>cd02869 PseudoU_synth_RluCD_like PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and TruA. Pseudouridine synthases catalyze the isomerization of specific uridines in a n RNA molecule to pseudouridines (5-ribosyluracil, psi) requiring no cofactors. E. coli RluC for example makes psi955, 2504 and 2580 in 23S RNA. Some psi sites such as psi1917 in 23S RNA made by RluD are universally conserved. Other psi sites occur in a more restricted fashion, for example psi2819 in 21S mitochondrial ribosomal RNA made by S. cerevisiae Pus5p is only found in mitochondrial large subunit rRNAs from some other species and in gram negative bacteria. The E. coli counterpart of this psi residue is psi2580 in 23S rRNA. psi2604in 23S RNA made by RluF has only been detected in E.coli.

Probab=100.00 E-value=0 Score=322.84 Aligned_cols=185 Identities=52% Similarity=0.795 Sum_probs=153.6 Q ss_pred EEEEECCCHHHCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHHCCC Q ss_conf 78996240111045678754210022222210244334444364324444332324057212035788889999972113 Q gi|254780610|r 99 IIVINKPAGLVVHPAPGNWTGTLVNALLYHCHNNLSSINGVKRPGIVHRLDKDTTGVMVVAKNDLAHQKLSEQFVDHGKS 178 (340) Q Consensus 99 llvinKPaGl~vhp~~~~~~~tl~~~l~~~~~~~~~~~~~~~~~~lVHRLDr~TSGlll~Ak~~~a~~~l~~~f~~~~~~ 178 (340) T Consensus 1 ~lvvnKP~gl~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~vhRLD~~TSGl~l~Ak~~~~~~~l~~~~----~~ 72 (185) T cd02869 1 LLVVNKPAGLPVHPGPGHLTGTLVNALLKLLLLL----GEEFRPGLVHRLDKDTSGLLLVAKNKKAAAKLSKQF----KE 72 (185) T ss_pred CEEEECCCCCCEECCCCCCCCCHHHHHHHHHHHC----CCCCCCCEECCCCCCCCCCEEEECHHHHHHHHHHHH----CC T ss_conf 9999999998364898998858999999999864----899865343478988756188866099999998744----65 Q ss_pred CCEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCCEEECCCCCCCCCEEEEEECHHHHH Q ss_conf 22133445432024332332110013434443322123444555553000012221011256677500123443115899 Q gi|254780610|r 179 TRLKRAYYAMVWGIPLPDSGIINAPLGRCKSNRLRRAVKGIDDKTADSAITHYQTIEIYNKNSNFAVSLLKCHLETGRTH 258 (340) Q Consensus 179 ~~v~K~Y~Aiv~G~~~~~~g~i~~~l~~~~~~~~~~~~~~~~~~~~k~a~T~~~~l~~~~~~~~~~~slv~~~~~TGRtH 258 (340) T Consensus 73 ~~~~K~Y~a~~~g~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~k~a~t~~~~l~~~-----~~~slv~~~~~TGR~H 144 (185) T cd02869 73 RKVKKTYLALVDGKPPEDEGTIDAPLGRKKRKKRA---RVVVSEDGKPAITHYKVLERF-----GNVTLVELQLETGRTH 144 (185) T ss_pred CCEEEEEEEEECCCCCCCCCEEECCEEECCCCCCE---EEEECCCCCEEEEEHHHHHHC-----CCEEEEEEECCCCCHH T ss_conf 64403999996676565765682214415666713---898569984762001345537-----9869999881658779 Q ss_pred HHHHHHHHHCCEEECCCCCCCCCCCCCCCCCCHHHHHHCCCCCHHHHHCEEEE Q ss_conf 99999987097860415447755444334570135544079804432100042 Q gi|254780610|r 259 QIRVHMAHKGNPLIGDPLYGKGFKTKANIVNNNAKSAILSLARQALHAHSLSF 311 (340) Q Consensus 259 QIRvhla~lG~PIvGD~~YG~~~~~~~~~~~~~~~~~~~~~~r~~LHA~~l~f 311 (340) T Consensus 145 QIR~hla~lg~PIvGD~~Yg~~~~~~~------------~~~r~~LHA~~l~f 185 (185) T cd02869 145 QIRVHLASIGHPIVGDPKYGGKASDSP------------GLKRLALHAYRLSF 185 (185) T ss_pred HHHHHHHHCCCCEECCCCCCCCCCCCC------------CCCCHHHCCCCCCC T ss_conf 999999987996748635698533478------------99667334787879

HHsearch alignment for GI: 254780610 and conserved domain: cd02869