>TIGR00389 glyS_dimeric glycyl-tRNA synthetase; InterPro: IPR002315 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 . In eubacteria, glycyl-tRNA synthetase (6.1.1.14 from EC) is an alpha2/beta2 tetramer composed of 2 different subunits , , . In some eubacteria, in archaea and eukaryota, glycyl-tRNA synthetase is an alpha2 dimer, this family. It belongs to class IIc and is one of the most complex synthetases. What is most interesting is the lack of similarity between the two types: divergence at the sequence level is so great that it is impossible to infer descent from common genes. The alpha (see IPR002310 from INTERPRO) and beta subunits (see IPR002311 from INTERPRO) also lack significant sequence similarity. However, they are translated from a single mRNA , and a single chain glycyl-tRNA synthetase from Chlamydia trachomatis has been found to have significant similarity with both domains, suggesting divergence from a single polypeptide chain . The sequence and crystal structure of the homodimeric glycyl-tRNA synthetase from Thermus thermophilus, shows that each monomer consists of an active site strongly resembling that of the aspartyl and seryl enzymes, a C-terminal anticodon recognition domain of 100 residues and a third domain unusually inserted between motifs 1 and 2 almost certainly interacting with the acceptor arm of tRNA(Gly). The C-terminal domain has a novel five-stranded parallel-antiparallel beta-sheet structure with three surrounding helices. The active site residues most probably responsible for substrate recognition, in particular in the Gly binding pocket, can be identified by inference from aspartyl-tRNA synthetase due to the conserved nature of the class II active site , .; GO: 0000166 nucleotide binding, 0004820 glycine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006426 glycyl-tRNA aminoacylation, 0005737 cytoplasm.

Probab=100.00 E-value=0 Score=446.75 Aligned_cols=414 Identities=22% Similarity=0.361 Sum_probs=293.0 Q ss_pred HHHHHCCCEECC------CCCHHCCCCHHHHHHHHHHHHHHHHH-HCC-CEEEECCCCCCHHHHHHCCCCHHHHHHHCCH Q ss_conf 213530320003------88111043169999999999999998-669-8897357512468987719731122221040 Q gi|254780870|r 25 LMLRTGMIHQHS------KGIYSWLPLGQKALDNVNAIIREEQN-RTG-AIEMSVPTLQSADLWVESGRYDSYGKEMLRL 96 (449) Q Consensus 25 ll~~~g~i~~~~------~G~~~~lP~G~~i~~~le~~~r~~~~-~~G-~~ei~tP~l~~~eL~~~SGh~d~~~~em~~~ 96 (449) T Consensus 9 ~lkrrGF~~qSfEiYgG~aG~~DyGPLG~~Lk~~I~~~wr~~fi~~e~d~~~id~P~i~~~evlKASGHvd~F~D~~v~C 88 (606) T TIGR00389 9 LLKRRGFLFQSFEIYGGLAGFWDYGPLGAVLKNNIKNAWRKFFIINERDVLEIDSPIITPEEVLKASGHVDNFTDPMVDC 88 (606) T ss_pred HHHHCCCCCCHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCHHHHHHCCCCCCCCCCEEEC T ss_conf 87760032203777542320010157247899999998887511103653464245337257997528645673122673 Q ss_pred HH------------------CCC--------------------------------------------------------- Q ss_conf 21------------------378--------------------------------------------------------- Q gi|254780870|r 97 AD------------------RND--------------------------------------------------------- 101 (449) Q Consensus 97 ~d------------------~~~--------------------------------------------------------- 101 (449) T Consensus 89 k~C~~~fRADHl~e~~~~~~~~~dqqiK~V~~~D~K~~E~iL~~iDG~~~~eL~E~m~~~~i~CP~C~g~~nl~~v~~FN 168 (606) T TIGR00389 89 KKCKERFRADHLIEEKLGKDVEGDQQIKDVKLDDVKEYEKILAKIDGETGPELKEVMEKYDINCPNCGGENNLTEVRSFN 168 (606) T ss_pred CCCCCEECHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHCC T ss_conf 78880401012325665100047610012685457779989755078711567877634278898223545613501204 Q ss_pred --------------CCCEECCCCCCCCCCCHHHCCCCC-CCCCEEEEECCCCCCCCCCCCCCCCCCEEEEEEECCEECCC Q ss_conf --------------620003455543101100001342-01340264146533456676754345316687404221188 Q gi|254780870|r 102 --------------KAMIYGPTHEEVMTDIFRSHIKSY-RNLPFTFYQIQLKFRDELRPRFGVMRSREFLMKDAYSFDLT 166 (449) Q Consensus 102 --------------~~~~LrP~~~e~~~~i~~~~~~SY-r~LPlr~y~ig~~fR~E~rp~~GL~R~ReF~q~D~~~F~~~ 166 (449) T Consensus 169 LMF~T~IG~~~~~~~~gYLRPETAQG~FinFk~LL~~~r~klPFgvAQiGKSfRNEIsPr~gl~R~REF~QaE~E~F-V~ 247 (606) T TIGR00389 169 LMFQTEIGVVGDSKRKGYLRPETAQGIFINFKRLLQFFRNKLPFGVAQIGKSFRNEISPRQGLIRLREFEQAEIEFF-VD 247 (606) T ss_pred CCCEEEECCCCCCCCEEECCCHHCCCCCHHHHHHHHHHCCCCCEEEEEECCEEECCCCCCCCEEEECHHHHHHHHHC-CC T ss_conf 54110211334776224147601047512168999974589964899744136040038987571031544668742-59 Q ss_pred H-HHHHHHHHHHHHHHHHHHH------HCCCHHHHHH------HCCHHCCCCHHHHH-----HHHCCCC---CCEE-EEC Q ss_conf 6-8879999999998741111------0062012233------11001013113343-----4546867---7014-310 Q gi|254780870|r 167 P-EGSKHSYNKMFVSYLRIFH------RLGLKSIPMR------AESGPIGGDLSHEF-----IVLADTG---ETQV-FCS 224 (449) Q Consensus 167 ~-e~~~~e~~~~~~~~~~i~~------~lgl~~~~v~------~~~~~ig~~~s~e~-----~~~~~~~---e~~~-~~~ 224 (449) T Consensus 248 P~~k~h~~F~~~~~~~~~Llp~~R~~~E~g~~~~~v~~t~gEAVe~G~i~ne~L~YFia~~~~FL~~igkI~~dklRFrq 327 (606) T TIGR00389 248 PEDKSHPKFEEVKQEVVPLLPAERQMQESGESEKPVKMTIGEAVEKGIIENETLAYFIALVKRFLLEIGKINPDKLRFRQ 327 (606) T ss_pred CCCCCCCCHHHHHHCCCCCCCCCCCCHHCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHH T ss_conf 60016720014540500136764540001576405444178886346521006899999999999865278878852331 Q ss_pred CCCCCCCCCHHHCCHHHHHCC-CCCCCCCCCCCCCCHHHCH--------HHHHCCCCCCCEEEEEEEECCCEEECCCCCC Q ss_conf 100347764111220121001-1220001363212011000--------2330358765524321111581442231122 Q gi|254780870|r 225 KDFMDFPIPSENTDFDDIISL-NSIVEQWTAPYAATSDVHN--------EKLFDSLPENKRVSARGIEVGHIFYFGTKYS 295 (449) Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~d~~~--------~~~~d~l~~~~~~~~~~ie~~~~f~lG~~ys 295 (449) T Consensus 328 H~~~E~AHYA~dcwD~E~~t~~yGwiE~~GiADR~~yDL~~Hsk~s~~~L~Vf~~~DeP~~~~~~~i~~~~-k~~G~~Fr 406 (606) T TIGR00389 328 HLKNEMAHYAKDCWDAEILTSRYGWIEVVGIADRTDYDLTQHSKFSGKDLSVFQELDEPREVTKREIELNK-KKLGPKFR 406 (606) T ss_pred CCCHHHHHHHHHHEEEEEECCCCCCEEEEEEECCCCCCHHHHHHHHCCCCEEEECCCCCEEEEEEEEEEEC-CCCCCHHH T ss_conf 36004556555362355665798738998740677221688999849896163057887257788987301-34684320 Q ss_pred CC----------C------------------EEEEEC------------------CCCCCCCCCCCCCCCCCCCCHHHHH Q ss_conf 30----------1------------------158964------------------7777232336663447430023322 Q gi|254780870|r 296 LP----------M------------------SATFKG------------------ADGKDHYVQMGSYGIGAMRVVAAVI 329 (449) Q Consensus 296 ~~----------~------------------~~~~~~------------------~~g~~~~~~~g~~giG~~R~~~all 329 (449) T Consensus 407 kdAk~ies~L~~lse~dl~~~~~~l~~~G~f~~~~dG~~ve~~~~~v~i~~~~~v~~~ek~iP~VIEPS~Gi~Ri~Y~~l 486 (606) T TIGR00389 407 KDAKKIESALENLSEDDLEEVEKELDEEGKFIIEVDGKEVEILKDLVEIKEVEEVVTGEKYIPHVIEPSFGIDRIIYSLL 486 (606) T ss_pred CHHHHHHHHHHHCCHHHHHHHHHHHHCCCEEEEEECCEEEEECHHHEEEEEEEEEEEEEEEECCEEECCCHHHHHHHHHH T ss_conf 11789999997328747899999863498699998581898712124266667888534880607616750378999999 Q ss_pred HCCCCC--------CCCCCCHHHCCCCCEEEECCCCHHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHHHCCCC Q ss_conf 102321--------111136332032110242178879999999999999998698799975897970867878748998 Q gi|254780870|r 330 ESSHDG--------KGIIWPDSVAPFKISLINIKAHDQVCRDACEKIYARLSKVGCDVFWDDMGEQIGSQFAVADLLGFP 401 (449) Q Consensus 330 e~~~d~--------~g~~wP~~iaP~~v~Iipi~~~~~~~~~~A~~i~~~Lr~~Gi~v~~D~r~~~iGkK~~~Ad~~gip 401 (449) T Consensus 487 ~hsy~~~~~d~e~R~vL~Lp~~~aP~kv~VlPLvnk~~-l~~~a~~i~~~Lr~~~i~~~~DdSG~SIGkRYrR~DEIGtP 565 (606) T TIGR00389 487 EHSYQEEVLDGEEREVLRLPPHVAPIKVAVLPLVNKEE-LKEIAKEIEQALRKSGIIIEYDDSGTSIGKRYRRADEIGTP 565 (606) T ss_pred HHHHCCCCCCCCCEEEEECCCCCCCEEEEEEECCCCCC-CHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHCCCCCCCC T ss_conf 87432351027861374158662856799963115654-07899999999862697699877898610031014436887 Q ss_pred EEEEECCCHHHCCEEEEEECCCCCEEEEEHHHHHHHHHHH Q ss_conf 8999862402357189999899978786199999999999 Q gi|254780870|r 402 LQVIVGSKFVSDSKVEIKHRLTGIREDMSLEEVINYASHR 441 (449) Q Consensus 402 ~~iiiG~~el~~~~Vtir~r~tg~q~~v~l~eli~~i~~~ 441 (449) T Consensus 566 F~vT~DfetlED~tVT~ReRds~~QvRv~I~eL~~~~~~~ 605 (606) T TIGR00389 566 FCVTVDFETLEDETVTIRERDSLKQVRVKIEELVSYLKKL 605 (606) T ss_pred CEEEECCCCCCCCEEEEEECCCCEEEEEEHHHHHHHHHHC T ss_conf 1587425311076467730788404536634389999860

HHsearch alignment for GI: 254780870 and conserved domain: TIGR00389