HHsearch alignment for GI: 254780870 and conserved domain: TIGR00409
>TIGR00409 proS_fam_II prolyl-tRNA synthetase; InterPro: IPR004500 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 (6.1.1.15 from EC) exists in two forms, which are loosely related. The first form, is present in the majority of eubacteria species. The second one, present in some eubacteria, is essentially present in archaea and eukaryota. Prolyl-tRNA synthetase belongs to class IIa. This family includes the enzyme from Escherichia coli that contains all three of the conserved consensus motifs characteristic of class II aminoacyl-tRNA synthetases and the enzyme from the spirochete Borrelia burgdorferi.; 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=850.32 Aligned_cols=439 Identities=44% Similarity=0.823 Sum_probs=395.1
Q ss_pred CCCCHHHHHHHHCCCCCCCCCC-HHHHHHHCCCEECCCCCHHCCCCHHHHHHHHHHHHHHHHHHCC-CEEEECCCCCC-H
Q ss_conf 9630678887310711141256-1221353032000388111043169999999999999998669-88973575124-6
Q gi|254780870|r 1 MRRSKYFLPILQENPRDAEIAS-HKLMLRTGMIHQHSKGIYSWLPLGQKALDNVNAIIREEQNRTG-AIEMSVPTLQS-A 77 (449)
Q Consensus 1 m~~s~~~~~~l~~~~~d~~~~~-~~ll~~~g~i~~~~~G~~~~lP~G~~i~~~le~~~r~~~~~~G-~~ei~tP~l~~-~ 77 (449)
T Consensus 1 mr~S~~l~~TL~e~P~DA~~~StH~LL~rAGfIR~~~SGlY~~LPL~~rVL~Kv~~ivreeM~~~GGA~E~~lp~~~~la 80 (620)
T TIGR00409 1 MRTSQLLFPTLKETPADAEVKSTHQLLLRAGFIRRLGSGLYNWLPLGLRVLKKVENIVREEMNKDGGAIEVLLPALQPLA 80 (620)
T ss_pred CCCCCCCCCCCCCCCCCCEECCHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf 96553003668888875301112564030164772434144565789999998899999862267853346676677899
Q ss_pred HHHHHCCCCHHHHH---HHCCHHHCCCCCCEECCCCCCCCCCCHHHCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEE
Q ss_conf 89877197311222---210402137862000345554310110000134201340264146533456676754345316
Q gi|254780870|r 78 DLWVESGRYDSYGK---EMLRLADRNDKAMIYGPTHEEVMTDIFRSHIKSYRNLPFTFYQIQLKFRDELRPRFGVMRSRE 154 (449)
Q Consensus 78 eL~~~SGh~d~~~~---em~~~~d~~~~~~~LrP~~~e~~~~i~~~~~~SYr~LPlr~y~ig~~fR~E~rp~~GL~R~Re 154 (449)
T Consensus 81 ~LW~~SGRW~~YG~seGELl~lkDR~~r~f~LgpT~EEvIT~l~~~~i~SYKqLP~~lYQI~tKFRDEiRPRFGl~RgRE 160 (620)
T TIGR00409 81 ELWQESGRWDTYGPSEGELLRLKDRKGREFVLGPTHEEVITDLVRNEIKSYKQLPLNLYQIQTKFRDEIRPRFGLLRGRE 160 (620)
T ss_pred HHHHHCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEECCCCCCCCCCCCCCCCCCCHH
T ss_conf 98754075324686543366765268887356786655689999998754530683010045121442048876000123
Q ss_pred EEEEECCEECCCHHHHHHHHHHHHHHHHHHHHHCCCHHHH-HHHCCH-HCCCCHHHHHHHHCCCCCCEEEECCCCCCCCC
Q ss_conf 6874042211886887999999999874111100620122-331100-10131133434546867701431010034776
Q gi|254780870|r 155 FLMKDAYSFDLTPEGSKHSYNKMFVSYLRIFHRLGLKSIP-MRAESG-PIGGDLSHEFIVLADTGETQVFCSKDFMDFPI 232 (449)
Q Consensus 155 F~q~D~~~F~~~~e~~~~e~~~~~~~~~~i~~~lgl~~~~-v~~~~~-~ig~~~s~e~~~~~~~~e~~~~~~~~~~~~~~ 232 (449)
T Consensus 161 FiMKDAYSFH~~~ESL~~ty~~m~~aY~~IF~rlGldFR~iV~ADSGdaIGG~~S~EF~vL~~~GEDti~~~~h~~dyaA 240 (620)
T TIGR00409 161 FIMKDAYSFHSDEESLDATYQKMDQAYSNIFSRLGLDFRPIVQADSGDAIGGSASHEFMVLAESGEDTIVYSDHESDYAA 240 (620)
T ss_pred HHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCHHHHHHHHCCCCEEEEECCCCCHHH
T ss_conf 23024255447876799998899999999998658982106871578757888625678866458961788625765123
Q ss_pred -CHHHCC--------------------------------------------------------------------HHHHH
Q ss_conf -411122--------------------------------------------------------------------01210
Q gi|254780870|r 233 -PSENTD--------------------------------------------------------------------FDDII 243 (449)
Q Consensus 233 -~~~~~~--------------------------------------------------------------------~~~~~ 243 (449)
T Consensus 241 lNiE~A~~~~~~~P~~~~~~~~~~~~tPN~~ti~~~~~~f~~~~~~~~K~ll~ka~~~~~K~~~v~l~vRGD~ielnevK 320 (620)
T TIGR00409 241 LNIELAEALKPGEPRNAPTAELKKVDTPNTKTIAELVEFFNLPAEKVVKTLLVKAVDKSGKEPLVALLVRGDDIELNEVK 320 (620)
T ss_pred HHHHHHHHHCCCCCCCCHHHCCCCCCCCCCHHHHHHHHHHCCCHHHHHCEEEEEEEECCCCEEEEEEEEECCCCCHHHHC
T ss_conf 23677764257887501133144547744111899999867887683103146665137860688889736701322111
Q ss_pred CCCCCCCCCCCCCCC-----------------------------------------------------------------
Q ss_conf 011220001363212-----------------------------------------------------------------
Q gi|254780870|r 244 SLNSIVEQWTAPYAA----------------------------------------------------------------- 258 (449)
Q Consensus 244 ~~~~~~~~~~~~~~~----------------------------------------------------------------- 258 (449)
T Consensus 321 ~~n~l-~klaPhy~~~~~le~~~~~~~~~~~~~~~~~~~g~~~~~~sddyiatnkqv~~~~~~~~khvd~iif~~~~~~~ 399 (620)
T TIGR00409 321 AKNLL-NKLAPHYLVAQVLELATGEEEIEQKIASKPDLLGPVKINGSDDYIATNKQVFIDIPVLIKHVDQIIFTVALMSD 399 (620)
T ss_pred CCCCC-CHHCCCHHHCCEEECCCCHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 34662-02134101034011147147999988640675556566653102331013442035666446466212635268
Q ss_pred --------------------------CHHHCHHHHHC-CCCCCC--EEEEEEEECCCEEECCCCCCCCCEEEEECCCCCC
Q ss_conf --------------------------01100023303-587655--2432111158144223112230115896477772
Q gi|254780870|r 259 --------------------------TSDVHNEKLFD-SLPENK--RVSARGIEVGHIFYFGTKYSLPMSATFKGADGKD 309 (449)
Q Consensus 259 --------------------------~~d~~~~~~~d-~l~~~~--~~~~~~ie~~~~f~lG~~ys~~~~~~~~~~~g~~ 309 (449)
T Consensus 400 f~~~A~~~~~h~~~vn~~~~~~~~~~~~D~r~~~eGDrP~Pdg~G~L~~~~gIEVGHIF~LG~kYS~al~A~f~de~Gk~ 479 (620)
T TIGR00409 400 FAAGANADDKHYKNVNWDRDVAIPEVVADIRKVKEGDRPSPDGKGTLKIAKGIEVGHIFKLGTKYSKALKATFLDENGKE 479 (620)
T ss_pred CCEECCCCCCCEEECCCCCCCCHHHHHHHHHHEEECCCCCCCCCCEEEECCCCEEEEEECCCHHHHHHHCCEEECCCCCC
T ss_conf 50103454565030263100211322200100024777884387405640562341133022033333065564668850
Q ss_pred C-CCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCHHHCCCCCEEEECCCCH-HHHHHHHHHHHHHHH-----HCCCEEEEE
Q ss_conf 3-233666344743002332210232111113633203211024217887-999999999999999-----869879997
Q gi|254780870|r 310 H-YVQMGSYGIGAMRVVAAVIESSHDGKGIIWPDSVAPFKISLINIKAHD-QVCRDACEKIYARLS-----KVGCDVFWD 382 (449)
Q Consensus 310 ~-~~~~g~~giG~~R~~~alle~~~d~~g~~wP~~iaP~~v~Iipi~~~~-~~~~~~A~~i~~~Lr-----~~Gi~v~~D 382 (449)
T Consensus 480 ~t~~~MGCYGIGVSRl~~Ai~Eq~~D~~G~~WP~~~APy~V~Iv~~N~~~se~~~~~A~~~Y~~L~ndPtm~~g~dvllD 559 (620)
T TIGR00409 480 QTFLTMGCYGIGVSRLVSAIAEQHYDERGIIWPKAIAPYDVVIVVMNMKDSEEQKQLAEEVYSELLNDPTMAQGVDVLLD 559 (620)
T ss_pred CCEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 25256055571389999999985058786367645388148996178984278999999999985027113653356641
Q ss_pred CCCCCHHHHHHH--HHHCCCCEEEEECCCHHHCCEEEEEECCCCCEEEEEHHHHHHHHHH
Q ss_conf 589797086787--8748998899986240235718999989997878619999999999
Q gi|254780870|r 383 DMGEQIGSQFAV--ADLLGFPLQVIVGSKFVSDSKVEIKHRLTGIREDMSLEEVINYASH 440 (449)
Q Consensus 383 ~r~~~iGkK~~~--Ad~~gip~~iiiG~~el~~~~Vtir~r~tg~q~~v~l~eli~~i~~ 440 (449)
T Consensus 560 DR~ER~Gv~f~Dkl~eLIG~P~~v~~G~~~l~~~~~Ev~~R~~gEk~~i~~~~~~~~~~~ 619 (620)
T TIGR00409 560 DRNERAGVKFRDKLSELIGIPLRVVVGKKNLDNGEIEVKKRRNGEKQLIKKDELVEVLEE 619 (620)
T ss_pred HHHCCCCCCHHHHHHHHCCCCEEEEECCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHC
T ss_conf 010235551566777755987199975621677516898615510457778999998622