HHsearch alignment for GI: 254780610 and conserved domain: cd02555
>cd02555 PSSA_1 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family. This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. The TruA family is comprised of proteins related to Escherichia coli RsuA.
Probab=99.52 E-value=3.2e-14 Score=104.54 Aligned_cols=145 Identities=21% Similarity=0.269 Sum_probs=84.3
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 6 yllLnKP~G~v~t~~d~~~~~~~~~~~-~~~-~~~~l~~~~~rl~pVGRLD~~s~GLLllTNDG~l~~~l~-----~-P~ 77 (177)
T cd02555 6 TLLLHKPAGMVSEQALALLGPGQRSAA-DRS-GRRPLKGHFARLAPIGPLDKDASGLLVFSQDGRVLRKLI-----G-DA 77 (177)
T ss_pred EEEEECCCCEECCCCCCCCCCCCCCCC-CCC-CCCCCCCCCCCEEEECCCCCCCCEEEEEECCHHHHHHHC-----C-CC
T ss_conf 999989984870775766787501333-454-100010223662160478999811899918889998754-----9-86
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 78 ~~i~k~Y~V~v~~~~~~~~--l~~-l~--------~Gv~l-~g~~~~~~~v~~--~-----~-~---~~~~i~l~eGknr 134 (177)
T cd02555 78 SRLEQEYLVEVRGELTAGG--LER-LN--------HGLTY-DGRELPPAKVSW--Q-----N-E---QRLRFALKEPQPG 134 (177)
T ss_pred CCCCEEEEEEECCCCCHHH--HHH-HH--------CCEEE-CCEEECCEEEEE--E-----C-C---CEEEEEEECCCCH
T ss_conf 6897899999898799999--987-52--------87678-998967869999--5-----7-9---9599999918416
Q ss_pred HHHHHHHHHCCEEECC
Q ss_conf 9999998709786041
Q gi|254780610|r 259 QIRVHMAHKGNPLIGD 274 (340)
Q Consensus 259 QIRvhla~lG~PIvGD 274 (340)
T Consensus 135 qIRrm~~~~g~~V~~L 150 (177)
T cd02555 135 QIRRMCESVGLEVVAL 150 (177)
T ss_pred HHHHHHHHCCCEEEEE
T ss_conf 9999999879979899