HHsearch alignment for GI: 254781066 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=535.94  Aligned_cols=316  Identities=21%  Similarity=0.277  Sum_probs=225.5

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCEE-CCCCCCCCCCCEEEECCCC-CCCCCCCC-CCCCHHHHHHHHHHHHHHHH
Q ss_conf             999999999999999998798898478210-5689854454124102478-86783200-00285899998987446889
Q gi|254781066|r   21 FLLKRNMIQSSLREYFVENQFIEIDSMSLQ-YSPGNETHIRAFSTELIIQ-DHIRKPLY-LQTSPEFSCKKLLAAGEEKI   97 (355)
Q Consensus        21 ~l~~Rs~i~~~iR~ff~~~gF~EV~TPiL~-~~~~g~~~~~~f~t~~~~~-~~~~~~~y-L~~SPql~lK~ll~~G~~rv   97 (355)
T Consensus       150 ~L~lR~~v~~~~Rn~l~~~gFleiETP~LtKsTPEG---ARDyLVPsRv~rsdG~g~FYALpQSPQlfKQLLMvsG~drY  226 (653)
T TIGR00459       150 RLKLRHKVTKAVRNFLDQQGFLEIETPILTKSTPEG---ARDYLVPSRVHRSDGKGEFYALPQSPQLFKQLLMVSGVDRY  226 (653)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCC---HHHCCCCCCCCCCCCCCCEECCCCCHHHHHHHHHHCCCCCC
T ss_conf             986688989999866642787065067777888431---10157755300368588451468975689998751255531


Q ss_pred             HHHHHHHCCCCC--CCCCCCCEEEECEEECCCCHHHHHHHHHHHHHHHHHHHCCCEECCCCCCCCCCCC---CCC-----
Q ss_conf             998864245677--7544843002000115776578777557888776664188300022343324677---320-----
Q gi|254781066|r   98 FCFAHAWRNGEQ--GCLHQPEFTMLEWYRAHESYEQLMKDCMNIIRCAAEVANQKIFSFQNVNCNPFSE---PEY-----  167 (355)
Q Consensus        98 yqig~~FRaE~~--~~rHlpEFtmLE~e~af~d~~dlm~~~E~li~~~~~~~~~~~~~~~~~~~~~~~~---~~~-----  167 (355)
T Consensus       227 yQIArCFRDEDLRADRQ--PEFTQiD~E~SF~~~~~vm~l~E~l~~~vf~~v~~k-----rGl~~L~~~GtlfP~kkenG  299 (653)
T TIGR00459       227 YQIARCFRDEDLRADRQ--PEFTQIDMEMSFMTQEDVMDLIEKLVSGVFKEVKGK-----RGLIDLKKPGTLFPVKKENG  299 (653)
T ss_pred             EEEEEEECCCCCCCCCC--CCCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCC-----CCEEEECCCCCEEEEECCCC
T ss_conf             35788976625666577--873244263112893568999999999999997078-----51375078852411221676


Q ss_pred             ------CCHHHHHHHHCCCCCCCCCCCCC--------------------------------------------CCCHHHH
Q ss_conf             ------78888656660876532345556--------------------------------------------2327999
Q gi|254781066|r  168 ------ITVAEAFARYANIDLGTTLDNPD--------------------------------------------QPDRHLL  197 (355)
Q Consensus       168 ------i~~~e~~~~~~~~d~~~~~~~~~--------------------------------------------~~~~~~~  197 (355)
T Consensus       300 tvsifrmty~EAm~~yGsDKPDLR~~~el~dv~d~f~afshld~~F~vF~~~~~~P~g~v~~i~v~~~~~~ls~~~i~~l  379 (653)
T TIGR00459       300 TVSIFRMTYQEAMERYGSDKPDLRFGLELIDVSDLFKAFSHLDSEFKVFSNLINAPGGRVKAIRVKGGDAELSRKSIKEL  379 (653)
T ss_pred             EEEEEECCHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCEEEEEECCCCCCCCCHHHHHHH
T ss_conf             07998556799986167768778888346777667777664067534579998488855775772786422550212220


Q ss_pred             H---HHHHHCCCCC-----------------------------------------------CCCCC-HHHHHHHHHH---
Q ss_conf             9---9999768877-----------------------------------------------87653-4789876643---
Q gi|254781066|r  198 Y---LQAQQAGIRV-----------------------------------------------AHDDT-WSDIFSRILI---  223 (355)
Q Consensus       198 ~---~~~~~~~~~~-----------------------------------------------~~~~~-~~~~~~~l~~---  223 (355)
T Consensus       380 ~~~~~~a~~~GakGlAy~~v~~~~~~~~~~~~~i~kfL~~~~~~~~~~~t~a~~gdillnPfg~~~l~~~v~~~lgGkal  459 (653)
T TIGR00459       380 RVLIKFAKEYGAKGLAYLKVNEDAEGLEEVKSPIKKFLDEKKLKKLLERTDAQEGDILLNPFGAGDLKKIVLDALGGKAL  459 (653)
T ss_pred             CHHHHHHHHCCCCEEEEEEEECCCCCCCCCCCHHHHCCCHHHHHHHHHHHHCCCCCEEECCCCCHHHHHHHHHHHCCHHH
T ss_conf             11445676658631566565216741024531012024735778899874212687865577860589999985041688


Q ss_pred             -CEECCCCC--C-----CCCCCCCC---------CCHH------------HHHHCCCCCCCC---------CCCCCCEEE
Q ss_conf             -00362237--6-----75443257---------6888------------864136787783---------633022022
Q gi|254781066|r  224 -EKIEPNLG--I-----NCCTILDR---------YPAP------------ESALANIYPADP---------RFTKRFELY  265 (355)
Q Consensus       224 -~~ie~~l~--~-----~~pvfi~~---------yP~~------------~~plak~~~~~~---------~va~rfdl~  265 (355)
T Consensus       460 Rl~l~~~l~sWL~d~~~~~flWv~DksGkkeklaFP~fE~d~~E~~~~a~HHpFT~Pk~~~~~~lE~~p~~a~a~aYDlV  539 (653)
T TIGR00459       460 RLKLGKDLGSWLVDPDAFSFLWVVDKSGKKEKLAFPLFEKDEEEGRLVAAHHPFTMPKPEDLEDLETAPEEALAEAYDLV  539 (653)
T ss_pred             HHHHHHHHHCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCHHHHHCCHHHHHHHCCCEE
T ss_conf             99987653000235231471789837887023427656677652755840578898751227877407455412028768


Q ss_pred             ECCEECCCCCHHCCCHHHHHHHHHHHHHHHHCCCCC-CCHHHHHHHHHH-CCCCCCCEEECCHHHHHHHHHCCCCHHHHC
Q ss_conf             367122564021069999999999999999728885-301018999986-188963245315999989981559713111
Q gi|254781066|r  266 ACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNE-TYPIDEDFLACL-TEMPQSSGIAMGFDRLVMLVTGANNINEVI  343 (355)
Q Consensus       266 i~G~El~ng~~El~d~~~q~~rf~~q~~~k~~~~~e-~~~~D~~fl~al-~G~PPhgG~glGidRLvm~l~g~~~Irdvi  343 (355)
T Consensus       540 lNG~ElGGGSiRIh~~~~Q~~~F~d~L----gid~eea~EkFGFLLeA~~yGaPPHgG~A~GlDRL~Mll~~~~nIRDVI  615 (653)
T TIGR00459       540 LNGVELGGGSIRIHDPEVQEKVFEDIL----GIDPEEAREKFGFLLEAFKYGAPPHGGLALGLDRLVMLLTGTDNIRDVI  615 (653)
T ss_pred             EEEEEECCCEEEECCHHHHHHHHHHHH----CCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCEEC
T ss_conf             830698871046428789999998762----8898998776356875873576851015555899999980899722001


Q ss_pred             CCCCCCC
Q ss_conf             5856487
Q gi|254781066|r  344 WTPFSQS  350 (355)
Q Consensus       344 ~FP~~r~  350 (355)
T Consensus       616 AFPKt~~  622 (653)
T TIGR00459       616 AFPKTAQ  622 (653)
T ss_pred             CCCCCCC
T ss_conf             7887601