HHsearch alignment for GI: 254780610 and conserved domain: pfam00849
>pfam00849 PseudoU_synth_2 RNA pseudouridylate synthase. Members of this family are involved in modifying bases in RNA molecules. They carry out the conversion of uracil bases to pseudouridine. This family includes RluD, a pseudouridylate synthase that converts specific uracils to pseudouridine in 23S rRNA. RluA from E. coli converts bases in both rRNA and tRNA.
Probab=100.00 E-value=1.2e-39 Score=255.99 Aligned_cols=151 Identities=37% Similarity=0.506 Sum_probs=121.5
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~~TSGlll~ak~~~~~~~l~~~f~----~ 69 (151)
T pfam00849 1 YIVVNKPAGVPVHPTDLSDLLSLTELLLVAE-------LGKFRLYPVHRLDRDTSGLLLLAKDGEAANKLNKLFP----E 69 (151)
T ss_pred CEEEECCCCCEEECCCCCCCCCHHHHHHHHC-------CCCCCEEEECCCCCCCCCEEEECCCHHHHHHHHHHHH----H
T ss_conf 9999999998582189987862888655551-------5997355851778888544786232688888999866----5
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 70 ~~v~K~Y~a~v~g~~-~~~~~~~~~~~~~~~~~~~~---~~~~~~~k~a~t~~~~l~~~~--~~~~~slv~~~l~TGR~H 143 (151)
T pfam00849 70 RKVEKEYLALVDGPE-EEEGTIKAPIKKDKNKVPRR---KKEELDGKKAVTHLRVLRSGS--KIEDVSLVELELVTGRKH 143 (151)
T ss_pred CCCCEEEEEEEECCC-CCCCEEEEECCCCCCCCEEE---EEECCCCCCCCEEEEEEEECC--CCCCEEEEEEEECCCHHH
T ss_conf 355428999996777-87708981011367777279---875699842425999988725--689969999996728379
Q ss_pred HHHHHHHH
Q ss_conf 99999987
Q gi|254780610|r 259 QIRVHMAH 266 (340)
Q Consensus 259 QIRvhla~ 266 (340)
T Consensus 144 QIRvhlas 151 (151)
T pfam00849 144 QIRAHLAA 151 (151)
T ss_pred HHHHHHCC
T ss_conf 99998669