HHsearch alignment of GI: 254780608 and MMDB domain: 1v9f_A_
>1v9f_A (A:) Ribosomal large subunit pseudouridine synthase D; RNA binding, lyase; 1.70A {Escherichia coli}
Probab=100.00 E-value=0 Score=453.24 Aligned_cols=300 Identities=25% Similarity=0.368 Sum_probs=235.6
Q ss_pred EEE-EEECHHHCCCCHHHHHHHHCCCCCHHHHHHHHHCCCCEECCEEECCCCCCCC-CCEEEEECCCCCCCCCCCCCCCC
Q ss_conf 049-9984113686689999987678898999999984990388788451121179-98899935655422233222234
Q gi|254780608|r 7 VQY-VVVENDEENMRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRVKFNNRIQS-GQVVRIPPVINALNHIIKEQKIL 84 (346)
Q Consensus 7 ~~~-~~V~~~~~g~RLd~~L~~~~~~~sr~~~~~lir~G~V~VNG~~vk~~~~v~~-GD~I~i~~~~~~~~~~~~~~~~~ 84 (346)
|++ ++|+++++|+|||+||++.++++||+.++++|++|+|+|||+++...+.+.. ++.+........
T Consensus 4 ~~~~~~v~~~~~g~rl~~~L~~~~~~~sr~~~~~~i~~G~V~vng~~~~~~~~~~~~~~~~~~~~~~~~----------- 72 (325)
T 1v9f_A 4 VQLTATVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINAEIEE----------- 72 (325)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EEEEEEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHCCCEEECCEECCCCCEECCCCCEEEECCCCCC-----------
T ss_conf 899999897648866999999866867999999999869989999991783206258989973254332-----------
Q ss_pred CCCCCCCCCCCCCCCEEEEECCCEEEECCCCCCEEECCCCCCCC-CCCCHHHCC--CCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf 55433432223454307861785688417653112235785332-332011011--111001333544534222404621
Q gi|254780608|r 85 DSSVNLTKHSDFLKSILLYEDSKIYVFNKPAGISVQGGSGIAYH-IDGFLKSWV--DSKGQKPRLTHRLDQETSGILVVA 161 (346)
Q Consensus 85 ~~~~~~~~~~~~~~~~IiyED~~livinKPaGl~vhp~~g~~~~-~~~~l~~~~--~~~~~~~~lVHRLDr~TSGlll~A 161 (346)
.........+..|||||++++|+|||+|++|||+.+.... +...+.... ......+++|||||++||||||+|
T Consensus 73 ----~~~~~~~~~~~~il~ed~~~ivvnKP~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vhRLD~~TSGlll~A 148 (325)
T 1v9f_A 73 ----EARFEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVA 148 (325)
T ss_dssp -------CCCCCCCCCEEEECSSEEEEEECSSCCSSCBTTBSSSSHHHHHHHHCGGGGGSGGGGBCCCCCTTCEEEEEEE
T ss_pred ----CCCCCCCCCCCCEEEECCCEEEEECCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCCEEEEECCCCCCCCCEEEE
T ss_conf ----2233334454112510110578707888654898777888632321134443333342146532588986514664
Q ss_pred CCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHCCCC
Q ss_conf 23101222102333322111200013456541000000012234655432111335555555303430101343202442
Q gi|254780608|r 162 RTRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEKGANYAISHFKVIDCFAQKFC 241 (346)
Q Consensus 162 K~~~a~~~l~~~f~~~~v~K~Y~Aiv~G~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~k~a~T~~~vl~~~~~~~s 241 (346)
||..+++.|+.+|+.+.+.|+|+|+|.|.+....+.+..+........ .......++.|.|+|.+..... .+|
T Consensus 149 k~~~~~~~l~~~~~~~~~~K~Y~a~v~g~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~~~-~~s 221 (325)
T 1v9f_A 149 KTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRT------HMAVHPMGKPAVTHYRIMEHFR-VHT 221 (325)
T ss_dssp SSHHHHHHHHHHHHTTCSEEEEEEEEESCCCCCEEEECCEEECSSCTT------CEEECTTSBCCEEEEEEEEECS-SEE
T ss_pred CCHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCCC------EEEECCCCCEEEEEEEEEEECC-CCE
T ss_conf 025889999987501210124234301354745662355335766653------0587688715789989865338-845
Q ss_pred EEEEEECHHHHHHHHHHHHHCCCCEECCCCCCCCCCCH--------HCCCCCCCHHHHHHHHEEECCCCC-EEEEECCCC
Q ss_conf 04578612378999999996398000464446652210--------001344624131100043758896-499983997
Q gi|254780608|r 242 WLEMQPHTGRTHQLRVHALHMGCPIVGDHKYCANFKGN--------FTSPIQNKLYLHARYMDLPHPEGG-RLQITAPLP 312 (346)
Q Consensus 242 lv~~~l~TGR~HQIRvhl~~~g~PivGD~~Yg~~~~~~--------~~~~~~~r~~LHa~~l~f~hp~~~-~~~~~aplP 312 (346)
+++|+|.|||+||||+||+++||||+||.+||...... .......+++|||+.++|+||.++ .+.|+||+|
T Consensus 222 l~~~~~~TGR~HQIR~hla~~G~PIvGD~~Yg~~~~~~~~l~~g~~~~~~~~~~~~Lha~~l~~~~p~~~~~~~~~ap~P 301 (325)
T 1v9f_A 222 RLRLRLETGRTHQIRVHMAHITHPLVGDPVYGGRPRPPKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEWHAPIP 301 (325)
T ss_dssp EEEEEESCCCTTHHHHHHHHTTCCBTTCTTTTCCCCCCTTCCHHHHHHHHHCCSCSEEEEEEEEECTTTCCEEEEECCCC
T ss_pred EEEEEECCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCHHHHCCCCEEECCCCCCEEEEEECCH
T ss_conf 79999778831799999998399766877789855454433166777651586434653705857789998899991797
Q ss_pred HHHHHHHHHHCCCCCC
Q ss_conf 8999999980898752
Q gi|254780608|r 313 AHMVKTWDSLGFKYDR 328 (346)
Q Consensus 313 ~~f~~~l~~l~~~~d~ 328 (346)
++|..+|+.|+++.+.
T Consensus 302 ~~f~~~l~~l~~~~~~ 317 (325)
T 1v9f_A 302 QDMVELIEVMRADFEE 317 (325)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
T ss_conf 9999999997307765