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