Query 016811
Match_columns 382
No_of_seqs 137 out of 1147
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 03:01:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016811.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016811hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK12434 tRNA pseudouridine sy 100.0 1.2E-75 2.7E-80 557.5 29.8 244 57-354 1-245 (245)
2 COG0101 TruA Pseudouridylate s 100.0 1.1E-75 2.3E-80 561.0 28.7 253 57-363 1-253 (266)
3 PRK00021 truA tRNA pseudouridi 100.0 2.1E-74 4.7E-79 548.9 30.1 244 57-354 1-244 (244)
4 PRK14586 tRNA pseudouridine sy 100.0 3.1E-74 6.8E-79 547.9 29.9 245 57-354 1-245 (245)
5 PRK14588 tRNA pseudouridine sy 100.0 3.3E-74 7.1E-79 555.0 29.9 249 57-356 1-249 (272)
6 cd02570 PseudoU_synth_EcTruA P 100.0 1.1E-72 2.3E-77 535.6 29.2 239 62-354 1-239 (239)
7 TIGR00071 hisT_truA pseudourid 100.0 8.4E-71 1.8E-75 519.0 28.2 227 58-349 1-227 (227)
8 PRK14589 tRNA pseudouridine sy 100.0 6.3E-69 1.4E-73 515.9 27.6 222 59-356 2-227 (265)
9 cd02866 PseudoU_synth_TruA_Arc 100.0 2.1E-68 4.5E-73 500.7 26.7 217 62-354 1-221 (221)
10 cd00497 PseudoU_synth_TruA_lik 100.0 3E-68 6.6E-73 500.6 26.4 219 64-354 1-224 (224)
11 cd02569 PseudoU_synth_ScPus3 P 100.0 4.8E-68 1E-72 508.0 26.4 240 62-354 1-256 (256)
12 cd02568 PseudoU_synth_PUS1_PUS 100.0 5.5E-67 1.2E-71 498.3 23.2 234 62-354 1-245 (245)
13 PLN03078 Putative tRNA pseudou 100.0 5.4E-65 1.2E-69 517.8 27.1 275 60-360 73-424 (513)
14 PRK14587 tRNA pseudouridine sy 100.0 6E-64 1.3E-68 478.5 25.2 213 58-356 1-214 (256)
15 KOG2553 Pseudouridylate syntha 100.0 5.7E-63 1.2E-67 487.1 21.4 263 37-363 30-337 (416)
16 KOG2554 Pseudouridylate syntha 100.0 1.7E-52 3.7E-57 404.1 21.5 251 55-362 63-328 (425)
17 KOG4393 Predicted pseudouridyl 100.0 2E-50 4.3E-55 376.4 18.3 268 56-356 3-278 (295)
18 PF01416 PseudoU_synth_1: tRNA 99.9 4.5E-24 9.8E-29 177.3 -5.2 102 213-355 1-105 (105)
19 PF01416 PseudoU_synth_1: tRNA 97.8 1.1E-06 2.4E-11 72.6 -3.4 82 63-173 2-105 (105)
20 PF10105 DUF2344: Uncharacteri 94.9 0.41 9E-06 44.2 11.6 109 81-220 18-135 (187)
21 TIGR01213 conserved hypothetic 93.1 3.2 7E-05 42.5 14.9 146 80-248 184-335 (388)
22 PRK14554 putative pseudouridyl 75.2 85 0.0018 32.8 14.2 139 81-248 220-368 (422)
23 COG1258 Predicted pseudouridyl 73.5 84 0.0018 32.3 13.2 140 80-248 190-340 (398)
24 COG5011 Uncharacterized protei 43.1 62 0.0013 30.4 5.7 57 98-167 45-101 (228)
25 PF09153 DUF1938: Domain of un 23.1 35 0.00076 27.6 0.6 26 290-315 25-50 (86)
26 PF11688 DUF3285: Protein of u 22.0 41 0.0009 23.8 0.7 7 302-308 12-18 (45)
27 cd01291 PseudoU_synth PseudoU_ 21.7 1.3E+02 0.0029 23.4 3.8 22 97-119 22-43 (87)
No 1
>PRK12434 tRNA pseudouridine synthase A; Reviewed
Probab=100.00 E-value=1.2e-75 Score=557.51 Aligned_cols=244 Identities=35% Similarity=0.583 Sum_probs=227.9
Q ss_pred cceEEEEEEEeCCCceeeeecCC-CCCHHHHHHHHHHHhhCCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCC
Q 016811 57 IQRYLIAVEYIGTRFSGSQKQLN-CRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLP 135 (382)
Q Consensus 57 ~~r~~l~i~Y~Gt~Y~G~Q~Q~~-~~TVqg~Le~AL~k~~~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~ 135 (382)
|+||+|.|+|+||+|+|||+|++ .+|||++||+||.++.++++.+.+|||||+||||++||+||+++..
T Consensus 1 m~~~~l~i~YdGt~y~G~Q~Q~~~~~TVq~~le~aL~~~~~~~~~~~~agRTD~GVHA~~qv~~f~~~~~---------- 70 (245)
T PRK12434 1 MRNIKLTIQYDGSRYKGWQKLGNNDNTIQGKIESVLSEMTGEEIEIIGCGRTDAGVHALNQVANFQTDEK---------- 70 (245)
T ss_pred CceEEEEEEECCCccceEeeCCCCCCCHHHHHHHHHHHHhCCCeEEEEeccCCCCcCccCcEEEEEcCCC----------
Confidence 57899999999999999999996 8999999999999999999999999999999999999999999742
Q ss_pred CCChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHH
Q 016811 136 PHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACK 215 (382)
Q Consensus 136 ~~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~ 215 (382)
.+++.+..+||++|| +||+|+++.+|+++|||||+|++|+|+|+|+.++.+ +||.++++|++...+|+++|++||+
T Consensus 71 -~~~~~l~~~lN~~LP--~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~-~~f~~~~~~~~~~~ld~~~m~~a~~ 146 (245)
T PRK12434 71 -LSEDKIKKYLNEYLP--NDIVVTNVEEVDERFHARYNVKSKTYLYKIWNEKFH-NVFMRKYSMHVNEKLDVKAMKEAAK 146 (245)
T ss_pred -CCHHHHHHHHHccCC--CCeEEEEEEECCCCcccccCCCcEEEEEEEccCCCC-ChhhCCeEEEeCCCCCHHHHHHHHH
Confidence 346789999999998 899999999999999999999999999999988775 8999999999999999999999999
Q ss_pred HcccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEE
Q 016811 216 VLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVI 295 (382)
Q Consensus 216 ~f~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~ 295 (382)
.|+|+|||++|++.+++.++++|+|.++++.+. .+++.|+
T Consensus 147 ~~~G~HDF~~F~~~~~~~~~~~R~I~~~~v~~~----------------------------------------~~~~~i~ 186 (245)
T PRK12434 147 YLVGSHDFTSFTNAKSKKKSTVREIYSIDIMEE----------------------------------------DGFVQIR 186 (245)
T ss_pred HccCCcCHHhhcCCCCCCCCCEEEEEEEEEEEe----------------------------------------CCEEEEE
Confidence 999999999999877667899999999998642 1468999
Q ss_pred EEeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccC
Q 016811 296 ARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKY 354 (382)
Q Consensus 296 I~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y 354 (382)
|+|+||||||||+|||+|++||+|++++++|+++|+.+++....|+|||+||+|++|.|
T Consensus 187 i~g~~FL~~mVR~mvg~ll~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y 245 (245)
T PRK12434 187 VSGNGFLHNMVRIIVGALIEVGLGQLKAEDIKQILEAKDRNQANCTAPASGLYLENVEY 245 (245)
T ss_pred EEecHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcCCcccCCCccCCCCCEEeEeEC
Confidence 99999999999999999999999999999999999998877778999999999999988
No 2
>COG0101 TruA Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-75 Score=561.00 Aligned_cols=253 Identities=44% Similarity=0.626 Sum_probs=235.8
Q ss_pred cceEEEEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhCCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCC
Q 016811 57 IQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPP 136 (382)
Q Consensus 57 ~~r~~l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~ 136 (382)
|+||++.|+|+||+|+|||+||+.+||||+||+||.++.+.++.+.+|||||+||||.+||+||+++..
T Consensus 1 m~ri~l~iaYdGt~f~G~Q~Qp~~~TVQ~~le~aL~~i~~~~~~i~~AGRTD~GVHA~gqv~hfd~~~~----------- 69 (266)
T COG0101 1 MKRIALKIAYDGTRFHGWQRQPNVRTVQGELEKALSKIGGESVRVIGAGRTDAGVHALGQVVHFDTPAD----------- 69 (266)
T ss_pred CceEEEEEEEcCCceeeeccCCCCCCHHHHHHHHHHHhcCCcceeEEecCCCcCccccccEEEEEcCCc-----------
Confidence 568999999999999999999999999999999999999999999999999999999999999999853
Q ss_pred CChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHH
Q 016811 137 HDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKV 216 (382)
Q Consensus 137 ~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~ 216 (382)
..+..+..+||.+|| +||+|+++.+||++|||||+|.+|+|+|+|+....+ +||...++||++.+||+++|++|++.
T Consensus 70 ~~~~~~~~~lN~~Lp--~dI~V~~~~~v~~~FhaRfsa~~R~Y~Y~i~~~~~~-~~~~~~~~~~~~~~ld~~~m~~aa~~ 146 (266)
T COG0101 70 RPLEKLVRALNALLP--PDIRVLDVAEVPDDFHARFSAKSRTYRYIIYNAPLR-PPFLANYVWHVPYPLDLDAMREAAKL 146 (266)
T ss_pred ccHHHHHHHHHhcCC--CCcEEEEEEECCCCCCCcccccceEEEEEEcCccCC-ChhhhcccccccCcCCHHHHHHHHHH
Confidence 124689999999998 799999999999999999999999999999998884 89999999999999999999999999
Q ss_pred cccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEEE
Q 016811 217 LVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIA 296 (382)
Q Consensus 217 f~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~I 296 (382)
|+|+|||+||++.+++..+++|+|++++|.+. .+++.|+|
T Consensus 147 l~G~HDF~sF~~~~~~~~s~vRti~~~~v~~~----------------------------------------~~~i~i~i 186 (266)
T COG0101 147 LLGTHDFTSFRKAGCQSKSPVRTIYRIDVSRD----------------------------------------GDLIVIDI 186 (266)
T ss_pred ccccccchhhccCCCccCCCeEEEEEEEEEec----------------------------------------CCEEEEEE
Confidence 99999999999999888899999999999752 14688999
Q ss_pred EeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccCCCCCCCcch
Q 016811 297 RARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDLPEDDQTD 363 (382)
Q Consensus 297 ~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y~~~~~~~~~ 363 (382)
+|+||||||||+|||+|++||+|++++++|.++|+.+++...+|+|||+||+|++|.|+.++....+
T Consensus 187 ~g~sFL~~mVR~iVg~l~~vg~g~~~~~~i~~ll~~~~r~~~~~~Apa~GL~L~~v~Y~~~~~~~~~ 253 (266)
T COG0101 187 SGNSFLWHMVRNIVGALLLVGRGKRPVEWIKELLEAKDRKLAGPTAPAEGLYLVRVDYPEDFELPED 253 (266)
T ss_pred EeChhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhccCcccCCCCCCCCccEEEeeccCCccccccc
Confidence 9999999999999999999999999999999999987777889999999999999999987776653
No 3
>PRK00021 truA tRNA pseudouridine synthase A; Validated
Probab=100.00 E-value=2.1e-74 Score=548.85 Aligned_cols=244 Identities=45% Similarity=0.646 Sum_probs=228.0
Q ss_pred cceEEEEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhCCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCC
Q 016811 57 IQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPP 136 (382)
Q Consensus 57 ~~r~~l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~ 136 (382)
|+||+|.|+|+||+|+|||+|++.+|||++||+||.+++++++.+.+||||||||||++||+||+++..
T Consensus 1 m~~~~l~i~YdGt~y~G~q~q~~~~TVq~~le~aL~~~~~~~~~~~~agRTD~GVHA~~qvv~~~~~~~----------- 69 (244)
T PRK00021 1 MMRIALTIEYDGTNFHGWQRQPNGRTVQGELEKALSKLAGEPVRVIGAGRTDAGVHALGQVAHFDTPAP----------- 69 (244)
T ss_pred CeEEEEEEEECCCccceeeeCCCCCCHHHHHHHHHHHHhCCCeEEEEEccCCCcccccCcEEEEEeCCC-----------
Confidence 578999999999999999999999999999999999999899999999999999999999999999752
Q ss_pred CChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHH
Q 016811 137 HDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKV 216 (382)
Q Consensus 137 ~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~ 216 (382)
.+++.+...||+.|| +||||+++.+||++|||||+|++|+|+|+|+.+..+ +||.++++|++...+|+++|++||+.
T Consensus 70 ~~~~~~~~~lN~~Lp--~dI~V~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~-~~~~~~~~~~~~~~ld~~~m~~a~~~ 146 (244)
T PRK00021 70 RPPEKWRRALNALLP--DDIAVLWAEEVPDDFHARFSAKARRYRYRIYNRPAR-PPFLRGYVWHYPYPLDVDAMNEAAQY 146 (244)
T ss_pred CCHHHHHHHHHhcCC--CCEEEEEeEecCCCcCcCcCCCceEEEEEEecCCCC-ChhhCCcEEEeCCCCcHHHHHHHHHH
Confidence 346789999999998 899999999999999999999999999999998775 78999999999999999999999999
Q ss_pred cccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEEE
Q 016811 217 LVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIA 296 (382)
Q Consensus 217 f~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~I 296 (382)
|+|+|||+||++.+.+.++++|+|.++++.+. .+++.|+|
T Consensus 147 ~~G~HdF~~F~~~~~~~~~~~R~I~~~~v~~~----------------------------------------~~~~~i~i 186 (244)
T PRK00021 147 LLGEHDFTSFRASGCQSKSPVRTIYEADVTRE----------------------------------------GDFIVFDI 186 (244)
T ss_pred hcCceeeeeeeCCCCCCCCCeEEEEEEEEEEc----------------------------------------CCEEEEEE
Confidence 99999999998776678899999999998641 14689999
Q ss_pred EeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccC
Q 016811 297 RARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKY 354 (382)
Q Consensus 297 ~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y 354 (382)
+|+||||||||+|||+|++||+|+++++.|+++|+++.+....++|||+||+|++|.|
T Consensus 187 ~g~sFL~~qVR~mvg~l~~vg~g~~~~~~i~~~L~~~~~~~~~~~APa~GL~L~~v~Y 244 (244)
T PRK00021 187 SANGFLHNMVRNIVGTLLEVGKGKRPPEDIKELLEAKDRTLAGPTAPAEGLYLVEVDY 244 (244)
T ss_pred EEchhHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhcCCcccCCCccCCCCCEEeeeEC
Confidence 9999999999999999999999999999999999988766678999999999999988
No 4
>PRK14586 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=3.1e-74 Score=547.88 Aligned_cols=245 Identities=36% Similarity=0.551 Sum_probs=226.6
Q ss_pred cceEEEEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhCCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCC
Q 016811 57 IQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPP 136 (382)
Q Consensus 57 ~~r~~l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~ 136 (382)
|+||+|.|+|+||+|+|||+||+.+|||++||+||.+++++++.+.+||||||||||++||+||+++.. .
T Consensus 1 m~~~~l~i~YdGt~f~G~Q~Q~~~~TVq~~le~aL~~~~~~~i~~~~agRTD~GVHA~~qv~~f~~~~~----------~ 70 (245)
T PRK14586 1 MKRVAAVVSYDGSNFFGYQGQPDVRTVQGVFEDALERIFKQRIYTQAAGRTDTGVHANGQVIAFNCPND----------R 70 (245)
T ss_pred CeEEEEEEEEcCCceeeEEECCCCCCHHHHHHHHHHHHhCCCeeEEEecCCccCCCccCcEEEEEecCC----------c
Confidence 578999999999999999999999999999999999999999999999999999999999999999742 0
Q ss_pred CChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHH
Q 016811 137 HDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKV 216 (382)
Q Consensus 137 ~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~ 216 (382)
.+++.+..+||++|| +||+|+++.+|+++|||||+|++|+|+|+|+.++.+ ++|.++++|+++..+|+++|++||+.
T Consensus 71 ~~~~~l~~~lN~~LP--~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~-~~f~~~~~~~~~~~ld~~~m~~a~~~ 147 (245)
T PRK14586 71 MTEEDIKNAMNANLP--DDIYVKKVFEVPKNFHPRFDAKKRIYHYFILTSKEK-NVFLRKYVWWFPYELDLEAMRKAAKY 147 (245)
T ss_pred CCHHHHHHHHHccCC--CCeEEEEEEECCCCcCcccCCCcEEEEEEEecCCCC-ChhhCCceEEeCCCCCHHHHHHHHHH
Confidence 246789999999998 899999999999999999999999999999988766 78999999999999999999999999
Q ss_pred cccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEEE
Q 016811 217 LVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIA 296 (382)
Q Consensus 217 f~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~I 296 (382)
|+|+|||++| +.+++.++++|+|+++++.+.. .++++|+|
T Consensus 148 l~G~HDF~~F-~~~~~~~~~vR~I~~~~~~~~~---------------------------------------~~~i~~~i 187 (245)
T PRK14586 148 LEGEHDFTSF-KTGSDERNPVRTIYRIRILRLK---------------------------------------KDLILIRV 187 (245)
T ss_pred ccCcchHHhh-cCCCCCCCCcEEEEEEEEEEcc---------------------------------------CCEEEEEE
Confidence 9999999999 5555678899999999986420 14689999
Q ss_pred EeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccC
Q 016811 297 RARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKY 354 (382)
Q Consensus 297 ~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y 354 (382)
+|+||||||||+|||+|++||+|++++++|.++|+.+++....++|||+||+|++|.|
T Consensus 188 ~g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~v~f 245 (245)
T PRK14586 188 EGRSFLRRMVRNIVGALVKVGLGQWEPEKIKEVLEARDRSKAAGTAPAHGLYLYKVLF 245 (245)
T ss_pred EechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcCCcccCCCccCCCCCEEeEeEC
Confidence 9999999999999999999999999999999999998877788999999999999987
No 5
>PRK14588 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=3.3e-74 Score=554.95 Aligned_cols=249 Identities=38% Similarity=0.549 Sum_probs=229.0
Q ss_pred cceEEEEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhCCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCC
Q 016811 57 IQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPP 136 (382)
Q Consensus 57 ~~r~~l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~ 136 (382)
|++|+|.|+|+||+|+|||+|++.+|||++||+||.++.++++.+.+|||||+||||++||+||+++..
T Consensus 1 m~~~~l~iaYdGt~f~G~Q~Q~~~~TVq~~Le~aL~~l~~~~i~i~~AgRTDaGVHA~gQv~~f~~~~~----------- 69 (272)
T PRK14588 1 MRTIALLLEYDGTDFAGSQWQTDGRTVQGALEAAWQALTQERRRIVLAGRTDAGVHARGQVAHVQTDTR----------- 69 (272)
T ss_pred CceEEEEEEEcCCceeeeEECCCCCCHHHHHHHHHHHhhCCCceEEEecCCCcCcCccccEEEEEcCCC-----------
Confidence 578999999999999999999999999999999999999999999999999999999999999998742
Q ss_pred CChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHH
Q 016811 137 HDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKV 216 (382)
Q Consensus 137 ~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~ 216 (382)
++++.+..+||++|| +||+|+++.+|+++|||||+|++|+|+|+|+.++.+ +||.++++|++...+|+++|++||+.
T Consensus 70 ~~~~~l~~~LN~~LP--~dI~V~~v~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~-~p~~~~~~~~~~~~lDi~~m~~a~~~ 146 (272)
T PRK14588 70 HSLATIWRGLNAHLP--EDIGVQNAWEAPPDFHARFSAIQREYRYVIDCAPAP-SPQLRHQVLHYAGTLDVAAMDAALKL 146 (272)
T ss_pred CCHHHHHHHHHhcCC--CCeEEEEEEECCCCcCcccCCCcEEEEEEEcCCCCC-ChhhcCceEecCCCCCHHHHHHHHHH
Confidence 346789999999998 899999999999999999999999999999988765 78999999999999999999999999
Q ss_pred cccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEEE
Q 016811 217 LVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIA 296 (382)
Q Consensus 217 f~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~I 296 (382)
|+|+|||++||+. .+.++++|+|+++++.+... + +.+++.|+|
T Consensus 147 f~G~HDF~~F~~~-~~~~~~vRtI~~~~~~~~~~--------------------------------~----~~~~i~~~i 189 (272)
T PRK14588 147 LIGTHDFAAFTTA-PQEGSTVRTCYWARCTDTEW--------------------------------F----GRPLLAIEV 189 (272)
T ss_pred ccCCcchHhhcCC-CCCCCCeEEEEEEEEEEccc--------------------------------C----CCCEEEEEE
Confidence 9999999999986 45778999999999864210 0 114689999
Q ss_pred EeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccCCC
Q 016811 297 RARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDL 356 (382)
Q Consensus 297 ~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y~~ 356 (382)
+|+||||||||+|||+|++||+|++++++|+++|+++++....|+|||+||+|++|.|++
T Consensus 190 ~g~~FL~~mVR~mVg~ll~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y~~ 249 (272)
T PRK14588 190 AANAFLQHMVRNIVGTLLLVGRGRMTVDQFGAVLASRDRRLAGPTAPAHGLYLTAVRYPP 249 (272)
T ss_pred EEchhHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhcCCcccCCCCCCCCCcEEeeEecCc
Confidence 999999999999999999999999999999999999887778999999999999999975
No 6
>cd02570 PseudoU_synth_EcTruA PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E. coli TruA makes psi38/39 and/or 40 in tRNA. psi38 and psi39 in tRNAs are highly phylogenetically conserved. P. aeruginosa truA is required for induction of type III secretory genes and may act through modifying tRNAs critical for the expression of type III genes or their regulators.
Probab=100.00 E-value=1.1e-72 Score=535.57 Aligned_cols=239 Identities=50% Similarity=0.724 Sum_probs=222.7
Q ss_pred EEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhCCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCCCChHH
Q 016811 62 IAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPHDSSV 141 (382)
Q Consensus 62 l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~~~~~~ 141 (382)
+.|+|+||+|+|||+|++.+|||++|++||.+++++++.+.+||||||||||++||+||+++.. .+++.
T Consensus 1 l~i~Y~Gt~f~G~q~q~~~~TVq~~le~aL~~~~~~~~~i~~agRTD~GVHA~~qvv~~~~~~~-----------~~~~~ 69 (239)
T cd02570 1 LTIEYDGTNFSGWQRQPNGRTVQGELEKALSKIAGEPVRVIGAGRTDAGVHALGQVAHFDTPSE-----------IPLEK 69 (239)
T ss_pred CEEEEeCCccceeeeCCCCCCHHHHHHHHHHHHhCCCeEEEEECcCCCCcCccccEEEEEECCC-----------CCHHH
Confidence 4799999999999999999999999999999999899999999999999999999999999853 24678
Q ss_pred HHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHHccccc
Q 016811 142 VRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCH 221 (382)
Q Consensus 142 l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~f~GtH 221 (382)
+..+||+.|| +||+|+++.+|+++|||||+|++|+|+|+|+.++.+ +||.++++|+++..+|+++|++||+.|+|+|
T Consensus 70 ~~~~lN~~Lp--~dI~v~~i~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~-~~~~~~~~~~~~~~~d~~~m~~a~~~f~G~H 146 (239)
T cd02570 70 LIKALNSLLP--PDIRVLSAEEVPDDFHARFSAKSRTYRYRILNRPVP-SPFLRRYVWHVPRPLDIEAMQEAAKLLLGTH 146 (239)
T ss_pred HHHHHHccCC--CCEEEEEEEECCCCcCcccCCCceEEEEEEccCCCC-ChhhCCeEEEeCCCCCHHHHHHHHHHccCCc
Confidence 9999999998 899999999999999999999999999999998765 7899999999999999999999999999999
Q ss_pred ccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEEEEeCcc
Q 016811 222 DFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIARARSF 301 (382)
Q Consensus 222 DF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~I~G~sF 301 (382)
||+|||+.+...++++|+|.++++.+. .++++|+|+|+||
T Consensus 147 dF~~F~~~~~~~~~~~R~I~~~~v~~~----------------------------------------~~~~~i~i~g~sF 186 (239)
T cd02570 147 DFSSFRAAGCQSKSTVRTIYRADVYRE----------------------------------------GDLIVFEIRANGF 186 (239)
T ss_pred chhhhCCCCCCCCCCeEEEEEEEEEEe----------------------------------------CCEEEEEEEEcHH
Confidence 999999877667899999999998652 1468999999999
Q ss_pred hhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccC
Q 016811 302 LYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKY 354 (382)
Q Consensus 302 L~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y 354 (382)
||||||+|||+|++||+|++++++|+++|+++.+....|+|||+||+|++|.|
T Consensus 187 L~~qVR~mvg~ll~vg~g~~~~~~i~~~l~~~~~~~~~~~APa~GL~L~~v~Y 239 (239)
T cd02570 187 LYHMVRNIVGTLLEVGRGKLSPEDIKEILEAKDRTAAGPTAPAHGLYLVKVEY 239 (239)
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHhcCCcccCCCCcCCCCCEEeeeEC
Confidence 99999999999999999999999999999988766678999999999999988
No 7
>TIGR00071 hisT_truA pseudouridylate synthase I. universal so far, single copy in all prokaryotes, 3 in yeast. Trusted cutoff for orthology is about 100 based on 1 match only in complete prokaryote with length 200.
Probab=100.00 E-value=8.4e-71 Score=518.97 Aligned_cols=227 Identities=37% Similarity=0.531 Sum_probs=209.0
Q ss_pred ceEEEEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhCCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCCC
Q 016811 58 QRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPH 137 (382)
Q Consensus 58 ~r~~l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~~ 137 (382)
+||+|.|+|+||+|+|||+||+.+|||++|++||.+++++++.+.+|||||+||||++||+||+++.. .
T Consensus 1 ~~~~l~i~YdGt~f~G~Q~Q~~~~TVq~~le~aL~~~~~~~i~~~~agRTD~GVHA~~qv~~f~~~~~-----------~ 69 (227)
T TIGR00071 1 RKIALKIAYDGSNYHGWQRQPNKRTVQGELEKALEAIGKKKITIMSAGRTDKGVHAMGQVISFDTPKE-----------I 69 (227)
T ss_pred CeEEEEEEEcCCCeeEEeECcCCCCHHHHHHHHHHHHhCCCeeEEeeccCcCCccccccEEEEEecCC-----------C
Confidence 47999999999999999999999999999999999999999999999999999999999999999752 2
Q ss_pred ChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHHc
Q 016811 138 DSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVL 217 (382)
Q Consensus 138 ~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~f 217 (382)
+++.+..+||++|| +||+|+++.+|+++|||||+|++|+|+|+|+.++ ++...+|+++|++||+.|
T Consensus 70 ~~~~~~~~lN~~Lp--~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~------------~~~~~ld~~~m~~a~~~~ 135 (227)
T TIGR00071 70 PDNKLNAKLNALLP--PDIRVKALAPVNDNFHARFSASKRHYRYILYNHR------------HYYSPLDLEKMRAAAKQL 135 (227)
T ss_pred CHHHHHHHHHccCC--CCEEEEEEEeCCCCcCCCCCCCcEEEEEEEccCc------------ccCCCCCHHHHHHHHHHc
Confidence 45789999999998 8999999999999999999999999999998643 224579999999999999
Q ss_pred ccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEEEE
Q 016811 218 VGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIAR 297 (382)
Q Consensus 218 ~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~I~ 297 (382)
+|+|||++|++.+++.++++|+|+++++.+. .++++|+|+
T Consensus 136 ~G~HDF~~F~~~~~~~~~~~R~i~~~~v~~~----------------------------------------~~~~~i~i~ 175 (227)
T TIGR00071 136 LGKHDFSNFSKAKSKSRSPIRTISDIKVSES----------------------------------------GEYIIFDII 175 (227)
T ss_pred cCcccHHHhcCCCCCCCCCeEEEEEEEEEEc----------------------------------------CCEEEEEEE
Confidence 9999999999877778899999999998641 257899999
Q ss_pred eCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCcee
Q 016811 298 ARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSL 349 (382)
Q Consensus 298 G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L 349 (382)
|+||||||||+|||+|++||+|++++++|+++|+.+++....++|||+||+|
T Consensus 176 g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L 227 (227)
T TIGR00071 176 GNSFLWHMVRKIVGALVLVGRGKLPPEWVAKLLDAKKRNLAPTTAPANGLYL 227 (227)
T ss_pred ecHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhcCCcccCCCCCCCCCCcC
Confidence 9999999999999999999999999999999999987777789999999998
No 8
>PRK14589 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=6.3e-69 Score=515.88 Aligned_cols=222 Identities=36% Similarity=0.486 Sum_probs=203.9
Q ss_pred eEEEEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhC----CCeeeeeeccCCccccccccEEEEEEcccccCCCCCCC
Q 016811 59 RYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIG----QPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVL 134 (382)
Q Consensus 59 r~~l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~----~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l 134 (382)
||+|.|+|+||+|+|||+||+.+|||++|++||.++.. +++.|.+|||||+||||++||+||+++.
T Consensus 2 ~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~Le~aL~~~~~~~~~~~~~i~~agRTDaGVHA~gqv~~f~~~~---------- 71 (265)
T PRK14589 2 RLAFRISYIGTRFFGSQYQPDQRTVEGEFIAACRRLGLFSDWREAGFALAGRTDRGVHARGQVLAFSTHK---------- 71 (265)
T ss_pred cEEEEEEEcCCCeeeeeeCCCCCCHHHHHHHHHHHhhCccCCceeeEEEeccCCcCccccccEEEEEeCC----------
Confidence 79999999999999999999999999999999999863 6799999999999999999999998863
Q ss_pred CCCChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHH
Q 016811 135 PPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEAC 214 (382)
Q Consensus 135 ~~~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~ 214 (382)
++.+..+||++|| +||+|+++.+|+++|||||+|++|+|+|+|+. .++|+++|++||
T Consensus 72 ----~~~~~~~lN~~LP--~dI~V~~~~~v~~~FhAR~~a~~R~Y~Y~i~~-----------------~~lD~~~m~~a~ 128 (265)
T PRK14589 72 ----PERAVEALNGQLP--PDIWCTGWAEVPESFHPRYDAISRTYRYYFSR-----------------PPSDINAMRDAA 128 (265)
T ss_pred ----hHHHHHHHHhhCC--CCeEEEEEEEcCCCCCcccCCceeEEEEEEec-----------------CccHHHHHHHHH
Confidence 3578899999998 89999999999999999999999999999952 358999999999
Q ss_pred HHcccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEE
Q 016811 215 KVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEV 294 (382)
Q Consensus 215 ~~f~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i 294 (382)
+.|+|+|||+|||+.+ .++++|+|.++++.+. .+++.|
T Consensus 129 ~~f~G~HDF~~F~~~~--~~~~vRtI~~i~v~~~----------------------------------------~~~~~~ 166 (265)
T PRK14589 129 GEFIGTHDFSCFARVE--GKSPVRTILRIRVFSD----------------------------------------GGFPVF 166 (265)
T ss_pred HHccCCccHHHHhccC--CCCCeEEEEEEEEEEe----------------------------------------CCEEEE
Confidence 9999999999999875 6789999999998642 146889
Q ss_pred EEEeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccCCC
Q 016811 295 IARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDL 356 (382)
Q Consensus 295 ~I~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y~~ 356 (382)
+|+|+||||||||+|||+|+.||+|++++++|+++|+++++. ..++|||+||+|++|.|+.
T Consensus 167 ~i~G~~FL~~mVR~mVG~ll~vg~G~~~~~~i~~~L~~~~r~-~~~~APa~GL~L~~V~Y~~ 227 (265)
T PRK14589 167 EVTAQSFLWHMVRCMAGALLQIGEGEMEPDDIERLLSGPCKR-KVKPAPAEGLVLWDVDCGL 227 (265)
T ss_pred EEEechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCcCCC-CCCccCCCCcEEeeeecCC
Confidence 999999999999999999999999999999999999987764 5789999999999999985
No 9
>cd02866 PseudoU_synth_TruA_Archea PseudoU_synth_archea: Pseudouridine synthase,. This group consists of archealpseudouridine synthases.Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. This group of proteins make Psedouridine in tRNAs.
Probab=100.00 E-value=2.1e-68 Score=500.74 Aligned_cols=217 Identities=36% Similarity=0.497 Sum_probs=198.6
Q ss_pred EEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhC----CCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCCC
Q 016811 62 IAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIG----QPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPH 137 (382)
Q Consensus 62 l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~----~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~~ 137 (382)
|.|+|+||+|+|||+||+.+|||++|++||.++.. +++.+.+||||||||||++||+||+++..
T Consensus 1 l~i~Y~Gt~y~G~q~q~~~~TVq~~le~aL~~~~~~~~~~~i~~~~agRTD~GVHA~~qv~~f~~~~~------------ 68 (221)
T cd02866 1 LKVAYDGTPYHGFQRQPDVRTVEGELIKALRRLGIIESPKRPRLYSAGRTDAGVSALGNVVAFETEKE------------ 68 (221)
T ss_pred CEEEEeCCceeeeeeCCCCCCHHHHHHHHHHHhhccccCCceEEEEEcCCccccCccccEEEEEeCcH------------
Confidence 57999999999999999999999999999999863 68999999999999999999999999741
Q ss_pred ChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHHc
Q 016811 138 DSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVL 217 (382)
Q Consensus 138 ~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~f 217 (382)
.+..+||.+|| +||+|+++.+|+++||||++|++|+|+|+|+. ..+|+++|++||+.|
T Consensus 69 ---~~~~~lN~~LP--~dI~v~~~~~v~~~F~ar~~a~~r~Y~Y~i~~-----------------~~ld~~~m~~a~~~~ 126 (221)
T cd02866 69 ---LTPPAINNALP--KDIRVWAWAKVPEDFHPRRDARRRYYRYYLGA-----------------EDYDVEAMAEAAKKL 126 (221)
T ss_pred ---HHHHHHHhhCC--CCEEEEEEEEeCCCCCCCccCCeEEEEEEECC-----------------CcCCHHHHHHHHHHh
Confidence 27889999998 89999999999999999999999999999973 258999999999999
Q ss_pred ccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEEEE
Q 016811 218 VGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIAR 297 (382)
Q Consensus 218 ~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~I~ 297 (382)
+|+|||++||+.+. .+++|+|.++++.+. .+++.|+|+
T Consensus 127 ~G~HDF~~F~~~~~--~~~~R~I~~~~~~~~----------------------------------------~~~~~~~i~ 164 (221)
T cd02866 127 IGTHDFSNFSKRDG--RDPVRTIERIEIREN----------------------------------------GEFLVIDVV 164 (221)
T ss_pred cCCcCHHHhhCCCC--CCCcEEEEEEEEEEc----------------------------------------CCEEEEEEE
Confidence 99999999998643 388999999998641 157899999
Q ss_pred eCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccC
Q 016811 298 ARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKY 354 (382)
Q Consensus 298 G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y 354 (382)
|+||||||||+|||+|++||+|++++++|+++|+.+.+....++|||+||+|++|.|
T Consensus 165 g~~FL~~mVR~mvg~ll~vg~g~~~~~~i~~~l~~~~~~~~~~~APa~GL~L~~v~Y 221 (221)
T cd02866 165 GESFLWNMVRRIVGALSLVGKGKRENEWVDKLLDGEFRKKDGVPAPPEGLILVDVKY 221 (221)
T ss_pred EcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCCCcccCCCCCCCCCcEEEEeeC
Confidence 999999999999999999999999999999999998776566799999999999988
No 10
>cd00497 PseudoU_synth_TruA_like PseudoU_synth_TruA: Pseudouridine synthase, TruA family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruA, Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus3p Caenorhabditis elegans Pus1p and human PUS1. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae PUS1 catalyzes the formation of psi34 and psi36 in the intron containing tRNAIle, psi35 in the intron containing tRNATyr, psi27 and/or psi28 in several yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear RNA (U2 snRNA). The presence of the intron is required for the formation of psi 34, 35 and 36. In addition S. cerevisiae PUS1 makes psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Psi44 in U2 snRNA and, psi38 and psi39 in tRNAs are highly ph
Probab=100.00 E-value=3e-68 Score=500.60 Aligned_cols=219 Identities=37% Similarity=0.480 Sum_probs=200.0
Q ss_pred EEEeCCCceeeeecCCCCCHHHHHHHHHHHhhCC----CeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCCCCh
Q 016811 64 VEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQ----PVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPHDS 139 (382)
Q Consensus 64 i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~~----~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~~~~ 139 (382)
|+|+||+|+|||+||+.+|||++|++||.++++. ++.+.+|||||+||||++||+||+++.. .
T Consensus 1 i~YdGt~f~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~i~~agRTD~GVHA~~qv~~~~~~~~-------------~ 67 (224)
T cd00497 1 IAYDGWKYHGFQRQPDVPTVEGELFKALLKTGLIESPKPSNYSRAGRTDKGVSALGQVVSLETRSK-------------L 67 (224)
T ss_pred CEEcCCceeeEeeCcCCCCHHHHHHHHHHHhhCcCCCcceeEEEeccccccccccccEEEEEECCC-------------c
Confidence 6899999999999999999999999999999875 8999999999999999999999999752 1
Q ss_pred HHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHHccc
Q 016811 140 SVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVG 219 (382)
Q Consensus 140 ~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~f~G 219 (382)
+.+...||++|| +||+|+++.+|+++||||++|++|+|+|+|+.. .+|+++|++||+.|+|
T Consensus 68 ~~~~~~lN~~Lp--~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~-----------------~~d~~~m~~a~~~f~G 128 (224)
T cd00497 68 KPYPDILNGLLP--KDIRVLAWAPVPEDFHARFSCVSRTYRYYFPGG-----------------DLDIEAMREAAKLLLG 128 (224)
T ss_pred HHHHHHHHhhCC--CCcEEEEEEEeCCCCCCCcccCeEEEEEEECCC-----------------CcCHHHHHHHHHHccC
Confidence 268899999998 899999999999999999999999999999742 5899999999999999
Q ss_pred ccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEEEEeC
Q 016811 220 CHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIARAR 299 (382)
Q Consensus 220 tHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~I~G~ 299 (382)
+|||+|||+.+...++++|+|.++++.+. .+++.|+|+|+
T Consensus 129 ~HDF~~F~~~~~~~~~~~RtI~~~~v~~~----------------------------------------~~~~~i~i~g~ 168 (224)
T cd00497 129 THDFRNFCKKDGRKKNPVRTIISAEVEEV----------------------------------------DDFYVFEVKGK 168 (224)
T ss_pred cccHHHhcCCCCCCCCCeEEEEEEEEEec----------------------------------------CCEEEEEEEEc
Confidence 99999999876556899999999998742 15689999999
Q ss_pred cchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCC-CCCCCCCCceeeeccC
Q 016811 300 SFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAA-SPMAPACGLSLGFVKY 354 (382)
Q Consensus 300 sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~-~p~APa~GL~L~~V~Y 354 (382)
||||||||+|||+|++||+|++++++|+++|+.+.+... .++|||+||+|++|.|
T Consensus 169 sFL~~mVR~mvg~ll~vg~g~~~~~~i~~~l~~~~~~~~~~~~APa~GL~L~~V~Y 224 (224)
T cd00497 169 SFLWHQVRRIVAALFLVGQGLEPPSIISRLLDEEKRPSKPQYPAPPEPLVLWDCKY 224 (224)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcCCcccCCCCcCCCCCcEEeeeeC
Confidence 999999999999999999999999999999998776544 3499999999999988
No 11
>cd02569 PseudoU_synth_ScPus3 PseudoU_synth_ScPus3-like: Pseudouridine synthase, Saccharomyces cerevisiae Pus3 like. This group consists of eukaryotic pseudouridine synthases similar to S. cerevisiae Pus3p, mouse Pus3p and, human PUS2. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Mouse Pus3p has been shown to makes psi38 and, possibly also psi 39, in tRNAs. Psi38 and psi39 are highly conserved in tRNAs from eubacteria, archea and eukarya.
Probab=100.00 E-value=4.8e-68 Score=508.03 Aligned_cols=240 Identities=29% Similarity=0.364 Sum_probs=201.9
Q ss_pred EEEEEeCCCceeeeecCC-CCCHHHHHHHHHHHhh----CCCeeeeeeccCCccccccccEEEEEEcccccCCC----CC
Q 016811 62 IAVEYIGTRFSGSQKQLN-CRTVVGVLEEAFHKFI----GQPVSISLSSRTDAGVHAASNVCHVDVERISKRKP----GE 132 (382)
Q Consensus 62 l~i~Y~Gt~Y~G~Q~Q~~-~~TVqg~Le~AL~k~~----~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~----~~ 132 (382)
|.|+|+||+|+|||+|++ .+|||++|++||.++. ++++.|.+|||||+||||++||+||+++....... +.
T Consensus 1 l~i~YdGt~y~G~Q~Q~~~~~TVq~~Le~aL~~~~~i~~~~~~~~~~agRTD~GVHA~~qv~~f~~~~~~~~~~~~~~~~ 80 (256)
T cd02569 1 LRFAYLGWNYNGFAVQEETTNTVEETLFEALEKTRLIEDRQTSNYSRCGRTDKGVSAFGQVISLDVRSNLKPEDGLDPST 80 (256)
T ss_pred CEEEEeCCcceeeeECCCCCCCHHHHHHHHHHHhcCCCCCCceeEEeecccCccccccCcEEEEEecCCCCccccccccc
Confidence 579999999999999997 6999999999999986 35899999999999999999999999975211000 00
Q ss_pred C---CCCCChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHH
Q 016811 133 V---LPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRA 209 (382)
Q Consensus 133 ~---l~~~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~ 209 (382)
. .....+..+..+||++|| +||||+++.+|+++|||||+|++|+|+|+|+. ..+|+++
T Consensus 81 ~~~~~~~~~~~~~~~~lN~~LP--~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~-----------------~~ldi~~ 141 (256)
T cd02569 81 DVKSTADEEELPYCKILNRVLP--PDIRILAWAPVPPDFSARFSCVSRTYRYFFPK-----------------GDLDIEL 141 (256)
T ss_pred cccccccchHHHHHHHHHhhCC--CCcEEEEEEECCCCcCCCccCCceEEEEEecC-----------------CCCCHHH
Confidence 0 000011257899999998 89999999999999999999999999999974 2689999
Q ss_pred HHHHHHHcccccccccccccC--CCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccc
Q 016811 210 MQEACKVLVGCHDFSSFRASG--CQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRK 287 (382)
Q Consensus 210 m~ea~~~f~GtHDF~nFt~~~--~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 287 (382)
|++||+.|+|+|||++||+.+ ++.++++|+|++++|.+.... + .
T Consensus 142 m~~a~~~f~G~HDF~~F~~~~~~~~~~~~~RtI~~~~v~~~~~~----------------------------~------~ 187 (256)
T cd02569 142 MRKAAKLLLGEHDFRNFCKMDVANQVTNYVRRVLSAEVEPVDQH----------------------------P------D 187 (256)
T ss_pred HHHHHHHhhCCcchHHHhccCcccCCCCCceEEEEEEEEEccCC----------------------------C------C
Confidence 999999999999999999763 246889999999999753100 0 0
Q ss_pred cccEEEEEEEeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCC--CCCCCCceeeeccC
Q 016811 288 KHRSYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASP--MAPACGLSLGFVKY 354 (382)
Q Consensus 288 ~~~~~~i~I~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p--~APa~GL~L~~V~Y 354 (382)
+.+++.|+|+|+||||||||+|||+|++||+|++++++|+++|+++++....+ +|||+||+|++|.|
T Consensus 188 ~~~~~~~~i~g~~FL~~mVR~mvg~ll~vg~G~~~~~~i~~~L~~~~r~~~~~~~~Ap~~GL~L~~v~~ 256 (256)
T cd02569 188 GDGLYYFEVRGSAFLWHQVRCMMAVLFLIGQGLEPPSVISQLLDVEKNPRKPQYTMASEVPLVLYDCGF 256 (256)
T ss_pred CCcEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCccccCCCCcCcCCCCCcEEEEeeC
Confidence 12578999999999999999999999999999999999999999987665666 99999999999987
No 12
>cd02568 PseudoU_synth_PUS1_PUS2 PseudoU_synth_PUS1_PUS2: Pseudouridine synthase, PUS1/ PUS2 like. This group consists of eukaryotic pseudouridine synthases similar to Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus2p, Caenorhabditis elegans Pus1p and human PUS1. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae Pus1p catalyzes the formation of psi34 and psi36 in the intron-containing tRNAIle, psi35 in the intron-containing tRNATyr, psi27 and/or psi28 in several yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear RNA (U2 snRNA). The presence of the intron is required for the formation of psi 34, 35 and 36. In addition S. cerevisiae PUS1 makes are psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. Mouse Pus1p makes psi27/28 in pre- tRNASer , tRNAVal and tRNAIle, psi 34/36 in tRNAIle and, psi 32 and potentially 67 in tRNAVal. Psi44 in U
Probab=100.00 E-value=5.5e-67 Score=498.25 Aligned_cols=234 Identities=28% Similarity=0.362 Sum_probs=203.1
Q ss_pred EEEEEeCCCceeeeecCCC-CCHHHHHHHHHHHhhC---------CCeeeeeeccCCccccccccEEEEEEcccccCCCC
Q 016811 62 IAVEYIGTRFSGSQKQLNC-RTVVGVLEEAFHKFIG---------QPVSISLSSRTDAGVHAASNVCHVDVERISKRKPG 131 (382)
Q Consensus 62 l~i~Y~Gt~Y~G~Q~Q~~~-~TVqg~Le~AL~k~~~---------~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~ 131 (382)
|.|+|+||+|+|||+|++. +|||++|++||.++.+ +++.+.+|||||+||||++||+||+++... +.
T Consensus 1 l~i~Y~Gt~f~G~Q~Q~~~~~TVq~~le~aL~~~~~~~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~---~~ 77 (245)
T cd02568 1 LLFGYCGTGYHGMQYNPGNYKTIEGELERALVKAGAISESNAGDPKKIGFSRAARTDKGVHAARNVVSLKVIIDD---PE 77 (245)
T ss_pred CEEEEeCCCccccccCCCCCCChHHHHHHHHHHcCCcCccccCChhhcceeeecccccchhheeeEEEEEEeccc---cc
Confidence 5799999999999999998 9999999999999876 689999999999999999999999997531 00
Q ss_pred CCCCCCChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHH
Q 016811 132 EVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQ 211 (382)
Q Consensus 132 ~~l~~~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ 211 (382)
. ..+++.+..+||++|| +||+|+++.+|+++|||||+|++|+|+|+|+.. .| +|+++|+
T Consensus 78 ~---~~~~~~~~~~lN~~Lp--~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~-----~~-----------~d~~~m~ 136 (245)
T cd02568 78 G---LGIGEDLVEKLNSHLP--EDIRVFGITRVTKSFNARKACDSRTYEYLLPTF-----AL-----------ETLDRFN 136 (245)
T ss_pred c---ccchHHHHHHHHccCC--CceEEEEEEcCCCCCCcchhhhcceeEEECCcc-----cH-----------hHHHHHH
Confidence 0 0125689999999998 899999999999999999999999999999742 11 7999999
Q ss_pred HHHHHcccccccccccccCC-CCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCccccccccc
Q 016811 212 EACKVLVGCHDFSSFRASGC-QANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHR 290 (382)
Q Consensus 212 ea~~~f~GtHDF~nFt~~~~-~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 290 (382)
+||+.|+|+|||++|++.+. +.++++|+|.++++.+.... + .+.+
T Consensus 137 ~a~~~~~G~HdF~~F~~~~~~~~~~~~R~i~~~~~~~~~~~------------------------~----------~~~~ 182 (245)
T cd02568 137 EILKLYVGTHNFHNFTVRKKFEDPSANRFIISFYVSEPFVI------------------------E----------EGLE 182 (245)
T ss_pred HHHHHhhCccccccCcccccccCCCceeEEEEEEEecceee------------------------c----------CCcc
Confidence 99999999999999998754 46789999999998642100 0 0125
Q ss_pred EEEEEEEeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccC
Q 016811 291 SYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKY 354 (382)
Q Consensus 291 ~~~i~I~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y 354 (382)
++.|+|+|+||||||||+|||+|++||+|+++++.|+.+|+... ....|+|||+||+|++|.|
T Consensus 183 ~i~i~i~g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~~~L~~~~-~~~~~~APa~GL~L~~v~y 245 (245)
T cd02568 183 WVSIEIHGQSFMLHQIRKMIGLAIAIVRGGAPESLIDLSFNKAK-RIIIPLAPGLGLLLEYPHF 245 (245)
T ss_pred EEEEEEEechHHHHHHHHHHHHHHHHHcCCCCHHHHHHHhcccc-cccccCCCCcceeEecccC
Confidence 79999999999999999999999999999999999999999644 3567999999999999988
No 13
>PLN03078 Putative tRNA pseudouridine synthase; Provisional
Probab=100.00 E-value=5.4e-65 Score=517.85 Aligned_cols=275 Identities=22% Similarity=0.241 Sum_probs=203.6
Q ss_pred EEEEEEEeCCCceeeeecCC---CCCHHHHHHHHHHHhhC---------CCeeeeeeccCCccccccccEEEEEEccccc
Q 016811 60 YLIAVEYIGTRFSGSQKQLN---CRTVVGVLEEAFHKFIG---------QPVSISLSSRTDAGVHAASNVCHVDVERISK 127 (382)
Q Consensus 60 ~~l~i~Y~Gt~Y~G~Q~Q~~---~~TVqg~Le~AL~k~~~---------~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~ 127 (382)
|+|.|+|+|++|+|||+|++ .+|||++|++||.++.+ +++.|.+||||||||||++||+||+++...
T Consensus 73 vaL~IaYdGt~Y~G~Q~Q~n~~~~~TVEg~LE~AL~k~~~I~e~n~~~~~ki~~~rAgRTDkGVHA~gQVvsf~l~~p~- 151 (513)
T PLN03078 73 VVLRVGYVGTDYRGLQKQRDLSSLSTIEGELETAIFKAGGIRESNYGNLHKIGWARSSRTDKGVHSLATMISLKMEIPE- 151 (513)
T ss_pred EEEEEEEcCCCcceeeECCCCCCCCCHHHHHHHHHHHHhCccccccccccceeEEeeccCCcCccccccEEEEeccCcc-
Confidence 99999999999999999987 58999999999999865 589999999999999999999999986420
Q ss_pred CCCCCCCC-CCChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCC-CCccccCceeecCCcC
Q 016811 128 RKPGEVLP-PHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEP-LSVFEKDRAWHVTEEL 205 (382)
Q Consensus 128 ~~~~~~l~-~~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~-~~~f~~~~~~~~~~~l 205 (382)
..+. ..+...|..+||.+|| +||||+++.+|+++|||||+|++|+|+|+||+...+ .++|...+.|+
T Consensus 152 ----~~~~~d~~~~~L~~~LN~~LP--~DIRVl~v~~V~~~FhAR~sc~sRtY~Y~iP~~~~~~k~~f~~~~~~~----- 220 (513)
T PLN03078 152 ----NAWKDDPDGIALAKFINSHLP--DNIRVFSILPAQRSFDPRRECDLRKYSYLLPAEVIGIKSGFSSEEIDE----- 220 (513)
T ss_pred ----hhccccchHHHHHHHHHhcCC--CCeEEEEEEECCCCcCCCCCCCceEEEEEEccccccCCCccchhhhHH-----
Confidence 0010 0112368899999998 899999999999999999999999999999884211 13454444433
Q ss_pred CHHHHHHHHHHcccccccccccccCCCCCC----------CeEEEEEE----EEEee----e------cc----------
Q 016811 206 DLRAMQEACKVLVGCHDFSSFRASGCQANS----------PIRTLDEL----HVSEV----V------ST---------- 251 (382)
Q Consensus 206 Di~~m~ea~~~f~GtHDF~nFt~~~~~~~s----------~~R~I~~~----~i~~~----~------~~---------- 251 (382)
|+++|++||+.|+|+|||||||........ ..+..... ...+. . ..
T Consensus 221 dI~kMneAl~~fiGtHDFhNFT~r~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~ 300 (513)
T PLN03078 221 HISEFNSILNGFEGEHPFHNYTARSKYRKKLPGKHKQRNGAVSRRAKSSKEMSSSESEENHGEISEEDEEDLSFSSIPSG 300 (513)
T ss_pred HHHHHHHHHHhcccccCcccccCCCccCccccccccccccccccccccccccccccccccccccccchhhhhcccccccc
Confidence 799999999999999999999976421110 00000000 00000 0 00
Q ss_pred ---------c-------------ccccccCCCC-----ccccc--cCCcCCCCCCCCCCcccccccccEEEEEEEeCcch
Q 016811 252 ---------A-------------LFSSINQDSP-----VLSSI--DNSSKLGMPNGGSNVFGIRKKHRSYEVIARARSFL 302 (382)
Q Consensus 252 ---------~-------------~~p~~~~~~~-----~~~~~--~~~~~~~~~~~~~~~~g~~~~~~~~~i~I~G~sFL 302 (382)
+ ..|...++.+ .+.+| +.... ..+.+|+.|+|.|+|||
T Consensus 301 ~~~~~~~~~~~~~~~~~~~~~wl~e~d~~d~i~~s~~R~I~~~~~~~~~~-------------~~g~~fv~i~I~GqSFm 367 (513)
T PLN03078 301 SSDENEDILKFQSSQVQIRARWLHEPDETDRISASHFRKIFRCSCGKLEK-------------SLGFDFVELSIWGESFM 367 (513)
T ss_pred ccccccccccccccchhhhhhhccCCccccccchhheEEEEEeecCCccc-------------cCCceEEEEEEEehhHH
Confidence 0 0000000000 00111 11100 11468999999999999
Q ss_pred hhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccCCCCCCC
Q 016811 303 YHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDLPEDD 360 (382)
Q Consensus 303 ~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y~~~~~~ 360 (382)
+||||||||++++|++|.++.+.|..+|....+ ..+|+||+.||+|+++.|..||..
T Consensus 368 lhQIRKMIG~~~aV~rg~~~~~~i~~~L~~~~r-~~~P~AP~~GL~L~~~~F~~yn~~ 424 (513)
T PLN03078 368 LHQIRKMVGTAVAVKRELLPRDIIRLSLTKFSR-IVLPLAPSEVLILRGNSFSVRKKP 424 (513)
T ss_pred HHHHHHHHHHHHHHHhccCCHHHHHHHhccccc-cccccCCCcceEEEeeeccccccc
Confidence 999999999999999999999999999987654 579999999999999999999874
No 14
>PRK14587 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=6e-64 Score=478.48 Aligned_cols=213 Identities=31% Similarity=0.412 Sum_probs=189.3
Q ss_pred ceEEEEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhCCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCCC
Q 016811 58 QRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPH 137 (382)
Q Consensus 58 ~r~~l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~~ 137 (382)
++|++.|+|+||+|+|||+||+ |||++|++||.++++. |||||+||||++||+||+.. .
T Consensus 1 ~~~~l~i~YdGt~f~G~Q~Q~~--TVq~~Le~aL~~i~~~------agRTDaGVHA~~qv~~~~~~-------------~ 59 (256)
T PRK14587 1 MPYLYRIAYDGTLFYGFTGHPN--SLEPALRRVFGEILGR------GSRTDPGVSAVGNVVMTSQK-------------L 59 (256)
T ss_pred CcEEEEEEECCCcccceecCcc--hHHHHHHHHHHHhccC------ccCCccCCCcccCEEEECCc-------------C
Confidence 3699999999999999999998 9999999999987643 99999999999999997221 1
Q ss_pred ChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHHc
Q 016811 138 DSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVL 217 (382)
Q Consensus 138 ~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~f 217 (382)
+ ..+||.+|| +||+|+++.+|+++||||+ |++|+|+|+|+. ..+|+++|++||+.|
T Consensus 60 ~----~~~LN~~LP--~dI~V~~~~~V~~~FhaR~-a~~R~Y~Y~i~~-----------------~~lDi~~m~~aa~~l 115 (256)
T PRK14587 60 P----LGYVNSKLP--RGVWAWAVAEVPEGFNPRR-AKRRRYLYVAPH-----------------WGEDVEAMREAAELL 115 (256)
T ss_pred C----HHHHHhcCC--CCeEEEEEEECCCCcCcCc-ccceEEEEEEcc-----------------CcchHHHHHHHHHHh
Confidence 1 368999998 8999999999999999997 999999999841 148999999999999
Q ss_pred ccccccccccccCCCCCC-CeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEEE
Q 016811 218 VGCHDFSSFRASGCQANS-PIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIA 296 (382)
Q Consensus 218 ~GtHDF~nFt~~~~~~~s-~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~I 296 (382)
+|+|||++|++.+++.++ ++|+|+++++... .+++.|+|
T Consensus 116 ~G~HDF~~F~~~~~~~~~~~vRtI~~i~v~~~----------------------------------------~~~i~i~i 155 (256)
T PRK14587 116 AGTHDYSSFIQRRGEKATPTVTTVYEIGVELR----------------------------------------GDLIYLYF 155 (256)
T ss_pred cCCcChHHhccCCCCCCCCCEEEEEEEEEEEe----------------------------------------CCEEEEEE
Confidence 999999999987655566 9999999998642 14688999
Q ss_pred EeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccCCC
Q 016811 297 RARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDL 356 (382)
Q Consensus 297 ~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y~~ 356 (382)
+|+||||||||+|||+|++||+|++++++|+++|+.+ +....|+|||+||+|++|.|+.
T Consensus 156 ~g~sFL~~mVR~mVG~Ll~Vg~G~~~~~~i~~~L~~~-r~~~~~~APa~GL~L~~V~Y~~ 214 (256)
T PRK14587 156 VGRGFRNKMIRKMAWAILAAGRGVLSRRDIAELLERP-RPGAVPSAPAEGLVLLDIEYDV 214 (256)
T ss_pred EechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcC-cccCCCCCCCCCCEEeeeccCc
Confidence 9999999999999999999999999999999999954 5567899999999999999975
No 15
>KOG2553 consensus Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.7e-63 Score=487.10 Aligned_cols=263 Identities=24% Similarity=0.306 Sum_probs=224.8
Q ss_pred CCCCCCcccccccccccccccceEEEEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhC---------CCeeeeeeccC
Q 016811 37 YPEEVPETRTVTEVMSTNKRIQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIG---------QPVSISLSSRT 107 (382)
Q Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~r~~l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~---------~~i~~~~asRT 107 (382)
..+|.|||| ++++|||.|++|||||+||+.+||||+|+.||.++.. .++.|.+|+||
T Consensus 30 ~~~k~~KrK--------------Vail~gY~G~gY~GmQ~N~~~kTIEgeL~~al~~aGaI~e~n~~dpkk~~~~raART 95 (416)
T KOG2553|consen 30 KAPKPRKRK--------------VAILLGYCGTGYHGMQYNPPLKTIEGELFEALFKAGAISESNAGDPKKIGFARAART 95 (416)
T ss_pred ccccccceE--------------EEEEEEeccCCccceecCCCCCchHHHHHHHHHHcCCcccccccChHHhhhHHhhcc
Confidence 457778888 9999999999999999999999999999999999852 46889999999
Q ss_pred CccccccccEEEEEEcccccCCCCCCCCCCChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCC
Q 016811 108 DAGVHAASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGP 187 (382)
Q Consensus 108 DkGVHA~~qvvs~~l~~~~~~~~~~~l~~~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~ 187 (382)
||||||++||||++++.. ...++..||.+|| ++||||++.+|++.||||-.|.+|+|+|+||+..
T Consensus 96 DKGVhA~~nviSlK~~~~-------------~~~lv~~lN~~Lp--~~IRv~~v~r~~k~F~pr~~CdsR~YeYllPtfa 160 (416)
T KOG2553|consen 96 DKGVHAAGNVISLKLELD-------------DPELVEKLNEILP--EQIRVWGVKRVTKSFNPRKQCDSRTYEYLLPTFA 160 (416)
T ss_pred ccchhhhhheeEEEEeeC-------------cHHHHHHHhhhCC--cceEEEEEEecCCCCCccccccceeEEEecceee
Confidence 999999999999999863 2478999999998 8999999999999999999999999999999974
Q ss_pred CC-CCcc-----------------c-----------------cCceeecCCcCCHHHHHHHHHHcccccccccccccC-C
Q 016811 188 EP-LSVF-----------------E-----------------KDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASG-C 231 (382)
Q Consensus 188 ~~-~~~f-----------------~-----------------~~~~~~~~~~lDi~~m~ea~~~f~GtHDF~nFt~~~-~ 231 (382)
.. ..+. . ..-.|.+. +-.++.++++++.|+|+|||||||..+ .
T Consensus 161 l~~p~~~~~~~~~~~~~~e~~~~f~~~~~~~~~~~~s~~~~~~~~~yr~s-~~~l~~~~~~ls~Y~GthnFHNfT~~~~~ 239 (416)
T KOG2553|consen 161 LAPPKPSSLLEVDIQYDKEFEKEFWNTYPLSAKERLSGQDRKTESGYRLS-EEKLEVFNTILSKYVGTHNFHNFTTGKDF 239 (416)
T ss_pred ecCCCCccHHHhhhhhhhhhhhhhccccchhhhhhhcccccccccceeeC-HHHHHHHHHHHHHhhcccccceecccCCC
Confidence 32 1122 0 01112222 335788999999999999999999875 4
Q ss_pred CCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEEEEeCcchhhHHHHHHH
Q 016811 232 QANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIARARSFLYHQVRLIVG 311 (382)
Q Consensus 232 ~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~I~G~sFL~~QIR~MVg 311 (382)
.++++.|+|.++++.+++..+ ..+.+|+.|.|+|||||+||||+|||
T Consensus 240 ~dpss~R~I~s~~~~~pfv~~---------------------------------~~~~e~V~i~i~GQSFMLHQIRKMVg 286 (416)
T KOG2553|consen 240 TDPSSNRFIKSFTVSEPFVIN---------------------------------DEGVEFVKIKIHGQSFMLHQIRKMVG 286 (416)
T ss_pred CCccccceeeEEEecCcceec---------------------------------cCCceEEEEEEEcchhHHHHHHHHHH
Confidence 678999999999998653210 01358999999999999999999999
Q ss_pred HHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccCCCCCCCcch
Q 016811 312 VLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDLPEDDQTD 363 (382)
Q Consensus 312 ~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y~~~~~~~~~ 363 (382)
++++|.|+.++.+.|+..|++. .++.+|+||+.||+|.++.|+.||+....
T Consensus 287 lav~i~R~~~p~~~i~~af~~~-~ri~IP~AP~~gLlL~~~~F~~yn~~~~~ 337 (416)
T KOG2553|consen 287 LAVLIVRSGAPASTIQRAFNKE-HKINIPKAPGEGLLLEEPHFESYNRKFRP 337 (416)
T ss_pred HHHHHHhcCCCHHHHHHhhCCC-ccccccCCCcceEEeecccccccccccCC
Confidence 9999999999999999999944 45789999999999999999999998774
No 16
>KOG2554 consensus Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.7e-52 Score=404.12 Aligned_cols=251 Identities=27% Similarity=0.334 Sum_probs=208.9
Q ss_pred cccceEEEEEEEeCCCceeeeecC--CCCCHHHHHHHHHHHhh-C---CCeeeeeeccCCccccccccEEEEEEcccccC
Q 016811 55 KRIQRYLIAVEYIGTRFSGSQKQL--NCRTVVGVLEEAFHKFI-G---QPVSISLSSRTDAGVHAASNVCHVDVERISKR 128 (382)
Q Consensus 55 ~~~~r~~l~i~Y~Gt~Y~G~Q~Q~--~~~TVqg~Le~AL~k~~-~---~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~ 128 (382)
...|++||.|+|.|.+|.|+..|+ +.+||||.|+.||.+.. . ....+++||||||||||.+||+|+++......
T Consensus 63 ~~kR~IAlkiaY~GW~Y~Gla~Qe~T~~~TIEg~l~eAL~kt~Lies~~~~~ysRCGRTDKGVSAfgQviSl~lRS~~p~ 142 (425)
T KOG2554|consen 63 HSKRHIALKIAYLGWNYQGLAPQEHTNNPTIEGKLFEALKKTRLIESRQTCNYSRCGRTDKGVSAFGQVISLVLRSRIPM 142 (425)
T ss_pred ccceEEEEEEEEeccccCceecCCCCCCcchHHHHHHHHHhhhcccCcccccccccCCcccchhhhhheeeeeeeccCCC
Confidence 456789999999999999999995 45799999999999862 2 45689999999999999999999999753110
Q ss_pred CCCCCC---CC--CChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCC
Q 016811 129 KPGEVL---PP--HDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTE 203 (382)
Q Consensus 129 ~~~~~l---~~--~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~ 203 (382)
++... +. ..+=.+...||++|| +||||.+|.+||+.|+|||+|..|+|+|+|+ ..
T Consensus 143 -~~s~~~~~~~a~~~Ei~Y~~mLN~vLP--~dIRi~awapvp~~FsARFsC~~RtYrY~F~-----------------k~ 202 (425)
T KOG2554|consen 143 -PDSQRDAVATADSEEIPYVHMLNRVLP--PDIRIVAWAPVPPTFSARFSCVQRTYRYYFP-----------------KK 202 (425)
T ss_pred -chhhhccccccccccccHHHHHhccCC--CcceEEEEecCCCCccceeehhhceeeEecc-----------------CC
Confidence 00000 00 011146789999998 8999999999999999999999999999996 34
Q ss_pred cCCHHHHHHHHHHcccccccccccccCC--CCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCC
Q 016811 204 ELDLRAMQEACKVLVGCHDFSSFRASGC--QANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSN 281 (382)
Q Consensus 204 ~lDi~~m~ea~~~f~GtHDF~nFt~~~~--~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~ 281 (382)
.|||++|++||+.|+|+|||+|||+.+. +..+..|+|.+++|..+.+.
T Consensus 203 dLdI~~M~kAA~l~vGe~DFrNFCK~D~~n~vtny~Rti~s~kV~~~~~~------------------------------ 252 (425)
T KOG2554|consen 203 DLDIDRMSKAASLLVGEHDFRNFCKIDVSNGVTNYERTILSAKVEDVGQT------------------------------ 252 (425)
T ss_pred CcCHHHHHHHHHHHhcchhhhhhhhhcchhhhHHHHhhhheeeEEEcCCC------------------------------
Confidence 8999999999999999999999999763 23568899999999864211
Q ss_pred cccccccccEEEEEEEeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCC--CCCCCCCCCCceeeeccCCCCCC
Q 016811 282 VFGIRKKHRSYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVT--AASPMAPACGLSLGFVKYDLPED 359 (382)
Q Consensus 282 ~~g~~~~~~~~~i~I~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~--~~~p~APa~GL~L~~V~Y~~~~~ 359 (382)
...+.|+|.|++|||||||+||+.|..||+|...++.|.++|+-+... +-..+|-...|.|.++.|...+.
T Consensus 253 -------~~my~ldi~g~AFLwHqVRcimaiL~liGq~~E~p~lI~dLldIek~P~kPqY~mA~~~PL~LydC~f~~e~~ 325 (425)
T KOG2554|consen 253 -------PGMYYLDIQGSAFLWHQVRCIMAILFLIGQGLEQPSLISDLLDIEKNPQKPQYTMASDYPLELYDCDFHRENV 325 (425)
T ss_pred -------CceEEEEeechhhHHHHHHHHHHHHHHhccccCCchHHHHHHhcccCCCCceeeeccCCceEEEecCCCCccc
Confidence 136899999999999999999999999999999999999999876532 34558999999999999988877
Q ss_pred Ccc
Q 016811 360 DQT 362 (382)
Q Consensus 360 ~~~ 362 (382)
+|+
T Consensus 326 ew~ 328 (425)
T KOG2554|consen 326 EWR 328 (425)
T ss_pred ccc
Confidence 776
No 17
>KOG4393 consensus Predicted pseudouridylate synthase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2e-50 Score=376.37 Aligned_cols=268 Identities=41% Similarity=0.605 Sum_probs=228.5
Q ss_pred ccceEEEEEEEeCCCceeeeecCCCC--CHHHHHHHHHHHhhC-CCeeeeeeccCCccccccccEEEEEEcccccCCCCC
Q 016811 56 RIQRYLIAVEYIGTRFSGSQKQLNCR--TVVGVLEEAFHKFIG-QPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGE 132 (382)
Q Consensus 56 ~~~r~~l~i~Y~Gt~Y~G~Q~Q~~~~--TVqg~Le~AL~k~~~-~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~ 132 (382)
..+||+|+|+||||.|.|||.+.... |||+.|++|....++ +++++..+||||+||||..|++|++++...
T Consensus 3 ~~~ryll~i~ydgT~f~e~a~~~s~~~~tIq~~leea~eeqt~l~~l~l~~ssrtDa~Vha~~naa~~~vpr~s------ 76 (295)
T KOG4393|consen 3 EIMRYLLKIPYDGTAFEESAERLSKVARTIQGFLEEASEEQTGLDRLDLESSSRTDAGVHAYLNAAHYIVPRFS------ 76 (295)
T ss_pred chheeEEEecccccccHHHHhccCCcceehhhhhhhhHHhhcCCcceeecccCCCchhhheeeeeEEEEeeccc------
Confidence 35789999999999999999996654 999999999998876 579999999999999999999999999742
Q ss_pred CCCCCChHHHHHHHHhcCC-CCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHH
Q 016811 133 VLPPHDSSVVRRAVNHFLQ-SEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQ 211 (382)
Q Consensus 133 ~l~~~~~~~l~~~LN~~Lp-~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ 211 (382)
..+......++|..|- +|.||||+++.+||.+||||+++.+|+|.|+|.+++.++++|+++++|++++.||.-+|+
T Consensus 77 ---g~~~~~~~~a~nt~l~~k~gdirV~dv~~Vps~FhaR~sassRtY~YRla~g~d~l~~fERd~cW~lp~~lna~kmq 153 (295)
T KOG4393|consen 77 ---GSQQQAKDRAVNTVLQRKDGDIRVIDVRCVPSNFHARYSASSRTYFYRLASGSDPLSIFERDRCWHLPEELNARKMQ 153 (295)
T ss_pred ---CCcHHHHHHHHhccccCCCCceEEEEeeecCcchhheecccceeEEEEeecCCCccChhhhcccccCCcccCHHHHH
Confidence 1234556677777665 366999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccE
Q 016811 212 EACKVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRS 291 (382)
Q Consensus 212 ea~~~f~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 291 (382)
+|+++|+|+|||.+|++.......+.+++..+.+..+ |++..|.+.+... +. ..++
T Consensus 154 eaa~lf~G~hdfsaf~~ats~~y~P~~t~rr~sv~~~-------------g~~~a~~~~~~~e-----~~------~~~~ 209 (295)
T KOG4393|consen 154 EAAPLFEGSHDFSAFTEATSTVYFPSITERRLSVLNN-------------GDPLACSNQPETE-----GV------TTNV 209 (295)
T ss_pred hhhhhhccchhhhhhhcCCCCCCCCcccceeeeeccc-------------CCccccccCCccc-----cc------eeee
Confidence 9999999999999999987555667777776666542 2334454443111 11 2467
Q ss_pred EEEEEEeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCC----CCCCCCCCCCCceeeeccCCC
Q 016811 292 YEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTV----TAASPMAPACGLSLGFVKYDL 356 (382)
Q Consensus 292 ~~i~I~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~----~~~~p~APa~GL~L~~V~Y~~ 356 (382)
+.++++++||||.|||+|++.||.++.+.+....+..+|+.+.. +..++.|||+||+|..|.|.+
T Consensus 210 ~nve~e~~gflyrQvRrm~a~LV~~g~~al~~~qv~~iLe~~~~~~l~k~~~~vapphglfL~sv~Y~n 278 (295)
T KOG4393|consen 210 GNVEGETEGFLYRQVRRMRAYLVTAGSRALLYHQVLYILEVRDIVGLLKCVGTVAPPHGLFLSSVEYVN 278 (295)
T ss_pred EEEEEEecchHHHHHHhhheeeeeecccccchhhhhhhhhccchhhhhhccCCCCCCccceeeeEEech
Confidence 89999999999999999999999999999999999999999875 356899999999999999986
No 18
>PF01416 PseudoU_synth_1: tRNA pseudouridine synthase; InterPro: IPR020097 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. This entry represents pseudouridine synthase I (TruA). TruA from Escherichia coli modifies positions uracil-38, U-39 and/or U-40 in tRNA [, ]. TruA contains one atom of zinc essential for its native conformation and tRNA recognition and has a strictly conserved aspartic acid that is likely to be involved in catalysis []. These enzymes are dimeric proteins that contain two positively charged, RNA-binding clefts along their surface. Each cleft contains a highly conserved aspartic acid located at its centre. The structural domains have a topological similarity to those of other RNA-binding proteins, though the mode of interaction with tRNA appears to be unique. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1VS3_B 2NR0_B 2NQP_D 1DJ0_A 2NRE_A.
Probab=99.86 E-value=4.5e-24 Score=177.25 Aligned_cols=102 Identities=37% Similarity=0.560 Sum_probs=84.9
Q ss_pred HHHHcccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEE
Q 016811 213 ACKVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSY 292 (382)
Q Consensus 213 a~~~f~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 292 (382)
|++.|+|+|||++|++.+....++.|+|.++.+.+. .+++
T Consensus 1 A~~~~~G~HdF~~f~~~~~~~~~~~r~i~~~~~~~~----------------------------------------~~~~ 40 (105)
T PF01416_consen 1 AAKLYVGTHDFSGFQKQKTVEKNTIRTIFSIDIIEE----------------------------------------GDVV 40 (105)
T ss_dssp -CCEETCEEECCGCSSCS-HHHHHCCCEEEEECCCC----------------------------------------CCEE
T ss_pred CcceeEecCCCcCCEECCcccccHHHHHHHHhhhcC----------------------------------------CCEE
Confidence 678899999999999986545778899999887431 2467
Q ss_pred EEEEEeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCC---CCCCCCceeeeccCC
Q 016811 293 EVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASP---MAPACGLSLGFVKYD 355 (382)
Q Consensus 293 ~i~I~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p---~APa~GL~L~~V~Y~ 355 (382)
. +|+|+|||+||||+|||+++++++|..+++.|.++|+...+....+ +|||+||+|++|.||
T Consensus 41 ~-~i~g~~Fl~~~vR~~vg~~~~~~~G~~~~~~i~~~L~~~~~~~~~~ri~~ap~~gL~L~~v~y~ 105 (105)
T PF01416_consen 41 V-EIHGNSFLRHQVRIMVGTLLRTGRGVHSLEQIAELLNSKLRPKAPPRILTAPAVGLYLFHVRYD 105 (105)
T ss_dssp E-EEEESS--TTHHHHHHCCCCHHHTTSCEEECCCCCHHHHSCTTS-TEEEEEEECCECCEECCTT
T ss_pred E-EEEecccccccchhhhHHHHHHhcCCCCHHHHHHHHhccCccccCCCcceeeCCCCCceEeeCc
Confidence 7 9999999999999999999999999999999999999876544445 999999999999997
No 19
>PF01416 PseudoU_synth_1: tRNA pseudouridine synthase; InterPro: IPR020097 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. This entry represents pseudouridine synthase I (TruA). TruA from Escherichia coli modifies positions uracil-38, U-39 and/or U-40 in tRNA [, ]. TruA contains one atom of zinc essential for its native conformation and tRNA recognition and has a strictly conserved aspartic acid that is likely to be involved in catalysis []. These enzymes are dimeric proteins that contain two positively charged, RNA-binding clefts along their surface. Each cleft contains a highly conserved aspartic acid located at its centre. The structural domains have a topological similarity to those of other RNA-binding proteins, though the mode of interaction with tRNA appears to be unique. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1VS3_B 2NR0_B 2NQP_D 1DJ0_A 2NRE_A.
Probab=97.81 E-value=1.1e-06 Score=72.63 Aligned_cols=82 Identities=28% Similarity=0.352 Sum_probs=60.1
Q ss_pred EEEEeCC-CceeeeecCCCCCHHHHHHHHHHHhhC----C---------------CeeeeeeccCCccccccccEEEEEE
Q 016811 63 AVEYIGT-RFSGSQKQLNCRTVVGVLEEAFHKFIG----Q---------------PVSISLSSRTDAGVHAASNVCHVDV 122 (382)
Q Consensus 63 ~i~Y~Gt-~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~----~---------------~i~~~~asRTDkGVHA~~qvvs~~l 122 (382)
...|.|+ +|+||+.| +|++...+++|..+.- . ..-+..++|||+|||+..++..+
T Consensus 2 ~~~~~G~HdF~~f~~~---~~~~~~~~r~i~~~~~~~~~~~~~~i~g~~Fl~~~vR~~vg~~~~~~~G~~~~~~i~~~-- 76 (105)
T PF01416_consen 2 AKLYVGTHDFSGFQKQ---KTVEKNTIRTIFSIDIIEEGDVVVEIHGNSFLRHQVRIMVGTLLRTGRGVHSLEQIAEL-- 76 (105)
T ss_dssp CCEETCEEECCGCSSC---S-HHHHHCCCEEEEECCCCCCEEEEEEESS--TTHHHHHHCCCCHHHTTSCEEECCCCC--
T ss_pred cceeEecCCCcCCEEC---CcccccHHHHHHHHhhhcCCCEEEEEEecccccccchhhhHHHHHHhcCCCCHHHHHHH--
Confidence 3579999 99999999 6777766666665421 1 22356899999999998877543
Q ss_pred cccccCCCCCCCCCCChHHHHHHHHhcCCC-CCCeEEEEEEEcC-CCCccccc
Q 016811 123 ERISKRKPGEVLPPHDSSVVRRAVNHFLQS-EGDIMVTDVRCVP-SDFHARFR 173 (382)
Q Consensus 123 ~~~~~~~~~~~l~~~~~~~l~~~LN~~Lp~-p~dIrV~~i~~V~-~~F~aR~~ 173 (382)
||..++. ..+ ||+.+.+++ -.||++|+
T Consensus 77 -----------------------L~~~~~~~~~~-ri~~ap~~gL~L~~v~y~ 105 (105)
T PF01416_consen 77 -----------------------LNSKLRPKAPP-RILTAPAVGLYLFHVRYD 105 (105)
T ss_dssp -----------------------HHHHSCTTS-T-EEEEEEECCECCEECCTT
T ss_pred -----------------------HhccCccccCC-CcceeeCCCCCceEeeCc
Confidence 6777752 125 999999999 89999875
No 20
>PF10105 DUF2344: Uncharacterized protein conserved in bacteria (DUF2344); InterPro: IPR018768 This domain, found in various hypothetical bacterial proteins and Radical Sam domain proteins, has no known function.
Probab=94.89 E-value=0.41 Score=44.15 Aligned_cols=109 Identities=20% Similarity=0.268 Sum_probs=77.4
Q ss_pred CCHHHHHHHHHHHhh-------C--CCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCCCChHHHHHHHHhcCC
Q 016811 81 RTVVGVLEEAFHKFI-------G--QPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQ 151 (382)
Q Consensus 81 ~TVqg~Le~AL~k~~-------~--~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~~~~~~l~~~LN~~Lp 151 (382)
--+...+++||+++. | -...++.+.=.=-||.+.+-++.+.+... .+++.+.+.||..||
T Consensus 18 Ldl~r~~eRa~rRA~lp~a~SqGFnP~Pkisf~~aLpvGv~S~~E~~di~l~~~-----------~~~~~~~~rLn~~lP 86 (187)
T PF10105_consen 18 LDLMRVFERALRRAGLPVAYSQGFNPHPKISFAPALPVGVESLAEYMDIELEED-----------IDPEEVLERLNAVLP 86 (187)
T ss_pred HHHHHHHHHHhhhcCCCeeecCCCCCCcceeecccccCceeeccEEEEEEEecC-----------CCHHHHHHHHHHhCC
Confidence 346677888888762 1 24667788888889999999998888642 467899999999998
Q ss_pred CCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHHcccc
Q 016811 152 SEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGC 220 (382)
Q Consensus 152 ~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~f~Gt 220 (382)
++|+|.++..++....+= ...-..+.|.+... ..+.+.+.+++..|.-.
T Consensus 87 --~Gl~i~~~~~i~~~~~sl-~~~i~~~~Y~i~~~-----------------~~~~~~~~~~~~~~~~~ 135 (187)
T PF10105_consen 87 --EGLRILEAEEIPPKAPSL-MALINAAEYRITLP-----------------EIDEEELEEAIEAFLAA 135 (187)
T ss_pred --CCCEEEEEEEccCCCcch-hhhcceEEEEEEec-----------------CCCHHHHHHHHHHHHCC
Confidence 899999999998544322 23345577777421 33456666666666544
No 21
>TIGR01213 conserved hypothetical protein TIGR01213. Members of this family show twilight-zone similarity to several predicted RNA pseudouridine synthases. All trusted members of this family are archaeal. Several eukaryotic homologs lack N-terminal homology including two CXXC motifs.
Probab=93.10 E-value=3.2 Score=42.53 Aligned_cols=146 Identities=15% Similarity=0.152 Sum_probs=92.8
Q ss_pred CCCHHHHHHHHHHHhh-CCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCCCChHHHHHHHHhcCCCCCCeEE
Q 016811 80 CRTVVGVLEEAFHKFI-GQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMV 158 (382)
Q Consensus 80 ~~TVqg~Le~AL~k~~-~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~~~~~~l~~~LN~~Lp~p~dIrV 158 (382)
..+||+.|...+.+.+ +....+.+|||-|.=|=-+|+===|-++... |.. ...+...+.+.||.... ..|.|
T Consensus 184 ~~SVeelI~~~v~~~~~~~~~~Fh~aGREDvDvRMLG~GRPFvlEi~~---P~r--r~~dl~~le~~IN~~~~--g~V~v 256 (388)
T TIGR01213 184 PESVEELIASPFLKATGGTDAYFHGAGREDVDVRMLGTGRPFVLEVKE---PRY--RKIDLDPLEEEINTSGK--GKVEV 256 (388)
T ss_pred CchHHHHHHHHHHHHhCCceeEEeccCccccceeeccCCCceEEEecC---Ccc--CCCCHHHHHHHHhhccC--CCEEE
Confidence 4699999999988876 4679999999999999999862222222210 100 11345678899999875 78999
Q ss_pred EEEEEcCCCCcc--cccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHHcccc--ccccccccc-CCCC
Q 016811 159 TDVRCVPSDFHA--RFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGC--HDFSSFRAS-GCQA 233 (382)
Q Consensus 159 ~~i~~V~~~F~a--R~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~f~Gt--HDF~nFt~~-~~~~ 233 (382)
.+...++..=-. +.....|+|+=.+.. ..+++.+.+.++++.|.|. +-..--... ....
T Consensus 257 ~~L~~~~~~~v~~ik~~~~~K~Y~alV~~----------------~~~v~~e~L~~~~~~l~g~~I~QrTP~RV~hRRa~ 320 (388)
T TIGR01213 257 EGLKFATREEVEEVKEEKHRKVYRALVEV----------------DGPVSDEDLEELCKELEGATIYQRTPLRVLHRRAD 320 (388)
T ss_pred EEeEEEcHHHHHHHhccCCceEEEEEEEE----------------CCCCCHHHHHHHHHhccCCEEEccCCceEEEecCC
Confidence 998866543111 112235777755532 4467778899999998883 211111111 1122
Q ss_pred CCCeEEEEEEEEEee
Q 016811 234 NSPIRTLDELHVSEV 248 (382)
Q Consensus 234 ~s~~R~I~~~~i~~~ 248 (382)
..-.|+|+++++...
T Consensus 321 ~~R~R~I~~i~~~~i 335 (388)
T TIGR01213 321 LVRERRVYQVDLSGL 335 (388)
T ss_pred CceEEEEEEEEEEEE
Confidence 334588999988765
No 22
>PRK14554 putative pseudouridylate synthase; Provisional
Probab=75.16 E-value=85 Score=32.78 Aligned_cols=139 Identities=16% Similarity=0.188 Sum_probs=85.9
Q ss_pred CCHHHHHHHHHHHhh-CCCeeeeeeccCCcccccccc----EEEEEEcccccCCCCCCCCCCChHHHHHHHHhcCCCCCC
Q 016811 81 RTVVGVLEEAFHKFI-GQPVSISLSSRTDAGVHAASN----VCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGD 155 (382)
Q Consensus 81 ~TVqg~Le~AL~k~~-~~~i~~~~asRTDkGVHA~~q----vvs~~l~~~~~~~~~~~l~~~~~~~l~~~LN~~Lp~p~d 155 (382)
.+||+.|...+...+ +....+.+|||-|.=|=-+|. |+-+.-+.. + ..+...+...+|. . ..
T Consensus 220 ~SVeelI~~~i~~~f~~~~~~fh~aGREDvDVRmLG~GRPFViEi~~p~r--~-------~~~~~~l~~~~~~--~--g~ 286 (422)
T PRK14554 220 ESVEELIAKPVIEAFGGEDAVFHGAGREDVDARMLGTGRPFVIEVKEPRK--R-------KVDLEALEEEINA--D--GK 286 (422)
T ss_pred CCHHHHHHHHHHHHhCCCceEEecCCCCCcceEecCCCCceEEEecCccc--c-------cCCHHHHHHhhcc--C--CC
Confidence 699999998887665 688999999999999999987 333322211 0 1234455544444 2 78
Q ss_pred eEEEEEEEcCCCCcccc--cccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHHccccccc-cccccc--C
Q 016811 156 IMVTDVRCVPSDFHARF--RAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDF-SSFRAS--G 230 (382)
Q Consensus 156 IrV~~i~~V~~~F~aR~--~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~f~GtHDF-~nFt~~--~ 230 (382)
|.|.+...++..--.+. ....|+|+=.+.. ..+++-+.+.++++.|.|.-=. ....+. .
T Consensus 287 V~v~~l~~~~~~~~~~ik~~~~~K~YralV~~----------------~~~v~~e~l~~~~~~l~~~~I~QrTP~RV~hR 350 (422)
T PRK14554 287 VEVENLRFATRKEVERIKEEKASKTYRALVES----------------DEPVSEEELEKLLDELSGATIEQRTPRRVKHR 350 (422)
T ss_pred EEEEEEEEEcHHHHHHHhcCCCceEEEEEEEE----------------CCCCCHHHHHHHHHhccCcEeeccCcHhhhhh
Confidence 99999987765422221 1223777655532 4466778888998888874100 111111 1
Q ss_pred CCCCCCeEEEEEEEEEee
Q 016811 231 CQANSPIRTLDELHVSEV 248 (382)
Q Consensus 231 ~~~~s~~R~I~~~~i~~~ 248 (382)
.......|+|+++++...
T Consensus 351 R~~~~R~R~I~~i~~~~i 368 (422)
T PRK14554 351 RADLVRVRKVYDISGELI 368 (422)
T ss_pred ccccceeeEEEEEEEEEE
Confidence 122344688999888765
No 23
>COG1258 Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=73.46 E-value=84 Score=32.33 Aligned_cols=140 Identities=17% Similarity=0.144 Sum_probs=92.2
Q ss_pred CCCHHHHHHHHHHHhh-CCCeeeeeeccCCcccccccc----EEEEEEcccccCCCCCCCCCCChHHHHHHHHhcCCCCC
Q 016811 80 CRTVVGVLEEAFHKFI-GQPVSISLSSRTDAGVHAASN----VCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEG 154 (382)
Q Consensus 80 ~~TVqg~Le~AL~k~~-~~~i~~~~asRTDkGVHA~~q----vvs~~l~~~~~~~~~~~l~~~~~~~l~~~LN~~Lp~p~ 154 (382)
..||+..|-..+.+++ +.+..+.+|||-|--|--+|+ |+-++-++. +. .+++.+...||.-.
T Consensus 190 ~~sve~~i~~~~~~~f~g~~~~fhgAGREDvDvRMLG~GRPfVlEvk~Pr~--R~-------~dl~~l~~~in~~~---- 256 (398)
T COG1258 190 PESVEELIKQPIKEAFGGLDAKFHGAGREDVDVRMLGTGRPFVLEVKEPRR--RN-------VDLDELEEEINRGG---- 256 (398)
T ss_pred cccHHHHHHHHHHHhccCceeEEEccCCCccceeeecCCCceEEEecCccc--cc-------CChHHHHHHhccCC----
Confidence 4688888888766654 679999999999999999885 555444421 11 35678889999864
Q ss_pred CeEEEEEEEcCCCCccc---ccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHHHcccc-cccccccccC
Q 016811 155 DIMVTDVRCVPSDFHAR---FRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGC-HDFSSFRASG 230 (382)
Q Consensus 155 dIrV~~i~~V~~~F~aR---~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~~f~Gt-HDF~nFt~~~ 230 (382)
.+.|+++.-+...=-.+ -.-..|+|+=.+.. ..+++.+++.+++.-|.|. =.=..+....
T Consensus 257 ~vev~~l~f~~~e~v~~ik~~~~~rK~YrAlV~~----------------~~~v~~e~l~~~~~~L~g~~I~QrTP~RV~ 320 (398)
T COG1258 257 KVEVFDLEFVGREEVEEIKETERHRKVYRALVYS----------------DRPVSDEKLEEVLGSLEGKTIRQRTPRRVL 320 (398)
T ss_pred cEEEEEEEecCHHHHHHHHhccccceeEEEEEEE----------------CCCcCHHHHHHHHhhccCcEEeecChHHHh
Confidence 58999998776431111 22346777766642 4578889999999999993 2222222211
Q ss_pred --CCCCCCeEEEEEEEEEee
Q 016811 231 --CQANSPIRTLDELHVSEV 248 (382)
Q Consensus 231 --~~~~s~~R~I~~~~i~~~ 248 (382)
..+.-..|.|+++++...
T Consensus 321 hrRadlvR~R~V~~l~~~~~ 340 (398)
T COG1258 321 HRRADLVRIRRVYELSLDLI 340 (398)
T ss_pred hhhcccceEEEEEEeeeeec
Confidence 112234567887777654
No 24
>COG5011 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.07 E-value=62 Score=30.44 Aligned_cols=57 Identities=12% Similarity=0.239 Sum_probs=46.0
Q ss_pred CeeeeeeccCCccccccccEEEEEEcccccCCCCCCCCCCChHHHHHHHHhcCCCCCCeEEEEEEEcCCC
Q 016811 98 PVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSD 167 (382)
Q Consensus 98 ~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~~~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~ 167 (382)
..+++.|.=---|+..-|-++-|++... .+++.+.+.||..|| +|+-+.++..++..
T Consensus 45 ~prmsia~alpvG~~ssge~fd~eL~e~-----------v~~dk~~etl~~~lp--~Dl~~~~v~~iD~k 101 (228)
T COG5011 45 HPRMSIAQALPVGIYSSGEIFDFELTEE-----------VSEDKFKETLNKALP--NDLPAYDVEKIDKK 101 (228)
T ss_pred CCceeeccccccccccCceEEEEEeeee-----------cCcHHHHHHHHHhCC--CCcchhheeeecCC
Confidence 4567777777779999999988887642 346789999999998 89999999988763
No 25
>PF09153 DUF1938: Domain of unknown function (DUF1938); InterPro: IPR015236 This domain, which is predominantly found in the archaeal protein O6-alkylguanine-DNA alkyltransferase, adopts a secondary structure consisting of a three stranded antiparallel beta-sheet and three alpha helices. The exact function has not, as yet, been defined, though it has been postulated that this domain may confer thermostability to the protein []. ; GO: 0005737 cytoplasm; PDB: 1MGT_A.
Probab=23.09 E-value=35 Score=27.55 Aligned_cols=26 Identities=15% Similarity=0.294 Sum_probs=22.1
Q ss_pred cEEEEEEEeCcchhhHHHHHHHHHHH
Q 016811 290 RSYEVIARARSFLYHQVRLIVGVLKA 315 (382)
Q Consensus 290 ~~~~i~I~G~sFL~~QIR~MVg~lv~ 315 (382)
+-+.|.+-|.-||+++|+.|++.|-.
T Consensus 25 qGItfslDg~efl~eri~~L~~~L~k 50 (86)
T PF09153_consen 25 QGITFSLDGEEFLRERISRLIEFLKK 50 (86)
T ss_dssp EEEEEESSHHHHHH-HHHHHHHHHHH
T ss_pred eeEEEEeccHHHHHHHHHHHHHHHHh
Confidence 45788899999999999999999865
No 26
>PF11688 DUF3285: Protein of unknown function (DUF3285); InterPro: IPR021702 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=22.00 E-value=41 Score=23.78 Aligned_cols=7 Identities=29% Similarity=0.344 Sum_probs=5.6
Q ss_pred hhhHHHH
Q 016811 302 LYHQVRL 308 (382)
Q Consensus 302 L~~QIR~ 308 (382)
|+|||||
T Consensus 12 MRNMVRK 18 (45)
T PF11688_consen 12 MRNMVRK 18 (45)
T ss_pred HHHHHHc
Confidence 7888887
No 27
>cd01291 PseudoU_synth PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases. Some psi sites such as psi55,13,38 and 39 in tRNA are highly conserved, being in the same position in eubacteria, archeabacteria and eukaryotes. Other psi sites occur in a more restricted fashion, for example psi2604in 23S RNA made by E.coli RluF has only been detected in E.coli. Human dyskerin with the help of guide RNAs makes the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Mutations in human dyskerin cause X-linked dyskeratosis congenitas. Missense mutation in human PUS1 causes mitochondrial myopathy and sideroblastic anemia (MLASA).
Probab=21.66 E-value=1.3e+02 Score=23.45 Aligned_cols=22 Identities=14% Similarity=0.308 Sum_probs=18.4
Q ss_pred CCeeeeeeccCCccccccccEEE
Q 016811 97 QPVSISLSSRTDAGVHAASNVCH 119 (382)
Q Consensus 97 ~~i~~~~asRTDkGVHA~~qvvs 119 (382)
..-.+..|||.|+..+.. |+++
T Consensus 22 ~~~~i~~aG~kDk~a~t~-q~v~ 43 (87)
T cd01291 22 PPKRVGYAGRKDKRAVTT-QLVS 43 (87)
T ss_pred ChheEEECccCCCCeeEE-EEEc
Confidence 356799999999999998 7765
Done!