HHsearch alignment for GI: 254780610 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=99.57 E-value=4.5e-15 Score=109.61 Aligned_cols=151 Identities=23% Similarity=0.302 Sum_probs=95.5
Q ss_pred ECCCHHHCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHHCCCCCEE
Q ss_conf 62401110456787542100222222102443344443643244443323240572120357888899999721132213
Q gi|254780610|r 103 NKPAGLVVHPAPGNWTGTLVNALLYHCHNNLSSINGVKRPGIVHRLDKDTTGVMVVAKNDLAHQKLSEQFVDHGKSTRLK 182 (340)
Q Consensus 103 nKPaGl~vhp~~~~~~~tl~~~l~~~~~~~~~~~~~~~~~~lVHRLDr~TSGlll~Ak~~~a~~~l~~~f~~~~~~~~v~ 182 (340)
T Consensus 1 nKP~g~l~~~~Dp~~r~~~~~~l~~~~-------~~~~~~~a~GRLD~ds~GLlLLT~~G~L~~RL~~------p~~~~e 67 (185)
T TIGR00093 1 NKPQGVLCTTDDPEGRKTVKDLLPKKL-------IRGKRLHAVGRLDRDSEGLLLLTNDGELQHRLTH------PKFHHE 67 (185)
T ss_pred CCCCCEEECCCCCCCCCEEEECCCHHH-------HCCCCEEEEECCCCCCCCEEEECCCHHHHHHHHC------CCCCCC
T ss_conf 998504435849887723500452023-------1057467740267456203899069799998717------643589
Q ss_pred EEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCEECC----CC-CEEE---CCCCCCCCCEEEEEEC
Q ss_conf 344543202433233211001343444332212344455555-3000012----22-1011---2566775001234431
Q gi|254780610|r 183 RAYYAMVWGIPLPDSGIINAPLGRCKSNRLRRAVKGIDDKTA-DSAITHY----QT-IEIY---NKNSNFAVSLLKCHLE 253 (340)
Q Consensus 183 K~Y~Aiv~G~~~~~~g~i~~~l~~~~~~~~~~~~~~~~~~~~-k~a~T~~----~~-l~~~---~~~~~~~~slv~~~~~ 253 (340)
T Consensus 68 K~Y~V~v~g~v~~~~--~~---------~~~~Gv~L~~~~~~tk~a~~~~~~~~~~~~pr~ppir~r~~i~~S~l~~tl~ 136 (185)
T TIGR00093 68 KTYLVTVEGPVTDED--LE---------ALRKGVQLEDGKTLTKPAKLKVISEPEDLWPRNPPIRERKSIPTSWLRVTLT 136 (185)
T ss_pred CEEEEEECCCCCHHH--HH---------HHHCCCEECCCCCCCCCEEEEEECCCCCCCCCCCCEEECCCCCCCEEEEEEE
T ss_conf 669999559858889--98---------9871760058735644237787067131356787312003688225899996
Q ss_pred HHHHHHHHHHHHHHCCEEECCCCC
Q ss_conf 158999999998709786041544
Q gi|254780610|r 254 TGRTHQIRVHMAHKGNPLIGDPLY 277 (340)
Q Consensus 254 TGRtHQIRvhla~lG~PIvGD~~Y 277 (340)
T Consensus 137 EGRNRqvRRm~a~~G~~V~~L~R~ 160 (185)
T TIGR00093 137 EGRNRQVRRMFAAVGFPVLRLHRV 160 (185)
T ss_pred ECCCHHHHHHHHHHCCEEEEEEEE
T ss_conf 087068878889838903478988