HHsearch alignment for GI: 254781004 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=468.41 Aligned_cols=359 Identities=22% Similarity=0.358 Sum_probs=310.4
Q ss_pred HHHHHHHHHHHHHHHHHHHCCEEEECCCCCCEEEEECCHHHHHHHHHHHHHHHHHC--------------------CCEE
Q ss_conf 99999975320088754114404422678743565010789999999999988768--------------------9638
Q gi|254781004|r 234 YLYFLEESEKRDHRKLAREMDLFHIAEDGSGVIFWHRKGWKIFQTLISYMRRKIKD--------------------DYEE 293 (652)
Q Consensus 234 ~~~~~eea~~rdHr~lg~~~~lf~~~~~~~G~~~wlP~G~~i~~~ie~~ir~~~~~--------------------G~~e 293 (652)
T Consensus 12 Y~~il~kAel~d~R------------ypVKG~~v~~P~g~~iw~~iq~~~~~~~~~~~~~~~~~L~~F~P~~~~~Y~h~~ 79 (533)
T TIGR00408 12 YDQILQKAELIDYR------------YPVKGCYVFLPYGFKIWENIQKILRDKLDEIKLKDKVILKKFIPIESLPYGHEE 79 (533)
T ss_pred HHHHHHCCEEEEEC------------CCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHH
T ss_conf 89987305576641------------760103784598778999999999999987643546766405677777777001
Q ss_pred EECCCCCCCCCCCC-CCCCCCCCCCCCEEECCCCCCCCCCEEEECCCCHHHHHHHHHHCCCCHHHCCHHHHHHEEEECCC
Q ss_conf 55543244310001-12100125554201001456777823774343125777765201222231043200010001278
Q gi|254781004|r 294 INTPQVLDQHLWQQ-SGHWDSYRANMFAVKCADDTIKDLRTFALKPMNCPGHVAVFNHGLKSYRELPVRLAEFGSVYRNE 372 (652)
Q Consensus 294 V~tP~l~~~~Lw~~-SGh~~~y~~~mf~~~~~~~~~~~~~~~~LkPmncp~h~~i~~~~~~SYrdLPlrl~e~~~~~R~E 372 (652)
T Consensus 80 v~fP~L~p~~~L~KEk~HikGF~pEv~wi~~-~G~~~L~~pLaLRPTSEt~~y~m~~kWv~sy~DLPlk~nQw~~vfR~E 158 (533)
T TIGR00408 80 VYFPMLIPESELEKEKDHIKGFEPEVYWITH-GGLKKLDEPLALRPTSETAMYNMYKKWVKSYRDLPLKINQWVNVFRYE 158 (533)
T ss_pred EECCCCCCHHHHHHHCCCCCCCCCHHHHEEC-CCCCCCCCCCEECCCCHHHHHHHHHHHHHHCCCCCEEEEEEEEEEECC
T ss_conf 0056445255786321356885840021010-377724675012586178887657878512158876898435889802
Q ss_pred CCCCCEEEEECCCCC-CCCCEE-ECCHHHHHHHHHHHHHHHHHHHH-HHCCCCCEECCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf 764520001056353-344210-10537678878999999887665-521332100014653112586035778999999
Q gi|254781004|r 373 PSGSLHGLMRVRGFT-QDDAHV-FCTKEQMFNECLKIHNLIISIYK-DFGFEKIMVKLSTRPEKRVGSDALWDDAENIMK 449 (652)
Q Consensus 373 ~sg~l~GL~R~ReF~-~~Dah~-F~~~eq~~~e~~~~~~~~~~v~~-~~g~~~~~~~ls~~~~~~~g~~~~~~~ae~~l~ 449 (652)
T Consensus 159 ~kHT-RPflR~rEf~twqE~HT~H~t~~eAee~v~~~~~~Yk~f~~~~LaIP~~~-g~k~E~eKFaGA~~T~-------- 228 (533)
T TIGR00408 159 KKHT-RPFLRTREFLTWQEAHTAHATAEEAEEEVLKALDLYKEFIENLLAIPYFV-GRKSEKEKFAGAEYTW-------- 228 (533)
T ss_pred CCCC-CCCHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEE-ECCCCCCCCCCCCCCE--------
T ss_conf 1787-86102333210100013143777889999999998899975028864687-1488755478876223--------
Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCC-HHHHCCCCCCCEEEEECCCEEEEEEEEECCC
Q ss_conf 999850212125667520555555455432110021103310012110-1110223467416731797213799640341
Q gi|254781004|r 450 GVLDTIKNSSQDRINTGVLLGEGAFYGPKFEYILKDAIGRDWQCGTIQ-VDFNLPSRFNAFYVNSHSEKCHPVMIHRAVF 528 (652)
Q Consensus 450 ~~l~~~~~~~~~~~~~~~~~g~~afygpkid~~~~d~~gr~~~~~tiq-~df~~p~~f~l~y~~~dg~~~~pvmihr~~~ 528 (652)
T Consensus 229 ----------------------------~~e~imP-DgG~~LQ~ATsH~LGqnF~K~F~i~fe~p~Gs~~~~~~ayq~s~ 279 (533)
T TIGR00408 229 ----------------------------TFETIMP-DGGRTLQIATSHDLGQNFAKTFDIKFENPTGSDMDKVYAYQTSY 279 (533)
T ss_pred ----------------------------EEEEECC-CCCEEHHHHHHHHHHCCCEEEEEEEEECCCCCCCCCCCCEECCC
T ss_conf ----------------------------5675247-76500122121133035402036788778889764101001013
Q ss_pred HHHHHHHHHHHHHH----CCCCCCCCCCEEEEEEE-C----C-----HHHHHHHHHHHHHHHHCCCEEEEECCCC-CCCH
Q ss_conf 03789999999973----87088733780899985-7----9-----6689999999999998798899975896-6367
Q gi|254781004|r 529 GSIERFIGIMIENF----KGNLPLWLSPIQAIVTT-I----T-----SSAVEYAQEIANLLKSHHLSIETDFRNE-TINY 593 (652)
Q Consensus 529 Gs~eR~ia~liE~~----~g~~P~wLAP~QV~Iip-i----~-----e~~~eya~~i~~~L~~~girV~~Ddr~~-~~G~ 593 (652)
T Consensus 280 G~StR~igali~~HsD~~GLVLPp~vAp~Qvv~~Pv~IFkK~s~E~~~~~~e~a~~v~~~Lk~~~iRv~~D~~~~~~pG~ 359 (533)
T TIGR00408 280 GISTRVIGALILIHSDEKGLVLPPRVAPIQVVIIPVIIFKKKSDEENKKVMELARKVEDKLKKLGIRVHLDKRDNYRPGK 359 (533)
T ss_pred CHHHHHHHHEEEEECCCCCCCCCCCCCCEEEEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCC
T ss_conf 35788754500012267775167012733589998677558752147789999999998773041007970355753231
Q ss_pred HHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCC--EEEECHHHHHHH-HHHH
Q ss_conf 66655434898899987425325818999889886--633429999999-9873
Q gi|254781004|r 594 KIREHSIKKIPIIIICGDKEASERSIGIRRFGSTT--TQKVSLLDAIPI-LTKE 644 (652)
Q Consensus 594 Kir~a~l~giP~~ivIG~ke~e~~~Vtir~R~~~~--~~~i~lee~i~~-l~~e 644 (652)
T Consensus 360 kf~~~E~kGiPlR~evGP~D~~~n~~~~~rR~~~~kfK~~~~~~~L~~~k~~~~ 413 (533)
T TIGR00408 360 KFSKWELKGIPLRLEVGPNDIEKNIVVVSRRDTKRKFKYQVSLDELEERKVVEL 413 (533)
T ss_pred HHHCCCEEECCEEEEECCCCCCCCEEEEEEECCCCEEEEEEEHHHHHHHHHHHH
T ss_conf 320453330426998777510437689999617713557720545446789999