HHsearch alignment for GI: 255764513 and conserved domain: TIGR00233

>TIGR00233 trpS tryptophanyl-tRNA synthetase; InterPro: IPR002306 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 . Tryptophanyl-tRNA synthetase (6.1.1.2 from EC) is an alpha2 dimer that belongs to class Ib. The crystal structure of tryptophanyl-tRNA synthetase is known .; GO: 0000166 nucleotide binding, 0004830 tryptophan-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006436 tryptophanyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=96.41  E-value=0.01  Score=38.68  Aligned_cols=217  Identities=18%  Similarity=0.274  Sum_probs=119.1

Q ss_pred             CCCC-CCCHHHHHHHHHHHHHHH-HCCCEEEEEECCCC---------CCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             3388-785015999999999999-71884999970486---------663886799999999886589888676558876
Q gi|255764513|r   14 SPTG-EPHIGTAYTALFNYLIAK-RTGGKFILRIEDTD---------SKRSTLESENAVMQSLKWCGLNWDEGPDIGGAY   82 (492)
Q Consensus        14 sPtG-~lH~G~~rtal~n~l~a~-~~~g~f~lRieDtd---------~~R~~~~~~~~i~~~l~wlgl~~De~~~~~g~~   82 (492)
T Consensus        10 ~PSGd~~HlGnylg~~~~~~~~~~q~~~~~~~~~aD~ha~~~~~~l~~~~~~~~~~~e~~~~~lA~GlDP~K~-------   82 (366)
T TIGR00233        10 QPSGDKMHLGNYLGAIRLKVLQEEQEGYELFFCIADLHAITVKQDLTDPDTLRKAREELVADYLAVGLDPEKT-------   82 (366)
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHE-------
T ss_conf             5768764433006678888777431689768997372565146788817789999999999998726473146-------


Q ss_pred             CCEECCCCH---HHHHHHHHHHHHCCCEEECCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEE
Q ss_conf             763232628---99999999999889824514889997766887664310002366555788333001120257740788
Q gi|255764513|r   83 GPYRQSERK---NIYQPYVQNLLEKKLAFRCFCSTERLEEMRRAQRKRNIPSRYDGHCLKLSSQEIERLSQEQKKHVVRL  159 (492)
Q Consensus        83 ~p~~QS~r~---~~y~~~~~~L~~~g~aY~c~~t~eel~~~r~~~~~~~~~~~Y~~~~r~l~~~e~~~~~~~g~~~~iR~  159 (492)
T Consensus        83 ~~f~QS~~~G~~~~~~-l~~~l-------~~~~~~g~l~r~----------~qFK~~~--------~~~~~~n~d~~~~-  135 (366)
T TIGR00233        83 TIFLQSEVPGGTEHYE-LAWLL-------SCVVTFGELKRM----------TQFKDKS--------DLKQAENEDPTVN-  135 (366)
T ss_pred             EEEEECCCCCCHHHHH-HHHHH-------HHHHHHHHHHHH----------CCCCCHH--------HHHHHCCCCCCEE-
T ss_conf             7875057665145789-99999-------876516764010----------0477412--------2122148986112-


Q ss_pred             EECCCCEEECCCCCCCCEECCCCCCCCCCEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH----HH
Q ss_conf             62243114304751340213643235641000453248986788764444444311223543024788999998----51
Q gi|255764513|r  160 TVPNQGSCVFQDKVYGEMEIPWNAVDMQVLLKSDGMPTYHLANVIDDHLMKITHVARGEEWISSVPKHILLYQY----FN  235 (492)
Q Consensus       160 k~p~~~~~~~~D~i~G~~~~~~~~~~D~vi~r~dg~ptY~~a~vvDD~~m~ithviRg~d~~~~t~~q~~l~~a----l~  235 (492)
T Consensus       136 ---------~~~v~~Gl~~y-------P~lmAADIL-~~~~d~~~~~~-~~~c~VPVG~DQ~qHleLTRD~A~Rf~~~f~  197 (366)
T TIGR00233       136 ---------LKEVSIGLLSY-------PVLMAADIL-LYQADEILGPE-KKPCLVPVGIDQDQHLELTRDLAERFNKKFK  197 (366)
T ss_pred             ---------ECCCCEEEECC-------CHHHHHHHH-CCCCHHHCCCC-CCEEEEECCCCCCHHHHHHHHHHHHHHHHHC
T ss_conf             ---------00111120126-------477763431-35660125799-9705850058885268898899999988713


Q ss_pred             --HCCCHHHHH---HHHHHHHC--CCCCCCCCC--CCHHHHHHCCCCHHHHHHHHHHCCC
Q ss_conf             --000001014---55531101--322122343--3024566629773779989985067
Q gi|255764513|r  236 --FPIPEFIHL---PLIKNPDK--SKLSKRRNP--TSISYYSAMGYLPEALINFLALLFV  286 (492)
Q Consensus       236 --~~~p~f~H~---pli~~~~g--~klSKR~~~--~~i~~~~~~GylPeAilNyLalLGw  286 (492)
T Consensus       198 ~~f~~P~~~~~~~~~~l~gl~~P~kKMSkS~p~~~~~I-fL~D---~p~~~~kKI~~~~t  253 (366)
T TIGR00233       198 NFFKLPESLISKFGARLMGLQGPKKKMSKSDPNQNSAI-FLTD---TPKQIKKKIKKAAT  253 (366)
T ss_pred             CCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEE-CCCC---CHHHHHHHHHHHCC
T ss_conf             32358602331013446687878535555678888202-0798---98999999775204