Query psy13081
Match_columns 335
No_of_seqs 222 out of 1256
Neff 6.3
Searched_HMMs 46136
Date Fri Aug 16 18:56:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13081.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13081hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2554|consensus 100.0 3.6E-88 7.7E-93 640.2 22.7 310 2-319 66-388 (425)
2 PRK14589 tRNA pseudouridine sy 100.0 8E-75 1.7E-79 545.9 30.0 259 3-293 2-260 (265)
3 cd02569 PseudoU_synth_ScPus3 P 100.0 3.8E-74 8.3E-79 539.4 26.9 247 6-256 1-256 (256)
4 COG0101 TruA Pseudouridylate s 100.0 4E-74 8.7E-79 539.7 26.1 234 1-262 1-250 (266)
5 PRK12434 tRNA pseudouridine sy 100.0 2.4E-73 5.1E-78 531.2 26.6 229 1-256 1-245 (245)
6 PRK00021 truA tRNA pseudouridi 100.0 3.7E-72 7.9E-77 522.9 27.1 228 1-256 1-244 (244)
7 PRK14588 tRNA pseudouridine sy 100.0 3.8E-72 8.3E-77 530.0 27.0 237 1-262 1-253 (272)
8 PRK14587 tRNA pseudouridine sy 100.0 1.4E-71 3E-76 520.9 30.0 249 3-296 2-251 (256)
9 PRK14586 tRNA pseudouridine sy 100.0 2.1E-71 4.6E-76 518.1 26.7 228 1-256 1-245 (245)
10 TIGR00071 hisT_truA pseudourid 100.0 4.8E-71 1E-75 510.4 25.7 222 2-251 1-227 (227)
11 cd00497 PseudoU_synth_TruA_lik 100.0 5.5E-71 1.2E-75 509.1 25.4 224 8-256 1-224 (224)
12 cd02866 PseudoU_synth_TruA_Arc 100.0 5.8E-71 1.3E-75 507.9 25.3 221 6-256 1-221 (221)
13 cd02570 PseudoU_synth_EcTruA P 100.0 1.7E-70 3.7E-75 510.1 26.2 223 6-256 1-239 (239)
14 cd02568 PseudoU_synth_PUS1_PUS 100.0 3.9E-70 8.4E-75 509.5 23.2 239 6-256 1-245 (245)
15 PLN03078 Putative tRNA pseudou 100.0 4.9E-65 1.1E-69 508.6 29.7 249 1-259 70-421 (513)
16 KOG2553|consensus 100.0 9.3E-56 2E-60 428.2 25.2 277 2-297 37-382 (416)
17 KOG4393|consensus 100.0 4.9E-44 1.1E-48 327.9 16.1 245 2-258 5-278 (295)
18 PF01416 PseudoU_synth_1: tRNA 99.9 3.2E-25 7E-30 180.5 -3.9 104 141-257 1-105 (105)
19 PF01416 PseudoU_synth_1: tRNA 98.3 3.9E-08 8.4E-13 79.8 -2.7 83 8-118 3-105 (105)
20 PF10105 DUF2344: Uncharacteri 96.7 0.015 3.2E-07 52.7 10.0 114 27-150 19-137 (187)
21 TIGR01213 conserved hypothetic 93.7 4.7 0.0001 40.6 16.8 159 25-203 184-351 (388)
22 PRK14554 putative pseudouridyl 91.3 5.7 0.00012 40.5 14.0 156 26-202 220-383 (422)
23 cd01291 PseudoU_synth PseudoU_ 91.1 0.85 1.8E-05 35.6 6.5 22 46-68 22-43 (87)
24 COG1258 Predicted pseudouridyl 83.4 20 0.00044 35.9 12.1 155 25-203 190-356 (398)
25 COG5011 Uncharacterized protei 48.0 37 0.0008 31.3 5.0 75 28-111 21-100 (228)
26 PF07166 DUF1398: Protein of u 27.6 43 0.00094 28.4 2.0 28 132-159 66-94 (125)
No 1
>KOG2554|consensus
Probab=100.00 E-value=3.6e-88 Score=640.21 Aligned_cols=310 Identities=44% Similarity=0.796 Sum_probs=275.4
Q ss_pred ccEEEEEEEeCCCcccceecCCCC-CcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCC-
Q psy13081 2 RPIALKILYQGFNYHGFQIQTSSD-NTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPG- 79 (335)
Q Consensus 2 r~~al~iaY~G~~y~G~q~Q~~~~-~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~- 79 (335)
|+|||+|+|+||+|.|++.|+++. +|||+.|++||.++.||+++++++|+|||||||||||+|||+|++++|.+|.++
T Consensus 66 R~IAlkiaY~GW~Y~Gla~Qe~T~~~TIEg~l~eAL~kt~Lies~~~~~ysRCGRTDKGVSAfgQviSl~lRS~~p~~~s 145 (425)
T KOG2554|consen 66 RHIALKIAYLGWNYQGLAPQEHTNNPTIEGKLFEALKKTRLIESRQTCNYSRCGRTDKGVSAFGQVISLVLRSRIPMPDS 145 (425)
T ss_pred eEEEEEEEEeccccCceecCCCCCCcchHHHHHHHHHhhhcccCcccccccccCCcccchhhhhheeeeeeeccCCCchh
Confidence 789999999999999999997765 499999999999999999999999999999999999999999999999998752
Q ss_pred C-----CCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCCCCcHHHHHHHHHhcccccccccc
Q psy13081 80 E-----ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNL 154 (335)
Q Consensus 80 ~-----~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~~lDie~m~~A~~~~~G~HDF~nF 154 (335)
+ +.+.+|++|+.+||++||+||||.||+|||+.|+|||+|..|||+|+|+..+|||++|++||++|+|+|||+||
T Consensus 146 ~~~~~~~a~~~Ei~Y~~mLN~vLP~dIRi~awapvp~~FsARFsC~~RtYrY~F~k~dLdI~~M~kAA~l~vGe~DFrNF 225 (425)
T KOG2554|consen 146 QRDAVATADSEEIPYVHMLNRVLPPDIRIVAWAPVPPTFSARFSCVQRTYRYYFPKKDLDIDRMSKAASLLVGEHDFRNF 225 (425)
T ss_pred hhccccccccccccHHHHHhccCCCcceEEEEecCCCCccceeehhhceeeEeccCCCcCHHHHHHHHHHHhcchhhhhh
Confidence 1 23447899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHHHHHHHHhcCC
Q psy13081 155 CKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEK 234 (335)
Q Consensus 155 ~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~~i~~lL~~~~ 234 (335)
||.|..++.+||.|+|.+++|..+... .++|+|+|.|++||||||||||++|++||+|.+.|+.|.+|||+++
T Consensus 226 CK~D~~n~vtny~Rti~s~kV~~~~~~-------~~my~ldi~g~AFLwHqVRcimaiL~liGq~~E~p~lI~dLldIek 298 (425)
T KOG2554|consen 226 CKIDVSNGVTNYERTILSAKVEDVGQT-------PGMYYLDIQGSAFLWHQVRCIMAILFLIGQGLEQPSLISDLLDIEK 298 (425)
T ss_pred hhhcchhhhHHHHhhhheeeEEEcCCC-------CceEEEEeechhhHHHHHHHHHHHHHHhccccCCchHHHHHHhccc
Confidence 999999999999999999999987432 2599999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCcCCCCceeeeccc--CCcccccChHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhhhhcccCCccc
Q psy13081 235 YPRKPVYPMVRGEPLNLYHTEF--DNLTWHYDEIEVSHVLRDLHEDW----SLLSIKATMLGEMIKDTVRESKCTMGDLD 308 (335)
Q Consensus 235 ~~~~p~~~~Ap~~gL~L~~v~Y--~~~~~~~d~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 308 (335)
+|.+|+|.||...||+|++|.| ++++|.++.++...+.+.++..| ..++.+++| ..|...+.........+.+
T Consensus 299 ~P~kPqY~mA~~~PL~LydC~f~~e~~ew~~~~~sd~~a~~~l~~t~~~L~~~~q~~~~~-~~i~~~~~~~~e~~n~~~~ 377 (425)
T KOG2554|consen 299 NPQKPQYTMASDYPLELYDCDFHRENVEWRHDTESDQIAPKILKITWENLVEHLQNGSAM-ENIHEEVLGMAEFSNFKPS 377 (425)
T ss_pred CCCCceeeeccCCceEEEecCCCCccccccccccccccchhHHHHHHHHHHHHHHhHHHH-HhhHHhhhhhcccccCCcc
Confidence 9999999999999999999999 99999999999888888888887 444445554 5555555555555555544
Q ss_pred cceeeeeccCC
Q psy13081 309 INHLIEGEFSR 319 (335)
Q Consensus 309 ~~~~~~~~~~~ 319 (335)
.-.+.+|..-.
T Consensus 378 ~~~~~~~~~~~ 388 (425)
T KOG2554|consen 378 VINQGEGLQDI 388 (425)
T ss_pred hhhhhhhhhhc
Confidence 43344444443
No 2
>PRK14589 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=8e-75 Score=545.92 Aligned_cols=259 Identities=28% Similarity=0.486 Sum_probs=235.8
Q ss_pred cEEEEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCCCC
Q psy13081 3 PIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEES 82 (335)
Q Consensus 3 ~~al~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~~~ 82 (335)
+++|.|+|+|++|+|||.||+ .+|||++|++||.+++.+.+.+++.+.+||||||||||++||++|+++. +
T Consensus 2 ~~~l~i~YdGt~y~G~Q~Q~~-~~TVq~~Le~aL~~~~~~~~~~~~~i~~agRTDaGVHA~gqv~~f~~~~--~------ 72 (265)
T PRK14589 2 RLAFRISYIGTRFFGSQYQPD-QRTVEGEFIAACRRLGLFSDWREAGFALAGRTDRGVHARGQVLAFSTHK--P------ 72 (265)
T ss_pred cEEEEEEEcCCCeeeeeeCCC-CCCHHHHHHHHHHHhhCccCCceeeEEEeccCCcCccccccEEEEEeCC--h------
Confidence 799999999999999999998 4899999999999998776556899999999999999999999999753 1
Q ss_pred CCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCCCCcHHHHHHHHHhccccccccccccccccCC
Q psy13081 83 DDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNG 162 (335)
Q Consensus 83 ~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~~lDie~m~~A~~~~~G~HDF~nF~k~~~~~~ 162 (335)
..+...||+.||+||+|+++.+||++|||||+|++|+|+|+|+...+|+++|++||+.|+|+|||+|||+.+
T Consensus 73 ----~~~~~~lN~~LP~dI~V~~~~~v~~~FhAR~~a~~R~Y~Y~i~~~~lD~~~m~~a~~~f~G~HDF~~F~~~~---- 144 (265)
T PRK14589 73 ----ERAVEALNGQLPPDIWCTGWAEVPESFHPRYDAISRTYRYYFSRPPSDINAMRDAAGEFIGTHDFSCFARVE---- 144 (265)
T ss_pred ----HHHHHHHHhhCCCCeEEEEEEEcCCCCCcccCCceeEEEEEEecCccHHHHHHHHHHHccCCccHHHHhccC----
Confidence 246789999999999999999999999999999999999999999999999999999999999999999864
Q ss_pred cccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCC
Q psy13081 163 VVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYP 242 (335)
Q Consensus 163 ~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~~i~~lL~~~~~~~~p~~~ 242 (335)
.++++|+|.++++... .++++|+|+|+||||||||+|||+|+.||+|++++++|+++|+.++.. ..+
T Consensus 145 ~~~~vRtI~~i~v~~~----------~~~~~~~i~G~~FL~~mVR~mVG~ll~vg~G~~~~~~i~~~L~~~~r~---~~~ 211 (265)
T PRK14589 145 GKSPVRTILRIRVFSD----------GGFPVFEVTAQSFLWHMVRCMAGALLQIGEGEMEPDDIERLLSGPCKR---KVK 211 (265)
T ss_pred CCCCeEEEEEEEEEEe----------CCEEEEEEEechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCcCCC---CCC
Confidence 3478999999999752 268999999999999999999999999999999999999999976532 257
Q ss_pred CcCCCCceeeecccCCcccccChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13081 243 MVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMI 293 (335)
Q Consensus 243 ~Ap~~gL~L~~v~Y~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 293 (335)
+|||+||+|++|.|+ .+|..++++. +....+.+....+.++++++.-++
T Consensus 212 ~APa~GL~L~~V~Y~-~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 260 (265)
T PRK14589 212 PAPAEGLVLWDVDCG-LTFTPIPADP-RSVRRIARQRREAHLMETVYALLL 260 (265)
T ss_pred ccCCCCcEEeeeecC-CccccccchH-HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 899999999999997 5999999998 888889999999999999876654
No 3
>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=3.8e-74 Score=539.38 Aligned_cols=247 Identities=51% Similarity=0.942 Sum_probs=214.2
Q ss_pred EEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCC-----
Q psy13081 6 LKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGE----- 80 (335)
Q Consensus 6 l~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~----- 80 (335)
|+|+|+||+|+|||+||+..+|||++|++||.+++.|++.+++.+++||||||||||++||++|++.+.+++...
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 589999999999999997458999999999999998887678999999999999999999999999776543210
Q ss_pred ----CCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCCCCcHHHHHHHHHhcccccccccccc
Q psy13081 81 ----ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCK 156 (335)
Q Consensus 81 ----~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~~lDie~m~~A~~~~~G~HDF~nF~k 156 (335)
...+.+..+...||+.||+||+|+++.+||++|||||+|++|+|+|+|+...+|+++|++||++|+|+|||+|||+
T Consensus 81 ~~~~~~~~~~~~~~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~ldi~~m~~a~~~f~G~HDF~~F~~ 160 (256)
T cd02569 81 DVKSTADEEELPYCKILNRVLPPDIRILAWAPVPPDFSARFSCVSRTYRYFFPKGDLDIELMRKAAKLLLGEHDFRNFCK 160 (256)
T ss_pred cccccccchHHHHHHHHHhhCCCCcEEEEEEECCCCcCCCccCCceEEEEEecCCCCCHHHHHHHHHHhhCCcchHHHhc
Confidence 0112234578999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred ccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCC
Q psy13081 157 MNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYP 236 (335)
Q Consensus 157 ~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~~i~~lL~~~~~~ 236 (335)
.+.+++.++++|+|++++|.+.... ..+.++++|+|+|+||||||||+|||+|++||+|++++++|+++|+.+.++
T Consensus 161 ~~~~~~~~~~~RtI~~~~v~~~~~~----~~~~~~~~~~i~g~~FL~~mVR~mvg~ll~vg~G~~~~~~i~~~L~~~~r~ 236 (256)
T cd02569 161 MDVANQVTNYVRRVLSAEVEPVDQH----PDGDGLYYFEVRGSAFLWHQVRCMMAVLFLIGQGLEPPSVISQLLDVEKNP 236 (256)
T ss_pred cCcccCCCCCceEEEEEEEEEccCC----CCCCcEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCcccc
Confidence 6433335689999999999853110 012368999999999999999999999999999999999999999988766
Q ss_pred CCCCCCCcCCCCceeeeccc
Q psy13081 237 RKPVYPMVRGEPLNLYHTEF 256 (335)
Q Consensus 237 ~~p~~~~Ap~~gL~L~~v~Y 256 (335)
..+.+++|||+||+|++|.|
T Consensus 237 ~~~~~~~Ap~~GL~L~~v~~ 256 (256)
T cd02569 237 RKPQYTMASEVPLVLYDCGF 256 (256)
T ss_pred CCCCcCcCCCCCcEEEEeeC
Confidence 55544589999999999987
No 4
>COG0101 TruA Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4e-74 Score=539.69 Aligned_cols=234 Identities=35% Similarity=0.518 Sum_probs=210.9
Q ss_pred CccEEEEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCC
Q psy13081 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGE 80 (335)
Q Consensus 1 Mr~~al~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~ 80 (335)
|++|+|+|+|||++|+|||+||+. +|||++|++||.+++. .+..+.+||||||||||.|||+||+++.+.+
T Consensus 1 m~ri~l~iaYdGt~f~G~Q~Qp~~-~TVQ~~le~aL~~i~~----~~~~i~~AGRTD~GVHA~gqv~hfd~~~~~~---- 71 (266)
T COG0101 1 MKRIALKIAYDGTRFHGWQRQPNV-RTVQGELEKALSKIGG----ESVRVIGAGRTDAGVHALGQVVHFDTPADRP---- 71 (266)
T ss_pred CceEEEEEEEcCCceeeeccCCCC-CCHHHHHHHHHHHhcC----CcceeEEecCCCcCccccccEEEEEcCCccc----
Confidence 889999999999999999999995 9999999999999985 3458999999999999999999999876543
Q ss_pred CCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCC----------------CCcHHHHHHHHHh
Q psy13081 81 ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQA----------------GLDIDAMHKAAQY 144 (335)
Q Consensus 81 ~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~----------------~lDie~m~~A~~~ 144 (335)
+..++.+||+.||+||+|+++++||++|||||+|.+|+|+|+++.. +||+++|++|++.
T Consensus 72 -----~~~~~~~lN~~Lp~dI~V~~~~~v~~~FhaRfsa~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ld~~~m~~aa~~ 146 (266)
T COG0101 72 -----LEKLVRALNALLPPDIRVLDVAEVPDDFHARFSAKSRTYRYIIYNAPLRPPFLANYVWHVPYPLDLDAMREAAKL 146 (266)
T ss_pred -----HHHHHHHHHhcCCCCcEEEEEEECCCCCCCcccccceEEEEEEcCccCCChhhhcccccccCcCCHHHHHHHHHH
Confidence 3478999999999999999999999999999999999999999753 3699999999999
Q ss_pred ccccccccccccccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHH
Q psy13081 145 LVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPE 224 (335)
Q Consensus 145 ~~G~HDF~nF~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~ 224 (335)
|+|+|||+|||+.+... .+++|+|++++|... ++++.|+|+|+||||||||+|||+|++||+|+++++
T Consensus 147 l~G~HDF~sF~~~~~~~--~s~vRti~~~~v~~~----------~~~i~i~i~g~sFL~~mVR~iVg~l~~vg~g~~~~~ 214 (266)
T COG0101 147 LLGTHDFTSFRKAGCQS--KSPVRTIYRIDVSRD----------GDLIVIDISGNSFLWHMVRNIVGALLLVGRGKRPVE 214 (266)
T ss_pred ccccccchhhccCCCcc--CCCeEEEEEEEEEec----------CCEEEEEEEeChhHHHHHHHHHHHHHHHhCCCCCHH
Confidence 99999999999976443 388999999999854 378999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCCCCCCCCcCCCCceeeecccCCcccc
Q psy13081 225 IIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWH 262 (335)
Q Consensus 225 ~i~~lL~~~~~~~~p~~~~Ap~~gL~L~~v~Y~~~~~~ 262 (335)
+|.++|+.+.+ +...++|||+||+|++|.|++..+.
T Consensus 215 ~i~~ll~~~~r--~~~~~~Apa~GL~L~~v~Y~~~~~~ 250 (266)
T COG0101 215 WIKELLEAKDR--KLAGPTAPAEGLYLVRVDYPEDFEL 250 (266)
T ss_pred HHHHHHhccCc--ccCCCCCCCCccEEEeeccCCcccc
Confidence 99999997432 3567899999999999999764443
No 5
>PRK12434 tRNA pseudouridine synthase A; Reviewed
Probab=100.00 E-value=2.4e-73 Score=531.23 Aligned_cols=229 Identities=31% Similarity=0.480 Sum_probs=205.7
Q ss_pred CccEEEEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCC
Q psy13081 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGE 80 (335)
Q Consensus 1 Mr~~al~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~ 80 (335)
|++|+|.|+|+||+|+|||+||+..+|||++|++||.++. .+++.+.+||||||||||++||++|++++.+++
T Consensus 1 m~~~~l~i~YdGt~y~G~Q~Q~~~~~TVq~~le~aL~~~~----~~~~~~~~agRTD~GVHA~~qv~~f~~~~~~~~--- 73 (245)
T PRK12434 1 MRNIKLTIQYDGSRYKGWQKLGNNDNTIQGKIESVLSEMT----GEEIEIIGCGRTDAGVHALNQVANFQTDEKLSE--- 73 (245)
T ss_pred CceEEEEEEECCCccceEeeCCCCCCCHHHHHHHHHHHHh----CCCeEEEEeccCCCCcCccCcEEEEEcCCCCCH---
Confidence 8899999999999999999999635899999999999985 367899999999999999999999998765432
Q ss_pred CCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCC----------------CCCcHHHHHHHHHh
Q psy13081 81 ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQ----------------AGLDIDAMHKAAQY 144 (335)
Q Consensus 81 ~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~----------------~~lDie~m~~A~~~ 144 (335)
..+...||+.||+||||+++.+||++|||||+|++|+|+|+|+. ..+|+++|++||+.
T Consensus 74 ------~~l~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~f~~~~~~~~~~~ld~~~m~~a~~~ 147 (245)
T PRK12434 74 ------DKIKKYLNEYLPNDIVVTNVEEVDERFHARYNVKSKTYLYKIWNEKFHNVFMRKYSMHVNEKLDVKAMKEAAKY 147 (245)
T ss_pred ------HHHHHHHHccCCCCeEEEEEEECCCCcccccCCCcEEEEEEEccCCCCChhhCCeEEEeCCCCCHHHHHHHHHH
Confidence 36789999999999999999999999999999999999999863 35899999999999
Q ss_pred ccccccccccccccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHH
Q psy13081 145 LVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPE 224 (335)
Q Consensus 145 ~~G~HDF~nF~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~ 224 (335)
|+|+|||+|||+.+. ..++++|+|+++++.+. .++++|+|+|+||||||||+|||+|++||+|+++++
T Consensus 148 ~~G~HDF~~F~~~~~--~~~~~~R~I~~~~v~~~----------~~~~~i~i~g~~FL~~mVR~mvg~ll~vg~g~~~~~ 215 (245)
T PRK12434 148 LVGSHDFTSFTNAKS--KKKSTVREIYSIDIMEE----------DGFVQIRVSGNGFLHNMVRIIVGALIEVGLGQLKAE 215 (245)
T ss_pred ccCCcCHHhhcCCCC--CCCCCEEEEEEEEEEEe----------CCEEEEEEEecHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence 999999999998642 24589999999999742 258999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCCCCCCCCcCCCCceeeeccc
Q psy13081 225 IIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEF 256 (335)
Q Consensus 225 ~i~~lL~~~~~~~~p~~~~Ap~~gL~L~~v~Y 256 (335)
+|+++|+.+++. ...++|||+||+|++|.|
T Consensus 216 ~i~~~L~~~~r~--~~~~~APa~GL~L~~V~Y 245 (245)
T PRK12434 216 DIKQILEAKDRN--QANCTAPASGLYLENVEY 245 (245)
T ss_pred HHHHHHhcCCcc--cCCCccCCCCCEEeEeEC
Confidence 999999976543 335789999999999987
No 6
>PRK00021 truA tRNA pseudouridine synthase A; Validated
Probab=100.00 E-value=3.7e-72 Score=522.94 Aligned_cols=228 Identities=35% Similarity=0.515 Sum_probs=206.7
Q ss_pred CccEEEEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCC
Q psy13081 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGE 80 (335)
Q Consensus 1 Mr~~al~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~ 80 (335)
|++++|.|+|+|++|+|||.||+ .+|||++|++||.+++. +++.+.+||||||||||++||++|+++...+
T Consensus 1 m~~~~l~i~YdGt~y~G~q~q~~-~~TVq~~le~aL~~~~~----~~~~~~~agRTD~GVHA~~qvv~~~~~~~~~---- 71 (244)
T PRK00021 1 MMRIALTIEYDGTNFHGWQRQPN-GRTVQGELEKALSKLAG----EPVRVIGAGRTDAGVHALGQVAHFDTPAPRP---- 71 (244)
T ss_pred CeEEEEEEEECCCccceeeeCCC-CCCHHHHHHHHHHHHhC----CCeEEEEEccCCCcccccCcEEEEEeCCCCC----
Confidence 89999999999999999999998 59999999999999974 6789999999999999999999999976543
Q ss_pred CCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCC----------------CCcHHHHHHHHHh
Q psy13081 81 ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQA----------------GLDIDAMHKAAQY 144 (335)
Q Consensus 81 ~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~----------------~lDie~m~~A~~~ 144 (335)
...+...||+.||+||||+++.+||++|||||+|++|+|+|+++.. .+|+++|++||+.
T Consensus 72 -----~~~~~~~lN~~Lp~dI~V~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ld~~~m~~a~~~ 146 (244)
T PRK00021 72 -----PEKWRRALNALLPDDIAVLWAEEVPDDFHARFSAKARRYRYRIYNRPARPPFLRGYVWHYPYPLDVDAMNEAAQY 146 (244)
T ss_pred -----HHHHHHHHHhcCCCCEEEEEeEecCCCcCcCcCCCceEEEEEEecCCCCChhhCCcEEEeCCCCcHHHHHHHHHH
Confidence 2368899999999999999999999999999999999999999754 3799999999999
Q ss_pred ccccccccccccccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHH
Q psy13081 145 LVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPE 224 (335)
Q Consensus 145 ~~G~HDF~nF~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~ 224 (335)
|+|+|||+|||+.+ .+.++++|+|.+++|.+. .+++.|+|+|+||||||||+|||+|++||+|+++++
T Consensus 147 ~~G~HdF~~F~~~~--~~~~~~~R~I~~~~v~~~----------~~~~~i~i~g~sFL~~qVR~mvg~l~~vg~g~~~~~ 214 (244)
T PRK00021 147 LLGEHDFTSFRASG--CQSKSPVRTIYEADVTRE----------GDFIVFDISANGFLHNMVRNIVGTLLEVGKGKRPPE 214 (244)
T ss_pred hcCceeeeeeeCCC--CCCCCCeEEEEEEEEEEc----------CCEEEEEEEEchhHHHHHHHHHHHHHHHHCCCCCHH
Confidence 99999999998753 234689999999999742 268999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCCCCCCCCcCCCCceeeeccc
Q psy13081 225 IIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEF 256 (335)
Q Consensus 225 ~i~~lL~~~~~~~~p~~~~Ap~~gL~L~~v~Y 256 (335)
.|+++|+.+++ .+..++|||+||+|++|.|
T Consensus 215 ~i~~~L~~~~~--~~~~~~APa~GL~L~~v~Y 244 (244)
T PRK00021 215 DIKELLEAKDR--TLAGPTAPAEGLYLVEVDY 244 (244)
T ss_pred HHHHHHhcCCc--ccCCCccCCCCCEEeeeEC
Confidence 99999997653 2356799999999999987
No 7
>PRK14588 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=3.8e-72 Score=530.05 Aligned_cols=237 Identities=28% Similarity=0.373 Sum_probs=209.0
Q ss_pred CccEEEEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCC
Q psy13081 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGE 80 (335)
Q Consensus 1 Mr~~al~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~ 80 (335)
|++|+|+|+|||++|+|||+||+. +|||++|++||.++. .+++.+.+||||||||||+|||++|+++..++
T Consensus 1 m~~~~l~iaYdGt~f~G~Q~Q~~~-~TVq~~Le~aL~~l~----~~~i~i~~AgRTDaGVHA~gQv~~f~~~~~~~---- 71 (272)
T PRK14588 1 MRTIALLLEYDGTDFAGSQWQTDG-RTVQGALEAAWQALT----QERRRIVLAGRTDAGVHARGQVAHVQTDTRHS---- 71 (272)
T ss_pred CceEEEEEEEcCCceeeeEECCCC-CCHHHHHHHHHHHhh----CCCceEEEecCCCcCcCccccEEEEEcCCCCC----
Confidence 899999999999999999999984 899999999999975 36788999999999999999999999865432
Q ss_pred CCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCC----------------CCCcHHHHHHHHHh
Q psy13081 81 ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQ----------------AGLDIDAMHKAAQY 144 (335)
Q Consensus 81 ~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~----------------~~lDie~m~~A~~~ 144 (335)
...+...||+.||+||+|+++.+||++|||||+|++|+|+|+|+. ..+|+++|++||+.
T Consensus 72 -----~~~l~~~LN~~LP~dI~V~~v~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~lDi~~m~~a~~~ 146 (272)
T PRK14588 72 -----LATIWRGLNAHLPEDIGVQNAWEAPPDFHARFSAIQREYRYVIDCAPAPSPQLRHQVLHYAGTLDVAAMDAALKL 146 (272)
T ss_pred -----HHHHHHHHHhcCCCCeEEEEEEECCCCcCcccCCCcEEEEEEEcCCCCCChhhcCceEecCCCCCHHHHHHHHHH
Confidence 236789999999999999999999999999999999999999953 35899999999999
Q ss_pred ccccccccccccccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHH
Q psy13081 145 LVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPE 224 (335)
Q Consensus 145 ~~G~HDF~nF~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~ 224 (335)
|+|+|||+|||+.. ..++++|+|+++++..... .+.++++|+|+|+||||||||+|||+|++||+|+++++
T Consensus 147 f~G~HDF~~F~~~~---~~~~~vRtI~~~~~~~~~~------~~~~~i~~~i~g~~FL~~mVR~mVg~ll~vg~g~~~~~ 217 (272)
T PRK14588 147 LIGTHDFAAFTTAP---QEGSTVRTCYWARCTDTEW------FGRPLLAIEVAANAFLQHMVRNIVGTLLLVGRGRMTVD 217 (272)
T ss_pred ccCCcchHhhcCCC---CCCCCeEEEEEEEEEEccc------CCCCEEEEEEEEchhHHHHHHHHHHHHHHHHCCCCCHH
Confidence 99999999999862 2458999999999975311 12368999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCCCCCCCCcCCCCceeeecccCCcccc
Q psy13081 225 IIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWH 262 (335)
Q Consensus 225 ~i~~lL~~~~~~~~p~~~~Ap~~gL~L~~v~Y~~~~~~ 262 (335)
.|+++|+.+.+ ....++|||+||+|++|.|++..|+
T Consensus 218 ~i~~~L~~~~r--~~~~~~APa~GL~L~~V~Y~~~~~~ 253 (272)
T PRK14588 218 QFGAVLASRDR--RLAGPTAPAHGLYLTAVRYPPGLIR 253 (272)
T ss_pred HHHHHHhcCCc--ccCCCCCCCCCcEEeeEecCchhcc
Confidence 99999997654 3346799999999999999764444
No 8
>PRK14587 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=1.4e-71 Score=520.85 Aligned_cols=249 Identities=27% Similarity=0.368 Sum_probs=223.9
Q ss_pred cEEEEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCCCC
Q psy13081 3 PIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEES 82 (335)
Q Consensus 3 ~~al~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~~~ 82 (335)
+++|+|+|||++|+|||+||+ |||++|++||.+.. ..|||||+||||++||++| +.++
T Consensus 2 ~~~l~i~YdGt~f~G~Q~Q~~---TVq~~Le~aL~~i~----------~~agRTDaGVHA~~qv~~~--~~~~------- 59 (256)
T PRK14587 2 PYLYRIAYDGTLFYGFTGHPN---SLEPALRRVFGEIL----------GRGSRTDPGVSAVGNVVMT--SQKL------- 59 (256)
T ss_pred cEEEEEEECCCcccceecCcc---hHHHHHHHHHHHhc----------cCccCCccCCCcccCEEEE--CCcC-------
Confidence 699999999999999999996 99999999999852 2399999999999999997 2221
Q ss_pred CCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCCCCcHHHHHHHHHhccccccccccccccccCC
Q psy13081 83 DDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNG 162 (335)
Q Consensus 83 ~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~~lDie~m~~A~~~~~G~HDF~nF~k~~~~~~ 162 (335)
+ ...||+.||+||+|+++.+||++||||+ |++|+|+|++|...+|+++|++||+.|+|+|||+|||+.+..
T Consensus 60 -----~-~~~LN~~LP~dI~V~~~~~V~~~FhaR~-a~~R~Y~Y~i~~~~lDi~~m~~aa~~l~G~HDF~~F~~~~~~-- 130 (256)
T PRK14587 60 -----P-LGYVNSKLPRGVWAWAVAEVPEGFNPRR-AKRRRYLYVAPHWGEDVEAMREAAELLAGTHDYSSFIQRRGE-- 130 (256)
T ss_pred -----C-HHHHHhcCCCCeEEEEEEECCCCcCcCc-ccceEEEEEEccCcchHHHHHHHHHHhcCCcChHHhccCCCC--
Confidence 1 4689999999999999999999999997 999999999988889999999999999999999999986532
Q ss_pred ccc-ceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCC
Q psy13081 163 VVN-FRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVY 241 (335)
Q Consensus 163 ~~~-~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~~i~~lL~~~~~~~~p~~ 241 (335)
.++ ++|+|++++|... .++++|+|+|+||||||||+|||+|++||+|+++++.|+++|+.+ +....
T Consensus 131 ~~~~~vRtI~~i~v~~~----------~~~i~i~i~g~sFL~~mVR~mVG~Ll~Vg~G~~~~~~i~~~L~~~---r~~~~ 197 (256)
T PRK14587 131 KATPTVTTVYEIGVELR----------GDLIYLYFVGRGFRNKMIRKMAWAILAAGRGVLSRRDIAELLERP---RPGAV 197 (256)
T ss_pred CCCCCEEEEEEEEEEEe----------CCEEEEEEEechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcC---cccCC
Confidence 234 8999999999742 268999999999999999999999999999999999999999943 23456
Q ss_pred CCcCCCCceeeecccCCcccccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13081 242 PMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIKDT 296 (335)
Q Consensus 242 ~~Ap~~gL~L~~v~Y~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 296 (335)
++|||+||+|++|.|+ .+|.++++++++++..|.+.+..+.++|++++...+.|
T Consensus 198 ~~APa~GL~L~~V~Y~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (256)
T PRK14587 198 PSAPAEGLVLLDIEYD-VKFQVDYTALRKAYVYFLSKYRHLEAHAAALKAAGEAL 251 (256)
T ss_pred CCCCCCCCEEeeeccC-ccccCChHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 7899999999999997 59999999999999999999999999999999877765
No 9
>PRK14586 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=2.1e-71 Score=518.06 Aligned_cols=228 Identities=30% Similarity=0.464 Sum_probs=203.9
Q ss_pred CccEEEEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccC-CCCCC
Q psy13081 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSK-LTSPG 79 (335)
Q Consensus 1 Mr~~al~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~-~~~~~ 79 (335)
|++++|.|+|+|++|+|||+||+ .+|||++|++||.++. .+++.+.+||||||||||++||++|+++.. ++
T Consensus 1 m~~~~l~i~YdGt~f~G~Q~Q~~-~~TVq~~le~aL~~~~----~~~i~~~~agRTD~GVHA~~qv~~f~~~~~~~~--- 72 (245)
T PRK14586 1 MKRVAAVVSYDGSNFFGYQGQPD-VRTVQGVFEDALERIF----KQRIYTQAAGRTDTGVHANGQVIAFNCPNDRMT--- 72 (245)
T ss_pred CeEEEEEEEEcCCceeeEEECCC-CCCHHHHHHHHHHHHh----CCCeeEEEecCCccCCCccCcEEEEEecCCcCC---
Confidence 88999999999999999999998 4999999999999985 357899999999999999999999998764 32
Q ss_pred CCCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCC----------------CCCcHHHHHHHHH
Q psy13081 80 EESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQ----------------AGLDIDAMHKAAQ 143 (335)
Q Consensus 80 ~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~----------------~~lDie~m~~A~~ 143 (335)
...+...||+.||+||+|+++.+||++|||||+|++|+|+|+|+. ..+|+++|++||+
T Consensus 73 ------~~~l~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~f~~~~~~~~~~~ld~~~m~~a~~ 146 (245)
T PRK14586 73 ------EEDIKNAMNANLPDDIYVKKVFEVPKNFHPRFDAKKRIYHYFILTSKEKNVFLRKYVWWFPYELDLEAMRKAAK 146 (245)
T ss_pred ------HHHHHHHHHccCCCCeEEEEEEECCCCcCcccCCCcEEEEEEEecCCCCChhhCCceEEeCCCCCHHHHHHHHH
Confidence 236789999999999999999999999999999999999999953 3589999999999
Q ss_pred hccccccccccccccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCH
Q psy13081 144 YLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKP 223 (335)
Q Consensus 144 ~~~G~HDF~nF~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~ 223 (335)
.|+|+|||+|| +.. .+.++++|+|+++++.+. ..++++|+|+|+||||||||+|||+|++||+|++++
T Consensus 147 ~l~G~HDF~~F-~~~--~~~~~~vR~I~~~~~~~~---------~~~~i~~~i~g~~FL~~mVR~mvg~l~~vg~g~~~~ 214 (245)
T PRK14586 147 YLEGEHDFTSF-KTG--SDERNPVRTIYRIRILRL---------KKDLILIRVEGRSFLRRMVRNIVGALVKVGLGQWEP 214 (245)
T ss_pred HccCcchHHhh-cCC--CCCCCCcEEEEEEEEEEc---------cCCEEEEEEEechhHHHHHHHHHHHHHHHhCCCCCH
Confidence 99999999999 432 234689999999999752 125899999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCCCCCCCCCcCCCCceeeeccc
Q psy13081 224 EIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEF 256 (335)
Q Consensus 224 ~~i~~lL~~~~~~~~p~~~~Ap~~gL~L~~v~Y 256 (335)
++|.++|+.+++. ...++|||+||+|++|.|
T Consensus 215 ~~i~~~L~~~~r~--~~~~~APa~GL~L~~v~f 245 (245)
T PRK14586 215 EKIKEVLEARDRS--KAAGTAPAHGLYLYKVLF 245 (245)
T ss_pred HHHHHHHhcCCcc--cCCCccCCCCCEEeEeEC
Confidence 9999999987643 345789999999999976
No 10
>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=4.8e-71 Score=510.40 Aligned_cols=222 Identities=36% Similarity=0.546 Sum_probs=200.7
Q ss_pred ccEEEEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCCC
Q psy13081 2 RPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEE 81 (335)
Q Consensus 2 r~~al~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~~ 81 (335)
++++|.|+|+|++|+|||+||+ .+|||++|++||.+++. +++.+.+|||||+||||++||++|+++..+++
T Consensus 1 ~~~~l~i~YdGt~f~G~Q~Q~~-~~TVq~~le~aL~~~~~----~~i~~~~agRTD~GVHA~~qv~~f~~~~~~~~---- 71 (227)
T TIGR00071 1 RKIALKIAYDGSNYHGWQRQPN-KRTVQGELEKALEAIGK----KKITIMSAGRTDKGVHAMGQVISFDTPKEIPD---- 71 (227)
T ss_pred CeEEEEEEEcCCCeeEEeECcC-CCCHHHHHHHHHHHHhC----CCeeEEeeccCcCCccccccEEEEEecCCCCH----
Confidence 4799999999999999999998 49999999999999873 67899999999999999999999999765432
Q ss_pred CCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCC-----CCcHHHHHHHHHhcccccccccccc
Q psy13081 82 SDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQA-----GLDIDAMHKAAQYLVGTHDFRNLCK 156 (335)
Q Consensus 82 ~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~-----~lDie~m~~A~~~~~G~HDF~nF~k 156 (335)
..+...||+.||+||+|+++.+||++|||||+|++|+|+|+|+.. .+|+++|++||+.|+|+|||+|||+
T Consensus 72 -----~~~~~~lN~~Lp~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F~~ 146 (227)
T TIGR00071 72 -----NKLNAKLNALLPPDIRVKALAPVNDNFHARFSASKRHYRYILYNHRHYYSPLDLEKMRAAAKQLLGKHDFSNFSK 146 (227)
T ss_pred -----HHHHHHHHccCCCCEEEEEEEeCCCCcCCCCCCCcEEEEEEEccCcccCCCCCHHHHHHHHHHccCcccHHHhcC
Confidence 357899999999999999999999999999999999999999876 6999999999999999999999998
Q ss_pred ccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCC
Q psy13081 157 MNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYP 236 (335)
Q Consensus 157 ~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~~i~~lL~~~~~~ 236 (335)
.. .+.++++|+|++++|.+. .++++|+|+|+||||||||+|||+|++||+|++++++|+++|+.+++.
T Consensus 147 ~~--~~~~~~~R~i~~~~v~~~----------~~~~~i~i~g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~~~L~~~~r~ 214 (227)
T TIGR00071 147 AK--SKSRSPIRTISDIKVSES----------GEYIIFDIIGNSFLWHMVRKIVGALVLVGRGKLPPEWVAKLLDAKKRN 214 (227)
T ss_pred CC--CCCCCCeEEEEEEEEEEc----------CCEEEEEEEecHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhcCCcc
Confidence 64 234689999999999742 368999999999999999999999999999999999999999976543
Q ss_pred CCCCCCCcCCCCcee
Q psy13081 237 RKPVYPMVRGEPLNL 251 (335)
Q Consensus 237 ~~p~~~~Ap~~gL~L 251 (335)
. ..++|||+||+|
T Consensus 215 ~--~~~~APa~GL~L 227 (227)
T TIGR00071 215 L--APTTAPANGLYL 227 (227)
T ss_pred c--CCCCCCCCCCcC
Confidence 2 346899999997
No 11
>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=5.5e-71 Score=509.06 Aligned_cols=224 Identities=49% Similarity=0.838 Sum_probs=202.1
Q ss_pred EEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCCCCCCCch
Q psy13081 8 ILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEESDDNEL 87 (335)
Q Consensus 8 iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~~~~~~e~ 87 (335)
|+|+|++|+|||+||+. +|||++|++||.+++.+++.+++.+.+||||||||||++||++|+++... +
T Consensus 1 i~YdGt~f~G~Q~Q~~~-~TVq~~le~aL~~~~~~~~~~~~~i~~agRTD~GVHA~~qv~~~~~~~~~----------~- 68 (224)
T cd00497 1 IAYDGWKYHGFQRQPDV-PTVEGELFKALLKTGLIESPKPSNYSRAGRTDKGVSALGQVVSLETRSKL----------K- 68 (224)
T ss_pred CEEcCCceeeEeeCcCC-CCHHHHHHHHHHHhhCcCCCcceeEEEeccccccccccccEEEEEECCCc----------H-
Confidence 68999999999999984 99999999999999876545588999999999999999999999986542 1
Q ss_pred hHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCCCCcHHHHHHHHHhccccccccccccccccCCcccce
Q psy13081 88 PYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFR 167 (335)
Q Consensus 88 ~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~~lDie~m~~A~~~~~G~HDF~nF~k~~~~~~~~~~v 167 (335)
.+...||+.||+||+|+++.+||++|||||+|++|+|+|+++...+|+++|++||+.|+|+|||+|||+.+. ..++++
T Consensus 69 ~~~~~lN~~Lp~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~~d~~~m~~a~~~f~G~HDF~~F~~~~~--~~~~~~ 146 (224)
T cd00497 69 PYPDILNGLLPKDIRVLAWAPVPEDFHARFSCVSRTYRYYFPGGDLDIEAMREAAKLLLGTHDFRNFCKKDG--RKKNPV 146 (224)
T ss_pred HHHHHHHhhCCCCcEEEEEEEeCCCCCCCcccCeEEEEEEECCCCcCHHHHHHHHHHccCcccHHHhcCCCC--CCCCCe
Confidence 578999999999999999999999999999999999999999999999999999999999999999998643 236899
Q ss_pred EEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCcCCC
Q psy13081 168 RLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPMVRGE 247 (335)
Q Consensus 168 R~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~~i~~lL~~~~~~~~p~~~~Ap~~ 247 (335)
|+|.+++|.+. .+++.|+|+|+||||||||+|||+|++||+|++++++|+++|+.+.+. .+..++|||+
T Consensus 147 RtI~~~~v~~~----------~~~~~i~i~g~sFL~~mVR~mvg~ll~vg~g~~~~~~i~~~l~~~~~~-~~~~~~APa~ 215 (224)
T cd00497 147 RTIISAEVEEV----------DDFYVFEVKGKSFLWHQVRRIVAALFLVGQGLEPPSIISRLLDEEKRP-SKPQYPAPPE 215 (224)
T ss_pred EEEEEEEEEec----------CCEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcCCcc-cCCCCcCCCC
Confidence 99999999853 268999999999999999999999999999999999999999976543 2224489999
Q ss_pred Cceeeeccc
Q psy13081 248 PLNLYHTEF 256 (335)
Q Consensus 248 gL~L~~v~Y 256 (335)
||+|++|.|
T Consensus 216 GL~L~~V~Y 224 (224)
T cd00497 216 PLVLWDCKY 224 (224)
T ss_pred CcEEeeeeC
Confidence 999999987
No 12
>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=5.8e-71 Score=507.89 Aligned_cols=221 Identities=34% Similarity=0.563 Sum_probs=201.3
Q ss_pred EEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCCCCCCC
Q psy13081 6 LKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEESDDN 85 (335)
Q Consensus 6 l~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~~~~~~ 85 (335)
|+|+|+|++|+|||.||+ .+|||++|++||.+++.+++.+++.+.+||||||||||++||++|+++..
T Consensus 1 l~i~Y~Gt~y~G~q~q~~-~~TVq~~le~aL~~~~~~~~~~~i~~~~agRTD~GVHA~~qv~~f~~~~~----------- 68 (221)
T cd02866 1 LKVAYDGTPYHGFQRQPD-VRTVEGELIKALRRLGIIESPKRPRLYSAGRTDAGVSALGNVVAFETEKE----------- 68 (221)
T ss_pred CEEEEeCCceeeeeeCCC-CCCHHHHHHHHHHHhhccccCCceEEEEEcCCccccCccccEEEEEeCcH-----------
Confidence 579999999999999998 48999999999999987766678999999999999999999999997432
Q ss_pred chhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCCCCcHHHHHHHHHhccccccccccccccccCCccc
Q psy13081 86 ELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVN 165 (335)
Q Consensus 86 e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~~lDie~m~~A~~~~~G~HDF~nF~k~~~~~~~~~ 165 (335)
+ +...||+.||+||+|+++.+||++|||||+|++|+|+|+|+...+|+++|++||+.|+|+|||+|||+.+. .+
T Consensus 69 -~-~~~~lN~~LP~dI~v~~~~~v~~~F~ar~~a~~r~Y~Y~i~~~~ld~~~m~~a~~~~~G~HDF~~F~~~~~----~~ 142 (221)
T cd02866 69 -L-TPPAINNALPKDIRVWAWAKVPEDFHPRRDARRRYYRYYLGAEDYDVEAMAEAAKKLIGTHDFSNFSKRDG----RD 142 (221)
T ss_pred -H-HHHHHHhhCCCCEEEEEEEEeCCCCCCCccCCeEEEEEEECCCcCCHHHHHHHHHHhcCCcCHHHhhCCCC----CC
Confidence 2 67899999999999999999999999999999999999999999999999999999999999999998532 27
Q ss_pred ceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCcC
Q psy13081 166 FRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPMVR 245 (335)
Q Consensus 166 ~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~~i~~lL~~~~~~~~p~~~~Ap 245 (335)
++|+|.++++.+. .+++.|+|+|+||||||||+|||+|++||+|++++++|+++|+.+.+. ...++||
T Consensus 143 ~~R~I~~~~~~~~----------~~~~~~~i~g~~FL~~mVR~mvg~ll~vg~g~~~~~~i~~~l~~~~~~--~~~~~AP 210 (221)
T cd02866 143 PVRTIERIEIREN----------GEFLVIDVVGESFLWNMVRRIVGALSLVGKGKRENEWVDKLLDGEFRK--KDGVPAP 210 (221)
T ss_pred CcEEEEEEEEEEc----------CCEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCCCcc--cCCCCCC
Confidence 8999999999742 268999999999999999999999999999999999999999976542 2345899
Q ss_pred CCCceeeeccc
Q psy13081 246 GEPLNLYHTEF 256 (335)
Q Consensus 246 ~~gL~L~~v~Y 256 (335)
|+||+|++|.|
T Consensus 211 a~GL~L~~v~Y 221 (221)
T cd02866 211 PEGLILVDVKY 221 (221)
T ss_pred CCCcEEEEeeC
Confidence 99999999987
No 13
>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=1.7e-70 Score=510.12 Aligned_cols=223 Identities=35% Similarity=0.537 Sum_probs=202.0
Q ss_pred EEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCCCCCCC
Q psy13081 6 LKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEESDDN 85 (335)
Q Consensus 6 l~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~~~~~~ 85 (335)
++|+|+|++|+|||+||+. +|||++|++||.+++. +++++.+||||||||||.+||++|+++.+++
T Consensus 1 l~i~Y~Gt~f~G~q~q~~~-~TVq~~le~aL~~~~~----~~~~i~~agRTD~GVHA~~qvv~~~~~~~~~--------- 66 (239)
T cd02570 1 LTIEYDGTNFSGWQRQPNG-RTVQGELEKALSKIAG----EPVRVIGAGRTDAGVHALGQVAHFDTPSEIP--------- 66 (239)
T ss_pred CEEEEeCCccceeeeCCCC-CCHHHHHHHHHHHHhC----CCeEEEEECcCCCCcCccccEEEEEECCCCC---------
Confidence 5799999999999999985 9999999999999973 6789999999999999999999999976543
Q ss_pred chhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCC----------------CCcHHHHHHHHHhccccc
Q psy13081 86 ELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQA----------------GLDIDAMHKAAQYLVGTH 149 (335)
Q Consensus 86 e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~----------------~lDie~m~~A~~~~~G~H 149 (335)
...+...||+.||+||+|+++.+||++|||||+|++|+|+|+|+.. .+|+++|++||+.|+|+|
T Consensus 67 ~~~~~~~lN~~Lp~dI~v~~i~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~d~~~m~~a~~~f~G~H 146 (239)
T cd02570 67 LEKLIKALNSLLPPDIRVLSAEEVPDDFHARFSAKSRTYRYRILNRPVPSPFLRRYVWHVPRPLDIEAMQEAAKLLLGTH 146 (239)
T ss_pred HHHHHHHHHccCCCCEEEEEEEECCCCcCcccCCCceEEEEEEccCCCCChhhCCeEEEeCCCCCHHHHHHHHHHccCCc
Confidence 2368899999999999999999999999999999999999999764 689999999999999999
Q ss_pred cccccccccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHHHHHHH
Q psy13081 150 DFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQL 229 (335)
Q Consensus 150 DF~nF~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~~i~~l 229 (335)
||+|||+.+. ..++++|+|.+++|.+. .++++|+|+|+||||||||+|||+|++||+|+++++.|+++
T Consensus 147 dF~~F~~~~~--~~~~~~R~I~~~~v~~~----------~~~~~i~i~g~sFL~~qVR~mvg~ll~vg~g~~~~~~i~~~ 214 (239)
T cd02570 147 DFSSFRAAGC--QSKSTVRTIYRADVYRE----------GDLIVFEIRANGFLYHMVRNIVGTLLEVGRGKLSPEDIKEI 214 (239)
T ss_pred chhhhCCCCC--CCCCCeEEEEEEEEEEe----------CCEEEEEEEEcHHHHHHHHHHHHHHHHHHCCCCCHHHHHHH
Confidence 9999998643 34689999999999753 26899999999999999999999999999999999999999
Q ss_pred HhcCCCCCCCCCCCcCCCCceeeeccc
Q psy13081 230 VDIEKYPRKPVYPMVRGEPLNLYHTEF 256 (335)
Q Consensus 230 L~~~~~~~~p~~~~Ap~~gL~L~~v~Y 256 (335)
|+.+.+. ...++|||+||+|++|.|
T Consensus 215 l~~~~~~--~~~~~APa~GL~L~~v~Y 239 (239)
T cd02570 215 LEAKDRT--AAGPTAPAHGLYLVKVEY 239 (239)
T ss_pred HhcCCcc--cCCCCcCCCCCEEeeeEC
Confidence 9976532 236799999999999987
No 14
>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=3.9e-70 Score=509.54 Aligned_cols=239 Identities=27% Similarity=0.381 Sum_probs=206.6
Q ss_pred EEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCC-----CceeeeeeccCcccccccccEEEEEEccCCCCCCC
Q psy13081 6 LKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDK-----EKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGE 80 (335)
Q Consensus 6 l~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~-----~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~ 80 (335)
|.|+|+||+|+|||+||+..+|||++|++||.+++.+++. +++++.+|||||+||||++||++|+++...++.
T Consensus 1 l~i~Y~Gt~f~G~Q~Q~~~~~TVq~~le~aL~~~~~~~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~-- 78 (245)
T cd02568 1 LLFGYCGTGYHGMQYNPGNYKTIEGELERALVKAGAISESNAGDPKKIGFSRAARTDKGVHAARNVVSLKVIIDDPEG-- 78 (245)
T ss_pred CEEEEeCCCccccccCCCCCCChHHHHHHHHHHcCCcCccccCChhhcceeeecccccchhheeeEEEEEEecccccc--
Confidence 5799999999999999983389999999999999987542 688999999999999999999999997765421
Q ss_pred CCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCCC-CcHHHHHHHHHhccccccccccccccc
Q psy13081 81 ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAG-LDIDAMHKAAQYLVGTHDFRNLCKMNV 159 (335)
Q Consensus 81 ~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~~-lDie~m~~A~~~~~G~HDF~nF~k~~~ 159 (335)
......+...||+.||+||+|+++.+|+++|||||+|++|+|+|+|+... +|+++|++||+.|+|+|||+|||+.+.
T Consensus 79 --~~~~~~~~~~lN~~Lp~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~d~~~m~~a~~~~~G~HdF~~F~~~~~ 156 (245)
T cd02568 79 --LGIGEDLVEKLNSHLPEDIRVFGITRVTKSFNARKACDSRTYEYLLPTFALETLDRFNEILKLYVGTHNFHNFTVRKK 156 (245)
T ss_pred --ccchHHHHHHHHccCCCceEEEEEEcCCCCCCcchhhhcceeEEECCcccHhHHHHHHHHHHHhhCccccccCccccc
Confidence 01123688999999999999999999999999999999999999999888 699999999999999999999998643
Q ss_pred cCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCC
Q psy13081 160 GNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKP 239 (335)
Q Consensus 160 ~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~~i~~lL~~~~~~~~p 239 (335)
. +.++++|+|.++++.+.... ..+.+++.|+|+|+||||||||+|||+|++||+|+++++.|+++|+.+.. .
T Consensus 157 ~-~~~~~~R~i~~~~~~~~~~~----~~~~~~i~i~i~g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~~~L~~~~~---~ 228 (245)
T cd02568 157 F-EDPSANRFIISFYVSEPFVI----EEGLEWVSIEIHGQSFMLHQIRKMIGLAIAIVRGGAPESLIDLSFNKAKR---I 228 (245)
T ss_pred c-cCCCceeEEEEEEEecceee----cCCccEEEEEEEechHHHHHHHHHHHHHHHHHcCCCCHHHHHHHhccccc---c
Confidence 2 24689999999999743110 01236899999999999999999999999999999999999999985432 3
Q ss_pred CCCCcCCCCceeeeccc
Q psy13081 240 VYPMVRGEPLNLYHTEF 256 (335)
Q Consensus 240 ~~~~Ap~~gL~L~~v~Y 256 (335)
..++|||+||+|++|.|
T Consensus 229 ~~~~APa~GL~L~~v~y 245 (245)
T cd02568 229 IIPLAPGLGLLLEYPHF 245 (245)
T ss_pred cccCCCCcceeEecccC
Confidence 46899999999999987
No 15
>PLN03078 Putative tRNA pseudouridine synthase; Provisional
Probab=100.00 E-value=4.9e-65 Score=508.59 Aligned_cols=249 Identities=23% Similarity=0.346 Sum_probs=206.3
Q ss_pred CccEEEEEEEeCCCcccceecCCC--CCcHHHHHHHHHHHcccccC-----CCceeeeeeccCcccccccccEEEEEEcc
Q psy13081 1 MRPIALKILYQGFNYHGFQIQTSS--DNTIAHHLLKALQKTCLIED-----KEKSSFACCGRTDSGVSAFCQVVTLKIRS 73 (335)
Q Consensus 1 Mr~~al~iaY~G~~y~G~q~Q~~~--~~TVE~~L~~AL~k~~~i~~-----~~~~~~~~agRTDkGVsA~~qVvs~~~~s 73 (335)
||+|+|+|+|+|++|+|||+|++. .+|||++|++||.+++.|.+ .+++.+++||||||||||++||++|+++.
T Consensus 70 krrvaL~IaYdGt~Y~G~Q~Q~n~~~~~TVEg~LE~AL~k~~~I~e~n~~~~~ki~~~rAgRTDkGVHA~gQVvsf~l~~ 149 (513)
T PLN03078 70 KKKVVLRVGYVGTDYRGLQKQRDLSSLSTIEGELETAIFKAGGIRESNYGNLHKIGWARSSRTDKGVHSLATMISLKMEI 149 (513)
T ss_pred ceEEEEEEEEcCCCcceeeECCCCCCCCCHHHHHHHHHHHHhCccccccccccceeEEeeccCCcCccccccEEEEeccC
Confidence 689999999999999999999873 47999999999999988753 25799999999999999999999999854
Q ss_pred CCCCCCCCCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCCC-------------CcHHHHHH
Q psy13081 74 KLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAG-------------LDIDAMHK 140 (335)
Q Consensus 74 ~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~~-------------lDie~m~~ 140 (335)
. ......+.+...++..||+.||+||||++|.+|+++|||||+|++|+|+|+||... .|+++|++
T Consensus 150 p--~~~~~~d~~~~~L~~~LN~~LP~DIRVl~v~~V~~~FhAR~sc~sRtY~Y~iP~~~~~~k~~f~~~~~~~dI~kMne 227 (513)
T PLN03078 150 P--ENAWKDDPDGIALAKFINSHLPDNIRVFSILPAQRSFDPRRECDLRKYSYLLPAEVIGIKSGFSSEEIDEHISEFNS 227 (513)
T ss_pred c--chhccccchHHHHHHHHHhcCCCCeEEEEEEECCCCcCCCCCCCceEEEEEEccccccCCCccchhhhHHHHHHHHH
Confidence 1 11000011234678999999999999999999999999999999999999998621 27999999
Q ss_pred HHHhccccccccccccccccCC----------------------------------------------------------
Q psy13081 141 AAQYLVGTHDFRNLCKMNVGNG---------------------------------------------------------- 162 (335)
Q Consensus 141 A~~~~~G~HDF~nF~k~~~~~~---------------------------------------------------------- 162 (335)
|++.|+|+|||||||....-..
T Consensus 228 Al~~fiGtHDFhNFT~r~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~ 307 (513)
T PLN03078 228 ILNGFEGEHPFHNYTARSKYRKKLPGKHKQRNGAVSRRAKSSKEMSSSESEENHGEISEEDEEDLSFSSIPSGSSDENED 307 (513)
T ss_pred HHHhcccccCcccccCCCccCccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccc
Confidence 9999999999999997421000
Q ss_pred -------------------------cccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHh
Q psy13081 163 -------------------------VVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVG 217 (335)
Q Consensus 163 -------------------------~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg 217 (335)
..+..|.|++|+..... ...+.+++.|+|.|+||||||||+|||++++|+
T Consensus 308 ~~~~~~~~~~~~~~wl~e~d~~d~i~~s~~R~I~~~~~~~~~-----~~~g~~fv~i~I~GqSFmlhQIRKMIG~~~aV~ 382 (513)
T PLN03078 308 ILKFQSSQVQIRARWLHEPDETDRISASHFRKIFRCSCGKLE-----KSLGFDFVELSIWGESFMLHQIRKMVGTAVAVK 382 (513)
T ss_pred cccccccchhhhhhhccCCccccccchhheEEEEEeecCCcc-----ccCCceEEEEEEEehhHHHHHHHHHHHHHHHHH
Confidence 00237888888875431 224568999999999999999999999999999
Q ss_pred cCCCCHHHHHHHHhcCCCCCCCCCCCcCCCCceeeecccCCc
Q psy13081 218 QGNEKPEIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNL 259 (335)
Q Consensus 218 ~G~~~~~~i~~lL~~~~~~~~p~~~~Ap~~gL~L~~v~Y~~~ 259 (335)
+|..+++.|+.+|+... +..+|+||+.||+|.+|.|+..
T Consensus 383 rg~~~~~~i~~~L~~~~---r~~~P~AP~~GL~L~~~~F~~y 421 (513)
T PLN03078 383 RELLPRDIIRLSLTKFS---RIVLPLAPSEVLILRGNSFSVR 421 (513)
T ss_pred hccCCHHHHHHHhcccc---ccccccCCCcceEEEeeecccc
Confidence 99999999999997543 3458999999999999999754
No 16
>KOG2553|consensus
Probab=100.00 E-value=9.3e-56 Score=428.20 Aligned_cols=277 Identities=26% Similarity=0.380 Sum_probs=224.3
Q ss_pred ccEEEEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccC-----CCceeeeeeccCcccccccccEEEEEEccCCC
Q psy13081 2 RPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIED-----KEKSSFACCGRTDSGVSAFCQVVTLKIRSKLT 76 (335)
Q Consensus 2 r~~al~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~-----~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~ 76 (335)
|++++.++|.|++|||+|.||+ .+|||++|++||.++|.|.+ .+++.|.||+||||||||++||||+++.-+.
T Consensus 37 rKVail~gY~G~gY~GmQ~N~~-~kTIEgeL~~al~~aGaI~e~n~~dpkk~~~~raARTDKGVhA~~nviSlK~~~~~- 114 (416)
T KOG2553|consen 37 RKVAILLGYCGTGYHGMQYNPP-LKTIEGELFEALFKAGAISESNAGDPKKIGFARAARTDKGVHAAGNVISLKLELDD- 114 (416)
T ss_pred eEEEEEEEeccCCccceecCCC-CCchHHHHHHHHHHcCCcccccccChHHhhhHHhhccccchhhhhheeEEEEeeCc-
Confidence 5899999999999999999998 49999999999999999964 3578899999999999999999999985432
Q ss_pred CCCCCCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCC-------C-----------------
Q psy13081 77 SPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQA-------G----------------- 132 (335)
Q Consensus 77 ~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~-------~----------------- 132 (335)
..++..||..||++||||++.+|++.||||-.|.+|+|.|.+|.. .
T Consensus 115 ----------~~lv~~lN~~Lp~~IRv~~v~r~~k~F~pr~~CdsR~YeYllPtfal~~p~~~~~~~~~~~~~~e~~~~f 184 (416)
T KOG2553|consen 115 ----------PELVEKLNEILPEQIRVWGVKRVTKSFNPRKQCDSRTYEYLLPTFALAPPKPSSLLEVDIQYDKEFEKEF 184 (416)
T ss_pred ----------HHHHHHHhhhCCcceEEEEEEecCCCCCccccccceeEEEecceeeecCCCCccHHHhhhhhhhhhhhhh
Confidence 257899999999999999999999999999999999999999831 0
Q ss_pred ---------------------------CcHHHHHHHHHhccccccccccccccccCCcccceEEEEEEEEEEcccccccC
Q psy13081 133 ---------------------------LDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFN 185 (335)
Q Consensus 133 ---------------------------lDie~m~~A~~~~~G~HDF~nF~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~ 185 (335)
-.++.++++++.++|+|||||||..+. -..++..|.|.++.+.+.... .
T Consensus 185 ~~~~~~~~~~~~s~~~~~~~~~yr~s~~~l~~~~~~ls~Y~GthnFHNfT~~~~-~~dpss~R~I~s~~~~~pfv~---~ 260 (416)
T KOG2553|consen 185 WNTYPLSAKERLSGQDRKTESGYRLSEEKLEVFNTILSKYVGTHNFHNFTTGKD-FTDPSSNRFIKSFTVSEPFVI---N 260 (416)
T ss_pred ccccchhhhhhhcccccccccceeeCHHHHHHHHHHHHHhhcccccceecccCC-CCCccccceeeEEEecCccee---c
Confidence 135788999999999999999998653 245688999999998743111 1
Q ss_pred CCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCcCCCCceeeecccCC-------
Q psy13081 186 DSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDN------- 258 (335)
Q Consensus 186 ~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~~i~~lL~~~~~~~~p~~~~Ap~~gL~L~~v~Y~~------- 258 (335)
..+.+++.+.|+|+|||.||||+|||++++|-++..+.+.|+..|+.. .+..+|+||++||+|.++.|+.
T Consensus 261 ~~~~e~V~i~i~GQSFMLHQIRKMVglav~i~R~~~p~~~i~~af~~~---~ri~IP~AP~~gLlL~~~~F~~yn~~~~~ 337 (416)
T KOG2553|consen 261 DEGVEFVKIKIHGQSFMLHQIRKMVGLAVLIVRSGAPASTIQRAFNKE---HKINIPKAPGEGLLLEEPHFESYNRKFRP 337 (416)
T ss_pred cCCceEEEEEEEcchhHHHHHHHHHHHHHHHHhcCCCHHHHHHhhCCC---ccccccCCCcceEEeecccccccccccCC
Confidence 256789999999999999999999999999999999999999999833 3567899999999999999963
Q ss_pred -----cccccChHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHh
Q psy13081 259 -----LTWHYDEIEVSHVL-RDLHEDWSLLSIKATMLGEMIKDTV 297 (335)
Q Consensus 259 -----~~~~~d~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~ 297 (335)
++|...+..+..++ +++-........+...+..++..|.
T Consensus 338 ~~~e~i~~~~~e~ei~~fk~~~Iy~~I~~~E~~~~~f~~wl~~l~ 382 (416)
T KOG2553|consen 338 SGHEEIDWDDYEEEIDQFKEKHIYSHIIKTEEKEGVFAIWLSSLN 382 (416)
T ss_pred CCcCCcCHHHHHHHHHHHHHHHhchHHhhhHhhhhhHHHHHHHHh
Confidence 55654333333332 3333333333444444445555444
No 17
>KOG4393|consensus
Probab=100.00 E-value=4.9e-44 Score=327.89 Aligned_cols=245 Identities=21% Similarity=0.274 Sum_probs=203.7
Q ss_pred ccEEEEEEEeCCCcccceecCCC-CCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCC
Q psy13081 2 RPIALKILYQGFNYHGFQIQTSS-DNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGE 80 (335)
Q Consensus 2 r~~al~iaY~G~~y~G~q~Q~~~-~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~ 80 (335)
++++|+|+||||.|.|||.+... ..|||+-|++|..+..-+ +..+++.+||||+||||.+|+++++++.+.-
T Consensus 5 ~ryll~i~ydgT~f~e~a~~~s~~~~tIq~~leea~eeqt~l---~~l~l~~ssrtDa~Vha~~naa~~~vpr~sg---- 77 (295)
T KOG4393|consen 5 MRYLLKIPYDGTAFEESAERLSKVARTIQGFLEEASEEQTGL---DRLDLESSSRTDAGVHAYLNAAHYIVPRFSG---- 77 (295)
T ss_pred heeEEEecccccccHHHHhccCCcceehhhhhhhhHHhhcCC---cceeecccCCCchhhheeeeeEEEEeecccC----
Confidence 47999999999999999999764 139999999999998754 6789999999999999999999999976521
Q ss_pred CCCCCchhHHHHHhcCC-CC--CEEEEEEEecCCCCCccccCCceEEEEEcCC-----------------CCCcHHHHHH
Q psy13081 81 ESDDNELPYLKMLNNNL-PR--DIKVVAWSPVPEKYSARFDCLFRNYKYWFPQ-----------------AGLDIDAMHK 140 (335)
Q Consensus 81 ~~~~~e~~~~~~LN~~L-P~--dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~-----------------~~lDie~m~~ 140 (335)
. ........+|..| ++ ||+|+.+..||.+|||||++.+|+|.|.+.. ..||..+|++
T Consensus 78 --~-~~~~~~~a~nt~l~~k~gdirV~dv~~Vps~FhaR~sassRtY~YRla~g~d~l~~fERd~cW~lp~~lna~kmqe 154 (295)
T KOG4393|consen 78 --S-QQQAKDRAVNTVLQRKDGDIRVIDVRCVPSNFHARYSASSRTYFYRLASGSDPLSIFERDRCWHLPEELNARKMQE 154 (295)
T ss_pred --C-cHHHHHHHHhccccCCCCceEEEEeeecCcchhheecccceeEEEEeecCCCccChhhhcccccCCcccCHHHHHh
Confidence 1 1123346677666 55 9999999999999999999999999999753 4589999999
Q ss_pred HHHhccccccccccccccccCCcccceEEEEEEEEEEccc------ccccCCCCCcEEEEEEEeCccchhhHHHHHHHHH
Q psy13081 141 AAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQ------NVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLF 214 (335)
Q Consensus 141 A~~~~~G~HDF~nF~k~~~~~~~~~~vR~I~~~~i~~~~~------~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~ 214 (335)
|+++|+|+|||.+|++.. .+...+++|+-.+.|..... ..+..+.-.+++.+++.++|||+.|||+|++.|+
T Consensus 155 aa~lf~G~hdfsaf~~at--s~~y~P~~t~rr~sv~~~g~~~a~~~~~~~e~~~~~~~nve~e~~gflyrQvRrm~a~LV 232 (295)
T KOG4393|consen 155 AAPLFEGSHDFSAFTEAT--STVYFPSITERRLSVLNNGDPLACSNQPETEGVTTNVGNVEGETEGFLYRQVRRMRAYLV 232 (295)
T ss_pred hhhhhccchhhhhhhcCC--CCCCCCcccceeeeecccCCccccccCCccccceeeeEEEEEEecchHHHHHHhhheeee
Confidence 999999999999999865 44567788877777742200 1112334568999999999999999999999999
Q ss_pred HHhcCCCCHHHHHHHHhcCCC--CCCCCCCCcCCCCceeeecccCC
Q psy13081 215 LVGQGNEKPEIIQQLVDIEKY--PRKPVYPMVRGEPLNLYHTEFDN 258 (335)
Q Consensus 215 ~vg~G~~~~~~i~~lL~~~~~--~~~p~~~~Ap~~gL~L~~v~Y~~ 258 (335)
.+|.+.+.+..++.+|.++.. -.+...+.|||+||+|.+|.|.+
T Consensus 233 ~~g~~al~~~qv~~iLe~~~~~~l~k~~~~vapphglfL~sv~Y~n 278 (295)
T KOG4393|consen 233 TAGSRALLYHQVLYILEVRDIVGLLKCVGTVAPPHGLFLSSVEYVN 278 (295)
T ss_pred eecccccchhhhhhhhhccchhhhhhccCCCCCCccceeeeEEech
Confidence 999999999999999998764 23567789999999999999977
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=99.89 E-value=3.2e-25 Score=180.51 Aligned_cols=104 Identities=28% Similarity=0.441 Sum_probs=85.9
Q ss_pred HHHhccccccccccccccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCC
Q psy13081 141 AAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGN 220 (335)
Q Consensus 141 A~~~~~G~HDF~nF~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~ 220 (335)
|++.|+|+|||++||+.+.. ..+++|+|.++.+... .+++. +|+|+||||||||+|||.++.+|+|.
T Consensus 1 A~~~~~G~HdF~~f~~~~~~--~~~~~r~i~~~~~~~~----------~~~~~-~i~g~~Fl~~~vR~~vg~~~~~~~G~ 67 (105)
T PF01416_consen 1 AAKLYVGTHDFSGFQKQKTV--EKNTIRTIFSIDIIEE----------GDVVV-EIHGNSFLRHQVRIMVGTLLRTGRGV 67 (105)
T ss_dssp -CCEETCEEECCGCSSCS-H--HHHHCCCEEEEECCCC----------CCEEE-EEEESS--TTHHHHHHCCCCHHHTTS
T ss_pred CcceeEecCCCcCCEECCcc--cccHHHHHHHHhhhcC----------CCEEE-EEEecccccccchhhhHHHHHHhcCC
Confidence 67899999999999987432 2588999999998532 36788 99999999999999999999999999
Q ss_pred CCHHHHHHHHhcCCCCCCC-CCCCcCCCCceeeecccC
Q psy13081 221 EKPEIIQQLVDIEKYPRKP-VYPMVRGEPLNLYHTEFD 257 (335)
Q Consensus 221 ~~~~~i~~lL~~~~~~~~p-~~~~Ap~~gL~L~~v~Y~ 257 (335)
.+++.|.++|+....+..+ .+.+|||.||+|++|.||
T Consensus 68 ~~~~~i~~~L~~~~~~~~~~ri~~ap~~gL~L~~v~y~ 105 (105)
T PF01416_consen 68 HSLEQIAELLNSKLRPKAPPRILTAPAVGLYLFHVRYD 105 (105)
T ss_dssp CEEECCCCCHHHHSCTTS-TEEEEEEECCECCEECCTT
T ss_pred CCHHHHHHHHhccCccccCCCcceeeCCCCCceEeeCc
Confidence 9999999999988655332 244899999999999996
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=98.32 E-value=3.9e-08 Score=79.78 Aligned_cols=83 Identities=27% Similarity=0.459 Sum_probs=66.2
Q ss_pred EEEeCC-CcccceecCCCCCcHHHHHHHHHHHcccccCCC---------------ceeeeeeccCcccccccccEEEEEE
Q psy13081 8 ILYQGF-NYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKE---------------KSSFACCGRTDSGVSAFCQVVTLKI 71 (335)
Q Consensus 8 iaY~G~-~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~---------------~~~~~~agRTDkGVsA~~qVvs~~~ 71 (335)
..|+|+ +|+||+.| +|++...+++|.++.+++... ..-+..++|||+|||+..|+..+
T Consensus 3 ~~~~G~HdF~~f~~~----~~~~~~~~r~i~~~~~~~~~~~~~~i~g~~Fl~~~vR~~vg~~~~~~~G~~~~~~i~~~-- 76 (105)
T PF01416_consen 3 KLYVGTHDFSGFQKQ----KTVEKNTIRTIFSIDIIEEGDVVVEIHGNSFLRHQVRIMVGTLLRTGRGVHSLEQIAEL-- 76 (105)
T ss_dssp CEETCEEECCGCSSC----S-HHHHHCCCEEEEECCCCCCEEEEEEESS--TTHHHHHHCCCCHHHTTSCEEECCCCC--
T ss_pred ceeEecCCCcCCEEC----CcccccHHHHHHHHhhhcCCCEEEEEEecccccccchhhhHHHHHHhcCCCCHHHHHHH--
Confidence 479999 99999987 578888888888888765432 34467899999999999886654
Q ss_pred ccCCCCCCCCCCCCchhHHHHHhcCCCC---CEEEEEEEecC-CCCCcccc
Q psy13081 72 RSKLTSPGEESDDNELPYLKMLNNNLPR---DIKVVAWSPVP-EKYSARFD 118 (335)
Q Consensus 72 ~s~~~~~~~~~~~~e~~~~~~LN~~LP~---dIrV~~~~~V~-~~F~AR~~ 118 (335)
||..+|+ + +|+.+.+++ ..||++|+
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 6777754 5 999999999 89999885
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=96.69 E-value=0.015 Score=52.67 Aligned_cols=114 Identities=14% Similarity=0.297 Sum_probs=84.0
Q ss_pred cHHHHHHHHHHHccccc----C-CCceeeeeeccCcccccccccEEEEEEccCCCCCCCCCCCCchhHHHHHhcCCCCCE
Q psy13081 27 TIAHHLLKALQKTCLIE----D-KEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDI 101 (335)
Q Consensus 27 TVE~~L~~AL~k~~~i~----~-~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~~~~~~e~~~~~~LN~~LP~dI 101 (335)
-+...+++||+++++-- . .-..+++-+.=.=-||.+.+-++.+.+...++ ...+...||..||++|
T Consensus 19 dl~r~~eRa~rRA~lp~a~SqGFnP~Pkisf~~aLpvGv~S~~E~~di~l~~~~~---------~~~~~~rLn~~lP~Gl 89 (187)
T PF10105_consen 19 DLMRVFERALRRAGLPVAYSQGFNPHPKISFAPALPVGVESLAEYMDIELEEDID---------PEEVLERLNAVLPEGL 89 (187)
T ss_pred HHHHHHHHHhhhcCCCeeecCCCCCCcceeecccccCceeeccEEEEEEEecCCC---------HHHHHHHHHHhCCCCC
Confidence 45678999999998721 1 12355667777889999999999999876553 2367899999999999
Q ss_pred EEEEEEecCCCCCccccCCceEEEEEcCCCCCcHHHHHHHHHhcccccc
Q psy13081 102 KVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHD 150 (335)
Q Consensus 102 rV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~~lDie~m~~A~~~~~G~HD 150 (335)
+|+++.++|....+ ....-..+.|.+.....+.+.+.++++.|.-..+
T Consensus 90 ~i~~~~~i~~~~~s-l~~~i~~~~Y~i~~~~~~~~~~~~~~~~~~~~~~ 137 (187)
T PF10105_consen 90 RILEAEEIPPKAPS-LMALINAAEYRITLPEIDEEELEEAIEAFLAAEE 137 (187)
T ss_pred EEEEEEEccCCCcc-hhhhcceEEEEEEecCCCHHHHHHHHHHHHCCCC
Confidence 99999999854433 2333455667665557888888888887765544
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=93.71 E-value=4.7 Score=40.58 Aligned_cols=159 Identities=13% Similarity=0.125 Sum_probs=100.4
Q ss_pred CCcHHHHHHHHHHHcccccCCCceeeeeeccCccccccccc--EEEEEEccCCCCCCCCCCCCchhHHHHHhcCCCCCEE
Q psy13081 25 DNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQ--VVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIK 102 (335)
Q Consensus 25 ~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~q--Vvs~~~~s~~~~~~~~~~~~e~~~~~~LN~~LP~dIr 102 (335)
..+||+.|...+.+.. ....+.|+.|||-|.-|--+|+ -+.+.+...... ......+...+|+.....|.
T Consensus 184 ~~SVeelI~~~v~~~~---~~~~~~Fh~aGREDvDvRMLG~GRPFvlEi~~P~rr-----~~dl~~le~~IN~~~~g~V~ 255 (388)
T TIGR01213 184 PESVEELIASPFLKAT---GGTDAYFHGAGREDVDVRMLGTGRPFVLEVKEPRYR-----KIDLDPLEEEINTSGKGKVE 255 (388)
T ss_pred CchHHHHHHHHHHHHh---CCceeEEeccCccccceeeccCCCceEEEecCCccC-----CCCHHHHHHHHhhccCCCEE
Confidence 4799999988888765 2357899999999999999975 333333221110 11122456789998888899
Q ss_pred EEEEEecCC----CCCccccCCceEEEEEcC-CCCCcHHHHHHHHHhcccccccccccccccc--CCcccceEEEEEEEE
Q psy13081 103 VVAWSPVPE----KYSARFDCLFRNYKYWFP-QAGLDIDAMHKAAQYLVGTHDFRNLCKMNVG--NGVVNFRRLVTHAGV 175 (335)
Q Consensus 103 V~~~~~V~~----~F~AR~~~~~R~Y~Y~~~-~~~lDie~m~~A~~~~~G~HDF~nF~k~~~~--~~~~~~vR~I~~~~i 175 (335)
|....-++. .+. .....|+|+=.+. ..+++.+.++++++.|.|..= .-.+...+. .....-.|+|+++++
T Consensus 256 v~~L~~~~~~~v~~ik--~~~~~K~Y~alV~~~~~v~~e~L~~~~~~l~g~~I-~QrTP~RV~hRRa~~~R~R~I~~i~~ 332 (388)
T TIGR01213 256 VEGLKFATREEVEEVK--EEKHRKVYRALVEVDGPVSDEDLEELCKELEGATI-YQRTPLRVLHRRADLVRERRVYQVDL 332 (388)
T ss_pred EEEeEEEcHHHHHHHh--ccCCceEEEEEEEECCCCCHHHHHHHHHhccCCEE-EccCCceEEEecCCCceEEEEEEEEE
Confidence 999876543 111 1223588985443 467899999999999888311 011111110 111133689999999
Q ss_pred EEcccccccCCCCCcEEEEEEEeCccch
Q psy13081 176 TSAWQNVQFNDSHHNICEFNIRSQGFLW 203 (335)
Q Consensus 176 ~~~~~~~~~~~~~~~~~~i~I~G~sFL~ 203 (335)
...+. ..+.+.|.++|=+|
T Consensus 333 ~~i~~---------~~~~l~v~~qaGtY 351 (388)
T TIGR01213 333 SGLDG---------NHAELIIEAEGGLY 351 (388)
T ss_pred EEEcC---------CEEEEEEEecCCCE
Confidence 87632 36677777766443
No 22
>PRK14554 putative pseudouridylate synthase; Provisional
Probab=91.29 E-value=5.7 Score=40.46 Aligned_cols=156 Identities=17% Similarity=0.140 Sum_probs=93.6
Q ss_pred CcHHHHHHHHHHHcccccCCCceeeeeeccCccccccccc----EEEEEEccCCCCCCCCCCCCchhHHHHHhcCCCCCE
Q psy13081 26 NTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQ----VVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDI 101 (335)
Q Consensus 26 ~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~q----Vvs~~~~s~~~~~~~~~~~~e~~~~~~LN~~LP~dI 101 (335)
.+||+.|.+.+.... ....+.|++|||-|.-|--+|. |+-+.-+.... -.+.-.. +|..-...|
T Consensus 220 ~SVeelI~~~i~~~f---~~~~~~fh~aGREDvDVRmLG~GRPFViEi~~p~r~~--------~~~~~l~-~~~~~~g~V 287 (422)
T PRK14554 220 ESVEELIAKPVIEAF---GGEDAVFHGAGREDVDARMLGTGRPFVIEVKEPRKRK--------VDLEALE-EEINADGKV 287 (422)
T ss_pred CCHHHHHHHHHHHHh---CCCceEEecCCCCCcceEecCCCCceEEEecCccccc--------CCHHHHH-HhhccCCCE
Confidence 699999998877764 2467899999999999999988 44443221111 0111111 444446789
Q ss_pred EEEEEEecCCCCCcc--ccCCceEEEEEcC-CCCCcHHHHHHHHHhccccccc-cccccccccCCcccceEEEEEEEEEE
Q psy13081 102 KVVAWSPVPEKYSAR--FDCLFRNYKYWFP-QAGLDIDAMHKAAQYLVGTHDF-RNLCKMNVGNGVVNFRRLVTHAGVTS 177 (335)
Q Consensus 102 rV~~~~~V~~~F~AR--~~~~~R~Y~Y~~~-~~~lDie~m~~A~~~~~G~HDF-~nF~k~~~~~~~~~~vR~I~~~~i~~ 177 (335)
.|.....++..--.+ .....|+|+=.+. ..+++.+.+.++++.|.|.-=. +.............-+|+|+++++..
T Consensus 288 ~v~~l~~~~~~~~~~ik~~~~~K~YralV~~~~~v~~e~l~~~~~~l~~~~I~QrTP~RV~hRR~~~~R~R~I~~i~~~~ 367 (422)
T PRK14554 288 EVENLRFATRKEVERIKEEKASKTYRALVESDEPVSEEELEKLLDELSGATIEQRTPRRVKHRRADLVRVRKVYDISGEL 367 (422)
T ss_pred EEEEEEEEcHHHHHHHhcCCCceEEEEEEEECCCCCHHHHHHHHHhccCcEeeccCcHhhhhhccccceeeEEEEEEEEE
Confidence 999888765321111 1122388985443 4678889999999988775111 12221111111223478999999987
Q ss_pred cccccccCCCCCcEEEEEEEeCccc
Q psy13081 178 AWQNVQFNDSHHNICEFNIRSQGFL 202 (335)
Q Consensus 178 ~~~~~~~~~~~~~~~~i~I~G~sFL 202 (335)
.+. ..+.+.|.++|=+
T Consensus 368 i~~---------~~~~l~i~~eaGt 383 (422)
T PRK14554 368 IDD---------KHFELRIKCEGGL 383 (422)
T ss_pred EcC---------cEEEEEEEEecCC
Confidence 632 3466666665533
No 23
>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=91.12 E-value=0.85 Score=35.55 Aligned_cols=22 Identities=23% Similarity=0.327 Sum_probs=18.5
Q ss_pred CceeeeeeccCcccccccccEEE
Q psy13081 46 EKSSFACCGRTDSGVSAFCQVVT 68 (335)
Q Consensus 46 ~~~~~~~agRTDkGVsA~~qVvs 68 (335)
...++..|||.|+..+.. |+++
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 345789999999999998 8776
No 24
>COG1258 Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=83.41 E-value=20 Score=35.95 Aligned_cols=155 Identities=14% Similarity=0.115 Sum_probs=100.8
Q ss_pred CCcHHHHHHHHHHHcccccCCCceeeeeeccCccccccccc----EEEEEEccCCCCCCCCCCCCchhHHHHHhcCCCCC
Q psy13081 25 DNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQ----VVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRD 100 (335)
Q Consensus 25 ~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~q----Vvs~~~~s~~~~~~~~~~~~e~~~~~~LN~~LP~d 100 (335)
..|||..|-....++.. ..+..|++|||-|--|--+|+ |+-+.-|..-. .+...+...+|+-. .
T Consensus 190 ~~sve~~i~~~~~~~f~---g~~~~fhgAGREDvDvRMLG~GRPfVlEvk~Pr~R~-------~dl~~l~~~in~~~--~ 257 (398)
T COG1258 190 PESVEELIKQPIKEAFG---GLDAKFHGAGREDVDVRMLGTGRPFVLEVKEPRRRN-------VDLDELEEEINRGG--K 257 (398)
T ss_pred cccHHHHHHHHHHHhcc---CceeEEEccCCCccceeeecCCCceEEEecCccccc-------CChHHHHHHhccCC--c
Confidence 47899999886666542 457899999999999999985 44443321100 01113456789877 7
Q ss_pred EEEEEEEecCCC-----C-CccccCCceEEEEEcC-CCCCcHHHHHHHHHhcccc-ccccccccccccCCcccceEEEEE
Q psy13081 101 IKVVAWSPVPEK-----Y-SARFDCLFRNYKYWFP-QAGLDIDAMHKAAQYLVGT-HDFRNLCKMNVGNGVVNFRRLVTH 172 (335)
Q Consensus 101 IrV~~~~~V~~~-----F-~AR~~~~~R~Y~Y~~~-~~~lDie~m~~A~~~~~G~-HDF~nF~k~~~~~~~~~~vR~I~~ 172 (335)
+.|....-+... + ..|+ .|+|+=.+. ..+++.+++.+++.-|.|. =.=+.+..........--+|.|++
T Consensus 258 vev~~l~f~~~e~v~~ik~~~~~---rK~YrAlV~~~~~v~~e~l~~~~~~L~g~~I~QrTP~RV~hrRadlvR~R~V~~ 334 (398)
T COG1258 258 VEVFDLEFVGREEVEEIKETERH---RKVYRALVYSDRPVSDEKLEEVLGSLEGKTIRQRTPRRVLHRRADLVRIRRVYE 334 (398)
T ss_pred EEEEEEEecCHHHHHHHHhcccc---ceeEEEEEEECCCcCHHHHHHHHhhccCcEEeecChHHHhhhhcccceEEEEEE
Confidence 899988877531 1 3333 577766654 5689999999999999994 333333332211112234788999
Q ss_pred EEEEEcccccccCCCCCcEEEEEEEeCccch
Q psy13081 173 AGVTSAWQNVQFNDSHHNICEFNIRSQGFLW 203 (335)
Q Consensus 173 ~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~ 203 (335)
+++...+ .....+.|.+.+=||
T Consensus 335 l~~~~~~---------~~~~~~~i~~egGlY 356 (398)
T COG1258 335 LSLDLID---------DRHAELEIEAEGGLY 356 (398)
T ss_pred eeeeecc---------CceEEEEEEecccce
Confidence 9988762 246777777776554
No 25
>COG5011 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.04 E-value=37 Score=31.29 Aligned_cols=75 Identities=11% Similarity=0.243 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHccccc----C-CCceeeeeeccCcccccccccEEEEEEccCCCCCCCCCCCCchhHHHHHhcCCCCCEE
Q psy13081 28 IAHHLLKALQKTCLIE----D-KEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIK 102 (335)
Q Consensus 28 VE~~L~~AL~k~~~i~----~-~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~~~~~~e~~~~~~LN~~LP~dIr 102 (335)
+-..+.++++++++-- + .-..+++.|.=---|+..-|-.+-|++..... +..+.+-||..||+|+.
T Consensus 21 lmRlidR~iRRAglpiayT~GFhP~prmsia~alpvG~~ssge~fd~eL~e~v~---------~dk~~etl~~~lp~Dl~ 91 (228)
T COG5011 21 LMRLIDRTIRRAGLPIAYTGGFHPHPRMSIAQALPVGIYSSGEIFDFELTEEVS---------EDKFKETLNKALPNDLP 91 (228)
T ss_pred HHHHHHHHHHhcCCceeecCCCCCCCceeeccccccccccCceEEEEEeeeecC---------cHHHHHHHHHhCCCCcc
Confidence 3456778888888621 1 12456777777888999999999998865442 34788999999999999
Q ss_pred EEEEEecCC
Q psy13081 103 VVAWSPVPE 111 (335)
Q Consensus 103 V~~~~~V~~ 111 (335)
+..+..++.
T Consensus 92 ~~~v~~iD~ 100 (228)
T COG5011 92 AYDVEKIDK 100 (228)
T ss_pred hhheeeecC
Confidence 999998865
No 26
>PF07166 DUF1398: Protein of unknown function (DUF1398); InterPro: IPR009833 This entry is represented by Bacteriophage DE3, Orf: ECD_10033. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Enterobacterial proteins of around 130 residues in length. Members of this family seem to be found exclusively in Escherichia coli and Salmonella species. The function of this family is unknown.; PDB: 2HH8_A.
Probab=27.59 E-value=43 Score=28.44 Aligned_cols=28 Identities=21% Similarity=0.347 Sum_probs=17.9
Q ss_pred CCcHHHHHHHHHh-ccccccccccccccc
Q psy13081 132 GLDIDAMHKAAQY-LVGTHDFRNLCKMNV 159 (335)
Q Consensus 132 ~lDie~m~~A~~~-~~G~HDF~nF~k~~~ 159 (335)
.-|.++++++++. ..|..||..||+.-.
T Consensus 66 ~~n~~~~~~~lk~hq~Gqtdf~tfC~~~A 94 (125)
T PF07166_consen 66 TSNKALFKEALKRHQQGQTDFETFCKDAA 94 (125)
T ss_dssp ---HHHHHHHHHHHHHT---HHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHcCCccHHHHHHHHH
Confidence 3588899988875 579999999998643
Done!