HHsearch alignment for GI: 254781066 and conserved domain: TIGR00458

>TIGR00458 aspS_arch aspartyl-tRNA synthetase; InterPro: IPR004523 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 eukaryotic cytosol and from the archaea. 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=469.12  Aligned_cols=295  Identities=22%  Similarity=0.290  Sum_probs=239.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCEEEECCCEECC-CCCCCCCCCEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             8999999999999999999879889847821056-898544541241024788678320000285899998987446889
Q gi|254781066|r   19 RPFLLKRNMIQSSLREYFVENQFIEIDSMSLQYS-PGNETHIRAFSTELIIQDHIRKPLYLQTSPEFSCKKLLAAGEEKI   97 (355)
Q Consensus        19 R~~l~~Rs~i~~~iR~ff~~~gF~EV~TPiL~~~-~~g~~~~~~f~t~~~~~~~~~~~~yL~~SPql~lK~ll~~G~~rv   97 (355)
T Consensus       152 ~AIF~I~~~~~~~vR~~L~~~~F~Ev~TPKlv~~~tEGGt-------~lF~i~YF~~~AfL~QSPQlyKQ~l~~~g~~rV  224 (466)
T TIGR00458       152 QAIFRIRSEVLESVREFLAEEGFIEVHTPKLVASATEGGT-------ELFPITYFEREAFLGQSPQLYKQVLMAAGLERV  224 (466)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCEEEECCCEEECCCCCCC-------CCCEEEEECCCCCCCCCCHHHHHHHHHCCCCCE
T ss_conf             2125568999999999873088256307621421668885-------332012212300013570356687765265203


Q ss_pred             HHHHHHHCCCCCCC-CCCCCEEEECEEECCCCH-HHHHHHHHHHHHHHHHHHCCC----------EECCCCCCC-CCCCC
Q ss_conf             99886424567775-448430020001157765-787775578887766641883----------000223433-24677
Q gi|254781066|r   98 FCFAHAWRNGEQGC-LHQPEFTMLEWYRAHESY-EQLMKDCMNIIRCAAEVANQK----------IFSFQNVNC-NPFSE  164 (355)
Q Consensus        98 yqig~~FRaE~~~~-rHlpEFtmLE~e~af~d~-~dlm~~~E~li~~~~~~~~~~----------~~~~~~~~~-~~~~~  164 (355)
T Consensus       225 yEI~PiFRAE~~nT~RHl~E~~siDiE~~F~dhy~~v~d~L~~lv~~~~~dv~~~~~~e~el~r~~~~~~~~~le~P~~~  304 (466)
T TIGR00458       225 YEIGPIFRAEEHNTRRHLNEAISIDIEMAFEDHYEDVMDILEELVVRVFEDVAEKCAKEIELVRKELETLEVKLEVPEEK  304 (466)
T ss_pred             EEECCEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCC
T ss_conf             55055220566652145544444224444275378999999999999999999887888999987521023132488875


Q ss_pred             CCCCCHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCEECCCCCCCCCCCCCC-CCH
Q ss_conf             3207888865666087653234555623279999999976887787653478987664300362237675443257-688
Q gi|254781066|r  165 PEYITVAEAFARYANIDLGTTLDNPDQPDRHLLYLQAQQAGIRVAHDDTWSDIFSRILIEKIEPNLGINCCTILDR-YPA  243 (355)
Q Consensus       165 ~~~i~~~e~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ie~~l~~~~pvfi~~-yP~  243 (355)
T Consensus       305 ~~Rl~Y~Ea~------------------------e~~~~~G~ei~~gEDLs~~a~K~~G~l~re~~--~g~yfI~d~wP~  358 (466)
T TIGR00458       305 FERLTYDEAI------------------------EIANAKGKEIKWGEDLSTEAEKALGKLVREEM--DGLYFITDKWPT  358 (466)
T ss_pred             CCCCCCHHHH------------------------HHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHH--CCCEEEEECCCC
T ss_conf             5532207789------------------------99986597155546654357887647887742--761687405876


Q ss_pred             HHHHHC-CCC-CCCCCCCCCCEEEECCEECCCCCHHCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH-CCCCCCC
Q ss_conf             886413-678-7783633022022367122564021069999999999999999728885301018999986-1889632
Q gi|254781066|r  244 PESALA-NIY-PADPRFTKRFELYACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNETYPIDEDFLACL-TEMPQSS  320 (355)
Q Consensus       244 ~~~pla-k~~-~~~~~va~rfdl~i~G~El~ng~~El~d~~~q~~rf~~q~~~k~~~~~e~~~~D~~fl~al-~G~PPhg  320 (355)
T Consensus       359 ei~PFY~MPd~E~~P~~s~~fDl~~~~~Ei~SGA~RiH~~dlL~E~------iK~~Gl~P~dp~~~~Yl~aF~YG~PPHA  432 (466)
T TIGR00458       359 EIRPFYTMPDDEDNPEISKSFDLMYRDLEISSGAQRIHLYDLLVEK------IKAKGLNPEDPGFKDYLEAFKYGMPPHA  432 (466)
T ss_pred             CCCCCCCCCCCCCCCCCCHHHHHHHCCCHHCCHHHHHHHHHHHHHH------HHHCCCCCCCCCHHHHHHHCCCCCCCCC
T ss_conf             4676213888656786001444333110110003454458888999------9845889885336878733047847888


Q ss_pred             EEECCHHHHHHHHHCCCCHHHHCCCCCCCCCC
Q ss_conf             45315999989981559713111585648743
Q gi|254781066|r  321 GIAMGFDRLVMLVTGANNINEVIWTPFSQSNQ  352 (355)
Q Consensus       321 G~glGidRLvm~l~g~~~Irdvi~FP~~r~~~  352 (355)
T Consensus       433 GwGlG~eR~~M~~~~lkNiR~~~LFPRDr~RL  464 (466)
T TIGR00458       433 GWGLGAERLVMVLLGLKNIREAVLFPRDRKRL  464 (466)
T ss_pred             CCCCHHHHHHHHHHCCHHHHHHCCCCCCCCCC
T ss_conf             76410678888774010112200488886568