HHsearch alignment for GI: 254780608 and conserved domain: cd02550
>cd02550 PseudoU_synth_Rsu_Rlu_like PseudoU_synth_Rsu_Rlu: Pseudouridine synthase, Rsu/Rlu 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=2.1e-38 Score=262.24 Aligned_cols=151 Identities=26% Similarity=0.374 Sum_probs=118.3
Q ss_pred EEEECCCCCCEEECCCCCCCC-CCCCHHHCCCCCCCCCCCCCCCCCCCCCEEEEECCCCHHHHHCCCCCCCCCCCCCCCC
Q ss_conf 688417653112235785332-3320110111110013335445342224046212310122210233332211120001
Q gi|254780608|r 108 IYVFNKPAGISVQGGSGIAYH-IDGFLKSWVDSKGQKPRLTHRLDQETSGILVVARTRAAAQHLTESFRMRRIQKIYWSL 186 (346)
Q Consensus 108 livinKPaGl~vhp~~g~~~~-~~~~l~~~~~~~~~~~~lVHRLDr~TSGlll~AK~~~a~~~l~~~f~~~~v~K~Y~Ai 186 (346)
T Consensus 1 iivvnKP~G~~~~~~~~~~~~~~~~~l~---~~~~~~l~~vhRLDr~TSGlll~ak~~~~~~~l~~~--~~~v~K~Y~a~ 75 (154)
T cd02550 1 ILVLNKPSGLVCHPTDRDRDPTVVVRLD---KLHGPRVHAAGRLDKDTSGLLLLTNDGRLQRRLTEP--RREIEKEYLVT 75 (154)
T ss_pred CEEEECCCCCEEECCCCCCCCCHHHHHH---HHCCCCEEEECCCCCCCCCCEEECCCHHHHHHHHHH--HCCCCEEEEEE
T ss_conf 9999999997185899999970999987---517986137126899997856773798999999850--05650579999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHCCCCEEEEEECHHHHHHHHHHHHHCCCCE
Q ss_conf 34565410000000122346554321113355555553034301013432024420457861237899999999639800
Q gi|254780608|r 187 VWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEKGANYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPI 266 (346)
Q Consensus 187 v~G~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~k~a~T~~~vl~~~~~~~slv~~~l~TGR~HQIRvhl~~~g~Pi 266 (346)
T Consensus 76 v~g~~~~~-~~~~~~~~~~~-------~~~~~~~~~~~~~~t~~~~~~~~~-~~slv~~~l~TGR~HQIR~hl~~~G~PI 146 (154)
T cd02550 76 VRGELDEE-GIEDLATVRRG-------RLSGLVDEGVPLAVTKVRVIGEHG-GTGRLRLTLKTGRTHQIRRHCAAVGFPV 146 (154)
T ss_pred EEEECCHH-HHEECCCCCCC-------CCEEEECCCCEECCCEEEEECCCC-CCEEEEEEECCCCCHHHHHHHHHCCCEE
T ss_conf 98727858-82444456424-------551266599620432889931479-9489999979886699999999869939
Q ss_pred ECCCCC
Q ss_conf 046444
Q gi|254780608|r 267 VGDHKY 272 (346)
Q Consensus 267 vGD~~Y 272 (346)
T Consensus 147 l~l~R~ 152 (154)
T cd02550 147 LRLHRV 152 (154)
T ss_pred EEEEEE
T ss_conf 568998