Query psy12402
Match_columns 375
No_of_seqs 229 out of 1262
Neff 6.3
Searched_HMMs 46136
Date Fri Aug 16 18:18:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12402.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12402hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2553|consensus 100.0 2.1E-90 4.5E-95 679.6 27.4 334 1-345 39-413 (416)
2 PLN03078 Putative tRNA pseudou 100.0 9.7E-80 2.1E-84 624.1 32.0 311 1-323 73-485 (513)
3 COG0101 TruA Pseudouridylate s 100.0 2.9E-70 6.2E-75 522.1 25.7 240 1-265 4-250 (266)
4 PRK00021 truA tRNA pseudouridi 100.0 1.6E-69 3.6E-74 513.9 26.1 234 1-259 4-244 (244)
5 PRK12434 tRNA pseudouridine sy 100.0 3.2E-69 7E-74 512.0 25.9 234 1-259 4-245 (245)
6 cd02570 PseudoU_synth_EcTruA P 100.0 8.6E-69 1.9E-73 507.4 25.8 232 3-259 1-239 (239)
7 PRK14588 tRNA pseudouridine sy 100.0 1.7E-68 3.7E-73 513.8 26.5 244 1-266 4-254 (272)
8 PRK14586 tRNA pseudouridine sy 100.0 5.4E-68 1.2E-72 503.7 26.0 234 1-259 4-245 (245)
9 cd02568 PseudoU_synth_PUS1_PUS 100.0 1.2E-67 2.5E-72 501.5 24.2 233 3-259 1-245 (245)
10 cd02866 PseudoU_synth_TruA_Arc 100.0 2E-67 4.4E-72 492.7 25.4 219 3-259 1-221 (221)
11 PRK14589 tRNA pseudouridine sy 100.0 3.4E-67 7.4E-72 502.5 25.6 223 1-261 3-227 (265)
12 TIGR00071 hisT_truA pseudourid 100.0 6.5E-67 1.4E-71 491.2 24.6 219 1-254 3-227 (227)
13 cd00497 PseudoU_synth_TruA_lik 100.0 9.3E-67 2E-71 489.2 24.6 219 5-259 1-224 (224)
14 cd02569 PseudoU_synth_ScPus3 P 100.0 2.2E-66 4.8E-71 495.2 25.4 227 3-259 1-256 (256)
15 PRK14587 tRNA pseudouridine sy 100.0 2E-62 4.3E-67 466.8 24.6 210 1-260 3-213 (256)
16 KOG2554|consensus 100.0 5.6E-55 1.2E-59 420.3 20.9 234 1-266 68-327 (425)
17 KOG4393|consensus 100.0 9.6E-43 2.1E-47 324.1 16.3 243 2-261 8-278 (295)
18 PF01416 PseudoU_synth_1: tRNA 99.8 4.2E-23 9E-28 171.0 -4.8 100 154-260 1-105 (105)
19 PF01416 PseudoU_synth_1: tRNA 98.1 1.8E-07 4E-12 77.2 -2.3 88 5-116 3-105 (105)
20 PF10105 DUF2344: Uncharacteri 95.6 0.094 2E-06 48.3 9.5 92 33-127 19-116 (187)
21 cd01291 PseudoU_synth PseudoU_ 92.2 0.84 1.8E-05 36.2 7.6 21 58-79 23-43 (87)
22 TIGR01213 conserved hypothetic 85.7 15 0.00032 37.8 12.6 153 31-210 184-351 (388)
23 PRK14554 putative pseudouridyl 66.8 1.1E+02 0.0024 31.8 12.9 150 32-210 220-384 (422)
24 COG5011 Uncharacterized protei 66.5 16 0.00034 34.2 5.9 91 36-126 23-118 (228)
25 PF09153 DUF1938: Domain of un 38.5 33 0.00072 27.6 2.8 29 194-222 22-50 (86)
26 COG1258 Predicted pseudouridyl 20.0 9.8E+02 0.021 24.7 11.4 149 31-210 190-356 (398)
No 1
>KOG2553|consensus
Probab=100.00 E-value=2.1e-90 Score=679.64 Aligned_cols=334 Identities=42% Similarity=0.753 Sum_probs=307.5
Q ss_pred CEEEEEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEE
Q psy12402 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSL 80 (375)
Q Consensus 1 val~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~ 80 (375)
||+++||+|++||||| +||+.+||||+|++||.++|+|+++|+++++++.|.||+||||||||++||||+
T Consensus 39 Vail~gY~G~gY~GmQ----------~N~~~kTIEgeL~~al~~aGaI~e~n~~dpkk~~~~raARTDKGVhA~~nviSl 108 (416)
T KOG2553|consen 39 VAILLGYCGTGYHGMQ----------YNPPLKTIEGELFEALFKAGAISESNAGDPKKIGFARAARTDKGVHAAGNVISL 108 (416)
T ss_pred EEEEEEeccCCcccee----------cCCCCCchHHHHHHHHHHcCCcccccccChHHhhhHHhhccccchhhhhheeEE
Confidence 6899999999999999 999999999999999999999999999999999999999999999999999999
Q ss_pred EcC--chHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCC---------------------
Q psy12402 81 KLP--EEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDT--------------------- 137 (375)
Q Consensus 81 ~l~--~~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~--------------------- 137 (375)
+++ ...++..||.+||++||||++.||+++||||..|++|+|+|+||+++|.++...
T Consensus 109 K~~~~~~~lv~~lN~~Lp~~IRv~~v~r~~k~F~pr~~CdsR~YeYllPtfal~~p~~~~~~~~~~~~~~e~~~~f~~~~ 188 (416)
T KOG2553|consen 109 KLELDDPELVEKLNEILPEQIRVWGVKRVTKSFNPRKQCDSRTYEYLLPTFALAPPKPSSLLEVDIQYDKEFEKEFWNTY 188 (416)
T ss_pred EEeeCcHHHHHHHhhhCCcceEEEEEEecCCCCCccccccceeEEEecceeeecCCCCccHHHhhhhhhhhhhhhhcccc
Confidence 984 456999999999999999999999999999999999999999999999876543
Q ss_pred ---------------CCceeCChhhHHHHHHHHhhccCccccccccccccCCCCCCcEEEEEEEEecCccc--CCccEEE
Q psy12402 138 ---------------KDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVK--DGLELIT 200 (375)
Q Consensus 138 ---------------~~~~~~~~~~l~~~~~al~~f~GtHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~--~~~~~v~ 200 (375)
...|+++++.++.++++|+.|+|||||||||..+...|+++.|+|.+|.|++||+. .+.+||.
T Consensus 189 ~~~~~~~~s~~~~~~~~~yr~s~~~l~~~~~~ls~Y~GthnFHNfT~~~~~~dpss~R~I~s~~~~~pfv~~~~~~e~V~ 268 (416)
T KOG2553|consen 189 PLSAKERLSGQDRKTESGYRLSEEKLEVFNTILSKYVGTHNFHNFTTGKDFTDPSSNRFIKSFTVSEPFVINDEGVEFVK 268 (416)
T ss_pred chhhhhhhcccccccccceeeCHHHHHHHHHHHHHhhcccccceecccCCCCCccccceeeEEEecCcceeccCCceEEE
Confidence 35789999999999999999999999999999999999999999999999999987 6899999
Q ss_pred EEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHhc-CCCCCCCCCCCCCeeeeeeeccccccccCCCCCCccccccc
Q psy12402 201 LKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFG-LDQFDLPMAPGLGLLLEQVHYDLYNQKYGQDGMHESLHFHE 279 (375)
Q Consensus 201 i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~~~l~-~~~~~~p~AP~~GL~L~~v~Y~~yn~k~~~~~~~~~i~~~~ 279 (375)
|.|+|||||+||||||||++|+|.|+.+|.+.|+.+|+ ..++++|+||++||+|+++.|+.||++++..+ |++++|++
T Consensus 269 i~i~GQSFMLHQIRKMVglav~i~R~~~p~~~i~~af~~~~ri~IP~AP~~gLlL~~~~F~~yn~~~~~~~-~e~i~~~~ 347 (416)
T KOG2553|consen 269 IKIHGQSFMLHQIRKMVGLAVLIVRSGAPASTIQRAFNKEHKINIPKAPGEGLLLEEPHFESYNRKFRPSG-HEEIDWDD 347 (416)
T ss_pred EEEEcchhHHHHHHHHHHHHHHHHhcCCCHHHHHHhhCCCccccccCCCcceEEeecccccccccccCCCC-cCCcCHHH
Confidence 99999999999999999999999999999999999998 46899999999999999999999999997766 99999999
Q ss_pred hHHHHHHHHHHhhHHHHHHhhhccchHHHHHHHhhcCCcchhhhHhhHhhhCCccccccCCCCccc
Q psy12402 280 VDKEVNEFRHKFILPYLVKTEITEKPMLAWLELLADHSFETRAAKAALAAANGEELQEVTDGEEEE 345 (375)
Q Consensus 280 ~~~~~~~Fk~~~i~~~I~~~e~~~~~~~~wl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (375)
+++++++||..+||++|+.+|.++++|..||..|++|+..+.......+....+.+-..+.+|++|
T Consensus 348 ~e~ei~~fk~~~Iy~~I~~~E~~~~~f~~wl~~l~~~~~~~~~~~~~~~~~~~~~~~~~k~~e~~~ 413 (416)
T KOG2553|consen 348 YEEEIDQFKEKHIYSHIIKTEEKEGVFAIWLSSLNQRDNYPDLRKGSNEFLTDKVIVGKKIDEDSE 413 (416)
T ss_pred HHHHHHHHHHHHhchHHhhhHhhhhhHHHHHHHHhhhcchhhhhccccccccccceeccccccccc
Confidence 999999999999999999999999999999999999975555454455555555555555444443
No 2
>PLN03078 Putative tRNA pseudouridine synthase; Provisional
Probab=100.00 E-value=9.7e-80 Score=624.06 Aligned_cols=311 Identities=32% Similarity=0.545 Sum_probs=275.6
Q ss_pred CEEEEEEeCCCccccccccccccccccCCC---CCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccE
Q psy12402 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQG---MKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQI 77 (375)
Q Consensus 1 val~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~---~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qv 77 (375)
|+|.|+|+||+|+||| +|++ .+|||++|++||.+++.|.+.|+++++++.|++||||||||||++||
T Consensus 73 vaL~IaYdGt~Y~G~Q----------~Q~n~~~~~TVEg~LE~AL~k~~~I~e~n~~~~~ki~~~rAgRTDkGVHA~gQV 142 (513)
T PLN03078 73 VVLRVGYVGTDYRGLQ----------KQRDLSSLSTIEGELETAIFKAGGIRESNYGNLHKIGWARSSRTDKGVHSLATM 142 (513)
T ss_pred EEEEEEEcCCCcceee----------ECCCCCCCCCHHHHHHHHHHHHhCccccccccccceeEEeeccCCcCccccccE
Confidence 5899999999999999 5554 68999999999999999999999999999999999999999999999
Q ss_pred EEEEcCc--h---------HHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCChh
Q psy12402 78 VSLKLPE--E---------ANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPD 146 (375)
Q Consensus 78 vs~~l~~--~---------~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~~~ 146 (375)
+||+++. . .++..||++||+||||++|.+|+++||||++|++|+|+|+||+..+...... .......
T Consensus 143 vsf~l~~p~~~~~~d~~~~~L~~~LN~~LP~DIRVl~v~~V~~~FhAR~sc~sRtY~Y~iP~~~~~~k~~f--~~~~~~~ 220 (513)
T PLN03078 143 ISLKMEIPENAWKDDPDGIALAKFINSHLPDNIRVFSILPAQRSFDPRRECDLRKYSYLLPAEVIGIKSGF--SSEEIDE 220 (513)
T ss_pred EEEeccCcchhccccchHHHHHHHHHhcCCCCeEEEEEEECCCCcCCCCCCCceEEEEEEccccccCCCcc--chhhhHH
Confidence 9999732 1 4678999999999999999999999999999999999999999654332110 0000112
Q ss_pred hHHHHHHHHhhccCccccccccccccCCCC--------------------------------------------------
Q psy12402 147 QFNFLQALLKQYEGTHNFHNFTSKRKPLDP-------------------------------------------------- 176 (375)
Q Consensus 147 ~l~~~~~al~~f~GtHdF~nFt~~~~~~~~-------------------------------------------------- 176 (375)
++++|++||++|+|+|||||||++++..++
T Consensus 221 dI~kMneAl~~fiGtHDFhNFT~r~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~ 300 (513)
T PLN03078 221 HISEFNSILNGFEGEHPFHNYTARSKYRKKLPGKHKQRNGAVSRRAKSSKEMSSSESEENHGEISEEDEEDLSFSSIPSG 300 (513)
T ss_pred HHHHHHHHHHhcccccCcccccCCCccCccccccccccccccccccccccccccccccccccccccchhhhhcccccccc
Confidence 799999999999999999999987654443
Q ss_pred ----------------------------------CCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHH
Q psy12402 177 ----------------------------------SCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMA 222 (375)
Q Consensus 177 ----------------------------------s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~ 222 (375)
++.|+|.+|+|.+++...+.+|++|+|.|||||+||||||||++++
T Consensus 301 ~~~~~~~~~~~~~~~~~~~~~wl~e~d~~d~i~~s~~R~I~~~~~~~~~~~~g~~fv~i~I~GqSFmlhQIRKMIG~~~a 380 (513)
T PLN03078 301 SSDENEDILKFQSSQVQIRARWLHEPDETDRISASHFRKIFRCSCGKLEKSLGFDFVELSIWGESFMLHQIRKMVGTAVA 380 (513)
T ss_pred ccccccccccccccchhhhhhhccCCccccccchhheEEEEEeecCCccccCCceEEEEEEEehhHHHHHHHHHHHHHHH
Confidence 4589999999999888888999999999999999999999999999
Q ss_pred HHcCCCCHHHHHHHhcC-CCCCCCCCCCCCeeeeeeeccccccc--cCCCCCCccccccchHHHHHHHHHHhhHHHHHHh
Q psy12402 223 IARGFTSKDLIEKTFGL-DQFDLPMAPGLGLLLEQVHYDLYNQK--YGQDGMHESLHFHEVDKEVNEFRHKFILPYLVKT 299 (375)
Q Consensus 223 v~rG~~~~~~i~~~l~~-~~~~~p~AP~~GL~L~~v~Y~~yn~k--~~~~~~~~~i~~~~~~~~~~~Fk~~~i~~~I~~~ 299 (375)
|++|.++.+.|+.+|.. .++.+|+||+.||+|.+|.|+.||++ ++.++++..++|++.++.+++|++.+|||+|.+.
T Consensus 381 V~rg~~~~~~i~~~L~~~~r~~~P~AP~~GL~L~~~~F~~yn~~~~~~~p~~~~~~e~e~~~~~i~eF~~~~i~p~i~~~ 460 (513)
T PLN03078 381 VKRELLPRDIIRLSLTKFSRIVLPLAPSEVLILRGNSFSVRKKPGNIKRPGMETMNESEEILKGVEEFYRAVMLPQVSKF 460 (513)
T ss_pred HHhccCCHHHHHHHhccccccccccCCCcceEEEeeeccccccccccCCCCccccccHHHHHHHHHHHHHHhhhHHHHHH
Confidence 99999999999999986 58899999999999999999999985 8889999999999999999999999999999998
Q ss_pred h-hccchHHHHHHHhhcCCcchhhh
Q psy12402 300 E-ITEKPMLAWLELLADHSFETRAA 323 (375)
Q Consensus 300 e-~~~~~~~~wl~~l~~~~~~~~~~ 323 (375)
. .....|.+|++.|+.+.-.+.++
T Consensus 461 ~~~~~~~w~~w~~nl~~~~~~~~~~ 485 (513)
T PLN03078 461 LDPSKPPWKEWVENLDRFTSIPDAQ 485 (513)
T ss_pred hccccchHHHHHHHHHhhcCCCHHH
Confidence 6 55789999999998877666554
No 3
>COG0101 TruA Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.9e-70 Score=522.10 Aligned_cols=240 Identities=30% Similarity=0.479 Sum_probs=218.0
Q ss_pred CEEEEEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEE
Q psy12402 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSL 80 (375)
Q Consensus 1 val~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~ 80 (375)
|+|.|+||||+|+||| +||+.+|||++||+||.+++.+ ++.+.+||||||||||.+||+||
T Consensus 4 i~l~iaYdGt~f~G~Q----------~Qp~~~TVQ~~le~aL~~i~~~---------~~~i~~AGRTD~GVHA~gqv~hf 64 (266)
T COG0101 4 IALKIAYDGTRFHGWQ----------RQPNVRTVQGELEKALSKIGGE---------SVRVIGAGRTDAGVHALGQVVHF 64 (266)
T ss_pred EEEEEEEcCCceeeec----------cCCCCCCHHHHHHHHHHHhcCC---------cceeEEecCCCcCccccccEEEE
Confidence 5899999999999999 9999999999999999998653 35899999999999999999999
Q ss_pred EcCc----hHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCC-hhhHHHHHHHH
Q psy12402 81 KLPE----EANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLT-PDQFNFLQALL 155 (375)
Q Consensus 81 ~l~~----~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~-~~~l~~~~~al 155 (375)
+++. +.+..+||++||+||+|+++++||++|||||+|.+|+|+|+|+...+.++......|.++ ++|+++|++|+
T Consensus 65 d~~~~~~~~~~~~~lN~~Lp~dI~V~~~~~v~~~FhaRfsa~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ld~~~m~~aa 144 (266)
T COG0101 65 DTPADRPLEKLVRALNALLPPDIRVLDVAEVPDDFHARFSAKSRTYRYIIYNAPLRPPFLANYVWHVPYPLDLDAMREAA 144 (266)
T ss_pred EcCCcccHHHHHHHHHhcCCCCcEEEEEEECCCCCCCcccccceEEEEEEcCccCCChhhhcccccccCcCCHHHHHHHH
Confidence 9864 578999999999999999999999999999999999999999999887766666666665 67899999999
Q ss_pred hhccCccccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHHH
Q psy12402 156 KQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEK 235 (375)
Q Consensus 156 ~~f~GtHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~~ 235 (375)
+.|+|+|||+|||+..... .|++|+|++++|.+. .+++.|.|+|+||||||||+|||+|+.||+|..++++|..
T Consensus 145 ~~l~G~HDF~sF~~~~~~~-~s~vRti~~~~v~~~-----~~~i~i~i~g~sFL~~mVR~iVg~l~~vg~g~~~~~~i~~ 218 (266)
T COG0101 145 KLLLGTHDFTSFRKAGCQS-KSPVRTIYRIDVSRD-----GDLIVIDISGNSFLWHMVRNIVGALLLVGRGKRPVEWIKE 218 (266)
T ss_pred HHccccccchhhccCCCcc-CCCeEEEEEEEEEec-----CCEEEEEEEeChhHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence 9999999999999876543 488999999999752 5789999999999999999999999999999999999999
Q ss_pred HhcC--CCCCCCCCCCCCeeeeeeeccccccc
Q psy12402 236 TFGL--DQFDLPMAPGLGLLLEQVHYDLYNQK 265 (375)
Q Consensus 236 ~l~~--~~~~~p~AP~~GL~L~~v~Y~~yn~k 265 (375)
+|+. ++..+|+|||+||+|.+|.|+.++..
T Consensus 219 ll~~~~r~~~~~~Apa~GL~L~~v~Y~~~~~~ 250 (266)
T COG0101 219 LLEAKDRKLAGPTAPAEGLYLVRVDYPEDFEL 250 (266)
T ss_pred HHhccCcccCCCCCCCCccEEEeeccCCcccc
Confidence 9983 45789999999999999999876543
No 4
>PRK00021 truA tRNA pseudouridine synthase A; Validated
Probab=100.00 E-value=1.6e-69 Score=513.89 Aligned_cols=234 Identities=26% Similarity=0.430 Sum_probs=213.1
Q ss_pred CEEEEEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEE
Q psy12402 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSL 80 (375)
Q Consensus 1 val~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~ 80 (375)
++|.|+|+||+|+||| +||+.+|||++||+||.+++. +++.|.+||||||||||++||++|
T Consensus 4 ~~l~i~YdGt~y~G~q----------~q~~~~TVq~~le~aL~~~~~---------~~~~~~~agRTD~GVHA~~qvv~~ 64 (244)
T PRK00021 4 IALTIEYDGTNFHGWQ----------RQPNGRTVQGELEKALSKLAG---------EPVRVIGAGRTDAGVHALGQVAHF 64 (244)
T ss_pred EEEEEEECCCccceee----------eCCCCCCHHHHHHHHHHHHhC---------CCeEEEEEccCCCcccccCcEEEE
Confidence 5799999999999999 899999999999999999853 578999999999999999999999
Q ss_pred EcC----chHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCC-hhhHHHHHHHH
Q psy12402 81 KLP----EEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLT-PDQFNFLQALL 155 (375)
Q Consensus 81 ~l~----~~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~-~~~l~~~~~al 155 (375)
+++ .+.++..||+.||+||||+++.+||.+||||++|++|+|+|+||...+.+++...+.|.++ ..|+++|++|+
T Consensus 65 ~~~~~~~~~~~~~~lN~~Lp~dI~V~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ld~~~m~~a~ 144 (244)
T PRK00021 65 DTPAPRPPEKWRRALNALLPDDIAVLWAEEVPDDFHARFSAKARRYRYRIYNRPARPPFLRGYVWHYPYPLDVDAMNEAA 144 (244)
T ss_pred EeCCCCCHHHHHHHHHhcCCCCEEEEEeEecCCCcCcCcCCCceEEEEEEecCCCCChhhCCcEEEeCCCCcHHHHHHHH
Confidence 984 3578999999999999999999999999999999999999999999887777777777765 57899999999
Q ss_pred hhccCccccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHHH
Q psy12402 156 KQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEK 235 (375)
Q Consensus 156 ~~f~GtHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~~ 235 (375)
++|+|+|||+|||+.+ ...++++|+|.+++|.+ + .+++.|+|+|+||||||||+|||++++||+|+++++.|+.
T Consensus 145 ~~~~G~HdF~~F~~~~-~~~~~~~R~I~~~~v~~----~-~~~~~i~i~g~sFL~~qVR~mvg~l~~vg~g~~~~~~i~~ 218 (244)
T PRK00021 145 QYLLGEHDFTSFRASG-CQSKSPVRTIYEADVTR----E-GDFIVFDISANGFLHNMVRNIVGTLLEVGKGKRPPEDIKE 218 (244)
T ss_pred HHhcCceeeeeeeCCC-CCCCCCeEEEEEEEEEE----c-CCEEEEEEEEchhHHHHHHHHHHHHHHHHCCCCCHHHHHH
Confidence 9999999999998543 34678999999999964 2 3799999999999999999999999999999999999999
Q ss_pred HhcCC--CCCCCCCCCCCeeeeeeec
Q psy12402 236 TFGLD--QFDLPMAPGLGLLLEQVHY 259 (375)
Q Consensus 236 ~l~~~--~~~~p~AP~~GL~L~~v~Y 259 (375)
+|+.. ...+|+|||+||+|++|.|
T Consensus 219 ~L~~~~~~~~~~~APa~GL~L~~v~Y 244 (244)
T PRK00021 219 LLEAKDRTLAGPTAPAEGLYLVEVDY 244 (244)
T ss_pred HHhcCCcccCCCccCCCCCEEeeeEC
Confidence 99864 3568999999999999987
No 5
>PRK12434 tRNA pseudouridine synthase A; Reviewed
Probab=100.00 E-value=3.2e-69 Score=512.05 Aligned_cols=234 Identities=26% Similarity=0.411 Sum_probs=211.7
Q ss_pred CEEEEEEeCCCccccccccccccccccCCC-CCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEE
Q psy12402 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQG-MKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVS 79 (375)
Q Consensus 1 val~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~-~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs 79 (375)
++|.|+|+||+|+||| +||+ .+|||++||+||.+.. . +++.+.+||||||||||++||+|
T Consensus 4 ~~l~i~YdGt~y~G~Q----------~Q~~~~~TVq~~le~aL~~~~---~------~~~~~~~agRTD~GVHA~~qv~~ 64 (245)
T PRK12434 4 IKLTIQYDGSRYKGWQ----------KLGNNDNTIQGKIESVLSEMT---G------EEIEIIGCGRTDAGVHALNQVAN 64 (245)
T ss_pred EEEEEEECCCccceEe----------eCCCCCCCHHHHHHHHHHHHh---C------CCeEEEEeccCCCCcCccCcEEE
Confidence 5799999999999999 8885 8999999999999962 1 57899999999999999999999
Q ss_pred EEcC----chHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCC-hhhHHHHHHH
Q psy12402 80 LKLP----EEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLT-PDQFNFLQAL 154 (375)
Q Consensus 80 ~~l~----~~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~-~~~l~~~~~a 154 (375)
|+++ .+.++..||+.||+||||+++.+||++||||++|++|+|+|+|+.....+++...+.|.++ ..|+++|++|
T Consensus 65 f~~~~~~~~~~l~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~f~~~~~~~~~~~ld~~~m~~a 144 (245)
T PRK12434 65 FQTDEKLSEDKIKKYLNEYLPNDIVVTNVEEVDERFHARYNVKSKTYLYKIWNEKFHNVFMRKYSMHVNEKLDVKAMKEA 144 (245)
T ss_pred EEcCCCCCHHHHHHHHHccCCCCeEEEEEEECCCCcccccCCCcEEEEEEEccCCCCChhhCCeEEEeCCCCCHHHHHHH
Confidence 9984 4578899999999999999999999999999999999999999998887777777778776 5789999999
Q ss_pred HhhccCccccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHH
Q psy12402 155 LKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIE 234 (375)
Q Consensus 155 l~~f~GtHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~ 234 (375)
++.|+|+|||+|||+.+ ...++++|+|.++++.+ ..+++.|+|+|+||||||||+|||+|++||+|+++++.|+
T Consensus 145 ~~~~~G~HDF~~F~~~~-~~~~~~~R~I~~~~v~~-----~~~~~~i~i~g~~FL~~mVR~mvg~ll~vg~g~~~~~~i~ 218 (245)
T PRK12434 145 AKYLVGSHDFTSFTNAK-SKKKSTVREIYSIDIME-----EDGFVQIRVSGNGFLHNMVRIIVGALIEVGLGQLKAEDIK 218 (245)
T ss_pred HHHccCCcCHHhhcCCC-CCCCCCEEEEEEEEEEE-----eCCEEEEEEEecHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence 99999999999999754 34578999999999863 2368999999999999999999999999999999999999
Q ss_pred HHhcCC-C-CCCCCCCCCCeeeeeeec
Q psy12402 235 KTFGLD-Q-FDLPMAPGLGLLLEQVHY 259 (375)
Q Consensus 235 ~~l~~~-~-~~~p~AP~~GL~L~~v~Y 259 (375)
++|+.. + ...|+|||+||+|++|.|
T Consensus 219 ~~L~~~~r~~~~~~APa~GL~L~~V~Y 245 (245)
T PRK12434 219 QILEAKDRNQANCTAPASGLYLENVEY 245 (245)
T ss_pred HHHhcCCcccCCCccCCCCCEEeEeEC
Confidence 999863 3 568999999999999987
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=8.6e-69 Score=507.45 Aligned_cols=232 Identities=29% Similarity=0.471 Sum_probs=210.5
Q ss_pred EEEEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEEEc
Q psy12402 3 MMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLKL 82 (375)
Q Consensus 3 l~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~~l 82 (375)
|.|+|+||+|+||| +||+.+|||++||+||.+++. +++.|.+||||||||||++||+||++
T Consensus 1 l~i~Y~Gt~f~G~q----------~q~~~~TVq~~le~aL~~~~~---------~~~~i~~agRTD~GVHA~~qvv~~~~ 61 (239)
T cd02570 1 LTIEYDGTNFSGWQ----------RQPNGRTVQGELEKALSKIAG---------EPVRVIGAGRTDAGVHALGQVAHFDT 61 (239)
T ss_pred CEEEEeCCccceee----------eCCCCCCHHHHHHHHHHHHhC---------CCeEEEEECcCCCCcCccccEEEEEE
Confidence 57999999999999 899999999999999999753 57999999999999999999999998
Q ss_pred Cc----hHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCC-hhhHHHHHHHHhh
Q psy12402 83 PE----EANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLT-PDQFNFLQALLKQ 157 (375)
Q Consensus 83 ~~----~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~-~~~l~~~~~al~~ 157 (375)
+. +.++..||+.||+||+|+++.+||++||||++|++|+|+|+||.....+++.....|.++ +.|+++|++|+++
T Consensus 62 ~~~~~~~~~~~~lN~~Lp~dI~v~~i~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~d~~~m~~a~~~ 141 (239)
T cd02570 62 PSEIPLEKLIKALNSLLPPDIRVLSAEEVPDDFHARFSAKSRTYRYRILNRPVPSPFLRRYVWHVPRPLDIEAMQEAAKL 141 (239)
T ss_pred CCCCCHHHHHHHHHccCCCCEEEEEEEECCCCcCcccCCCceEEEEEEccCCCCChhhCCeEEEeCCCCCHHHHHHHHHH
Confidence 53 468999999999999999999999999999999999999999998766666666777776 6789999999999
Q ss_pred ccCccccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHh
Q psy12402 158 YEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTF 237 (375)
Q Consensus 158 f~GtHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~~~l 237 (375)
|+|+|||+|||+.+. .+++++|+|.++++.+ ..+++.|+|+|+|||+||||+|||++++||+|+++++.|+.+|
T Consensus 142 f~G~HdF~~F~~~~~-~~~~~~R~I~~~~v~~-----~~~~~~i~i~g~sFL~~qVR~mvg~ll~vg~g~~~~~~i~~~l 215 (239)
T cd02570 142 LLGTHDFSSFRAAGC-QSKSTVRTIYRADVYR-----EGDLIVFEIRANGFLYHMVRNIVGTLLEVGRGKLSPEDIKEIL 215 (239)
T ss_pred ccCCcchhhhCCCCC-CCCCCeEEEEEEEEEE-----eCCEEEEEEEEcHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
Confidence 999999999997653 3578999999999864 2378999999999999999999999999999999999999999
Q ss_pred cCC-C-CCCCCCCCCCeeeeeeec
Q psy12402 238 GLD-Q-FDLPMAPGLGLLLEQVHY 259 (375)
Q Consensus 238 ~~~-~-~~~p~AP~~GL~L~~v~Y 259 (375)
+.. + ..+|+|||+||+|++|.|
T Consensus 216 ~~~~~~~~~~~APa~GL~L~~v~Y 239 (239)
T cd02570 216 EAKDRTAAGPTAPAHGLYLVKVEY 239 (239)
T ss_pred hcCCcccCCCCcCCCCCEEeeeEC
Confidence 863 3 458999999999999987
No 7
>PRK14588 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=1.7e-68 Score=513.75 Aligned_cols=244 Identities=24% Similarity=0.370 Sum_probs=215.6
Q ss_pred CEEEEEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEE
Q psy12402 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSL 80 (375)
Q Consensus 1 val~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~ 80 (375)
++|.|+|+||+|+||| +||+.+|||++||+||.++ .+ +++.+.+||||||||||++||+||
T Consensus 4 ~~l~iaYdGt~f~G~Q----------~Q~~~~TVq~~Le~aL~~l---~~------~~i~i~~AgRTDaGVHA~gQv~~f 64 (272)
T PRK14588 4 IALLLEYDGTDFAGSQ----------WQTDGRTVQGALEAAWQAL---TQ------ERRRIVLAGRTDAGVHARGQVAHV 64 (272)
T ss_pred EEEEEEEcCCceeeeE----------ECCCCCCHHHHHHHHHHHh---hC------CCceEEEecCCCcCcCccccEEEE
Confidence 5899999999999999 8999999999999999996 22 568899999999999999999999
Q ss_pred EcC----chHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCC-hhhHHHHHHHH
Q psy12402 81 KLP----EEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLT-PDQFNFLQALL 155 (375)
Q Consensus 81 ~l~----~~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~-~~~l~~~~~al 155 (375)
+++ .+.+...||+.||+||+|+++.+|+.+||||++|++|+|+|+|+.....+++...+.|.+. ..|+++|++|+
T Consensus 65 ~~~~~~~~~~l~~~LN~~LP~dI~V~~v~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~lDi~~m~~a~ 144 (272)
T PRK14588 65 QTDTRHSLATIWRGLNAHLPEDIGVQNAWEAPPDFHARFSAIQREYRYVIDCAPAPSPQLRHQVLHYAGTLDVAAMDAAL 144 (272)
T ss_pred EcCCCCCHHHHHHHHHhcCCCCeEEEEEEECCCCcCcccCCCcEEEEEEEcCCCCCChhhcCceEecCCCCCHHHHHHHH
Confidence 984 3568999999999999999999999999999999999999999988776666666667665 57999999999
Q ss_pred hhccCccccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHHH
Q psy12402 156 KQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEK 235 (375)
Q Consensus 156 ~~f~GtHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~~ 235 (375)
+.|+|+|||+|||+.. ..++++|+|.+++|..... .+.+++.|+|+|+||||||||+|||+|++||+|+++++.|+.
T Consensus 145 ~~f~G~HDF~~F~~~~--~~~~~vRtI~~~~~~~~~~-~~~~~i~~~i~g~~FL~~mVR~mVg~ll~vg~g~~~~~~i~~ 221 (272)
T PRK14588 145 KLLIGTHDFAAFTTAP--QEGSTVRTCYWARCTDTEW-FGRPLLAIEVAANAFLQHMVRNIVGTLLLVGRGRMTVDQFGA 221 (272)
T ss_pred HHccCCcchHhhcCCC--CCCCCeEEEEEEEEEEccc-CCCCEEEEEEEEchhHHHHHHHHHHHHHHHHCCCCCHHHHHH
Confidence 9999999999999762 4578999999999875221 133689999999999999999999999999999999999999
Q ss_pred HhcCC--CCCCCCCCCCCeeeeeeecccccccc
Q psy12402 236 TFGLD--QFDLPMAPGLGLLLEQVHYDLYNQKY 266 (375)
Q Consensus 236 ~l~~~--~~~~p~AP~~GL~L~~v~Y~~yn~k~ 266 (375)
+|+.. +...|+|||+||+|++|.|++..-++
T Consensus 222 ~L~~~~r~~~~~~APa~GL~L~~V~Y~~~~~~~ 254 (272)
T PRK14588 222 VLASRDRRLAGPTAPAHGLYLTAVRYPPGLIRW 254 (272)
T ss_pred HHhcCCcccCCCCCCCCCcEEeeEecCchhccc
Confidence 99753 46789999999999999997654443
No 8
>PRK14586 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=5.4e-68 Score=503.67 Aligned_cols=234 Identities=26% Similarity=0.400 Sum_probs=208.8
Q ss_pred CEEEEEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEE
Q psy12402 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSL 80 (375)
Q Consensus 1 val~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~ 80 (375)
++|.|+|+||+|+||| +||+.+|||++||+||.++ .+ +++.+.+||||||||||++||+||
T Consensus 4 ~~l~i~YdGt~f~G~Q----------~Q~~~~TVq~~le~aL~~~---~~------~~i~~~~agRTD~GVHA~~qv~~f 64 (245)
T PRK14586 4 VAAVVSYDGSNFFGYQ----------GQPDVRTVQGVFEDALERI---FK------QRIYTQAAGRTDTGVHANGQVIAF 64 (245)
T ss_pred EEEEEEEcCCceeeEE----------ECCCCCCHHHHHHHHHHHH---hC------CCeeEEEecCCccCCCccCcEEEE
Confidence 5899999999999999 8999999999999999996 22 579999999999999999999999
Q ss_pred EcC-----chHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCC-hhhHHHHHHH
Q psy12402 81 KLP-----EEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLT-PDQFNFLQAL 154 (375)
Q Consensus 81 ~l~-----~~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~-~~~l~~~~~a 154 (375)
+++ .+.+..+||+.||+||+|+++.+||++||||++|++|+|+|+|+.....+++...+.|.++ +.|+++|++|
T Consensus 65 ~~~~~~~~~~~l~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~f~~~~~~~~~~~ld~~~m~~a 144 (245)
T PRK14586 65 NCPNDRMTEEDIKNAMNANLPDDIYVKKVFEVPKNFHPRFDAKKRIYHYFILTSKEKNVFLRKYVWWFPYELDLEAMRKA 144 (245)
T ss_pred EecCCcCCHHHHHHHHHccCCCCeEEEEEEECCCCcCcccCCCcEEEEEEEecCCCCChhhCCceEEeCCCCCHHHHHHH
Confidence 974 3468999999999999999999999999999999999999999988776666666777665 5789999999
Q ss_pred HhhccCccccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHH
Q psy12402 155 LKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIE 234 (375)
Q Consensus 155 l~~f~GtHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~ 234 (375)
++.|+|+|||+||+ .+ ...++++|+|.++++.+ ...+++.|+|+|+||||||||+|||+|++||+|+++++.|.
T Consensus 145 ~~~l~G~HDF~~F~-~~-~~~~~~vR~I~~~~~~~----~~~~~i~~~i~g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~ 218 (245)
T PRK14586 145 AKYLEGEHDFTSFK-TG-SDERNPVRTIYRIRILR----LKKDLILIRVEGRSFLRRMVRNIVGALVKVGLGQWEPEKIK 218 (245)
T ss_pred HHHccCcchHHhhc-CC-CCCCCCcEEEEEEEEEE----ccCCEEEEEEEechhHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence 99999999999994 32 24568899999999864 12368999999999999999999999999999999999999
Q ss_pred HHhcCC--CCCCCCCCCCCeeeeeeec
Q psy12402 235 KTFGLD--QFDLPMAPGLGLLLEQVHY 259 (375)
Q Consensus 235 ~~l~~~--~~~~p~AP~~GL~L~~v~Y 259 (375)
++|+.. ....|+|||+||+|++|.|
T Consensus 219 ~~L~~~~r~~~~~~APa~GL~L~~v~f 245 (245)
T PRK14586 219 EVLEARDRSKAAGTAPAHGLYLYKVLF 245 (245)
T ss_pred HHHhcCCcccCCCccCCCCCEEeEeEC
Confidence 999763 3578999999999999986
No 9
>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=1.2e-67 Score=501.46 Aligned_cols=233 Identities=52% Similarity=0.898 Sum_probs=209.4
Q ss_pred EEEEEeCCCccccccccccccccccCCCC-CCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEEE
Q psy12402 3 MMFAYSGVGYFGLQSKYLFFLIFCRNQGM-KTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81 (375)
Q Consensus 3 l~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~-~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~~ 81 (375)
|.|+|+||+|+||| +||+. +|||++|++||.+++.|++++..+.++++|.+|||||+||||++||+||+
T Consensus 1 l~i~Y~Gt~f~G~Q----------~Q~~~~~TVq~~le~aL~~~~~~~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~ 70 (245)
T cd02568 1 LLFGYCGTGYHGMQ----------YNPGNYKTIEGELERALVKAGAISESNAGDPKKIGFSRAARTDKGVHAARNVVSLK 70 (245)
T ss_pred CEEEEeCCCccccc----------cCCCCCCChHHHHHHHHHHcCCcCccccCChhhcceeeecccccchhheeeEEEEE
Confidence 57999999999999 88887 99999999999999998877667778999999999999999999999999
Q ss_pred cC---------chHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCChhhHHHHH
Q psy12402 82 LP---------EEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQ 152 (375)
Q Consensus 82 l~---------~~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~~~~l~~~~ 152 (375)
++ .+.++..||++||+||+|+++.+|+.+||||++|.+|+|+|+||...+ .|+++|+
T Consensus 71 ~~~~~~~~~~~~~~~~~~lN~~Lp~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~~--------------~d~~~m~ 136 (245)
T cd02568 71 VIIDDPEGLGIGEDLVEKLNSHLPEDIRVFGITRVTKSFNARKACDSRTYEYLLPTFAL--------------ETLDRFN 136 (245)
T ss_pred EeccccccccchHHHHHHHHccCCCceEEEEEEcCCCCCCcchhhhcceeEEECCcccH--------------hHHHHHH
Confidence 83 356889999999999999999999999999999999999999986532 4799999
Q ss_pred HHHhhccCccccccccccccCCCCCCcEEEEEEEEecCccc-CCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHH
Q psy12402 153 ALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVK-DGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKD 231 (375)
Q Consensus 153 ~al~~f~GtHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~-~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~ 231 (375)
+|+++|+|+|||+|||+......++++|+|.++++.+.... .+.+++.|+|+|+||||||||+|||+|++||+|+++++
T Consensus 137 ~a~~~~~G~HdF~~F~~~~~~~~~~~~R~i~~~~~~~~~~~~~~~~~i~i~i~g~~FL~~mVR~mvg~l~~vg~g~~~~~ 216 (245)
T cd02568 137 EILKLYVGTHNFHNFTVRKKFEDPSANRFIISFYVSEPFVIEEGLEWVSIEIHGQSFMLHQIRKMIGLAIAIVRGGAPES 216 (245)
T ss_pred HHHHHhhCccccccCcccccccCCCceeEEEEEEEecceeecCCccEEEEEEEechHHHHHHHHHHHHHHHHHcCCCCHH
Confidence 99999999999999997654446789999999999754322 23479999999999999999999999999999999999
Q ss_pred HHHHHhcCC-CCCCCCCCCCCeeeeeeec
Q psy12402 232 LIEKTFGLD-QFDLPMAPGLGLLLEQVHY 259 (375)
Q Consensus 232 ~i~~~l~~~-~~~~p~AP~~GL~L~~v~Y 259 (375)
.|+.+|+.+ +...|+|||+||+|++|.|
T Consensus 217 ~i~~~L~~~~~~~~~~APa~GL~L~~v~y 245 (245)
T cd02568 217 LIDLSFNKAKRIIIPLAPGLGLLLEYPHF 245 (245)
T ss_pred HHHHHhcccccccccCCCCcceeEecccC
Confidence 999999864 3567999999999999987
No 10
>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=2e-67 Score=492.65 Aligned_cols=219 Identities=29% Similarity=0.524 Sum_probs=199.2
Q ss_pred EEEEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEEEc
Q psy12402 3 MMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLKL 82 (375)
Q Consensus 3 l~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~~l 82 (375)
|.|+|+||+|+||| +||+.+|||++|++||.+++.+.. .+++.|.+||||||||||++||+||++
T Consensus 1 l~i~Y~Gt~y~G~q----------~q~~~~TVq~~le~aL~~~~~~~~-----~~~i~~~~agRTD~GVHA~~qv~~f~~ 65 (221)
T cd02866 1 LKVAYDGTPYHGFQ----------RQPDVRTVEGELIKALRRLGIIES-----PKRPRLYSAGRTDAGVSALGNVVAFET 65 (221)
T ss_pred CEEEEeCCceeeee----------eCCCCCCHHHHHHHHHHHhhcccc-----CCceEEEEEcCCccccCccccEEEEEe
Confidence 57999999999999 899999999999999999976653 267999999999999999999999999
Q ss_pred CchHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCChhhHHHHHHHHhhccCcc
Q psy12402 83 PEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTH 162 (375)
Q Consensus 83 ~~~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~~~~l~~~~~al~~f~GtH 162 (375)
+...+...||+.||+||+|+++.+||++||||++|++|+|+|+||... .|+++|++|++.|+|+|
T Consensus 66 ~~~~~~~~lN~~LP~dI~v~~~~~v~~~F~ar~~a~~r~Y~Y~i~~~~---------------ld~~~m~~a~~~~~G~H 130 (221)
T cd02866 66 EKELTPPAINNALPKDIRVWAWAKVPEDFHPRRDARRRYYRYYLGAED---------------YDVEAMAEAAKKLIGTH 130 (221)
T ss_pred CcHHHHHHHHhhCCCCEEEEEEEEeCCCCCCCccCCeEEEEEEECCCc---------------CCHHHHHHHHHHhcCCc
Confidence 877789999999999999999999999999999999999999998642 46999999999999999
Q ss_pred ccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHhcCC-C
Q psy12402 163 NFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD-Q 241 (375)
Q Consensus 163 dF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~~~l~~~-~ 241 (375)
||+|||+.+. .+++|+|.++++.+ +.+++.|+|+|+|||+||||+|||+|++||+|+++++.|+.+|+.. +
T Consensus 131 DF~~F~~~~~---~~~~R~I~~~~~~~-----~~~~~~~~i~g~~FL~~mVR~mvg~ll~vg~g~~~~~~i~~~l~~~~~ 202 (221)
T cd02866 131 DFSNFSKRDG---RDPVRTIERIEIRE-----NGEFLVIDVVGESFLWNMVRRIVGALSLVGKGKRENEWVDKLLDGEFR 202 (221)
T ss_pred CHHHhhCCCC---CCCcEEEEEEEEEE-----cCCEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCCCc
Confidence 9999997543 37899999999864 3479999999999999999999999999999999999999999864 4
Q ss_pred C-CCCCCCCCCeeeeeeec
Q psy12402 242 F-DLPMAPGLGLLLEQVHY 259 (375)
Q Consensus 242 ~-~~p~AP~~GL~L~~v~Y 259 (375)
. ..|+|||+||+|++|.|
T Consensus 203 ~~~~~~APa~GL~L~~v~Y 221 (221)
T cd02866 203 KKDGVPAPPEGLILVDVKY 221 (221)
T ss_pred ccCCCCCCCCCcEEEEeeC
Confidence 3 45599999999999987
No 11
>PRK14589 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=3.4e-67 Score=502.48 Aligned_cols=223 Identities=28% Similarity=0.438 Sum_probs=202.3
Q ss_pred CEEEEEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEE
Q psy12402 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSL 80 (375)
Q Consensus 1 val~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~ 80 (375)
++|.|+|+||+|+||| +||+.+|||++|++||.+++.+.. .+++.|.+||||||||||++||+||
T Consensus 3 ~~l~i~YdGt~y~G~Q----------~Q~~~~TVq~~Le~aL~~~~~~~~-----~~~~~i~~agRTDaGVHA~gqv~~f 67 (265)
T PRK14589 3 LAFRISYIGTRFFGSQ----------YQPDQRTVEGEFIAACRRLGLFSD-----WREAGFALAGRTDRGVHARGQVLAF 67 (265)
T ss_pred EEEEEEEcCCCeeeee----------eCCCCCCHHHHHHHHHHHhhCccC-----CceeeEEEeccCCcCccccccEEEE
Confidence 5899999999999999 899999999999999999987642 3579999999999999999999999
Q ss_pred EcCc-hHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCChhhHHHHHHHHhhcc
Q psy12402 81 KLPE-EANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYE 159 (375)
Q Consensus 81 ~l~~-~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~~~~l~~~~~al~~f~ 159 (375)
+++. +.++..||++||+||+|+++.+|+++||||++|.+|+|+|+|+.. +.|+++|++|++.|+
T Consensus 68 ~~~~~~~~~~~lN~~LP~dI~V~~~~~v~~~FhAR~~a~~R~Y~Y~i~~~---------------~lD~~~m~~a~~~f~ 132 (265)
T PRK14589 68 STHKPERAVEALNGQLPPDIWCTGWAEVPESFHPRYDAISRTYRYYFSRP---------------PSDINAMRDAAGEFI 132 (265)
T ss_pred EeCChHHHHHHHHhhCCCCeEEEEEEEcCCCCCcccCCceeEEEEEEecC---------------ccHHHHHHHHHHHcc
Confidence 9853 567899999999999999999999999999999999999999642 247999999999999
Q ss_pred CccccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHhcC
Q psy12402 160 GTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGL 239 (375)
Q Consensus 160 GtHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~~~l~~ 239 (375)
|+|||+|||+.+ .++++|+|.++++.. ..+++.|+|+|+||||||||+|||+|+.||+|+++++.|+.+|+.
T Consensus 133 G~HDF~~F~~~~---~~~~vRtI~~i~v~~-----~~~~~~~~i~G~~FL~~mVR~mVG~ll~vg~G~~~~~~i~~~L~~ 204 (265)
T PRK14589 133 GTHDFSCFARVE---GKSPVRTILRIRVFS-----DGGFPVFEVTAQSFLWHMVRCMAGALLQIGEGEMEPDDIERLLSG 204 (265)
T ss_pred CCccHHHHhccC---CCCCeEEEEEEEEEE-----eCCEEEEEEEechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhC
Confidence 999999999654 568899999999864 246899999999999999999999999999999999999999986
Q ss_pred C-CCCCCCCCCCCeeeeeeeccc
Q psy12402 240 D-QFDLPMAPGLGLLLEQVHYDL 261 (375)
Q Consensus 240 ~-~~~~p~AP~~GL~L~~v~Y~~ 261 (375)
. +..+|+|||+||+|++|.|+.
T Consensus 205 ~~r~~~~~APa~GL~L~~V~Y~~ 227 (265)
T PRK14589 205 PCKRKVKPAPAEGLVLWDVDCGL 227 (265)
T ss_pred cCCCCCCccCCCCcEEeeeecCC
Confidence 3 456899999999999999973
No 12
>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=6.5e-67 Score=491.17 Aligned_cols=219 Identities=30% Similarity=0.506 Sum_probs=197.4
Q ss_pred CEEEEEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEE
Q psy12402 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSL 80 (375)
Q Consensus 1 val~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~ 80 (375)
++|.|+|+||+|+||| +||+.+|||++||+||.+.+. +++.+.+|||||+||||++||+||
T Consensus 3 ~~l~i~YdGt~f~G~Q----------~Q~~~~TVq~~le~aL~~~~~---------~~i~~~~agRTD~GVHA~~qv~~f 63 (227)
T TIGR00071 3 IALKIAYDGSNYHGWQ----------RQPNKRTVQGELEKALEAIGK---------KKITIMSAGRTDKGVHAMGQVISF 63 (227)
T ss_pred EEEEEEEcCCCeeEEe----------ECcCCCCHHHHHHHHHHHHhC---------CCeeEEeeccCcCCccccccEEEE
Confidence 5799999999999999 899999999999999999743 579999999999999999999999
Q ss_pred EcC----chHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCChhhHHHHHHHHh
Q psy12402 81 KLP----EEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLK 156 (375)
Q Consensus 81 ~l~----~~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~~~~l~~~~~al~ 156 (375)
+++ .+.+...||+.||+||+|+++.+|+.+||||++|++|+|+|+||... +.....|+++|++|++
T Consensus 64 ~~~~~~~~~~~~~~lN~~Lp~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~----------~~~~~ld~~~m~~a~~ 133 (227)
T TIGR00071 64 DTPKEIPDNKLNAKLNALLPPDIRVKALAPVNDNFHARFSASKRHYRYILYNHR----------HYYSPLDLEKMRAAAK 133 (227)
T ss_pred EecCCCCHHHHHHHHHccCCCCEEEEEEEeCCCCcCCCCCCCcEEEEEEEccCc----------ccCCCCCHHHHHHHHH
Confidence 984 45688999999999999999999999999999999999999998653 1123468999999999
Q ss_pred hccCccccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHHHH
Q psy12402 157 QYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKT 236 (375)
Q Consensus 157 ~f~GtHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~~~ 236 (375)
+|+|+|||+|||+.+ ...++++|+|.++++.+ +.+++.|+|+|+||||||||+|||+|++||+|+++++.|+.+
T Consensus 134 ~~~G~HDF~~F~~~~-~~~~~~~R~i~~~~v~~-----~~~~~~i~i~g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~~~ 207 (227)
T TIGR00071 134 QLLGKHDFSNFSKAK-SKSRSPIRTISDIKVSE-----SGEYIIFDIIGNSFLWHMVRKIVGALVLVGRGKLPPEWVAKL 207 (227)
T ss_pred HccCcccHHHhcCCC-CCCCCCeEEEEEEEEEE-----cCCEEEEEEEecHHHHHHHHHHHHHHHHHHCCCCCHHHHHHH
Confidence 999999999999654 34678999999999864 347999999999999999999999999999999999999999
Q ss_pred hcCC--CCCCCCCCCCCeee
Q psy12402 237 FGLD--QFDLPMAPGLGLLL 254 (375)
Q Consensus 237 l~~~--~~~~p~AP~~GL~L 254 (375)
|+.+ ....|+|||+||+|
T Consensus 208 L~~~~r~~~~~~APa~GL~L 227 (227)
T TIGR00071 208 LDAKKRNLAPTTAPANGLYL 227 (227)
T ss_pred HhcCCcccCCCCCCCCCCcC
Confidence 9863 35688999999998
No 13
>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=9.3e-67 Score=489.16 Aligned_cols=219 Identities=32% Similarity=0.557 Sum_probs=197.4
Q ss_pred EEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEEEcCc
Q psy12402 5 FAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLKLPE 84 (375)
Q Consensus 5 i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~~l~~ 84 (375)
|+|+||+|+||| +||+.+|||++|++||.+++.+.+ ++++.+.+||||||||||++||+||+++.
T Consensus 1 i~YdGt~f~G~Q----------~Q~~~~TVq~~le~aL~~~~~~~~-----~~~~~i~~agRTD~GVHA~~qv~~~~~~~ 65 (224)
T cd00497 1 IAYDGWKYHGFQ----------RQPDVPTVEGELFKALLKTGLIES-----PKPSNYSRAGRTDKGVSALGQVVSLETRS 65 (224)
T ss_pred CEEcCCceeeEe----------eCcCCCCHHHHHHHHHHHhhCcCC-----CcceeEEEeccccccccccccEEEEEECC
Confidence 689999999999 899999999999999999876432 46899999999999999999999999965
Q ss_pred h--HHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCChhhHHHHHHHHhhccCcc
Q psy12402 85 E--ANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTH 162 (375)
Q Consensus 85 ~--~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~~~~l~~~~~al~~f~GtH 162 (375)
. .+...||+.||+||+|+++.+|+.+||||++|++|+|+|+||.. ..|+++|++|++.|+|+|
T Consensus 66 ~~~~~~~~lN~~Lp~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~---------------~~d~~~m~~a~~~f~G~H 130 (224)
T cd00497 66 KLKPYPDILNGLLPKDIRVLAWAPVPEDFHARFSCVSRTYRYYFPGG---------------DLDIEAMREAAKLLLGTH 130 (224)
T ss_pred CcHHHHHHHHhhCCCCcEEEEEEEeCCCCCCCcccCeEEEEEEECCC---------------CcCHHHHHHHHHHccCcc
Confidence 4 48899999999999999999999999999999999999999875 246999999999999999
Q ss_pred ccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHhcCC-C
Q psy12402 163 NFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD-Q 241 (375)
Q Consensus 163 dF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~~~l~~~-~ 241 (375)
||+|||+.+. ..++++|+|.++++.+ ..+++.|+|+|+||||||||+|||+|++||+|+++++.|+.+|... +
T Consensus 131 DF~~F~~~~~-~~~~~~RtI~~~~v~~-----~~~~~~i~i~g~sFL~~mVR~mvg~ll~vg~g~~~~~~i~~~l~~~~~ 204 (224)
T cd00497 131 DFRNFCKKDG-RKKNPVRTIISAEVEE-----VDDFYVFEVKGKSFLWHQVRRIVAALFLVGQGLEPPSIISRLLDEEKR 204 (224)
T ss_pred cHHHhcCCCC-CCCCCeEEEEEEEEEe-----cCCEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcCCc
Confidence 9999997654 3478999999999975 2368999999999999999999999999999999999999999763 4
Q ss_pred CC--CCCCCCCCeeeeeeec
Q psy12402 242 FD--LPMAPGLGLLLEQVHY 259 (375)
Q Consensus 242 ~~--~p~AP~~GL~L~~v~Y 259 (375)
.. .|+|||+||+|++|.|
T Consensus 205 ~~~~~~~APa~GL~L~~V~Y 224 (224)
T cd00497 205 PSKPQYPAPPEPLVLWDCKY 224 (224)
T ss_pred ccCCCCcCCCCCcEEeeeeC
Confidence 33 3499999999999987
No 14
>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=2.2e-66 Score=495.16 Aligned_cols=227 Identities=30% Similarity=0.482 Sum_probs=198.6
Q ss_pred EEEEEeCCCccccccccccccccccCCC-CCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEEE
Q psy12402 3 MMFAYSGVGYFGLQSKYLFFLIFCRNQG-MKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81 (375)
Q Consensus 3 l~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~-~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~~ 81 (375)
|.|+|+||+|+||| +||+ .+|||++||+||.+++.|.+ .+++.|.+||||||||||++||+||+
T Consensus 1 l~i~YdGt~y~G~Q----------~Q~~~~~TVq~~Le~aL~~~~~i~~-----~~~~~~~~agRTD~GVHA~~qv~~f~ 65 (256)
T cd02569 1 LRFAYLGWNYNGFA----------VQEETTNTVEETLFEALEKTRLIED-----RQTSNYSRCGRTDKGVSAFGQVISLD 65 (256)
T ss_pred CEEEEeCCcceeee----------ECCCCCCCHHHHHHHHHHHhcCCCC-----CCceeEEeecccCccccccCcEEEEE
Confidence 57999999999999 8886 58999999999999987753 26899999999999999999999999
Q ss_pred cC----ch------------------HHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCC
Q psy12402 82 LP----EE------------------ANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKD 139 (375)
Q Consensus 82 l~----~~------------------~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~ 139 (375)
++ .+ .+...||++||+||||+++.+|+++||||++|++|+|+|+|+..
T Consensus 66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~---------- 135 (256)
T cd02569 66 VRSNLKPEDGLDPSTDVKSTADEEELPYCKILNRVLPPDIRILAWAPVPPDFSARFSCVSRTYRYFFPKG---------- 135 (256)
T ss_pred ecCCCCccccccccccccccccchHHHHHHHHHhhCCCCcEEEEEEECCCCcCCCccCCceEEEEEecCC----------
Confidence 83 22 47789999999999999999999999999999999999999864
Q ss_pred ceeCChhhHHHHHHHHhhccCcccccccccccc-CCCCCCcEEEEEEEEecCcc-cCCccEEEEEEEeCcchhhHHHHHH
Q psy12402 140 DFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRK-PLDPSCSRYIMSFDCEQPFV-KDGLELITLKIKGQSFMLHQIRKMV 217 (375)
Q Consensus 140 ~~~~~~~~l~~~~~al~~f~GtHdF~nFt~~~~-~~~~s~~R~I~~~~v~~~~~-~~~~~~v~i~I~G~sFL~hQIRkMV 217 (375)
..|+++|++|+++|+|+|||+|||+... ...++++|+|.+++|.+... ..+.+++.|+|+|+||||||||+||
T Consensus 136 -----~ldi~~m~~a~~~f~G~HDF~~F~~~~~~~~~~~~~RtI~~~~v~~~~~~~~~~~~~~~~i~g~~FL~~mVR~mv 210 (256)
T cd02569 136 -----DLDIELMRKAAKLLLGEHDFRNFCKMDVANQVTNYVRRVLSAEVEPVDQHPDGDGLYYFEVRGSAFLWHQVRCMM 210 (256)
T ss_pred -----CCCHHHHHHHHHHhhCCcchHHHhccCcccCCCCCceEEEEEEEEEccCCCCCCcEEEEEEEEcHHHHHHHHHHH
Confidence 2469999999999999999999996542 23578899999999975210 0123789999999999999999999
Q ss_pred HHHHHHHcCCCCHHHHHHHhcCC-C-CCCC--CCCCCCeeeeeeec
Q psy12402 218 GVAMAIARGFTSKDLIEKTFGLD-Q-FDLP--MAPGLGLLLEQVHY 259 (375)
Q Consensus 218 g~li~v~rG~~~~~~i~~~l~~~-~-~~~p--~AP~~GL~L~~v~Y 259 (375)
|+|++||+|+++++.|+.+|+.+ + ...+ +|||+||+|++|.|
T Consensus 211 g~ll~vg~G~~~~~~i~~~L~~~~r~~~~~~~~Ap~~GL~L~~v~~ 256 (256)
T cd02569 211 AVLFLIGQGLEPPSVISQLLDVEKNPRKPQYTMASEVPLVLYDCGF 256 (256)
T ss_pred HHHHHHhCCCCCHHHHHHHHhCccccCCCCcCcCCCCCcEEEEeeC
Confidence 99999999999999999999864 2 3445 89999999999987
No 15
>PRK14587 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=2e-62 Score=466.79 Aligned_cols=210 Identities=25% Similarity=0.418 Sum_probs=185.2
Q ss_pred CEEEEEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEE
Q psy12402 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSL 80 (375)
Q Consensus 1 val~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~ 80 (375)
++|.|+||||+|+||| +||+ |||++|++||.+. . .+|||||+||||++||++|
T Consensus 3 ~~l~i~YdGt~f~G~Q----------~Q~~--TVq~~Le~aL~~i---~------------~~agRTDaGVHA~~qv~~~ 55 (256)
T PRK14587 3 YLYRIAYDGTLFYGFT----------GHPN--SLEPALRRVFGEI---L------------GRGSRTDPGVSAVGNVVMT 55 (256)
T ss_pred EEEEEEECCCccccee----------cCcc--hHHHHHHHHHHHh---c------------cCccCCccCCCcccCEEEE
Confidence 4789999999999999 8887 9999999999874 1 2399999999999999998
Q ss_pred EcCchHHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCCceeCChhhHHHHHHHHhhccC
Q psy12402 81 KLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEG 160 (375)
Q Consensus 81 ~l~~~~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~~~~l~~~~~al~~f~G 160 (375)
..+ .....||+.||+||+|+++.+|+.+||||+ |++|+|+|+||.. ..|+++|++|++.|+|
T Consensus 56 ~~~--~~~~~LN~~LP~dI~V~~~~~V~~~FhaR~-a~~R~Y~Y~i~~~---------------~lDi~~m~~aa~~l~G 117 (256)
T PRK14587 56 SQK--LPLGYVNSKLPRGVWAWAVAEVPEGFNPRR-AKRRRYLYVAPHW---------------GEDVEAMREAAELLAG 117 (256)
T ss_pred CCc--CCHHHHHhcCCCCeEEEEEEECCCCcCcCc-ccceEEEEEEccC---------------cchHHHHHHHHHHhcC
Confidence 432 237899999999999999999999999997 9999999999632 2479999999999999
Q ss_pred ccccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHhcCC
Q psy12402 161 THNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD 240 (375)
Q Consensus 161 tHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i~~~l~~~ 240 (375)
+|||+|||+.+.....+++|+|.++++.. ..+++.|+|+|+||||||||+|||+|++||+|+++++.|..+|+..
T Consensus 118 ~HDF~~F~~~~~~~~~~~vRtI~~i~v~~-----~~~~i~i~i~g~sFL~~mVR~mVG~Ll~Vg~G~~~~~~i~~~L~~~ 192 (256)
T PRK14587 118 THDYSSFIQRRGEKATPTVTTVYEIGVEL-----RGDLIYLYFVGRGFRNKMIRKMAWAILAAGRGVLSRRDIAELLERP 192 (256)
T ss_pred CcChHHhccCCCCCCCCCEEEEEEEEEEE-----eCCEEEEEEEechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcC
Confidence 99999999765433323899999999863 2368999999999999999999999999999999999999999864
Q ss_pred -CCCCCCCCCCCeeeeeeecc
Q psy12402 241 -QFDLPMAPGLGLLLEQVHYD 260 (375)
Q Consensus 241 -~~~~p~AP~~GL~L~~v~Y~ 260 (375)
....|+|||+||+|++|.|+
T Consensus 193 r~~~~~~APa~GL~L~~V~Y~ 213 (256)
T PRK14587 193 RPGAVPSAPAEGLVLLDIEYD 213 (256)
T ss_pred cccCCCCCCCCCCEEeeeccC
Confidence 35789999999999999996
No 16
>KOG2554|consensus
Probab=100.00 E-value=5.6e-55 Score=420.26 Aligned_cols=234 Identities=29% Similarity=0.467 Sum_probs=203.1
Q ss_pred CEEEEEEeCCCccccccccccccccccC--CCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEE
Q psy12402 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRN--QGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIV 78 (375)
Q Consensus 1 val~i~Y~Gt~Y~G~Q~q~~~~~~~~~q--p~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvv 78 (375)
|||.|+|+||+|.|+. .| .+.+||||.|+.||.+..+|. ++++..++|||||||||||.|||+
T Consensus 68 IAlkiaY~GW~Y~Gla----------~Qe~T~~~TIEg~l~eAL~kt~Lie-----s~~~~~ysRCGRTDKGVSAfgQvi 132 (425)
T KOG2554|consen 68 IALKIAYLGWNYQGLA----------PQEHTNNPTIEGKLFEALKKTRLIE-----SRQTCNYSRCGRTDKGVSAFGQVI 132 (425)
T ss_pred EEEEEEEeccccCcee----------cCCCCCCcchHHHHHHHHHhhhccc-----CcccccccccCCcccchhhhhhee
Confidence 6999999999999999 45 456799999999999999986 358899999999999999999999
Q ss_pred EEEc----Cc--h-------------HHHHHHHhcCCCCeEEEeEEecCCCCcccccCCceEEEEEccCCCCCCCCCCCC
Q psy12402 79 SLKL----PE--E-------------ANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKD 139 (375)
Q Consensus 79 s~~l----~~--~-------------~~~~~LN~~LP~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~ 139 (375)
|+.+ |. . ..+..||++||+||||.+|.+||..|+|||+|..|+|+|+||...
T Consensus 133 Sl~lRS~~p~~~s~~~~~~~a~~~Ei~Y~~mLN~vLP~dIRi~awapvp~~FsARFsC~~RtYrY~F~k~d--------- 203 (425)
T KOG2554|consen 133 SLVLRSRIPMPDSQRDAVATADSEEIPYVHMLNRVLPPDIRIVAWAPVPPTFSARFSCVQRTYRYYFPKKD--------- 203 (425)
T ss_pred eeeeeccCCCchhhhccccccccccccHHHHHhccCCCcceEEEEecCCCCccceeehhhceeeEeccCCC---------
Confidence 9987 21 1 257899999999999999999999999999999999999998653
Q ss_pred ceeCChhhHHHHHHHHhhccCccccccccccccCCC-CCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHH
Q psy12402 140 DFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLD-PSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVG 218 (375)
Q Consensus 140 ~~~~~~~~l~~~~~al~~f~GtHdF~nFt~~~~~~~-~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg 218 (375)
+||++|++|+++|+|+|||+|||+-...+. .+..|+|.+.+|...- +-.+++.|.|+|++|||||||+||+
T Consensus 204 ------LdI~~M~kAA~l~vGe~DFrNFCK~D~~n~vtny~Rti~s~kV~~~~--~~~~my~ldi~g~AFLwHqVRcima 275 (425)
T KOG2554|consen 204 ------LDIDRMSKAASLLVGEHDFRNFCKIDVSNGVTNYERTILSAKVEDVG--QTPGMYYLDIQGSAFLWHQVRCIMA 275 (425)
T ss_pred ------cCHHHHHHHHHHHhcchhhhhhhhhcchhhhHHHHhhhheeeEEEcC--CCCceEEEEeechhhHHHHHHHHHH
Confidence 479999999999999999999998765443 5688999999987521 2234899999999999999999999
Q ss_pred HHHHHHcCCCCHHHHHHHhcCC----CCCCCCCCCCCeeeeeeecccccccc
Q psy12402 219 VAMAIARGFTSKDLIEKTFGLD----QFDLPMAPGLGLLLEQVHYDLYNQKY 266 (375)
Q Consensus 219 ~li~v~rG~~~~~~i~~~l~~~----~~~~p~AP~~GL~L~~v~Y~~yn~k~ 266 (375)
+|..||+|..+++.|.++|+-+ +....+|-..+|+|.+|.|...|..|
T Consensus 276 iL~liGq~~E~p~lI~dLldIek~P~kPqY~mA~~~PL~LydC~f~~e~~ew 327 (425)
T KOG2554|consen 276 ILFLIGQGLEQPSLISDLLDIEKNPQKPQYTMASDYPLELYDCDFHRENVEW 327 (425)
T ss_pred HHHHhccccCCchHHHHHHhcccCCCCceeeeccCCceEEEecCCCCccccc
Confidence 9999999999999999999754 34456899999999999996544433
No 17
>KOG4393|consensus
Probab=100.00 E-value=9.6e-43 Score=324.13 Aligned_cols=243 Identities=20% Similarity=0.266 Sum_probs=202.9
Q ss_pred EEEEEEeCCCccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEEE
Q psy12402 2 AMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81 (375)
Q Consensus 2 al~i~Y~Gt~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~~ 81 (375)
.++|+||||.|.|||.+ .-+-..|||+-|++|..+. ++ ++.+++..+||||+||||++|++++.
T Consensus 8 ll~i~ydgT~f~e~a~~--------~s~~~~tIq~~leea~eeq---t~-----l~~l~l~~ssrtDa~Vha~~naa~~~ 71 (295)
T KOG4393|consen 8 LLKIPYDGTAFEESAER--------LSKVARTIQGFLEEASEEQ---TG-----LDRLDLESSSRTDAGVHAYLNAAHYI 71 (295)
T ss_pred EEEecccccccHHHHhc--------cCCcceehhhhhhhhHHhh---cC-----CcceeecccCCCchhhheeeeeEEEE
Confidence 58999999999999943 2222349999999999985 32 36799999999999999999999999
Q ss_pred cCc------hHHHHHHHhcC-C--CCeEEEeEEecCCCCcccccCCceEEEEEccC-CCCCCCCCCCCceeCC-hhhHHH
Q psy12402 82 LPE------EANKEAINEHL-P--EQIRILSIKRVTKGFNSKNNCNARTYSYTCPT-YAFATPQDTKDDFRLT-PDQFNF 150 (375)
Q Consensus 82 l~~------~~~~~~LN~~L-P--~dIrV~~i~~V~~~F~aR~~c~~R~Y~Y~lp~-~~~~~~~~~~~~~~~~-~~~l~~ 150 (375)
+|- ...-.++|..| + .||+|.++..||.+||||+++.+|+|.|+|.+ ....++++++.+|+++ .+++.+
T Consensus 72 vpr~sg~~~~~~~~a~nt~l~~k~gdirV~dv~~Vps~FhaR~sassRtY~YRla~g~d~l~~fERd~cW~lp~~lna~k 151 (295)
T KOG4393|consen 72 VPRFSGSQQQAKDRAVNTVLQRKDGDIRVIDVRCVPSNFHARYSASSRTYFYRLASGSDPLSIFERDRCWHLPEELNARK 151 (295)
T ss_pred eecccCCcHHHHHHHHhccccCCCCceEEEEeeecCcchhheecccceeEEEEeecCCCccChhhhcccccCCcccCHHH
Confidence 863 24556778776 4 49999999999999999999999999999988 4455667778899987 568999
Q ss_pred HHHHHhhccCccccccccccccCCCCCCcEEEEEEEEe---cCc--------ccCCccEEEEEEEeCcchhhHHHHHHHH
Q psy12402 151 LQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCE---QPF--------VKDGLELITLKIKGQSFMLHQIRKMVGV 219 (375)
Q Consensus 151 ~~~al~~f~GtHdF~nFt~~~~~~~~s~~R~I~~~~v~---~~~--------~~~~~~~v~i~I~G~sFL~hQIRkMVg~ 219 (375)
|++|+++|+|+|||.+|++.. ..-+...+++..+.+. .+. ...-.++..+++.++||++.|||+|++.
T Consensus 152 mqeaa~lf~G~hdfsaf~~at-s~~y~P~~t~rr~sv~~~g~~~a~~~~~~~e~~~~~~~nve~e~~gflyrQvRrm~a~ 230 (295)
T KOG4393|consen 152 MQEAAPLFEGSHDFSAFTEAT-STVYFPSITERRLSVLNNGDPLACSNQPETEGVTTNVGNVEGETEGFLYRQVRRMRAY 230 (295)
T ss_pred HHhhhhhhccchhhhhhhcCC-CCCCCCcccceeeeecccCCccccccCCccccceeeeEEEEEEecchHHHHHHhhhee
Confidence 999999999999999999765 3445666666666653 211 1223468999999999999999999999
Q ss_pred HHHHHcCCCCHHHHHHHhcCC------CCCCCCCCCCCeeeeeeeccc
Q psy12402 220 AMAIARGFTSKDLIEKTFGLD------QFDLPMAPGLGLLLEQVHYDL 261 (375)
Q Consensus 220 li~v~rG~~~~~~i~~~l~~~------~~~~p~AP~~GL~L~~v~Y~~ 261 (375)
||.++.+.++...++.+|+.+ +..++.|||+||+|..|.|++
T Consensus 231 LV~~g~~al~~~qv~~iLe~~~~~~l~k~~~~vapphglfL~sv~Y~n 278 (295)
T KOG4393|consen 231 LVTAGSRALLYHQVLYILEVRDIVGLLKCVGTVAPPHGLFLSSVEYVN 278 (295)
T ss_pred eeeecccccchhhhhhhhhccchhhhhhccCCCCCCccceeeeEEech
Confidence 999999999999999999874 357899999999999999975
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=99.84 E-value=4.2e-23 Score=170.98 Aligned_cols=100 Identities=33% Similarity=0.559 Sum_probs=82.1
Q ss_pred HHhhccCccccccccccccCCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchhhHHHHHHHHHHHHHcCCCCHHHH
Q psy12402 154 LLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLI 233 (375)
Q Consensus 154 al~~f~GtHdF~nFt~~~~~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~hQIRkMVg~li~v~rG~~~~~~i 233 (375)
|++.|+|+|||++|++.+. ..+++.|+|.++.+. ...+++. +|+|+|||+||||+|||+++++++|..+.+.+
T Consensus 1 A~~~~~G~HdF~~f~~~~~-~~~~~~r~i~~~~~~-----~~~~~~~-~i~g~~Fl~~~vR~~vg~~~~~~~G~~~~~~i 73 (105)
T PF01416_consen 1 AAKLYVGTHDFSGFQKQKT-VEKNTIRTIFSIDII-----EEGDVVV-EIHGNSFLRHQVRIMVGTLLRTGRGVHSLEQI 73 (105)
T ss_dssp -CCEETCEEECCGCSSCS--HHHHHCCCEEEEECC-----CCCCEEE-EEEESS--TTHHHHHHCCCCHHHTTSCEEECC
T ss_pred CcceeEecCCCcCCEECCc-ccccHHHHHHHHhhh-----cCCCEEE-EEEecccccccchhhhHHHHHHhcCCCCHHHH
Confidence 5678999999999997643 236789999999984 3456888 99999999999999999999999999999999
Q ss_pred HHHhcCC--CCC---CCCCCCCCeeeeeeecc
Q psy12402 234 EKTFGLD--QFD---LPMAPGLGLLLEQVHYD 260 (375)
Q Consensus 234 ~~~l~~~--~~~---~p~AP~~GL~L~~v~Y~ 260 (375)
..+|+.. ... +.+||+.||+|.+|.||
T Consensus 74 ~~~L~~~~~~~~~~ri~~ap~~gL~L~~v~y~ 105 (105)
T PF01416_consen 74 AELLNSKLRPKAPPRILTAPAVGLYLFHVRYD 105 (105)
T ss_dssp CCCHHHHSCTTS-TEEEEEEECCECCEECCTT
T ss_pred HHHHhccCccccCCCcceeeCCCCCceEeeCc
Confidence 9988753 223 34999999999999996
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=98.15 E-value=1.8e-07 Score=77.15 Aligned_cols=88 Identities=28% Similarity=0.476 Sum_probs=68.5
Q ss_pred EEEeCC-CccccccccccccccccCCCCCCHHHHHHHHHHHccCcccCC----------CCCCcceeeEeeeccCccccc
Q psy12402 5 FAYSGV-GYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDS----------FNTPQNIQFQRAARTDKGVSA 73 (375)
Q Consensus 5 i~Y~Gt-~Y~G~Q~q~~~~~~~~~qp~~~TVE~~Le~AL~~~g~I~~~~----------~~~~~~i~~~rasRTDkGVHA 73 (375)
..|+|+ +|+||| .+ +|++...+.+|..+.++...+ .......-+..++|||+||||
T Consensus 3 ~~~~G~HdF~~f~----------~~---~~~~~~~~r~i~~~~~~~~~~~~~~i~g~~Fl~~~vR~~vg~~~~~~~G~~~ 69 (105)
T PF01416_consen 3 KLYVGTHDFSGFQ----------KQ---KTVEKNTIRTIFSIDIIEEGDVVVEIHGNSFLRHQVRIMVGTLLRTGRGVHS 69 (105)
T ss_dssp CEETCEEECCGCS----------SC---S-HHHHHCCCEEEEECCCCCCEEEEEEESS--TTHHHHHHCCCCHHHTTSCE
T ss_pred ceeEecCCCcCCE----------EC---CcccccHHHHHHHHhhhcCCCEEEEEEecccccccchhhhHHHHHHhcCCCC
Confidence 579999 999999 55 688888888888887654322 011124457889999999999
Q ss_pred cccEEEEEcCchHHHHHHHhcCCC---CeEEEeEEecC-CCCccccc
Q psy12402 74 LKQIVSLKLPEEANKEAINEHLPE---QIRILSIKRVT-KGFNSKNN 116 (375)
Q Consensus 74 ~~qvvs~~l~~~~~~~~LN~~LP~---dIrV~~i~~V~-~~F~aR~~ 116 (375)
..++..+ ||..+++ + ||+.+.+++ --||++++
T Consensus 70 ~~~i~~~----------L~~~~~~~~~~-ri~~ap~~gL~L~~v~y~ 105 (105)
T PF01416_consen 70 LEQIAEL----------LNSKLRPKAPP-RILTAPAVGLYLFHVRYD 105 (105)
T ss_dssp EECCCCC----------HHHHSCTTS-T-EEEEEEECCECCEECCTT
T ss_pred HHHHHHH----------HhccCccccCC-CcceeeCCCCCceEeeCc
Confidence 9999876 8888865 6 999999999 89999874
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=95.56 E-value=0.094 Score=48.27 Aligned_cols=92 Identities=24% Similarity=0.294 Sum_probs=67.1
Q ss_pred CHHHHHHHHHHHccCccc--CCCCCCcceeeEeeeccCccccccccEEEEEc----CchHHHHHHHhcCCCCeEEEeEEe
Q psy12402 33 TIEGDIMEALFKAGFVTE--DSFNTPQNIQFQRAARTDKGVSALKQIVSLKL----PEEANKEAINEHLPEQIRILSIKR 106 (375)
Q Consensus 33 TVE~~Le~AL~~~g~I~~--~~~~~~~~i~~~rasRTDkGVHA~~qvvs~~l----~~~~~~~~LN~~LP~dIrV~~i~~ 106 (375)
-+...++.||.++|+=.. ..|. -..+++.+.=.=-||.+.+-++-+.+ +.+.+.++||+.||++|+|.++..
T Consensus 19 dl~r~~eRa~rRA~lp~a~SqGFn--P~Pkisf~~aLpvGv~S~~E~~di~l~~~~~~~~~~~rLn~~lP~Gl~i~~~~~ 96 (187)
T PF10105_consen 19 DLMRVFERALRRAGLPVAYSQGFN--PHPKISFAPALPVGVESLAEYMDIELEEDIDPEEVLERLNAVLPEGLRILEAEE 96 (187)
T ss_pred HHHHHHHHHhhhcCCCeeecCCCC--CCcceeecccccCceeeccEEEEEEEecCCCHHHHHHHHHHhCCCCCEEEEEEE
Confidence 456789999999985321 2333 35567777778889999999999987 456789999999999999999999
Q ss_pred cCCCCcccccCCceEEEEEcc
Q psy12402 107 VTKGFNSKNNCNARTYSYTCP 127 (375)
Q Consensus 107 V~~~F~aR~~c~~R~Y~Y~lp 127 (375)
+|....+= ...-..+.|.+.
T Consensus 97 i~~~~~sl-~~~i~~~~Y~i~ 116 (187)
T PF10105_consen 97 IPPKAPSL-MALINAAEYRIT 116 (187)
T ss_pred ccCCCcch-hhhcceEEEEEE
Confidence 98433222 222344566653
No 21
>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=92.20 E-value=0.84 Score=36.23 Aligned_cols=21 Identities=33% Similarity=0.317 Sum_probs=18.8
Q ss_pred ceeeEeeeccCccccccccEEE
Q psy12402 58 NIQFQRAARTDKGVSALKQIVS 79 (375)
Q Consensus 58 ~i~~~rasRTDkGVHA~~qvvs 79 (375)
.-++..|||.|+..+.. |+++
T Consensus 23 ~~~i~~aG~kDk~a~t~-q~v~ 43 (87)
T cd01291 23 PKRVGYAGRKDKRAVTT-QLVS 43 (87)
T ss_pred hheEEECccCCCCeeEE-EEEc
Confidence 45789999999999999 9888
No 22
>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=85.69 E-value=15 Score=37.77 Aligned_cols=153 Identities=22% Similarity=0.241 Sum_probs=94.6
Q ss_pred CCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCcccccccc--EEEEEc--C------chHHHHHHHhcCCCCeE
Q psy12402 31 MKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQ--IVSLKL--P------EEANKEAINEHLPEQIR 100 (375)
Q Consensus 31 ~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~q--vvs~~l--~------~~~~~~~LN~~LP~dIr 100 (375)
..+||+.|...+.++ .. .....|..|||-|.=|=-+|+ -+-+.+ | ...+.+.||+.....|.
T Consensus 184 ~~SVeelI~~~v~~~--~~------~~~~~Fh~aGREDvDvRMLG~GRPFvlEi~~P~rr~~dl~~le~~IN~~~~g~V~ 255 (388)
T TIGR01213 184 PESVEELIASPFLKA--TG------GTDAYFHGAGREDVDVRMLGTGRPFVLEVKEPRYRKIDLDPLEEEINTSGKGKVE 255 (388)
T ss_pred CchHHHHHHHHHHHH--hC------CceeEEeccCccccceeeccCCCceEEEecCCccCCCCHHHHHHHHhhccCCCEE
Confidence 569999998888775 22 246899999999999999875 233333 2 23577899998888999
Q ss_pred EEeEEecCCCCcc--cccCCceEEEEEccCCCCCCCCCCCCceeCChhhHHHHHHHHhhccCccccccccccc---cCCC
Q psy12402 101 ILSIKRVTKGFNS--KNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKR---KPLD 175 (375)
Q Consensus 101 V~~i~~V~~~F~a--R~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~~~~l~~~~~al~~f~GtHdF~nFt~~~---~~~~ 175 (375)
|.+..-+++.=-. +..-..|+|.=++.... +.+-+.++++++.|.|.. -+-.|..+ .-.+
T Consensus 256 v~~L~~~~~~~v~~ik~~~~~K~Y~alV~~~~--------------~v~~e~L~~~~~~l~g~~-I~QrTP~RV~hRRa~ 320 (388)
T TIGR01213 256 VEGLKFATREEVEEVKEEKHRKVYRALVEVDG--------------PVSDEDLEELCKELEGAT-IYQRTPLRVLHRRAD 320 (388)
T ss_pred EEEeEEEcHHHHHHHhccCCceEEEEEEEECC--------------CCCHHHHHHHHHhccCCE-EEccCCceEEEecCC
Confidence 9998866531111 11122588887765431 122355777777777721 11112111 1112
Q ss_pred CCCcEEEEEEEEecCcccCCccEEEEEEEeCcchh
Q psy12402 176 PSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFML 210 (375)
Q Consensus 176 ~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~ 210 (375)
..-.|+|+++++.. .++ .++.+.|.+++=+|
T Consensus 321 ~~R~R~I~~i~~~~---i~~-~~~~l~v~~qaGtY 351 (388)
T TIGR01213 321 LVRERRVYQVDLSG---LDG-NHAELIIEAEGGLY 351 (388)
T ss_pred CceEEEEEEEEEEE---EcC-CEEEEEEEecCCCE
Confidence 23368999998864 222 46678888776444
No 23
>PRK14554 putative pseudouridylate synthase; Provisional
Probab=66.80 E-value=1.1e+02 Score=31.79 Aligned_cols=150 Identities=19% Similarity=0.221 Sum_probs=87.1
Q ss_pred CCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCcccccccc----EEEEEcCc------hHHHHHHHhcCCCCeEE
Q psy12402 32 KTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQ----IVSLKLPE------EANKEAINEHLPEQIRI 101 (375)
Q Consensus 32 ~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~q----vvs~~l~~------~~~~~~LN~~LP~dIrV 101 (375)
.+||+.|...+... .. .....|..|||-|.=|=-+|. |+-++-|. +.+. +|..-...|.|
T Consensus 220 ~SVeelI~~~i~~~--f~------~~~~~fh~aGREDvDVRmLG~GRPFViEi~~p~r~~~~~~~l~--~~~~~~g~V~v 289 (422)
T PRK14554 220 ESVEELIAKPVIEA--FG------GEDAVFHGAGREDVDARMLGTGRPFVIEVKEPRKRKVDLEALE--EEINADGKVEV 289 (422)
T ss_pred CCHHHHHHHHHHHH--hC------CCceEEecCCCCCcceEecCCCCceEEEecCcccccCCHHHHH--HhhccCCCEEE
Confidence 69999999887764 12 257899999999999999988 44443231 1222 44444678999
Q ss_pred EeEEecCCCCcccc--cCCceEEEEEccCCCCCCCCCCCCceeCChhhHHHHHHHHhhccCccccccccccc---cCCCC
Q psy12402 102 LSIKRVTKGFNSKN--NCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKR---KPLDP 176 (375)
Q Consensus 102 ~~i~~V~~~F~aR~--~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~~~~l~~~~~al~~f~GtHdF~nFt~~~---~~~~~ 176 (375)
.+...|++.--.+. ....|+|+=.+.... .++ -+.+.+++..|.|.-=. --|..+ .-.+.
T Consensus 290 ~~l~~~~~~~~~~ik~~~~~K~YralV~~~~-----------~v~---~e~l~~~~~~l~~~~I~-QrTP~RV~hRR~~~ 354 (422)
T PRK14554 290 ENLRFATRKEVERIKEEKASKTYRALVESDE-----------PVS---EEELEKLLDELSGATIE-QRTPRRVKHRRADL 354 (422)
T ss_pred EEEEEEcHHHHHHHhcCCCceEEEEEEEECC-----------CCC---HHHHHHHHHhccCcEee-ccCcHhhhhhcccc
Confidence 99997764322211 112388876664431 122 34566776666654111 011100 01122
Q ss_pred CCcEEEEEEEEecCcccCCccEEEEEEEeCcchh
Q psy12402 177 SCSRYIMSFDCEQPFVKDGLELITLKIKGQSFML 210 (375)
Q Consensus 177 s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~ 210 (375)
.-.|+|+++++.. .+ .....+.|.+++=+|
T Consensus 355 ~R~R~I~~i~~~~---i~-~~~~~l~i~~eaGtY 384 (422)
T PRK14554 355 VRVRKVYDISGEL---ID-DKHFELRIKCEGGLY 384 (422)
T ss_pred ceeeEEEEEEEEE---Ec-CcEEEEEEEEecCCE
Confidence 3468999988764 22 245666777665433
No 24
>COG5011 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=66.49 E-value=16 Score=34.20 Aligned_cols=91 Identities=19% Similarity=0.241 Sum_probs=62.3
Q ss_pred HHHHHHHHHccCcccCCCCCCcceeeEeeeccCccccccccEEEEEc----CchHHHHHHHhcCCCCeEEEeEEecCC-C
Q psy12402 36 GDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLKL----PEEANKEAINEHLPEQIRILSIKRVTK-G 110 (375)
Q Consensus 36 ~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~qvvs~~l----~~~~~~~~LN~~LP~dIrV~~i~~V~~-~ 110 (375)
..++.++.++|+--.-..+-.-+.+++.|.=---|+..-|-++-|.+ .++.+++.||+.||.|+.+.++..+.+ +
T Consensus 23 RlidR~iRRAglpiayT~GFhP~prmsia~alpvG~~ssge~fd~eL~e~v~~dk~~etl~~~lp~Dl~~~~v~~iD~ks 102 (228)
T COG5011 23 RLIDRTIRRAGLPIAYTGGFHPHPRMSIAQALPVGIYSSGEIFDFELTEEVSEDKFKETLNKALPNDLPAYDVEKIDKKS 102 (228)
T ss_pred HHHHHHHHhcCCceeecCCCCCCCceeeccccccccccCceEEEEEeeeecCcHHHHHHHHHhCCCCcchhheeeecCCC
Confidence 45677888887532111111235677788888889999999998887 457899999999999999999998865 3
Q ss_pred CcccccCCceEEEEEc
Q psy12402 111 FNSKNNCNARTYSYTC 126 (375)
Q Consensus 111 F~aR~~c~~R~Y~Y~l 126 (375)
-++----..-+|...+
T Consensus 103 ps~nqvl~~arY~i~v 118 (228)
T COG5011 103 PSSNQVLEAARYFIKV 118 (228)
T ss_pred ccHHHHHHhhcEEEEE
Confidence 3332222333455544
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=38.50 E-value=33 Score=27.61 Aligned_cols=29 Identities=17% Similarity=0.464 Sum_probs=24.1
Q ss_pred CCccEEEEEEEeCcchhhHHHHHHHHHHH
Q psy12402 194 DGLELITLKIKGQSFMLHQIRKMVGVAMA 222 (375)
Q Consensus 194 ~~~~~v~i~I~G~sFL~hQIRkMVg~li~ 222 (375)
+..+-|.+.+.|.-||.+||+.|++.|-.
T Consensus 22 ~kIqGItfslDg~efl~eri~~L~~~L~k 50 (86)
T PF09153_consen 22 EKIQGITFSLDGEEFLRERISRLIEFLKK 50 (86)
T ss_dssp SSEEEEEEESSHHHHHH-HHHHHHHHHHH
T ss_pred CceeeEEEEeccHHHHHHHHHHHHHHHHh
Confidence 45677999999999999999999999843
No 26
>COG1258 Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=20.01 E-value=9.8e+02 Score=24.74 Aligned_cols=149 Identities=17% Similarity=0.194 Sum_probs=94.7
Q ss_pred CCCHHHHHHHHHHHccCcccCCCCCCcceeeEeeeccCcccccccc----EEEEEcC------chHHHHHHHhcCCCCeE
Q psy12402 31 MKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQ----IVSLKLP------EEANKEAINEHLPEQIR 100 (375)
Q Consensus 31 ~~TVE~~Le~AL~~~g~I~~~~~~~~~~i~~~rasRTDkGVHA~~q----vvs~~l~------~~~~~~~LN~~LP~dIr 100 (375)
..|||..|-..+.++ .. ..+..|.+|||-|--|--+|+ |+-++-| .+.+...||... .+.
T Consensus 190 ~~sve~~i~~~~~~~--f~------g~~~~fhgAGREDvDvRMLG~GRPfVlEvk~Pr~R~~dl~~l~~~in~~~--~ve 259 (398)
T COG1258 190 PESVEELIKQPIKEA--FG------GLDAKFHGAGREDVDVRMLGTGRPFVLEVKEPRRRNVDLDELEEEINRGG--KVE 259 (398)
T ss_pred cccHHHHHHHHHHHh--cc------CceeEEEccCCCccceeeecCCCceEEEecCcccccCChHHHHHHhccCC--cEE
Confidence 468888888866554 11 256889999999999998885 5555444 256788999988 899
Q ss_pred EEeEEecCCC-----C-cccccCCceEEEEEccCCCCCCCCCCCCceeCChhhHHHHHHHHhhccCcc-ccccccccc-c
Q psy12402 101 ILSIKRVTKG-----F-NSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTH-NFHNFTSKR-K 172 (375)
Q Consensus 101 V~~i~~V~~~-----F-~aR~~c~~R~Y~Y~lp~~~~~~~~~~~~~~~~~~~~l~~~~~al~~f~GtH-dF~nFt~~~-~ 172 (375)
|+++.-+.+. + ..| ..|+|+=++-... +...+++.+++..+.|.- .=..+..-. .
T Consensus 260 v~~l~f~~~e~v~~ik~~~~---~rK~YrAlV~~~~--------------~v~~e~l~~~~~~L~g~~I~QrTP~RV~hr 322 (398)
T COG1258 260 VFDLEFVGREEVEEIKETER---HRKVYRALVYSDR--------------PVSDEKLEEVLGSLEGKTIRQRTPRRVLHR 322 (398)
T ss_pred EEEEEecCHHHHHHHHhccc---cceeEEEEEEECC--------------CcCHHHHHHHHhhccCcEEeecChHHHhhh
Confidence 9999877532 1 333 3677777664321 234577888888888842 212221100 0
Q ss_pred CCCCCCcEEEEEEEEecCcccCCccEEEEEEEeCcchh
Q psy12402 173 PLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFML 210 (375)
Q Consensus 173 ~~~~s~~R~I~~~~v~~~~~~~~~~~v~i~I~G~sFL~ 210 (375)
..+.--.|.|+++++... +.....+.|.+++=||
T Consensus 323 RadlvR~R~V~~l~~~~~----~~~~~~~~i~~egGlY 356 (398)
T COG1258 323 RADLVRIRRVYELSLDLI----DDRHAELEIEAEGGLY 356 (398)
T ss_pred hcccceEEEEEEeeeeec----cCceEEEEEEecccce
Confidence 112334688888887642 3356677777765443
Done!