHIGHARTAIVFDVLRRYLEDYLGYEVQYVQNI   68 (660)
T ss_pred             EEEEEEECCHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCEEEEEEEE
T ss_conf             66799707317621030346630257888999988758867888643