HHsearch alignment for GI: 254780316 and conserved domain: TIGR00470
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase; InterPro: IPR005246 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 . All known phenylalanyl-tRNA synthetases, excepting a monomeric mitochondrial form, have an alpha 2 beta 2 heterotetrameric structure. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains but is longer and of unknown function; more generally, it resembles class 2 aminoacyl tRNA ligases. .
Probab=97.48 E-value=0.00031 Score=49.24 Aligned_cols=213 Identities=19% Similarity=0.330 Sum_probs=135.1
Q ss_pred CCCCCCCCCCCCCCCCHHHCHHHHHHHHHCCCCCCHHHHHHHCCCCCCCCCCCCCEEHHHHCCCCCCCCCCCCCCCCCCC
Q ss_conf 00246776432101512211067764321015861134543024444777544310002210354310124620234544
Q gi|254780316|r 531 LEILNPISADMSNMRTSLLPGLLKATGRNVDRAIADFAIFEVSHVYENDTPEGQKYMAAGIRKGSSGIEGSGRLWSDKSE 610 (805)
Q Consensus 531 i~l~NPlS~e~s~lR~SLlp~LL~~~~~N~~r~~~~i~lFEiG~Vf~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 610 (805)
T Consensus 183 fkdLKP~S~t-lTLRSHMTsGWFItLs~i~dk~~lPlKLFSIDRCFRREQ~ED~shLmtYh-SASCVvV----------- 249 (558)
T TIGR00470 183 FKDLKPVSST-LTLRSHMTSGWFITLSSIADKLKLPLKLFSIDRCFRREQKEDASHLMTYH-SASCVVV----------- 249 (558)
T ss_pred HHCCCCCCCC-CCCHHHCCCHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCCCCCCCEE-EEEEEEE-----------
T ss_conf 0016886554-32001010027888987875158971122003231446643531001134-5466785-----------
Q ss_pred CCCCCCCHHHHHHHHHHHHHHCCCCCCEEEECCC--CCCCCCCCEEEEEE------------CCE-EEEEEEEEECHHHH
Q ss_conf 3333146888753111111101453330330588--65678981699998------------792-99999854778999
Q gi|254780316|r 611 ERCRFVDLFDAKADALSVIEPFVSLDSLRFESGA--PSWYHPGRSGIIKT------------SAE-IVLGYFGEFHPNIL 675 (805)
Q Consensus 611 ~~~~~~df~dlKg~v~~ll~~l~~~~~~~~~~~~--~~~~hPgrsa~I~~------------~gk-~iiG~iG~ihP~i~ 675 (805)
T Consensus 250 --deevsvDdGKaVAEgLL~qfGF~-~FrFrpDEKkSKYYiP~TQTEVyAyHPkL~GsstkysdeWiEvATFG~YSPiAL 326 (558)
T TIGR00470 250 --DEEVSVDDGKAVAEGLLEQFGFE-KFRFRPDEKKSKYYIPDTQTEVYAYHPKLKGSSTKYSDEWIEVATFGVYSPIAL 326 (558)
T ss_pred --CCCCCCCCCHHHHHHHHHHHCCC-CCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCEEEEECCCCHHHHH
T ss_conf --77124364268899999870854-475057646454357888505677626456664410476479874343104677
Q ss_pred HHCCCCCCEEEEEEEHHHHHHHHHCCCCCCCCCCCCC----CCCCEEEEEEEEC-CCCC--------HHHHHHHHHHCCC
Q ss_conf 9668799789999878762354520245663136898----8872001899966-8879--------9999999971110
Q gi|254780316|r 676 DFFGLSNPICGFEVYLDSIPISQKKRTKTKKVVHLSS----LHPVKRDLAFIVD-QHIP--------AGTLVNIIKNVDR 742 (805)
Q Consensus 676 ~~~~i~~~v~~~EI~ld~L~~~~~~~~~~~~~~~~s~----fP~v~RDls~iv~-~~v~--------~~~I~~~i~~~~~ 742 (805)
T Consensus 327 a~Y~Id~pVMNLGlGVERlAMIlygy~DVR~MV-YPQiyGE~rLSDrDIA~~irv~~vP~t~~g~~~a~~iv~~~~a-ha 404 (558)
T TIGR00470 327 AKYDIDVPVMNLGLGVERLAMILYGYEDVRKMV-YPQIYGEYRLSDRDIAEMIRVDKVPVTAEGLKLAEEIVETAEA-HA 404 (558)
T ss_pred HHCCCCCCEEECCCHHHHHHHHHHCHHHHHHCC-CCCCCCEEECCHHHHHHHHEECCCCCCHHHHHHHHHHHHHHHH-CC
T ss_conf 416849652225631876787781403343226-8842122312336667450104675228899999999999996-07
Q ss_pred CEEEEEEEEEE-ECCCCCCC
Q ss_conf 03576989876-36779988
Q gi|254780316|r 743 LIDDVTVFDVF-QGKSLGEG 761 (805)
Q Consensus 743 ll~~v~lfDvY-~g~~i~~g 761 (805)
T Consensus 405 d~pSPCSfev~regef~Grr 424 (558)
T TIGR00470 405 DEPSPCSFEVYREGEFLGRR 424 (558)
T ss_pred CCCCCCEEEEEECCCCCCCC
T ss_conf 78889418998422003661