HHsearch alignment for GI: 254781031 and conserved domain: TIGR02432
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase; InterPro: IPR012795 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 . The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This domain is found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain architecture of this protein is variable; some, including characterised proteins of Escherichia coli and Bacillus subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family. It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).; GO: 0000166 nucleotide binding, 0005524 ATP binding, 0016879 ligase activity forming carbon-nitrogen bonds, 0008033 tRNA processing, 0005737 cytoplasm.
Probab=99.23 E-value=1.9e-10 Score=83.81 Aligned_cols=164 Identities=18% Similarity=0.132 Sum_probs=92.6
Q ss_pred CEEEEEECCHHHHHHHHHHHHC----CCE-------EEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEE
Q ss_conf 4899980965699999999974----983-------99999767788777279999999999999888752035615875
Q gi|254781031|r 10 SALLLFSGGQDSSTCLSWALDR----FDR-------VETLSFDYGQRNKVELECRLCVRKKIVELMPKWKDSLGEDHILP 78 (240)
Q Consensus 10 ~av~l~SGGlDS~~~l~~l~~~----~~~-------v~~i~~~ygq~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (240)
T Consensus 1 ~~lvAvSGG~DS~aLL~~L~~~~~~~~~~~~~~~~~~~a~h~nH~lR~~s~~~~~~----~v~~~c~~~---~~~~~~~~ 73 (204)
T TIGR02432 1 KILVAVSGGVDSMALLHLLLKLQPKLKISWQIKDFKLIAAHVNHGLRPESAQEEAE----FVQQFCEKL---NIPLEIKK 73 (204)
T ss_pred CEEEEEECCHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEEECCCCHHHHHHHHH----HHHHHHHHC---CCCEEEEE
T ss_conf 97888628642799999999976632787788750689999617788415899999----999999961---89569984
Q ss_pred CHHHCCCCCCCCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCC-CCEEECCCCCCCCCC------CCCCCHHHH
Q ss_conf 0110322444332220110001233101111111223337777774339-936511454444345------554430247
Q gi|254781031|r 79 LAILGDISHSSLTKNVAMKIQDNNLPNTFVPGRNIIFLVFAATLAYRLG-ITNIVIGVCETDYSG------YPDCRHDTI 151 (240)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~g-~~~i~~~~~~~~~~~------~~~~~~~~~ 151 (240)
T Consensus 74 ~~~~~~~~~~~~----------~~~E~~AR~~RY~~f----~~~~~~~~~~~~i~tAHh~dDq~ET~L~rL~RG~~~~Gl 139 (204)
T TIGR02432 74 LVDVKALAKGKK----------KNLEEAAREARYAFF----EEIAKKHGKADYILTAHHADDQAETILMRLLRGSGLRGL 139 (204)
T ss_pred EECCCCCCCCCC----------CCHHHHHHHHHHHHH----HHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCHH
T ss_conf 212411012247----------677899999999999----999997299408997248322799999987516870001
Q ss_pred HHHHHHHHHC---CCCCEEEEEEECCCCHHHHHHHHHHHCCCHHCC
Q ss_conf 7777677530---643216775313898899999999828200014
Q gi|254781031|r 152 RAIETAINLG---MESHVTVHTPLMWLKKYETWKLAQDIGGQDLVN 194 (240)
Q Consensus 152 ~~~~~~~~~~---~~~~~~i~~P~~~~tK~eI~~~~~~~~~~~~~~ 194 (240)
T Consensus 140 ~g~~~~~~~~~~g~~~~~~~~RPLL~~~k~ei~~y~~~~~l~~~eD 185 (204)
T TIGR02432 140 SGMPEIRPLGSLGWYKGGQIIRPLLNISKSEIEEYLKENGLPYFED 185 (204)
T ss_pred HHHCCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHCCCCEEEC
T ss_conf 1101336633244225632770775677899999999668965657