HHsearch alignment for GI: 254780191 and conserved domain: TIGR00344
>TIGR00344 alaS alanyl-tRNA synthetase; InterPro: IPR002318 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 . Alanyl-tRNA synthetase (6.1.1.7 from EC) is an alpha4 tetramer that belongs to class IIc. ; GO: 0004813 alanine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006419 alanyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=100.00 E-value=0 Score=1282.41 Aligned_cols=848 Identities=46% Similarity=0.779 Sum_probs=782.9
Q ss_pred HHHHHHHHHHHHCCCEECCCCCCCCC-CCCCHHEEECCCCCCCCCCCCCCCCC----CCCCCCCCCCEECCCCCCCHHHC
Q ss_conf 99999999999789889116675667-78710023014347554005887999----99851115432248987863434
Q gi|254780191|r 6 SIRTTFLEFFQKNGHELLPSSSLIPC-NDPTLMFTNSGMVPFKNIFTGQEKPV----YQAVTTVQKCVRAGGKHNDLDNV 80 (898)
Q Consensus 6 eiR~~fl~fF~~~~H~~~~s~slvp~-~d~~llft~Agm~~fk~~f~G~~~p~----~~r~~~~QkCiR~ggkhnDld~V 80 (898)
T Consensus 1 ~~~~~~~~~f~~~gh~~~~~~~~~p~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gg~~~d~~~~ 80 (914)
T TIGR00344 1 EVRQTFLDFFKEKGHEVLPSAPLVPRRWDPTLLLTNAGVATFKPYFLGGVVPPPDFYAPRLTNAQPCIRLGGKHNDLENV 80 (914)
T ss_pred CHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHCCCCCCCCHHCCHHHHHHHHHHCCCCCCCHHHC
T ss_conf 91457889876215410112444323467624554222234324442255665200011023323454337753321230
Q ss_pred CCCCCCHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHH--HHCCCCHHHEEEEECCCHHHHHHHHHHHCC-CCHHHEE
Q ss_conf 6488500178885422314-----7537889998998613--341898123799971882899997566349-9989975
Q gi|254780191|r 81 GRTNRHHTFFEMLGNFSFG-----GYFKERAIQLAWDLLT--KEFDLDQRRLYITVYDEDEEAFKLWKKISG-LSADKII 152 (898)
Q Consensus 81 G~t~rH~TfFEMlGn~Sfg-----dYfK~eai~~awe~lt--~~~~l~~~~l~vtv~~~D~e~~~iW~~~~g-i~~~~i~ 152 (898)
T Consensus 81 g~~~~h~~~f~~~g~~~~g~~~~~~y~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~d~~~~~~w~~~~~~~p~~~~~ 160 (914)
T TIGR00344 81 GRTGRHHTLFEMLGNFSFGYEDDEDYFKEEAIAFAWELLTSELGLGLPKERLYVTVYEEDDEAYELWEKGGGAGPCERII 160 (914)
T ss_pred CCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCHHHHHHHHCCCCCCCHHHHH
T ss_conf 44201345666530112578764024456788888887530110344320168887537325677653145545313443
Q ss_pred ECCC------CCCCCCCCCCCCCCCCEEEEEECCCCCCC---CCCC-CC--CCCCCEEEEEEHHHHHHHCCCCCC-CCCC
Q ss_conf 3578------66654579999987704678853855689---8887-77--889826896001123443047887-5657
Q gi|254780191|r 153 RITT------NDNFWSMAETGPCGPCSEIFFDQGECIPG---GLPG-SS--EEGERYIEIWNLVFMQFEQQNKQE-RFIL 219 (898)
Q Consensus 153 ~~~~------~dNfW~~g~~GpcGPcsEi~~d~g~~~~~---~~~~-~~--~~~~r~lEiwNlVFmq~~~~~~g~-~~~L 219 (898)
T Consensus 161 ~~g~~~gp~~~~~~w~~~~~~p~gp~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (914)
T TIGR00344 161 RGGDELGPYAADNFWDLGDTGPCGPCTEIYYDRGEKIGDTGYGPEKLFWESGEPDRYLEIWNLVFSQFNRDGDGNDLTPL 240 (914)
T ss_pred HCCCCCCCCCCHHHHHHCCCCCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCHH
T ss_conf 13542364200012320356777641013221143114544674312346677621356777788865203576400011
Q ss_pred CCCCCCCCCCHHHHHHHHC-CCCCCCHHHHHHHHHHHHHHHCCCCCCCC---------CCHHHHHHHHHHHHHHHHHHHC
Q ss_conf 6653101757999999988-79853005769999999997306785433---------5024899999898999987403
Q gi|254780191|r 220 PKMSIDTGMGLERMATVLQ-EKTNNYDIDLFKHLIQASEQVTGMKYEGN---------NIVNHRVIVDHLRSSSFLIADG 289 (898)
Q Consensus 220 p~~~IDTGmGLERl~~vlq-g~~s~ydtD~f~pii~~i~~~~g~~y~~~---------~~~~~rvIaDH~Ra~~f~I~DG 289 (898)
T Consensus 241 ~~~~~~~g~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~dh~~~~~~~~~~g 320 (914)
T TIGR00344 241 PKKNIDTGAGLERLVAVLQGDVPNNFDTDLFLPLIESVEELTGLTYPSENYKTFDKDGADTSLRVIADHTRALAFLLADG 320 (914)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 13333321026778887752000012467888887877865200011001100000010113444555678888876426
Q ss_pred CCCC-CCCCCHHHHHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 3334-4464125778899999999984874331--045689999986455555576467889999874898999999899
Q gi|254780191|r 290 ILPA-NEGRGYVLRRIMRRAMCYARLLGYTEPL--MMHLLPALCTEMGSAYPELIQAKLLIEETLRSEDERFGKTLDRGL 366 (898)
Q Consensus 290 v~Ps-N~GrGYvlRrilRRa~r~~~~lg~~~~f--l~~lv~~v~~~m~~~ypeL~~~~~~I~~ii~~EE~~F~~TL~~G~ 366 (898)
T Consensus 321 ~~p~p~~~~gy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 400 (914)
T TIGR00344 321 VLPSPNEGRGYVLRRLLRRALRHGKLLGLKEPFNFLYKLVPTLIEVLGDLYPELKEKQELVEEILELEEERFAKTLERGL 400 (914)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 66687653138899999999887777404431036788889999986433455410378999999878888888887668
Q ss_pred HHHHHHHHHCC--CCCCCCCCEEEEEECCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHH
Q ss_conf 99999986115--4642457437998524588889999876650774435888999999999764443311001201356
Q gi|254780191|r 367 VLLDGVLSHLG--KDEILNGDVAFKLYDTHGLPLDIMQDILCARGLAGIDIISFNQALEEQRSRARAHSLGLGSGTTEKI 444 (898)
Q Consensus 367 ~~l~~~i~~~~--~~~~lsg~~af~LyDTyGfP~dlt~eia~e~gi~~vD~~~f~~~m~~qk~~sr~~~~~~~~~~~~~~ 444 (898)
T Consensus 401 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~g~p~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 478 (914)
T TIGR00344 401 RLLEKLLKKLKKDGNKELDGEDAFKLYDTYGFPVELTEELAEEKGLT-VDWPGFEYALEEQRERSKAAKKTLGDL-FEED 478 (914)
T ss_pred HHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHCCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHH-HHHH
T ss_conf 99999987520024210123565543420377678899888640760-121256889888877643211013444-4433
Q ss_pred HHHHHHHCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEE-CCCEEEECCCCCEEEEEECCCCEEEC
Q ss_conf 78887304886264344444321112221113444544555655348999974-78132000479769999737520003
Q gi|254780191|r 445 WFSLKEKYGATQFIGYDLLRGSKFMKEDRKVLCQKPPIDLTNGVSSIVKAIVQ-QGEIVEEAVSGQKVEVVFDQTPFYAE 523 (898)
Q Consensus 445 ~~~~~~~~~~t~F~GYe~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~v~~i~~-~~~~v~~~~~g~~~~ivLd~T~FY~E 523 (898)
T Consensus 479 ~~~~~~~~~~~~~~~y~~~~~-----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~ 535 (914)
T TIGR00344 479 LEALANVYPATEFLGYDDPEL-----------------------LAKVLGLLDGDGKLVEEANPGQSGGVILDRTPFYAE 535 (914)
T ss_pred HHHHHHCCCCHHHCCCCCCHH-----------------------HHHHHHHHCCCCCHHHHHCCCCCCEEEEECCCCCCC
T ss_conf 223321122012100232002-----------------------345555430454001221034431377604302345
Q ss_pred CCCCCCCCCEEEECC-EEEEEECCCCCCCEEEEEEECCCCCCCCCCCEEEEEEHHHHHHHHHHCCCHHHHHHHHHHHCCC
Q ss_conf 687656651454042-4898522456553389985104678755673388842125567775201368899999752125
Q gi|254780191|r 524 AGGQLGDTGCAIGDG-IRLQITDVQKKAEGIFVHHAIVERGILRTEMSLVLTIDYQNRRQLSINHSATHLLHHALSTILG 602 (898)
Q Consensus 524 ~GGQ~~D~G~i~~~~-~~~~V~dv~k~~~g~i~H~~~~~~g~l~~g~~V~~~VD~~rR~~~~~~HTatHlL~~alr~vLG 602 (898)
T Consensus 536 ~gg~~~d~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~h~~~h~~~~~~~~~~g 615 (914)
T TIGR00344 536 SGGQIGDTGYLNGDNGAKFRVEDVQKFKGGVVLHFGELLEGSLKVGDKVTAVVDEKRRLRLKRNHTATHLLHAALKKVLG 615 (914)
T ss_pred CCCCCCCCCEEECCCCCEEEEEHHHHCCCCCEEEEEHHCCCCCCCCCEEEEEECHHHHHHHHHCCHHHHHHHHHHHHHHH
T ss_conf 67753444204406653243101122256411221000012113474145531045666555200378999999998641
Q ss_pred CCCCCCCCEECCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCHHHHHHHHCCC--CCEEEEE
Q ss_conf 44444553002430000024767899999999999998988730453046612322210003554431555--6248998
Q gi|254780191|r 603 SHVSQNGSCITPDGLRFDVTHSKPITSAELKSIEDNVNDIIAQNLPVVTRIMNREDAIASGAAALLGTKYN--DRVRVVS 680 (898)
Q Consensus 603 ~hv~Q~GS~v~~~~lrfDfsh~~~lt~eel~~IE~~vN~~I~~n~~V~~~~~~~~eA~~~ga~alfgekyg--d~VRVV~ 680 (898)
T Consensus 616 ~~~~~~g~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 695 (914)
T TIGR00344 616 PHVWQAGSLVSAKKLRFDFSHPRALTKEELEEVEDLVNEQILANLPVKVEFLDLDEAKAKGALALFGEGYGPGEKVRVVS 695 (914)
T ss_pred HHHHHCCCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHCHHHHHHHHHHHHCCCCCCCCCEEEEEE
T ss_conf 12221012000013210010000267778999999999998752250121201344554300110024457764057885
Q ss_pred ECCCCCCCCCEECCCCCCCCCHHHHHHHHEECCCCCCCCCEEEEEEEC-HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf 447677855310156222588646011001101212688289999716-8999999999999999999839998899999
Q gi|254780191|r 681 VEYEDGGVHSSALCGGTHVSSTGEIMLLYIVSESSIRAGIRRIEAITG-QRARSHLMGQDEKLKSLASFLKVSQGNVVGR 759 (898)
Q Consensus 681 I~~~d~~~~S~ElCGGTHV~nTgeIG~fkIise~si~sGvRRIeavtG-~~A~~~~~~~~~~l~~la~~L~~~~~~i~~k 759 (898)
T Consensus 696 ~~~~~~~~~~~~~cgg~h~~~~g~~g~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 775 (914)
T TIGR00344 696 VGDPNGELYSVELCGGTHVENTGDIGLFKILKESGIGAGVRRIEAVTGNEAALEYLNEEEDLLKEAADLLKVDPNELPKK 775 (914)
T ss_pred CCCCCCCEEEEEECCCCCCCCCCCCCEEEEEEHHHHHHHHHHHHEECCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
T ss_conf 07754210121001563112322200023321000121023211002526889998877777876677621334555678
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHCCCCEEEEEECCCCHHH-HHHHHHHHHHHCCCCE----EEEEE
Q ss_conf 99999999999999999999987636-----53555369527999957999789-9999999997549978----99999
Q gi|254780191|r 760 VEEIWEEYRKLQLIHAKRKLQLNVED-----LSCHKIADVNFMSHIISEVDSKE-LKSVMDALQKKIQSGI----IMLVG 829 (898)
Q Consensus 760 i~~L~~e~K~l~k~~~k~k~~~~~~~-----~~~~~i~~~~~i~~~~~~~d~~~-Lr~l~d~l~~k~~~~v----vvL~~ 829 (898)
T Consensus 776 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 855 (914)
T TIGR00344 776 VERLFEEWKELRKELEKLKEKLAPLKSTELLEKAETLDGLKVLVEELKTVDAKPNLKTLLDKLKEKLGSLVDKDKAVLLA 855 (914)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHEEEE
T ss_conf 89888889899999999988776677887766666641134335453011355037899999998764321100110122
Q ss_pred ECCCCEEEEEEEECHHHHC--CCCHHHHHHHHHH-----HHCCCCCC---CCCHHCCCCC
Q ss_conf 5389817999986778972--6798999999998-----83499999---9810114589
Q gi|254780191|r 830 ISKEKKASVLIVVTEDLLD--RFNAVDLARLSAK-----VLGGGGGG---GRPHMAQSGG 879 (898)
Q Consensus 830 ~~~~~k~~ivv~vs~~~~~--~~~A~~lik~ia~-----~l~GGgGG---Gkpd~AQgGG 879 (898)
T Consensus 856 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-gg~gg~~~g~~~~~~~~g 914 (914)
T TIGR00344 856 LLNDGKGKLLAGVSEDLVKAKGLKAGELLNEVAEVPSFLIL-GGGGGCIEGRPDLAQGGG 914 (914)
T ss_pred ECCCCCCEEEEEHHHHHHHHHHHHHHHHHHHHHCCCCEEEE-CCCCCEECCCCCHHHCCC
T ss_conf 11455531442001345554100378899876316652775-476431114300210379