HHsearch alignment for GI: 254781118 and conserved domain: TIGR00459

>TIGR00459 aspS_bact aspartyl-tRNA synthetase; InterPro: IPR004524 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 . Aspartyl tRNA synthetase 6.1.1.12 from EC is an alpha2 dimer that belongs to class IIb. Structural analysis combined with mutagenesis and enzymology data on the yeast enzyme point to a tRNA binding process that starts by a recognition event between the tRNA anticodon loop and the synthetase anticodon binding module . This family represents aspartyl-tRNA synthetases from the bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). ; GO: 0000166 nucleotide binding, 0004815 aspartate-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006422 aspartyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=100.00  E-value=0  Score=859.28  Aligned_cols=446  Identities=27%  Similarity=0.468  Sum_probs=355.2

Q ss_pred             CCCC-CCHHHHHHHHCCCCCCCCCCCEEEEEEEEC-CCCCCC---CEEEEECCCC-EEEEEEECCCCCHHHHHHHHHCCC
Q ss_conf             6788-859999986515555643598899986881-114877---2189977993-599998054279678888742374
Q gi|254781118|r   37 FHRD-ITNAEVREKYSHLQNDEKSQDMITVAGRVY-SSRNSG---MFMDIHDASG-KIQIFTHKDTADQDSQNLLSMIDI  110 (502)
Q Consensus        37 f~~t-~~~~e~~~~~~~l~~~~~~~~~V~i~Grv~-~~R~~G---~Fi~LrD~~g-~iQv~~~~~~~~~~~~~~~~~l~~  110 (502)
T Consensus         1 F~r~t~~cg~l~~--------~~~G~~Vtl~GWv~qr~rdlG~nliFidlRD~~GdivQv~~~p~~~-~~a~~~a~~lr~   71 (653)
T TIGR00459         1 FMRTTHYCGQLSE--------KHLGKTVTLAGWVKQRRRDLGGNLIFIDLRDRSGDIVQVVCDPDVS-KDALELAKGLRN   71 (653)
T ss_pred             CCCCEEEECCCCC--------CCCCCEEEEEEEEECCCCCCCCCEEEEEEECCCCCEEEEEECCCCC-HHHHHHHHHCCC
T ss_conf             9863045013430--------1168779998543134011588179998625888889998677567-889999973355


Q ss_pred             CEEEEEEEEEECC---------CCCCCCCCCCEEEEEC-CCCCCCCCCC--CCCCH---HHHHHHCCCHHHHHHHHHHHH
Q ss_conf             3168996576305---------6655342122012211-3555432221--25311---445420110012344444335
Q gi|254781118|r  111 GDIIGITGQVRRT---------KRGELTVNAQKIIMLS-KALNSIPETY--YGLSD---VEIRYRKRYLDIISNSDSKIR  175 (502)
Q Consensus       111 gd~i~v~G~v~~~---------~~gelei~~~~~~~l~-~~~~~lP~~~--~~~~d---~e~rl~~R~LDl~~~~~~~~~  175 (502)
T Consensus        72 E~vv~v~G~v~~R~~~~~~~~l~tg~~Ei~~~~i~~~NG~s~~~P~~~~Df~~~a~e~~EDvRLkYRYLDLRr-p~~~~~  150 (653)
T TIGR00459        72 EDVVQVKGKVSARPEGSINRNLDTGEIEILAEEITLLNGKSKTPPLIIEDFKTDAEEEREDVRLKYRYLDLRR-PEMQQR  150 (653)
T ss_pred             CEEEEEEEEEEECCCCCCCCCCCCCEEEEECCCEEEEECCCCCCCCEEECCCCCCCCCCCCCCCCCCCHHHCC-HHHHHH
T ss_conf             2289999999865853446556763488981862686121268794032352000001016661002222048-789999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCC----CCCCC-CCHHHHHHHHHHHCCCCCHHHHH
Q ss_conf             78899999999873855345431156532356665542036412222----25432-10012234444210243024543
Q gi|254781118|r  176 FQQRSLLISQIRHFMEKKGFMEVETPILQPIYGGATADPFKTHHNIL----KADMY-LRIAPELYLKRVLISGLTDQVFE  250 (502)
Q Consensus       176 l~~Rs~i~~~iR~~l~~~gF~EveTP~L~~~~~g~~~~~F~~~~~~~----~~~~y-L~qSpql~~k~l~~~G~~drvfe  250 (502)
T Consensus       151 L~lR~~v~~~~Rn~l~~~gFleiETP~LtKsTPEGARD-yLVPsRv~rsdG~g~FYALpQSPQlfKQLLMvsG~-drYyQ  228 (653)
T TIGR00459       151 LKLRHKVTKAVRNFLDQQGFLEIETPILTKSTPEGARD-YLVPSRVHRSDGKGEFYALPQSPQLFKQLLMVSGV-DRYYQ  228 (653)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCHHH-CCCCCCCCCCCCCCCEECCCCCHHHHHHHHHHCCC-CCCEE
T ss_conf             86688989999866642787065067777888431101-57755300368588451468975689998751255-53135


Q ss_pred             HHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCC-------CC---C----------------
Q ss_conf             453202542344324521000100110001112456789999889987088-------61---3----------------
Q gi|254781118|r  251 LNRNFRNEGVSSRHNPEFTMIEAYWAYTDYRDMMKLVEDLCHNLAKTLHGT-------TD---I----------------  304 (502)
Q Consensus       251 I~~~FR~E~~~~~H~pEFt~lE~e~a~~d~~dim~l~E~li~~i~~~~~~~-------~~---~----------------  304 (502)
T Consensus       229 IArCFRDEDLRADRQPEFTQiD~E~SF~~~~~vm~l~E~l~~~vf~~v~~krGl~~L~~~GtlfP~kkenGtvsifrmty  308 (653)
T TIGR00459       229 IARCFRDEDLRADRQPEFTQIDMEMSFMTQEDVMDLIEKLVSGVFKEVKGKRGLIDLKKPGTLFPVKKENGTVSIFRMTY  308 (653)
T ss_pred             EEEEECCCCCCCCCCCCCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCEEEEECCCCEEEEEECCH
T ss_conf             78897662566657787324426311289356899999999999999707851375078852411221676079985567


Q ss_pred             -----CCCCEEECCCCCCCEEEEECCCC-----CCCCCCC----------------C------CCCCHHHHH---HHHHH
Q ss_conf             -----11753411332210000000233-----4488621----------------5------433216777---65652
Q gi|254781118|r  305 -----PFGEKVISFKAPFACKSMLQLVK-----EATGLDF----------------M------LLKSDQEAR---VAAQS  349 (502)
Q Consensus       305 -----~~~~~~~d~~~~f~~~~~~e~i~-----~~~g~~~----------------~------~~~~~e~~~---~~~~~  349 (502)
T Consensus       309 ~EAm~~yGsDKPDLR~~~el~dv~d~f~afshld~~F~vF~~~~~~P~g~v~~i~v~~~~~~ls~~~i~~l~~~~~~a~~  388 (653)
T TIGR00459       309 QEAMERYGSDKPDLRFGLELIDVSDLFKAFSHLDSEFKVFSNLINAPGGRVKAIRVKGGDAELSRKSIKELRVLIKFAKE  388 (653)
T ss_pred             HHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCEEEEEECCCCCCCCCHHHHHHHCHHHHHHHH
T ss_conf             99986167768778888346777667777664067534579998488855775772786422550212220114456766


Q ss_pred             HC---------------------------------------------C-C--CCCC-------CCHH--HHHHHHHHH--
Q ss_conf             02---------------------------------------------3-5--4332-------2318--999887652--
Q gi|254781118|r  350 IG---------------------------------------------I-T--VEND-------ALWG--EVMMTIFEE--  370 (502)
Q Consensus       350 ~g---------------------------------------------~-~--~~~~-------~~~g--~l~~~~~e~--  370 (502)
T Consensus       389 ~GakGlAy~~v~~~~~~~~~~~~~i~kfL~~~~~~~~~~~t~a~~gdillnPfg~~~l~~~v~~~lgGkalRl~l~~~l~  468 (653)
T TIGR00459       389 YGAKGLAYLKVNEDAEGLEEVKSPIKKFLDEKKLKKLLERTDAQEGDILLNPFGAGDLKKIVLDALGGKALRLKLGKDLG  468 (653)
T ss_pred             CCCCEEEEEEEECCCCCCCCCCCHHHHCCCHHHHHHHHHHHHCCCCCEEECCCCCHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_conf             58631566565216741024531012024735778899874212687865577860589999985041688999876530


Q ss_pred             --CCCHHEECCEEEEC---------CCH------------HHHHHHCCCCCC---------HHHEEECCEEECCEEEEEC
Q ss_conf             --13010105435655---------800------------234530357967---------2110111355557872002
Q gi|254781118|r  371 --KIEKNIVNPTHITD---------FPK------------DISPFAKEVAGE---------KRLVERFETYCNGWEICNA  418 (502)
Q Consensus       371 --~ie~~~~~p~fI~d---------fP~------------~~~Pf~~~~~~~---------~~~~~~fdl~~~G~Ei~~G  418 (502)
T Consensus       469 sWL~d~~~~~flWv~DksGkkeklaFP~fE~d~~E~~~~a~HHpFT~Pk~~~~~~lE~~p~~a~a~aYDlVlNG~ElGGG  548 (653)
T TIGR00459       469 SWLVDPDAFSFLWVVDKSGKKEKLAFPLFEKDEEEGRLVAAHHPFTMPKPEDLEDLETAPEEALAEAYDLVLNGVELGGG  548 (653)
T ss_pred             CCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCHHHHHCCHHHHHHHCCCEEEEEEEECCC
T ss_conf             00235231471789837887023427656677652755840578898751227877407455412028768830698871


Q ss_pred             HHEECCHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCCCEECCHHHHHHHHCCCCCCEECCCCCCCCCCCCC
Q ss_conf             11005799999999999988730573354508999997608698461324689998998262884041278675766765
Q gi|254781118|r  419 FSELNDPVEQRIRMEQQVEQSHQRGEHTILDEDFLDAMTYGMPPASGLGLGIDRLIMLLTNAPSIRDVILFPAQRVKNGS  498 (502)
Q Consensus       419 ~~e~~dp~~q~~r~~~~~~~~~~~~~~~~~~~~yl~a~~yG~PPhgG~glGldRL~m~l~g~~~IRdvi~FP~~k~~~~~  498 (502)
T Consensus       549 SiRIh~~~~Q~~~F~d~Lgid~ee--a~EkFGFLLeA~~yGaPPHgG~A~GlDRL~Mll~~~~nIRDVIAFP--Kt~~a~  624 (653)
T TIGR00459       549 SIRIHDPEVQEKVFEDILGIDPEE--AREKFGFLLEAFKYGAPPHGGLALGLDRLVMLLTGTDNIRDVIAFP--KTAQAS  624 (653)
T ss_pred             EEEECCHHHHHHHHHHHHCCCHHH--HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCEECCCC--CCCCHH
T ss_conf             046428789999998762889899--8776356875873576851015555899999980899722001788--760124