HHsearch alignment for GI: 254780610 and conserved domain: cd02870
>cd02870 PseudoU_synth_RsuA_like Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this family are bacterial proteins.
Probab=100.00 E-value=4.6e-33 Score=216.80 Aligned_cols=143 Identities=23% Similarity=0.339 Sum_probs=109.4
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 yi~lnKP~G~~~~~~~~~~~~tv~~ll~~~----------~~~l~~V~RLD~~TsGLll~t~d~~~~~~l~~------~~ 64 (146)
T cd02870 1 YLLLNKPRGVVSTVRDPEGRPTVLDLLKDV----------GERLFPVGRLDYDTEGLLLLTNDGELANRLTH------PR 64 (146)
T ss_pred CEEEECCCCCEECCCCCCCCCCHHHHHHHC----------CCCEEECCCCCCCCCCEEEEECCHHHHHHHHC------CC
T ss_conf 989999998286166998998578954305----------78672266689778765999579899998754------03
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 65 ~~i~K~Y~a~v~g~~~~~~~~-----------~~~~g---~~~~~~~~~~~~~~~~~~-----~~~~s~l~v~l~tGR~h 125 (146)
T cd02870 65 YGVEKTYLVKVRGVPSEEELR-----------RLRAG---VELDDGKTAPAKVKVLSR-----DPKNTLLEVTLHEGRNR 125 (146)
T ss_pred CCCCEEEEEEEECCCCHHHHH-----------HHHCC---EECCCCEEEEEEEEEECC-----CCCCEEEEEEECCCCHH
T ss_conf 542469999990269999999-----------98666---455898872148998237-----89959999997899439
Q ss_pred HHHHHHHHHCCEEECCCC
Q ss_conf 999999870978604154
Q gi|254780610|r 259 QIRVHMAHKGNPLIGDPL 276 (340)
Q Consensus 259 QIRvhla~lG~PIvGD~~ 276 (340)
T Consensus 126 QIR~h~~~lg~pI~~L~R 143 (146)
T cd02870 126 QVRRMFEAVGHPVLRLKR 143 (146)
T ss_pred HHHHHHHHCCCEEEEEEE
T ss_conf 999999984997967999