HHsearch alignment for GI: 254780608 and conserved domain: PRK11180

>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional.
Probab=100.00  E-value=0  Score=571.88  Aligned_cols=298  Identities=25%  Similarity=0.409  Sum_probs=244.9

Q ss_pred             EEEECHHHCCCCHHHHHHHHCCCCCHHHHHHHHHCCCCEECCEEE-CCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCC
Q ss_conf             999841136866899999876788989999999849903887884-5112117998899935655422233222234554
Q gi|254780608|r    9 YVVVENDEENMRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRV-KFNNRIQSGQVVRIPPVINALNHIIKEQKILDSS   87 (346)
Q Consensus         9 ~~~V~~~~~g~RLd~~L~~~~~~~sr~~~~~lir~G~V~VNG~~v-k~~~~v~~GD~I~i~~~~~~~~~~~~~~~~~~~~   87 (346)
T Consensus         8 T~tV~~~~aG~RLD~fL~~~~~~~srs~i~k~ir~g~I~VNgk~v~k~~~~v~~GD~I~i~~~~~~~~------------   75 (325)
T PRK11180          8 TATVSESQLGQRLDQALAELFPDYSRSRIKEWILDQRVLVNGKVINKPKEKVLGGEQVAIDAEIEEEA------------   75 (325)
T ss_pred             EEEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHCCCEEECCEECCCCCCCCCCCCEEEECCCCCCCC------------
T ss_conf             99999100797399999975788899999999986988999999478212788999999816877634------------


Q ss_pred             CCCCCCCCCCCCEEEEECCCEEEECCCCCCEEECCCCCCCC-CCCCHHHCCCC--CCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             33432223454307861785688417653112235785332-33201101111--1001333544534222404621231
Q gi|254780608|r   88 VNLTKHSDFLKSILLYEDSKIYVFNKPAGISVQGGSGIAYH-IDGFLKSWVDS--KGQKPRLTHRLDQETSGILVVARTR  164 (346)
Q Consensus        88 ~~~~~~~~~~~~~IiyED~~livinKPaGl~vhp~~g~~~~-~~~~l~~~~~~--~~~~~~lVHRLDr~TSGlll~AK~~  164 (346)
T Consensus        76 ---~~~p~~~~l~IlyED~~llVvnKP~Gl~vhp~~~~~~~tl~~~l~~~~~~~~~~~r~~iVHRLDr~TSGlll~AK~~  152 (325)
T PRK11180         76 ---RFEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKTV  152 (325)
T ss_pred             ---CCCCCCCCCCEEEECCCEEEEECCCCCEEECCCCCCCCCHHHHHHHHHHHCCCCCCCCEEECCCCCCCEEEEECCCH
T ss_conf             ---47722388518998388999988999447679898887799999875321047876766642799974146641759


Q ss_pred             CHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHCCCCEEE
Q ss_conf             01222102333322111200013456541000000012234655432111335555555303430101343202442045
Q gi|254780608|r  165 AAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEKGANYAISHFKVIDCFAQKFCWLE  244 (346)
Q Consensus       165 ~a~~~l~~~f~~~~v~K~Y~Aiv~G~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~k~a~T~~~vl~~~~~~~slv~  244 (346)
T Consensus       153 ~a~~~l~~~f~~~~v~K~Y~Alv~G~~~-~~g~i~~pl~~~~~~-~~~~----~~~~~gk~A~T~~~vl~~~~-~~slv~  225 (325)
T PRK11180        153 PAQTRLVEALQKREITREYEAVAIGHMT-AGGTVDEPISRHPTK-RTHM----AVHPMGKPAVTHYRIMEHFR-VHTRLR  225 (325)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEEEEEEEC-CCCEEECCCCCCCCC-CEEE----EECCCCEEECCHHHHHHHCC-CCEEEE
T ss_conf             9999999999738896599999810437-996585420137766-6289----97677702022101444358-845799


Q ss_pred             EEECHHHHHHHHHHHHHCCCCEECCCCCCCCCCC------HHC--CCCCCCHHHHHHHHEEECCCCC-EEEEECCCCHHH
Q ss_conf             7861237899999999639800046444665221------000--1344624131100043758896-499983997899
Q gi|254780608|r  245 MQPHTGRTHQLRVHALHMGCPIVGDHKYCANFKG------NFT--SPIQNKLYLHARYMDLPHPEGG-RLQITAPLPAHM  315 (346)
Q Consensus       245 ~~l~TGR~HQIRvhl~~~g~PivGD~~Yg~~~~~------~~~--~~~~~r~~LHa~~l~f~hp~~~-~~~~~aplP~~f  315 (346)
T Consensus       226 ~~l~TGRtHQIRvHla~~G~PIvGD~~YG~~~~~~k~~~~~~~~~~~~~~R~~LHA~~L~f~HP~t~~~~~~~aplP~d~  305 (325)
T PRK11180        226 LRLETGRTHQIRVHMAHITHPLVGDQVYGGRPRPPKGASEEFISTLRKFDRQALHATMLRLYHPITGIEMEWHAPIPQDM  305 (325)
T ss_pred             EEECCCCCHHHHHHHHHCCCCEECCCCCCCCCCCCCCCCHHHHHHHHCCCCHHHHCCCCCCCCCCCCCEEEEECCCCHHH
T ss_conf             98275882899999998799563752468866555443477888761897664631845775789998799980690999


Q ss_pred             HHHHHHHCCCCCC
Q ss_conf             9999980898752
Q gi|254780608|r  316 VKTWDSLGFKYDR  328 (346)
Q Consensus       316 ~~~l~~l~~~~d~  328 (346)
T Consensus       306 ~~~l~~Lr~d~~~  318 (325)
T PRK11180        306 VELIEALRADFEE  318 (325)
T ss_pred             HHHHHHHHHHHHH
T ss_conf             9999998668976