HHsearch alignment for GI: 255764461 and conserved domain: TIGR00435

>TIGR00435 cysS cysteinyl-tRNA synthetase; InterPro: IPR002308 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 . Cysteinyl-tRNA synthetase (6.1.1.16 from EC) is an alpha monomer and belongs to class Ia.; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=100.00  E-value=1.5e-41  Score=326.18  Aligned_cols=370  Identities=22%  Similarity=0.298  Sum_probs=250.9

Q ss_pred             CCEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHH-HCCCCEEEC---CCC----------CCCCHHHHHHHHHCCCCH
Q ss_conf             881799788899998832224789789999999988-589803623---643----------702279999999839998
Q gi|255764461|r    4 REKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHR-LDGLDVLFT---TGT----------DEHGQKIAKAAQNAGVTT   69 (511)
Q Consensus         4 ~~~~~vt~~~Py~ng~lHlGH~~~~i~~D~~~R~~r-~~G~~v~~~---~g~----------D~hg~~i~~~A~~~g~~p   69 (511)
T Consensus        22 ~V~~Y~CGpTVY--d~~HiGhaR~~i~fD~~~R~L~d~~GY~V~yV~NiTDIGhltGdlddGDD---KIIk~A~~~~~~~   96 (660)
T TIGR00435        22 KVKMYVCGPTVY--DYAHIGHARTAIVFDVLRRYLEDYLGYEVQYVQNITDIGHLTGDLDDGDD---KIIKRAREEGETV   96 (660)
T ss_pred             EEEEEEECCHHH--HHHCCCCCCCHHHHHHHHHHHHHHHCCEEEEEEEEEECCCCCCCCCCCCH---HHHHHHHHCCCCH
T ss_conf             667997073176--21030346630257888999988758867888643120000167777504---8999987515647


Q ss_pred             HHH-----------------------------------------------------------------------------
Q ss_conf             999-----------------------------------------------------------------------------
Q gi|255764461|r   70 KVF-----------------------------------------------------------------------------   72 (511)
Q Consensus        70 ~e~-----------------------------------------------------------------------------   72 (511)
T Consensus        97 ~~~kendtkfnatvvdkvktalfqyinknftiqGseiktieefetWlsnadtetlklenPkfP~hvtavqnaiesitkGd  176 (660)
T TIGR00435        97 EEVKENDTKFNATVVDKVKTALFQYINKNFTIQGSEIKTIEEFETWLSNADTETLKLENPKFPMHVTAVQNAIESITKGD  176 (660)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHHHCCEECCCHHHHHHHHHHHHHCCCCCHHCCCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf             88740122000256778899999987520011252000367777765203310100137888521677888887642366


Q ss_pred             -------------------------------HHHHHHHHHH-----HHHHHCCC-CCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             -------------------------------9999999999-----99980889-8867477888899999999888754
Q gi|255764461|r   73 -------------------------------VDQNSRNFRD-----MADVLDIS-YDDFIRTTEKRHHDTCRILWKKISD  115 (511)
Q Consensus        73 -------------------------------~~~~~~~~~~-----~~~~~~i~-~D~~~rT~~~~~~~~~~~~~~~l~~  115 (511)
T Consensus       177 s~daevafekvkdvtvPlldkelGstisnPe~~~~i~aY~~qkfndD~~aLNv~~p~~~pr~t--e~id~iie~i~~L~~  254 (660)
T TIGR00435       177 SMDAEVAFEKVKDVTVPLLDKELGSTISNPESERFIEAYFEQKFNDDLEALNVLPPDLEPRVT--EHIDEIIEFIEQLIE  254 (660)
T ss_pred             CCHHHHHHHHHHHCCCCCHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEC--CCCCHHHHHHHHHHH
T ss_conf             302567666440010210101113432560168899999865578888742873884016631--124314789999986


Q ss_pred             HHCCCCCC-HHHHCCCCCCCCCCHHHHCCCCCCCCCCCC---CCCEECCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCHH
Q ss_conf             31022110-001011334301556672111222222223---32000034544344666444-44344433332100067
Q gi|255764461|r  116 KGDIYKGC-YSGWYSLRDEAYYNDDEVYKGADGQYYNAQ---HNPVQWMEEEGYFFRLSAYQ-DKLLSYYESHPEFILPI  190 (511)
Q Consensus       116 ~G~iy~~~-~~~~y~~~~~~~~~~~~v~~~~~~~~~~~~---~~p~~~~~~~~~f~~l~~~~-~~l~~~~~~~~~~~~p~  190 (511)
T Consensus       255 KgyAY~~~~GdVYF~v~~f~--------ksPnh~YG~Ls~Wn~~~~~~l~~g~~-~~v~~~~P~Ga~--Kr~~~DFvLWK  323 (660)
T TIGR00435       255 KGYAYVSDNGDVYFDVSKFK--------KSPNHDYGKLSGWNKQSLDELEAGAR-VRVDEAKPDGAK--KRNKLDFVLWK  323 (660)
T ss_pred             CCCEEEECCCCEEEECCCCC--------CCCCCCCCCCCCCCCCCHHHHHCCCC-CCCCCCCCCCCC--CCCCCCHHHHH
T ss_conf             89205306886465316778--------88888764326755554466625786-455235887533--56776502220


Q ss_pred             HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCC-------CCCHHCC
Q ss_conf             654577541034567532343337776578642221464602444322001234676543100024-------1100004
Q gi|255764461|r  191 ERRNEVISFVKSGLKDLSLSRKTFDWGIKIPDDPQYIMYVWIDALTNYLTTTGYLDNPDGSKAKFW-------PADLHVI  263 (511)
Q Consensus       191 ~~~~~~~~wl~~gl~Dw~ISR~~~~WGipiP~~~~~~~YVWfDa~~gY~s~~~~~~~~~~~~~~~w-------~~d~~~~  263 (511)
T Consensus       324 ~~k~--------g-~~~E~~W~SP-WG~---GRPG------------------WHiECS~M~~~~LgltntP~~~DIH~G  372 (660)
T TIGR00435       324 SAKE--------G-KDQEPKWDSP-WGK---GRPG------------------WHIECSAMVDKYLGLTNTPDQIDIHGG  372 (660)
T ss_pred             CCCC--------C-CCCCCCCCCC-CCC---CCCC------------------HHHHHHHHHHHHCCCCCCCCCCEECCC
T ss_conf             0678--------8-7777431777-888---8881------------------589999999975135678654301348


Q ss_pred             CCCCCCHHCCHHHHHHHH-HH-HHCCCCCCCCCCEEECCCCCCHHHCCCCCCCCHHH-HCCCCCCCHHHEEECCCCCCCE
Q ss_conf             564321000102477654-33-10123233343033058601000002211100000-0221112111000024787301
Q gi|255764461|r  264 GKDILRFHAIYWPAFLLS-AN-LPLPKKVFSHGFILHKGEKISKSLGNVIDPIEVIE-EVGVDALRYFLVREIACGKDGF  340 (511)
Q Consensus       264 G~Dii~Fh~i~~pa~l~~-~~-~~~p~~i~~~g~l~~~G~KMSKS~GN~I~~~e~l~-~~g~D~lR~~l~~~~~~~~D~~  340 (511)
T Consensus       373 G~DL~FPHHENE~Aqs~a~~gn~~~~~yW~H~G~~~id~eKMSKSLgNF~~v~D~L~q~~d~~~lR~~~l~-~HYr~pLd  451 (660)
T TIGR00435       373 GVDLIFPHHENEIAQSEALFGNKQLAKYWLHNGFLMIDNEKMSKSLGNFITVRDVLKQNYDPEVLRYLLLS-VHYRSPLD  451 (660)
T ss_pred             CCCCCCCCCHHHHHHHHHHHCCCCEEEEEEECCEEEECCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH-HHHCCCCC
T ss_conf             87788878778999999872898568999851778976721651555688888687427689999999876-55314567


Q ss_pred             ECCCCCCCCH---HHHHHHHHHHCCHHHHHHHHHCCCCC--CC-CCCCCCHHHHHHHHHHHHHHHHHHHHH-HHCCHHHH
Q ss_conf             1122211100---13321102210213455653123321--03-455589556566789999999999877-50358999
Q gi|255764461|r  341 YDKDGLKKRV---NADLANGIGNLVSRSVSMILKDYDGM--IP-TPGAFTESDESILSVCSRVLQEIRENM-QNQLIHRA  413 (511)
Q Consensus       341 Fs~~~~~~~~---n~~L~~~lgN~~~R~~~f~~k~~~g~--ip-~~~~~~~~D~~ll~~l~~~~~~v~~a~-e~~~~~~A  413 (511)
T Consensus       452 f~e~~l~~aksfe~~-----~~~l~~-~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~F~Eseskvhsa~~dDlN~a~A  525 (660)
T TIGR00435       452 FSEELLEAAKSFENA-----LERLYK-ALRNLDTDLAYSKEFGENKDPKNVDEKEFEAAFEESESKVHSAMDDDLNTANA  525 (660)
T ss_pred             CCHHHHHHHHHHHHH-----HHHHHH-HHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
T ss_conf             478899999889999-----999999-99987531034222342435664225657866432035778887505780689


Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             9999999999978865
Q gi|255764461|r  414 LAQVISLVSEVDRYFD  429 (511)
Q Consensus       414 l~~i~~l~~~~N~yi~  429 (511)
T Consensus       526 l~vL~el~~~~N~~~~  541 (660)
T TIGR00435       526 LAVLFELAKSINKKLD  541 (660)
T ss_pred             HHHHHHHHHHHCCCCC
T ss_conf             9999999998400157