>cd02568 PseudoU_synth_PUS1_PUS2 PseudoU_synth_PUS1_PUS2: Pseudouridine synthase, PUS1/ PUS2 like. This group consists of eukaryotic pseudouridine synthases similar to Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus2p, 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 Pus1p 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 are psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. Mouse Pus1p makes psi27/28 in pre- tRNASer , tRNAVal and tRNAIle, psi 34/36 in tRNAIle and, psi 32 and potentially 67 in tRNAVal. Psi44 in U

Probab=100.00 E-value=0 Score=492.22 Aligned_cols=223 Identities=26% Similarity=0.397 Sum_probs=197.4 Q ss_pred EEEEECCCCCEEEEECCCC-CCHHHHHHHHHHHH---------HCCCEEEEECCCCCCCCEEEEEEEEEEECC-----CC Q ss_conf 9999716687200487538-77889999999997---------099569997112138612223468864063-----21 Q gi|254780295|r 6 MIIEYNGSGYFGWQRQKNG-SSIQGSIEKAIFLV---------TGEIVVVHGAGRTDSGVHALRQVAHFDLVR-----EW 70 (247) Q Consensus 6 ~~i~YdGt~y~G~q~Q~~~-~TVq~~le~aL~~~---------~~~~~~~~~a~RTD~GVhA~~qv~~f~~~~-----~~ 70 (247) T Consensus 1 l~i~YdGt~f~G~Q~Q~~~~~TVq~~le~aL~k~~~i~~~~~~~~~~i~~~~agRTDaGVHA~~qv~~f~~~~~~~~~~~ 80 (245) T cd02568 1 LLFGYCGTGYHGMQYNPGNYKTIEGELERALVKAGAISESNAGDPKKIGFSRAARTDKGVHAARNVVSLKVIIDDPEGLG 80 (245) T ss_pred CEEEEECCCEEEEEECCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEEECCCCCCCCCC T ss_conf 98999789820880889999898999999999802544322357735788761467687120400899964567731227 Q ss_pred CCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEECCCCEEEEEEEEECCCCCHHHHHHCCCCCCCCCHHHHHHHHHHHH Q ss_conf 10468999998618887654344322677755000210022355685244320233321024433333566556567652 Q gi|254780295|r 71 VPVILCKALNAYLKISDTISILNLSIVDKQFHARFSAIRRSYLYRIITRQAPLALEKGRAWLIPKSLDCENMRIAAQHLV 150 (247) Q Consensus 71 ~~~~~~~~lN~~L~~p~~Irv~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~lD~~~l~~a~~~l~ 150 (247) T Consensus 81 ~~~~~~~~lN~~L--P~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~ip~~~~---------------~~~~~m~~a~~~~~ 143 (245) T cd02568 81 IGEDLVEKLNSHL--PEDIRVFGITRVTKSFNARKACDSRTYEYLLPTFAL---------------ETLDRFNEILKLYV 143 (245) T ss_pred CHHHHHHHHHHHC--CCCEEEEEEEECCCCCCCCHHHHHCCEEEECCCCCC---------------CHHHHHHHHHHHHH T ss_conf 9999999998229--998599999988999875631343016897753342---------------66999999999853 Q ss_pred CCHHEEEECCC-CCCCCCCCCCCCCCCCCCC------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH Q ss_conf 00110010245-6553332110331111233------3200113158888999999999999999768998889999983 Q gi|254780295|r 151 GRHDFTTFRSI-HCQASSPIRTIDHFDVNSF------GNLIEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQ 223 (247) Q Consensus 151 G~HdF~~F~~~-~~~~~~~~R~I~~~~v~~~------~~~i~i~i~g~~FL~~mVR~mVG~li~v~~g~~~~~~i~~~L~ 223 (247) T Consensus 144 G~HDF~~F~~~~~~~~~~~~r~i~~i~~~~~~~~~~~~~~i~i~i~g~~FL~~mVR~mVGtL~~vg~g~~~~~~i~~ll~ 223 (245) T cd02568 144 GTHNFHNFTVRKKFEDPSANRFIISFYVSEPFVIEEGLEWVSIEIHGQSFMLHQIRKMIGLAIAIVRGGAPESLIDLSFN 223 (245) T ss_pred CCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEEECCCCEEEEEEEEEHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHC T ss_conf 86476244656777899984589999998635523896499999994365898899999999999879999899999966 Q ss_pred CCCCCCCCCCCCCCCCEEEEEEE Q ss_conf 58821166636989847633043 Q gi|254780295|r 224 AQDRKECGPLAPPEGLYFDSVEY 246 (247) Q Consensus 224 ~~~r~~~~~~APa~GL~L~~V~Y 246 (247) T Consensus 224 -~~~~~~~~~APa~GL~L~~v~Y 245 (245) T cd02568 224 -KAKRIIIPLAPGLGLLLEYPHF 245 (245) T ss_pred -CCCCCCCCCCCCCCCEECCCCC T ss_conf -8754576887998777845699

HHsearch alignment for GI: 254780295 and conserved domain: cd02568