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