HHsearch alignment for GI: 254780870 and conserved domain: TIGR00408

>TIGR00408 proS_fam_I prolyl-tRNA synthetase; InterPro: IPR004499 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 . Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by IPR002314 from INTERPRO, which recognises tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi (Lyme desease spirochete). The other family, IPR004500 from INTERPRO, includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis sp. (strain PCC6803), and one of the two prolyl-tRNA synthetases of Saccharomyces cerevisiae (Baker's yeast).; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=100.00  E-value=0  Score=445.21  Aligned_cols=369  Identities=26%  Similarity=0.429  Sum_probs=321.0

Q ss_pred             CCHHHHHHHHCCCCCCCCCCHHHHHHHCCCEECCCCCHHCCCCHHHHHHHHHHHHHHHHHHC------------------
Q ss_conf             30678887310711141256122135303200038811104316999999999999999866------------------
Q gi|254780870|r    3 RSKYFLPILQENPRDAEIASHKLMLRTGMIHQHSKGIYSWLPLGQKALDNVNAIIREEQNRT------------------   64 (449)
Q Consensus         3 ~s~~~~~~l~~~~~d~~~~~~~ll~~~g~i~~~~~G~~~~lP~G~~i~~~le~~~r~~~~~~------------------   64 (449)
T Consensus         8 fs~WY~~il~k----Ael~d~RypV---------KG~~v~~P~g~~iw~~iq~~~~~~~~~~~~~~~~~L~~F~P~~~~~   74 (533)
T TIGR00408         8 FSEWYDQILQK----AELIDYRYPV---------KGCYVFLPYGFKIWENIQKILRDKLDEIKLKDKVILKKFIPIESLP   74 (533)
T ss_pred             CCHHHHHHHHC----CEEEEECCCC---------CCEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             52568998730----5576641760---------1037845987789999999999999876435467664056777777


Q ss_pred             -CCEEEECCCCCCHHHHH-HCCCCHHHHHHHCCHHHCCC----CCCEECCCCCCCCCCCHHHCCCCCCCCCEEEEECCCC
Q ss_conf             -98897357512468987-71973112222104021378----6200034555431011000013420134026414653
Q gi|254780870|r   65 -GAIEMSVPTLQSADLWV-ESGRYDSYGKEMLRLADRND----KAMIYGPTHEEVMTDIFRSHIKSYRNLPFTFYQIQLK  138 (449)
Q Consensus        65 -G~~ei~tP~l~~~eL~~-~SGh~d~~~~em~~~~d~~~----~~~~LrP~~~e~~~~i~~~~~~SYr~LPlr~y~ig~~  138 (449)
T Consensus        75 Y~h~~v~fP~L~p~~~L~KEk~HikGF~pEv~wi~~~G~~~L~~pLaLRPTSEt~~y~m~~kWv~sy~DLPlk~nQw~~v  154 (533)
T TIGR00408        75 YGHEEVYFPMLIPESELEKEKDHIKGFEPEVYWITHGGLKKLDEPLALRPTSETAMYNMYKKWVKSYRDLPLKINQWVNV  154 (533)
T ss_pred             CCCHHEECCCCCCHHHHHHHCCCCCCCCCHHHHEECCCCCCCCCCCEECCCCHHHHHHHHHHHHHHCCCCCEEEEEEEEE
T ss_conf             77001005644525578632135688584002101037772467501258617888765787851215887689843588


Q ss_pred             CCCCCCCCCCCCCCEEEE-EEECCEECCCHHHHHHHHHHHHHHHHHHHH-HCCCHHHHHHHCCHHCCCCHHHHHHHHCCC
Q ss_conf             345667675434531668-740422118868879999999998741111-006201223311001013113343454686
Q gi|254780870|r  139 FRDELRPRFGVMRSREFL-MKDAYSFDLTPEGSKHSYNKMFVSYLRIFH-RLGLKSIPMRAESGPIGGDLSHEFIVLADT  216 (449)
Q Consensus       139 fR~E~rp~~GL~R~ReF~-q~D~~~F~~~~e~~~~e~~~~~~~~~~i~~-~lgl~~~~v~~~~~~ig~~~s~e~~~~~~~  216 (449)
T Consensus       155 fR~E~kHTRPflR~rEf~twqE~HT~H~t~~eAee~v~~~~~~Yk~f~~~~LaIP~~~g~k~------------------  216 (533)
T TIGR00408       155 FRYEKKHTRPFLRTREFLTWQEAHTAHATAEEAEEEVLKALDLYKEFIENLLAIPYFVGRKS------------------  216 (533)
T ss_pred             EECCCCCCCCCHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCC------------------
T ss_conf             98021787861023332101000131437778899999999988999750288646871488------------------


Q ss_pred             CCCEEEECCCCCCCCCCHHHCCHHHHHCCCCCCCCCCCCCCCCHHHCHHHHHCCCCCCCEEEE-EEEECCCEEECCCCCC
Q ss_conf             770143101003477641112201210011220001363212011000233035876552432-1111581442231122
Q gi|254780870|r  217 GETQVFCSKDFMDFPIPSENTDFDDIISLNSIVEQWTAPYAATSDVHNEKLFDSLPENKRVSA-RGIEVGHIFYFGTKYS  295 (449)
Q Consensus       217 ~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~d~l~~~~~~~~-~~ie~~~~f~lG~~ys  295 (449)
T Consensus       217 -E~e--------KFa---------------------GA~~T~~~-------e~imPD-----gG~~LQ~ATsH~LGqnF~  254 (533)
T TIGR00408       217 -EKE--------KFA---------------------GAEYTWTF-------ETIMPD-----GGRTLQIATSHDLGQNFA  254 (533)
T ss_pred             -CCC--------CCC---------------------CCCCCEEE-------EEECCC-----CCEEHHHHHHHHHHCCCE
T ss_conf             -755--------478---------------------87622356-------752477-----650012212113303540


Q ss_pred             CCCEEEEECCCC---CCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCHHHCCCCCEEEE--C-C-C---CHHHHHHHH
Q ss_conf             301158964777---7232336663447430023322102321111136332032110242--1-7-8---879999999
Q gi|254780870|r  296 LPMSATFKGADG---KDHYVQMGSYGIGAMRVVAAVIESSHDGKGIIWPDSVAPFKISLIN--I-K-A---HDQVCRDAC  365 (449)
Q Consensus       296 ~~~~~~~~~~~g---~~~~~~~g~~giG~~R~~~alle~~~d~~g~~wP~~iaP~~v~Iip--i-~-~---~~~~~~~~A  365 (449)
T Consensus       255 K~F~i~fe~p~Gs~~~~~~ayq~s~G~-StR~igali~~HsD~~GLVLPp~vAp~Qvv~~Pv~IFkK~s~E~~~~~~e~a  333 (533)
T TIGR00408       255 KTFDIKFENPTGSDMDKVYAYQTSYGI-STRVIGALILIHSDEKGLVLPPRVAPIQVVIIPVIIFKKKSDEENKKVMELA  333 (533)
T ss_pred             EEEEEEEECCCCCCCCCCCCEECCCCH-HHHHHHHEEEEECCCCCCCCCCCCCCEEEEEEEEEEECCCCCCCCHHHHHHH
T ss_conf             203678877888976410100101335-7887545000122677751670127335899986775587521477899999


Q ss_pred             HHHHHHHHHCCCEEEEECCCC-CHHHHHHHHHHCCCCEEEEECCCHHHCCEEEEEECCCCC--EEEEEHHHHHHH-HHHH
Q ss_conf             999999998698799975897-970867878748998899986240235718999989997--878619999999-9999
Q gi|254780870|r  366 EKIYARLSKVGCDVFWDDMGE-QIGSQFAVADLLGFPLQVIVGSKFVSDSKVEIKHRLTGI--REDMSLEEVINY-ASHR  441 (449)
Q Consensus       366 ~~i~~~Lr~~Gi~v~~D~r~~-~iGkK~~~Ad~~gip~~iiiG~~el~~~~Vtir~r~tg~--q~~v~l~eli~~-i~~~  441 (449)
T Consensus       334 ~~v~~~Lk~~~iRv~~D~~~~~~pG~kf~~~E~kGiPlR~evGP~D~~~n~~~~~rR~~~~kfK~~~~~~~L~~~k~~~~  413 (533)
T TIGR00408       334 RKVEDKLKKLGIRVHLDKRDNYRPGKKFSKWELKGIPLRLEVGPNDIEKNIVVVSRRDTKRKFKYQVSLDELEERKVVEL  413 (533)
T ss_pred             HHHHHHHHCCEEEEEEECCCCCCCCCHHHCCCEEECCEEEEECCCCCCCCEEEEEEECCCCEEEEEEEHHHHHHHHHHHH
T ss_conf             99998773041007970355753231320453330426998777510437689999617713557720545446789999


Q ss_pred             HHHC
Q ss_conf             8726
Q gi|254780870|r  442 FSNN  445 (449)
Q Consensus       442 l~~~  445 (449)
T Consensus       414 ~~~~  417 (533)
T TIGR00408       414 LNEM  417 (533)
T ss_pred             HHHH
T ss_conf             9999