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