HHsearch alignment for GI: 254780608 and conserved domain: cd02573

>cd02573 PseudoU_synth_EcTruB PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruB and M. tuberculosis TruB make psi55 in the T loop of tRNAs. Psi55 is nearly universally conserved. E. coli TruB is not inhibited by RNA containing 5-fluorouridine.
Probab=95.31  E-value=0.0087  Score=37.63  Aligned_cols=69  Identities=25%  Similarity=0.367  Sum_probs=45.8

Q ss_pred             CEEEECCCCCCEEECCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCEEEEECCCCHHHHHCCCCCCCCCCCCCCCC
Q ss_conf             56884176531122357853323320110111110013335445342224046212310122210233332211120001
Q gi|254780608|r  107 KIYVFNKPAGISVQGGSGIAYHIDGFLKSWVDSKGQKPRLTHRLDQETSGILVVARTRAAAQHLTESFRMRRIQKIYWSL  186 (346)
Q Consensus       107 ~livinKPaGl~vhp~~g~~~~~~~~l~~~~~~~~~~~~lVHRLDr~TSGlll~AK~~~a~~~l~~~f~~~~v~K~Y~Ai  186 (346)
T Consensus         1 G~l~i~Kp~g~tS~~-------~v~~~k~~~~~--kKvGH~GTLDP~AtGvL~i~~g~-aT-Kl~~~~~~--~~K~Y~~~   67 (277)
T cd02573           1 GILLLDKPAGLTSHD-------VVQKVRRLLGT--KKVGHTGTLDPLATGVLPIALGE-AT-KLSQYLLD--ADKTYRAT   67 (277)
T ss_pred             CEEEEECCCCCCHHH-------HHHHHHHHHCC--CCCCCCCCCCCCCCCEEEEEECH-HH-HHHHHHCC--CCCEEEEE
T ss_conf             989996799999899-------99999998588--85563757797660337899888-87-05278678--99179999


Q ss_pred             CC
Q ss_conf             34
Q gi|254780608|r  187 VW  188 (346)
Q Consensus       187 v~  188 (346)
T Consensus        68 ~~   69 (277)
T cd02573          68 VR   69 (277)
T ss_pred             EE
T ss_conf             99