HHsearch alignment for GI: 254780608 and conserved domain: TIGR00093
>TIGR00093 TIGR00093 conserved hypothetical protein; InterPro: IPR000748 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. Several bacterial proteins from the Rsu family of pseudouridine synthases have been shown to share regions of similarities, including Escherichia coli and Haemophilus influenzae 16S pseudouridylate 516 synthase (gene rsuA); E. coli hypothetical proteins yciL and ymfC and the corresponding H. influenzae proteins HI1199 and HI0694 respectively; Aquifex aeolicus hypothetical proteins AQ_554 and AQ_1464; Bacillus subtilis hypothetical proteins ypuL and ytzF; Borrelia burgdorferi hypothetical protein BB0129; Helicobacter pylori hypothetical protein HP1459; and Synechocystis sp. (strain PCC 6803) hypothetical proteins slr0361 and slr0612. These are proteins of from 25 to 40 kD which contain a number of conserved regions in their central section.; GO: 0003723 RNA binding, 0004730 pseudouridylate synthase activity, 0001522 pseudouridine synthesis.
Probab=99.60 E-value=1.1e-15 Score=119.08 Aligned_cols=155 Identities=19% Similarity=0.260 Sum_probs=97.3
Q ss_pred CCCCCCEEECCCCCCCC-CCCCHHHCCCCCCCCCCCCCCCCCCCCCEEEEECCCCHHHHHCCCCCCCCCCCCCCCCCCCC
Q ss_conf 17653112235785332-33201101111100133354453422240462123101222102333322111200013456
Q gi|254780608|r 112 NKPAGISVQGGSGIAYH-IDGFLKSWVDSKGQKPRLTHRLDQETSGILVVARTRAAAQHLTESFRMRRIQKIYWSLVWGI 190 (346)
Q Consensus 112 nKPaGl~vhp~~g~~~~-~~~~l~~~~~~~~~~~~lVHRLDr~TSGlll~AK~~~a~~~l~~~f~~~~v~K~Y~Aiv~G~ 190 (346)
T Consensus 1 nKP~g~l~~~~Dp~~r~~~~~~l~~~~-~~~~~~~a~GRLD~ds~GLlLLT~~G~L~~RL~~--p~~~~eK~Y~V~v~g~ 77 (185)
T TIGR00093 1 NKPQGVLCTTDDPEGRKTVKDLLPKKL-IRGKRLHAVGRLDRDSEGLLLLTNDGELQHRLTH--PKFHHEKTYLVTVEGP 77 (185)
T ss_pred CCCCCEEECCCCCCCCCEEEECCCHHH-HCCCCEEEEECCCCCCCCEEEECCCHHHHHHHHC--CCCCCCCEEEEEECCC
T ss_conf 998504435849887723500452023-1057467740267456203899069799998717--6435896699995598
Q ss_pred CCCCCC--CCCCCCCCCCCCC--CCCCCCCCCCCCCCCEEEEECCHHHHHHCCCCEEEEEECHHHHHHHHHHHHHCCCCE
Q ss_conf 541000--0000122346554--321113355555553034301013432024420457861237899999999639800
Q gi|254780608|r 191 PKNKKE--CIANWLLKKSHIG--GDYVHVVKQNEKGANYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPI 266 (346)
Q Consensus 191 ~~~~~~--~i~~~~~~~~~~~--~~~~~~~~~~~~~~k~a~T~~~vl~~~~~~~slv~~~l~TGR~HQIRvhl~~~g~Pi 266 (346)
T Consensus 78 v~~~~~~~~~~Gv~L~~~~~~tk~a~~~~~~~~~~-~-~pr~ppir~r~-~i~~S~l~~tl~EGRNRqvRRm~a~~G~~V 154 (185)
T TIGR00093 78 VTDEDLEALRKGVQLEDGKTLTKPAKLKVISEPED-L-WPRNPPIRERK-SIPTSWLRVTLTEGRNRQVRRMFAAVGFPV 154 (185)
T ss_pred CCHHHHHHHHCCCEECCCCCCCCCEEEEEECCCCC-C-CCCCCCEEECC-CCCCCEEEEEEEECCCHHHHHHHHHHCCEE
T ss_conf 58889989871760058735644237787067131-3-56787312003-688225899996087068878889838903
Q ss_pred ECCCCC
Q ss_conf 046444
Q gi|254780608|r 267 VGDHKY 272 (346)
Q Consensus 267 vGD~~Y 272 (346)
T Consensus 155 ~~L~R~ 160 (185)
T TIGR00093 155 LRLHRV 160 (185)
T ss_pred EEEEEE
T ss_conf 478988