>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=359.76 Aligned_cols=379 Identities=22% Similarity=0.289 Sum_probs=279.5 Q ss_pred CCEEEEECCHHHHHHHHHHHHHHHH--HCC-CEEEECCCCCCCCCCCCCCCCCCCCCCCCEEECCCCC------------ Q ss_conf 7435650107899999999999887--689-6385554324431000112100125554201001456------------ Q gi|254781004|r 263 SGVIFWHRKGWKIFQTLISYMRRKI--KDD-YEEINTPQVLDQHLWQQSGHWDSYRANMFAVKCADDT------------ 327 (652) Q Consensus 263 ~G~~~wlP~G~~i~~~ie~~ir~~~--~~G-~~eV~tP~l~~~~Lw~~SGh~~~y~~~mf~~~~~~~~------------ 327 (652) T Consensus 27 aG~~DyGPLG~~Lk~~I~~~wr~~fi~~e~d~~~id~P~i~~~evlKASGHvd~F~D~~v~Ck~C~~~fRADHl~e~~~~ 106 (606) T TIGR00389 27 AGFWDYGPLGAVLKNNIKNAWRKFFIINERDVLEIDSPIITPEEVLKASGHVDNFTDPMVDCKKCKERFRADHLIEEKLG 106 (606) T ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCHHHHHHCCCCCCCCCCEEECCCCCCEECHHHHHHHHHH T ss_conf 20010157247899999998887511103653464245337257997528645673122673788804010123256651 Q ss_pred --CCC----------------------------------------------------------------------CCEEE Q ss_conf --777----------------------------------------------------------------------82377 Q gi|254781004|r 328 --IKD----------------------------------------------------------------------LRTFA 335 (652) Q Consensus 328 --~~~----------------------------------------------------------------------~~~~~ 335 (652) T Consensus 107 ~~~~~dqqiK~V~~~D~K~~E~iL~~iDG~~~~eL~E~m~~~~i~CP~C~g~~nl~~v~~FNLMF~T~IG~~~~~~~~gY 186 (606) T TIGR00389 107 KDVEGDQQIKDVKLDDVKEYEKILAKIDGETGPELKEVMEKYDINCPNCGGENNLTEVRSFNLMFQTEIGVVGDSKRKGY 186 (606) T ss_pred HHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHCCCCCEEEECCCCCCCCEEE T ss_conf 00047610012685457779989755078711567877634278898223545613501204541102113347762241 Q ss_pred ECCCCHHHHHHHHHHCCCCHH-HCCHHHHHHEEEECCCCCCCCEEEEECCCCCCCCCEEECCH-HHHHHHHHHHHHHHHH Q ss_conf 434312577776520122223-10432000100012787645200010563533442101053-7678878999999887 Q gi|254781004|r 336 LKPMNCPGHVAVFNHGLKSYR-ELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVFCTK-EQMFNECLKIHNLIIS 413 (652) Q Consensus 336 LkPmncp~h~~i~~~~~~SYr-dLPlrl~e~~~~~R~E~sg~l~GL~R~ReF~~~Dah~F~~~-eq~~~e~~~~~~~~~~ 413 (652) T Consensus 187 LRPETAQG~FinFk~LL~~~r~klPFgvAQiGKSfRNEIsP-r~gl~R~REF~QaE~E~FV~P~~k~h~~F~~~~~~~~~ 265 (606) T TIGR00389 187 LRPETAQGIFINFKRLLQFFRNKLPFGVAQIGKSFRNEISP-RQGLIRLREFEQAEIEFFVDPEDKSHPKFEEVKQEVVP 265 (606) T ss_pred CCCHHCCCCCHHHHHHHHHHCCCCCEEEEEECCEEECCCCC-CCCEEEECHHHHHHHHHCCCCCCCCCCCHHHHHHCCCC T ss_conf 47601047512168999974589964899744136040038-98757103154466874259600167200145405001 Q ss_pred HHHHH------C--CCCCEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHC-CCCCCCCCCCCCCCCCCCCCCC-CCCCH Q ss_conf 66552------1--3321000146531125860357789999999998502-1212566752055555545543-21100 Q gi|254781004|r 414 IYKDF------G--FEKIMVKLSTRPEKRVGSDALWDDAENIMKGVLDTIK-NSSQDRINTGVLLGEGAFYGPK-FEYIL 483 (652) Q Consensus 414 v~~~~------g--~~~~~~~ls~~~~~~~g~~~~~~~ae~~l~~~l~~~~-~~~~~~~~~~~~~g~~afygpk-id~~~ 483 (652) T Consensus 266 Llp~~R~~~E~g~~~~~v~~t~gEAVe~G~i~ne~L~YFia~~~~FL~~igkI~~dklRFrqH~~~E~AHYA~dcwD~E~ 345 (606) T TIGR00389 266 LLPAERQMQESGESEKPVKMTIGEAVEKGIIENETLAYFIALVKRFLLEIGKINPDKLRFRQHLKNEMAHYAKDCWDAEI 345 (606) T ss_pred CCCCCCCCHHCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHEEEEE T ss_conf 36764540001576405444178886346521006899999999999865278878852331360045565553623556 Q ss_pred HHH-CCCCCCCC-------------------------------------------------------------------- Q ss_conf 211-03310012-------------------------------------------------------------------- Q gi|254781004|r 484 KDA-IGRDWQCG-------------------------------------------------------------------- 494 (652) Q Consensus 484 ~d~-~gr~~~~~-------------------------------------------------------------------- 494 (652) T Consensus 346 ~t~~yGwiE~~GiADR~~yDL~~Hsk~s~~~L~Vf~~~DeP~~~~~~~i~~~~k~~G~~FrkdAk~ies~L~~lse~dl~ 425 (606) T TIGR00389 346 LTSRYGWIEVVGIADRTDYDLTQHSKFSGKDLSVFQELDEPREVTKREIELNKKKLGPKFRKDAKKIESALENLSEDDLE 425 (606) T ss_pred ECCCCCCEEEEEEECCCCCCHHHHHHHHCCCCEEEECCCCCEEEEEEEEEEECCCCCCHHHCHHHHHHHHHHHCCHHHHH T ss_conf 65798738998740677221688999849896163057887257788987301346843201178999999732874789 Q ss_pred ------------CCCHHH---H-CCCCCCCE--EEEECCCEEEEEEEEECCCHHHHHHHHHHHHHH-------C-----C Q ss_conf ------------110111---0-22346741--673179721379964034103789999999973-------8-----7 Q gi|254781004|r 495 ------------TIQVDF---N-LPSRFNAF--YVNSHSEKCHPVMIHRAVFGSIERFIGIMIENF-------K-----G 544 (652) Q Consensus 495 ------------tiq~df---~-~p~~f~l~--y~~~dg~~~~pvmihr~~~Gs~eR~ia~liE~~-------~-----g 544 (652) T Consensus 426 ~~~~~l~~~G~f~~~~dG~~ve~~~~~v~i~~~~~v~~~ek~iP~VI-EPS~G-i~Ri~Y~~l~hsy~~~~~d~e~R~vL 503 (606) T TIGR00389 426 EVEKELDEEGKFIIEVDGKEVEILKDLVEIKEVEEVVTGEKYIPHVI-EPSFG-IDRIIYSLLEHSYQEEVLDGEEREVL 503 (606) T ss_pred HHHHHHHCCCEEEEEECCEEEEECHHHEEEEEEEEEEEEEEEECCEE-ECCCH-HHHHHHHHHHHHHCCCCCCCCCEEEE T ss_conf 99998634986999985818987121242666678885348806076-16750-37899999987432351027861374 Q ss_pred CCCCCCCCEEEEEEECC--HHHHHHHHHHHHHHHHCCCEEEEECCCCCCCHHHHHHHHCCCCEEEEECHHHHHCCCEEEE Q ss_conf 08873378089998579--6689999999999998798899975896636766655434898899987425325818999 Q gi|254781004|r 545 NLPLWLSPIQAIVTTIT--SSAVEYAQEIANLLKSHHLSIETDFRNETINYKIREHSIKKIPIIIICGDKEASERSIGIR 622 (652) Q Consensus 545 ~~P~wLAP~QV~Iipi~--e~~~eya~~i~~~L~~~girV~~Ddr~~~~G~Kir~a~l~giP~~ivIG~ke~e~~~Vtir 622 (652) T Consensus 504 ~Lp~~~aP~kv~VlPLvnk~~l~~~a~~i~~~Lr~~~i~~~~DdSG~SIGkRYrR~DEIGtPF~vT~DfetlED~tVT~R 583 (606) T TIGR00389 504 RLPPHVAPIKVAVLPLVNKEELKEIAKEIEQALRKSGIIIEYDDSGTSIGKRYRRADEIGTPFCVTVDFETLEDETVTIR 583 (606) T ss_pred ECCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHCCCCCCCCCEEEECCCCCCCCEEEEE T ss_conf 15866285679996311565407899999999862697699877898610031014436887158742531107646773 Q ss_pred ECCCCCEEEECHHHHHHHHHHH Q ss_conf 8898866334299999999873 Q gi|254781004|r 623 RFGSTTTQKVSLLDAIPILTKE 644 (652) Q Consensus 623 ~R~~~~~~~i~lee~i~~l~~e 644 (652) T Consensus 584 eRds~~QvRv~I~eL~~~~~~~ 605 (606) T TIGR00389 584 ERDSLKQVRVKIEELVSYLKKL 605 (606) T ss_pred ECCCCEEEEEEHHHHHHHHHHC T ss_conf 0788404536634389999860

HHsearch alignment for GI: 254781004 and conserved domain: TIGR00389