HHsearch alignment for GI: 254780406 and conserved domain: cd02563

>cd02563 PseudoU_synth_TruC tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not universally conserved.
Probab=99.73  E-value=2.9e-18  Score=134.84  Aligned_cols=154  Identities=19%  Similarity=0.195  Sum_probs=100.3

Q ss_pred             CCCCEEEEECCCCCEEEECCCCCCCCCC--CCEEECCC-CCCEECCCCCCCCCCCEEEECCCCCCCCCCCC--CCCCCEE
Q ss_conf             5564389602787515631443333644--21011023-43200266554332320222367641000123--4457404
Q gi|254780406|r   69 KAERTRLWLYHKPIGLVTTHSDPDGRST--VFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLARVLEL--PSTQWLR  143 (354)
Q Consensus        69 ~~~~~~~~~~~KP~g~~~~~~~~~~~~~--~~~~~~~~-~~~~~~vgRLD~~t~GLlllTndg~l~~~l~~--p~~~~~k  143 (354)
T Consensus         4 vyED~~ilvvnKP~Gl~~hp~~~~~~~~~~~~~~~~~~~~~~~~~vHRLDr~TSGllv~Ak~~~a~~~l~~~f~~~~v~K   83 (223)
T cd02563           4 LYQDEHLVAINKPSGLLVHRSELDRHETRFALQTLRDQLGQHVYPVHRLDRPTSGVLLFALSSEVARKLGEQFTEHRVHK   83 (223)
T ss_pred             EEECCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCEECCCCCCCCCEEEEECCHHHHHHHHHHHHHCCCCC
T ss_conf             99679999999999982658999988369999998875378753404778987635999845899999999987551122


Q ss_pred             EEEEEECCCCCHHHHHH--H-------HHHHHCCCEEEECC--CEEEE-----------ECCCCEEEEEEEEEECCHHHH
Q ss_conf             77521124556467888--7-------40000087675034--30364-----------026880799999951842899
Q gi|254780406|r  144 VYRVRFHGQVDQDKLNL--L-------KKGIVIQGICYGDM--QVTLD-----------TQKGSNAWVTVGLREGKNREI  201 (354)
Q Consensus       144 ~Y~v~v~~~~~~~~~~~--~-------~~g~~~~~~~~~~~--~~~~~-----------~~~~~~~~~~v~l~eGr~~qI  201 (354)
T Consensus        84 ~Y~Alv~G~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~slv~~~~~TGRtHQI  163 (223)
T cd02563          84 TYLAVVRGYVPESGTIDYPLSEELDKLADKFASDDKAPQAATTHYRLLAVEELPVVVGKYPTSRYSLVELTPHTGRKHQL  163 (223)
T ss_pred             EEEEEEEEECCCCCEEEEECCCCCCCCCCEEEECCCCCCCEEEEEEEEEEEECCEEECCCCCCCEEEEEEEECCCCHHHH
T ss_conf             69999984079998798654546775563687427887634889887655320001011477747999999676870899


Q ss_pred             HHHHHHCCCEEEEEEEEEECCEE
Q ss_conf             99999839868688975870545
Q gi|254780406|r  202 KKVFEFFNWKVNRLIRISYGPFQ  224 (354)
Q Consensus       202 rr~~~~~g~~V~~L~Rv~~G~~~  224 (354)
T Consensus       164 RvHla~lG~PIvGD--~~YG~~~  184 (223)
T cd02563         164 RRHLAHIRHPIIGD--TTHGDGR  184 (223)
T ss_pred             HHHHHHCCCCEECC--CCCCCCC
T ss_conf             99999879978277--2568754