HHsearch alignment for GI: 254780295 and conserved domain: cd00497
>cd00497 PseudoU_synth_TruA_like PseudoU_synth_TruA: Pseudouridine synthase, TruA family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruA, Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus3p Caenorhabditis elegans Pus1p and human PUS1. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae PUS1 catalyzes the formation of psi34 and psi36 in the intron containing tRNAIle, psi35 in the intron containing tRNATyr, psi27 and/or psi28 in several yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear RNA (U2 snRNA). The presence of the intron is required for the formation of psi 34, 35 and 36. In addition S. cerevisiae PUS1 makes psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Psi44 in U2 snRNA and, psi38 and psi39 in tRNAs are highly ph
Probab=100.00 E-value=0 Score=514.10 Aligned_cols=219 Identities=34% Similarity=0.499 Sum_probs=204.7
Q ss_pred EEECCCCCEEEEECCCCCCHHHHHHHHHHHHH----CCCEEEEECCCCCCCCEEEEEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf 99716687200487538778899999999970----99569997112138612223468864063211046899999861
Q gi|254780295|r 8 IEYNGSGYFGWQRQKNGSSIQGSIEKAIFLVT----GEIVVVHGAGRTDSGVHALRQVAHFDLVREWVPVILCKALNAYL 83 (247)
Q Consensus 8 i~YdGt~y~G~q~Q~~~~TVq~~le~aL~~~~----~~~~~~~~a~RTD~GVhA~~qv~~f~~~~~~~~~~~~~~lN~~L 83 (247)
T Consensus 1 i~YdGt~f~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~i~~agRTDaGVHA~~qv~~f~~~~~~--~~~~~~lN~~L 78 (224)
T cd00497 1 IAYDGWKYHGFQRQPDVPTVEGELFKALLKTGLIESPKPSNYSRAGRTDKGVSALGQVVSLETRSKL--KPYPDILNGLL 78 (224)
T ss_pred CEECCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCCEEEEECCCCC--HHHHHHHHHHC
T ss_conf 9476888207877888989999999999973342378705899733566782415558999877772--77999998359
Q ss_pred CCCCCCCCCCCCCCCCCCCCEECCCCEEEEEEEEECCCCCHHHHHHCCCCCCCCCHHHHHHHHHHHHCCHHEEEECCCCC
Q ss_conf 88876543443226777550002100223556852443202333210244333335665565676520011001024565
Q gi|254780295|r 84 KISDTISILNLSIVDKQFHARFSAIRRSYLYRIITRQAPLALEKGRAWLIPKSLDCENMRIAAQHLVGRHDFTTFRSIHC 163 (247)
Q Consensus 84 ~~p~~Irv~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~lD~~~l~~a~~~l~G~HdF~~F~~~~~ 163 (247)
T Consensus 79 --p~dI~v~~~~~v~~~FhaR~~a~~r~Y~Y~~~----------------~~~ld~~~m~~a~~~~~G~HDF~~F~~~~~ 140 (224)
T cd00497 79 --PKDIRVLAWAPVPEDFHARFSCVSRTYRYYFP----------------GGDLDIEAMREAAKLLLGTHDFRNFCKKDG 140 (224)
T ss_pred --CCCCEEEEEEECCCCCCCCCCCCCEEEEEEEC----------------CCCCCHHHHHHHHHHHCCCCCHHHHHCCCC
T ss_conf --89878989999288766443787269999675----------------898779999999998048534786217688
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCC-CCCCCCCCCCCEEE
Q ss_conf 53332110331111233320011315888899999999999999976899888999998358821-16663698984763
Q gi|254780295|r 164 QASSPIRTIDHFDVNSFGNLIEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQAQDRK-ECGPLAPPEGLYFD 242 (247)
Q Consensus 164 ~~~~~~R~I~~~~v~~~~~~i~i~i~g~~FL~~mVR~mVG~li~v~~g~~~~~~i~~~L~~~~r~-~~~~~APa~GL~L~ 242 (247)
T Consensus 141 ~~~~~vRtI~~~~v~~~~~~~~i~i~g~~FL~~mVR~mvGtl~~vg~gk~~~~~i~~~l~~~~~~~~~~~~APa~GL~L~ 220 (224)
T cd00497 141 RKKNPVRTIISAEVEEVDDFYVFEVKGKSFLWHQVRRIVAALFLVGQGLEPPSIISRLLDEEKRPSKPQYPAPPEPLVLW 220 (224)
T ss_pred CCCCCEEEEEEEEEEECCCEEEEEEHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCEEE
T ss_conf 89996599999999977989999980788999999999999999987999999999998478865569887899887893
Q ss_pred EEEE
Q ss_conf 3043
Q gi|254780295|r 243 SVEY 246 (247)
Q Consensus 243 ~V~Y 246 (247)
T Consensus 221 ~V~Y 224 (224)
T cd00497 221 DCKY 224 (224)
T ss_pred EEEC
T ss_conf 2499