Query 008711
Match_columns 557
No_of_seqs 194 out of 378
Neff 5.0
Searched_HMMs 46136
Date Thu Mar 28 15:37:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008711.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008711hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01213 conserved hypothetic 100.0 4E-100 9E-105 797.8 36.4 381 49-551 2-387 (388)
2 PRK14554 putative pseudouridyl 100.0 3.8E-99 8E-104 799.9 37.2 392 44-552 3-421 (422)
3 KOG2364 Predicted pseudouridyl 100.0 2.3E-95 5E-100 743.8 11.0 394 99-552 28-426 (433)
4 COG1258 Predicted pseudouridyl 100.0 1.3E-91 2.9E-96 722.7 30.7 385 45-552 4-393 (398)
5 cd02572 PseudoU_synth_hDyskeri 99.5 6.3E-13 1.4E-17 128.7 13.6 154 385-549 4-163 (182)
6 TIGR00425 CBF5 rRNA pseudourid 99.2 2.7E-10 5.9E-15 119.2 13.0 146 385-549 36-193 (322)
7 PRK04270 H/ACA RNA-protein com 99.1 3.9E-10 8.5E-15 117.0 12.9 152 385-549 24-181 (300)
8 COG0130 TruB Pseudouridine syn 98.9 1E-08 2.2E-13 105.0 10.0 153 385-548 17-176 (271)
9 cd00506 PseudoU_synth_TruB_lik 98.7 1.2E-07 2.5E-12 94.2 12.9 148 387-549 4-196 (210)
10 PRK00020 truB tRNA pseudouridi 98.4 5.3E-06 1.2E-10 84.1 14.0 148 385-549 12-206 (244)
11 PRK02755 truB tRNA pseudouridi 98.4 1.2E-06 2.6E-11 91.0 9.1 149 385-549 5-199 (295)
12 PRK04099 truB tRNA pseudouridi 98.3 6.9E-06 1.5E-10 84.5 13.9 147 386-549 5-195 (273)
13 PRK05033 truB tRNA pseudouridi 98.3 5.4E-06 1.2E-10 86.8 12.8 148 385-549 12-203 (312)
14 KOG2364 Predicted pseudouridyl 98.3 1.6E-08 3.5E-13 105.9 -6.2 121 416-543 294-414 (433)
15 PRK05389 truB tRNA pseudouridi 98.3 6.6E-06 1.4E-10 85.9 12.9 149 385-549 15-207 (305)
16 cd02573 PseudoU_synth_EcTruB P 98.3 1.1E-05 2.5E-10 83.2 14.3 154 387-549 4-196 (277)
17 PRK00130 truB tRNA pseudouridi 98.3 6.5E-06 1.4E-10 85.5 12.4 147 386-549 5-196 (290)
18 PRK02193 truB tRNA pseudouridi 98.3 1.1E-05 2.3E-10 83.5 13.4 150 385-549 2-196 (279)
19 TIGR00431 TruB tRNA pseudourid 98.3 1.3E-05 2.8E-10 79.7 13.5 147 386-549 5-195 (209)
20 PRK01851 truB tRNA pseudouridi 98.2 1E-05 2.2E-10 84.5 12.3 148 385-549 18-209 (303)
21 PRK14124 tRNA pseudouridine sy 98.2 9.9E-06 2.2E-10 84.7 12.2 148 385-549 5-196 (308)
22 PRK01550 truB tRNA pseudouridi 98.2 2.1E-05 4.4E-10 82.3 13.3 147 386-549 5-203 (304)
23 PRK01528 truB tRNA pseudouridi 98.2 1.9E-05 4.1E-10 82.1 12.8 150 385-549 5-198 (292)
24 PRK04642 truB tRNA pseudouridi 98.2 2.8E-05 6.1E-10 81.1 14.1 148 385-549 12-204 (300)
25 PRK03287 truB tRNA pseudouridi 98.1 3.2E-05 6.9E-10 80.7 13.5 150 385-549 11-207 (298)
26 PRK02484 truB tRNA pseudouridi 98.1 2.4E-05 5.3E-10 81.4 12.4 150 385-549 5-204 (294)
27 PRK14846 truB tRNA pseudouridi 98.1 3.3E-05 7.2E-10 81.6 13.3 150 385-549 5-198 (345)
28 PRK14122 tRNA pseudouridine sy 98.1 4.5E-05 9.7E-10 80.0 12.7 147 388-549 6-229 (312)
29 PRK14123 tRNA pseudouridine sy 98.0 9.2E-05 2E-09 77.5 13.6 150 385-549 5-204 (305)
30 cd02867 PseudoU_synth_TruB_4 P 97.9 4.3E-05 9.3E-10 80.1 9.6 103 438-549 89-227 (312)
31 PRK00989 truB tRNA pseudouridi 97.8 0.00034 7.4E-09 70.6 13.7 148 385-549 11-202 (230)
32 PF01509 TruB_N: TruB family p 97.5 0.00026 5.7E-09 67.0 7.0 75 439-516 41-149 (149)
33 cd02868 PseudoU_synth_hTruB2_l 97.3 0.0015 3.2E-08 65.9 9.8 88 451-549 98-203 (226)
34 PRK14586 tRNA pseudouridine sy 96.1 0.13 2.8E-06 52.4 13.8 160 317-512 10-191 (245)
35 PRK12434 tRNA pseudouridine sy 95.6 0.29 6.2E-06 49.9 13.9 147 344-512 26-191 (245)
36 COG0101 TruA Pseudouridylate s 95.4 0.37 8E-06 50.0 14.2 150 344-512 25-190 (266)
37 PRK14588 tRNA pseudouridine sy 95.4 0.38 8.1E-06 49.9 14.1 164 317-512 10-193 (272)
38 TIGR00071 hisT_truA pseudourid 95.3 0.45 9.8E-06 47.9 14.0 159 317-512 9-178 (227)
39 cd02570 PseudoU_synth_EcTruA P 94.9 0.58 1.3E-05 47.2 13.7 149 344-512 20-185 (239)
40 PRK00021 truA tRNA pseudouridi 94.7 0.79 1.7E-05 46.5 14.0 147 344-512 25-190 (244)
41 cd00497 PseudoU_synth_TruA_lik 94.6 0.49 1.1E-05 47.6 12.3 142 344-512 18-169 (224)
42 cd02568 PseudoU_synth_PUS1_PUS 93.8 0.48 1E-05 48.1 10.4 157 344-512 21-192 (245)
43 PRK14589 tRNA pseudouridine sy 93.4 1.6 3.6E-05 45.1 13.6 157 317-512 9-172 (265)
44 cd02866 PseudoU_synth_TruA_Arc 93.1 1.5 3.4E-05 44.0 12.5 138 344-512 20-167 (221)
45 cd02569 PseudoU_synth_ScPus3 P 92.4 2.6 5.6E-05 43.4 13.3 155 344-512 21-200 (256)
46 PRK14587 tRNA pseudouridine sy 80.5 33 0.00072 35.5 13.1 134 345-512 23-159 (256)
47 KOG4393 Predicted pseudouridyl 53.6 40 0.00086 35.4 6.8 96 345-446 31-127 (295)
48 PRK00994 F420-dependent methyl 51.0 6.2 0.00013 40.7 0.6 15 368-382 27-41 (277)
49 KOG2529 Pseudouridine synthase 44.6 9.8 0.00021 41.7 0.9 95 438-543 128-224 (395)
50 KOG2559 Predicted pseudouridin 43.5 18 0.00038 37.6 2.5 58 480-547 186-245 (318)
51 PF01993 MTD: methylene-5,6,7, 41.1 7.2 0.00016 40.3 -0.7 15 368-382 26-40 (276)
52 COG1927 Mtd Coenzyme F420-depe 40.9 11 0.00025 38.2 0.7 16 368-383 27-42 (277)
53 COG4994 Uncharacterized protei 34.9 24 0.00051 32.3 1.7 42 510-555 39-80 (120)
54 PLN03078 Putative tRNA pseudou 33.7 1.2E+02 0.0026 34.7 7.3 117 317-448 79-204 (513)
55 PF11005 DUF2844: Protein of u 32.5 40 0.00086 31.8 2.8 33 506-538 35-75 (132)
56 TIGR00373 conserved hypothetic 27.8 32 0.00068 33.0 1.4 14 101-114 128-141 (158)
57 COG3527 AlsD Alpha-acetolactat 24.2 25 0.00053 36.1 -0.1 29 514-547 23-52 (234)
58 PRK06266 transcription initiat 23.9 46 0.00099 32.6 1.7 15 101-115 136-150 (178)
No 1
>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=100.00 E-value=4.1e-100 Score=797.79 Aligned_cols=381 Identities=31% Similarity=0.472 Sum_probs=320.8
Q ss_pred HHHHHhCCCchhhhhhhhcccccccchh----hHHHHHhhhhcccccccccCCCCCCcccccccccccccccCCcccccc
Q 008711 49 VKDLLSKEVCLRCIFRLFGMQVPICSSL----SVKSLLCHVLGEQADLHQNISSVEPNICRSCLGILQFTYCGDKERVVE 124 (557)
Q Consensus 49 v~~Lls~g~C~rCi~Rf~~~~~~~~~n~----~l~~~l~~~L~~~~Dl~~~~~~~~~~~C~iClGiLq~~~~d~~~~~~~ 124 (557)
.+.|..|++|++|+||+||.++++++|. +|+..+.|..+. ...+..++..|++|.|+|+.
T Consensus 2 ~~il~~~plCd~CLGR~Fa~~~~gl~N~eRG~ai~~~~~~e~~~-----~~~~~~~~~~C~iC~g~f~~----------- 65 (388)
T TIGR01213 2 LEILAKYPLCDRCLGRLFAKLGHGTSNRERGEALQLALALELGR-----PVKEFVESEPCDVCGGIFDR----------- 65 (388)
T ss_pred hhhHhcCCCCccccchhhhhhccCCCHHHHHHHHHHHHHhhccc-----cccccCCCCCcccccChHhH-----------
Confidence 5678899999999999999999999999 455556553332 11111244569999999983
Q ss_pred ccchhHHHHHHHHHHHhcCCccceEEEEeecChhHHhhhhhHHHHHHHhhcccccccccccccccchhhhhHHhhhhhHH
Q 008711 125 NESACDFAVAIAELVKKEGHQIDSFSLEVSMPPTILENENKLSLYVKRKYRSEAWFKDRSISECSSTKDALKFALTNPLE 204 (557)
Q Consensus 125 ~~~~~d~~~~I~e~vk~~gyef~sF~LaISLP~sl~lRE~s~~l~l~~~~~~~~~~~~~~~~~~v~~Kea~K~~l~~~l~ 204 (557)
.++|++++.+++ +||||+||.++..+|..+..+|..+|. +||- ...|++|-=+.
T Consensus 66 ---~~~~a~~~~~~l--~~~ef~tf~VGt~~p~~i~e~E~~i~~----~~gl-------------~~~E~iK~E~n---- 119 (388)
T TIGR01213 66 ---FDEAADLVAEKV--GDYDFSTFLVGTRFPPDVIELEEEIRK----EFGS-------------GGGESIKREFN---- 119 (388)
T ss_pred ---HHHHHHHHHHHh--hcCccceEEEeeeCCHHHHHHHHHHHH----HhCC-------------CcchhHHHHHh----
Confidence 278999999999 699999999999999999999999887 7771 12233221111
Q ss_pred hHhccccCCceeEEEEEEecchhhHHHhhhhhhhccccccccccccccccccccccccccccceeeecccccccccccCC
Q 008711 205 TLLDVKCGISTFHIRLTYSRVEASIRIQNFVEKIEGCKRRKVDAKNCLDTVKDKSAITGVENSVVSTTEVIPVDEKSSNG 284 (557)
Q Consensus 205 ~~L~~~~~~s~f~i~v~~~h~~~~~e~~~l~~~~~~~kr~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~i 284 (557)
.|+.+.+....| |...+..|+ .++..++.
T Consensus 120 ------------------------RevGk~~~~~~g-k~~d~~~Pd-----------------v~i~vd~~--------- 148 (388)
T TIGR01213 120 ------------------------REVGKLFVKRTG-KEVDFERPD-----------------LVIMVEFE--------- 148 (388)
T ss_pred ------------------------HHHHHHHHHHhC-CCccCCCCC-----------------EEEEEEcC---------
Confidence 122233322222 222333343 33333333
Q ss_pred CCCCCCCcccccCCCCCCCCceeeEEEEeccEEEEEEeeecccCCCCcccccCccccCcCcHHHHhhhccccccCCCceE
Q 008711 285 LQDNEPSETHEFPLKKVNEPCRLECLCFRTPIYFGGRYLKYSRNVSQTRWIIDEERMGEASIEEIIGGNILPMCRGDSYK 364 (557)
Q Consensus 285 ~~~~f~~~~~~~Pp~~~~~~~~~~~~~~~~pi~i~GRY~K~sR~lsQtpW~~~~~r~~~~SVeE~I~~~~~~~f~~~~~~ 364 (557)
. -.|.++++||||+|||+|++|+||||||+|++ ++++||||+|+.++.++|+|++++
T Consensus 149 -----------------~----~~v~vq~~pifi~GRY~Kl~R~ipQT~W~~~~--~~~~SVeelI~~~v~~~~~~~~~~ 205 (388)
T TIGR01213 149 -----------------Y----EFVDVQVNSLFIYGRYRKLVRGIPQTRWPCRK--NYPESVEELIASPFLKATGGTDAY 205 (388)
T ss_pred -----------------C----CeEEEEECcEEEEEEEeecccCCCCCccccCC--CcCchHHHHHHHHHHHHhCCceeE
Confidence 0 13589999999999999999999999999976 689999999999999999999999
Q ss_pred EeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHHHHhccCCCcEEEEeeEEecccchhhhcccccccccEEEE
Q 008711 365 FHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIESKINSLENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAA 444 (557)
Q Consensus 365 F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~~In~~~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~a 444 (557)
||+||||||||||||+|||||+||+||+++ ..++++|+++||++++|.|+|+||++++++++..||+++. .|.|+|
T Consensus 206 Fh~aGREDvDvRMLG~GRPFvlEi~~P~rr--~~dl~~le~~IN~~~~g~V~v~~L~~~~~~~v~~ik~~~~--~K~Y~a 281 (388)
T TIGR01213 206 FHGAGREDVDVRMLGTGRPFVLEVKEPRYR--KIDLDPLEEEINTSGKGKVEVEGLKFATREEVEEVKEEKH--RKVYRA 281 (388)
T ss_pred EeccCccccceeeccCCCceEEEecCCccC--CCCHHHHHHHHhhccCCCEEEEEeEEEcHHHHHHHhccCC--ceEEEE
Confidence 999999999999999999999999999874 3689999999999989999999999999999999997665 699999
Q ss_pred EEEEcCCCCHHHHHH-hhcccCceeeccCCcEEEeecCCCceeeEEEEEEEEEEcCCccEEEEEEEecCCceeeEeeeCC
Q 008711 445 LVWISRPLQDEDFQT-ISSLKETQILQKTPIRVLHRRSPLEREKIINWMKIEKIAGSSQYFLLHMCTQAGTYIKEFVHGD 523 (557)
Q Consensus 445 lv~~~~~vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqaGtYIKEfVhGD 523 (557)
+||+++++++++|+. ++.++|++|+|+||+||+|||++++|+|+||+|++..+++ ++|+|+|.||||||||||||||
T Consensus 282 lV~~~~~v~~e~L~~~~~~l~g~~I~QrTP~RV~hRRa~~~R~R~I~~i~~~~i~~--~~~~l~v~~qaGtYIKElV~GD 359 (388)
T TIGR01213 282 LVEVDGPVSDEDLEELCKELEGATIYQRTPLRVLHRRADLVRERRVYQVDLSGLDG--NHAELIIEAEGGLYIKELVSGD 359 (388)
T ss_pred EEEECCCCCHHHHHHHHHhccCCEEEccCCceEEEecCCCceEEEEEEEEEEEEcC--CEEEEEEEecCCCEEEEEEcCC
Confidence 999999999999976 7799999999999999999999999999999999999975 8999999999999999999999
Q ss_pred CCCcCcchhhhcCCccEEEEEEEEEEec
Q 008711 524 LGRTNPSIGSILGCRAEILQLDVTDVKM 551 (557)
Q Consensus 524 ~GRT~Psl~~iLg~~a~ileLDV~~V~~ 551 (557)
+|||+||||++||++|+|++|||++|+.
T Consensus 360 ~GRT~PSl~~lLg~~a~i~eLDV~~V~~ 387 (388)
T TIGR01213 360 GGRTRPSVSEVLGVEAVCKELDVLKVCD 387 (388)
T ss_pred CCCcCCcHHHHhCCCceEEEeEEEEEec
Confidence 9999999999999999999999999974
No 2
>PRK14554 putative pseudouridylate synthase; Provisional
Probab=100.00 E-value=3.8e-99 Score=799.91 Aligned_cols=392 Identities=30% Similarity=0.443 Sum_probs=343.0
Q ss_pred CcHHHHHHHHhCCCchhhhhhhhcccccccchh----hHHHHHhhhhcccc---c----------cc--------ccCCC
Q 008711 44 LPTDAVKDLLSKEVCLRCIFRLFGMQVPICSSL----SVKSLLCHVLGEQA---D----------LH--------QNISS 98 (557)
Q Consensus 44 ~~~~av~~Lls~g~C~rCi~Rf~~~~~~~~~n~----~l~~~l~~~L~~~~---D----------l~--------~~~~~ 98 (557)
+...|.++|..|++|++|+||+||..+++++|. +++..|.|.++... | ++ .....
T Consensus 3 i~e~a~~il~~~plCd~CLGR~Fa~~~~gl~N~eRG~aik~~l~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (422)
T PRK14554 3 ILEKARAILEKYPLCDHCLGRLFAKLGYGLTNEERGRAIKTALAMELDEPYKEHKEVDLDEILENLGPIAERLYKLYFIE 82 (422)
T ss_pred hHHHHHHHHhcCCCcccccchHHHHHhcCcCHHHHHHHHHHHHhcccchhhcccchhhhHHHHHhhccchhhhhhhcccc
Confidence 456788899999999999999999999999999 67777777654311 1 11 11222
Q ss_pred CCCcccccccccccccccCCccccccccchhHHHHHHHHHHHhcCCccceEEEEeecChhHHhhhhhHHHHHHHhhcccc
Q 008711 99 VEPNICRSCLGILQFTYCGDKERVVENESACDFAVAIAELVKKEGHQIDSFSLEVSMPPTILENENKLSLYVKRKYRSEA 178 (557)
Q Consensus 99 ~~~~~C~iClGiLq~~~~d~~~~~~~~~~~~d~~~~I~e~vk~~gyef~sF~LaISLP~sl~lRE~s~~l~l~~~~~~~~ 178 (557)
..+..|++|+|+|+. .++|+++|.+++ ++|||+||+++++||+.+..||..+|. +||-.
T Consensus 83 ~~~~~C~iC~g~f~~--------------~~~~a~~v~~~l--~~~e~~tf~vG~~lp~~~~e~E~~i~~----~~gl~- 141 (422)
T PRK14554 83 EFEERCYICGGIFDE--------------IDEFAEKAAEAL--SGYEFDTFLVGTRLPPEIKEKEEEIWE----EFGLT- 141 (422)
T ss_pred ccCCccccccCCHHH--------------HHHHHHHHHHHh--hcCCcceEEEEEEcCHHHHHHHHHHHH----HcCCC-
Confidence 345569999999983 268999999999 599999999999999999999999995 88731
Q ss_pred cccccccccccchhhhhHHhhhhhHHhHhccccCCceeEEEEEEecchhhHHHhhhhhhhcccccccccccccccccccc
Q 008711 179 WFKDRSISECSSTKDALKFALTNPLETLLDVKCGISTFHIRLTYSRVEASIRIQNFVEKIEGCKRRKVDAKNCLDTVKDK 258 (557)
Q Consensus 179 ~~~~~~~~~~v~~Kea~K~~l~~~l~~~L~~~~~~s~f~i~v~~~h~~~~~e~~~l~~~~~~~kr~~~~~~~~~~~~~~~ 258 (557)
...++|.++|+.++..|++++|++.+...-.|.+.|.+..
T Consensus 142 --------~~e~iK~e~nRevGk~l~~~~gk~~d~~~Pdv~i~~d~~~-------------------------------- 181 (422)
T PRK14554 142 --------YGESIKSEINREVGKRLAARTGKEVDFENPDVVIVVDLET-------------------------------- 181 (422)
T ss_pred --------cchhHHHHHHHHHHHHHHHHhCCCCCCCCCcEEEEEEcCC--------------------------------
Confidence 1368999999999999999999998754424554444332
Q ss_pred ccccccccceeeecccccccccccCCCCCCCCCcccccCCCCCCCCceeeEEEEeccEEEEEEeeecccCCCCcccccC-
Q 008711 259 SAITGVENSVVSTTEVIPVDEKSSNGLQDNEPSETHEFPLKKVNEPCRLECLCFRTPIYFGGRYLKYSRNVSQTRWIID- 337 (557)
Q Consensus 259 ~~~~~~~~~~~i~~~l~~~~~~~~~i~~~~f~~~~~~~Pp~~~~~~~~~~~~~~~~pi~i~GRY~K~sR~lsQtpW~~~- 337 (557)
-.|.++++||||+|||+|++|+||||||+|.
T Consensus 182 ------------------------------------------------~~V~~~~~pi~i~GrY~Kl~R~ipQT~W~~~~ 213 (422)
T PRK14554 182 ------------------------------------------------DKVELQVNPLFIYGRYRKLVRGIPQTRWPCRK 213 (422)
T ss_pred ------------------------------------------------CeEEEEECCEEEEEEEeeccCCCCCCccccCC
Confidence 1358899999999999999999999999996
Q ss_pred ccccCcCcHHHHhhhccccccCCCceEEeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHHHHhccCCCcEEE
Q 008711 338 EERMGEASIEEIIGGNILPMCRGDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIESKINSLENKLVRV 417 (557)
Q Consensus 338 ~~r~~~~SVeE~I~~~~~~~f~~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~~In~~~~~~V~v 417 (557)
+.++|++||||+|+.++.+.|+|++++||||||||+||||||+|||||+||+||+++. .++++|+..+|. +|.|+|
T Consensus 214 g~~~~~~SVeelI~~~i~~~f~~~~~~fh~aGREDvDVRmLG~GRPFViEi~~p~r~~--~~~~~l~~~~~~--~g~V~v 289 (422)
T PRK14554 214 CKKQYPESVEELIAKPVIEAFGGEDAVFHGAGREDVDARMLGTGRPFVIEVKEPRKRK--VDLEALEEEINA--DGKVEV 289 (422)
T ss_pred CCCCCCCCHHHHHHHHHHHHhCCCceEEecCCCCCcceEecCCCCceEEEecCccccc--CCHHHHHHhhcc--CCCEEE
Confidence 4578999999999999999999999999999999999999999999999999998754 678888866664 678999
Q ss_pred EeeEEecccchhhhcccccccccEEEEEEEEcCCCCHHHHHH-hhcccCceeeccCCcEEEeecCCCceeeEEEEEEEEE
Q 008711 418 KNLKIVGSQGWTLMREGEAEKQKQYAALVWISRPLQDEDFQT-ISSLKETQILQKTPIRVLHRRSPLEREKIINWMKIEK 496 (557)
Q Consensus 418 ~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~~ 496 (557)
++|++++++++..||+++.+ |.|+|+||+++++++++|++ ++.++|++|+|+||+||+|||++++|+|+||+|++..
T Consensus 290 ~~l~~~~~~~~~~ik~~~~~--K~YralV~~~~~v~~e~l~~~~~~l~~~~I~QrTP~RV~hRR~~~~R~R~I~~i~~~~ 367 (422)
T PRK14554 290 ENLRFATRKEVERIKEEKAS--KTYRALVESDEPVSEEELEKLLDELSGATIEQRTPRRVKHRRADLVRVRKVYDISGEL 367 (422)
T ss_pred EEEEEEcHHHHHHHhcCCCc--eEEEEEEEECCCCCHHHHHHHHHhccCcEeeccCcHhhhhhccccceeeEEEEEEEEE
Confidence 99999999999999988754 99999999999999999988 5899999999999999999999999999999999999
Q ss_pred EcCCccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEEecc
Q 008711 497 IAGSSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDVKMN 552 (557)
Q Consensus 497 i~~~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V~~d 552 (557)
+++ ++|+++|.||||||||||||||+|||+||||++||++|+|++|||++|+++
T Consensus 368 i~~--~~~~l~i~~eaGtYIKElv~GD~GRT~Psl~~lLg~~a~~~eLDV~~V~~~ 421 (422)
T PRK14554 368 IDD--KHFELRIKCEGGLYIKELISGDEGRTTPSLSELLGTPAIVTELDVLDVEGE 421 (422)
T ss_pred EcC--cEEEEEEEEecCCEEEEEEeCCCCcccccHHHHhCCCceEEEeeEEEEecC
Confidence 975 899999999999999999999999999999999999999999999999875
No 3
>KOG2364 consensus Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.3e-95 Score=743.83 Aligned_cols=394 Identities=30% Similarity=0.396 Sum_probs=353.1
Q ss_pred CCCcccccccccccccccCCccccccccchhHHHHHHHHHHHhcCCccceEEEEeecChhHHhhhhhHHHHHHHhhcccc
Q 008711 99 VEPNICRSCLGILQFTYCGDKERVVENESACDFAVAIAELVKKEGHQIDSFSLEVSMPPTILENENKLSLYVKRKYRSEA 178 (557)
Q Consensus 99 ~~~~~C~iClGiLq~~~~d~~~~~~~~~~~~d~~~~I~e~vk~~gyef~sF~LaISLP~sl~lRE~s~~l~l~~~~~~~~ 178 (557)
.+..+|.+|+|||+..++ +++.++|.+.+.+. |||.+|+|+++||+++.+||+++|+.+++.+|.
T Consensus 28 ~nl~vC~~ClGi~~~~~~------------~e~~~kv~~~~~a~-yd~~s~vla~~lP~~l~lRe~a~w~l~~~~~G~-- 92 (433)
T KOG2364|consen 28 ENLFVCQLCLGIMDQAMI------------DEVGEKVQEELSAL-YDSMSFVLALNLPVGLTLREIAVWRLRPDFNGT-- 92 (433)
T ss_pred cccccHHHHHHHHHHHHH------------HHHHHHHHHHHHhh-hhhhheeeEEeCCcchhHHHHHHHHhhHHhcCC--
Confidence 366799999999996665 78999999999999 999999999999999999999999999999994
Q ss_pred cccccccccccchhhhhHHhhhhhHHhHhccccCCceeEEEEEEecchh-hHHHhhhhhhhccccccccccccccccccc
Q 008711 179 WFKDRSISECSSTKDALKFALTNPLETLLDVKCGISTFHIRLTYSRVEA-SIRIQNFVEKIEGCKRRKVDAKNCLDTVKD 257 (557)
Q Consensus 179 ~~~~~~~~~~v~~Kea~K~~l~~~l~~~L~~~~~~s~f~i~v~~~h~~~-~~e~~~l~~~~~~~kr~~~~~~~~~~~~~~ 257 (557)
.+.|+.|||+||+++|.|++.||+..+.|.++|+++|+|+++ -+++++|....+ ++|.+.++
T Consensus 93 -------~~~Vp~Kea~k~i~hp~~~e~lgk~~d~~~L~~~i~f~hee~~~edv~fLv~~~p----------~~F~~~k~ 155 (433)
T KOG2364|consen 93 -------LASVPYKEANKDIYHPKLGEYLGKRPDLSDLQLMITFMHEEQIFEDVKFLVVRHP----------GEFHENKV 155 (433)
T ss_pred -------CcccchHHHhhhhhhhHHHHHhCCCCCccccEEEEEecChhhhhHHHHHHHHhCc----------cccCcccc
Confidence 356999999999999999999999999999999999999997 556776665444 44444444
Q ss_pred ccc--ccccccceeeecccccccccccCCCCCCCCCcccccCCCCCCCCc-eeeEEEEeccEEEEEEeeecccCCCCccc
Q 008711 258 KSA--ITGVENSVVSTTEVIPVDEKSSNGLQDNEPSETHEFPLKKVNEPC-RLECLCFRTPIYFGGRYLKYSRNVSQTRW 334 (557)
Q Consensus 258 ~~~--~~~~~~~~~i~~~l~~~~~~~~~i~~~~f~~~~~~~Pp~~~~~~~-~~~~~~~~~pi~i~GRY~K~sR~lsQtpW 334 (557)
.|. .+|+ ++..+++. +++.+.+. ++|++|+..+.+.+ .++|.|++.||||+|||+||||+||||||
T Consensus 156 ~q~~~~~tr---~~~~ka~q-------kvk~e~~e-k~f~~~~~~~~~~~~~~eI~~q~~~vyiAGRY~KySR~LpqTPW 224 (433)
T KOG2364|consen 156 YQVSGGGTR---EVDKKALQ-------KVKGEGQE-KWFIPYTEIMVRVQDGVEIVVQNSPVYIAGRYIKYSRNLPQTPW 224 (433)
T ss_pred ceecccccc---HhHHHHHH-------Hhhhcccc-ccccCCcccchhheeeEEEEecCCcEEEeeehhhhhccCCCCCc
Confidence 443 3333 34444444 88889999 99999999998877 57999999999999999999999999999
Q ss_pred ccCccccCcCcHHHHhhhccccccCCCceEEeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHH-HHhccCCC
Q 008711 335 IIDEERMGEASIEEIIGGNILPMCRGDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIES-KINSLENK 413 (557)
Q Consensus 335 ~~~~~r~~~~SVeE~I~~~~~~~f~~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~-~In~~~~~ 413 (557)
+++|.|.+++||||+|+.++.++|++++++|++||||||||||||+|||||+||.|||+... .++ .+|. .+
T Consensus 225 i~dg~Rl~enSveE~i~dhl~~~F~a~d~~F~sSGREDvDVRmLG~GRPFvlEl~N~rr~~~------~~q~~~n~--~~ 296 (433)
T KOG2364|consen 225 IVDGPRLKENSVEEDIKDHLKEFFSADDVVFISSGREDVDVRMLGTGRPFVLELKNPRRNLG------FEQLRLNL--YG 296 (433)
T ss_pred ccCCcccccccHHHHHHHHHHhhcCccceeeccCCCcceeeEeccCCCceEEEcCCccccch------HHHhhhhc--cC
Confidence 99999999999999999999999999999999999999999999999999999999998542 333 4454 35
Q ss_pred cEEEEeeEEecccchhhhcccccccccEEEEEEEEcCCCCHHHHHHhhcccCceeeccCCcEEEeecCCCceeeEEEEEE
Q 008711 414 LVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRPLQDEDFQTISSLKETQILQKTPIRVLHRRSPLEREKIINWMK 493 (557)
Q Consensus 414 ~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~vt~e~l~~l~~l~~~~I~QrTP~RVlHRR~~~~R~R~I~~~~ 493 (557)
.+.|.+|+.|+|+....|+.||+.|+|.|.|.+|+-+|+...++.+..+.++++|.|+||.||+ .|.|.||.|+
T Consensus 297 ~lqV~~l~~v~re~~~~~~kgee~k~k~y~a~~~s~k~i~~~q~~~~~~~~~lki~qktp~Rv~------irer~i~~me 370 (433)
T KOG2364|consen 297 GLDVKNLCVVRRECKDMIFKGEEQKSKIYSAFLCCRRPIVLQKNYKVRQRTPLKILQKTPNRVR------IRERCILGME 370 (433)
T ss_pred CeeeeeheeehHHhhhhhhhchhHHHHHHHHhhhhhhhHHHHhHHHHhccCccchhhhcccchh------hhhhhhhhhc
Confidence 7999999999999999999999999999999999999999988888999999999999999988 8999999999
Q ss_pred EEEEcCCccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEEecc
Q 008711 494 IEKIAGSSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDVKMN 552 (557)
Q Consensus 494 ~~~i~~~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V~~d 552 (557)
..+.+ .|||++.+.||||||||||||||||||.||||++++..+ +++|||..|+.+
T Consensus 371 ~~~~d--~hhf~v~leTqagtyIkefvhgdfgrt~psl~sl~nv~~-iLeLDve~vd~~ 426 (433)
T KOG2364|consen 371 KMEAD--WHHFRVVLETQAGTYIKEFVHGDFGRTAPSLSSLENVCD-ILELDVERVDKR 426 (433)
T ss_pred cCccc--ceEEEEeehhhhhhHHHHHhcCCccccCccccchhhhhh-hhhCcchhhccc
Confidence 99987 599999999999999999999999999999999999887 999999999876
No 4
>COG1258 Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-91 Score=722.74 Aligned_cols=385 Identities=32% Similarity=0.501 Sum_probs=330.3
Q ss_pred cHHHHHHHHhCCCchhhhhhhhcccccccchh----hHHHHHhhhhcccccccccCCCCCCcccccccccccccccCCcc
Q 008711 45 PTDAVKDLLSKEVCLRCIFRLFGMQVPICSSL----SVKSLLCHVLGEQADLHQNISSVEPNICRSCLGILQFTYCGDKE 120 (557)
Q Consensus 45 ~~~av~~Lls~g~C~rCi~Rf~~~~~~~~~n~----~l~~~l~~~L~~~~Dl~~~~~~~~~~~C~iClGiLq~~~~d~~~ 120 (557)
...|.+.|..+++|++|++|+|+..+++++|. +++..+.+.++. ...+..++.+|++|.|+|..
T Consensus 4 ie~a~~iL~~~plCd~ClGR~FA~l~~Gl~N~ERGraik~~l~l~~~~-----~~~~~~e~~~C~iC~g~f~~------- 71 (398)
T COG1258 4 IEKALEILAKYPLCDSCLGRCFAKLGTGLENRERGRAIKLSLALELDE-----EYKNEVEPEPCYICGGIFDR------- 71 (398)
T ss_pred HHHHHHHHHhCcchHHHHHHHHHHHccCccchhHHHHHHHHHHhhcCc-----ccccCCCCCCchhHhchHhH-------
Confidence 45688999999999999999999999999998 456666665554 12234577899999999994
Q ss_pred ccccccchhHHHHHHHHHHHhcCCccceEEEEeecChhHHhhhhhHHHHHHHhhcccccccccccccccchhhhhHHhhh
Q 008711 121 RVVENESACDFAVAIAELVKKEGHQIDSFSLEVSMPPTILENENKLSLYVKRKYRSEAWFKDRSISECSSTKDALKFALT 200 (557)
Q Consensus 121 ~~~~~~~~~d~~~~I~e~vk~~gyef~sF~LaISLP~sl~lRE~s~~l~l~~~~~~~~~~~~~~~~~~v~~Kea~K~~l~ 200 (557)
.++|+..+.++| ++|+|.||+++..+|..+..+|.-+|. +||- ...|++|
T Consensus 72 -------~~~~~~~v~~~l--~~~ef~tf~VGs~~p~~~~e~E~ei~~----~fg~-------------~~gEsiK---- 121 (398)
T COG1258 72 -------VEEFADLVAKLL--KELEFSTFVVGSRVPEEVKEAESEIWE----EFGI-------------GYGESIK---- 121 (398)
T ss_pred -------HHHHHHHHHHHh--hhcceeEEEeeeecChHHHHHHHHHHH----Hhcc-------------ccchhHH----
Confidence 278999999999 899999999999999999999999988 7772 2233311
Q ss_pred hhHHhHhccccCCceeEEEEEEecchhhHHHhhhhhhhccccccccccccccccccccccccccccceeeeccccccccc
Q 008711 201 NPLETLLDVKCGISTFHIRLTYSRVEASIRIQNFVEKIEGCKRRKVDAKNCLDTVKDKSAITGVENSVVSTTEVIPVDEK 280 (557)
Q Consensus 201 ~~l~~~L~~~~~~s~f~i~v~~~h~~~~~e~~~l~~~~~~~kr~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~ 280 (557)
+ +...++.+++....| |......|+ .+|..+++
T Consensus 122 ----------~--------------E~nREvGK~~~~~~G-~~~d~~~Pd-----------------i~i~vd~~----- 154 (398)
T COG1258 122 ----------H--------------EFNREVGKRLASKTG-KEPDFDNPD-----------------IVIVVDLE----- 154 (398)
T ss_pred ----------H--------------HHHHHHHHHHHHhcC-CCCCCCCCC-----------------EEEEEecC-----
Confidence 1 111233334433333 333333444 23333333
Q ss_pred ccCCCCCCCCCcccccCCCCCCCCceeeEEEEeccEEEEEEeeecccCCCCcccccCccccCcCcHHHHhhhccccccCC
Q 008711 281 SSNGLQDNEPSETHEFPLKKVNEPCRLECLCFRTPIYFGGRYLKYSRNVSQTRWIIDEERMGEASIEEIIGGNILPMCRG 360 (557)
Q Consensus 281 ~~~i~~~~f~~~~~~~Pp~~~~~~~~~~~~~~~~pi~i~GRY~K~sR~lsQtpW~~~~~r~~~~SVeE~I~~~~~~~f~~ 360 (557)
...+.++.+||||+|||+|+.||||||+|+|. .++..|||++|+.++.++|+|
T Consensus 155 -------------------------~~~v~vqvnpi~i~GrY~Kl~R~ipQT~wp~~--~~~~~sve~~i~~~~~~~f~g 207 (398)
T COG1258 155 -------------------------TLKVEVQVNPIYIYGRYRKLVRGIPQTRWPCR--ELYPESVEELIKQPIKEAFGG 207 (398)
T ss_pred -------------------------CcEEEEEEcceEEEEEehhhhcCCCcccCcCc--ccccccHHHHHHHHHHHhccC
Confidence 13568899999999999999999999999998 489999999999999999999
Q ss_pred CceEEeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHHHHhccCCCcEEEEeeEEecccchhhhccccccccc
Q 008711 361 DSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIESKINSLENKLVRVKNLKIVGSQGWTLMREGEAEKQK 440 (557)
Q Consensus 361 ~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~~In~~~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K 440 (557)
.+++||+|||||+||||||+|||||+|+++||++ +.+++.|+++||.+. +|+|.+|.+++++++..+|+ ++..+|
T Consensus 208 ~~~~fhgAGREDvDvRMLG~GRPfVlEvk~Pr~R--~~dl~~l~~~in~~~--~vev~~l~f~~~e~v~~ik~-~~~~rK 282 (398)
T COG1258 208 LDAKFHGAGREDVDVRMLGTGRPFVLEVKEPRRR--NVDLDELEEEINRGG--KVEVFDLEFVGREEVEEIKE-TERHRK 282 (398)
T ss_pred ceeEEEccCCCccceeeecCCCceEEEecCcccc--cCChHHHHHHhccCC--cEEEEEEEecCHHHHHHHHh-ccccce
Confidence 9999999999999999999999999999999874 488999999999853 79999999999999999999 889999
Q ss_pred EEEEEEEEcCCCCHHHHHH-hhcccCceeeccCCcEEEeecCCCceeeEEEEEEEEEEcCCccEEEEEEEecCCceeeEe
Q 008711 441 QYAALVWISRPLQDEDFQT-ISSLKETQILQKTPIRVLHRRSPLEREKIINWMKIEKIAGSSQYFLLHMCTQAGTYIKEF 519 (557)
Q Consensus 441 ~Y~alv~~~~~vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqaGtYIKEf 519 (557)
.|+|+|++++|+++++++. +.+|.|.+|.||||.||+||||+++|.|+||.+++..+++ ++|.+.|.|+||||||||
T Consensus 283 ~YrAlV~~~~~v~~e~l~~~~~~L~g~~I~QrTP~RV~hrRadlvR~R~V~~l~~~~~~~--~~~~~~i~~egGlYIKEl 360 (398)
T COG1258 283 VYRALVYSDRPVSDEKLEEVLGSLEGKTIRQRTPRRVLHRRADLVRIRRVYELSLDLIDD--RHAELEIEAEGGLYIKEL 360 (398)
T ss_pred eEEEEEEECCCcCHHHHHHHHhhccCcEEeecChHHHhhhhcccceEEEEEEeeeeeccC--ceEEEEEEecccceeeee
Confidence 9999999999999999965 8899999999999999999999999999999999999964 999999999999999999
Q ss_pred eeCCCCCcCcchhhhcCCccEEEEEEEEEEecc
Q 008711 520 VHGDLGRTNPSIGSILGCRAEILQLDVTDVKMN 552 (557)
Q Consensus 520 VhGD~GRT~Psl~~iLg~~a~ileLDV~~V~~d 552 (557)
||||.|||+||||++||.+|.|.+|||++|.-.
T Consensus 361 IsGD~GRT~PSlse~lg~~a~~~eLDVl~V~~~ 393 (398)
T COG1258 361 ISGDGGRTRPSLSEILGVEAVVEELDVLKVEDE 393 (398)
T ss_pred ecCCCCCcCcchHHHhCCcceEEEeeeEEeccC
Confidence 999999999999999999999999999999754
No 5
>cd02572 PseudoU_synth_hDyskerin PseudoU_synth_hDyskerin_Like: Pseudouridine synthase, human dyskerin like. This group consists of eukaryotic and archeal pseudouridine synthases similar to human dyskerin, Saccharomyces cerevisiae Cbf5, and Drosophila melanogaster Mfl (minifly protein). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactor is required. S. cerevisiae Cbf5 and human dyskerin are nucleolar proteins that, with the help of guide RNAs, make the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Cbf5/Dyskerin is the catalytic subunit of eukaryotic box H/ACA small nucleolar ribonucleoprotein (snoRNP) particles. D. melanogaster mfl hosts in its fourth intron, a box H/AC snoRNA gene. In addition dyskerin is likely to have a structural role in the telomerase complex. Mutations in human dyskerin cause X-linked dyskeratosis congenitas. Mutations in Drosophila Mfl r
Probab=99.46 E-value=6.3e-13 Score=128.71 Aligned_cols=154 Identities=20% Similarity=0.293 Sum_probs=111.9
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccCCC-----cEEEEeeEEecccchhhhcccccccccEEEEEEEEcCCCCHHHHHH
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLENK-----LVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRPLQDEDFQT 459 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~~~-----~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~vt~e~l~~ 459 (557)
++=|..|.-..|..-+..+...+|...-| +-...++=++.-....++-+--....|.|+|.+.+...+++++|+.
T Consensus 4 ~l~i~Kp~g~tS~~~v~~~k~~~~~kkvGH~GTLDp~A~GvLiv~~g~~Tk~~~~~~~~~K~Y~a~v~~g~~it~e~l~~ 83 (182)
T cd02572 4 VINLDKPSGPSSHEVVAWIKRILGVEKTGHSGTLDPKVTGCLPVCIDRATRLVKSQQEAGKEYVCVMRLHDDVDEEKVRR 83 (182)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhCCCccCcCCCCCCcCeeEEEEEECHHhhhhHHHhCCCCEEEEEEEECCcCCHHHHHH
Confidence 34456677655666666666655542110 0111112111111111121222334499999999999999999977
Q ss_pred -hhcccCceeeccCCcEEEeecCCCceeeEEEEEEEEEEcCCccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCc
Q 008711 460 -ISSLKETQILQKTPIRVLHRRSPLEREKIINWMKIEKIAGSSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCR 538 (557)
Q Consensus 460 -l~~l~~~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~ 538 (557)
++.|.| +|.|++|.++.+++. .|++.||++++..++....+|.+++.|++||||++|||+ ||..||+.
T Consensus 84 ~l~~f~G-~i~Q~pP~~SA~K~~--~R~v~I~~i~l~~~~~~~~~~~~~v~cs~GTYIRsL~~d--------lg~~Lg~~ 152 (182)
T cd02572 84 VLEEFTG-AIFQRPPLISAVKRQ--LRVRTIYESKLLEYDGERRLVLFRVSCEAGTYIRTLCVH--------IGLLLGVG 152 (182)
T ss_pred HHHHCCC-cEEeeCCHhheecCC--ceEEEEEEEEEEEEcCCCcEEEEEEEECCCcCHHHHHHH--------HHHHHCCC
Confidence 899998 699999999999986 799999999999886433689999999999999999997 99999999
Q ss_pred cEEEEEEEEEE
Q 008711 539 AEILQLDVTDV 549 (557)
Q Consensus 539 a~ileLDV~~V 549 (557)
|.+.+|.=+.+
T Consensus 153 a~l~~L~R~~~ 163 (182)
T cd02572 153 AHMQELRRTRS 163 (182)
T ss_pred eEEEEEEeEEE
Confidence 99999987765
No 6
>TIGR00425 CBF5 rRNA pseudouridine synthase, putative. This family, found in archaea and eukaryotes, includes the only archaeal proteins markedly similar to bacterial TruB, the tRNA pseudouridine 55 synthase. However, among two related yeast proteins, the archaeal set matches yeast YLR175w far better than YNL292w. The first, termed centromere/microtubule binding protein 5 (CBF5), is an apparent rRNA pseudouridine synthase, while the second is the exclusive tRNA pseudouridine 55 synthase for both cytosolic and mitochondrial compartments. It is unclear whether archaeal proteins found by this model modify tRNA, rRNA, or both.
Probab=99.16 E-value=2.7e-10 Score=119.23 Aligned_cols=146 Identities=22% Similarity=0.331 Sum_probs=111.1
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhcc-----------CCCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcCCCC
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSL-----------ENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRPLQ 453 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~-----------~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~vt 453 (557)
++=|..|.-..|..-+..+....|.. +.| |-+--+.-. .++-+--....|.|+|.+++..+++
T Consensus 36 ~l~i~KP~g~tS~~~v~~vr~~~~~kkvGH~GTLDP~A~G-vL~v~~G~a-----Tkl~~~~~~~~K~Y~~~v~lG~~~~ 109 (322)
T TIGR00425 36 VVNLDKPSGPSSHEVVAWVRRILNVEKTGHGGTLDPKVTG-VLPVCIERA-----TRLVKSLQEAPKEYVCLMRLHRDAK 109 (322)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhcccccCCCCCCCCCCce-EEEEEEChH-----hhccHHhccCCCEEEEEEEECCCCC
Confidence 55567787666666677777666542 122 222222111 1222223345699999999999999
Q ss_pred HHHHHH-hhcccCceeeccCCcEEEeecCCCceeeEEEEEEEEEEcCCccEEEEEEEecCCceeeEeeeCCCCCcCcchh
Q 008711 454 DEDFQT-ISSLKETQILQKTPIRVLHRRSPLEREKIINWMKIEKIAGSSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIG 532 (557)
Q Consensus 454 ~e~l~~-l~~l~~~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~ 532 (557)
+++++. |+.|.| .|.|.+|....++|. .|+.+||++++..+++ ..+.+++.|++||||+.|+|. ||
T Consensus 110 ~~~l~~~l~~f~g-~i~Q~pP~~SA~k~~--~r~v~I~~~~l~~~~~--~~~~~~v~cskGTYIRsL~~D--------ig 176 (322)
T TIGR00425 110 EEDILRVLKEFTG-RIFQRPPLKSAVKRQ--LRVRTIYESELLEKDG--KDVLFRVSCEAGTYIRKLCVD--------IG 176 (322)
T ss_pred HHHHHHHHHHcCC-cEEeeCChheEEecc--CeEEEEEEEEEEEecC--CeEEEEEEeCCCcChHHHHHH--------HH
Confidence 999976 899999 699999999999987 7999999999988864 568999999999999999995 99
Q ss_pred hhcCCccEEEEEEEEEE
Q 008711 533 SILGCRAEILQLDVTDV 549 (557)
Q Consensus 533 ~iLg~~a~ileLDV~~V 549 (557)
+.||+.+++.+|-=+.+
T Consensus 177 ~~Lg~~a~~~~L~R~~~ 193 (322)
T TIGR00425 177 EALGTGAHMQELRRTRS 193 (322)
T ss_pred HHHCCCEEEEEeEeEEE
Confidence 99999999998866544
No 7
>PRK04270 H/ACA RNA-protein complex component Cbf5p; Reviewed
Probab=99.14 E-value=3.9e-10 Score=116.99 Aligned_cols=152 Identities=21% Similarity=0.315 Sum_probs=111.5
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccCCC-----cEEEEeeEEecccchhhhcccccccccEEEEEEEEcCCCCHHHHHH
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLENK-----LVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRPLQDEDFQT 459 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~~~-----~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~vt~e~l~~ 459 (557)
++=|..|.-..|..-+..+....|...-| +-...++=++.--...++-+--....|+|+|.+++..++++++++.
T Consensus 24 ~l~i~Kp~g~tS~~~v~~~r~~~~~kkvGH~GTLDp~A~GvL~v~~g~atk~~~~~~~~~K~Y~~~~~~g~~~~~~~~~~ 103 (300)
T PRK04270 24 VVNLDKPPGPTSHEVAAWVRDILGVEKAGHGGTLDPKVTGVLPVALGKATKVVQALLESGKEYVCVMHLHGDVPEEDIRK 103 (300)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhccccccCCCCCCCcCeEEEEEEEChHhhhhHHhccCCcEEEEEEEECCCCCHHHHHH
Confidence 45566676555655566666555532111 0011122122111122333333445699999999999999999977
Q ss_pred -hhcccCceeeccCCcEEEeecCCCceeeEEEEEEEEEEcCCccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCc
Q 008711 460 -ISSLKETQILQKTPIRVLHRRSPLEREKIINWMKIEKIAGSSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCR 538 (557)
Q Consensus 460 -l~~l~~~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~ 538 (557)
|..|.| +|.|.+|....++|+ .|+..||++++...+. .+|.+++.|+.||||+.|||+ +|..||+.
T Consensus 104 ~l~~~~g-~i~Q~pP~~SA~k~~--~r~v~I~~i~~~~~~~--~~~~~~v~cs~GtYIRsl~~d--------ig~~Lg~~ 170 (300)
T PRK04270 104 VFKEFTG-EIYQKPPLKSAVKRR--LRVRTIYELEILEIDG--RDVLFRVRCESGTYIRKLCHD--------IGLALGTG 170 (300)
T ss_pred HHHHCCC-cEEeECCHHHhccCC--ceEEEEEEEEEEEecC--CEEEEEEEECCceEHHHHHHH--------HHHHHCCC
Confidence 899999 899999999999876 8999999999988864 689999999999999999999 89999999
Q ss_pred cEEEEEEEEEE
Q 008711 539 AEILQLDVTDV 549 (557)
Q Consensus 539 a~ileLDV~~V 549 (557)
|++.+|-=+.+
T Consensus 171 a~~~~L~R~~~ 181 (300)
T PRK04270 171 AHMQELRRTRT 181 (300)
T ss_pred eEEEEEEeEEE
Confidence 99998866544
No 8
>COG0130 TruB Pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=98.85 E-value=1e-08 Score=105.05 Aligned_cols=153 Identities=16% Similarity=0.239 Sum_probs=110.5
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccCCCc-----EEEEeeEEecccchhhhcccccccccEEEEEEEEcCCC-CHHHHH
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLENKL-----VRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRPL-QDEDFQ 458 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~~~~-----V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~v-t~e~l~ 458 (557)
++=|-.|+-..|.+-+..+...++...-|. -.+.++=.+--....++-.--....|.|.|.+++.... ++++++
T Consensus 17 il~ldKP~G~tS~~~v~~vkkil~~~K~GH~GTLDP~atGvLpi~ig~aTKl~~~l~~~~K~Y~a~~~lG~~t~~~e~i~ 96 (271)
T COG0130 17 VINLDKPPGPTSHEVVAWVKRILGVEKAGHGGTLDPLATGVLPICLGEATKLVQYLLDADKEYVATVRLGDQTDSEEEVR 96 (271)
T ss_pred eEEeeCCCCCCHHHHHHHHHHHhCccccccccccCCcccceEEEEechhHhHHHHHhhCCcEEEEEEEeCCcCCCHHHHH
Confidence 444566776557777777777776532210 11111111111111222222233459999999999988 889998
Q ss_pred H-hhcccCceeeccCCcEEEeecCCCceeeEEEEEEEEEEcCCccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCC
Q 008711 459 T-ISSLKETQILQKTPIRVLHRRSPLEREKIINWMKIEKIAGSSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGC 537 (557)
Q Consensus 459 ~-l~~l~~~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~ 537 (557)
+ |..|.| .|.|.+|+...-+|. +|.|.||..++..++.....+.+++.|++||||.-++|. ||..||+
T Consensus 97 ~~l~~F~G-~I~Q~PP~~SAvK~~--v~~R~V~i~~l~~~~~~~~~~~~~v~CskGTYIRtL~~D--------lG~~LG~ 165 (271)
T COG0130 97 AALEAFTG-EIYQIPPMFSAVKRE--VERRKITIYDLLELDFDRNLVTLRVECSKGTYIRTLARD--------LGEALGC 165 (271)
T ss_pred HHHHhcce-eeEecCCchhhccce--EeeEEEEEEEeeeccCCCceEEEEEEEecCcCHHHHHHH--------HHHHHCC
Confidence 8 899999 899999999998866 455889888888888766799999999999999999998 9999999
Q ss_pred ccEEEEEEEEE
Q 008711 538 RAEILQLDVTD 548 (557)
Q Consensus 538 ~a~ileLDV~~ 548 (557)
.|++.+|-=+.
T Consensus 166 gahm~~LrRt~ 176 (271)
T COG0130 166 GAHMSELRRTR 176 (271)
T ss_pred ccchhhhcccc
Confidence 99998875443
No 9
>cd00506 PseudoU_synth_TruB_like PseudoU_synth_TruB: Pseudouridine synthase, TruB family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruB, Saccharomyces cerevisiae Pus4, M. tuberculosis TruB, S. cerevisiae Cbf5 and human dyskerin. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E. coli TruB, M. tuberculosis TruB and S. cerevisiae Pus4, make psi55 in the T loop of tRNAs. Pus4 catalyses the formation of psi55 in both cytoplasmic and mitochondrial tRNAs. Psi55 is almost universally conserved. S. cerevisiae Cbf5 and human dyskerin are nucleolar proteins that, with the help of guide RNAs, make the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Cbf5/Dyskerin is the catalytic subunit of eukaryotic box H/ACA small nucleolar ribonucleoprotein (snoRNP) particles. Mutations in human dysker
Probab=98.74 E-value=1.2e-07 Score=94.19 Aligned_cols=148 Identities=19% Similarity=0.261 Sum_probs=106.8
Q ss_pred EEccCccCCcHHHHHHHHHHHhcc-----------CCCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcCC----
Q 008711 387 EIQNAREVPSELLVKEIESKINSL-----------ENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRP---- 451 (557)
Q Consensus 387 Ei~nPr~~~~~~~~~~l~~~In~~-----------~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~---- 451 (557)
=|..|.-..+..-+..+...+|.. +.| |-+-.+.-.+| .+..+. ...|.|.|.+.+...
T Consensus 4 ~i~KP~g~tS~~vv~~ik~~~~~kKvGH~GTLDP~AsG-vLiv~vG~aTk-l~~~~~----~~~K~Y~~~~~lG~~TdT~ 77 (210)
T cd00506 4 AVDKPQGPSSHDVVDTIRRIFLAEKVGHGGTLDPFATG-VLVVGIGKATK-LLKHLL----AATKDYTAIGRLGQATDTF 77 (210)
T ss_pred EEEcCCCCCHHHHHHHHHHHhCccccCCCCcCCCcCee-EEEEEECHHHh-hhHHHh----cCCceEEEEEEECCcCCCC
Confidence 355576555666677777766542 122 22222222221 122222 256999999996532
Q ss_pred --------------CCHHHHHH-hhcccCceeeccCCcE----EEeecC-----------CCceeeEEEEEEEEEEcCCc
Q 008711 452 --------------LQDEDFQT-ISSLKETQILQKTPIR----VLHRRS-----------PLEREKIINWMKIEKIAGSS 501 (557)
Q Consensus 452 --------------vt~e~l~~-l~~l~~~~I~QrTP~R----VlHRR~-----------~~~R~R~I~~~~~~~i~~~~ 501 (557)
++.+++++ +..|.| .|.|.+|.. |-.+|+ ...|+..||++++...+...
T Consensus 78 D~~G~v~~~~~~~~it~e~l~~~l~~f~G-~i~Q~pP~ySAvKv~G~raYelAR~G~~v~~~~r~v~I~~i~ll~~~~~~ 156 (210)
T cd00506 78 DATGQVIEETPYDHITHEQLERALETLTG-DIQQVPPLYSAVKRQGQRAYELARRGLLVPDEARPPTIYELLCIRFNPPH 156 (210)
T ss_pred CCCCCEEEEeCCCCCCHHHHHHHHHHCCC-eEEEeCCchheEEECCHhHHHHHHCCCccccCcEeEEEEEEEEEEEcCCC
Confidence 68888888 889999 899999976 444444 77899999999998876421
Q ss_pred cEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 502 QYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 502 ~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
..+.+++.|+.||||+.|+|. ||..||+.|.+.+|.-+.+
T Consensus 157 ~~~~~~v~cs~GTYIRsL~~D--------ig~~Lg~~a~l~~L~R~~~ 196 (210)
T cd00506 157 FLLEVEVVCETGTYIRTLIHD--------LGLELGVGAHVTELRRTRV 196 (210)
T ss_pred cEEEEEEEECCCcCHHHHHHH--------HHHHhCCcEEEEEEEEEEE
Confidence 488999999999999999996 9999999999999998876
No 10
>PRK00020 truB tRNA pseudouridine synthase B; Provisional
Probab=98.39 E-value=5.3e-06 Score=84.06 Aligned_cols=148 Identities=18% Similarity=0.307 Sum_probs=107.2
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcC---
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISR--- 450 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~--- 450 (557)
++=|..|.-..|..-+..+...++... .| |-+-.+.-.+ ++-+--....|.|.|.+++..
T Consensus 12 il~vdKP~G~TS~dvv~~vkr~~~~kKvGH~GTLDP~AtG-vLiv~iG~aT-----Kl~~~l~~~~K~Y~a~~~lG~~Td 85 (244)
T PRK00020 12 VLLLDKPVGLSSNHALQRAKRTVDAAKAGHTGTLDPFATG-LLVCCMGRAT-----KISGRMLEADKTYQATLQFGEETD 85 (244)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhCCCCCCcCCcCCCcCee-EEEEEECHHh-----hhhHHhccCCcEEEEEEEeCCccc
Confidence 566777876667777777777665422 12 2222221112 222222334499999998764
Q ss_pred -----------------CCCHHHHHH-hhcccCceeeccCCcEEEeecC---------------CCceeeEEEEEEEEEE
Q 008711 451 -----------------PLQDEDFQT-ISSLKETQILQKTPIRVLHRRS---------------PLEREKIINWMKIEKI 497 (557)
Q Consensus 451 -----------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR~---------------~~~R~R~I~~~~~~~i 497 (557)
.++.+++++ |..|.| +|.|..|.-...+.. ...|+-+||++++...
T Consensus 86 T~D~~G~v~~~~~~~~~~it~e~l~~~l~~f~G-~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~ 164 (244)
T PRK00020 86 SGDLTGHIVARAPDGFAGVEEAALRDVLSRFVG-TIEQIPPMYSALKRDGKPLYEYARAGIELDRPPRQVTIRHIELLSF 164 (244)
T ss_pred CCCCCCcEEEeccCccCCCCHHHHHHHHHhccC-eEEEeCChhheEEECCeEHHHHHhCCcccccCCeeEEEEEEEEEEE
Confidence 277888887 889999 799999976655433 3468889999999888
Q ss_pred cCCccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 498 AGSSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 498 ~~~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
+. ..+.+++.|+.||||.-++|. ||..||+.+.+.+|-=+.+
T Consensus 165 ~~--~~~~~~v~cSkGTYIRSL~~D--------iG~~Lg~~a~l~~LrRt~~ 206 (244)
T PRK00020 165 SG--MQAQIDVACSKGTYIRTLAQD--------IGRALGCHAHLAALRRTHV 206 (244)
T ss_pred eC--CEEEEEEEECCCcCHHHHHHH--------HHHHHCCCEEEEEEEeeEE
Confidence 64 588999999999999999998 9999999999998876654
No 11
>PRK02755 truB tRNA pseudouridine synthase B; Provisional
Probab=98.37 E-value=1.2e-06 Score=91.04 Aligned_cols=149 Identities=17% Similarity=0.228 Sum_probs=106.4
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhcc-----------CCCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcC---
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSL-----------ENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISR--- 450 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~-----------~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~--- 450 (557)
++=|..|.-..|..-+..+...++.. +.| |-+--+.-.+|- ...+. . .|.|+|.+++..
T Consensus 5 il~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtG-vL~i~vG~aTkl-~~~l~----~-~K~Y~a~~~lG~~Td 77 (295)
T PRK02755 5 FLNLDKPAGLTSHDCVARLRRLLRLKRVGHGGTLDPAATG-VLPIALGKATRL-LPYLP----G-EKTYRGTIRFGVRTS 77 (295)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhCCCccccCCCCCCcCee-EEEEEEChhhhh-HHHhC----C-CcEEEEEEEECCccc
Confidence 44456676555666666666666542 122 333333333321 23332 1 499999999875
Q ss_pred ---------------CCCHHHHHH-hhcccCceeeccCCcEEEee----c-----------CCCceeeEEEEEEEEEEcC
Q 008711 451 ---------------PLQDEDFQT-ISSLKETQILQKTPIRVLHR----R-----------SPLEREKIINWMKIEKIAG 499 (557)
Q Consensus 451 ---------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHR----R-----------~~~~R~R~I~~~~~~~i~~ 499 (557)
+++.++++. |..|.| +|.|..|.-...+ | ....|+-+||++++..++.
T Consensus 78 T~D~~G~v~~~~~~~~~~~~~l~~~l~~f~G-~i~Q~PP~ySAvKv~G~r~Y~lAR~G~~ve~~~r~v~I~~~~l~~~~~ 156 (295)
T PRK02755 78 TDDLQGEILSSQPWPHLSLAEIETALPQFRG-KIEQRPPQYSAIQVDGERLYALARRGETMELPARTVTIFRLQLLDWRP 156 (295)
T ss_pred CCCCCCCEEEecCCCCCCHHHHHHHHHhccC-eEEEeCChhheEeeCCHhHHHHHHCCCccccCceEEEEEEEEEEEEcC
Confidence 478888887 899999 7999999765554 2 2447889999999988753
Q ss_pred -CccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 500 -SSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 500 -~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
...+|.+++.|+.||||.-++|. ||..||+.|++.+|-=+.+
T Consensus 157 ~~~~~~~~~v~cskGTYIRsL~~D--------iG~~Lg~~a~m~~LrRt~~ 199 (295)
T PRK02755 157 GDQPELDLEIHCGAGTYIRSLARD--------LGAVLGTGGTLAALRRTQS 199 (295)
T ss_pred CCCceEEEEEEECCCcCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 13588999999999999999998 9999999999999866544
No 12
>PRK04099 truB tRNA pseudouridine synthase B; Provisional
Probab=98.35 E-value=6.9e-06 Score=84.55 Aligned_cols=147 Identities=14% Similarity=0.221 Sum_probs=103.8
Q ss_pred EEEccCccCCcHHHHHHHHHHHhcc-----------CCCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcCC---
Q 008711 386 FEIQNAREVPSELLVKEIESKINSL-----------ENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRP--- 451 (557)
Q Consensus 386 lEi~nPr~~~~~~~~~~l~~~In~~-----------~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~--- 451 (557)
+=+..|.-..|..-+..+....+.. +.| |-+-.+.-.+| -+..+ ....|.|.|.+|+...
T Consensus 5 l~vdKP~g~tS~~vv~~ikk~~~~kKvGH~GTLDP~AtG-vLiv~iG~aTK-l~~~l----~~~~K~Y~a~~~lG~~TdT 78 (273)
T PRK04099 5 FVANKPAGMSSNAFLSRLKRKYGVKKAGFSGTLDPFAKG-VLIVAFGQYTK-LFRFL----KKTPKTYRATLWLGASSPS 78 (273)
T ss_pred EEEeCCCCCCHHHHHHHHHHHhCCCccccCccCCCCCee-EEEEEEChHhh-hHHHh----ccCCceEEEEEEECCcccC
Confidence 3455676555666666776655532 122 22222222222 12222 2336999999997533
Q ss_pred --------------CCHHHHHH-hhcccCceeeccCCcEEEeecC---------------CCceeeEEEEEEEEEEcCCc
Q 008711 452 --------------LQDEDFQT-ISSLKETQILQKTPIRVLHRRS---------------PLEREKIINWMKIEKIAGSS 501 (557)
Q Consensus 452 --------------vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR~---------------~~~R~R~I~~~~~~~i~~~~ 501 (557)
++.++++. |.+|.| +|.|..|.=...+.. +..|+.+||++++...+.
T Consensus 79 ~D~e~i~~~~~~~~~~~~~i~~~l~~f~G-~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~~~ll~~~~-- 155 (273)
T PRK04099 79 LDIENIESIQIIKPFDKDLIEKILKSLQG-EISYTPPKFSAKKINGKRAYELARKGEEFELKPITMEIFDCKLLSYNH-- 155 (273)
T ss_pred CCCcceEEeccCCCCCHHHHHHHHHhCcc-eEEEeCChhhEEeeCCHhHHHHHhCCcccccCceeEEEEEEEEEEEeC--
Confidence 68888887 889999 799999965554422 456999999999887753
Q ss_pred cEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 502 QYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 502 ~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
.+|.+++.|+.||||.-++|. ||..||+.|.+.+|-=+.+
T Consensus 156 p~~~f~v~cs~GTYIRSL~~D--------ig~~Lg~~a~m~~LrRt~~ 195 (273)
T PRK04099 156 PFLTFEITVSEGAYIRSLGEL--------IAKKLGVNGTLSSLERLSE 195 (273)
T ss_pred CEEEEEEEECCCCCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 688999999999999999998 9999999999999876554
No 13
>PRK05033 truB tRNA pseudouridine synthase B; Provisional
Probab=98.33 E-value=5.4e-06 Score=86.79 Aligned_cols=148 Identities=18% Similarity=0.286 Sum_probs=108.0
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcC---
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISR--- 450 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~--- 450 (557)
++=|..|.-..|..-+..+...++... .| |-+-.+.-.+| ....+ ....|.|+|.+.+..
T Consensus 12 il~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtG-vL~v~vG~aTk-l~~~~----~~~~K~Y~a~~~lG~~Td 85 (312)
T PRK05033 12 VLLLDKPQGMSSNDALQKVKRLFNANKAGHTGALDPLATG-MLPICLGEATK-FSQYL----LDSDKRYRVTARLGQRTD 85 (312)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCcCCCcCee-EEEEEECHHhh-hhHHh----cCCCcEEEEEEEECCccc
Confidence 555677776556666777777665421 12 32322222222 12222 234699999998764
Q ss_pred --------------CCCHHHHHH-hhcccCceeeccCCcEEEee---------------cCCCceeeEEEEEEEEEEcCC
Q 008711 451 --------------PLQDEDFQT-ISSLKETQILQKTPIRVLHR---------------RSPLEREKIINWMKIEKIAGS 500 (557)
Q Consensus 451 --------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHR---------------R~~~~R~R~I~~~~~~~i~~~ 500 (557)
+++.+++++ |..|.| .|.|..|.-...+ .....|+-.||++++...+.
T Consensus 86 T~D~~G~v~~~~~~~~t~~~l~~~l~~f~G-~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~- 163 (312)
T PRK05033 86 TSDADGEVVEERPVTLSAEQLEAALEKFRG-DIEQVPSMYSALKYQGQPLYEYARQGIEVEREARPITIYELELIRFEG- 163 (312)
T ss_pred CCCCCCCEEEeecCCCCHHHHHHHHHHCcC-cEEEeCChhHeEeeCCeEHHHHHhCCcccccCceeEEEEEEEEeeEeC-
Confidence 478889988 899999 7999999766554 23558899999999988764
Q ss_pred ccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 501 SQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 501 ~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
.+|.+++.|+.||||.-++|. ||..||+.|.+.+|-=+.+
T Consensus 164 -~~~~~~v~cs~GTYIRsL~~D--------ig~~Lg~~a~~~~LrRt~~ 203 (312)
T PRK05033 164 -DELELEVHCSKGTYIRTLVDD--------LGEKLGCGAHVIYLRRTQV 203 (312)
T ss_pred -CEEEEEEEECCCCCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 689999999999999999998 9999999999999865544
No 14
>KOG2364 consensus Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=98.31 E-value=1.6e-08 Score=105.95 Aligned_cols=121 Identities=11% Similarity=0.034 Sum_probs=103.4
Q ss_pred EEEeeEEecccchhhhcccccccccEEEEEEEEcCCCCHHHHHHhhcccCceeeccCCcEEEeecCCCceeeEEEEEEEE
Q 008711 416 RVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRPLQDEDFQTISSLKETQILQKTPIRVLHRRSPLEREKIINWMKIE 495 (557)
Q Consensus 416 ~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~vt~e~l~~l~~l~~~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~ 495 (557)
...+|++++...+.+.+.|+..|-+.|++++++.-+.+..-|.. .+.-...|+||++++|+++ .|++ ||+.-+.
T Consensus 294 ~~~~lqV~~l~~v~re~~~~~~kgee~k~k~y~a~~~s~k~i~~---~q~~~~~~~~~lki~qktp--~Rv~-irer~i~ 367 (433)
T KOG2364|consen 294 LYGGLDVKNLCVVRRECKDMIFKGEEQKSKIYSAFLCCRRPIVL---QKNYKVRQRTPLKILQKTP--NRVR-IRERCIL 367 (433)
T ss_pred ccCCeeeeeheeehHHhhhhhhhchhHHHHHHHHhhhhhhhHHH---HhHHHHhccCccchhhhcc--cchh-hhhhhhh
Confidence 35589999999999999999999999999999998888555544 4445688999999999888 7888 7776666
Q ss_pred EEcCCccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEE
Q 008711 496 KIAGSSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQ 543 (557)
Q Consensus 496 ~i~~~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ile 543 (557)
.....+.- ..++++++|||++++|||-+|+|.|+.+..||...++..
T Consensus 368 ~me~~~~d-~hhf~v~leTqagtyIkefvhgdfgrt~psl~sl~nv~~ 414 (433)
T KOG2364|consen 368 GMEKMEAD-WHHFRVVLETQAGTYIKEFVHGDFGRTAPSLSSLENVCD 414 (433)
T ss_pred hhccCccc-ceEEEEeehhhhhhHHHHHhcCCccccCccccchhhhhh
Confidence 66655555 899999999999999999999999999999999988875
No 15
>PRK05389 truB tRNA pseudouridine synthase B; Provisional
Probab=98.31 E-value=6.6e-06 Score=85.93 Aligned_cols=149 Identities=17% Similarity=0.232 Sum_probs=106.6
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhcc-----------CCCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcCC--
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSL-----------ENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRP-- 451 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~-----------~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~-- 451 (557)
++=|..|.-..|..-+..+...++.. +.| |-+-.+.-.+|- ...+ ....|.|+|.+.+...
T Consensus 15 il~i~KP~G~TS~dvv~~vrk~~~~kKvGH~GTLDP~AtG-vL~v~vG~aTkl-~~~l----~~~~K~Y~a~~~lG~~Td 88 (305)
T PRK05389 15 WLILDKPAGMTSTEAVSKVKWLFDAQKAGHAGTLDPLASG-VLPIALGEATKT-VPYV----MDGTKRYRFTVAWGEERD 88 (305)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhcccccCCcccCCCCCce-EEEEEEChhhhh-hHHh----ccCCcEEEEEEEECCccc
Confidence 56677787666666677776655532 122 222222222211 1222 2346999999997533
Q ss_pred ---------------CCHHHHHH-hhcccCceeeccCCcEEEeecC---------------CCceeeEEEEEEEEEEcCC
Q 008711 452 ---------------LQDEDFQT-ISSLKETQILQKTPIRVLHRRS---------------PLEREKIINWMKIEKIAGS 500 (557)
Q Consensus 452 ---------------vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR~---------------~~~R~R~I~~~~~~~i~~~ 500 (557)
++.++++. |..|.| +|.|..|.-...+.. ...|+-.||++++...++
T Consensus 89 T~D~~G~v~~~~~~~~~~~~i~~~l~~f~G-~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~- 166 (305)
T PRK05389 89 TDDLEGEVTATSDVRPTDEEIRAALPAFTG-EIMQVPPQFSAIKIDGERAYDLAREGETVELPARPVEIDRLTLVERPD- 166 (305)
T ss_pred CCCCCCCEEEecCCCCCHHHHHHHHHhccc-eEEEeCCchheEEECCHhHHHHHHCCCccccCceEEEEEEEEEEEecC-
Confidence 78888887 899999 799999976555433 567889999999988743
Q ss_pred ccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 501 SQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 501 ~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
..+|.+++.|+.||||.-++|. ||..||+.|++.+|-=+.+
T Consensus 167 ~~~~~~~v~cskGTYIRsL~~D--------iG~~Lg~~a~~~~LrRt~~ 207 (305)
T PRK05389 167 ADHAVFEVECGKGTYVRSLARD--------LGRALGCYGHIAALRRTRV 207 (305)
T ss_pred CCeEEEEEEeCCCCCHHHHHHH--------HHHHHCCCeEEEEEEeEEE
Confidence 3588999999999999999998 9999999999998866544
No 16
>cd02573 PseudoU_synth_EcTruB PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruB and M. tuberculosis TruB make psi55 in the T loop of tRNAs. Psi55 is nearly universally conserved. E. coli TruB is not inhibited by RNA containing 5-fluorouridine.
Probab=98.30 E-value=1.1e-05 Score=83.18 Aligned_cols=154 Identities=16% Similarity=0.216 Sum_probs=104.5
Q ss_pred EEccCccCCcHHHHHHHHHHHhccCCC-----cEEEEeeEEecccchhhhcccccccccEEEEEEEEc------------
Q 008711 387 EIQNAREVPSELLVKEIESKINSLENK-----LVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWIS------------ 449 (557)
Q Consensus 387 Ei~nPr~~~~~~~~~~l~~~In~~~~~-----~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~------------ 449 (557)
=|-.|.-..|..-+..+...++...-| +-...++=++--....++-+--....|.|+|.+.+.
T Consensus 4 ~i~KP~G~tS~~vv~~vr~~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~~~~~~G~~TdT~D~~G~v 83 (277)
T cd02573 4 LLDKPAGLTSHDVVQKVRRLLGTKKVGHTGTLDPLATGVLPIALGEATKLSQYLLDADKTYRATVRLGEATDTDDAEGEI 83 (277)
T ss_pred EEECCCCCCHHHHHHHHHHHhCcCccCCCCCCCCcCeEEEEEEEChHHhhHHHhcCCCcEEEEEEEECCcccCCCCCCCE
Confidence 345576555666666776666542111 001112212211111112222223569999999975
Q ss_pred ------CCCCHHHHHH-hhcccCceeeccCCcEEEee---------------cCCCceeeEEEEEEEEEEcCCccEEEEE
Q 008711 450 ------RPLQDEDFQT-ISSLKETQILQKTPIRVLHR---------------RSPLEREKIINWMKIEKIAGSSQYFLLH 507 (557)
Q Consensus 450 ------~~vt~e~l~~-l~~l~~~~I~QrTP~RVlHR---------------R~~~~R~R~I~~~~~~~i~~~~~~f~l~ 507 (557)
..++.+++++ |+.|.| .|.|..|.-...+ .....|+-.||++++...+....+|.++
T Consensus 84 ~~~~~~~~~~~~~i~~~l~~f~G-~i~Q~PP~ySAvkv~G~raYelAR~G~~ve~~~r~v~I~~i~ll~~~~~~~~~~~~ 162 (277)
T cd02573 84 IETSPPPRLTEEEIEAALKAFTG-EIEQVPPMYSAVKVNGKRLYELARAGEEVERPPRKVTIYSLELLSFDPENPEADFE 162 (277)
T ss_pred EEecCCCCCCHHHHHHHHHHccC-cEEeeCChhHeEeeCCccHHHHHhCCCccccCCeeEEEEEEEEEEecCCCCeEEEE
Confidence 2378888887 889999 7999999765554 3456899999999998876322589999
Q ss_pred EEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 508 MCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 508 l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
+.|+.||||.-++|. ||..||+.|.+.+|-=+.+
T Consensus 163 v~cs~GTYIRsL~~D--------ig~~Lg~~a~~~~L~Rt~~ 196 (277)
T cd02573 163 VECSKGTYIRSLARD--------LGKALGCGAHLSALRRTRS 196 (277)
T ss_pred EEECCCCcHHHHHHH--------HHHHHCCCeEEEEEEEEEE
Confidence 999999999999998 9999999999998865544
No 17
>PRK00130 truB tRNA pseudouridine synthase B; Provisional
Probab=98.30 E-value=6.5e-06 Score=85.48 Aligned_cols=147 Identities=22% Similarity=0.254 Sum_probs=105.5
Q ss_pred EEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcC----
Q 008711 386 FEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISR---- 450 (557)
Q Consensus 386 lEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~---- 450 (557)
+=|-.|.-..|..-+..+...++... .| |-+-.+.-.+| ....+. ...|.|.|.+.+..
T Consensus 5 l~i~KP~G~tS~dvv~~vrr~~~~kKvGH~GTLDP~AtG-vL~v~vG~aTk-l~~~l~----~~~K~Y~a~~~lG~~TdT 78 (290)
T PRK00130 5 LNILKPPGMTSFDVVRKIRKIAKIKKVGHTGTLDPLASG-VLPVCLGKATK-IVDYLM----EGKKTYRAEIKLGVETDT 78 (290)
T ss_pred EEEeCCCCCCHHHHHHHHHHHhCCCccCcCCCCCCCCee-EEEEEEChhhh-hHHHhc----cCCcEEEEEEEECCcccC
Confidence 34556765556666777776665421 22 22222222222 122222 33599999998753
Q ss_pred --------------CCCHHHHHH-hhcccCceeeccCCcEEEee---------------cCCCceeeEEEEEEEEEEcCC
Q 008711 451 --------------PLQDEDFQT-ISSLKETQILQKTPIRVLHR---------------RSPLEREKIINWMKIEKIAGS 500 (557)
Q Consensus 451 --------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHR---------------R~~~~R~R~I~~~~~~~i~~~ 500 (557)
+++.+++++ |..|.| +|.|..|.-...+ .....|+-.||++++...+.
T Consensus 79 ~D~~G~i~~~~~~~~~t~~~l~~~l~~f~G-~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~~~~- 156 (290)
T PRK00130 79 YDREGEILKEKEVSHLTEEEIREAILSFQG-EIDQVPPMYSALKINGKKLYELARQGIEVEREARKITIYDIEILEIDL- 156 (290)
T ss_pred CCCCCCEEEecCCCCCCHHHHHHHHHHccC-eEEEECChHHeEecCCHhHHHHHHCCCccccCceEEEEEEEEEEEEeC-
Confidence 378888888 899999 8999999776665 22457899999999988764
Q ss_pred ccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 501 SQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 501 ~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
.+|.+++.|+.||||.-++|. ||..||+.|++.+|-=+.+
T Consensus 157 -~~~~~~v~cskGTYIRsL~~D--------ig~~Lg~~a~~~~LrRt~~ 196 (290)
T PRK00130 157 -PYVIFDVKCSKGTYIRSLCFD--------IGEKLNCGAYMWNLIRTET 196 (290)
T ss_pred -CeEEEEEEECCCCCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 689999999999999999998 9999999999998865544
No 18
>PRK02193 truB tRNA pseudouridine synthase B; Provisional
Probab=98.28 E-value=1.1e-05 Score=83.46 Aligned_cols=150 Identities=16% Similarity=0.199 Sum_probs=105.2
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhcc-----------CCCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcC---
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSL-----------ENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISR--- 450 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~-----------~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~--- 450 (557)
++=|..|.-..|..-+..+...++.. +.| |-+-.+.-.+| ....+ ....|.|.|.+++..
T Consensus 2 il~i~KP~G~tS~dvv~~vrr~~~~kKvGH~GTLDP~AtG-vL~v~vG~aTk-l~~~l----~~~~K~Y~a~~~lG~~Td 75 (279)
T PRK02193 2 IKLLYKPKGISSFKFIKNFAKTNNIKKIGHTGTLDPLASG-LLLVATDEDTK-LIDYL----DQKDKTYIAKIKFGFIST 75 (279)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCCccccCccCCCcCee-EEEEEEChhhh-hhHHh----ccCCcEEEEEEEeCCccc
Confidence 34456676555666666666655542 122 22222222222 12222 344599999998762
Q ss_pred ---------------CCCHHHHHH-hhcccCceeeccCCcEEEee---------------cCCCceeeEEEEEEEEEEcC
Q 008711 451 ---------------PLQDEDFQT-ISSLKETQILQKTPIRVLHR---------------RSPLEREKIINWMKIEKIAG 499 (557)
Q Consensus 451 ---------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHR---------------R~~~~R~R~I~~~~~~~i~~ 499 (557)
+++.++++. |++|.| +|.|..|.-..-+ .....|+-.||++++...+.
T Consensus 76 T~D~~G~i~~~~~~~~~~~~~l~~~l~~f~G-~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~ 154 (279)
T PRK02193 76 TYDSEGQIINVSQNIKVTKENLEEALNNLVG-SQKQVPPVFSAKKVNGKRAYDLARQGKQIELKPIEIKISKIELLNFDE 154 (279)
T ss_pred CCCCCCCEEeecCCCCCCHHHHHHHHHhCcC-eEEEeCChHHeEeeCCHhHHHHHhCCceeccCCeeEEEEEEEEEEEcC
Confidence 367888887 889999 8999999765555 34556777999999988764
Q ss_pred CccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 500 SSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 500 ~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
....+.+++.|+.||||.-++|. ||..||+.|++.+|-=+.+
T Consensus 155 ~~~~~~~~v~cskGTYIRsL~~D--------iG~~Lg~~a~~~~LrRt~~ 196 (279)
T PRK02193 155 KLQNCVFMWVVSRGTYIRSLIHD--------LGKMLKTGAYMSDLERTKI 196 (279)
T ss_pred CCceEEEEEEECCCcCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 22578999999999999999998 9999999999998866544
No 19
>TIGR00431 TruB tRNA pseudouridine 55 synthase. TruB, the tRNA pseudouridine 55 synthase, converts uracil to pseudouridine in the T loop (not the anticodon loop - beware mis-annotation in Swiss-Prot) of most tRNAs of all three domains of life. This model is built on a seed alignment of bacterial proteins only. Saccharomyces cerevisiae protein YNL292w (Pus4) has been shown to be the pseudouridine 55 synthase of both cytosolic and mitochondrial compartments, active at no other position on tRNA and the only enzyme active at that position in the species. A distinct yeast protein YLR175w, (centromere/microtubule-binding protein CBF5) is an rRNA pseudouridine synthase, and the archaeal set is much more similar to CBF5 than to Pus4. It is unclear whether the archaeal proteins found by this model are tRNA pseudouridine 55 synthases like TruB, rRNA pseudouridine synthases like CBF5, or (as suggested by the absence of paralogs in the Archaea) both. CBF5 likely has additional, eukaryotic-specific
Probab=98.28 E-value=1.3e-05 Score=79.66 Aligned_cols=147 Identities=18% Similarity=0.248 Sum_probs=105.1
Q ss_pred EEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcCC---
Q 008711 386 FEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRP--- 451 (557)
Q Consensus 386 lEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~--- 451 (557)
+=|..|.-..|..-+..+...++... .| |-+-.+.-.+| ....+ ....|.|.|.+.+...
T Consensus 5 l~v~KP~g~tS~~vv~~vkk~~~~kKvGH~GTLDP~AsG-vLiv~vG~~Tk-l~~~~----~~~~K~Y~~~~~~G~~TdT 78 (209)
T TIGR00431 5 LLLDKPQGMTSFDALAKVRRLLNVKKVGHTGTLDPFATG-VLPILVGKATK-LSPYL----TDLDKEYRAEIRLGVRTDT 78 (209)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCCCcCce-EEEEEEChHhh-hhHHH----cCCCCeEEEEEEECCcCCC
Confidence 44556765556666777777665431 12 22222222221 12222 2456999999987643
Q ss_pred --------------CCHHHHHH-hhcccCceeeccCCcEEEee---------------cCCCceeeEEEEEEEEEEcCCc
Q 008711 452 --------------LQDEDFQT-ISSLKETQILQKTPIRVLHR---------------RSPLEREKIINWMKIEKIAGSS 501 (557)
Q Consensus 452 --------------vt~e~l~~-l~~l~~~~I~QrTP~RVlHR---------------R~~~~R~R~I~~~~~~~i~~~~ 501 (557)
++.+++++ +.+|.| +|.|..|.-...+ .+...|+-.||++++...+.
T Consensus 79 ~D~~G~i~~~~~~~~~~~~l~~~l~~f~G-~~~Q~PP~ySA~Kv~G~raYelAR~g~~v~~~~r~v~I~~i~ll~~~~-- 155 (209)
T TIGR00431 79 LDPDGQIVETRPVNPTTEDVEAALPTFRG-EIEQIPPMYSALKVNGKRLYEYARQGIEVERKARPVTVYDLQFLKYEG-- 155 (209)
T ss_pred CCCCCCEEEecCCCCCHHHHHHHHHHccC-cEEEECChhhEEeeCCHhHHHHHHCCCccccCcceeEEEEEEEEEEcC--
Confidence 45677887 889999 7999999776655 33568899999999887764
Q ss_pred cEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 502 QYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 502 ~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
.+|.+++.|+.||||.-++|. ||..||+.|.+.+|-=+.+
T Consensus 156 ~~~~~~v~cs~GTYIRsL~~D--------ig~~L~~~a~l~~L~Rt~~ 195 (209)
T TIGR00431 156 PELTLEVHCSKGTYIRTLARD--------LGEKLGCGAYVSHLRRTAV 195 (209)
T ss_pred CcEEEEEEECCCCCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 589999999999999999998 9999999999999866554
No 20
>PRK01851 truB tRNA pseudouridine synthase B; Provisional
Probab=98.24 E-value=1e-05 Score=84.51 Aligned_cols=148 Identities=15% Similarity=0.215 Sum_probs=105.7
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcC---
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISR--- 450 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~--- 450 (557)
++=|..|.-..|..-+..+...++... .| |-+--+.-.+| ....+ ....|.|.|.+.+..
T Consensus 18 il~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtG-vL~v~vG~aTk-l~~~l----~~~~K~Y~~~~~lG~~Td 91 (303)
T PRK01851 18 VLLLDKPLGLSSNDALQRAKRLLRAKKAGHTGTLDPLATG-LLPLCFGEATK-FSQDL----LDADKTYEATLRLGVRTS 91 (303)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhCcccCCCCCCCCCCCce-EEEEEECHHHh-hhHHh----cccCeEEEEEEEECCccC
Confidence 555677876566666777777665421 22 22222222222 12222 233499999998763
Q ss_pred --------------CCCHHHHHH-hhcccCceeeccCCcEEEeec---------------CCCceeeEEEEEEEEEEcCC
Q 008711 451 --------------PLQDEDFQT-ISSLKETQILQKTPIRVLHRR---------------SPLEREKIINWMKIEKIAGS 500 (557)
Q Consensus 451 --------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR---------------~~~~R~R~I~~~~~~~i~~~ 500 (557)
+++.++++. |..|.| .|.|..|.=...+. ....|+-.||++++...+.
T Consensus 92 T~D~~G~v~~~~~~~~t~~~i~~~l~~f~G-~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~R~v~I~~i~ll~~~~- 169 (303)
T PRK01851 92 TGDAEGEVLATRPVDCDPAALEAALARFTG-EIRQVPPMYSALKKDGKPLYEYARAGITVEREARDVTIHALDLLACDL- 169 (303)
T ss_pred CCCCCCCEEeecCCCCCHHHHHHHHHhccC-eeeeeCCchheEeeCCeeHHHHHhCCCccccCCcceEEEEEEEEEEeC-
Confidence 268888887 899999 79999996544332 2457888999999988764
Q ss_pred ccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 501 SQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 501 ~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
.+|.+++.|+.||||.-++|. ||..||+.|++.+|-=+.+
T Consensus 170 -~~~~~~v~cskGTYIRsL~~D--------iG~~Lg~~a~~~~LrRt~~ 209 (303)
T PRK01851 170 -PDVTIRVTCSKGTYIRTLAED--------IGEALGCGAHLTALRRTGV 209 (303)
T ss_pred -CEEEEEEEECCCCCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 689999999999999999998 9999999999998865544
No 21
>PRK14124 tRNA pseudouridine synthase B; Provisional
Probab=98.23 E-value=9.9e-06 Score=84.73 Aligned_cols=148 Identities=19% Similarity=0.240 Sum_probs=104.4
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEc----
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWIS---- 449 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~---- 449 (557)
++=|..|.-..|..-+..+...++... .| |-+-.+.-.+| -...+. ...|.|+|.+++.
T Consensus 5 il~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtG-vL~v~vG~aTk-l~~~l~----~~~K~Y~a~~~lG~~Td 78 (308)
T PRK14124 5 FLVAYKPKGPTSHDVVDEVRKKLKTRKVGHAGTLDPFATG-VLIVGVNKATR-LLEYLK----NEKKVYYVKMRLGLITE 78 (308)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCCccCcCcCCCCCCcE-EEEEEEChHHh-hhHHHh----cCCceEEEEEEeCcccc
Confidence 344666766556666667766665421 22 22222222222 122222 2359999999863
Q ss_pred -------------CCCCHHHHHH-hhcccCceeeccCCcEEEeecC---------------CCceeeEEEEEEEEEEcCC
Q 008711 450 -------------RPLQDEDFQT-ISSLKETQILQKTPIRVLHRRS---------------PLEREKIINWMKIEKIAGS 500 (557)
Q Consensus 450 -------------~~vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR~---------------~~~R~R~I~~~~~~~i~~~ 500 (557)
.+++.++++. |..|.| .|.|..|.-...+.. ...|+-.||++++...+.
T Consensus 79 T~D~~G~vi~~~~~~~~~~~i~~~l~~f~G-~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~- 156 (308)
T PRK14124 79 TFDITGEVVEERECNVTEEEIREAIFSFVG-EYKQVPPAYSAKKYKGERLYKLAREGKIINLPPKEVKIYEIWDISIEG- 156 (308)
T ss_pred CCCCCCCEEEecCCCCCHHHHHHHHHhCcC-eEEEeCCchHeEEECChhHHHHHhCCCccccCceeeEEEEEEEEEEeC-
Confidence 3478888887 889999 899999976544422 446888999999988764
Q ss_pred ccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 501 SQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 501 ~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
.+|.+++.|+.||||.-++|. ||..||+.|.+.+|-=+.+
T Consensus 157 -~~~~~~v~cskGTYIRsL~~D--------iG~~Lg~~a~m~~LrRt~~ 196 (308)
T PRK14124 157 -PDVSFRVEVSPGTYIRSLCMD--------IGYKLGCGATAVELVRLSV 196 (308)
T ss_pred -CeEEEEEEECCCCCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 689999999999999999998 9999999999998865543
No 22
>PRK01550 truB tRNA pseudouridine synthase B; Provisional
Probab=98.19 E-value=2.1e-05 Score=82.30 Aligned_cols=147 Identities=20% Similarity=0.262 Sum_probs=103.5
Q ss_pred EEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcC----
Q 008711 386 FEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISR---- 450 (557)
Q Consensus 386 lEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~---- 450 (557)
+=|-.|.-..|..-+..+...++... .| |-+--+.-.+| -...+. ...|.|+|.+++..
T Consensus 5 l~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtG-vL~i~vG~aTk-l~~~l~----~~~K~Y~a~~~lG~~TdT 78 (304)
T PRK01550 5 LLLHKPRGMTSHDCVFKLRKILRTKKVGHTGTLDPEVSG-VLPICVGRATK-IAEYLT----DEGKTYEGEVTLGFSTTT 78 (304)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCCcccCCCCCCcCee-EEEEEEChhhh-hhHHhc----CCCcEEEEEEEECCcccC
Confidence 44556765556666666666555421 22 32322322232 122222 23599999999731
Q ss_pred ---------------CCCHHHHHH-hhcccCceeeccCCcEEEee-----------------cCCCceeeEEEEEEEEEE
Q 008711 451 ---------------PLQDEDFQT-ISSLKETQILQKTPIRVLHR-----------------RSPLEREKIINWMKIEKI 497 (557)
Q Consensus 451 ---------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHR-----------------R~~~~R~R~I~~~~~~~i 497 (557)
+++.++++. |..|.| .|.|..|.-...+ |+ .|+-.||++++...
T Consensus 79 ~D~~G~v~~~~~~~~~~~~~~i~~~l~~f~G-~i~Q~PP~ySAvKv~Gkr~YelAR~G~~ve~~--~r~v~I~~i~ll~~ 155 (304)
T PRK01550 79 EDADGEVVETKPVDRPITREEIEAALASLTG-TIEQIPPMYSAVKVNGKKLYEYARAGIEVERP--VRQITIHEFVLLDS 155 (304)
T ss_pred CCCCCCEEeeccCCCCCCHHHHHHHHHhccc-eEEEeCChhHeEecCCHhHHHHHHCCCccccC--CcceEEEEEEEEee
Confidence 378899988 899999 7999999877665 44 78889999998742
Q ss_pred ----cCCccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 498 ----AGSSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 498 ----~~~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
+.....|.+++.|+.||||.-++|. ||..||+.|++.+|-=+.+
T Consensus 156 ~~~~~~~~~~~~~~v~cskGTYIRsL~~D--------ig~~Lg~~a~~~~L~Rt~~ 203 (304)
T PRK01550 156 REDFEGETQSFRFRVTCSKGTYVRTLAVM--------IGEKLGYPAHMSHLVRTAS 203 (304)
T ss_pred ccccccCCceEEEEEEECCCCCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 2223689999999999999999998 9999999999999866554
No 23
>PRK01528 truB tRNA pseudouridine synthase B; Provisional
Probab=98.18 E-value=1.9e-05 Score=82.13 Aligned_cols=150 Identities=17% Similarity=0.138 Sum_probs=102.8
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcCC--
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRP-- 451 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~-- 451 (557)
++=|..|.-..|..-+..+...+|... .| |-+-.+.-.+| +-+--....|.|+|.+.+...
T Consensus 5 iL~i~KP~G~TS~dvv~~vrk~~~~kKvGH~GTLDP~AtG-vL~v~vG~aTK-----l~~~l~~~~K~Y~~~~~lG~~Td 78 (292)
T PRK01528 5 WLNIYKPRGISSAKLVSIVKKILGKVKIGHAGTLDVEAEG-VLPLAVGEATK-----LVQLLIDAKKTYIFTVKFGKQTD 78 (292)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHcCCCccCcCccCCCcCce-EEEEEEChHhh-----hhHHHhcCCceEEEEEEECCccc
Confidence 445666766556666666766665421 22 22222222221 211223345899999987532
Q ss_pred ---------------CCHHHHHH-hhcccCceeeccCCcEEEeec---------------CCCceeeEEEEEEEEEEcCC
Q 008711 452 ---------------LQDEDFQT-ISSLKETQILQKTPIRVLHRR---------------SPLEREKIINWMKIEKIAGS 500 (557)
Q Consensus 452 ---------------vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR---------------~~~~R~R~I~~~~~~~i~~~ 500 (557)
++.++++. |..|.| +|.|.+|.-..-+. ....|+-.||++++..++..
T Consensus 79 T~D~~G~v~~~~~~~~~~e~l~~~l~~f~G-~i~Q~PP~ySAvKv~G~raYelAR~G~~vel~~r~v~I~~i~ll~~~~~ 157 (292)
T PRK01528 79 SGDYAGKVIATKDYIPSKEEAYAVCSKFIG-NITQIPPAFSALKVNGVRAYKLAREGKEVELKPRNITIYDLKCLNFDEK 157 (292)
T ss_pred CCCCCCCEEEecCCCCCHHHHHHHHHhccc-eEEeeCChhHeEEECCHhHHHHHhCCcccccCceeEEEEEEEEEEEcCC
Confidence 46778887 889999 79999996544443 13457779999999887642
Q ss_pred ccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 501 SQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 501 ~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
...+.+++.|+.||||.-++|. ||..||+.|++..|-=+.+
T Consensus 158 ~~~~~~~v~cskGTYIRsL~~D--------iG~~Lg~~a~~~~LrRt~~ 198 (292)
T PRK01528 158 NATATYYTECSKGTYIRTLAED--------LALSLQSLGFVIELRRTQV 198 (292)
T ss_pred CcEEEEEEEECCCccHHHHHHH--------HHHHHCCceEEeEEEeEEE
Confidence 3578899999999999999998 9999999999998865543
No 24
>PRK04642 truB tRNA pseudouridine synthase B; Provisional
Probab=98.18 E-value=2.8e-05 Score=81.07 Aligned_cols=148 Identities=18% Similarity=0.248 Sum_probs=104.5
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEc----
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWIS---- 449 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~---- 449 (557)
++=|..|.-..|..-+..+...++... .| |-+--+.-.+ ++-+--....|.|.|.+.+.
T Consensus 12 il~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtG-vL~v~~G~aT-----kl~~~l~~~~K~Y~a~~~lG~~Td 85 (300)
T PRK04642 12 ILLLDKPAGLSSNNALQAARRLLRAEKGGHTGSLDPLATG-LLPLCFGEAT-----KIAGLLLGSAKAYDAEIVLGVTTD 85 (300)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhCCCcccCCCccCCcCee-eEEEEEChhh-----hhhHHhcCCCcEEEEEEEECcccc
Confidence 555677876556666777776665421 12 2222222222 22222233459999999761
Q ss_pred --------------CCCCHHHHHH-hhcccCceeeccCCcEEEeecC---------------CCceeeEEEEEEEEEEcC
Q 008711 450 --------------RPLQDEDFQT-ISSLKETQILQKTPIRVLHRRS---------------PLEREKIINWMKIEKIAG 499 (557)
Q Consensus 450 --------------~~vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR~---------------~~~R~R~I~~~~~~~i~~ 499 (557)
.+++.++++. |..|.| +|.|..|.-..-+.. ...|+-.||++++...+.
T Consensus 86 T~D~~G~v~~~~~~~~~~~~~l~~~l~~f~G-~i~Q~PP~ySAvKv~GkrlY~lAR~G~~ve~~~R~v~I~~~~ll~~~~ 164 (300)
T PRK04642 86 TDDADGQVLRERPVPDLSAAALQAALAPLIG-RIRQRAPIYSALKQGGEPLYAKARRGEVIEAPVREVEVHAIEVLGYAA 164 (300)
T ss_pred CcCCCCCEEEecCCCCCCHHHHHHHHHHCCC-cEEEeCCchHeEeECCeeHHHHHhCCCccccCcEEEEEEEEEEEEEeC
Confidence 1368888887 899999 799999965544432 247888999999888764
Q ss_pred CccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 500 SSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 500 ~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
..+.+++.|+.||||.-++|. ||..||+.|++.+|-=+.+
T Consensus 165 --~~~~~~v~cskGTYIRSL~~D--------ig~~Lg~~a~m~~L~Rt~~ 204 (300)
T PRK04642 165 --PRLRLRVTCGSGTYIRSLARD--------LGEVLGCGAHIAALRRLWV 204 (300)
T ss_pred --CEEEEEEEeCCCcCHHHHHHH--------HHHHhCCCEEEEEeEeeEE
Confidence 578999999999999999998 9999999999999876654
No 25
>PRK03287 truB tRNA pseudouridine synthase B; Provisional
Probab=98.14 E-value=3.2e-05 Score=80.68 Aligned_cols=150 Identities=16% Similarity=0.238 Sum_probs=105.7
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcC---
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISR--- 450 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~--- 450 (557)
++=|..|.-..|..-+..+...++... .| |-+-.+.-.+|- ...+. ...|.|+|.+.+..
T Consensus 11 il~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtG-vL~i~vG~aTKl-~~~l~----~~~K~Y~a~~~lG~~Td 84 (298)
T PRK03287 11 LVVVDKPAGMTSHDVVARCRRLFGTRKVGHAGTLDPMATG-VLVLGVERATKL-LGHLT----LTDKSYTATIRLGQATT 84 (298)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhCCCCCCcCccCCCccee-EEEEEeChhhhh-hHHHh----cCCcEEEEEEEeCcccc
Confidence 555667876566677777777665432 22 323222222221 22222 23599999999872
Q ss_pred ---------------CCCHHHHHH-hhcccCceeeccCCcEEEeec----C-----------CCceeeEEEEEEEEEEcC
Q 008711 451 ---------------PLQDEDFQT-ISSLKETQILQKTPIRVLHRR----S-----------PLEREKIINWMKIEKIAG 499 (557)
Q Consensus 451 ---------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR----~-----------~~~R~R~I~~~~~~~i~~ 499 (557)
.++.+++++ |.+|.| .|.|..|.-...+. + ...|+-.||++++..++.
T Consensus 85 T~D~~G~v~~~~~~~~it~~~i~~~l~~f~G-~i~Q~PP~ySAvKv~Gkr~YelAR~G~~ve~~~R~v~I~~~~l~~~~~ 163 (298)
T PRK03287 85 TDDAEGEVLASADASAVTDEAIAAAVAALTG-EIMQVPSAVSAIKVDGKRAYARVRAGEEVELPARPVTVSRFEVLAVRR 163 (298)
T ss_pred CCCCCCCEEeecCCCCCCHHHHHHHHHhCcC-eEEEeCChhHeEEECCHHHHHHHhCCCccccCcEEEEeeeeEEEEEec
Confidence 578999988 889999 79999995443332 2 335888999999988764
Q ss_pred C-c-cEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 500 S-S-QYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 500 ~-~-~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
. + ..+.+++.|+.||||.-++|. ||..||+.|++.+|-=+.+
T Consensus 164 ~~~~~~~~~~v~cskGTYIRSL~~D--------ig~~Lg~~a~~~~LrRt~~ 207 (298)
T PRK03287 164 DGDFIDLDVEVDCSSGTYIRALARD--------LGAALGVGGHLTALRRTRV 207 (298)
T ss_pred CCCccEEEEEEEECCCcCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 2 2 268899999999999999998 9999999999999876654
No 26
>PRK02484 truB tRNA pseudouridine synthase B; Provisional
Probab=98.13 E-value=2.4e-05 Score=81.42 Aligned_cols=150 Identities=18% Similarity=0.242 Sum_probs=102.9
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcC---
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISR--- 450 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~--- 450 (557)
++=|..|.-..|..-+..+...++... .| |-+--+.-.+| -...+. ...|.|+|.+++..
T Consensus 5 il~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtG-vL~i~vG~aTk-l~~~l~----~~~K~Y~a~~~lG~~Td 78 (294)
T PRK02484 5 IINLKKEAGMTSHDAVFKLRKILQTKKIGHGGTLDPDVVG-VLPIAVGKATR-LIEYMT----EAGKVYEGEITLGYSTT 78 (294)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhCCCccccCCCCCCCCee-EEEEEEChhhh-hhHHhc----cCCcEEEEEEEECCccc
Confidence 444666765556666777776665431 22 22222222222 122222 23499999999631
Q ss_pred ----------------CCCHHHHHH-hhcccCceeeccCCcEEEee----------c-----CCCceeeEEEEEEEEE--
Q 008711 451 ----------------PLQDEDFQT-ISSLKETQILQKTPIRVLHR----------R-----SPLEREKIINWMKIEK-- 496 (557)
Q Consensus 451 ----------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHR----------R-----~~~~R~R~I~~~~~~~-- 496 (557)
+++.++++. |..|.| +|.|..|.-..-+ | ....|+-.||++++..
T Consensus 79 T~D~~G~vi~~~~~~~~~~~~~l~~~l~~f~G-~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~~~ 157 (294)
T PRK02484 79 TEDASGEVVAETPLTQPLTEEEVDQAMTSFTG-KITQIPPMYSAVKVNGKKLYEYARAGEEVERPKRQVTIYQFERTSPL 157 (294)
T ss_pred CCCCCCCEEEeccCCCCCCHHHHHHHHHhccC-eEEEeCChhHeEeeCCHhHHHHHHCCCccccCceEEEEEEEEEeccc
Confidence 278889887 899999 8999999766554 0 1236888999999863
Q ss_pred -EcC-CccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 497 -IAG-SSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 497 -i~~-~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
.+. .+..|.+++.|+.||||.-++|. ||..||+.|++.+|-=+.+
T Consensus 158 ~~~~~~~~~~~~~v~cskGTYIRsL~~D--------iG~~Lg~~a~~~~L~Rt~~ 204 (294)
T PRK02484 158 SFDEDGLCRFSFRVACSKGTYVRTLAVD--------LGEKLGYAAHMSFLTRTAS 204 (294)
T ss_pred cccccCCceEEEEEEeCCCCCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 321 23589999999999999999998 9999999999998865544
No 27
>PRK14846 truB tRNA pseudouridine synthase B; Provisional
Probab=98.12 E-value=3.3e-05 Score=81.58 Aligned_cols=150 Identities=16% Similarity=0.131 Sum_probs=104.2
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEc----
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWIS---- 449 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~---- 449 (557)
++=|-.|.-..|..-+..+...++... .| |-+-.+.-.+|- +..+ ....|.|+|.+++.
T Consensus 5 iL~idKP~G~TS~dvv~~vrk~l~~kKVGH~GTLDP~AtG-VL~i~vG~aTKl-~~~l----~~~~K~Y~a~~~lG~~TD 78 (345)
T PRK14846 5 WLNIYKPRGISSAQLVSIVKKILGKTKIGHAGTLDVEAEG-ILPFAVGEATKL-IHLL----IDARKTYIFTVKFGMQTN 78 (345)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhCCCcCCcCccCCCcCce-EEEEEEChhhhh-hHHH----hcCCceEEEEEEECCccC
Confidence 455667876556666666666555421 22 222222222211 1222 23458899999976
Q ss_pred -------------CCCCHHHHHH-hhcccCceeeccCCcEEEeec----C-----------CCceeeEEEEEEEEEEcCC
Q 008711 450 -------------RPLQDEDFQT-ISSLKETQILQKTPIRVLHRR----S-----------PLEREKIINWMKIEKIAGS 500 (557)
Q Consensus 450 -------------~~vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR----~-----------~~~R~R~I~~~~~~~i~~~ 500 (557)
.+++.++++. |..|.| +|.|..|.-...+. + ...|+-.||++++...+..
T Consensus 79 T~D~eG~ii~~~~~~~~~e~l~~~L~~f~G-~i~Q~PP~ySAvKv~GkraYelARkG~~Vel~~R~V~I~~i~ll~f~~~ 157 (345)
T PRK14846 79 SGDCAGKVIATKDCIPSQEEAYAVCSKFIG-NVTQIPPAFSALKVNGVRAYKLAREGKKVELKPRNITIYDLKCLNFDEK 157 (345)
T ss_pred CCCCCCCEEEecCCCCCHHHHHHHHHhCcc-eEEeeCChhheEeECChhHHHHHhCCCccccCceeEEEEEEEEEEEcCC
Confidence 3457778887 899999 79999996544432 2 4467779999999887643
Q ss_pred ccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 501 SQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 501 ~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
...+.+++.|+.||||.-++|. ||..||+.|.+.+|-=+.+
T Consensus 158 ~~~~~~~v~CSkGTYIRSLa~D--------IG~~Lg~~A~l~~LrRtr~ 198 (345)
T PRK14846 158 NATATYYTECSKGTYIRTLAED--------LALSLQSLGFVIELRRTQV 198 (345)
T ss_pred CcEEEEEEEECCCCcHHHHHHH--------HHHHHCCCEEEeEEEeEEE
Confidence 3578899999999999999998 9999999999999876654
No 28
>PRK14122 tRNA pseudouridine synthase B; Provisional
Probab=98.06 E-value=4.5e-05 Score=79.99 Aligned_cols=147 Identities=19% Similarity=0.249 Sum_probs=103.5
Q ss_pred EccCccCCcHHHHHHHHHHHhcc-----------CCCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcC------
Q 008711 388 IQNAREVPSELLVKEIESKINSL-----------ENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISR------ 450 (557)
Q Consensus 388 i~nPr~~~~~~~~~~l~~~In~~-----------~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~------ 450 (557)
|..|.-..|..-+..+...++.. +.| |-+-.+.-.+| -...+ ....|.|.|.+.+..
T Consensus 6 idKP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtG-vL~i~iG~aTK-l~~~l----~~~~K~Y~a~~~lG~~TdT~D 79 (312)
T PRK14122 6 VDKPLGLTSHDVVNRARRALGTRRVGHTGTLDPLATG-VLVLCTDDSTK-LVPFL----SAEDKEYLAWVSFGATTPTLD 79 (312)
T ss_pred EECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcCee-eEEEEEChhhh-hhHHh----cCCCceEEEEEEECCcCCCCC
Confidence 55576555666666666655532 122 33333333333 22233 345599999998764
Q ss_pred ------------CCCHHHHHH-hhcccCceeeccCCcEEEeecC---------------CCceeeEEEEEEEEEEcCC--
Q 008711 451 ------------PLQDEDFQT-ISSLKETQILQKTPIRVLHRRS---------------PLEREKIINWMKIEKIAGS-- 500 (557)
Q Consensus 451 ------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR~---------------~~~R~R~I~~~~~~~i~~~-- 500 (557)
.++.++++. |+.|.| .|.|..|.-..-+.. ...|+-.||++++...+..
T Consensus 80 ~eG~i~~~~~~~~~~~~~l~~~l~~f~G-~i~Q~PP~ySAvKv~GkraYelAR~G~~vel~~R~v~I~~i~ll~~~~~~~ 158 (312)
T PRK14122 80 AEGPISEEAPVSPLDEKDLEAALPGFLG-LTEQVPPQYSAIKVGGVRAYEAARAGGALELPARPVVYHELELLAFEPSVA 158 (312)
T ss_pred CCCCEEEecCCCCCCHHHHHHHHHhCcC-eEEEeCChHHeEEECCeEHHHHHhCCCccccCCeeEEEEEEEEEEeccccc
Confidence 478889987 899999 799999965544432 5568889999998766531
Q ss_pred ------------------------------ccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 501 ------------------------------SQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 501 ------------------------------~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
...+.+++.|+.||||.-++|. ||..||+.|++.+|-=+.+
T Consensus 159 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~cSkGTYIRSLa~D--------iG~~Lg~~a~m~~LrRt~~ 229 (312)
T PRK14122 159 PIPRPIAPSAEGWTPDPRGRPVTLPEPLGEYPTALLRLVVGSGTYVRSFARD--------LGAALGVPAHLSGLVRTRV 229 (312)
T ss_pred ccccccccccccccccccccccccccccccCceEEEEEEeCCCcCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 0368899999999999999998 9999999999999876554
No 29
>PRK14123 tRNA pseudouridine synthase B; Provisional
Probab=97.99 E-value=9.2e-05 Score=77.53 Aligned_cols=150 Identities=19% Similarity=0.219 Sum_probs=102.5
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcC---
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISR--- 450 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~--- 450 (557)
++=|..|.-..|..-+..+...++... .| |-+--+.-.+| -...+. ...|.|+|.+.+..
T Consensus 5 il~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtG-vL~v~vG~aTk-l~~~l~----~~~K~Y~~~~~lG~~Td 78 (305)
T PRK14123 5 ILPVYKERGLTSHDVVFKLRKILKTKKIGHTGTLDPEVAG-VLPVCIGNATR-VSDYVM----DMGKAYEATVSIGRSTT 78 (305)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhCCCccccCcCCCCcCee-EEEEEEChhhh-hHHHhc----CCCcEEEEEEEECCccc
Confidence 444666765556666666666665421 22 22322222222 122222 24599999998631
Q ss_pred -----------------CCCHHHHHH-hhcccCceeeccCCcEEEee---------------cCCCceeeEEEEEEEEE-
Q 008711 451 -----------------PLQDEDFQT-ISSLKETQILQKTPIRVLHR---------------RSPLEREKIINWMKIEK- 496 (557)
Q Consensus 451 -----------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHR---------------R~~~~R~R~I~~~~~~~- 496 (557)
.++.++++. |..|.| .|.|..|.-...+ .....|+=.||++++..
T Consensus 79 T~D~~G~vi~~~~~~~~~~~~~~l~~~l~~f~G-~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~~~~~ 157 (305)
T PRK14123 79 TEDQTGDTLETKGVHSADFNKDDIDRLLEQFKG-IIEQIPPMYSSVKVNGKKLYEYARNNETVERPKRKVNIKDIGRISE 157 (305)
T ss_pred CCCCCCCEEEeccCCcCCCCHHHHHHHHHhccC-ceeecCChhheEeeCCHhHHHHHhCCCcccCCceEEEEEEEEEeec
Confidence 278888887 899999 7999999766554 22345777899888652
Q ss_pred --EcCCccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 497 --IAGSSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 497 --i~~~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
.+.....|.+++.|+.||||.-++|. ||..||+.|++.+|-=+.+
T Consensus 158 ~~~~~~~~~~~~~v~cskGTYIRsL~~D--------iG~~Lg~~a~~~~LrRt~~ 204 (305)
T PRK14123 158 LDFKENECHFKIRVICGKGTYIRTLATD--------IGVKLGFPAHMSKLTRIES 204 (305)
T ss_pred ccccCCCceEEEEEEeCCCcCHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 32222589999999999999999998 9999999999999876654
No 30
>cd02867 PseudoU_synth_TruB_4 PseudoU_synth_TruB_4: Pseudouridine synthase homolog 4. This group consists of Eukaryotic TruB proteins similar to Saccharomyces cerevisiae Pus4. S. cerevisiae Pus4, makes psi55 in the T loop of both cytoplasmic and mitochondrial tRNAs. Psi55 is almost universally conserved. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi).
Probab=97.92 E-value=4.3e-05 Score=80.13 Aligned_cols=103 Identities=17% Similarity=0.239 Sum_probs=83.7
Q ss_pred cccEEEEEEEEc------------------CCCCHHHHHH-hhcccCceeeccCCcEEEeecC-----------------
Q 008711 438 KQKQYAALVWIS------------------RPLQDEDFQT-ISSLKETQILQKTPIRVLHRRS----------------- 481 (557)
Q Consensus 438 k~K~Y~alv~~~------------------~~vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR~----------------- 481 (557)
..|.|.+.+.+. ..+|.++++. |..|.| .|.|..|+-..-+..
T Consensus 89 ~~K~Y~~~~~lG~~TdT~D~eG~Ii~~~~~~~it~e~i~~~l~~F~G-~i~Q~PP~ySAvKv~GkrlYeyAR~G~~v~~~ 167 (312)
T cd02867 89 CSKTYEATGLFGASTTTYDREGKILKKKPYSHITREDIEEVLAKFRG-DIKQVPPLYSALKMDGKRLYEYAREGKPLPRP 167 (312)
T ss_pred CCceEEEEEEeCCcccCCCCCCCEEEecCCCCCCHHHHHHHHHhcce-eeeeeCcchheeeeCCHHHHHHHhCCccccCC
Confidence 459999999864 2478999998 889999 899999976655532
Q ss_pred CCceeeEEEEEEEEEEcCCccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 482 PLEREKIINWMKIEKIAGSSQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 482 ~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
...|+-.||++++...+....+|.+++.|+.||||.-++|- ||..||+.+++.+|-=+.+
T Consensus 168 ~~~R~V~I~~~~l~~~~~~~~~~~~~v~cskGTYIRsL~~D--------ig~~Lg~~a~~~~L~Rt~~ 227 (312)
T cd02867 168 IERRQVVVSELLVKDWIEPGPLFTRTVEEEGKQYERSVVKM--------LGKELKTFAEVTELTATAE 227 (312)
T ss_pred CCCceEEEEEEEEEeccCCCCeEEEEEEeCCcCCHHHHHHH--------HHHHhCCCeEEEEEEeeee
Confidence 23677799999887664223589999999999999999998 9999999999998876654
No 31
>PRK00989 truB tRNA pseudouridine synthase B; Provisional
Probab=97.82 E-value=0.00034 Score=70.62 Aligned_cols=148 Identities=18% Similarity=0.275 Sum_probs=97.8
Q ss_pred EEEEccCccCCcHHHHHHHHHHHhccC-----------CCcEEEEeeEEecccchhhhcccccccccEEEEEEEEc----
Q 008711 385 LFEIQNAREVPSELLVKEIESKINSLE-----------NKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWIS---- 449 (557)
Q Consensus 385 vlEi~nPr~~~~~~~~~~l~~~In~~~-----------~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~---- 449 (557)
++=|..|.-..|..-+..+...+|... .| |-|- .+++.... +-+--....|.|.+.+.+.
T Consensus 11 ~l~i~KP~g~TS~dvv~~ikk~~~~kKvGH~GTLDP~AtG-vLiv---~vG~~aTk-l~~~~~~~~K~Y~~~~~~G~~Td 85 (230)
T PRK00989 11 ILLVDKPQGRTSFSLIRSLTKLIGVKKIGHAGTLDPFATG-VMVM---LIGRKFTR-LSDILLFEDKEYAAVAHLGTTTD 85 (230)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhCCCcCCcCccCCCCCee-EEEE---EECCchhh-hHHHhcCCCcEEEEEEEECCccc
Confidence 455666776666677777777666431 12 2221 23331111 1111122459999999962
Q ss_pred -------------CCCCHHHHHH-hhcccCceeeccCCcEEEee----cC-----------CCceeeEEEEEEEEEEcCC
Q 008711 450 -------------RPLQDEDFQT-ISSLKETQILQKTPIRVLHR----RS-----------PLEREKIINWMKIEKIAGS 500 (557)
Q Consensus 450 -------------~~vt~e~l~~-l~~l~~~~I~QrTP~RVlHR----R~-----------~~~R~R~I~~~~~~~i~~~ 500 (557)
..++.+++++ |..|.| .|.|..|.-...+ |+ ...|+=.|| +++...+.
T Consensus 86 T~D~~G~vi~~~~~~~~~~~i~~~l~~f~G-~~~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~i~-~~ll~~~~- 162 (230)
T PRK00989 86 SYDCDGKIVGRSKKIPTLEEVLSAASYFQG-EIQQVPPMFSAKKVQGKKLYEYARQGLSIERRPSTVQVH-LQLTKYEY- 162 (230)
T ss_pred CCCCCCcEEEecCCCCCHHHHHHHHHhCcc-eEEeeCChhHeEEECCHhHHHHHhCCCccccCcEEEEEE-EEEEEeeC-
Confidence 3467888887 889999 8999999543332 11 122333456 66655543
Q ss_pred ccEEEEEEEecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 501 SQYFLLHMCTQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 501 ~~~f~l~l~tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
.+|.+++.|+.||||.-++|. ||..||+.|.+.+|-=+.+
T Consensus 163 -p~~~~~v~cs~GTYIRSL~~D--------iG~~Lg~~a~~~~LrRt~~ 202 (230)
T PRK00989 163 -PLLHFVVQCSKGTYIRSIAHE--------LGNMLGCGAYLEELRRLRS 202 (230)
T ss_pred -CeEEEEEEEcCCCcHHHHHHH--------HHHHHCCCEEEEEEEeEEE
Confidence 689999999999999999998 9999999999998876654
No 32
>PF01509 TruB_N: TruB family pseudouridylate synthase (N terminal domain); InterPro: IPR002501 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. TruB is responsible for the pseudouridine residue present in the T loops of virtually all tRNAs. TruB recognises the preformed 3-D structure of the T loop primarily through shape complementarity. It accesses its substrate uridyl residue by flipping out the nucleotide and disrupts the tertiary structure of tRNA []. This entry represents pseudouridine synthase TruB, as well as Cbf5p that modifies rRNA [].; GO: 0006396 RNA processing; PDB: 1SGV_B 2AUS_C 3UAI_A 3U28_A 2RFK_A 3LWV_A 3HJY_A 3HAX_A 3LWO_A 3HAY_A ....
Probab=97.49 E-value=0.00026 Score=66.98 Aligned_cols=75 Identities=20% Similarity=0.332 Sum_probs=59.1
Q ss_pred ccEEEEEEEEcC------------------CCCHHHHHH-hhcccCceeeccCCcEEEee---------------cCCCc
Q 008711 439 QKQYAALVWISR------------------PLQDEDFQT-ISSLKETQILQKTPIRVLHR---------------RSPLE 484 (557)
Q Consensus 439 ~K~Y~alv~~~~------------------~vt~e~l~~-l~~l~~~~I~QrTP~RVlHR---------------R~~~~ 484 (557)
.|.|.+.+.+.. .++.++|++ |..|.| .|.|..|.-..-+ ++...
T Consensus 41 ~K~Y~~~~~lG~~TdT~D~~G~v~~~~~~~~it~e~l~~~l~~f~G-~~~Q~pP~ySAvki~G~raY~lAR~G~~v~~~~ 119 (149)
T PF01509_consen 41 DKEYVATIRLGVETDTYDIEGEVTETKPYDHITEEDLEKVLAKFQG-EIEQVPPMYSAVKINGKRAYELARKGEEVELPP 119 (149)
T ss_dssp EEEEEEEEEESSEETTSBTTSSEEEE---TT--HHHHHHHHHHTSE-EEEES-SSSSSSECTTCEHHHHHHTTSSTSSS-
T ss_pred CCEEEEEEEEEEEeCCcceeeeEEEeeccccCCHHHHHHHHHhCcC-CEeeeCchheeEcCCCccHHHHHHCCCccCCCC
Confidence 399999988642 356788887 889999 8999999876555 34557
Q ss_pred eeeEEEEEEEEEEcCCccEEEEEEEecCCcee
Q 008711 485 REKIINWMKIEKIAGSSQYFLLHMCTQAGTYI 516 (557)
Q Consensus 485 R~R~I~~~~~~~i~~~~~~f~l~l~tqaGtYI 516 (557)
|+-.||++++...+. ..|.+++.|.+||||
T Consensus 120 r~v~I~~i~l~~~~~--~~~~~~v~cs~GTYi 149 (149)
T PF01509_consen 120 RPVTIYSIELLSFNP--PEFTFEVHCSKGTYI 149 (149)
T ss_dssp EEEEEEEEEEEEEET--TEEEEEEEECTTTTH
T ss_pred eeEEEEEEEEEEEcC--CeEEEEEEEcCcccC
Confidence 999999999998875 599999999999997
No 33
>cd02868 PseudoU_synth_hTruB2_like PseudoU_synth_ hTRUB2_Like: Pseudouridine synthase, humanTRUB2_like. This group consists of eukaryotic pseudouridine synthases similar to human TruB pseudouridine synthase homolog 2 (TRUB2). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi).
Probab=97.27 E-value=0.0015 Score=65.92 Aligned_cols=88 Identities=19% Similarity=0.197 Sum_probs=68.8
Q ss_pred CCCHHHHHH-hhcccCceeeccCCcEEEee---------------cCCCceeeEEEEEEEEEEcCCccEEEEEEEecCCc
Q 008711 451 PLQDEDFQT-ISSLKETQILQKTPIRVLHR---------------RSPLEREKIINWMKIEKIAGSSQYFLLHMCTQAGT 514 (557)
Q Consensus 451 ~vt~e~l~~-l~~l~~~~I~QrTP~RVlHR---------------R~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqaGt 514 (557)
.++.+++++ |..|.| .+.|.+|.=..-+ ++...|+=.||++++...+. .+|.+++.|..||
T Consensus 98 ~it~~~i~~~l~~f~g-~~~q~~p~~sa~kv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~~~~--p~~~~~v~cskGT 174 (226)
T cd02868 98 HITREKIERLLAVIQS-GHQQKAFELCSVDDQSQQAAELAARGLIRPADKSPPIIYGIRLLEFRP--PEFTLEVQCINET 174 (226)
T ss_pred CCCHHHHHHHHHHhhC-CceEECCceEEEeeCCHHHHHHHHCCCccCCCCcceEEEEEEEEEecC--CeEEEEEEEECCC
Confidence 478888888 888986 3556677432221 33455777899999887753 5889999999999
Q ss_pred --eeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEE
Q 008711 515 --YIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDV 549 (557)
Q Consensus 515 --YIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V 549 (557)
||.-|+|. ||..||+.|.+.+|-=+.+
T Consensus 175 ~~YIRsL~~D--------ig~~Lg~~a~~~~L~R~~~ 203 (226)
T cd02868 175 QEYLRKLIHE--------IGLELRSSAVCTQVRRTRD 203 (226)
T ss_pred HHHHHHHHHH--------HHHHhCCcEEEEEEEeeEE
Confidence 99999998 9999999999999866554
No 34
>PRK14586 tRNA pseudouridine synthase ACD; Provisional
Probab=96.07 E-value=0.13 Score=52.42 Aligned_cols=160 Identities=14% Similarity=0.211 Sum_probs=101.5
Q ss_pred EEEEEeeecccCCCCcccccCccccCcCcHHHHhhhccccccCCCceEEeecCCCcccccccCCCccEEEEEccCccCCc
Q 008711 317 YFGGRYLKYSRNVSQTRWIIDEERMGEASIEEIIGGNILPMCRGDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPS 396 (557)
Q Consensus 317 ~i~GRY~K~sR~lsQtpW~~~~~r~~~~SVeE~I~~~~~~~f~~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~ 396 (557)
|.+.+|.=+++. | + ..|||+.|...+..+++ ..+.+++|||-|--|=-+|. |+.+.-|...
T Consensus 10 YdGt~f~G~Q~Q-~-------~----~~TVq~~le~aL~~~~~-~~i~~~~agRTD~GVHA~~q----v~~f~~~~~~-- 70 (245)
T PRK14586 10 YDGSNFFGYQGQ-P-------D----VRTVQGVFEDALERIFK-QRIYTQAAGRTDTGVHANGQ----VIAFNCPNDR-- 70 (245)
T ss_pred EcCCceeeEEEC-C-------C----CCCHHHHHHHHHHHHhC-CCeeEEEecCCccCCCccCc----EEEEEecCCc--
Confidence 555666665553 1 1 24999999988888875 57999999999999999986 3333323220
Q ss_pred HHHHHHHHHHHhccCCCcEEEEeeEEecccchhhhcccccccccEEEEEEEE---------------cCCCCHHHHHH-h
Q 008711 397 ELLVKEIESKINSLENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWI---------------SRPLQDEDFQT-I 460 (557)
Q Consensus 397 ~~~~~~l~~~In~~~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~---------------~~~vt~e~l~~-l 460 (557)
.+.+.+...+|..-..+|.|.....|+..=-.+ -.-+.|.|+=+++. ..+++.+.+++ +
T Consensus 71 -~~~~~l~~~lN~~LP~dI~V~~~~~v~~~FhaR----~~a~~R~Y~Y~i~~~~~~~~f~~~~~~~~~~~ld~~~m~~a~ 145 (245)
T PRK14586 71 -MTEEDIKNAMNANLPDDIYVKKVFEVPKNFHPR----FDAKKRIYHYFILTSKEKNVFLRKYVWWFPYELDLEAMRKAA 145 (245)
T ss_pred -CCHHHHHHHHHccCCCCeEEEEEEECCCCcCcc----cCCCcEEEEEEEecCCCCChhhCCceEEeCCCCCHHHHHHHH
Confidence 224567888998777789999998887542111 23355788777753 34566666665 3
Q ss_pred hc------ccCceeeccCCcEEEeecCCCceeeEEEEEEEEEEcCCccEEEEEEEecC
Q 008711 461 SS------LKETQILQKTPIRVLHRRSPLEREKIINWMKIEKIAGSSQYFLLHMCTQA 512 (557)
Q Consensus 461 ~~------l~~~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqa 512 (557)
+. +..+ .+++ ....-.|+|+++++....+ ..+.++|..+|
T Consensus 146 ~~l~G~HDF~~F--~~~~--------~~~~~vR~I~~~~~~~~~~--~~i~~~i~g~~ 191 (245)
T PRK14586 146 KYLEGEHDFTSF--KTGS--------DERNPVRTIYRIRILRLKK--DLILIRVEGRS 191 (245)
T ss_pred HHccCcchHHhh--cCCC--------CCCCCcEEEEEEEEEEccC--CEEEEEEEech
Confidence 33 3333 1221 1223457899888875422 56777887774
No 35
>PRK12434 tRNA pseudouridine synthase A; Reviewed
Probab=95.57 E-value=0.29 Score=49.91 Aligned_cols=147 Identities=15% Similarity=0.193 Sum_probs=93.3
Q ss_pred CcHHHHhhhccccccCCCceEEeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHHHHhccCCCcEEEEeeEEe
Q 008711 344 ASIEEIIGGNILPMCRGDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIESKINSLENKLVRVKNLKIV 423 (557)
Q Consensus 344 ~SVeE~I~~~~~~~f~~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~~In~~~~~~V~v~~L~~v 423 (557)
.|||+.|...+.++.+ ..+++++|||-|--|=-+|. -+-+.+ +... +.+.+...+|..-..+|.|.+...|
T Consensus 26 ~TVq~~le~aL~~~~~-~~~~~~~agRTD~GVHA~~q--v~~f~~--~~~~----~~~~l~~~lN~~LP~dI~V~~~~~v 96 (245)
T PRK12434 26 NTIQGKIESVLSEMTG-EEIEIIGCGRTDAGVHALNQ--VANFQT--DEKL----SEDKIKKYLNEYLPNDIVVTNVEEV 96 (245)
T ss_pred CCHHHHHHHHHHHHhC-CCeEEEEeccCCCCcCccCc--EEEEEc--CCCC----CHHHHHHHHHccCCCCeEEEEEEEC
Confidence 5899999888888776 68999999999999999984 233333 2211 2346778899876678999999988
Q ss_pred cccchhhhcccccccccEEEEEEE---------------EcCCCCHHHHHH-hhcccC---ceeeccCCcEEEeecCCCc
Q 008711 424 GSQGWTLMREGEAEKQKQYAALVW---------------ISRPLQDEDFQT-ISSLKE---TQILQKTPIRVLHRRSPLE 484 (557)
Q Consensus 424 ~r~~~~~lk~~e~~k~K~Y~alv~---------------~~~~vt~e~l~~-l~~l~~---~~I~QrTP~RVlHRR~~~~ 484 (557)
+..--.+ -.-+.|.|+=++. ...+++.+.+++ ++.|.| +.--.++ + .....
T Consensus 97 ~~~FhaR----~~a~~R~Y~Y~i~~~~~~~~f~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F~~~--~----~~~~~ 166 (245)
T PRK12434 97 DERFHAR----YNVKSKTYLYKIWNEKFHNVFMRKYSMHVNEKLDVKAMKEAAKYLVGSHDFTSFTNA--K----SKKKS 166 (245)
T ss_pred CCCcccc----cCCCcEEEEEEEccCCCCChhhCCeEEEeCCCCCHHHHHHHHHHccCCcCHHhhcCC--C----CCCCC
Confidence 7542222 1334578877663 344566666665 443332 1111110 0 01123
Q ss_pred eeeEEEEEEEEEEcCCccEEEEEEEecC
Q 008711 485 REKIINWMKIEKIAGSSQYFLLHMCTQA 512 (557)
Q Consensus 485 R~R~I~~~~~~~i~~~~~~f~l~l~tqa 512 (557)
-.|+|+++++..- ..++.+.|..++
T Consensus 167 ~~R~I~~~~v~~~---~~~~~i~i~g~~ 191 (245)
T PRK12434 167 TVREIYSIDIMEE---DGFVQIRVSGNG 191 (245)
T ss_pred CEEEEEEEEEEEe---CCEEEEEEEecH
Confidence 4567888888653 257777888775
No 36
>COG0101 TruA Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=95.41 E-value=0.37 Score=49.98 Aligned_cols=150 Identities=15% Similarity=0.223 Sum_probs=93.1
Q ss_pred CcHHHHhhhccccccCCCceEEeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHHHHhccCCCcEEEEeeEEe
Q 008711 344 ASIEEIIGGNILPMCRGDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIESKINSLENKLVRVKNLKIV 423 (557)
Q Consensus 344 ~SVeE~I~~~~~~~f~~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~~In~~~~~~V~v~~L~~v 423 (557)
-|||+.|...+.++.+. ...+++|||-|--|=-+|+ |+.+.-|...+ ...+...+|+.-...|.|.+...|
T Consensus 25 ~TVQ~~le~aL~~i~~~-~~~i~~AGRTD~GVHA~gq----v~hfd~~~~~~----~~~~~~~lN~~Lp~dI~V~~~~~v 95 (266)
T COG0101 25 RTVQGELEKALSKIGGE-SVRVIGAGRTDAGVHALGQ----VVHFDTPADRP----LEKLVRALNALLPPDIRVLDVAEV 95 (266)
T ss_pred CCHHHHHHHHHHHhcCC-cceeEEecCCCcCcccccc----EEEEEcCCccc----HHHHHHHHHhcCCCCcEEEEEEEC
Confidence 59999997777666544 4599999999999999986 44444443222 456778889877778999999998
Q ss_pred cccchhhhcccccccccEEEEEEEEcCC---------------CCHHHHHH-hhcccCceeeccCCcEEEeecCCCceee
Q 008711 424 GSQGWTLMREGEAEKQKQYAALVWISRP---------------LQDEDFQT-ISSLKETQILQKTPIRVLHRRSPLEREK 487 (557)
Q Consensus 424 ~r~~~~~lk~~e~~k~K~Y~alv~~~~~---------------vt~e~l~~-l~~l~~~~I~QrTP~RVlHRR~~~~R~R 487 (557)
+..=-.+ =.-+.|.|+=+++.... ++.+.++. ++.|.|. +=-|--+-...++. .=.|
T Consensus 96 ~~~FhaR----fsa~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ld~~~m~~aa~~l~G~--HDF~sF~~~~~~~~-s~vR 168 (266)
T COG0101 96 PDDFHAR----FSAKSRTYRYIIYNAPLRPPFLANYVWHVPYPLDLDAMREAAKLLLGT--HDFTSFRKAGCQSK-SPVR 168 (266)
T ss_pred CCCCCCc----ccccceEEEEEEcCccCCChhhhcccccccCcCCHHHHHHHHHHcccc--ccchhhccCCCccC-CCeE
Confidence 7442211 12345888877776544 44455544 3333321 00011111111111 2356
Q ss_pred EEEEEEEEEEcCCccEEEEEEEecC
Q 008711 488 IINWMKIEKIAGSSQYFLLHMCTQA 512 (557)
Q Consensus 488 ~I~~~~~~~i~~~~~~f~l~l~tqa 512 (557)
+|+++++.... ..+.++|..+|
T Consensus 169 ti~~~~v~~~~---~~i~i~i~g~s 190 (266)
T COG0101 169 TIYRIDVSRDG---DLIVIDISGNS 190 (266)
T ss_pred EEEEEEEEecC---CEEEEEEEeCh
Confidence 78888888752 57778888776
No 37
>PRK14588 tRNA pseudouridine synthase ACD; Provisional
Probab=95.36 E-value=0.38 Score=49.89 Aligned_cols=164 Identities=11% Similarity=0.119 Sum_probs=100.7
Q ss_pred EEEEEeeecccCCCCcccccCccccCcCcHHHHhhhccccccCCCceEEeecCCCcccccccCCCccEEEEEccCccCCc
Q 008711 317 YFGGRYLKYSRNVSQTRWIIDEERMGEASIEEIIGGNILPMCRGDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPS 396 (557)
Q Consensus 317 ~i~GRY~K~sR~lsQtpW~~~~~r~~~~SVeE~I~~~~~~~f~~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~ 396 (557)
|.+.+|.=++|. | + ..|||+.|...+..+.+ +.+.+++|||-|--|=-+|.=== +.+ +..
T Consensus 10 YdGt~f~G~Q~Q-~-------~----~~TVq~~Le~aL~~l~~-~~i~i~~AgRTDaGVHA~gQv~~--f~~--~~~--- 69 (272)
T PRK14588 10 YDGTDFAGSQWQ-T-------D----GRTVQGALEAAWQALTQ-ERRRIVLAGRTDAGVHARGQVAH--VQT--DTR--- 69 (272)
T ss_pred EcCCceeeeEEC-C-------C----CCCHHHHHHHHHHHhhC-CCceEEEecCCCcCcCccccEEE--EEc--CCC---
Confidence 566677666553 1 1 24899999888887764 67899999999999999985322 232 221
Q ss_pred HHHHHHHHHHHhccCCCcEEEEeeEEecccchhhhcccccccccEEEEEEEEc---------------CCCCHHHHHH-h
Q 008711 397 ELLVKEIESKINSLENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWIS---------------RPLQDEDFQT-I 460 (557)
Q Consensus 397 ~~~~~~l~~~In~~~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~---------------~~vt~e~l~~-l 460 (557)
.+++.+...+|..-..+|.|.+...|+..--.+ -.-+.|.|+=+++.. .+++.+.+++ +
T Consensus 70 -~~~~~l~~~LN~~LP~dI~V~~v~~v~~~FhaR----~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~lDi~~m~~a~ 144 (272)
T PRK14588 70 -HSLATIWRGLNAHLPEDIGVQNAWEAPPDFHAR----FSAIQREYRYVIDCAPAPSPQLRHQVLHYAGTLDVAAMDAAL 144 (272)
T ss_pred -CCHHHHHHHHHhcCCCCeEEEEEEECCCCcCcc----cCCCcEEEEEEEcCCCCCChhhcCceEecCCCCCHHHHHHHH
Confidence 234577889998766789999999887431111 233558888777543 3455566654 3
Q ss_pred hcccC---ceeeccCCcEEEeecCCCceeeEEEEEEEEEEcC-CccEEEEEEEecC
Q 008711 461 SSLKE---TQILQKTPIRVLHRRSPLEREKIINWMKIEKIAG-SSQYFLLHMCTQA 512 (557)
Q Consensus 461 ~~l~~---~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~~i~~-~~~~f~l~l~tqa 512 (557)
+.|.| +.--.++ +......|+|+++++..... +...+.++|..++
T Consensus 145 ~~f~G~HDF~~F~~~-------~~~~~~vRtI~~~~~~~~~~~~~~~i~~~i~g~~ 193 (272)
T PRK14588 145 KLLIGTHDFAAFTTA-------PQEGSTVRTCYWARCTDTEWFGRPLLAIEVAANA 193 (272)
T ss_pred HHccCCcchHhhcCC-------CCCCCCeEEEEEEEEEEcccCCCCEEEEEEEEch
Confidence 33332 1111111 11234557788888765310 1246667777774
No 38
>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=95.26 E-value=0.45 Score=47.88 Aligned_cols=159 Identities=19% Similarity=0.338 Sum_probs=101.8
Q ss_pred EEEEEeeecccCCCCcccccCccccCcCcHHHHhhhccccccCCCceEEeecCCCcccccccCCCccEEEEEccCccCCc
Q 008711 317 YFGGRYLKYSRNVSQTRWIIDEERMGEASIEEIIGGNILPMCRGDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPS 396 (557)
Q Consensus 317 ~i~GRY~K~sR~lsQtpW~~~~~r~~~~SVeE~I~~~~~~~f~~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~ 396 (557)
|.+.+|.=+.+. .+ ..|||+.|...+..+. +..+++++|||-|--|=-+|+ -+-+.+ |...+
T Consensus 9 YdGt~f~G~Q~Q--------~~----~~TVq~~le~aL~~~~-~~~i~~~~agRTD~GVHA~~q--v~~f~~--~~~~~- 70 (227)
T TIGR00071 9 YDGSNYHGWQRQ--------PN----KRTVQGELEKALEAIG-KKKITIMSAGRTDKGVHAMGQ--VISFDT--PKEIP- 70 (227)
T ss_pred EcCCCeeEEeEC--------cC----CCCHHHHHHHHHHHHh-CCCeeEEeeccCcCCcccccc--EEEEEe--cCCCC-
Confidence 556667666553 11 2499999988877765 478999999999999999985 233333 33222
Q ss_pred HHHHHHHHHHHhccCCCcEEEEeeEEecccchhhhcccccccccEEEEEEEEc----CCCCHHHHHH-hhcccC------
Q 008711 397 ELLVKEIESKINSLENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWIS----RPLQDEDFQT-ISSLKE------ 465 (557)
Q Consensus 397 ~~~~~~l~~~In~~~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~----~~vt~e~l~~-l~~l~~------ 465 (557)
.+.+...+|..-..+|.|.++..|+..--.+ -.-+.|.|+=.+... .+++.+.+++ ++.|.|
T Consensus 71 ---~~~~~~~lN~~Lp~dI~V~~~~~v~~~FhaR----~~a~~R~Y~Y~i~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~ 143 (227)
T TIGR00071 71 ---DNKLNAKLNALLPPDIRVKALAPVNDNFHAR----FSASKRHYRYILYNHRHYYSPLDLEKMRAAAKQLLGKHDFSN 143 (227)
T ss_pred ---HHHHHHHHHccCCCCEEEEEEEeCCCCcCCC----CCCCcEEEEEEEccCcccCCCCCHHHHHHHHHHccCcccHHH
Confidence 3467788998766789999999887542111 233568898887644 3566666665 444433
Q ss_pred ceeeccCCcEEEeecCCCceeeEEEEEEEEEEcCCccEEEEEEEecC
Q 008711 466 TQILQKTPIRVLHRRSPLEREKIINWMKIEKIAGSSQYFLLHMCTQA 512 (557)
Q Consensus 466 ~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqa 512 (557)
+.-. + .....-.|+|+++++.. +...+.+.|..++
T Consensus 144 F~~~-~--------~~~~~~~R~i~~~~v~~---~~~~~~i~i~g~~ 178 (227)
T TIGR00071 144 FSKA-K--------SKSRSPIRTISDIKVSE---SGEYIIFDIIGNS 178 (227)
T ss_pred hcCC-C--------CCCCCCeEEEEEEEEEE---cCCEEEEEEEecH
Confidence 2211 0 11223456788888865 2357778887774
No 39
>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=94.91 E-value=0.58 Score=47.24 Aligned_cols=149 Identities=16% Similarity=0.195 Sum_probs=92.7
Q ss_pred CcHHHHhhhccccccCCCceEEeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHHHHhccCCCcEEEEeeEEe
Q 008711 344 ASIEEIIGGNILPMCRGDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIESKINSLENKLVRVKNLKIV 423 (557)
Q Consensus 344 ~SVeE~I~~~~~~~f~~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~~In~~~~~~V~v~~L~~v 423 (557)
.|||+.|...+..+.+ ..+++.+|||-|--|=-+|+ ++.+.=|.. .+.+.+...+|..-...|.|.++..|
T Consensus 20 ~TVq~~le~aL~~~~~-~~~~i~~agRTD~GVHA~~q----vv~~~~~~~----~~~~~~~~~lN~~Lp~dI~v~~i~~v 90 (239)
T cd02570 20 RTVQGELEKALSKIAG-EPVRVIGAGRTDAGVHALGQ----VAHFDTPSE----IPLEKLIKALNSLLPPDIRVLSAEEV 90 (239)
T ss_pred CCHHHHHHHHHHHHhC-CCeEEEEECcCCCCcCcccc----EEEEEECCC----CCHHHHHHHHHccCCCCEEEEEEEEC
Confidence 5999999888877765 78999999999999999885 333333332 22457888999877678999999988
Q ss_pred cccchhhhcccccccccEEEEEEEEc---------------CCCCHHHHHH-hhcccCce-eeccCCcEEEeecCCCcee
Q 008711 424 GSQGWTLMREGEAEKQKQYAALVWIS---------------RPLQDEDFQT-ISSLKETQ-ILQKTPIRVLHRRSPLERE 486 (557)
Q Consensus 424 ~r~~~~~lk~~e~~k~K~Y~alv~~~---------------~~vt~e~l~~-l~~l~~~~-I~QrTP~RVlHRR~~~~R~ 486 (557)
+..=-.+ -.-+.|+|+=.+... .+++.+.+++ ++.+.|.- -.--|+. +.....=.
T Consensus 91 ~~~F~aR----~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~d~~~m~~a~~~f~G~HdF~~F~~~----~~~~~~~~ 162 (239)
T cd02570 91 PDDFHAR----FSAKSRTYRYRILNRPVPSPFLRRYVWHVPRPLDIEAMQEAAKLLLGTHDFSSFRAA----GCQSKSTV 162 (239)
T ss_pred CCCcCcc----cCCCceEEEEEEccCCCCChhhCCeEEEeCCCCCHHHHHHHHHHccCCcchhhhCCC----CCCCCCCe
Confidence 7442111 233557887776554 2455555655 44333310 0000110 01112334
Q ss_pred eEEEEEEEEEEcCCccEEEEEEEecC
Q 008711 487 KIINWMKIEKIAGSSQYFLLHMCTQA 512 (557)
Q Consensus 487 R~I~~~~~~~i~~~~~~f~l~l~tqa 512 (557)
|+|+++++..- ...+.+.|..++
T Consensus 163 R~I~~~~v~~~---~~~~~i~i~g~s 185 (239)
T cd02570 163 RTIYRADVYRE---GDLIVFEIRANG 185 (239)
T ss_pred EEEEEEEEEEe---CCEEEEEEEEcH
Confidence 67888887653 256777777764
No 40
>PRK00021 truA tRNA pseudouridine synthase A; Validated
Probab=94.67 E-value=0.79 Score=46.53 Aligned_cols=147 Identities=12% Similarity=0.147 Sum_probs=92.8
Q ss_pred CcHHHHhhhccccccCCCceEEeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHHHHhccCCCcEEEEeeEEe
Q 008711 344 ASIEEIIGGNILPMCRGDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIESKINSLENKLVRVKNLKIV 423 (557)
Q Consensus 344 ~SVeE~I~~~~~~~f~~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~~In~~~~~~V~v~~L~~v 423 (557)
.|||+.|...+....+ ..+.+.+|||-|-.|=-+|+= +-+.=+.. .+.+.+...+|..-..+|.|.+...|
T Consensus 25 ~TVq~~le~aL~~~~~-~~~~~~~agRTD~GVHA~~qv----v~~~~~~~----~~~~~~~~~lN~~Lp~dI~V~~~~~v 95 (244)
T PRK00021 25 RTVQGELEKALSKLAG-EPVRVIGAGRTDAGVHALGQV----AHFDTPAP----RPPEKWRRALNALLPDDIAVLWAEEV 95 (244)
T ss_pred CCHHHHHHHHHHHHhC-CCeEEEEEccCCCcccccCcE----EEEEeCCC----CCHHHHHHHHHhcCCCCEEEEEeEec
Confidence 5999999887777765 789999999999999998853 33322322 33456788899876778999999988
Q ss_pred cccchhhhcccccccccEEEEEEEEcC---------------CCCHHHHHH-hhcccC---ceeeccCCcEEEeecCCCc
Q 008711 424 GSQGWTLMREGEAEKQKQYAALVWISR---------------PLQDEDFQT-ISSLKE---TQILQKTPIRVLHRRSPLE 484 (557)
Q Consensus 424 ~r~~~~~lk~~e~~k~K~Y~alv~~~~---------------~vt~e~l~~-l~~l~~---~~I~QrTP~RVlHRR~~~~ 484 (557)
+..=-.+ -.-+.|+|+=.+.... +++.+.++. ++.+.| +.--.++ ++....
T Consensus 96 ~~~F~aR----~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ld~~~m~~a~~~~~G~HdF~~F~~~------~~~~~~ 165 (244)
T PRK00021 96 PDDFHAR----FSAKARRYRYRIYNRPARPPFLRGYVWHYPYPLDVDAMNEAAQYLLGEHDFTSFRAS------GCQSKS 165 (244)
T ss_pred CCCcCcC----cCCCceEEEEEEecCCCCChhhCCcEEEeCCCCcHHHHHHHHHHhcCceeeeeeeCC------CCCCCC
Confidence 7531111 1235578877665442 355555654 343333 1111111 122234
Q ss_pred eeeEEEEEEEEEEcCCccEEEEEEEecC
Q 008711 485 REKIINWMKIEKIAGSSQYFLLHMCTQA 512 (557)
Q Consensus 485 R~R~I~~~~~~~i~~~~~~f~l~l~tqa 512 (557)
-.|+|+++++..- .+.+.+.|..++
T Consensus 166 ~~R~I~~~~v~~~---~~~~~i~i~g~s 190 (244)
T PRK00021 166 PVRTIYEADVTRE---GDFIVFDISANG 190 (244)
T ss_pred CeEEEEEEEEEEc---CCEEEEEEEEch
Confidence 4578998888652 257777877774
No 41
>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=94.64 E-value=0.49 Score=47.59 Aligned_cols=142 Identities=15% Similarity=0.141 Sum_probs=94.2
Q ss_pred CcHHHHhhhccccccCC---CceEEeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHHHHhccCCCcEEEEee
Q 008711 344 ASIEEIIGGNILPMCRG---DSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIESKINSLENKLVRVKNL 420 (557)
Q Consensus 344 ~SVeE~I~~~~~~~f~~---~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~~In~~~~~~V~v~~L 420 (557)
.|||+.|...+..+.+. ..+.+.+|||-|--|=-+|+ -+.+++ |...+ .+...+|+.-..+|.|.+.
T Consensus 18 ~TVq~~le~aL~~~~~~~~~~~~~i~~agRTD~GVHA~~q--v~~~~~--~~~~~------~~~~~lN~~Lp~dI~v~~~ 87 (224)
T cd00497 18 PTVEGELFKALLKTGLIESPKPSNYSRAGRTDKGVSALGQ--VVSLET--RSKLK------PYPDILNGLLPKDIRVLAW 87 (224)
T ss_pred CCHHHHHHHHHHHhhCcCCCcceeEEEecccccccccccc--EEEEEE--CCCcH------HHHHHHHhhCCCCcEEEEE
Confidence 58999998888887765 38999999999999999985 333333 22111 5667888776678999999
Q ss_pred EEecccchhhhcccccccccEEEEEEEEcCCCCHHHHHH-hhcccC------ceeeccCCcEEEeecCCCceeeEEEEEE
Q 008711 421 KIVGSQGWTLMREGEAEKQKQYAALVWISRPLQDEDFQT-ISSLKE------TQILQKTPIRVLHRRSPLEREKIINWMK 493 (557)
Q Consensus 421 ~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~vt~e~l~~-l~~l~~------~~I~QrTP~RVlHRR~~~~R~R~I~~~~ 493 (557)
..|+.. + ..--.-+.|.|+=.++.. +++.+.+++ ++.|.| +.-.. +....-.|+|++++
T Consensus 88 ~~v~~~-F---~aR~~a~~R~Y~Y~i~~~-~~d~~~m~~a~~~f~G~HDF~~F~~~~---------~~~~~~~RtI~~~~ 153 (224)
T cd00497 88 APVPED-F---HARFSCVSRTYRYYFPGG-DLDIEAMREAAKLLLGTHDFRNFCKKD---------GRKKNPVRTIISAE 153 (224)
T ss_pred EEeCCC-C---CCCcccCeEEEEEEECCC-CcCHHHHHHHHHHccCcccHHHhcCCC---------CCCCCCeEEEEEEE
Confidence 998743 2 112234568898877654 677777765 444433 22111 11123457799888
Q ss_pred EEEEcCCccEEEEEEEecC
Q 008711 494 IEKIAGSSQYFLLHMCTQA 512 (557)
Q Consensus 494 ~~~i~~~~~~f~l~l~tqa 512 (557)
+... .+++.+.|..++
T Consensus 154 v~~~---~~~~~i~i~g~s 169 (224)
T cd00497 154 VEEV---DDFYVFEVKGKS 169 (224)
T ss_pred EEec---CCEEEEEEEEcH
Confidence 8753 257777887764
No 42
>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=93.82 E-value=0.48 Score=48.07 Aligned_cols=157 Identities=13% Similarity=0.063 Sum_probs=91.3
Q ss_pred CcHHHHhhhccccccC--------CCceEEeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHHHHhccCCCcE
Q 008711 344 ASIEEIIGGNILPMCR--------GDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIESKINSLENKLV 415 (557)
Q Consensus 344 ~SVeE~I~~~~~~~f~--------~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~~In~~~~~~V 415 (557)
.|||+.|...+..+.+ +..+++++|||-|-.|=-+|+ -|.+.+..+.. ........+...+|..-...|
T Consensus 21 ~TVq~~le~aL~~~~~~~~~~~~~~~~~~~~~agRTD~GVHA~~q--v~~~~~~~~~~-~~~~~~~~~~~~lN~~Lp~dI 97 (245)
T cd02568 21 KTIEGELERALVKAGAISESNAGDPKKIGFSRAARTDKGVHAARN--VVSLKVIIDDP-EGLGIGEDLVEKLNSHLPEDI 97 (245)
T ss_pred CChHHHHHHHHHHcCCcCccccCChhhcceeeecccccchhheee--EEEEEEecccc-ccccchHHHHHHHHccCCCce
Confidence 5999999988888765 268999999999999999985 33333322210 001124567788998766789
Q ss_pred EEEeeEEecccchhhhcccccccccEEEEEEEEcCCCCHHHHHH-hhcccC---ceeeccCCcEEEeecCCCceeeEEEE
Q 008711 416 RVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRPLQDEDFQT-ISSLKE---TQILQKTPIRVLHRRSPLEREKIINW 491 (557)
Q Consensus 416 ~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~vt~e~l~~-l~~l~~---~~I~QrTP~RVlHRR~~~~R~R~I~~ 491 (557)
.|.+...|+..--. --.-+.|.|+=.+....-++.+.+++ +..+.| +.-- |+.+. .....-.|+|++
T Consensus 98 ~v~~~~~v~~~F~a----R~~a~~R~Y~Y~i~~~~~~d~~~m~~a~~~~~G~HdF~~F--~~~~~---~~~~~~~R~i~~ 168 (245)
T cd02568 98 RVFGITRVTKSFNA----RKACDSRTYEYLLPTFALETLDRFNEILKLYVGTHNFHNF--TVRKK---FEDPSANRFIIS 168 (245)
T ss_pred EEEEEEcCCCCCCc----chhhhcceeEEECCcccHhHHHHHHHHHHHhhCccccccC--ccccc---ccCCCceeEEEE
Confidence 99999888643211 12335688988776543234444443 333332 1111 00000 011233466888
Q ss_pred EEEEEEc---CCccEEEEEEEecC
Q 008711 492 MKIEKIA---GSSQYFLLHMCTQA 512 (557)
Q Consensus 492 ~~~~~i~---~~~~~f~l~l~tqa 512 (557)
+++.... .+...+.++|..++
T Consensus 169 ~~~~~~~~~~~~~~~i~i~i~g~~ 192 (245)
T cd02568 169 FYVSEPFVIEEGLEWVSIEIHGQS 192 (245)
T ss_pred EEEecceeecCCccEEEEEEEech
Confidence 8776431 01246667777764
No 43
>PRK14589 tRNA pseudouridine synthase ACD; Provisional
Probab=93.39 E-value=1.6 Score=45.12 Aligned_cols=157 Identities=11% Similarity=0.103 Sum_probs=96.8
Q ss_pred EEEEEeeecccCCCCcccccCccccCcCcHHHHhhhccccccC---CCceEEeecCCCcccccccCCCccEEEEEccCcc
Q 008711 317 YFGGRYLKYSRNVSQTRWIIDEERMGEASIEEIIGGNILPMCR---GDSYKFHAAGREDIDVRMLGSGRPFLFEIQNARE 393 (557)
Q Consensus 317 ~i~GRY~K~sR~lsQtpW~~~~~r~~~~SVeE~I~~~~~~~f~---~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~ 393 (557)
|.+.+|.=+++. .+ ..|||+.|...+..+.. ...+.+++|||-|--|=-+|+ -+-+.+..
T Consensus 9 YdGt~y~G~Q~Q--------~~----~~TVq~~Le~aL~~~~~~~~~~~~~i~~agRTDaGVHA~gq--v~~f~~~~--- 71 (265)
T PRK14589 9 YIGTRFFGSQYQ--------PD----QRTVEGEFIAACRRLGLFSDWREAGFALAGRTDRGVHARGQ--VLAFSTHK--- 71 (265)
T ss_pred EcCCCeeeeeeC--------CC----CCCHHHHHHHHHHHhhCccCCceeeEEEeccCCcCcccccc--EEEEEeCC---
Confidence 556666665553 11 24899999888888753 257899999999999999985 23333222
Q ss_pred CCcHHHHHHHHHHHhccCCCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcCCCCHHHHHH-hhcccC---ceee
Q 008711 394 VPSELLVKEIESKINSLENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRPLQDEDFQT-ISSLKE---TQIL 469 (557)
Q Consensus 394 ~~~~~~~~~l~~~In~~~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~vt~e~l~~-l~~l~~---~~I~ 469 (557)
.+.+...+|..-..+|.|.+...|+..--.+ -.-+.|.|+=.+. ..+++.+.+++ ++.+.| +.--
T Consensus 72 ------~~~~~~~lN~~LP~dI~V~~~~~v~~~FhAR----~~a~~R~Y~Y~i~-~~~lD~~~m~~a~~~f~G~HDF~~F 140 (265)
T PRK14589 72 ------PERAVEALNGQLPPDIWCTGWAEVPESFHPR----YDAISRTYRYYFS-RPPSDINAMRDAAGEFIGTHDFSCF 140 (265)
T ss_pred ------hHHHHHHHHhhCCCCeEEEEEEEcCCCCCcc----cCCceeEEEEEEe-cCccHHHHHHHHHHHccCCccHHHH
Confidence 2345678887766789999999887432111 1224577877664 45676666665 443332 1111
Q ss_pred ccCCcEEEeecCCCceeeEEEEEEEEEEcCCccEEEEEEEecC
Q 008711 470 QKTPIRVLHRRSPLEREKIINWMKIEKIAGSSQYFLLHMCTQA 512 (557)
Q Consensus 470 QrTP~RVlHRR~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqa 512 (557)
.+.. ...-.|+|+++++..- .+.+.++|..++
T Consensus 141 ~~~~--------~~~~vRtI~~i~v~~~---~~~~~~~i~G~~ 172 (265)
T PRK14589 141 ARVE--------GKSPVRTILRIRVFSD---GGFPVFEVTAQS 172 (265)
T ss_pred hccC--------CCCCeEEEEEEEEEEe---CCEEEEEEEech
Confidence 1111 1123567888888763 256777887774
No 44
>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=93.08 E-value=1.5 Score=43.98 Aligned_cols=138 Identities=14% Similarity=0.167 Sum_probs=89.7
Q ss_pred CcHHHHhhhccccccC---CCceEEeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHHHHhccCCCcEEEEee
Q 008711 344 ASIEEIIGGNILPMCR---GDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIESKINSLENKLVRVKNL 420 (557)
Q Consensus 344 ~SVeE~I~~~~~~~f~---~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~~In~~~~~~V~v~~L 420 (557)
.|||+.|...+..... ...+.+++|||-|-.|=-+|+= +.+.-|.. + +...+|..-..+|.|.+.
T Consensus 20 ~TVq~~le~aL~~~~~~~~~~~i~~~~agRTD~GVHA~~qv----~~f~~~~~------~--~~~~lN~~LP~dI~v~~~ 87 (221)
T cd02866 20 RTVEGELIKALRRLGIIESPKRPRLYSAGRTDAGVSALGNV----VAFETEKE------L--TPPAINNALPKDIRVWAW 87 (221)
T ss_pred CCHHHHHHHHHHHhhccccCCceEEEEEcCCccccCccccE----EEEEeCcH------H--HHHHHHhhCCCCEEEEEE
Confidence 4899999888877743 2579999999999999998853 22222221 1 456788776678999999
Q ss_pred EEecccchhhhcccccccccEEEEEEEEcCCCCHHHHHH-hhcccC------ceeeccCCcEEEeecCCCceeeEEEEEE
Q 008711 421 KIVGSQGWTLMREGEAEKQKQYAALVWISRPLQDEDFQT-ISSLKE------TQILQKTPIRVLHRRSPLEREKIINWMK 493 (557)
Q Consensus 421 ~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~vt~e~l~~-l~~l~~------~~I~QrTP~RVlHRR~~~~R~R~I~~~~ 493 (557)
..|+.+--.+ -.-+.|.|+=.++.. +++.+.+++ ++.|.| +.-. + . ..-.|+|++++
T Consensus 88 ~~v~~~F~ar----~~a~~r~Y~Y~i~~~-~ld~~~m~~a~~~~~G~HDF~~F~~~-~-~---------~~~~R~I~~~~ 151 (221)
T cd02866 88 AKVPEDFHPR----RDARRRYYRYYLGAE-DYDVEAMAEAAKKLIGTHDFSNFSKR-D-G---------RDPVRTIERIE 151 (221)
T ss_pred EEeCCCCCCC----ccCCeEEEEEEECCC-cCCHHHHHHHHHHhcCCcCHHHhhCC-C-C---------CCCcEEEEEEE
Confidence 9887542222 233568898877654 677777765 444433 2210 0 0 02346788888
Q ss_pred EEEEcCCccEEEEEEEecC
Q 008711 494 IEKIAGSSQYFLLHMCTQA 512 (557)
Q Consensus 494 ~~~i~~~~~~f~l~l~tqa 512 (557)
+..- ..++.++|..++
T Consensus 152 ~~~~---~~~~~~~i~g~~ 167 (221)
T cd02866 152 IREN---GEFLVIDVVGES 167 (221)
T ss_pred EEEc---CCEEEEEEEEcH
Confidence 7652 257777877774
No 45
>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=92.41 E-value=2.6 Score=43.41 Aligned_cols=155 Identities=10% Similarity=0.053 Sum_probs=93.0
Q ss_pred CcHHHHhhhccccccC---CCceEEeecCCCcccccccCCCccEEEEEccCccCC------------cHHHHHHHHHHHh
Q 008711 344 ASIEEIIGGNILPMCR---GDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVP------------SELLVKEIESKIN 408 (557)
Q Consensus 344 ~SVeE~I~~~~~~~f~---~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~------------~~~~~~~l~~~In 408 (557)
.|||+.|...+..+.. ...+.+++|||-|--|=-+|+ -+.+.+..+.... ....-..+...+|
T Consensus 21 ~TVq~~Le~aL~~~~~i~~~~~~~~~~agRTD~GVHA~~q--v~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lN 98 (256)
T cd02569 21 NTVEETLFEALEKTRLIEDRQTSNYSRCGRTDKGVSAFGQ--VISLDVRSNLKPEDGLDPSTDVKSTADEEELPYCKILN 98 (256)
T ss_pred CCHHHHHHHHHHHhcCCCCCCceeEEeecccCccccccCc--EEEEEecCCCCccccccccccccccccchHHHHHHHHH
Confidence 4899999988888763 357999999999999999885 3333332111000 0001124667889
Q ss_pred ccCCCcEEEEeeEEecccchhhhcccccccccEEEEEEEEcCCCCHHHHHH-hhccc------CceeeccCCcEEEeecC
Q 008711 409 SLENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWISRPLQDEDFQT-ISSLK------ETQILQKTPIRVLHRRS 481 (557)
Q Consensus 409 ~~~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~~~~vt~e~l~~-l~~l~------~~~I~QrTP~RVlHRR~ 481 (557)
..-..+|.|.+...|+..-- ..-.-+.|.|+=+++.. +++.+.+++ ++.|. .+.-. + ....
T Consensus 99 ~~LP~dI~V~~~~~v~~~Fh----aR~~a~~R~Y~Y~i~~~-~ldi~~m~~a~~~f~G~HDF~~F~~~-----~--~~~~ 166 (256)
T cd02569 99 RVLPPDIRILAWAPVPPDFS----ARFSCVSRTYRYFFPKG-DLDIELMRKAAKLLLGEHDFRNFCKM-----D--VANQ 166 (256)
T ss_pred hhCCCCcEEEEEEECCCCcC----CCccCCceEEEEEecCC-CCCHHHHHHHHHHhhCCcchHHHhcc-----C--cccC
Confidence 87667899999999874321 11234668898777654 677677665 33333 22210 0 0001
Q ss_pred CCceeeEEEEEEEEEEc---CCccEEEEEEEecC
Q 008711 482 PLEREKIINWMKIEKIA---GSSQYFLLHMCTQA 512 (557)
Q Consensus 482 ~~~R~R~I~~~~~~~i~---~~~~~f~l~l~tqa 512 (557)
...-.|+|+++++.... +....+.++|..++
T Consensus 167 ~~~~~RtI~~~~v~~~~~~~~~~~~~~~~i~g~~ 200 (256)
T cd02569 167 VTNYVRRVLSAEVEPVDQHPDGDGLYYFEVRGSA 200 (256)
T ss_pred CCCCceEEEEEEEEEccCCCCCCcEEEEEEEEcH
Confidence 12345678888887632 00246677777764
No 46
>PRK14587 tRNA pseudouridine synthase ACD; Provisional
Probab=80.51 E-value=33 Score=35.50 Aligned_cols=134 Identities=16% Similarity=0.109 Sum_probs=79.0
Q ss_pred cHHHHhhhccccccCCCceEEeecCCCcccccccCCCccEEEEEccCccCCcHHHHHHHHHHHhccCCCcEEEEeeEEec
Q 008711 345 SIEEIIGGNILPMCRGDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVPSELLVKEIESKINSLENKLVRVKNLKIVG 424 (557)
Q Consensus 345 SVeE~I~~~~~~~f~~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~~~~~~~~l~~~In~~~~~~V~v~~L~~v~ 424 (557)
|||+.|...+..+++ .|||-|--|=-+|+ ++.+ |...+ . ..+|..-..+|.|.+...|+
T Consensus 23 TVq~~Le~aL~~i~~-------~agRTDaGVHA~~q----v~~~--~~~~~----~----~~LN~~LP~dI~V~~~~~V~ 81 (256)
T PRK14587 23 SLEPALRRVFGEILG-------RGSRTDPGVSAVGN----VVMT--SQKLP----L----GYVNSKLPRGVWAWAVAEVP 81 (256)
T ss_pred hHHHHHHHHHHHhcc-------CccCCccCCCcccC----EEEE--CCcCC----H----HHHHhcCCCCeEEEEEEECC
Confidence 899999888777643 29999999999987 3344 22222 1 35676655679999999987
Q ss_pred ccchhhhcccccccccEEEEEEEEcCCCCHHHHHH-hhcccCce-eeccCCcEEEeecCCCc-eeeEEEEEEEEEEcCCc
Q 008711 425 SQGWTLMREGEAEKQKQYAALVWISRPLQDEDFQT-ISSLKETQ-ILQKTPIRVLHRRSPLE-REKIINWMKIEKIAGSS 501 (557)
Q Consensus 425 r~~~~~lk~~e~~k~K~Y~alv~~~~~vt~e~l~~-l~~l~~~~-I~QrTP~RVlHRR~~~~-R~R~I~~~~~~~i~~~~ 501 (557)
..-=.+ . -+.|.|+=++. ..+++.+.+++ ++.|.|.- -.--++.+ ..... -.|+|+++++..- +
T Consensus 82 ~~FhaR-~----a~~R~Y~Y~i~-~~~lDi~~m~~aa~~l~G~HDF~~F~~~~----~~~~~~~vRtI~~i~v~~~-~-- 148 (256)
T PRK14587 82 EGFNPR-R----AKRRRYLYVAP-HWGEDVEAMREAAELLAGTHDYSSFIQRR----GEKATPTVTTVYEIGVELR-G-- 148 (256)
T ss_pred CCcCcC-c----ccceEEEEEEc-cCcchHHHHHHHHHHhcCCcChHHhccCC----CCCCCCCEEEEEEEEEEEe-C--
Confidence 542222 1 26688887662 34566666665 44443310 00000000 01111 2467888888652 2
Q ss_pred cEEEEEEEecC
Q 008711 502 QYFLLHMCTQA 512 (557)
Q Consensus 502 ~~f~l~l~tqa 512 (557)
..+.++|..++
T Consensus 149 ~~i~i~i~g~s 159 (256)
T PRK14587 149 DLIYLYFVGRG 159 (256)
T ss_pred CEEEEEEEech
Confidence 46667777764
No 47
>KOG4393 consensus Predicted pseudouridylate synthase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=53.61 E-value=40 Score=35.41 Aligned_cols=96 Identities=11% Similarity=0.047 Sum_probs=65.9
Q ss_pred cHHHHhhhccccccCCCceEEeecCCCcccccccCCCccEEEEEccCccCC-cHHHHHHHHHHHhccCCCcEEEEeeEEe
Q 008711 345 SIEEIIGGNILPMCRGDSYKFHAAGREDIDVRMLGSGRPFLFEIQNAREVP-SELLVKEIESKINSLENKLVRVKNLKIV 423 (557)
Q Consensus 345 SVeE~I~~~~~~~f~~~~~~F~~sGREDvDVRmLG~GRPFvlEi~nPr~~~-~~~~~~~l~~~In~~~~~~V~v~~L~~v 423 (557)
.||..|.+...+..+-+..+|.+|+|-|--|--+++ +++..-|+..- ..+.+..-...+-...+|.|+|+++.-|
T Consensus 31 tIq~~leea~eeqt~l~~l~l~~ssrtDa~Vha~~n----aa~~~vpr~sg~~~~~~~~a~nt~l~~k~gdirV~dv~~V 106 (295)
T KOG4393|consen 31 TIQGFLEEASEEQTGLDRLDLESSSRTDAGVHAYLN----AAHYIVPRFSGSQQQAKDRAVNTVLQRKDGDIRVIDVRCV 106 (295)
T ss_pred ehhhhhhhhHHhhcCCcceeecccCCCchhhheeee----eEEEEeecccCCcHHHHHHHHhccccCCCCceEEEEeeec
Confidence 466666666666677799999999999999999998 56777777632 2344444444444556789999999999
Q ss_pred cccchhhhcccccccccEEEEEE
Q 008711 424 GSQGWTLMREGEAEKQKQYAALV 446 (557)
Q Consensus 424 ~r~~~~~lk~~e~~k~K~Y~alv 446 (557)
..+--.+-+ ...+.=.||...
T Consensus 107 ps~FhaR~s--assRtY~YRla~ 127 (295)
T KOG4393|consen 107 PSNFHARYS--ASSRTYFYRLAS 127 (295)
T ss_pred Ccchhheec--ccceeEEEEeec
Confidence 877554444 334445555543
No 48
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=50.95 E-value=6.2 Score=40.70 Aligned_cols=15 Identities=73% Similarity=1.121 Sum_probs=13.5
Q ss_pred cCCCcccccccCCCc
Q 008711 368 AGREDIDVRMLGSGR 382 (557)
Q Consensus 368 sGREDvDVRmLG~GR 382 (557)
+-|||+||||+|+|-
T Consensus 27 AdRedI~vrv~gsGa 41 (277)
T PRK00994 27 ADREDIDVRVVGSGA 41 (277)
T ss_pred hcccCceEEEeccCC
Confidence 569999999999994
No 49
>KOG2529 consensus Pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=44.61 E-value=9.8 Score=41.70 Aligned_cols=95 Identities=17% Similarity=0.292 Sum_probs=66.3
Q ss_pred cccEEEEEEEEcCCC-CHHHHHH-hhcccCceeeccCCcEEEeecCCCceeeEEEEEEEEEEcCCccEEEEEEEecCCce
Q 008711 438 KQKQYAALVWISRPL-QDEDFQT-ISSLKETQILQKTPIRVLHRRSPLEREKIINWMKIEKIAGSSQYFLLHMCTQAGTY 515 (557)
Q Consensus 438 k~K~Y~alv~~~~~v-t~e~l~~-l~~l~~~~I~QrTP~RVlHRR~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqaGtY 515 (557)
--|.|.+.+..+.++ +...+.. +..+-+ ..-|++|+=-..+|- .|.|.+|+-+...-+-.-++.+..+.|.+|||
T Consensus 128 ~gk~yvg~~~lt~~v~~~~k~~~~~e~l~g-~l~~~~pl~~~~kr~--~~v~~~y~s~~ie~d~~~~l~~f~~~~~~~t~ 204 (395)
T KOG2529|consen 128 AGKEYVGIGKLTPEVEDALKLHQKLEHLYG-ALFQRPPLISAVKRV--LRVRTLYESKIIEYDRDYPLLRFGVSCEAGTY 204 (395)
T ss_pred cCcEEEEEEecCcchhhhhhhccchhhhhh-hhccCCchhhhccce--eEeechhhhhcccccccchhccccccccccch
Confidence 348899999999988 4444544 445544 678999987776665 67888888777655443466677899999999
Q ss_pred eeEeeeCCCCCcCcchhhhcCCccEEEE
Q 008711 516 IKEFVHGDLGRTNPSIGSILGCRAEILQ 543 (557)
Q Consensus 516 IKEfVhGD~GRT~Psl~~iLg~~a~ile 543 (557)
+.-...- ++.+||+...+.|
T Consensus 205 ~rt~~~~--------lg~ll~~g~k~~E 224 (395)
T KOG2529|consen 205 KRTMCVH--------LGLLLGFGGKMQE 224 (395)
T ss_pred HHHHHHh--------hhhHhhhcchhhh
Confidence 9765533 4566666544443
No 50
>KOG2559 consensus Predicted pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=43.48 E-value=18 Score=37.64 Aligned_cols=58 Identities=28% Similarity=0.374 Sum_probs=49.7
Q ss_pred cCCCceeeEEEEEEEEEEcCCccEEEEEEEecCCc--eeeEeeeCCCCCcCcchhhhcCCccEEEEEEEE
Q 008711 480 RSPLEREKIINWMKIEKIAGSSQYFLLHMCTQAGT--YIKEFVHGDLGRTNPSIGSILGCRAEILQLDVT 547 (557)
Q Consensus 480 R~~~~R~R~I~~~~~~~i~~~~~~f~l~l~tqaGt--YIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~ 547 (557)
||...-.-.||.+++.+.. +-+|.|++.|.+-| |...+||- +|.=||+.|.|.+|--.
T Consensus 186 Rp~~~s~~ivygI~l~~F~--~P~F~le~qc~~Etqe~Lr~LVh~--------igl~L~T~a~c~qlrr~ 245 (318)
T KOG2559|consen 186 RPQLPSSQIVYGIDLNWFR--SPKFSLETQCSGETQEMLRQLVHH--------IGLNLGTEATCIQLRRQ 245 (318)
T ss_pred CcCCCCCceEEEEeeeeec--CCccEEEEeeccccHHHHHHHHHH--------Hhhcccceeeeeeeeee
Confidence 5666777899999999986 36888898888877 99999998 99999999999998654
No 51
>PF01993 MTD: methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase; InterPro: IPR002844 This archaeal enzyme family is involved in formation of methane from carbon dioxide 1.5.99.9 from EC. The enzyme requires coenzyme F420 [].; GO: 0008901 ferredoxin hydrogenase activity, 0015948 methanogenesis, 0055114 oxidation-reduction process; PDB: 1U6I_D 3IQF_G 1QV9_C 3IQE_F 1U6J_G 3IQZ_D 1U6K_B.
Probab=41.09 E-value=7.2 Score=40.29 Aligned_cols=15 Identities=73% Similarity=1.121 Sum_probs=11.7
Q ss_pred cCCCcccccccCCCc
Q 008711 368 AGREDIDVRMLGSGR 382 (557)
Q Consensus 368 sGREDvDVRmLG~GR 382 (557)
+-|||+||||+|+|-
T Consensus 26 AdRedI~vrv~gsGa 40 (276)
T PF01993_consen 26 ADREDIDVRVVGSGA 40 (276)
T ss_dssp S--SSEEEEEEEEET
T ss_pred hccCCceEEEeccCC
Confidence 569999999999983
No 52
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=40.87 E-value=11 Score=38.23 Aligned_cols=16 Identities=63% Similarity=0.997 Sum_probs=14.2
Q ss_pred cCCCcccccccCCCcc
Q 008711 368 AGREDIDVRMLGSGRP 383 (557)
Q Consensus 368 sGREDvDVRmLG~GRP 383 (557)
+-||||+||++|+|--
T Consensus 27 AdRedi~vrVvgsgaK 42 (277)
T COG1927 27 ADREDIEVRVVGSGAK 42 (277)
T ss_pred cccCCceEEEeccccc
Confidence 6799999999999954
No 53
>COG4994 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.94 E-value=24 Score=32.34 Aligned_cols=42 Identities=24% Similarity=0.416 Sum_probs=26.4
Q ss_pred ecCCceeeEeeeCCCCCcCcchhhhcCCccEEEEEEEEEEeccccc
Q 008711 510 TQAGTYIKEFVHGDLGRTNPSIGSILGCRAEILQLDVTDVKMNCFL 555 (557)
Q Consensus 510 tqaGtYIKEfVhGD~GRT~Psl~~iLg~~a~ileLDV~~V~~d~~~ 555 (557)
|+.| ||+.||||-.--+.-+|++.. -+|..+|+-.++-||.|
T Consensus 39 ~~SG-y~~~yv~g~~~~~~~~lgd~~---wei~d~~ik~l~~d~vL 80 (120)
T COG4994 39 GASG-YSRSYVLGVLDARHGHLGDAF---WEISDLRIKALAPDNVL 80 (120)
T ss_pred ccCc-eeeeeeeeeeccccCchhhhH---HhhhcceeeeecCCcEE
Confidence 7788 999999997666666665542 33444444444444443
No 54
>PLN03078 Putative tRNA pseudouridine synthase; Provisional
Probab=33.70 E-value=1.2e+02 Score=34.66 Aligned_cols=117 Identities=16% Similarity=0.106 Sum_probs=75.8
Q ss_pred EEEEEeeecccCCCCcccccCccccCcCcHHHHhhhccccccCC--------CceEEeecCCCcccccccCCCccEEEEE
Q 008711 317 YFGGRYLKYSRNVSQTRWIIDEERMGEASIEEIIGGNILPMCRG--------DSYKFHAAGREDIDVRMLGSGRPFLFEI 388 (557)
Q Consensus 317 ~i~GRY~K~sR~lsQtpW~~~~~r~~~~SVeE~I~~~~~~~f~~--------~~~~F~~sGREDvDVRmLG~GRPFvlEi 388 (557)
|.+.+|.=+++. ++. ....+||+.|...|.++.+- ..+.|+.|||-|--|=-+|.===|-+++
T Consensus 79 YdGt~Y~G~Q~Q-~n~--------~~~~TVEg~LE~AL~k~~~I~e~n~~~~~ki~~~rAgRTDkGVHA~gQVvsf~l~~ 149 (513)
T PLN03078 79 YVGTDYRGLQKQ-RDL--------SSLSTIEGELETAIFKAGGIRESNYGNLHKIGWARSSRTDKGVHSLATMISLKMEI 149 (513)
T ss_pred EcCCCcceeeEC-CCC--------CCCCCHHHHHHHHHHHHhCccccccccccceeEEeeccCCcCccccccEEEEeccC
Confidence 677788777664 111 01248999998888777652 4789999999999999998633333332
Q ss_pred ccCcc-CCcHHHHHHHHHHHhccCCCcEEEEeeEEecccchhhhcccccccccEEEEEEEE
Q 008711 389 QNARE-VPSELLVKEIESKINSLENKLVRVKNLKIVGSQGWTLMREGEAEKQKQYAALVWI 448 (557)
Q Consensus 389 ~nPr~-~~~~~~~~~l~~~In~~~~~~V~v~~L~~v~r~~~~~lk~~e~~k~K~Y~alv~~ 448 (557)
|.. .....+...+...||..-...|.|.....|+..--. .-.-+.|+|+=++..
T Consensus 150 --p~~~~~~d~~~~~L~~~LN~~LP~DIRVl~v~~V~~~FhA----R~sc~sRtY~Y~iP~ 204 (513)
T PLN03078 150 --PENAWKDDPDGIALAKFINSHLPDNIRVFSILPAQRSFDP----RRECDLRKYSYLLPA 204 (513)
T ss_pred --cchhccccchHHHHHHHHHhcCCCCeEEEEEEECCCCcCC----CCCCCceEEEEEEcc
Confidence 211 000011225678899876678999999998754222 223456888888766
No 55
>PF11005 DUF2844: Protein of unknown function (DUF2844); InterPro: IPR021267 This bacterial family of proteins has no known function.
Probab=32.47 E-value=40 Score=31.81 Aligned_cols=33 Identities=30% Similarity=0.508 Sum_probs=28.4
Q ss_pred EEEEecCCceeeEeeeCCC--------CCcCcchhhhcCCc
Q 008711 506 LHMCTQAGTYIKEFVHGDL--------GRTNPSIGSILGCR 538 (557)
Q Consensus 506 l~l~tqaGtYIKEfVhGD~--------GRT~Psl~~iLg~~ 538 (557)
=++.+..||=|+|++..|. |=|.|.|..|||..
T Consensus 35 ~~~t~~~Gt~VrEY~~~~G~VFAvaW~GP~~PdL~~LLGsY 75 (132)
T PF11005_consen 35 RETTDASGTTVREYVTPDGIVFAVAWQGPTMPDLQALLGSY 75 (132)
T ss_pred EEEEcCCCcEEEEEEcCCCcEEEEEecCCCCccHHHHHHhh
Confidence 3556689999999999885 89999999999964
No 56
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=27.82 E-value=32 Score=32.99 Aligned_cols=14 Identities=21% Similarity=0.586 Sum_probs=11.6
Q ss_pred Cccccccccccccc
Q 008711 101 PNICRSCLGILQFT 114 (557)
Q Consensus 101 ~~~C~iClGiLq~~ 114 (557)
...|..|.|.|.+.
T Consensus 128 ~F~Cp~Cg~~L~~~ 141 (158)
T TIGR00373 128 NFTCPRCGAMLDYL 141 (158)
T ss_pred CCcCCCCCCEeeec
Confidence 46899999999853
No 57
>COG3527 AlsD Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=24.24 E-value=25 Score=36.07 Aligned_cols=29 Identities=45% Similarity=0.736 Sum_probs=22.8
Q ss_pred ceeeEee-eCCCCCcCcchhhhcCCccEEEEEEEE
Q 008711 514 TYIKEFV-HGDLGRTNPSIGSILGCRAEILQLDVT 547 (557)
Q Consensus 514 tYIKEfV-hGD~GRT~Psl~~iLg~~a~ileLDV~ 547 (557)
+-|||+. ||||| ||-+=+.+-+.+-||=.
T Consensus 23 ~ti~ell~hGd~G-----igTl~~~dGEli~ldg~ 52 (234)
T COG3527 23 ATIKELLEHGDLG-----IGTLDSLDGELIILDGK 52 (234)
T ss_pred eeHHHHhhcCCcc-----eeeeccCCceEEEEcce
Confidence 3489988 99999 88877777777777743
No 58
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=23.86 E-value=46 Score=32.60 Aligned_cols=15 Identities=20% Similarity=0.215 Sum_probs=12.1
Q ss_pred Ccccccccccccccc
Q 008711 101 PNICRSCLGILQFTY 115 (557)
Q Consensus 101 ~~~C~iClGiLq~~~ 115 (557)
...|..|.|.|.+..
T Consensus 136 ~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 136 GFRCPQCGEMLEEYD 150 (178)
T ss_pred CCcCCCCCCCCeecc
Confidence 468999999998643
Done!