HHsearch alignment for GI: 254780295 and conserved domain: cd02569
>cd02569 PseudoU_synth_ScPus3 PseudoU_synth_ScPus3-like: Pseudouridine synthase, Saccharomyces cerevisiae Pus3 like. This group consists of eukaryotic pseudouridine synthases similar to S. cerevisiae Pus3p, mouse Pus3p and, human PUS2. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Mouse Pus3p has been shown to makes psi38 and, possibly also psi 39, in tRNAs. Psi38 and psi39 are highly conserved in tRNAs from eubacteria, archea and eukarya.
Probab=100.00 E-value=0 Score=500.32 Aligned_cols=223 Identities=28% Similarity=0.416 Sum_probs=196.2
Q ss_pred EEEEECCCCCEEEEECCCC-CCHHHHHHHHHHHHH----CCCEEEEECCCCCCCCEEEEEEEEEEECCCCCCH-------
Q ss_conf 9999716687200487538-778899999999970----9956999711213861222346886406321104-------
Q gi|254780295|r 6 MIIEYNGSGYFGWQRQKNG-SSIQGSIEKAIFLVT----GEIVVVHGAGRTDSGVHALRQVAHFDLVREWVPV------- 73 (247)
Q Consensus 6 ~~i~YdGt~y~G~q~Q~~~-~TVq~~le~aL~~~~----~~~~~~~~a~RTD~GVhA~~qv~~f~~~~~~~~~------- 73 (247)
T Consensus 1 L~i~YdGt~f~G~Q~Q~~~~~TVqg~Le~aL~k~~~i~~~~~~~~~~agRTDaGVHA~~qv~~f~~~~~~~~~~~~~~~~ 80 (256)
T cd02569 1 LRFAYLGWNYNGFAVQEETTNTVEETLFEALEKTRLIEDRQTSNYSRCGRTDKGVSAFGQVISLDVRSNLKPEDGLDPST 80 (256)
T ss_pred CEEEEECCCCCEEEECCCCCCCHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCC
T ss_conf 98999589800785789999788999999999722645786068983366652432135579999504677521123322
Q ss_pred -----------HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEECCCCEEEEEEEEECCCCCHHHHHHCCCCCCCCCHHHH
Q ss_conf -----------689999986188876543443226777550002100223556852443202333210244333335665
Q gi|254780295|r 74 -----------ILCKALNAYLKISDTISILNLSIVDKQFHARFSAIRRSYLYRIITRQAPLALEKGRAWLIPKSLDCENM 142 (247)
Q Consensus 74 -----------~~~~~lN~~L~~p~~Irv~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~lD~~~l 142 (247)
T Consensus 81 ~~~~~~~~~~~~~~~~LN~~L--P~dIrv~~~~~v~~~FhaR~~a~~R~Y~Y~~~~----------------~~ld~~~m 142 (256)
T cd02569 81 DVKSTADEEELPYCKILNRVL--PPDIRILAWAPVPPDFSARFSCVSRTYRYFFPK----------------GDLDIELM 142 (256)
T ss_pred CCCCCCCCHHHHHHHHHHHCC--CCCEEEEEEEECCCCCCCCCCCCCEEEEEEECC----------------CCCCHHHH
T ss_conf 222122202567999998149--997599999988998885523431699997059----------------98799999
Q ss_pred HHHHHHHHCCHHEEEECCCCC--CCCCCCCCCCCCCCCCC------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 565676520011001024565--53332110331111233------3200113158888999999999999999768998
Q gi|254780295|r 143 RIAAQHLVGRHDFTTFRSIHC--QASSPIRTIDHFDVNSF------GNLIEIRVVARSFLHTQIRSFVGSLKLVGDGKWT 214 (247)
Q Consensus 143 ~~a~~~l~G~HdF~~F~~~~~--~~~~~~R~I~~~~v~~~------~~~i~i~i~g~~FL~~mVR~mVG~li~v~~g~~~ 214 (247)
T Consensus 143 ~~a~~~f~GtHDF~~F~~~~~~~~~~~~~R~i~~~~v~~~~~~~~~~~~~~~~i~g~~FL~~mVR~mVGtL~~vg~G~~~ 222 (256)
T cd02569 143 RKAAKLLLGEHDFRNFCKMDVANQVTNYVRRVLSAEVEPVDQHPDGDGLYYFEVRGSAFLWHQVRCMMAVLFLIGQGLEP 222 (256)
T ss_pred HHHHHHCCCCCCHHHHCCCCCCCCCCCCCEEEEEEEEEECCCCCCCCCEEEEEEEECHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf 99999714861667627778899888874699999999855656887389999993056899899999999999779999
Q ss_pred HHHHHHHHHCCCCCC--CCCCCCCCCCEEEEEEE
Q ss_conf 889999983588211--66636989847633043
Q gi|254780295|r 215 STDLEKALQAQDRKE--CGPLAPPEGLYFDSVEY 246 (247)
Q Consensus 215 ~~~i~~~L~~~~r~~--~~~~APa~GL~L~~V~Y 246 (247)
T Consensus 223 ~~~i~~~L~~~~~~~~~~~~~AP~~GL~L~~V~Y 256 (256)
T cd02569 223 PSVISQLLDVEKNPRKPQYTMASEVPLVLYDCGF 256 (256)
T ss_pred HHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEC
T ss_conf 8999999865567667886789998738998589