Query 009707
Match_columns 528
No_of_seqs 177 out of 1125
Neff 3.4
Searched_HMMs 46136
Date Thu Mar 28 16:22:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009707.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009707hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00506 PseudoU_synth_TruB_lik 100.0 6.5E-76 1.4E-80 563.2 23.5 210 310-519 1-210 (210)
2 PRK00020 truB tRNA pseudouridi 100.0 7E-76 1.5E-80 574.1 24.2 213 309-523 10-224 (244)
3 PRK02755 truB tRNA pseudouridi 100.0 8.9E-76 1.9E-80 586.2 24.9 213 310-523 4-217 (295)
4 PRK01550 truB tRNA pseudouridi 100.0 9.2E-76 2E-80 588.0 24.5 214 310-523 3-221 (304)
5 PRK00130 truB tRNA pseudouridi 100.0 1.1E-75 2.5E-80 584.1 24.3 211 310-522 3-213 (290)
6 PRK02484 truB tRNA pseudouridi 100.0 1.4E-75 3.1E-80 584.4 24.8 216 310-525 4-224 (294)
7 PRK04642 truB tRNA pseudouridi 100.0 1.7E-75 3.8E-80 585.2 25.4 213 309-523 10-222 (300)
8 TIGR00431 TruB tRNA pseudourid 100.0 1.5E-75 3.3E-80 560.8 23.6 207 310-519 3-209 (209)
9 PRK01528 truB tRNA pseudouridi 100.0 2.1E-75 4.6E-80 582.8 24.7 214 308-522 2-215 (292)
10 PRK03287 truB tRNA pseudouridi 100.0 2.7E-75 5.9E-80 583.4 24.8 214 309-522 9-224 (298)
11 PRK01851 truB tRNA pseudouridi 100.0 4.1E-75 8.9E-80 583.2 25.2 211 309-522 16-226 (303)
12 PRK14123 tRNA pseudouridine sy 100.0 3.7E-75 8E-80 583.9 24.6 214 310-523 4-222 (305)
13 cd02573 PseudoU_synth_EcTruB P 100.0 6.6E-75 1.4E-79 575.4 24.6 214 310-523 1-214 (277)
14 PRK05033 truB tRNA pseudouridi 100.0 9.9E-75 2.1E-79 582.4 25.8 212 309-523 10-221 (312)
15 PRK00989 truB tRNA pseudouridi 100.0 8.3E-75 1.8E-79 562.6 24.0 211 308-522 8-219 (230)
16 PRK05389 truB tRNA pseudouridi 100.0 1.4E-74 3E-79 579.8 24.4 212 309-522 13-224 (305)
17 PRK14124 tRNA pseudouridine sy 100.0 2E-74 4.3E-79 579.3 23.8 210 309-521 3-212 (308)
18 PRK14122 tRNA pseudouridine sy 100.0 2.6E-74 5.7E-79 579.2 24.0 212 311-522 3-246 (312)
19 PRK14846 truB tRNA pseudouridi 100.0 1.8E-73 3.9E-78 577.9 25.0 215 308-523 2-216 (345)
20 PRK04099 truB tRNA pseudouridi 100.0 7.6E-73 1.7E-77 560.1 22.5 208 310-520 3-210 (273)
21 PRK02193 truB tRNA pseudouridi 100.0 4E-72 8.7E-77 556.4 22.8 202 311-512 2-203 (279)
22 cd02867 PseudoU_synth_TruB_4 P 100.0 7.9E-70 1.7E-74 546.9 23.5 213 310-522 1-250 (312)
23 cd02868 PseudoU_synth_hTruB2_l 100.0 2.2E-64 4.7E-69 488.0 22.2 208 310-519 1-217 (226)
24 cd02572 PseudoU_synth_hDyskeri 100.0 3.7E-60 8.1E-65 445.2 21.6 179 309-522 2-181 (182)
25 COG0130 TruB Pseudouridine syn 100.0 1.5E-60 3.2E-65 472.2 18.6 189 301-523 5-195 (271)
26 TIGR00425 CBF5 rRNA pseudourid 100.0 4.6E-58 9.9E-63 463.0 21.8 179 307-522 32-210 (322)
27 PRK04270 H/ACA RNA-protein com 100.0 4.5E-58 9.8E-63 458.2 20.6 180 307-523 20-199 (300)
28 PF01509 TruB_N: TruB family p 100.0 1.4E-54 2.9E-59 396.8 16.3 149 330-480 1-149 (149)
29 KOG2559 Predicted pseudouridin 100.0 5.1E-34 1.1E-38 280.3 12.8 209 303-526 6-273 (318)
30 KOG2529 Pseudouridine synthase 100.0 2.4E-30 5.2E-35 267.0 -1.5 365 13-390 8-393 (395)
31 KOG2529 Pseudouridine synthase 99.9 2.1E-23 4.5E-28 215.8 6.9 182 307-522 66-248 (395)
32 cd01291 PseudoU_synth PseudoU_ 99.2 1.1E-10 2.4E-15 96.8 8.6 50 314-378 1-51 (87)
33 TIGR01213 conserved hypothetic 98.7 3.8E-08 8.2E-13 103.4 8.8 120 351-505 254-385 (388)
34 PRK14554 putative pseudouridyl 98.4 5.3E-07 1.2E-11 95.8 7.5 121 350-505 286-418 (422)
35 cd02553 PseudoU_synth_RsuA Pse 98.2 1.7E-05 3.7E-10 73.6 11.3 139 311-512 2-152 (167)
36 cd02566 PseudoU_synth_RluE Pse 98.1 1.1E-05 2.3E-10 75.0 7.9 66 311-378 1-75 (168)
37 PRK10475 23S rRNA pseudouridin 98.1 3.9E-05 8.3E-10 78.0 12.4 144 310-521 68-231 (290)
38 cd02556 PseudoU_synth_RluB Pse 98.0 6.3E-05 1.4E-09 69.8 11.7 67 311-378 2-78 (167)
39 PRK10700 23S rRNA pseudouridyl 98.0 0.00011 2.5E-09 74.3 12.9 151 310-520 68-238 (289)
40 PRK11394 23S rRNA pseudouridin 97.8 0.00011 2.3E-09 72.3 10.4 69 310-378 40-114 (217)
41 cd02554 PseudoU_synth_RluF Pse 97.8 0.00018 3.9E-09 67.7 11.0 139 311-512 2-148 (164)
42 cd02555 PSSA_1 PSSA_1: Pseudou 97.7 0.00027 5.9E-09 66.8 10.7 66 311-378 6-89 (177)
43 PRK10158 23S rRNA/tRNA pseudou 97.5 0.00024 5.1E-09 68.7 6.3 75 302-381 16-103 (219)
44 TIGR01621 RluA-like pseudourid 97.4 0.00027 5.9E-09 68.3 6.5 72 309-381 9-90 (217)
45 PRK10839 16S rRNA pseudouridyl 97.4 0.00065 1.4E-08 65.7 8.5 141 310-512 61-212 (232)
46 cd02557 PseudoU_synth_ScRIB2 P 97.4 0.0004 8.6E-09 66.8 6.9 72 309-381 23-106 (213)
47 cd02558 PSRA_1 PSRA_1: Pseudou 97.4 0.00043 9.3E-09 68.1 6.9 71 308-378 45-127 (246)
48 COG1187 RsuA 16S rRNA uridine- 97.3 0.0018 3.9E-08 65.2 10.5 150 311-522 65-241 (248)
49 cd02563 PseudoU_synth_TruC tRN 97.2 0.00081 1.8E-08 64.9 6.4 72 309-382 8-93 (223)
50 cd02867 PseudoU_synth_TruB_4 P 97.1 0.00015 3.2E-09 74.9 1.2 38 474-511 254-291 (312)
51 COG0564 RluA Pseudouridylate s 97.0 0.0017 3.7E-08 66.0 7.1 79 302-383 80-172 (289)
52 TIGR00005 rluA_subfam pseudour 97.0 0.0013 2.8E-08 65.5 6.0 71 310-381 80-166 (299)
53 PF00849 PseudoU_synth_2: RNA 96.9 0.00033 7.1E-09 62.8 1.1 78 311-388 2-95 (164)
54 PRK11180 rluD 23S rRNA pseudou 96.8 0.0018 4E-08 66.0 5.9 71 310-381 92-178 (325)
55 PRK11112 tRNA pseudouridine sy 96.8 0.0026 5.6E-08 63.1 6.6 71 309-381 9-93 (257)
56 PF08068 DKCLD: DKCLD (NUC011) 96.8 0.00067 1.5E-08 55.3 2.1 20 307-326 40-59 (59)
57 cd02550 PseudoU_synth_Rsu_Rlu_ 96.8 0.0017 3.7E-08 59.1 4.6 69 311-381 1-79 (154)
58 cd02870 PseudoU_synth_RsuA_lik 96.7 0.0047 1E-07 55.9 7.0 65 312-378 2-76 (146)
59 PRK11025 23S rRNA pseudouridyl 96.7 0.0036 7.7E-08 63.8 6.4 69 310-378 101-181 (317)
60 cd02869 PseudoU_synth_RluCD_li 96.5 0.0038 8.2E-08 56.9 5.1 70 311-381 1-86 (185)
61 COG1258 Predicted pseudouridyl 96.1 0.033 7.3E-07 59.5 9.6 105 368-507 279-392 (398)
62 TIGR00093 pseudouridine syntha 95.2 0.19 4.2E-06 44.9 9.9 38 469-512 78-117 (128)
63 KOG1919 RNA pseudouridylate sy 94.7 0.053 1.2E-06 57.6 5.9 77 306-382 110-199 (371)
64 cd02575 PseudoU_synth_EcTruD P 51.8 62 0.0014 33.2 7.8 47 311-358 28-76 (253)
65 cd02577 PSTD1 PSTD1: Pseudouri 50.3 36 0.00079 35.8 6.1 68 290-359 8-77 (319)
66 TIGR00094 tRNA_TruD_broad tRNA 44.7 51 0.0011 35.0 6.2 49 310-359 44-94 (387)
67 COG0575 CdsA CDP-diglyceride s 43.4 15 0.00033 36.9 2.0 26 322-347 216-247 (265)
68 COG0585 Uncharacterized conser 42.5 55 0.0012 35.8 6.1 69 288-358 28-98 (406)
69 PRK00984 truD tRNA pseudouridi 41.2 1E+02 0.0023 32.6 7.8 65 291-357 26-92 (341)
70 cd02552 PseudoU_synth_TruD_lik 39.4 87 0.0019 31.6 6.6 50 311-361 34-85 (232)
71 PF08555 DUF1754: Eukaryotic f 22.1 45 0.00097 28.8 1.1 25 110-134 73-97 (98)
No 1
>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=100.00 E-value=6.5e-76 Score=563.21 Aligned_cols=210 Identities=40% Similarity=0.680 Sum_probs=203.9
Q ss_pred eEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCC
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDAD 389 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~e 389 (528)
|||+||||.|||||+||++||++++.+||||+|||||+||||||||+|+|||+++++++.+|+|+++++||.+|||+|.+
T Consensus 1 Gil~i~KP~g~tS~~vv~~ik~~~~~kKvGH~GTLDP~AsGvLiv~vG~aTkl~~~~~~~~K~Y~~~~~lG~~TdT~D~~ 80 (210)
T cd00506 1 GLFAVDKPQGPSSHDVVDTIRRIFLAEKVGHGGTLDPFATGVLVVGIGKATKLLKHLLAATKDYTAIGRLGQATDTFDAT 80 (210)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHhCccccCCCCcCCCcCeeEEEEEECHHHhhhHHHhcCCceEEEEEEECCcCCCCCCC
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceEE
Q 009707 390 SPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLI 469 (528)
Q Consensus 390 GkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~t 469 (528)
|+|++++++.|+|.++|++++++|+|+++|+||+|||+|+||+|||||||+|++|++++|+|.||+++++.+....+.+.
T Consensus 81 G~v~~~~~~~~it~e~l~~~l~~f~G~i~Q~pP~ySAvKv~G~raYelAR~G~~v~~~~r~v~I~~i~ll~~~~~~~~~~ 160 (210)
T cd00506 81 GQVIEETPYDHITHEQLERALETLTGDIQQVPPLYSAVKRQGQRAYELARRGLLVPDEARPPTIYELLCIRFNPPHFLLE 160 (210)
T ss_pred CCEEEEeCCCCCCHHHHHHHHHHCCCeEEEeCCchheEEECCHhHHHHHHCCCccccCcEeEEEEEEEEEEEcCCCcEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999987643336899
Q ss_pred EEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHH
Q 009707 470 FRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKEL 519 (528)
Q Consensus 470 feV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL 519 (528)
|+|.||+||||||||+|||.+|||+|||++||||++|+|+++||+++++|
T Consensus 161 ~~v~cs~GTYIRsL~~Dig~~Lg~~a~l~~L~R~~~G~f~~~~a~~l~~l 210 (210)
T cd00506 161 VEVVCETGTYIRTLIHDLGLELGVGAHVTELRRTRVGPFKVENAVTLHHL 210 (210)
T ss_pred EEEEECCCcCHHHHHHHHHHHhCCcEEEEEEEEEEECCCchhhccchhhC
Confidence 99999999999999999999999999999999999999999999999875
No 2
>PRK00020 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=7e-76 Score=574.10 Aligned_cols=213 Identities=38% Similarity=0.672 Sum_probs=206.0
Q ss_pred ceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCC
Q 009707 309 GTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDA 388 (528)
Q Consensus 309 GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~ 388 (528)
+|||+||||.|||||+||++|||+++.+||||+|||||+||||||||+|+|||+++++++.+|+|+++++||.+|||+|.
T Consensus 10 ~Gil~vdKP~G~TS~dvv~~vkr~~~~kKvGH~GTLDP~AtGvLiv~iG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~D~ 89 (244)
T PRK00020 10 DGVLLLDKPVGLSSNHALQRAKRTVDAAKAGHTGTLDPFATGLLVCCMGRATKISGRMLEADKTYQATLQFGEETDSGDL 89 (244)
T ss_pred CeEEEEecCCCCCHHHHHHHHHHHhCCCCCCcCCcCCCcCeeEEEEEECHHhhhhHHhccCCcEEEEEEEeCCcccCCCC
Confidence 35999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCeEeecc--CCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCc
Q 009707 389 DSPVIQREP--WEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQ 466 (528)
Q Consensus 389 eGkVie~~p--~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p 466 (528)
+|+|+++.+ +.|+|.++|+++|++|+|+++|+||+|||+|+||+|||+|||+|++|++++|+|+||+++++.+ +.+
T Consensus 90 ~G~v~~~~~~~~~~it~e~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~--~~~ 167 (244)
T PRK00020 90 TGHIVARAPDGFAGVEEAALRDVLSRFVGTIEQIPPMYSALKRDGKPLYEYARAGIELDRPPRQVTIRHIELLSF--SGM 167 (244)
T ss_pred CCcEEEeccCccCCCCHHHHHHHHHhccCeEEEeCChhheEEECCeEHHHHHhCCcccccCCeeEEEEEEEEEEE--eCC
Confidence 999999987 4599999999999999999999999999999999999999999999999999999999999876 357
Q ss_pred eEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHHH
Q 009707 467 NLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523 (528)
Q Consensus 467 ~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~i 523 (528)
.++|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|..+.
T Consensus 168 ~~~~~v~cSkGTYIRSL~~DiG~~Lg~~a~l~~LrRt~~G~f~l~~a~~l~~l~~~~ 224 (244)
T PRK00020 168 QAQIDVACSKGTYIRTLAQDIGRALGCHAHLAALRRTHVGPFSLDRAVTLEALQAMP 224 (244)
T ss_pred EEEEEEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeeEECCCChHHcCCHHHHHhhh
Confidence 899999999999999999999999999999999999999999999999999998653
No 3
>PRK02755 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=8.9e-76 Score=586.18 Aligned_cols=213 Identities=41% Similarity=0.718 Sum_probs=206.1
Q ss_pred eEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCC
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDAD 389 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~e 389 (528)
|||+||||.|||||+||++|||+++.+||||+|||||+||||||||+|+|||+++|++. +|+|+++++||.+|||+|.+
T Consensus 4 Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~i~vG~aTkl~~~l~~-~K~Y~a~~~lG~~TdT~D~~ 82 (295)
T PRK02755 4 GFLNLDKPAGLTSHDCVARLRRLLRLKRVGHGGTLDPAATGVLPIALGKATRLLPYLPG-EKTYRGTIRFGVRTSTDDLQ 82 (295)
T ss_pred eEEEEeCCCCCCHHHHHHHHHHHhCCCccccCCCCCCcCeeEEEEEEChhhhhHHHhCC-CcEEEEEEEECCcccCCCCC
Confidence 59999999999999999999999999999999999999999999999999999999997 99999999999999999999
Q ss_pred CCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccC-CCceE
Q 009707 390 SPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLE-DRQNL 468 (528)
Q Consensus 390 GkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~-~~p~~ 468 (528)
|+|+++.++.|++.++|+++|++|+|.++|+||+|||||+||+|||+|||+|++|++++|+|+||+++++.+.. +.|.+
T Consensus 83 G~v~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~ySAvKv~G~r~Y~lAR~G~~ve~~~r~v~I~~~~l~~~~~~~~~~~ 162 (295)
T PRK02755 83 GEILSSQPWPHLSLAEIETALPQFRGKIEQRPPQYSAIQVDGERLYALARRGETMELPARTVTIFRLQLLDWRPGDQPEL 162 (295)
T ss_pred CCEEEecCCCCCCHHHHHHHHHhccCeEEEeCChhheEeeCCHhHHHHHHCCCccccCceEEEEEEEEEEEEcCCCCceE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999987643 24789
Q ss_pred EEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHHH
Q 009707 469 IFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523 (528)
Q Consensus 469 tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~i 523 (528)
+|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|+++++|.++.
T Consensus 163 ~~~v~cskGTYIRsL~~DiG~~Lg~~a~m~~LrRt~~G~f~~~~a~~l~~l~~~~ 217 (295)
T PRK02755 163 DLEIHCGAGTYIRSLARDLGAVLGTGGTLAALRRTQSLGFHLAQSLPLPELENQL 217 (295)
T ss_pred EEEEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHcCCHHHHHhhh
Confidence 9999999999999999999999999999999999999999999999999998653
No 4
>PRK01550 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=9.2e-76 Score=588.01 Aligned_cols=214 Identities=43% Similarity=0.725 Sum_probs=206.2
Q ss_pred eEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCC
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDAD 389 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~e 389 (528)
|||+||||.|||||+||++|||+++.+||||+|||||+|||||+||+|+|||+++|+++.+|+|+++++||.+|||+|.+
T Consensus 3 Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~i~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D~~ 82 (304)
T PRK01550 3 GVLLLHKPRGMTSHDCVFKLRKILRTKKVGHTGTLDPEVSGVLPICVGRATKIAEYLTDEGKTYEGEVTLGFSTTTEDAD 82 (304)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHcCCCCcccCCCCCCcCeeEEEEEEChhhhhhHHhcCCCcEEEEEEEECCcccCCCCC
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEeeccCCC-CCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeec----cCC
Q 009707 390 SPVIQREPWEH-IKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERS----LED 464 (528)
Q Consensus 390 GkVie~~p~~h-IT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~----l~~ 464 (528)
|+|+++.++.| +|.++|+++|++|+|+++|+||+|||||+||+|||+|||+|++|++++|+|+||+++++.+ ..+
T Consensus 83 G~v~~~~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~ySAvKv~Gkr~YelAR~G~~ve~~~r~v~I~~i~ll~~~~~~~~~ 162 (304)
T PRK01550 83 GEVVETKPVDRPITREEIEAALASLTGTIEQIPPMYSAVKVNGKKLYEYARAGIEVERPVRQITIHEFVLLDSREDFEGE 162 (304)
T ss_pred CCEEeeccCCCCCCHHHHHHHHHhccceEEEeCChhHeEecCCHhHHHHHHCCCccccCCcceEEEEEEEEeeccccccC
Confidence 99999999886 9999999999999999999999999999999999999999999999999999999999853 123
Q ss_pred CceEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHHH
Q 009707 465 RQNLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523 (528)
Q Consensus 465 ~p~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~i 523 (528)
.+.++|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|.++.
T Consensus 163 ~~~~~~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~L~Rt~~G~f~~~~a~~le~l~~~~ 221 (304)
T PRK01550 163 TQSFRFRVTCSKGTYVRTLAVMIGEKLGYPAHMSHLVRTASGGFTLEDCLTFEEIEENV 221 (304)
T ss_pred CceEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCCHHHcCCHHHHHhhh
Confidence 47899999999999999999999999999999999999999999999999999998764
No 5
>PRK00130 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.1e-75 Score=584.08 Aligned_cols=211 Identities=44% Similarity=0.761 Sum_probs=206.3
Q ss_pred eEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCC
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDAD 389 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~e 389 (528)
|||+||||.|||||+||++|||+++.+||||+|||||+||||||||+|+|||+++|+++.+|+|+++++||.+|||+|.+
T Consensus 3 Gil~i~KP~G~tS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D~~ 82 (290)
T PRK00130 3 GILNILKPPGMTSFDVVRKIRKIAKIKKVGHTGTLDPLASGVLPVCLGKATKIVDYLMEGKKTYRAEIKLGVETDTYDRE 82 (290)
T ss_pred eEEEEeCCCCCCHHHHHHHHHHHhCCCccCcCCCCCCCCeeEEEEEEChhhhhHHHhccCCcEEEEEEEECCcccCCCCC
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceEE
Q 009707 390 SPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLI 469 (528)
Q Consensus 390 GkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~t 469 (528)
|+|++++++.|+|.++|+++|++|+|+|+|+||+|||||+||+|||||||+|++|++++|+|+||+++++.+ +.|.++
T Consensus 83 G~i~~~~~~~~~t~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~~--~~~~~~ 160 (290)
T PRK00130 83 GEILKEKEVSHLTEEEIREAILSFQGEIDQVPPMYSALKINGKKLYELARQGIEVEREARKITIYDIEILEI--DLPYVI 160 (290)
T ss_pred CCEEEecCCCCCCHHHHHHHHHHccCeEEEECChHHeEecCCHhHHHHHHCCCccccCceEEEEEEEEEEEE--eCCeEE
Confidence 999999999999999999999999999999999999999999999999999999999999999999999876 358999
Q ss_pred EEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHH
Q 009707 470 FRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEA 522 (528)
Q Consensus 470 feV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~ 522 (528)
|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|+++++|.+.
T Consensus 161 ~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~LrRt~~G~f~~~~a~~l~~l~~~ 213 (290)
T PRK00130 161 FDVKCSKGTYIRSLCFDIGEKLNCGAYMWNLIRTETGPFNIENSITLEDLNEE 213 (290)
T ss_pred EEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCCHHHcCCHHHHhhh
Confidence 99999999999999999999999999999999999999999999999999763
No 6
>PRK02484 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.4e-75 Score=584.40 Aligned_cols=216 Identities=39% Similarity=0.664 Sum_probs=206.9
Q ss_pred eEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCC
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDAD 389 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~e 389 (528)
|||+||||.||||||||++|||+++.+||||+|||||+||||||||+|+|||+++|+++.+|+|+++++||.+|||+|.+
T Consensus 4 Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~i~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D~~ 83 (294)
T PRK02484 4 GIINLKKEAGMTSHDAVFKLRKILQTKKIGHGGTLDPDVVGVLPIAVGKATRLIEYMTEAGKVYEGEITLGYSTTTEDAS 83 (294)
T ss_pred eEEEEeCCCCCCHHHHHHHHHHHhCCCccccCCCCCCCCeeEEEEEEChhhhhhHHhccCCcEEEEEEEECCcccCCCCC
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEeeccCCC-CCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeee---ccC-C
Q 009707 390 SPVIQREPWEH-IKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIER---SLE-D 464 (528)
Q Consensus 390 GkVie~~p~~h-IT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~---~l~-~ 464 (528)
|+|+++.++.| +|.++|+++|++|+|+|+|+||+|||+|+||+|||+|||+|++|++++|+|+||++++.. +.. +
T Consensus 84 G~vi~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~~~~~~~~~ 163 (294)
T PRK02484 84 GEVVAETPLTQPLTEEEVDQAMTSFTGKITQIPPMYSAVKVNGKKLYEYARAGEEVERPKRQVTIYQFERTSPLSFDEDG 163 (294)
T ss_pred CCEEEeccCCCCCCHHHHHHHHHhccCeEEEeCChhHeEeeCCHhHHHHHHCCCccccCceEEEEEEEEEeccccccccC
Confidence 99999999987 999999999999999999999999999999999999999999999999999999999864 211 2
Q ss_pred CceEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHHHhc
Q 009707 465 RQNLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEAITK 525 (528)
Q Consensus 465 ~p~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~i~~ 525 (528)
.|.++|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|.+....
T Consensus 164 ~~~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~L~Rt~~G~f~l~~a~~l~~l~~~~~~ 224 (294)
T PRK02484 164 LCRFSFRVACSKGTYVRTLAVDLGEKLGYAAHMSFLTRTASAGLTLEQAVTLEEIAEKVEA 224 (294)
T ss_pred CceEEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHcCCHHHHHhhhhc
Confidence 4789999999999999999999999999999999999999999999999999999876543
No 7
>PRK04642 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.7e-75 Score=585.21 Aligned_cols=213 Identities=40% Similarity=0.650 Sum_probs=206.9
Q ss_pred ceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCC
Q 009707 309 GTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDA 388 (528)
Q Consensus 309 GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~ 388 (528)
+|||+||||.|||||+||+++||+++.+||||+|||||+|||||+||+|+|||+++|+++.+|+|+++++||.+|||+|+
T Consensus 10 ~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~v~~G~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D~ 89 (300)
T PRK04642 10 DGILLLDKPAGLSSNNALQAARRLLRAEKGGHTGSLDPLATGLLPLCFGEATKIAGLLLGSAKAYDAEIVLGVTTDTDDA 89 (300)
T ss_pred CeEEEEecCCCCCHHHHHHHHHHHhCCCcccCCCccCCcCeeeEEEEEChhhhhhHHhcCCCcEEEEEEEECccccCcCC
Confidence 35999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceE
Q 009707 389 DSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNL 468 (528)
Q Consensus 389 eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~ 468 (528)
+|+|+++.++.+++.++|+++|++|+|+++|+||+|||+|+||+|||+|||+|++||+++|+|+||+++++.+ +.+.+
T Consensus 90 ~G~v~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkrlY~lAR~G~~ve~~~R~v~I~~~~ll~~--~~~~~ 167 (300)
T PRK04642 90 DGQVLRERPVPDLSAAALQAALAPLIGRIRQRAPIYSALKQGGEPLYAKARRGEVIEAPVREVEVHAIEVLGY--AAPRL 167 (300)
T ss_pred CCCEEEecCCCCCCHHHHHHHHHHCCCcEEEeCCchHeEeECCeeHHHHHhCCCccccCcEEEEEEEEEEEEE--eCCEE
Confidence 9999999999899999999999999999999999999999999999999999999999999999999999876 35789
Q ss_pred EEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHHH
Q 009707 469 IFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523 (528)
Q Consensus 469 tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~i 523 (528)
.|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|.++.
T Consensus 168 ~~~v~cskGTYIRSL~~Dig~~Lg~~a~m~~L~Rt~~G~f~~~~a~~l~~l~~~~ 222 (300)
T PRK04642 168 RLRVTCGSGTYIRSLARDLGEVLGCGAHIAALRRLWVEPFRAPQMITLEALEAAL 222 (300)
T ss_pred EEEEEeCCCcCHHHHHHHHHHHhCCCEEEEEeEeeEECCcchHHCccHHHHHHhH
Confidence 9999999999999999999999999999999999999999999999999998753
No 8
>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=100.00 E-value=1.5e-75 Score=560.80 Aligned_cols=207 Identities=43% Similarity=0.755 Sum_probs=201.4
Q ss_pred eEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCC
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDAD 389 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~e 389 (528)
|||+||||.|||||+||++|||+++.+||||+|||||+|||||+||+|+|||+++++++.+|+|+++++||.+|||+|.+
T Consensus 3 G~l~v~KP~g~tS~~vv~~vkk~~~~kKvGH~GTLDP~AsGvLiv~vG~~Tkl~~~~~~~~K~Y~~~~~~G~~TdT~D~~ 82 (209)
T TIGR00431 3 GVLLLDKPQGMTSFDALAKVRRLLNVKKVGHTGTLDPFATGVLPILVGKATKLSPYLTDLDKEYRAEIRLGVRTDTLDPD 82 (209)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCCCcCceEEEEEEChHhhhhHHHcCCCCeEEEEEEECCcCCCCCCC
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceEE
Q 009707 390 SPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLI 469 (528)
Q Consensus 390 GkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~t 469 (528)
|+|+++.++.+ +.++|++++++|+|+++|+||+|||+|+||+|||||||+|++|++++|+|+||+++++.+ +.|.++
T Consensus 83 G~i~~~~~~~~-~~~~l~~~l~~f~G~~~Q~PP~ySA~Kv~G~raYelAR~g~~v~~~~r~v~I~~i~ll~~--~~~~~~ 159 (209)
T TIGR00431 83 GQIVETRPVNP-TTEDVEAALPTFRGEIEQIPPMYSALKVNGKRLYEYARQGIEVERKARPVTVYDLQFLKY--EGPELT 159 (209)
T ss_pred CCEEEecCCCC-CHHHHHHHHHHccCcEEEECChhhEEeeCCHhHHHHHHCCCccccCcceeEEEEEEEEEE--cCCcEE
Confidence 99999998874 788999999999999999999999999999999999999999999999999999999875 568999
Q ss_pred EEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHH
Q 009707 470 FRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKEL 519 (528)
Q Consensus 470 feV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL 519 (528)
|+|+||+||||||||||||.+|||+|||++||||++|+|++++|++|++|
T Consensus 160 ~~v~cs~GTYIRsL~~Dig~~L~~~a~l~~L~Rt~~G~f~~~~a~~l~~l 209 (209)
T TIGR00431 160 LEVHCSKGTYIRTLARDLGEKLGCGAYVSHLRRTAVGDFPLDQSVTLEEL 209 (209)
T ss_pred EEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHcCChhhC
Confidence 99999999999999999999999999999999999999999999999875
No 9
>PRK01528 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.1e-75 Score=582.80 Aligned_cols=214 Identities=33% Similarity=0.529 Sum_probs=206.3
Q ss_pred CceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCC
Q 009707 308 FGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWD 387 (528)
Q Consensus 308 ~GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D 387 (528)
++|||+||||.|||||+||++|||+++.+||||+|||||+|||||+||+|+|||+++|+++.+|+|+++++||.+|||+|
T Consensus 2 ~~GiL~i~KP~G~TS~dvv~~vrk~~~~kKvGH~GTLDP~AtGvL~v~vG~aTKl~~~l~~~~K~Y~~~~~lG~~TdT~D 81 (292)
T PRK01528 2 SNYWLNIYKPRGISSAKLVSIVKKILGKVKIGHAGTLDVEAEGVLPLAVGEATKLVQLLIDAKKTYIFTVKFGKQTDSGD 81 (292)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHHcCCCccCcCccCCCcCceEEEEEEChHhhhhHHHhcCCceEEEEEEECCcccCCC
Confidence 45799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCce
Q 009707 388 ADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQN 467 (528)
Q Consensus 388 ~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~ 467 (528)
++|+|+++.++. ++.++|+++|++|+|+++|+||+|||+|+||+|||+|||+|++||+++|+|+||+++++.+....+.
T Consensus 82 ~~G~v~~~~~~~-~~~e~l~~~l~~f~G~i~Q~PP~ySAvKv~G~raYelAR~G~~vel~~r~v~I~~i~ll~~~~~~~~ 160 (292)
T PRK01528 82 YAGKVIATKDYI-PSKEEAYAVCSKFIGNITQIPPAFSALKVNGVRAYKLAREGKEVELKPRNITIYDLKCLNFDEKNAT 160 (292)
T ss_pred CCCCEEEecCCC-CCHHHHHHHHHhccceEEeeCChhHeEEECCHhHHHHHhCCcccccCceeEEEEEEEEEEEcCCCcE
Confidence 999999999987 5999999999999999999999999999999999999999999999999999999999876433467
Q ss_pred EEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHH
Q 009707 468 LIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEA 522 (528)
Q Consensus 468 ~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~ 522 (528)
+.|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|.+.
T Consensus 161 ~~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~a~~l~~l~~~ 215 (292)
T PRK01528 161 ATYYTECSKGTYIRTLAEDLALSLQSLGFVIELRRTQVGIFKEENAIRIKSSDAI 215 (292)
T ss_pred EEEEEEECCCccHHHHHHHHHHHHCCceEEeEEEeEEECCccHHHcCCHHHHHhh
Confidence 9999999999999999999999999999999999999999999999999999864
No 10
>PRK03287 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.7e-75 Score=583.42 Aligned_cols=214 Identities=45% Similarity=0.698 Sum_probs=206.5
Q ss_pred ceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCC
Q 009707 309 GTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDA 388 (528)
Q Consensus 309 GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~ 388 (528)
+|||+||||.|||||+||+++||+++.+||||+|||||+||||||||+|+|||+++|+++.+|+|+++++||.+|||+|.
T Consensus 9 ~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~i~vG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~D~ 88 (298)
T PRK03287 9 SGLVVVDKPAGMTSHDVVARCRRLFGTRKVGHAGTLDPMATGVLVLGVERATKLLGHLTLTDKSYTATIRLGQATTTDDA 88 (298)
T ss_pred CeEEEEeCCCCCCHHHHHHHHHHHhCCCCCCcCccCCCcceeEEEEEeChhhhhhHHHhcCCcEEEEEEEeCccccCCCC
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCC--c
Q 009707 389 DSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDR--Q 466 (528)
Q Consensus 389 eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~--p 466 (528)
+|+|+++.++.|+|.++|+++|++|+|.++|+||+|||||+||+|||+|||+|++||+++|+|+||++++..+.... +
T Consensus 89 ~G~v~~~~~~~~it~~~i~~~l~~f~G~i~Q~PP~ySAvKv~Gkr~YelAR~G~~ve~~~R~v~I~~~~l~~~~~~~~~~ 168 (298)
T PRK03287 89 EGEVLASADASAVTDEAIAAAVAALTGEIMQVPSAVSAIKVDGKRAYARVRAGEEVELPARPVTVSRFEVLAVRRDGDFI 168 (298)
T ss_pred CCCEEeecCCCCCCHHHHHHHHHhCcCeEEEeCChhHeEEECCHHHHHHHhCCCccccCcEEEEeeeeEEEEEecCCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999998764322 3
Q ss_pred eEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHH
Q 009707 467 NLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEA 522 (528)
Q Consensus 467 ~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~ 522 (528)
.++|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|.++
T Consensus 169 ~~~~~v~cskGTYIRSL~~Dig~~Lg~~a~~~~LrRt~~G~f~l~~a~~l~~l~~~ 224 (298)
T PRK03287 169 DLDVEVDCSSGTYIRALARDLGAALGVGGHLTALRRTRVGPFTLDQARTLDELAEE 224 (298)
T ss_pred EEEEEEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHccCHHHHHhh
Confidence 78999999999999999999999999999999999999999999999999999864
No 11
>PRK01851 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=4.1e-75 Score=583.22 Aligned_cols=211 Identities=44% Similarity=0.707 Sum_probs=205.5
Q ss_pred ceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCC
Q 009707 309 GTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDA 388 (528)
Q Consensus 309 GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~ 388 (528)
+|||+||||.|||||+||++|||+++.+||||+|||||+|||||+||+|+|||+++|+++.+|+|+++++||.+|||+|.
T Consensus 16 ~Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~~~~~lG~~TdT~D~ 95 (303)
T PRK01851 16 DGVLLLDKPLGLSSNDALQRAKRLLRAKKAGHTGTLDPLATGLLPLCFGEATKFSQDLLDADKTYEATLRLGVRTSTGDA 95 (303)
T ss_pred CeEEEEeCCCCCCHHHHHHHHHHHhCcccCCCCCCCCCCCceEEEEEECHHHhhhHHhcccCeEEEEEEEECCccCCCCC
Confidence 45999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceE
Q 009707 389 DSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNL 468 (528)
Q Consensus 389 eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~ 468 (528)
+|+|+++.++. +|.++|+++|++|+|.|+|+||+|||||+||+|||||||+|++|++++|+|+||+++++.+ +.|.+
T Consensus 96 ~G~v~~~~~~~-~t~~~i~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~R~v~I~~i~ll~~--~~~~~ 172 (303)
T PRK01851 96 EGEVLATRPVD-CDPAALEAALARFTGEIRQVPPMYSALKKDGKPLYEYARAGITVEREARDVTIHALDLLAC--DLPDV 172 (303)
T ss_pred CCCEEeecCCC-CCHHHHHHHHHhccCeeeeeCCchheEeeCCeeHHHHHhCCCccccCCcceEEEEEEEEEE--eCCEE
Confidence 99999999887 9999999999999999999999999999999999999999999999999999999999876 45899
Q ss_pred EEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHH
Q 009707 469 IFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEA 522 (528)
Q Consensus 469 tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~ 522 (528)
+|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|.++
T Consensus 173 ~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~a~~l~~l~~~ 226 (303)
T PRK01851 173 TIRVTCSKGTYIRTLAEDIGEALGCGAHLTALRRTGVGGLTLEQAVTLEALEAA 226 (303)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCchHHcCCHHHHHhc
Confidence 999999999999999999999999999999999999999999999999999864
No 12
>PRK14123 tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=3.7e-75 Score=583.88 Aligned_cols=214 Identities=36% Similarity=0.609 Sum_probs=204.9
Q ss_pred eEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCC
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDAD 389 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~e 389 (528)
|||+||||.|||||+||+++||+++.+||||+|||||+||||||||+|+|||+++|+++.+|+|+++++||.+|||+|.+
T Consensus 4 Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~~~~~lG~~TdT~D~~ 83 (305)
T PRK14123 4 GILPVYKERGLTSHDVVFKLRKILKTKKIGHTGTLDPEVAGVLPVCIGNATRVSDYVMDMGKAYEATVSIGRSTTTEDQT 83 (305)
T ss_pred eEEEEeCCCCCCHHHHHHHHHHHhCCCccccCcCCCCcCeeEEEEEEChhhhhHHHhcCCCcEEEEEEEECCcccCCCCC
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEeeccCC--CCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeee---ccCC
Q 009707 390 SPVIQREPWE--HIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIER---SLED 464 (528)
Q Consensus 390 GkVie~~p~~--hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~---~l~~ 464 (528)
|+|+++.++. |+|.++|+++|++|+|+|+|+||+|||||+||+|||+|||+|++|++++|+|+||+|+++. +...
T Consensus 84 G~vi~~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~~~~~~~~~~~ 163 (305)
T PRK14123 84 GDTLETKGVHSADFNKDDIDRLLEQFKGIIEQIPPMYSSVKVNGKKLYEYARNNETVERPKRKVNIKDIGRISELDFKEN 163 (305)
T ss_pred CCEEEeccCCcCCCCHHHHHHHHHhccCceeecCChhheEeeCCHhHHHHHhCCCcccCCceEEEEEEEEEeecccccCC
Confidence 9999999874 7999999999999999999999999999999999999999999999999999999999874 2222
Q ss_pred CceEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHHH
Q 009707 465 RQNLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523 (528)
Q Consensus 465 ~p~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~i 523 (528)
.+.++|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|.++.
T Consensus 164 ~~~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~l~~a~~l~~l~~~~ 222 (305)
T PRK14123 164 ECHFKIRVICGKGTYIRTLATDIGVKLGFPAHMSKLTRIESGGFVLKDSLTLEQIKELH 222 (305)
T ss_pred CceEEEEEEeCCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCchHHcCCHHHHHhhh
Confidence 37899999999999999999999999999999999999999999999999999998754
No 13
>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=100.00 E-value=6.6e-75 Score=575.42 Aligned_cols=214 Identities=47% Similarity=0.753 Sum_probs=207.6
Q ss_pred eEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCC
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDAD 389 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~e 389 (528)
|||+||||.|||||+||++|||+++.+||||+|||||+|||||+||+|+|||+++|+++.+|+|+++++||.+|||+|++
T Consensus 1 Gil~i~KP~G~tS~~vv~~vr~~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~~~~~~G~~TdT~D~~ 80 (277)
T cd02573 1 GILLLDKPAGLTSHDVVQKVRRLLGTKKVGHTGTLDPLATGVLPIALGEATKLSQYLLDADKTYRATVRLGEATDTDDAE 80 (277)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHhCcCccCCCCCCCCcCeEEEEEEEChHHhhHHHhcCCCcEEEEEEEECCcccCCCCC
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceEE
Q 009707 390 SPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLI 469 (528)
Q Consensus 390 GkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~t 469 (528)
|+|++++++.|+|.++|+++|++|+|.++|+||+|||+|+||+|||+|||+|++|++++|+|+||+++++.+....|.++
T Consensus 81 G~v~~~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~ySAvkv~G~raYelAR~G~~ve~~~r~v~I~~i~ll~~~~~~~~~~ 160 (277)
T cd02573 81 GEIIETSPPPRLTEEEIEAALKAFTGEIEQVPPMYSAVKVNGKRLYELARAGEEVERPPRKVTIYSLELLSFDPENPEAD 160 (277)
T ss_pred CCEEEecCCCCCCHHHHHHHHHHccCcEEeeCChhHeEeeCCccHHHHHhCCCccccCCeeEEEEEEEEEEecCCCCeEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999987643237999
Q ss_pred EEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHHH
Q 009707 470 FRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523 (528)
Q Consensus 470 feV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~i 523 (528)
|+|+||+||||||||+|||.+|||+|||++||||++|+|+++||++|++|.++.
T Consensus 161 ~~v~cs~GTYIRsL~~Dig~~Lg~~a~~~~L~Rt~~G~f~~~~a~~l~~l~~~~ 214 (277)
T cd02573 161 FEVECSKGTYIRSLARDLGKALGCGAHLSALRRTRSGPFTLEDAITLEELEALP 214 (277)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCeEEEEEEEEEECCccHHHccCHHHHHhhh
Confidence 999999999999999999999999999999999999999999999999998764
No 14
>PRK05033 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=9.9e-75 Score=582.37 Aligned_cols=212 Identities=39% Similarity=0.677 Sum_probs=206.1
Q ss_pred ceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCC
Q 009707 309 GTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDA 388 (528)
Q Consensus 309 GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~ 388 (528)
+|||+||||.|||||+||++||++++.+||||+|||||+|||||+||+|+|||+++|+++.+|+|+++++||.+|||+|.
T Consensus 10 ~Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~~~~~~K~Y~a~~~lG~~TdT~D~ 89 (312)
T PRK05033 10 NGVLLLDKPQGMSSNDALQKVKRLFNANKAGHTGALDPLATGMLPICLGEATKFSQYLLDSDKRYRVTARLGQRTDTSDA 89 (312)
T ss_pred CeEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCcCCCcCeeEEEEEECHHhhhhHHhcCCCcEEEEEEEECCcccCCCC
Confidence 35999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceE
Q 009707 389 DSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNL 468 (528)
Q Consensus 389 eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~ 468 (528)
+|+|+++.++ |+|.++|+++|++|+|.|+|+||+|||||+||+|||+|||+|++|++++|+|+||+++++.+ +.|.+
T Consensus 90 ~G~v~~~~~~-~~t~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~--~~~~~ 166 (312)
T PRK05033 90 DGEVVEERPV-TLSAEQLEAALEKFRGDIEQVPSMYSALKYQGQPLYEYARQGIEVEREARPITIYELELIRF--EGDEL 166 (312)
T ss_pred CCCEEEeecC-CCCHHHHHHHHHHCcCcEEEeCChhHeEeeCCeEHHHHHhCCcccccCceeEEEEEEEEeeE--eCCEE
Confidence 9999999998 79999999999999999999999999999999999999999999999999999999999876 35899
Q ss_pred EEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHHH
Q 009707 469 IFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523 (528)
Q Consensus 469 tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~i 523 (528)
+|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|.++.
T Consensus 167 ~~~v~cs~GTYIRsL~~Dig~~Lg~~a~~~~LrRt~~G~f~~~~a~~l~~l~~~~ 221 (312)
T PRK05033 167 ELEVHCSKGTYIRTLVDDLGEKLGCGAHVIYLRRTQVAPYPLERMVTLEQLEALV 221 (312)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCcccccccCHHHHHHhh
Confidence 9999999999999999999999999999999999999999999999999998753
No 15
>PRK00989 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=8.3e-75 Score=562.60 Aligned_cols=211 Identities=42% Similarity=0.661 Sum_probs=203.1
Q ss_pred CceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecc-cccchhhhcCCCcEEEEEEEEcccccCC
Q 009707 308 FGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGK-ATKLVDRYQGMIKGYSGVFRLGEATSTW 386 (528)
Q Consensus 308 ~GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGk-ATKLl~~l~~~~K~Y~at~~LG~eTDT~ 386 (528)
.+|||+||||.|||||+||++|||+++.+||||+|||||+||||||||+|+ +||+++|+++.+|+|+++++||.+|||+
T Consensus 8 ~~G~l~i~KP~g~TS~dvv~~ikk~~~~kKvGH~GTLDP~AtGvLiv~vG~~aTkl~~~~~~~~K~Y~~~~~~G~~TdT~ 87 (230)
T PRK00989 8 KEGILLVDKPQGRTSFSLIRSLTKLIGVKKIGHAGTLDPFATGVMVMLIGRKFTRLSDILLFEDKEYAAVAHLGTTTDSY 87 (230)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHHhCCCcCCcCccCCCCCeeEEEEEECCchhhhHHHhcCCCcEEEEEEEECCcccCC
Confidence 356999999999999999999999999999999999999999999999999 7999999999999999999999999999
Q ss_pred CCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCc
Q 009707 387 DADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQ 466 (528)
Q Consensus 387 D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p 466 (528)
|.+|+|+++.++ |++.++|+++|++|+|.++|+||+|||||+||+|||||||+|++||+++|+|+|+ ++++.+ +.|
T Consensus 88 D~~G~vi~~~~~-~~~~~~i~~~l~~f~G~~~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~i~-~~ll~~--~~p 163 (230)
T PRK00989 88 DCDGKIVGRSKK-IPTLEEVLSAASYFQGEIQQVPPMFSAKKVQGKKLYEYARQGLSIERRPSTVQVH-LQLTKY--EYP 163 (230)
T ss_pred CCCCcEEEecCC-CCCHHHHHHHHHhCcceEEeeCChhHeEEECCHhHHHHHhCCCccccCcEEEEEE-EEEEEe--eCC
Confidence 999999999884 7899999999999999999999999999999999999999999999999999998 888765 458
Q ss_pred eEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHH
Q 009707 467 NLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEA 522 (528)
Q Consensus 467 ~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~ 522 (528)
.++|+|+||+||||||||||||.+|||+|||++||||++|+|++++|++++++...
T Consensus 164 ~~~~~v~cs~GTYIRSL~~DiG~~Lg~~a~~~~LrRt~~G~f~l~~a~~l~~l~~~ 219 (230)
T PRK00989 164 LLHFVVQCSKGTYIRSIAHELGNMLGCGAYLEELRRLRSGSFSIDQCIDGNLLDEP 219 (230)
T ss_pred eEEEEEEEcCCCcHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHcCCHHHHhcc
Confidence 99999999999999999999999999999999999999999999999999998753
No 16
>PRK05389 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.4e-74 Score=579.78 Aligned_cols=212 Identities=41% Similarity=0.672 Sum_probs=205.0
Q ss_pred ceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCC
Q 009707 309 GTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDA 388 (528)
Q Consensus 309 GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~ 388 (528)
+|||+||||.|||||+||++|||+++.+||||+|||||+||||||||+|+|||+++|+++.+|+|+|+++||.+|||+|.
T Consensus 13 ~Gil~i~KP~G~TS~dvv~~vrk~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D~ 92 (305)
T PRK05389 13 SGWLILDKPAGMTSTEAVSKVKWLFDAQKAGHAGTLDPLASGVLPIALGEATKTVPYVMDGTKRYRFTVAWGEERDTDDL 92 (305)
T ss_pred CeEEEEeCCCCCCHHHHHHHHHHHhcccccCCcccCCCCCceEEEEEEChhhhhhHHhccCCcEEEEEEEECCcccCCCC
Confidence 35999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceE
Q 009707 389 DSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNL 468 (528)
Q Consensus 389 eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~ 468 (528)
+|+|+++.++. +|.++|+++|++|+|+++|+||+|||+|+||+|||+|||+|++|++++|+|+||+++++.+. +.|.+
T Consensus 93 ~G~v~~~~~~~-~~~~~i~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~-~~~~~ 170 (305)
T PRK05389 93 EGEVTATSDVR-PTDEEIRAALPAFTGEIMQVPPQFSAIKIDGERAYDLAREGETVELPARPVEIDRLTLVERP-DADHA 170 (305)
T ss_pred CCCEEEecCCC-CCHHHHHHHHHhccceEEEeCCchheEEECCHhHHHHHHCCCccccCceEEEEEEEEEEEec-CCCeE
Confidence 99999998864 89999999999999999999999999999999999999999999999999999999998763 35789
Q ss_pred EEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHH
Q 009707 469 IFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEA 522 (528)
Q Consensus 469 tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~ 522 (528)
+|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|.+.
T Consensus 171 ~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~a~~l~~l~~~ 224 (305)
T PRK05389 171 VFEVECGKGTYVRSLARDLGRALGCYGHIAALRRTRVGPFTEEDAITLEKLEAL 224 (305)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEEEeEEECCCcHHHccCHHHHHhc
Confidence 999999999999999999999999999999999999999999999999999864
No 17
>PRK14124 tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2e-74 Score=579.33 Aligned_cols=210 Identities=42% Similarity=0.638 Sum_probs=204.6
Q ss_pred ceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCC
Q 009707 309 GTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDA 388 (528)
Q Consensus 309 GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~ 388 (528)
+|||+||||.||||||||+++||+++.+||||+|||||+||||||||+|+|||+++|++..+|+|+++++||.+|||+|.
T Consensus 3 ~Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D~ 82 (308)
T PRK14124 3 HGFLVAYKPKGPTSHDVVDEVRKKLKTRKVGHAGTLDPFATGVLIVGVNKATRLLEYLKNEKKVYYVKMRLGLITETFDI 82 (308)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHcCCCccCcCcCCCCCCcEEEEEEEChHHhhhHHHhcCCceEEEEEEeCccccCCCC
Confidence 35999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceE
Q 009707 389 DSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNL 468 (528)
Q Consensus 389 eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~ 468 (528)
+|+|+++.++ |+|.++|+++|++|+|+++|+||+|||||+||+|||+|||+|++|++++|+|+||+++++.+ +.|.+
T Consensus 83 ~G~vi~~~~~-~~~~~~i~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~--~~~~~ 159 (308)
T PRK14124 83 TGEVVEEREC-NVTEEEIREAIFSFVGEYKQVPPAYSAKKYKGERLYKLAREGKIINLPPKEVKIYEIWDISI--EGPDV 159 (308)
T ss_pred CCCEEEecCC-CCCHHHHHHHHHhCcCeEEEeCCchHeEEECChhHHHHHhCCCccccCceeeEEEEEEEEEE--eCCeE
Confidence 9999999988 79999999999999999999999999999999999999999999999999999999999876 45899
Q ss_pred EEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHH
Q 009707 469 IFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEE 521 (528)
Q Consensus 469 tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~ 521 (528)
+|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|+++++|..
T Consensus 160 ~~~v~cskGTYIRsL~~DiG~~Lg~~a~m~~LrRt~~G~f~l~~a~~l~~l~~ 212 (308)
T PRK14124 160 SFRVEVSPGTYIRSLCMDIGYKLGCGATAVELVRLSVGKFSIEDSINVFEVSP 212 (308)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHccCHHHhhh
Confidence 99999999999999999999999999999999999999999999999999874
No 18
>PRK14122 tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.6e-74 Score=579.23 Aligned_cols=212 Identities=38% Similarity=0.644 Sum_probs=204.7
Q ss_pred EEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCCC
Q 009707 311 MVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDADS 390 (528)
Q Consensus 311 IL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~eG 390 (528)
||+||||.|||||+||++|||+++.+||||+|||||+||||||||+|+|||+++|+++.+|+|+++++||.+|||+|.+|
T Consensus 3 il~idKP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~i~iG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~D~eG 82 (312)
T PRK14122 3 VYAVDKPLGLTSHDVVNRARRALGTRRVGHTGTLDPLATGVLVLCTDDSTKLVPFLSAEDKEYLAWVSFGATTPTLDAEG 82 (312)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcCeeeEEEEEChhhhhhHHhcCCCceEEEEEEECCcCCCCCCCC
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCC------
Q 009707 391 PVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLED------ 464 (528)
Q Consensus 391 kVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~------ 464 (528)
+|+++.++.|++.++|+++|++|+|.++|+||+|||+|+||+|||+|||+|++|++++|+|+||++++..+...
T Consensus 83 ~i~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~vel~~R~v~I~~i~ll~~~~~~~~~~~ 162 (312)
T PRK14122 83 PISEEAPVSPLDEKDLEAALPGFLGLTEQVPPQYSAIKVGGVRAYEAARAGGALELPARPVVYHELELLAFEPSVAPIPR 162 (312)
T ss_pred CEEEecCCCCCCHHHHHHHHHhCcCeEEEeCChHHeEEECCeEHHHHHhCCCccccCCeeEEEEEEEEEEeccccccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999865321
Q ss_pred --------------------------CceEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHH
Q 009707 465 --------------------------RQNLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKE 518 (528)
Q Consensus 465 --------------------------~p~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLed 518 (528)
.|.+.|+|+||+||||||||+|||.+|||+|||++||||++|+|+++||++|++
T Consensus 163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~cSkGTYIRSLa~DiG~~Lg~~a~m~~LrRt~~G~f~l~~a~~l~~ 242 (312)
T PRK14122 163 PIAPSAEGWTPDPRGRPVTLPEPLGEYPTALLRLVVGSGTYVRSFARDLGAALGVPAHLSGLVRTRVGRYGLEDAVSLED 242 (312)
T ss_pred ccccccccccccccccccccccccccCceEEEEEEeCCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHcCCHHH
Confidence 157999999999999999999999999999999999999999999999999999
Q ss_pred HHHH
Q 009707 519 LEEA 522 (528)
Q Consensus 519 L~~~ 522 (528)
|.+.
T Consensus 243 l~~~ 246 (312)
T PRK14122 243 LAEA 246 (312)
T ss_pred Hhhh
Confidence 9763
No 19
>PRK14846 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.8e-73 Score=577.87 Aligned_cols=215 Identities=33% Similarity=0.522 Sum_probs=206.5
Q ss_pred CceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCC
Q 009707 308 FGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWD 387 (528)
Q Consensus 308 ~GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D 387 (528)
++|||+||||.|||||+||++|||+++.+||||+|||||+||||||||||+|||+++|+++.+|+|+++++||.+|||+|
T Consensus 2 ~nGiL~idKP~G~TS~dvv~~vrk~l~~kKVGH~GTLDP~AtGVL~i~vG~aTKl~~~l~~~~K~Y~a~~~lG~~TDT~D 81 (345)
T PRK14846 2 SNYWLNIYKPRGISSAQLVSIVKKILGKTKIGHAGTLDVEAEGILPFAVGEATKLIHLLIDARKTYIFTVKFGMQTNSGD 81 (345)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhCCCcCCcCccCCCcCceEEEEEEChhhhhhHHHhcCCceEEEEEEECCccCCCC
Confidence 45799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCce
Q 009707 388 ADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQN 467 (528)
Q Consensus 388 ~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~ 467 (528)
.+|+|+++.++. ++.++|+++|++|+|+++|+||+|||||+||+|||+|||+|++||+++|+|.||+++++.+....+.
T Consensus 82 ~eG~ii~~~~~~-~~~e~l~~~L~~f~G~i~Q~PP~ySAvKv~GkraYelARkG~~Vel~~R~V~I~~i~ll~f~~~~~~ 160 (345)
T PRK14846 82 CAGKVIATKDCI-PSQEEAYAVCSKFIGNVTQIPPAFSALKVNGVRAYKLAREGKKVELKPRNITIYDLKCLNFDEKNAT 160 (345)
T ss_pred CCCCEEEecCCC-CCHHHHHHHHHhCcceEEeeCChhheEeECChhHHHHHhCCCccccCceeEEEEEEEEEEEcCCCcE
Confidence 999999998876 7899999999999999999999999999999999999999999999999999999999877533467
Q ss_pred EEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHHH
Q 009707 468 LIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523 (528)
Q Consensus 468 ~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~i 523 (528)
+.|+|.||+||||||||||||.+|||+|||++||||++|+|++++|++|++|.++.
T Consensus 161 ~~~~v~CSkGTYIRSLa~DIG~~Lg~~A~l~~LrRtr~G~F~l~~ai~le~L~~~~ 216 (345)
T PRK14846 161 ATYYTECSKGTYIRTLAEDLALSLQSLGFVIELRRTQVGIFKEENAIRIKSPDEIT 216 (345)
T ss_pred EEEEEEECCCCcHHHHHHHHHHHHCCCEEEeEEEeEEECCCcHHHcCCHHHHHhhh
Confidence 99999999999999999999999999999999999999999999999999998653
No 20
>PRK04099 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=7.6e-73 Score=560.14 Aligned_cols=208 Identities=35% Similarity=0.549 Sum_probs=200.7
Q ss_pred eEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCC
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDAD 389 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~e 389 (528)
|||+||||.|||||+||++|||+++.+||||+|||||+||||||||+|+|||+++++++.+|+|+++++||.+|||+|.+
T Consensus 3 gil~vdKP~g~tS~~vv~~ikk~~~~kKvGH~GTLDP~AtGvLiv~iG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~D~e 82 (273)
T PRK04099 3 RLFVANKPAGMSSNAFLSRLKRKYGVKKAGFSGTLDPFAKGVLIVAFGQYTKLFRFLKKTPKTYRATLWLGASSPSLDIE 82 (273)
T ss_pred eEEEEeCCCCCCHHHHHHHHHHHhCCCccccCccCCCCCeeEEEEEEChHhhhHHHhccCCceEEEEEEECCcccCCCCc
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceEE
Q 009707 390 SPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLI 469 (528)
Q Consensus 390 GkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~t 469 (528)
| |++.+++.|+|.++|+++|++|+|+++|+||+|||+|+||+|||+|||+|++|++++|+|+||+++++.+ +.|.++
T Consensus 83 ~-i~~~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~~~ll~~--~~p~~~ 159 (273)
T PRK04099 83 N-IESIQIIKPFDKDLIEKILKSLQGEISYTPPKFSAKKINGKRAYELARKGEEFELKPITMEIFDCKLLSY--NHPFLT 159 (273)
T ss_pred c-eEEeccCCCCCHHHHHHHHHhCcceEEEeCChhhEEeeCCHhHHHHHhCCcccccCceeEEEEEEEEEEE--eCCEEE
Confidence 8 8899999999999999999999999999999999999999999999999999999999999999999876 458999
Q ss_pred EEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHH
Q 009707 470 FRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELE 520 (528)
Q Consensus 470 feV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~ 520 (528)
|+|+||+||||||||+|||.+|||+|||++||||++|+|+++++.+|..+.
T Consensus 160 f~v~cs~GTYIRSL~~Dig~~Lg~~a~m~~LrRt~~G~f~~~~~~~l~pl~ 210 (273)
T PRK04099 160 FEITVSEGAYIRSLGELIAKKLGVNGTLSSLERLSEGKFVYENEKALNPLE 210 (273)
T ss_pred EEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHCeecCChh
Confidence 999999999999999999999999999999999999999999997665443
No 21
>PRK02193 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=4e-72 Score=556.40 Aligned_cols=202 Identities=38% Similarity=0.597 Sum_probs=195.7
Q ss_pred EEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCCC
Q 009707 311 MVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDADS 390 (528)
Q Consensus 311 IL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~eG 390 (528)
||+||||.|||||+||+++||+++.+||||+|||||+||||||||+|+|||+++|+++.+|+|+++++||.+|||+|.+|
T Consensus 2 il~i~KP~G~tS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D~~G 81 (279)
T PRK02193 2 IKLLYKPKGISSFKFIKNFAKTNNIKKIGHTGTLDPLASGLLLVATDEDTKLIDYLDQKDKTYIAKIKFGFISTTYDSEG 81 (279)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCCccccCccCCCcCeeEEEEEEChhhhhhHHhccCCcEEEEEEEeCCcccCCCCCC
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceEEE
Q 009707 391 PVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIF 470 (528)
Q Consensus 391 kVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~tf 470 (528)
+|+++.++.|++.++|++++++|+|+++|+||+|||+|+||+|||+|||+|++|++++|+|+||+++++.+....+.+.|
T Consensus 82 ~i~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~~~~~~~~ 161 (279)
T PRK02193 82 QIINVSQNIKVTKENLEEALNNLVGSQKQVPPVFSAKKVNGKRAYDLARQGKQIELKPIEIKISKIELLNFDEKLQNCVF 161 (279)
T ss_pred CEEeecCCCCCCHHHHHHHHHhCcCeEEEeCChHHeEeeCCHhHHHHHhCCceeccCCeeEEEEEEEEEEEcCCCceEEE
Confidence 99998888899999999999999999999999999999999999999999999999999999999999876422347999
Q ss_pred EEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCccc
Q 009707 471 RVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADD 512 (528)
Q Consensus 471 eV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLdd 512 (528)
+|.||+||||||||||||.+|||+|||++||||++|+|++++
T Consensus 162 ~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~ 203 (279)
T PRK02193 162 MWVVSRGTYIRSLIHDLGKMLKTGAYMSDLERTKIGNLDKNF 203 (279)
T ss_pred EEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCcCHHH
Confidence 999999999999999999999999999999999999999987
No 22
>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=100.00 E-value=7.9e-70 Score=546.87 Aligned_cols=213 Identities=34% Similarity=0.559 Sum_probs=201.6
Q ss_pred eEEEeeCCCCCChHHHHHHHHHHhCC-----------------------------ccccccCCCCCCCceEeEEEecccc
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRRLVKV-----------------------------KKVGHAGTLDPMATGLLIVCVGKAT 360 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRrlL~i-----------------------------kKVGHaGTLDP~ATGVLVVgVGkAT 360 (528)
|||+||||.|||||+||++||++++. +||||+|||||+||||||||||+||
T Consensus 1 Gil~i~KP~G~TS~~vv~~lk~~l~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KiGH~GTLDPlAsGVLvvgvG~aT 80 (312)
T cd02867 1 GVFAINKPSGITSAQVLNDLKPLFLNSALFKDKIQRAVAKRGKKARRRKGRKRSKLKIGHGGTLDPLATGVLVVGVGAGT 80 (312)
T ss_pred CeEEEeCCCCCCHHHHHHHHHHHhcccccccchhhhhhhhhhhhhhhhccccccccccccccccCCccceeEEEEECcHH
Confidence 59999999999999999999999985 7999999999999999999999999
Q ss_pred cchhhhcCCCcEEEEEEEEcccccCCCCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhc
Q 009707 361 KLVDRYQGMIKGYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARR 440 (528)
Q Consensus 361 KLl~~l~~~~K~Y~at~~LG~eTDT~D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARk 440 (528)
|+++++++.+|+|+++++||.+|||+|++|+|+++.++.|||.++|+++|++|+|.|+|+||+|||||+||+|||||||+
T Consensus 81 K~l~~~l~~~K~Y~~~~~lG~~TdT~D~eG~Ii~~~~~~~it~e~i~~~l~~F~G~i~Q~PP~ySAvKv~GkrlYeyAR~ 160 (312)
T cd02867 81 KQLQDYLSCSKTYEATGLFGASTTTYDREGKILKKKPYSHITREDIEEVLAKFRGDIKQVPPLYSALKMDGKRLYEYARE 160 (312)
T ss_pred HHHHHHhcCCceEEEEEEeCCcccCCCCCCCEEEecCCCCCCHHHHHHHHHhcceeeeeeCcchheeeeCCHHHHHHHhC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccccC--CceEEEEEEEeeeccCCCceEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcc------c
Q 009707 441 GESIELS--PRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSAD------D 512 (528)
Q Consensus 441 Ge~VELk--pR~V~IyeleL~~~l~~~p~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLd------d 512 (528)
|++|+++ +|.|+||+++++.+..+.+.++|+|+||+||||||||+|||.+|||+|||++|+||++|+|+++ +
T Consensus 161 G~~v~~~~~~R~V~I~~~~l~~~~~~~~~~~~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~L~Rt~~g~f~~~~~~~~~~ 240 (312)
T cd02867 161 GKPLPRPIERRQVVVSELLVKDWIEPGPLFTRTVEEEGKQYERSVVKMLGKELKTFAEVTELTATAEGDPVEEVEATHEE 240 (312)
T ss_pred CccccCCCCCceEEEEEEEEEeccCCCCeEEEEEEeCCcCCHHHHHHHHHHHhCCCeEEEEEEeeeecCcccccccccCC
Confidence 9999877 9999999999986543357899999999999999999999999999999999999999999875 4
Q ss_pred ccCHHHHHHH
Q 009707 513 AWEFKELEEA 522 (528)
Q Consensus 513 A~tLedL~~~ 522 (528)
.|.+++.+..
T Consensus 241 ~~~~~~~~~~ 250 (312)
T cd02867 241 SKRKSEVEEE 250 (312)
T ss_pred CcccChhhhc
Confidence 5777777654
No 23
>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=100.00 E-value=2.2e-64 Score=488.01 Aligned_cols=208 Identities=24% Similarity=0.294 Sum_probs=197.6
Q ss_pred eEEEeeCCCCCChHHHHHHHHH----HhCCcccccc-CCCCCCCceEeEEEecccccchhhhcCC--CcEEEEEEEEccc
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRR----LVKVKKVGHA-GTLDPMATGLLIVCVGKATKLVDRYQGM--IKGYSGVFRLGEA 382 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRr----lL~ikKVGHa-GTLDP~ATGVLVVgVGkATKLl~~l~~~--~K~Y~at~~LG~e 382 (528)
|||+||||+||||+++++.+++ .++.+|+||+ |||||+|||||++|+|++||+++++++. +|+|+++++||.+
T Consensus 1 GilvvnKP~Gi~s~~~~~~~~~~l~~~~~~~k~~~~vhrLD~~aSGvl~~a~~~~tkl~~~~~~~~~~K~Y~~~~~lg~~ 80 (226)
T cd02868 1 GLFAVYKPPGVHWKHVRDTIESNLLKYFPEDKVLVGVHRLDAFSSGVLVLGVNHGNKLLSHLYSNHPTRVYTIRGLLGKA 80 (226)
T ss_pred CEEEEEcCCCCChhHHHHHHHHHHHHHccccceeeEccccCCCCceEEEEEeChhHhHHHHHHhcCCCeEEEEEEEEccc
Confidence 5999999999999999998776 4577889999 9999999999999999999999999984 7999999999999
Q ss_pred ccCCCCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeecc
Q 009707 383 TSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSL 462 (528)
Q Consensus 383 TDT~D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l 462 (528)
|||+|++|+|+++.++.|+|.++|+++|.+|+|.++|.||.|||+|+||+|||+|||+|++|++++|+|+||+++++.+
T Consensus 81 TdT~D~~G~v~~~~~~~~it~~~i~~~l~~f~g~~~q~~p~~sa~kv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~~- 159 (226)
T cd02868 81 TENFFHTGRVIEKTTYDHITREKIERLLAVIQSGHQQKAFELCSVDDQSQQAAELAARGLIRPADKSPPIIYGIRLLEF- 159 (226)
T ss_pred cCCCCCCCCEEEecCCCCCCHHHHHHHHHHhhCCceEECCceEEEeeCCHHHHHHHHCCCccCCCCcceEEEEEEEEEe-
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred CCCceEEEEEEecCCc--cHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHH
Q 009707 463 EDRQNLIFRVTCSKGT--YIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKEL 519 (528)
Q Consensus 463 ~~~p~~tfeV~CSkGT--YIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL 519 (528)
+.|.++|+|+||+|| ||||||+|||.+|||+|||++||||++|+|++++|++++++
T Consensus 160 -~~p~~~~~v~cskGT~~YIRsL~~Dig~~Lg~~a~~~~L~R~~~G~f~~~~a~~~~~~ 217 (226)
T cd02868 160 -RPPEFTLEVQCINETQEYLRKLIHEIGLELRSSAVCTQVRRTRDGPFTVDDALLRKQW 217 (226)
T ss_pred -cCCeEEEEEEEECCCHHHHHHHHHHHHHHhCCcEEEEEEEeeEECCCCHHHcccHHHc
Confidence 468999999999999 99999999999999999999999999999999999666554
No 24
>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=100.00 E-value=3.7e-60 Score=445.17 Aligned_cols=179 Identities=37% Similarity=0.653 Sum_probs=169.5
Q ss_pred ceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCC
Q 009707 309 GTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDA 388 (528)
Q Consensus 309 GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~ 388 (528)
+|||+||||.|||||+||+++||+++.+||||+|||||+||||||||+|+|||+++|++..+|+|+++++||..
T Consensus 2 ~g~l~i~Kp~g~tS~~~v~~~k~~~~~kkvGH~GTLDp~A~GvLiv~~g~~Tk~~~~~~~~~K~Y~a~v~~g~~------ 75 (182)
T cd02572 2 YGVINLDKPSGPSSHEVVAWIKRILGVEKTGHSGTLDPKVTGCLPVCIDRATRLVKSQQEAGKEYVCVMRLHDD------ 75 (182)
T ss_pred CeEEEEecCCCCCHHHHHHHHHHHhCCCccCcCCCCCCcCeeEEEEEECHHhhhhHHHhCCCCEEEEEEEECCc------
Confidence 36999999999999999999999999999999999999999999999999999999999999999999999974
Q ss_pred CCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceE
Q 009707 389 DSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNL 468 (528)
Q Consensus 389 eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~ 468 (528)
+|.++|+++|++|+|+++|+||+|||+|+ ++|+++||+++++.+....+.+
T Consensus 76 ------------it~e~l~~~l~~f~G~i~Q~pP~~SA~K~-----------------~~R~v~I~~i~l~~~~~~~~~~ 126 (182)
T cd02572 76 ------------VDEEKVRRVLEEFTGAIFQRPPLISAVKR-----------------QLRVRTIYESKLLEYDGERRLV 126 (182)
T ss_pred ------------CCHHHHHHHHHHCCCcEEeeCCHhheecC-----------------CceEEEEEEEEEEEEcCCCcEE
Confidence 78999999999999999999999999983 4788999999998764333799
Q ss_pred EEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEecc-CcccccCHHHHHHH
Q 009707 469 IFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQY-SADDAWEFKELEEA 522 (528)
Q Consensus 469 tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~F-tLddA~tLedL~~~ 522 (528)
+|+|+||+||||||||+|||.+|||+|||++||||++|+| ++++|++++||.++
T Consensus 127 ~~~v~cs~GTYIRsL~~dlg~~Lg~~a~l~~L~R~~~G~f~~~~~~~~~~~~~~~ 181 (182)
T cd02572 127 LFRVSCEAGTYIRTLCVHIGLLLGVGAHMQELRRTRSGPFSEEDNMVTLHDVLDA 181 (182)
T ss_pred EEEEEECCCcCHHHHHHHHHHHHCCCeEEEEEEeEEEcCcCchhccccHHHHHhh
Confidence 9999999999999999999999999999999999999999 99999999999764
No 25
>COG0130 TruB Pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.5e-60 Score=472.19 Aligned_cols=189 Identities=43% Similarity=0.708 Sum_probs=175.7
Q ss_pred CCCCCCCCc--eEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEE
Q 009707 301 PPTWDGPFG--TMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFR 378 (528)
Q Consensus 301 p~~~~~~~G--gIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~ 378 (528)
+|..+..+. |||++|||.|||||+||+|+||+++.+|+||+|||||+||||||||+|+|||+++|++..+|+|+|+++
T Consensus 5 ~~~~~~i~~~~Gil~ldKP~G~tS~~~v~~vkkil~~~K~GH~GTLDP~atGvLpi~ig~aTKl~~~l~~~~K~Y~a~~~ 84 (271)
T COG0130 5 YPEKRPIEIYIGVINLDKPPGPTSHEVVAWVKRILGVEKAGHGGTLDPLATGVLPICLGEATKLVQYLLDADKEYVATVR 84 (271)
T ss_pred CccccccccccceEEeeCCCCCCHHHHHHHHHHHhCccccccccccCCcccceEEEEechhHhHHHHHhhCCcEEEEEEE
Confidence 344444441 599999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EcccccCCCCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEe
Q 009707 379 LGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDI 458 (528)
Q Consensus 379 LG~eTDT~D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL 458 (528)
||..|| +.++|++++.+|+|.|+|+||+||||| +.|++ |+|+|+++.+
T Consensus 85 lG~~t~-----------------~~e~i~~~l~~F~G~I~Q~PP~~SAvK-------------~~v~~--R~V~i~~l~~ 132 (271)
T COG0130 85 LGDQTD-----------------SEEEVRAALEAFTGEIYQIPPMFSAVK-------------REVER--RKITIYDLLE 132 (271)
T ss_pred eCCcCC-----------------CHHHHHHHHHhcceeeEecCCchhhcc-------------ceEee--EEEEEEEeee
Confidence 999998 799999999999999999999999999 55666 9999999988
Q ss_pred eeccCCCceEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHHH
Q 009707 459 ERSLEDRQNLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523 (528)
Q Consensus 459 ~~~l~~~p~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~i 523 (528)
..+ +.+.+.|+|+||+||||||||+|||..|||+|||++||||++|+|+++++++|+++....
T Consensus 133 ~~~--~~~~~~~~v~CskGTYIRtL~~DlG~~LG~gahm~~LrRt~~g~f~~~~~~~l~~l~~~~ 195 (271)
T COG0130 133 LDF--DRNLVTLRVECSKGTYIRTLARDLGEALGCGAHMSELRRTRVGPFSEEDAVTLELLDELD 195 (271)
T ss_pred ccC--CCceEEEEEEEecCcCHHHHHHHHHHHHCCccchhhhccccccccccccccchhhHHHHH
Confidence 764 457999999999999999999999999999999999999999999999999999998864
No 26
>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=100.00 E-value=4.6e-58 Score=463.02 Aligned_cols=179 Identities=41% Similarity=0.687 Sum_probs=169.6
Q ss_pred CCceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCC
Q 009707 307 PFGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTW 386 (528)
Q Consensus 307 ~~GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~ 386 (528)
+.+|||+||||.|||||+||++|||+++.+||||+|||||+||||||||+|+|||+++|+++.+|+|+|+++||.
T Consensus 32 ~~~G~l~i~KP~g~tS~~~v~~vr~~~~~kkvGH~GTLDP~A~GvL~v~~G~aTkl~~~~~~~~K~Y~~~v~lG~----- 106 (322)
T TIGR00425 32 ISYGVVNLDKPSGPSSHEVVAWVRRILNVEKTGHGGTLDPKVTGVLPVCIERATRLVKSLQEAPKEYVCLMRLHR----- 106 (322)
T ss_pred cCCCEEEEeCCCCCCHHHHHHHHHHHhcccccCCCCCCCCCCceEEEEEEChHhhccHHhccCCCEEEEEEEECC-----
Confidence 356799999999999999999999999999999999999999999999999999999999999999999999994
Q ss_pred CCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCc
Q 009707 387 DADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQ 466 (528)
Q Consensus 387 D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p 466 (528)
.++.++|+++|++|+|+|+|+||+|||+|+ ++|.|+||++++..+ +.+
T Consensus 107 -------------~~~~~~l~~~l~~f~g~i~Q~pP~~SA~k~-----------------~~r~v~I~~~~l~~~--~~~ 154 (322)
T TIGR00425 107 -------------DAKEEDILRVLKEFTGRIFQRPPLKSAVKR-----------------QLRVRTIYESELLEK--DGK 154 (322)
T ss_pred -------------CCCHHHHHHHHHHcCCcEEeeCChheEEec-----------------cCeEEEEEEEEEEEe--cCC
Confidence 368999999999999999999999999994 479999999999875 346
Q ss_pred eEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHH
Q 009707 467 NLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEA 522 (528)
Q Consensus 467 ~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~ 522 (528)
.++|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|.++
T Consensus 155 ~~~~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~L~R~~~g~f~~~~a~~l~~l~~~ 210 (322)
T TIGR00425 155 DVLFRVSCEAGTYIRKLCVDIGEALGTGAHMQELRRTRSGCFGEDDMVTLHDLLDA 210 (322)
T ss_pred eEEEEEEeCCCcChHHHHHHHHHHHCCCEEEEEeEeEEECCccccccccHHHHHHh
Confidence 79999999999999999999999999999999999999999999999999999864
No 27
>PRK04270 H/ACA RNA-protein complex component Cbf5p; Reviewed
Probab=100.00 E-value=4.5e-58 Score=458.16 Aligned_cols=180 Identities=42% Similarity=0.663 Sum_probs=170.7
Q ss_pred CCceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCC
Q 009707 307 PFGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTW 386 (528)
Q Consensus 307 ~~GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~ 386 (528)
..+|||+||||.||||||||+++||+++.+||||+|||||+|||||+||+|+|||+++|+++.+|+|++++.||.
T Consensus 20 ~~~g~l~i~Kp~g~tS~~~v~~~r~~~~~kkvGH~GTLDp~A~GvL~v~~g~atk~~~~~~~~~K~Y~~~~~~g~----- 94 (300)
T PRK04270 20 IKFGVVNLDKPPGPTSHEVAAWVRDILGVEKAGHGGTLDPKVTGVLPVALGKATKVVQALLESGKEYVCVMHLHG----- 94 (300)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHHHHhccccccCCCCCCCcCeEEEEEEEChHhhhhHHhccCCcEEEEEEEECC-----
Confidence 345699999999999999999999999999999999999999999999999999999999999999999999995
Q ss_pred CCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCc
Q 009707 387 DADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQ 466 (528)
Q Consensus 387 D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p 466 (528)
++|.++|+++|++|+|+|+|+||+|||+|+ ++|+|+||+++++.+ +.+
T Consensus 95 -------------~~~~~~~~~~l~~~~g~i~Q~pP~~SA~k~-----------------~~r~v~I~~i~~~~~--~~~ 142 (300)
T PRK04270 95 -------------DVPEEDIRKVFKEFTGEIYQKPPLKSAVKR-----------------RLRVRTIYELEILEI--DGR 142 (300)
T ss_pred -------------CCCHHHHHHHHHHCCCcEEeECCHHHhccC-----------------CceEEEEEEEEEEEe--cCC
Confidence 378999999999999999999999999993 589999999999876 358
Q ss_pred eEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcccccCHHHHHHHH
Q 009707 467 NLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523 (528)
Q Consensus 467 ~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA~tLedL~~~i 523 (528)
.++|+|+||+||||||||+|||.+|||+|||++||||++|+|++++|++|++|.++.
T Consensus 143 ~~~~~v~cs~GtYIRsl~~dig~~Lg~~a~~~~L~R~~~g~f~~~~a~~l~~l~~~~ 199 (300)
T PRK04270 143 DVLFRVRCESGTYIRKLCHDIGLALGTGAHMQELRRTRTGPFTEEDLVTLQDLADAY 199 (300)
T ss_pred EEEEEEEECCceEHHHHHHHHHHHHCCCeEEEEEEeEEECCCCcchhcCHHHHHHhh
Confidence 999999999999999999999999999999999999999999999999999998753
No 28
>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=100.00 E-value=1.4e-54 Score=396.78 Aligned_cols=149 Identities=48% Similarity=0.872 Sum_probs=137.1
Q ss_pred HHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCCCCeEeeccCCCCCHHHHHHH
Q 009707 330 RRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKA 409 (528)
Q Consensus 330 RrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~eGkVie~~p~~hIT~e~Leka 409 (528)
||+++.+||||+|||||+||||||||+|+|||+++++++.+|+|+++++||.+|||+|.+|+|+++.+++|+|.++|+++
T Consensus 1 r~~~~~~KvGH~GTLDP~AsGvL~v~vg~~Tkl~~~l~~~~K~Y~~~~~lG~~TdT~D~~G~v~~~~~~~~it~e~l~~~ 80 (149)
T PF01509_consen 1 RRILGIKKVGHGGTLDPFASGVLVVGVGKATKLLSYLQNSDKEYVATIRLGVETDTYDIEGEVTETKPYDHITEEDLEKV 80 (149)
T ss_dssp HHHTTBSSEEESS-SSTT-EEEEEEEEGGGGGGHHHHTTSEEEEEEEEEESSEETTSBTTSSEEEE---TT--HHHHHHH
T ss_pred CcccCcceeccccccCCcceEEEEEEECCcchHHHHhhccCCEEEEEEEEEEEeCCcceeeeEEEeeccccCCHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceEEEEEEecCCccH
Q 009707 410 AASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYI 480 (528)
Q Consensus 410 L~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~tfeV~CSkGTYI 480 (528)
|++|+|+++|+||+|||+|+||+|||+|||+|++|++++|+|.||+++++.+ +.|.++|+|+||+||||
T Consensus 81 l~~f~G~~~Q~pP~ySAvki~G~raY~lAR~G~~v~~~~r~v~I~~i~l~~~--~~~~~~~~v~cs~GTYi 149 (149)
T PF01509_consen 81 LAKFQGEIEQVPPMYSAVKINGKRAYELARKGEEVELPPRPVTIYSIELLSF--NPPEFTFEVHCSKGTYI 149 (149)
T ss_dssp HHHTSEEEEES-SSSSSSECTTCEHHHHHHTTSSTSSS-EEEEEEEEEEEEE--ETTEEEEEEEECTTTTH
T ss_pred HHhCcCCEeeeCchheeEcCCCccHHHHHHCCCccCCCCeeEEEEEEEEEEE--cCCeEEEEEEEcCcccC
Confidence 9999999999999999999999999999999999999999999999999876 56799999999999998
No 29
>KOG2559 consensus Predicted pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.1e-34 Score=280.35 Aligned_cols=209 Identities=24% Similarity=0.415 Sum_probs=189.0
Q ss_pred CCCCCCceEEEeeCCCCCChHHHHHHHHH-HhC-----------------------------------------------
Q 009707 303 TWDGPFGTMVLVNKPKGWTSFTVCGKLRR-LVK----------------------------------------------- 334 (528)
Q Consensus 303 ~~~~~~GgIL~VdKP~G~TS~dVV~klRr-lL~----------------------------------------------- 334 (528)
.|+ ++| |++||||+||.|..+.+.|-+ +++
T Consensus 6 i~k-l~G-vl~VYKpsGik~khlr~~i~~~i~k~~~~~~~~s~~q~~~~~~g~~eg~e~~~~~~~~~sV~~~~nhPlv~g 83 (318)
T KOG2559|consen 6 IWK-LSG-VLCVYKPSGIKSKHLRKLITRKIAKSVSDIESTSRIQLPLISIGVIEGHEKSLVVVGRNSVADYRNHPLVSG 83 (318)
T ss_pred hhh-hcc-eeEEecCCCccHHHHHHHHHHHHHhhhcccCCCcccccceEeecccccccceeeeecccchhhhccCCcccC
Confidence 466 666 999999999999999887644 321
Q ss_pred ----CccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCCCCeEeeccCCCCCHHHHHHHH
Q 009707 335 ----VKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAA 410 (528)
Q Consensus 335 ----ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~eGkVie~~p~~hIT~e~LekaL 410 (528)
..+||-.-.||-.|+|||++|||.+|++++ ++.+|.+|+.+-.||.|++++.++|||.+.|+++|
T Consensus 84 ~s~~~~~V~v~h~l~~~~sgvl~~gVghgc~~i~-----------~~mlg~aT~~~r~Dgri~~~~n~dhVs~~ri~~vl 152 (318)
T KOG2559|consen 84 RSIRQEDVQVVHVLPLATSGVLLFGVGHGCESIP-----------ELMLGSATNVYRIDGRIKKSENIDHVSKHRIEKVL 152 (318)
T ss_pred cchhhcceeeEEeecccccceEEEecCcchhhhh-----------hhhhccchhccCccceEeeecccchhhHHHHHHHH
Confidence 023444458999999999999999999998 67799999999999999999999999999999999
Q ss_pred HhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceEEEEEEecCCc--cHHHHHHHHH
Q 009707 411 ASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGT--YIRSLCADFG 488 (528)
Q Consensus 411 ~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~tfeV~CSkGT--YIRSLa~DIG 488 (528)
+.++|.++....+||+|.++.+.||||||+|.+....+-...||.|++..| ..|.|+++++|+..| |+|.|+|+||
T Consensus 153 a~lq~shq~a~f~~~nvDl~tqEAyElA~RGl~Rp~~~s~~ivygI~l~~F--~~P~F~le~qc~~Etqe~Lr~LVh~ig 230 (318)
T KOG2559|consen 153 ARLQSSHQSASFRHANVDLETQEAYELARRGLPRPQLPSSQIVYGIDLNWF--RSPKFSLETQCSGETQEMLRQLVHHIG 230 (318)
T ss_pred HHHHHHHHHHHHHhcCCCchhHHHHHHHHccCCCcCCCCCceEEEEeeeee--cCCccEEEEeeccccHHHHHHHHHHHh
Confidence 999999999999999999999999999999998877777778999999876 689999999999998 9999999999
Q ss_pred HHhcccceecceEEEEEeccCcccc-----cCHHHHHHHHhcC
Q 009707 489 KALGSCAHLTALRRDSIGQYSADDA-----WEFKELEEAITKN 526 (528)
Q Consensus 489 ~aLGt~AhLt~LRRTriG~FtLddA-----~tLedL~~~i~~~ 526 (528)
..|||.|+|++|||++.|+|++++| |.|.+|.++|..+
T Consensus 231 l~L~T~a~c~qlrr~r~g~F~~d~aLLr~qw~L~nI~~nir~~ 273 (318)
T KOG2559|consen 231 LNLGTEATCIQLRRQRFGPFGSDNALLRKQWNLQNIARNIRLN 273 (318)
T ss_pred hcccceeeeeeeeeeccCCCCccHHHHHHhhccHHHHHHHHHc
Confidence 9999999999999999999999988 9999999998653
No 30
>KOG2529 consensus Pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=2.4e-30 Score=266.95 Aligned_cols=365 Identities=21% Similarity=0.183 Sum_probs=299.4
Q ss_pred ccceeecccCCcccccc-cccceeEeeecccccccCCCCCcceeeeeeeCCCCCCCCccccCCCCCCCCCCCCCCCCCCC
Q 009707 13 SSRTLSLLLPPPLKDNF-IKKNVYLLSTKAFSSSITSTPYPLQYDMIINNPTQPQQSQTRRRPARVNSTNSDENQNPDGE 91 (528)
Q Consensus 13 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (528)
+|+...+.+.|-+...- +-.++.-+--+.|--++++|-||.+ +|++++|.+..-.++++.+.-+. ...+ ...++|
T Consensus 8 ss~~~~~~~kp~~~~a~~~~~~~~~~ll~~~~~~~v~t~~~t~-~~~~~splk~~i~~~~~sgv~~i--~kpa-~pss~e 83 (395)
T KOG2529|consen 8 SSPQFMFMTKPALETAQKFDASIWALLLANMDKLLVRTGHYTP-SAAGVSPLKRGIKEYSRSGVINI--DKPA-NPSSHE 83 (395)
T ss_pred cccccccccCccccccccchhhhhHHHHHHHHhhhhhhcCcCc-hhhhcCHHHHhHHhHhhcCceec--cCCC-CCchHH
Confidence 34444455555544433 4445554445556677899999999 99999999998888888876665 2222 222344
Q ss_pred CCcchhhhhHhHHhhhhcCCCCCchhhhHHHHHHHHHhhccccCCCCCcccCCCCCcceeecceeeecccccccccceec
Q 009707 92 LGFDSWVDKKLEKEAKTRQPGSDNAEMTKSMRKYYNKRRQRMYGTDSEDEYGKNDDGFVELKPEVVEFNRLHKREEELYF 171 (528)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 171 (528)
+.+|++++|. .++++|+|..|++|++.++.++.++++++++++|.++.- .+|++|+|+|.++..+|++.+.||+
T Consensus 84 --~~swvk~iL~-~ek~Gh~gTlDP~vtg~l~v~~~~~tr~~~s~~s~gk~y---vg~~~lt~~v~~~~k~~~~~e~l~g 157 (395)
T KOG2529|consen 84 --VVSWVKNILR-VEKTGHSGTLDPEVTGCLIVCIDRATRLLKSQQSAGKEY---VGIGKLTPEVEDALKLHQKLEHLYG 157 (395)
T ss_pred --HHHHHHHHhh-HHHhCCCCCCCccccceEEEEeecccccccchhccCcEE---EEEEecCcchhhhhhhccchhhhhh
Confidence 9999999999 889999999999999999999999999999999986644 9999999999999999999999999
Q ss_pred cccccCcCccc-chhHHHHHHhhccCCcccccccccCCCCc----hhHHHhhhh------cCCCcccccCC-----cccC
Q 009707 172 YDTFAYPWEKD-KHYKMVYQLEKKYFPDQCLDKAFLDPSAD----QNVKKMRKK------AGGKSEEKKYN-----KEDD 235 (528)
Q Consensus 172 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~------~~~~~~~~~~~-----~~~~ 235 (528)
++.+++||+.+ +|+.||++|+..+++++|.|++|+.+..+ ...+.+... -+++..+++-. ++.+
T Consensus 158 ~l~~~~pl~~~~kr~~~v~~~y~s~~ie~d~~~~l~~f~~~~~~~t~~rt~~~~lg~ll~~g~k~~E~~r~r~~~~~E~~ 237 (395)
T KOG2529|consen 158 ALFQRPPLISAVKRVLRVRTLYESKIIEYDRDYPLLRFGVSCEAGTYKRTMCVHLGLLLGFGGKMQELRRVRSGICSEED 237 (395)
T ss_pred hhccCCchhhhccceeEeechhhhhcccccccchhccccccccccchHHHHHHhhhhHhhhcchhhhhhhcccccccccc
Confidence 99999999999 99999999999999999999999999986 222222222 45555555432 3466
Q ss_pred cceeeecccccccccccccccccCcccccchHhHHHHHHHhccCCCCC---CCCCCCccccccCCCCCCCCCCCCCceEE
Q 009707 236 KRLVFFDDQEKKSEKDSILGEDVNVKGEVSEKKVEEFFKCLKKVPNKE---NEVGSGEPYIVSRSTELPPTWDGPFGTMV 312 (528)
Q Consensus 236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~p~~~~~~~GgIL 312 (528)
..++++|.++...+.++.. +. -..-.....+|.++...++++++. +.+..|+++.+++....++.|+.+.+-++
T Consensus 238 ~~~t~~d~~~~q~~~d~~~--d~-~~~r~~~~~les~l~~~~~vv~kd~~v~~~cyg~k~~v~~~~r~~~~i~~~~e~v~ 314 (395)
T KOG2529|consen 238 DMLTEHDEQDAQFEYDTER--DE-SYLRRVKKPLESLLTGYKRVVVKDSTVNAPCYGAKLLVPGLLRYSDDIDGPFEVVD 314 (395)
T ss_pred cccccccchhhhhhhcccc--Cc-ceeeeeeeccccccccceeeecccchhcCccccceeeeccccccCccccCceeEEE
Confidence 6899999888777766622 22 234456788999999999999998 45667899999999999999999999999
Q ss_pred EeeCCCCCChHHHHHHHHHHhCCccccccCCCCC-CCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCCCCCC
Q 009707 313 LVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDP-MATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWDADS 390 (528)
Q Consensus 313 ~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP-~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~D~eG 390 (528)
...|+.+|.|.-+....+.......++|++++++ ++.+|.+.|+|.+++.++-.+...+.|.-....|.+|++.|..-
T Consensus 315 ~t~k~e~~~~~i~~~~~~~~~s~dh~~~a~~k~~~me~d~~~~~~g~~~~~~~~~e~~~~g~~~~~~~~~~~t~~~~~~ 393 (395)
T KOG2529|consen 315 MTTKGEAIASKIAEMSLRQVASCDHGVVAKTKRVIMEADVYERCWGLGPKASPGKEAKAEGKLDKFGKGNETTPKDWIE 393 (395)
T ss_pred EeecchhhhhhhhhhhhhhhceeeeeeecccccccccccccceeeccCcccCchHHHHHhhhhhhccCCCCCChhHhcc
Confidence 9999999999999999999999999999999999 99999999999999999999888888888888888888776543
No 31
>KOG2529 consensus Pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=99.88 E-value=2.1e-23 Score=215.83 Aligned_cols=182 Identities=32% Similarity=0.540 Sum_probs=154.5
Q ss_pred CCceEEEeeCCCCCChHHHHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEEEcccccCC
Q 009707 307 PFGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTW 386 (528)
Q Consensus 307 ~~GgIL~VdKP~G~TS~dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~LG~eTDT~ 386 (528)
...|+++|+||++.+||++++|++++|...|.||.|||||.+||+|++|++.+||++.-.+...|+|.+ ||..|++.
T Consensus 66 ~~sgv~~i~kpa~pss~e~~swvk~iL~~ek~Gh~gTlDP~vtg~l~v~~~~~tr~~~s~~s~gk~yvg---~~~lt~~v 142 (395)
T KOG2529|consen 66 SRSGVINIDKPANPSSHEVVSWVKNILRVEKTGHSGTLDPEVTGCLIVCIDRATRLLKSQQSAGKEYVG---IGKLTPEV 142 (395)
T ss_pred hhcCceeccCCCCCchHHHHHHHHHHhhHHHhCCCCCCCccccceEEEEeecccccccchhccCcEEEE---EEecCcch
Confidence 345699999999999999999999999999999999999999999999999999999999999999955 55556653
Q ss_pred CCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCc
Q 009707 387 DADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQ 466 (528)
Q Consensus 387 D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p 466 (528)
+ +...+.+.+.+..|.-.|.||.-+|+|.. +.-| .+|+.+++.++.+.+
T Consensus 143 ~--------------~~~k~~~~~e~l~g~l~~~~pl~~~~kr~---------------~~v~--~~y~s~~ie~d~~~~ 191 (395)
T KOG2529|consen 143 E--------------DALKLHQKLEHLYGALFQRPPLISAVKRV---------------LRVR--TLYESKIIEYDRDYP 191 (395)
T ss_pred h--------------hhhhhccchhhhhhhhccCCchhhhccce---------------eEee--chhhhhcccccccch
Confidence 3 34556677778899999999999998764 2222 245555555555667
Q ss_pred eEEEEEEecCCccHHHHHHHHHHHhcccceecceEEEEEeccCccc-ccCHHHHHHH
Q 009707 467 NLIFRVTCSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSADD-AWEFKELEEA 522 (528)
Q Consensus 467 ~~tfeV~CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLdd-A~tLedL~~~ 522 (528)
...|.+.|-.|||+|++|..+|..||++++|++|||++.|.-+.++ .++++|..+.
T Consensus 192 l~~f~~~~~~~t~~rt~~~~lg~ll~~g~k~~E~~r~r~~~~~E~~~~~t~~d~~~~ 248 (395)
T KOG2529|consen 192 LLRFGVSCEAGTYKRTMCVHLGLLLGFGGKMQELRRVRSGICSEEDDMLTEHDEQDA 248 (395)
T ss_pred hccccccccccchHHHHHHhhhhHhhhcchhhhhhhcccccccccccccccccchhh
Confidence 7899999999999999999999999999999999999999999877 7898887664
No 32
>cd01291 PseudoU_synth PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases. Some psi sites such as psi55,13,38 and 39 in tRNA are highly conserved, being in the same position in eubacteria, archeabacteria and eukaryotes. Other psi sites occur in a more restricted fashion, for example psi2604in 23S RNA made by E.coli RluF has only been detected in E.coli. Human dyskerin with the help of guide RNAs makes the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Mutations in human dyskerin cause X-linked dyskeratosis congenitas. Missense mutation in human PUS1 causes mitochondrial myopathy and sideroblastic anemia (MLASA).
Probab=99.17 E-value=1.1e-10 Score=96.85 Aligned_cols=50 Identities=26% Similarity=0.240 Sum_probs=44.9
Q ss_pred eeCCCCCChHHHHHHHH-HHhCCccccccCCCCCCCceEeEEEecccccchhhhcCCCcEEEEEEE
Q 009707 314 VNKPKGWTSFTVCGKLR-RLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFR 378 (528)
Q Consensus 314 VdKP~G~TS~dVV~klR-rlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~~~K~Y~at~~ 378 (528)
|+||.+.|++.+....+ ..++.+++||+|++|+.|+|+++|| |+|.++++
T Consensus 1 l~K~~~~t~~~~~~~~~~~~~~~~~i~~aG~kDk~a~t~q~v~---------------n~f~i~~r 51 (87)
T cd01291 1 LYKPGGDTMEAARQLAKLLGIPPKRVGYAGRKDKRAVTTQLVS---------------NRFTITLR 51 (87)
T ss_pred CCCCCCChHHHHHHHHHHhCCChheEEECccCCCCeeEEEEEc---------------ccEEEEEE
Confidence 68999999998888775 4567889999999999999999999 99999998
No 33
>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=98.71 E-value=3.8e-08 Score=103.45 Aligned_cols=120 Identities=19% Similarity=0.261 Sum_probs=92.3
Q ss_pred EeEEEeccccc-chhhhc--CCCcEEEEEEEEcccccCCCCCCCeEeeccCCCCCHHHHHHHHHhCcc-ceeecCCcccc
Q 009707 351 LLIVCVGKATK-LVDRYQ--GMIKGYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRG-EIWQVPPMFSA 426 (528)
Q Consensus 351 VLVVgVGkATK-Ll~~l~--~~~K~Y~at~~LG~eTDT~D~eGkVie~~p~~hIT~e~LekaL~kF~G-~i~QvPP~YSA 426 (528)
|-+..+.-+|+ ....+. ...|+|+|.+.+.. .++.++++++++.|.| .|.|.+|.=++
T Consensus 254 V~v~~L~~~~~~~v~~ik~~~~~K~Y~alV~~~~------------------~v~~e~L~~~~~~l~g~~I~QrTP~RV~ 315 (388)
T TIGR01213 254 VEVEGLKFATREEVEEVKEEKHRKVYRALVEVDG------------------PVSDEDLEELCKELEGATIYQRTPLRVL 315 (388)
T ss_pred EEEEEeEEEcHHHHHHHhccCCceEEEEEEEECC------------------CCCHHHHHHHHHhccCCEEEccCCceEE
Confidence 55555554443 223333 24899999998744 4789999999999999 89999999877
Q ss_pred cccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceEEEEEEecCCccHHHHHHH--------HHHHhcccceec
Q 009707 427 IKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCAD--------FGKALGSCAHLT 498 (528)
Q Consensus 427 VKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~tfeV~CSkGTYIRSLa~D--------IG~aLGt~AhLt 498 (528)
.+.. ...|.-.||++++.... ...|.|+|.|..||||+-|||. ||..||+.|+|.
T Consensus 316 hRRa---------------~~~R~R~I~~i~~~~i~--~~~~~l~v~~qaGtYIKElV~GD~GRT~PSl~~lLg~~a~i~ 378 (388)
T TIGR01213 316 HRRA---------------DLVRERRVYQVDLSGLD--GNHAELIIEAEGGLYIKELVSGDGGRTRPSVSEVLGVEAVCK 378 (388)
T ss_pred EecC---------------CCceEEEEEEEEEEEEc--CCEEEEEEEecCCCEEEEEEcCCCCCcCCcHHHHhCCCceEE
Confidence 6331 23455578999887653 4589999999999999999997 999999999999
Q ss_pred ceEEEEE
Q 009707 499 ALRRDSI 505 (528)
Q Consensus 499 ~LRRTri 505 (528)
+|-=+.+
T Consensus 379 eLDV~~V 385 (388)
T TIGR01213 379 ELDVLKV 385 (388)
T ss_pred EeEEEEE
Confidence 9976654
No 34
>PRK14554 putative pseudouridylate synthase; Provisional
Probab=98.40 E-value=5.3e-07 Score=95.83 Aligned_cols=121 Identities=22% Similarity=0.314 Sum_probs=91.1
Q ss_pred eEeEEEecccccc-hhhhcC--CCcEEEEEEEEcccccCCCCCCCeEeeccCCCCCHHHHHHHHHhCccc-eeecCCccc
Q 009707 350 GLLIVCVGKATKL-VDRYQG--MIKGYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGE-IWQVPPMFS 425 (528)
Q Consensus 350 GVLVVgVGkATKL-l~~l~~--~~K~Y~at~~LG~eTDT~D~eGkVie~~p~~hIT~e~LekaL~kF~G~-i~QvPP~YS 425 (528)
+|-|..+.-+++- +..+.. ..|+|+|.+.+-. .++.+++.+++..|.|. |.|.+|.=.
T Consensus 286 ~V~v~~l~~~~~~~~~~ik~~~~~K~YralV~~~~------------------~v~~e~l~~~~~~l~~~~I~QrTP~RV 347 (422)
T PRK14554 286 KVEVENLRFATRKEVERIKEEKASKTYRALVESDE------------------PVSEEELEKLLDELSGATIEQRTPRRV 347 (422)
T ss_pred CEEEEEEEEEcHHHHHHHhcCCCceEEEEEEEECC------------------CCCHHHHHHHHHhccCcEeeccCcHhh
Confidence 3555555544432 233333 3699999998643 47889999999999997 999999866
Q ss_pred ccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCCCceEEEEEEecCCccHHHHHHH--------HHHHhccccee
Q 009707 426 AIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCAD--------FGKALGSCAHL 497 (528)
Q Consensus 426 AVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~~p~~tfeV~CSkGTYIRSLa~D--------IG~aLGt~AhL 497 (528)
+.+.. ...|.-.||++++... +...|.++|.|..||||+-|||. ||..||+.|+|
T Consensus 348 ~hRR~---------------~~~R~R~I~~i~~~~i--~~~~~~l~i~~eaGtYIKElv~GD~GRT~Psl~~lLg~~a~~ 410 (422)
T PRK14554 348 KHRRA---------------DLVRVRKVYDISGELI--DDKHFELRIKCEGGLYIKELISGDEGRTTPSLSELLGTPAIV 410 (422)
T ss_pred hhhcc---------------ccceeeEEEEEEEEEE--cCcEEEEEEEEecCCEEEEEEeCCCCcccccHHHHhCCCceE
Confidence 65331 2234446888887654 34579999999999999999996 99999999999
Q ss_pred cceEEEEE
Q 009707 498 TALRRDSI 505 (528)
Q Consensus 498 t~LRRTri 505 (528)
.+|--+.+
T Consensus 411 ~eLDV~~V 418 (422)
T PRK14554 411 TELDVLDV 418 (422)
T ss_pred EEeeEEEE
Confidence 99976655
No 35
>cd02553 PseudoU_synth_RsuA PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RsuA makes psi516 in 16S RNA. Psi at this position is not generally conserved in other organisms.
Probab=98.18 E-value=1.7e-05 Score=73.64 Aligned_cols=139 Identities=26% Similarity=0.392 Sum_probs=87.2
Q ss_pred EEEeeCCCCCChH-------HHHHHHHHHhCCccccccCCCCCCCceEeEEEeccc--ccchhhhcCCCcEEEEEEEEcc
Q 009707 311 MVLVNKPKGWTSF-------TVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKA--TKLVDRYQGMIKGYSGVFRLGE 381 (528)
Q Consensus 311 IL~VdKP~G~TS~-------dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkA--TKLl~~l~~~~K~Y~at~~LG~ 381 (528)
+++||||+|+.++ .+.+.+.+.+...+++-.+-||-.+||+|+++-+.. .++..--....|+|.|.+.
T Consensus 2 ~ivvnKP~G~~~~~~~~~~~tl~~~l~~~~~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~i~K~Y~a~V~--- 78 (167)
T cd02553 2 YLMLNKPAGVVCATKDPHHPTVIDLLPEPDRRRDLFPVGRLDKDTTGLLLLTNDGQLAHRLTSPKKHVPKTYEVTLA--- 78 (167)
T ss_pred EEEEECCCCCEeCCCCCCCCcHHHHhhhhcccCCeEEcccCCCCCEEEEEEEeCHHHHHHhhCCcCCCceEEEEEEc---
Confidence 5789999998875 255666665555578899999999999999998763 2332211235899999975
Q ss_pred cccCCCCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccC-ChhhHHHHhcCcccccCCceEEEEEEEeee
Q 009707 382 ATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVG-GEKMYDKARRGESIELSPRRISIFQFDIER 460 (528)
Q Consensus 382 eTDT~D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVn-GKRAYELARkGe~VELkpR~V~IyeleL~~ 460 (528)
| +++.+++..... | +.++ |+. .++. .++++.
T Consensus 79 --------G---------~~~~~~~~~~~~---~-----------~~~~~~~~------------~~~~-----~~~~~~ 110 (167)
T cd02553 79 --------G---------PLTEDDIEAFAE---G-----------VLLHDGYP------------TKPA-----KLEILS 110 (167)
T ss_pred --------c---------CCCHHHHHHHHC---C-----------eEEcCCCE------------eeee-----EEEEeC
Confidence 2 233444432211 1 1111 110 0111 122221
Q ss_pred ccCCCceEEEEEEecCCc--cHHHHHHHHHHHhcccceecceEEEEEeccCccc
Q 009707 461 SLEDRQNLIFRVTCSKGT--YIRSLCADFGKALGSCAHLTALRRDSIGQYSADD 512 (528)
Q Consensus 461 ~l~~~p~~tfeV~CSkGT--YIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLdd 512 (528)
. -.++|..-.|. -||-.+..+|. -+..|.|+++|++++++
T Consensus 111 ----~--sll~v~l~tGR~HQIR~hla~lG~------pI~~~~R~~~g~~~l~~ 152 (167)
T cd02553 111 ----P--TTVRLTITEGKYHQVKRMFAAVGN------KVVALHRIRIGGLELDD 152 (167)
T ss_pred ----C--cEEEEEEEeCCCHHHHHHHHHcCC------eEEEEEEEEECCEecCC
Confidence 1 34666666665 78888877754 45899999999999986
No 36
>cd02566 PseudoU_synth_RluE PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. Escherichia coli RluE makes psi2457 in 23S RNA. psi2457 is not universally conserved.
Probab=98.09 E-value=1.1e-05 Score=74.95 Aligned_cols=66 Identities=29% Similarity=0.312 Sum_probs=47.7
Q ss_pred EEEeeCCCCCChHH-----HHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhcC----CCcEEEEEEE
Q 009707 311 MVLVNKPKGWTSFT-----VCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQG----MIKGYSGVFR 378 (528)
Q Consensus 311 IL~VdKP~G~TS~d-----VV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~~----~~K~Y~at~~ 378 (528)
+++||||.|+-|+. --.-+...+...++...|-||-.+||||+++-+. ++...+.. ..|+|.|.+.
T Consensus 1 ~lv~nKP~G~~~~~~~~~~~~~~l~~~l~~~~~~~v~RLD~~TsGlll~a~d~--~~~~~l~~~~~~v~K~Y~a~v~ 75 (168)
T cd02566 1 LILFNKPYGVLSQFTDESEKHKTLKDYIDDPGVYAAGRLDRDSEGLLLLTDDG--RLQHRITDPSFKHPKTYYVQVE 75 (168)
T ss_pred CEEEECCCCCEEecCCCcCCCccHHHHcCcCCeEEccCCCCCCeEEEEEEeCH--HHHHHHHCCCCCCCEEEEEEEC
Confidence 47899999996661 1123444454467889999999999999999765 34444443 5899999973
No 37
>PRK10475 23S rRNA pseudouridine synthase F; Provisional
Probab=98.08 E-value=3.9e-05 Score=77.96 Aligned_cols=144 Identities=28% Similarity=0.390 Sum_probs=90.7
Q ss_pred eEEEeeCCCCCChHH-------HHHHHHHHhCCccccccCCCCCCCceEeEEEecccccchhhhc----CCCcEEEEEEE
Q 009707 310 TMVLVNKPKGWTSFT-------VCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQ----GMIKGYSGVFR 378 (528)
Q Consensus 310 gIL~VdKP~G~TS~d-------VV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~----~~~K~Y~at~~ 378 (528)
-+|++|||.|+.|+. +++.+.. ..++...|-||-.+||||+++-... +...|+ ...|+|.|++.
T Consensus 68 ~~lvlnKP~G~~~~~~~~~~~tv~~~l~~---~~~l~~VgRLDrdTsGLLLlT~dg~--~~~~L~~p~~~i~K~Y~v~V~ 142 (290)
T PRK10475 68 VLIALNKPVGIVSTTEDGERDNIVDFVNH---SKRVFPIGRLDKDSQGLIFLTNHGD--LVNKILRAGNDHEKEYLVTVD 142 (290)
T ss_pred eEEEEECCCCCCcCCCCCCCCcHHHHhhc---cccccccccCCCCCcceEEEecCHH--HHHHhhCcCCCCCeEEEEEEC
Confidence 488999999997763 3444432 2467899999999999999998553 333332 35899999975
Q ss_pred EcccccCCCCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEe
Q 009707 379 LGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDI 458 (528)
Q Consensus 379 LG~eTDT~D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL 458 (528)
..++.+.|+.... +|.+.|.. ..+..|. .
T Consensus 143 --------------------g~~~~~~l~~l~~--------------Gv~l~~~~------------~~~~~v~-----~ 171 (290)
T PRK10475 143 --------------------KPITDEFIRGMGA--------------GVPILGTV------------TKKCKVK-----K 171 (290)
T ss_pred --------------------CCCCHHHHHHHhC--------------CcEECCEE------------ecceEEE-----e
Confidence 2345666654321 12222110 1122221 1
Q ss_pred eeccCCCceEEEEEEecCCcc--HHHHHHHHHHHhcccceecceEEEEEeccCcccc-------cCHHHHHH
Q 009707 459 ERSLEDRQNLIFRVTCSKGTY--IRSLCADFGKALGSCAHLTALRRDSIGQYSADDA-------WEFKELEE 521 (528)
Q Consensus 459 ~~~l~~~p~~tfeV~CSkGTY--IRSLa~DIG~aLGt~AhLt~LRRTriG~FtLddA-------~tLedL~~ 521 (528)
. . ...|+|++..|.| ||-++.-+| -.+..|.|+++|++++++- ++-+|+..
T Consensus 172 ~----~--~~~~~i~l~eGk~rqIRrm~~~~G------~~V~~L~R~~ig~l~L~~L~~G~~r~Lt~~E~~~ 231 (290)
T PRK10475 172 E----A--PFVFRITLVQGLNRQIRRMCEHFG------YEVTKLERTRIMNVSLSGIPLGEWRDLTDDELID 231 (290)
T ss_pred c----C--CcEEEEEEECCcCHHHHHHHHHcC------CEEeEEEEEEECCEEcCCCCCCCeEECCHHHHHH
Confidence 1 1 2347777777875 666665543 5679999999999999854 56666643
No 38
>cd02556 PseudoU_synth_RluB PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RluB makes psi2605 in 23S RNA. psi2605 has been detected in eubacteria but, not in eukarya and archea despite the presence of a precursor U at that site.
Probab=98.02 E-value=6.3e-05 Score=69.76 Aligned_cols=67 Identities=19% Similarity=0.253 Sum_probs=46.4
Q ss_pred EEEeeCCCCCChHH--------HHHHHHHHhCCccccccCCCCCCCceEeEEEeccc-ccchhhhc-CCCcEEEEEEE
Q 009707 311 MVLVNKPKGWTSFT--------VCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKA-TKLVDRYQ-GMIKGYSGVFR 378 (528)
Q Consensus 311 IL~VdKP~G~TS~d--------VV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkA-TKLl~~l~-~~~K~Y~at~~ 378 (528)
+++||||.|+-|+. +.+.+... ...+++..|-||-.+||||+++-+.. .+.+..-. ...|+|.|.+.
T Consensus 2 ~lvvnKP~G~~~~~~~~~~~~tl~~~l~~~-~~~~~~~V~RLD~~TsGLll~ak~~~~~~~L~~~~~~i~K~Y~a~V~ 78 (167)
T cd02556 2 VLIYHKPEGLICTRKDPKGRPTVFDLLPKL-GIPRWISVGRLDLNTEGLLLFTNDGELANRLMHPSNEIEREYAVRVF 78 (167)
T ss_pred EEEEECCCCcEECccCCCCCccHHHhhhhh-ccCceEEcCcCCCCCeeEEEEECCHHHHHHHhCCcCCCCeEEEEEEC
Confidence 78999999986552 44444332 13467889999999999999998654 33333211 24799999974
No 39
>PRK10700 23S rRNA pseudouridylate synthase B; Provisional
Probab=97.95 E-value=0.00011 Score=74.26 Aligned_cols=151 Identities=20% Similarity=0.312 Sum_probs=91.6
Q ss_pred eEEEeeCCCCCChH--------HHHHHHHHHhCCccccccCCCCCCCceEeEEEe-cccccchhhhc-CCCcEEEEEEEE
Q 009707 310 TMVLVNKPKGWTSF--------TVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCV-GKATKLVDRYQ-GMIKGYSGVFRL 379 (528)
Q Consensus 310 gIL~VdKP~G~TS~--------dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgV-GkATKLl~~l~-~~~K~Y~at~~L 379 (528)
-++++|||.|+-|+ .|+..+... ....+...|-||-.+||||+++- |..++.+..=. ...|+|.|++.
T Consensus 68 ~ylvlnKP~G~~~s~~d~~~~~tv~d~l~~~-~~~~~~~VgRLD~dTsGLLLlTndg~~~~~L~~p~~~i~K~Y~v~V~- 145 (289)
T PRK10700 68 RVLAYYKPEGELCTRNDPEGRPTVFDRLPKL-RGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVF- 145 (289)
T ss_pred eEEEEECCCCCEeecCCCCCCccHHHHhhhh-cCCceeEccCCCCCCceEEEEEcCHHHHHHHhCccCCCCeEEEEEEc-
Confidence 37899999998655 255555442 22356789999999999999887 33444443322 24899999974
Q ss_pred cccccCCCCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEee
Q 009707 380 GEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIE 459 (528)
Q Consensus 380 G~eTDT~D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~ 459 (528)
| .++.++++. |. .| +.++|.+ ..+..|.+ .
T Consensus 146 ----------G---------~~~~~~l~~-l~--~G-----------v~l~~~~------------~~~~~v~~-----~ 175 (289)
T PRK10700 146 ----------G---------QVDDAKLRQ-LS--RG-----------VQLEDGP------------AAFKTIKF-----S 175 (289)
T ss_pred ----------c---------CCCHHHHHH-HH--cC-----------CEeCCce------------eeeEEEEe-----c
Confidence 2 345666644 21 12 2222211 11222221 1
Q ss_pred eccCCCceEEEEEEecCCcc--HHHHHHHHHHHhcccceecceEEEEEeccCccc-c-------cCHHHHH
Q 009707 460 RSLEDRQNLIFRVTCSKGTY--IRSLCADFGKALGSCAHLTALRRDSIGQYSADD-A-------WEFKELE 520 (528)
Q Consensus 460 ~~l~~~p~~tfeV~CSkGTY--IRSLa~DIG~aLGt~AhLt~LRRTriG~FtLdd-A-------~tLedL~ 520 (528)
. .+.+.-.++|+...|.| ||-++..+| -.+..|.|+++|++++++ - ++-+|+.
T Consensus 176 ~--~~~~~s~l~v~L~EGk~hQIRrm~~~lG------~~V~~L~Ri~iG~l~L~~~L~~G~~R~L~~~E~~ 238 (289)
T PRK10700 176 G--GEGINQWYNVTLTEGRNREVRRLWEAVG------VQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTN 238 (289)
T ss_pred c--CCCCceEEEEEEeCCccHHHHHHHHHcC------CEEeEEEEEEEeeeEcCCCCCCCceEECCHHHHH
Confidence 1 01122347777788875 666665543 457999999999999963 3 5666654
No 40
>PRK11394 23S rRNA pseudouridine synthase E; Provisional
Probab=97.84 E-value=0.00011 Score=72.29 Aligned_cols=69 Identities=23% Similarity=0.214 Sum_probs=49.0
Q ss_pred eEEEeeCCCCCChHHH----HHHHHHHhCCccccccCCCCCCCceEeEEEecc-cccchhhhc-CCCcEEEEEEE
Q 009707 310 TMVLVNKPKGWTSFTV----CGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGK-ATKLVDRYQ-GMIKGYSGVFR 378 (528)
Q Consensus 310 gIL~VdKP~G~TS~dV----V~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGk-ATKLl~~l~-~~~K~Y~at~~ 378 (528)
.++++|||.|+-|+.- ..-|...+...+....|-||-.+||||+++-+. +++.+..-. ...|+|.|.+.
T Consensus 40 ~ylllnKP~G~l~~~~d~~~~~tl~d~l~~~~~~~vgRLD~~TsGllLlt~d~~~~~~L~~~~~~i~K~Y~~~v~ 114 (217)
T PRK11394 40 RVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVE 114 (217)
T ss_pred EEEEEECCCCCEEeeCCccCCcchHHhcccCCeEEecCCCCCCeeEEEEECCHHHHHHHhCcccCCCEEEEEEEC
Confidence 4789999999987621 122333444457889999999999999999855 444443332 35899999865
No 41
>cd02554 PseudoU_synth_RluF PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RluF makes psi2604 in 23S RNA. psi2604 has only been detected in E. coli. It is absent from other eubacteria despite a precursor U at that site and from eukarya and archea which lack a precursor U at that site.
Probab=97.82 E-value=0.00018 Score=67.67 Aligned_cols=139 Identities=22% Similarity=0.310 Sum_probs=81.2
Q ss_pred EEEeeCCCCCChHHHH---HHHHHHhC-CccccccCCCCCCCceEeEEEecc-cccch-hhhcCCCcEEEEEEEEccccc
Q 009707 311 MVLVNKPKGWTSFTVC---GKLRRLVK-VKKVGHAGTLDPMATGLLIVCVGK-ATKLV-DRYQGMIKGYSGVFRLGEATS 384 (528)
Q Consensus 311 IL~VdKP~G~TS~dVV---~klRrlL~-ikKVGHaGTLDP~ATGVLVVgVGk-ATKLl-~~l~~~~K~Y~at~~LG~eTD 384 (528)
.+++|||.|+-|+.-= ..+...+. ..++-..|.||-.+||||+++-.. ..+.+ .-.....|+|.+++.
T Consensus 2 y~~lnKP~G~l~s~~~~~~~tv~~~l~~~~~~~~vgRLD~~tsGlll~t~dg~~~~~L~~p~~~~~K~Y~V~v~------ 75 (164)
T cd02554 2 YIAYNKPVGIDCTLERADEDNIIDFVNPPPRIFPIGRLDKDSEGLILLTNDGDLVNKILHADNNHEKEYLVTVN------ 75 (164)
T ss_pred EEEEECCCCcEeecCCCCCCcHHHHhcCcCCEEEccCCCCCCeeEEEEEcCHHHHHHHhhhhcCCCeEEEEEEC------
Confidence 4689999998544210 11222332 246888999999999999998744 33333 323345999999932
Q ss_pred CCCCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeeeccCC
Q 009707 385 TWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIERSLED 464 (528)
Q Consensus 385 T~D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~~l~~ 464 (528)
..++.+.+..... | +.++|. ...|..|.+ .. .
T Consensus 76 --------------~~l~~~~l~~l~~---G-----------~~~~~~------------~~~~~~v~~-----~~---~ 107 (164)
T cd02554 76 --------------KPITDEFIEGMSN---G-----------VVILGT------------VTKPCKVER-----LA---K 107 (164)
T ss_pred --------------CCCCHHHHHHHhC---C-----------CEECCe------------EEcceEEEE-----CC---C
Confidence 2355665543321 1 111110 012222221 10 1
Q ss_pred CceEEEEEEecCCcc--HHHHHHHHHHHhcccceecceEEEEEeccCccc
Q 009707 465 RQNLIFRVTCSKGTY--IRSLCADFGKALGSCAHLTALRRDSIGQYSADD 512 (528)
Q Consensus 465 ~p~~tfeV~CSkGTY--IRSLa~DIG~aLGt~AhLt~LRRTriG~FtLdd 512 (528)
..++|+...|.+ ||-++..+| -.+..|+|+++|++++++
T Consensus 108 ---~~l~i~l~eGr~~qIRrm~~~~G------~~V~~L~Ri~iG~~~L~~ 148 (164)
T cd02554 108 ---DKFRIVLTQGLNRQIRRMCEALG------YRVTDLKRVRIMNIELGD 148 (164)
T ss_pred ---CEEEEEEECCcCHHHHHHHHHcC------CEEEEEEEEEECcEEcCC
Confidence 136666667764 666666544 567899999999999974
No 42
>cd02555 PSSA_1 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family. This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. The TruA family is comprised of proteins related to Escherichia coli RsuA.
Probab=97.73 E-value=0.00027 Score=66.83 Aligned_cols=66 Identities=23% Similarity=0.290 Sum_probs=45.0
Q ss_pred EEEeeCCCCCChH--------------H--HHHHHHHHhCCccccccCCCCCCCceEeEEEecc-cccch-hhhcCCCcE
Q 009707 311 MVLVNKPKGWTSF--------------T--VCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGK-ATKLV-DRYQGMIKG 372 (528)
Q Consensus 311 IL~VdKP~G~TS~--------------d--VV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGk-ATKLl-~~l~~~~K~ 372 (528)
.+++|||.|+-|+ + +...+...+ .++...|-||-.+||||+++-.. +++.+ .--....|+
T Consensus 6 y~llnKP~G~l~s~~d~~~~~g~~~~~~~~~~~~l~~~~--~~l~~VgRLD~dTsGLLl~t~d~~~~~~L~~~~~~i~K~ 83 (177)
T cd02555 6 TLLLHKPAGMVSEQALALLGPGQRSAADRSGRRPLKGHF--ARLAPIGPLDKDASGLLVFSQDGRVLRKLIGDASRLEQE 83 (177)
T ss_pred EEEEECCCceEecCCCcccccccccccccchhhhhhhcC--CceeEecCCCCCCeeEEEEECCHHHHHHHhChhcCCCEE
Confidence 5789999997551 1 112333222 46889999999999999999844 34433 322345899
Q ss_pred EEEEEE
Q 009707 373 YSGVFR 378 (528)
Q Consensus 373 Y~at~~ 378 (528)
|.|.+.
T Consensus 84 Y~v~v~ 89 (177)
T cd02555 84 YLVEVR 89 (177)
T ss_pred EEEEEc
Confidence 999975
No 43
>PRK10158 23S rRNA/tRNA pseudouridine synthase A; Provisional
Probab=97.45 E-value=0.00024 Score=68.72 Aligned_cols=75 Identities=24% Similarity=0.384 Sum_probs=56.9
Q ss_pred CCCCCCCceEEEeeCCCCCChH---------HHHHHHHHHhCCccccccCCCCCCCceEeEEEeccccc--chhhhcC--
Q 009707 302 PTWDGPFGTMVLVNKPKGWTSF---------TVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATK--LVDRYQG-- 368 (528)
Q Consensus 302 ~~~~~~~GgIL~VdKP~G~TS~---------dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATK--Ll~~l~~-- 368 (528)
=.|+ +..+++||||+|+.++ .+...+++.+ .+++..+-||-..||||++|.++... +...+..
T Consensus 16 iiye--d~~~lvvnKPaGl~~~~~~~~~~~~sl~~~l~~~~--~~~~~vhRLDr~TSGlll~Akt~~~~~~l~~~f~~~~ 91 (219)
T PRK10158 16 ILYQ--DEHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQRDY--PQAESVHRLDMATSGVIVVALTKAAERELKRQFRERE 91 (219)
T ss_pred EEEe--CCCEEEEECCCCCcEeCCCCCccchhHHHHHHHhC--CCCCEECCCCCCCceEEEEECCHHHHHHHHHHHHhCC
Confidence 3454 3448999999999665 2344555443 36889999999999999999998765 7777765
Q ss_pred CCcEEEEEEEEcc
Q 009707 369 MIKGYSGVFRLGE 381 (528)
Q Consensus 369 ~~K~Y~at~~LG~ 381 (528)
..|+|.|.+. |.
T Consensus 92 v~K~Yla~v~-G~ 103 (219)
T PRK10158 92 PKKQYVARVW-GH 103 (219)
T ss_pred ccEEEEEEEe-cc
Confidence 4799999986 54
No 44
>TIGR01621 RluA-like pseudouridine synthase Rlu family protein, TIGR01621. This model represents a clade of sequences within the pseudouridine synthase superfamily (pfam00849). The superfamily includes E. coli proteins: RluA, RluB, RluC, RluD, and RsuA. The sequences modeled here are most closely related to RluA. Neisseria, among those species hitting this model, does not appear to have an RluA homolog. It is presumed that these sequences function as pseudouridine synthases, although perhaps with different specificity.
Probab=97.44 E-value=0.00027 Score=68.31 Aligned_cols=72 Identities=19% Similarity=0.321 Sum_probs=55.6
Q ss_pred ceEEEeeCCCCCChH------HHHHHHHHHhCCccccccCCCCCCCceEeEEEeccc-c-cchhhhcC--CCcEEEEEEE
Q 009707 309 GTMVLVNKPKGWTSF------TVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKA-T-KLVDRYQG--MIKGYSGVFR 378 (528)
Q Consensus 309 GgIL~VdKP~G~TS~------dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkA-T-KLl~~l~~--~~K~Y~at~~ 378 (528)
..+++||||.|+.+| .+...+...++..+++..+-||-..||||+++-+.. . ++...+.+ ..|+|.|.+.
T Consensus 9 ~~~lvvnKP~Gl~v~~~~~~~~l~~~l~~~~~~~~~~~VhRLDr~TSGlll~Ak~~~~~~~L~~~~~~~~v~K~YlAlV~ 88 (217)
T TIGR01621 9 PDFLLINKHPGISVHKDDGETGLLQEVATQLGVGQVWLVHRLDKMTSGILLLALNAESASELSQGFAKRKIEKTYLALSS 88 (217)
T ss_pred CCEEEEECCCCCeECCCCCcChHHHHHHHhcCCCCccEecCCCCCCceEEEEEcCHHHHHHHHHHHhcCCccEEEEEEEe
Confidence 348999999999885 455566555555689999999999999999999775 3 44454554 3799999987
Q ss_pred Ecc
Q 009707 379 LGE 381 (528)
Q Consensus 379 LG~ 381 (528)
|.
T Consensus 89 -g~ 90 (217)
T TIGR01621 89 -KK 90 (217)
T ss_pred -cc
Confidence 43
No 45
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional
Probab=97.39 E-value=0.00065 Score=65.73 Aligned_cols=141 Identities=25% Similarity=0.378 Sum_probs=80.5
Q ss_pred eEEEeeCCCCCChHHH-------HHHHHHHhCCccccccCCCCCCCceEeEEEeccc-c-cchhhhcCCCcEEEEEEEEc
Q 009707 310 TMVLVNKPKGWTSFTV-------CGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKA-T-KLVDRYQGMIKGYSGVFRLG 380 (528)
Q Consensus 310 gIL~VdKP~G~TS~dV-------V~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkA-T-KLl~~l~~~~K~Y~at~~LG 380 (528)
-+++||||+||-+|.- ...+... ...++...|-||-.+||||+++-+.. . ++..--....|+|.|++
T Consensus 61 ~~lvvnKP~G~~~~~~~~~~~tl~~~l~~~-~~~~~~~v~RLD~~TSGlll~ak~~~~~~~l~~~~~~i~K~Y~a~i--- 136 (232)
T PRK10839 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEP-VAYKLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTL--- 136 (232)
T ss_pred EEEEEECCCCeEecccCCCCCeEEEecccc-cccCceecCCCCCCceeEEEEecCHHHHHHHhCCCCCCCeEEEEEE---
Confidence 3899999999966531 1111111 11356788999999999999998773 2 22221113589999941
Q ss_pred ccccCCCCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccccCCceEEEEEEEeee
Q 009707 381 EATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIELSPRRISIFQFDIER 460 (528)
Q Consensus 381 ~eTDT~D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VELkpR~V~IyeleL~~ 460 (528)
++ .|..+.+... .. | + ..+|+.+- ..++.+...
T Consensus 137 --------~~---------~i~~~~~~~~-~~--~-~----------~~~g~~a~----------t~~~~~~~~------ 169 (232)
T PRK10839 137 --------ES---------PVADDTAEQF-AK--G-V----------QLHNEKDL----------TKPAVLEVI------ 169 (232)
T ss_pred --------CC---------CCCHHHHHHH-HC--C-e----------EECCCccc----------ccccEEEEe------
Confidence 22 2334433322 11 1 1 11343220 122222211
Q ss_pred ccCCCceEEEEEEecCCc--cHHHHHHHHHHHhcccceecceEEEEEeccCccc
Q 009707 461 SLEDRQNLIFRVTCSKGT--YIRSLCADFGKALGSCAHLTALRRDSIGQYSADD 512 (528)
Q Consensus 461 ~l~~~p~~tfeV~CSkGT--YIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLdd 512 (528)
+ . -.++|....|. =||-....+| ..+..|.|+++|++++++
T Consensus 170 ---~-~-sll~~~l~tGRtHQIR~h~~~~G------~pi~gl~R~~~g~~~l~~ 212 (232)
T PRK10839 170 ---T-P-TQVRLTISEGRYHQVKRMFAAVG------NHVVELHRERIGAITLDA 212 (232)
T ss_pred ---c-C-CEEEEEEEcCcCHHHHHHHHHcC------CeEeeEEEEEEcCEecCC
Confidence 1 1 24666666775 5777776664 467999999999999973
No 46
>cd02557 PseudoU_synth_ScRIB2 PseudoU_synth_ScRIB2_like: Pseudouridine synthase, Saccharomyces cerevisiae RIB2_like. This group is comprised of eukaryotic and bacterial proteins similar to Saccharomyces cerevisiae RIB2, S. cerevisiae Pus6p and human hRPUDSD2. S. cerevisiae RIB2 displays two distinct catalytic activities. The N-terminal domain of RIB2 is RNA:psi-synthase which makes psi32 on cytoplasmic tRNAs. Psi32 is highly phylogenetically conserved. The C-terminal domain of RIB2 has a DRAP deaminase activity which catalyses the formation of 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione 5'-phosphate from 2,5-diamino-6-ribitylamino-4(3H)-pyrimidinone 5'-phosphate during riboflavin biosynthesis. S. cerevisiae Pus6p makes the psi31 of cytoplasmic and mitochondrial tRNAs.
Probab=97.38 E-value=0.0004 Score=66.82 Aligned_cols=72 Identities=24% Similarity=0.416 Sum_probs=56.5
Q ss_pred ceEEEeeCCCCCChH--------HHHHHHHHHhCCccccccCCCCCCCceEeEEEeccc--ccchhhhcC--CCcEEEEE
Q 009707 309 GTMVLVNKPKGWTSF--------TVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKA--TKLVDRYQG--MIKGYSGV 376 (528)
Q Consensus 309 GgIL~VdKP~G~TS~--------dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkA--TKLl~~l~~--~~K~Y~at 376 (528)
+.+++||||.|+-++ .++..+.+.++..++...+-||-.+||||+++-+.. .++...+.+ ..|+|.|.
T Consensus 23 ~~~ivvnKP~Gl~~~~~~~~~~~sl~~~l~~~~~~~~~~~vhRLD~~TSGllllak~~~~~~~l~~~f~~~~v~K~Y~a~ 102 (213)
T cd02557 23 DDLLVVDKPSGIPVHPTGRYRYNTVTEILKSEYGLTELRPCHRLDRLTSGLLLFAKTSQTASRLQQQIRSREVKKEYLAR 102 (213)
T ss_pred CCEEEEECCCCCcCCCCCCCCcChHHHHHHHHcCCCCccCccCCCCCCceEEEEECCHHHHHHHHHHHHcCCccEEEEEE
Confidence 458999999998763 367777777765678899999999999999999774 455555554 48999999
Q ss_pred EEEcc
Q 009707 377 FRLGE 381 (528)
Q Consensus 377 ~~LG~ 381 (528)
+. |.
T Consensus 103 v~-G~ 106 (213)
T cd02557 103 VK-GE 106 (213)
T ss_pred Ee-Cc
Confidence 87 54
No 47
>cd02558 PSRA_1 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. The RluA family is comprised of proteins related to Escherichia coli RluA.
Probab=97.36 E-value=0.00043 Score=68.13 Aligned_cols=71 Identities=21% Similarity=0.266 Sum_probs=56.6
Q ss_pred CceEEEeeCCCCCChH--------HHHHHHHHHhCCccccccCCCCCCCceEeEEEeccccc--chhhhcC--CCcEEEE
Q 009707 308 FGTMVLVNKPKGWTSF--------TVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATK--LVDRYQG--MIKGYSG 375 (528)
Q Consensus 308 ~GgIL~VdKP~G~TS~--------dVV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkATK--Ll~~l~~--~~K~Y~a 375 (528)
.+-+++||||+|+.+| .++..++..++...++..+-||-.+||||++|-+.... +...+.. ..|+|.|
T Consensus 45 d~~~lvvnKPaGl~~~~~~~~~~~t~~~~l~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~~~~~~v~K~YlA 124 (246)
T cd02558 45 DEHLLVADKPHFLPVTPRGRYVTETLLVRLRRQTGNPDLTPAHRLDRLTAGLVLFSKRPETRGAYQTLFARREVSKTYEA 124 (246)
T ss_pred cCCEEEEECCCCCccCCCCcchhhhHHHHHHHHhCCCcccccccCCCCceeEEEEEcCHHHHHHHHHHHHcCCccEEEEE
Confidence 3458999999999996 36777777777667888999999999999999988543 4454544 4899999
Q ss_pred EEE
Q 009707 376 VFR 378 (528)
Q Consensus 376 t~~ 378 (528)
.+.
T Consensus 125 ~v~ 127 (246)
T cd02558 125 VAP 127 (246)
T ss_pred EEe
Confidence 986
No 48
>COG1187 RsuA 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]
Probab=97.29 E-value=0.0018 Score=65.19 Aligned_cols=150 Identities=27% Similarity=0.443 Sum_probs=92.1
Q ss_pred EEEeeCCCCCChHH--------HHHHHHHH-hCCccccccCCCCCCCceEeEEEecccccchhhhc----CCCcEEEEEE
Q 009707 311 MVLVNKPKGWTSFT--------VCGKLRRL-VKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQ----GMIKGYSGVF 377 (528)
Q Consensus 311 IL~VdKP~G~TS~d--------VV~klRrl-L~ikKVGHaGTLDP~ATGVLVVgVGkATKLl~~l~----~~~K~Y~at~ 377 (528)
++++|||.|+-|.. |...+... -...++=+.|-||-.++|+|++- +++ .+...++ ...|+|.+++
T Consensus 65 y~llnKP~G~v~s~~D~~gr~tv~D~lp~~~~~~~~~~pvGRLD~dTeGLLLLT-nDG-~la~rL~~P~~~~~K~Y~v~v 142 (248)
T COG1187 65 YLLLNKPRGYVSSTEDDEGRPTVFDLLPERLPRKKRLFPVGRLDKDTEGLLLLT-NDG-ELAHRLMHPSSEVEKEYLVRV 142 (248)
T ss_pred EEEEECCCCeEecccCCCCCceeeeecccccccccceeeccccCCCCeeEEEEe-CCH-HHHHHhcCCCCCCCEEEEEEE
Confidence 78999999975543 22233221 12235889999999999988764 443 2333343 4599999997
Q ss_pred EEcccccCCCCCCCeEeeccCCCCCHHHHHHHHHhCccceeecCCcccccccCChhhHHHHhcCcccc---cCCceEEEE
Q 009707 378 RLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGGEKMYDKARRGESIE---LSPRRISIF 454 (528)
Q Consensus 378 ~LG~eTDT~D~eGkVie~~p~~hIT~e~LekaL~kF~G~i~QvPP~YSAVKVnGKRAYELARkGe~VE---LkpR~V~Iy 454 (528)
. ..+++++++.. ++|+.++ ..|.. +-
T Consensus 143 ~--------------------g~~~~~~l~~l-----------------------------~~Gv~l~d~~~~~~~--~~ 171 (248)
T COG1187 143 E--------------------GPVTEEDLEKL-----------------------------RKGVTLDDGETKPAK--PA 171 (248)
T ss_pred e--------------------cCCCHHHHHHH-----------------------------hCCcEecCcccccce--eE
Confidence 5 13556655533 3333332 12222 11
Q ss_pred EEEeeeccCCCceEEEEEEecCCcc--HHHHHHHHHHHhcccceecceEEEEEeccCccc-c--------cCHHHHHHH
Q 009707 455 QFDIERSLEDRQNLIFRVTCSKGTY--IRSLCADFGKALGSCAHLTALRRDSIGQYSADD-A--------WEFKELEEA 522 (528)
Q Consensus 455 eleL~~~l~~~p~~tfeV~CSkGTY--IRSLa~DIG~aLGt~AhLt~LRRTriG~FtLdd-A--------~tLedL~~~ 522 (528)
.+.... ..++..++|+..-|-| ||-++.-+| -.+..|+|+++|++++++ . ++.+++...
T Consensus 172 ~l~~~~---~~~~s~~~itl~EGrnrQVRRm~~a~G------~~V~~L~R~~iG~l~L~~L~l~~G~~R~L~~~E~~~l 241 (248)
T COG1187 172 SLEKEP---GKNNSWLRITLTEGRNRQVRRMFEAVG------LEVLRLKRIRIGPLSLGDLPLPPGEWRELTLEEIAQL 241 (248)
T ss_pred EEEecC---CCCceEEEEEEeCCcCHHHHHHHHHcC------CEEeEEEEEEEeeeEcCCCCCCCceeEECCHHHHHHH
Confidence 222111 1145678888888886 666655543 457999999999999986 2 566666654
No 49
>cd02563 PseudoU_synth_TruC tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not universally conserved.
Probab=97.16 E-value=0.00081 Score=64.90 Aligned_cols=72 Identities=26% Similarity=0.407 Sum_probs=52.2
Q ss_pred ceEEEeeCCCCCChHH----------HHHHHHHHhCCccccccCCCCCCCceEeEEEeccc-c-cchhhhcC--CCcEEE
Q 009707 309 GTMVLVNKPKGWTSFT----------VCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKA-T-KLVDRYQG--MIKGYS 374 (528)
Q Consensus 309 GgIL~VdKP~G~TS~d----------VV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkA-T-KLl~~l~~--~~K~Y~ 374 (528)
+.+++||||+|+.++. ++..++..++ .+++..+-||..+||||+++-+.. . ++...+.+ ..|+|.
T Consensus 8 ~~~lvvnKP~G~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~ 86 (223)
T cd02563 8 EHLVAINKPSGLLVHRSELDRHETRFALQTLRDQLG-QHVYPVHRLDRPTSGVLLFALSSEVARKLGEQFTEHRVHKTYL 86 (223)
T ss_pred CCEEEEECCCCCeEcCCCCCCCCcHHHHHHHHHHcC-CCcccccCCCCCCeEEEEEEECHHHHHHHHHHHhcCceeEEEE
Confidence 3489999999997752 2334544444 368899999999999999998775 3 34444444 379999
Q ss_pred EEEEEccc
Q 009707 375 GVFRLGEA 382 (528)
Q Consensus 375 at~~LG~e 382 (528)
|.+. |.-
T Consensus 87 alv~-G~~ 93 (223)
T cd02563 87 AVVR-GYV 93 (223)
T ss_pred EEEE-Ccc
Confidence 9985 653
No 50
>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=97.14 E-value=0.00015 Score=74.94 Aligned_cols=38 Identities=34% Similarity=0.299 Sum_probs=36.7
Q ss_pred ecCCccHHHHHHHHHHHhcccceecceEEEEEeccCcc
Q 009707 474 CSKGTYIRSLCADFGKALGSCAHLTALRRDSIGQYSAD 511 (528)
Q Consensus 474 CSkGTYIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLd 511 (528)
+|+|||||||+.|||+++++.|+|..|.|+++|.|.++
T Consensus 254 ~s~g~~~~sl~~~~~~~~~~s~~~v~l~r~~q~~~~~~ 291 (312)
T cd02867 254 KSLGPEARSLESDAGRGSFSPAAMVRLARVGQGTYIRQ 291 (312)
T ss_pred cccCcccccccchhhhhccCCcceEeEEeecccceeec
Confidence 89999999999999999999999999999999999973
No 51
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]
Probab=96.99 E-value=0.0017 Score=66.02 Aligned_cols=79 Identities=28% Similarity=0.457 Sum_probs=62.5
Q ss_pred CCCCCCCceEEEeeCCCCCCh--------HHHHHHHHHHhC--CccccccCCCCCCCceEeEEEecc--cccchhhhcCC
Q 009707 302 PTWDGPFGTMVLVNKPKGWTS--------FTVCGKLRRLVK--VKKVGHAGTLDPMATGLLIVCVGK--ATKLVDRYQGM 369 (528)
Q Consensus 302 ~~~~~~~GgIL~VdKP~G~TS--------~dVV~klRrlL~--ikKVGHaGTLDP~ATGVLVVgVGk--ATKLl~~l~~~ 369 (528)
=.|++. -+++||||+||.+ ..+++.+...++ ..++|-.-.||-..||||++|-+. +..|...+...
T Consensus 80 IlyED~--~llVvnKP~Gl~vhp~~~~~~~tl~~~l~~~~~~~~~~~~~vHRLDkdTSGlll~AK~~~a~~~l~~~f~~r 157 (289)
T COG0564 80 ILYEDE--DLLVVNKPAGLVVHPGGGHHEGTLVNALLRHCQDGVERPGIVHRLDKDTSGLLLVAKNREAARELSEQFKQR 157 (289)
T ss_pred EEEecC--CEEEEECCCCCcCcCCCCCccHhHHHHHHHhccccCCceeeeccCCCCCceEEEEECCHHHHHHHHHHHhcC
Confidence 345544 3899999999998 577888777664 457888889999999999999999 56677777654
Q ss_pred --CcEEEEEEEEcccc
Q 009707 370 --IKGYSGVFRLGEAT 383 (528)
Q Consensus 370 --~K~Y~at~~LG~eT 383 (528)
.|+|.|.+. |.-.
T Consensus 158 ~v~K~Y~Alv~-G~~~ 172 (289)
T COG0564 158 KVKKTYLALVR-GHLP 172 (289)
T ss_pred cCcEEEEEEEE-Cccc
Confidence 799999998 7643
No 52
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family. modifies uracil-65 in transfer RNAs to pseudouridine.
Probab=96.97 E-value=0.0013 Score=65.54 Aligned_cols=71 Identities=25% Similarity=0.436 Sum_probs=53.5
Q ss_pred eEEEeeCCCCCChH--------HHHHHHHHHhCC----ccccccCCCCCCCceEeEEEeccc-cc-chhhhcC--CCcEE
Q 009707 310 TMVLVNKPKGWTSF--------TVCGKLRRLVKV----KKVGHAGTLDPMATGLLIVCVGKA-TK-LVDRYQG--MIKGY 373 (528)
Q Consensus 310 gIL~VdKP~G~TS~--------dVV~klRrlL~i----kKVGHaGTLDP~ATGVLVVgVGkA-TK-Ll~~l~~--~~K~Y 373 (528)
.+++||||+|+-+| .+++.+...++. .++...|.||-..||||+++-+.. .+ +...+.+ ..|+|
T Consensus 80 ~~lvvnKP~g~~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~~~v~K~Y 159 (299)
T TIGR00005 80 DIIVINKPSGLVVHPGGGNPFGTVLNALLAHCPPIAGVERVGIVHRLDRDTSGLMVVAKTPLALRELQRQLKNRTVTKEY 159 (299)
T ss_pred CEEEEECCCCCeEeCCCCCCcccHHHHHHHhcccccCCCcCceECCCCCCCceEEEEEcCHHHHHHHHHHHHhCCcceEE
Confidence 48999999999765 366777766543 568899999999999999998764 33 3344443 48999
Q ss_pred EEEEEEcc
Q 009707 374 SGVFRLGE 381 (528)
Q Consensus 374 ~at~~LG~ 381 (528)
.|.+. |.
T Consensus 160 ~a~v~-g~ 166 (299)
T TIGR00005 160 VALVH-GQ 166 (299)
T ss_pred EEEEe-cc
Confidence 99986 54
No 53
>PF00849 PseudoU_synth_2: RNA pseudouridylate synthase This Prosite family is a subset of the Pfam family. This Prosite family is a subset of the Pfam family.; InterPro: IPR006145 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. This entry represents several different pseudouridine synthases from family 3, including: RsuA (acts on small ribosomal subunit), RluA, RluB, RluC, RluD, RluE and RluF (act on large ribosomal subunit). RsuA from Escherichia coli catalyses formation of pseudouridine at position 516 in 16S rRNA during assembly of the 30S ribosomal subunit [, ]. RsuA consists of an N-terminal domain connected by an extended linker to the central and C-terminal domains. Uracil and UMP bind in a cleft between the central and C-terminal domains near the catalytic residue Asp 102. The N-terminal domain shows structural similarity to the ribosomal protein S4. Despite only 15% amino acid identity, the other two domains are structurally similar to those of the tRNA-specific psi-synthase TruA, including the position of the catalytic Asp. Our results suggest that all four families of pseudouridine synthases share the same fold of their catalytic domain(s) and uracil-binding site. RluB, RluC, RluD, RluE and RluF are homologous enzymes which each convert specific uridine bases in E. coli ribosomal 23S RNA to pseudouridine: RluB modifies uracil-2605. RluC modifies uracil-955, U-2504, and U-2580. RluD modifies uracil-1911, U-1915, and U-1917. RluE modifies uracil-3457. RluF modifies uracil-2604, and to a lesser extent U-2605. RluD also possesses a second function related to proper assembly of the 50S ribosomal subunit that is independent of Psi-synthesis [, ]. Both RluC and RluD have an N-terminal S4 RNA binding domain. Despite the conserved topology shared by RluC and RluD, the surface shape and charge distribution are very different. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 2GML_A 3DH3_B 1VIO_A 2I82_B 1XPI_B 1V9K_B 1PRZ_A 1V9F_A 2IST_A 1QYU_A ....
Probab=96.91 E-value=0.00033 Score=62.76 Aligned_cols=78 Identities=23% Similarity=0.289 Sum_probs=50.8
Q ss_pred EEEeeCCCCCChHHHH-----------HH-HHHHhCCccccccCCCCCCCceEeEEEeccc--ccchhhhc--CCCcEEE
Q 009707 311 MVLVNKPKGWTSFTVC-----------GK-LRRLVKVKKVGHAGTLDPMATGLLIVCVGKA--TKLVDRYQ--GMIKGYS 374 (528)
Q Consensus 311 IL~VdKP~G~TS~dVV-----------~k-lRrlL~ikKVGHaGTLDP~ATGVLVVgVGkA--TKLl~~l~--~~~K~Y~ 374 (528)
+|+||||.||-++..- .. ........+++-.+-||...||||+++.... -++...+. ...|+|.
T Consensus 2 ~ivvnKP~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~RLD~~TsGlll~a~~~~~~~~l~~~f~~~~~~K~Y~ 81 (164)
T PF00849_consen 2 LIVVNKPAGVPVHPSDGNESKSVKELPALSLKRGDDPPELYPVHRLDRDTSGLLLFAKDKEAAAKLSKQFPKRKVEKTYL 81 (164)
T ss_dssp EEEEEE-TTSBSSSSSTBSSSSHHCHHHHHHHHCTTSGGGEESS---TT-EEEEEEESSHHHHHHHHHHHHTTCSEEEEE
T ss_pred EEEEECCCCCeEecCCCCCcccccchhhhhhhhccCCCceEECCCCCccccCCeeccCCcccccccccccccCCCcEEEE
Confidence 6899999998765433 11 1222356799999999999999999998764 35555554 3589999
Q ss_pred EEEEEcccccCCCC
Q 009707 375 GVFRLGEATSTWDA 388 (528)
Q Consensus 375 at~~LG~eTDT~D~ 388 (528)
|.+.-|...+....
T Consensus 82 a~v~~~~~~~~~~~ 95 (164)
T PF00849_consen 82 ALVEGGPVEEEGKI 95 (164)
T ss_dssp EEECSSSSTTCEEE
T ss_pred EeEcccccccceee
Confidence 99985555544333
No 54
>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional
Probab=96.83 E-value=0.0018 Score=65.96 Aligned_cols=71 Identities=30% Similarity=0.457 Sum_probs=54.2
Q ss_pred eEEEeeCCCCCChH--------HHHHHHHHHhC----CccccccCCCCCCCceEeEEEeccc--ccchhhhcC--CCcEE
Q 009707 310 TMVLVNKPKGWTSF--------TVCGKLRRLVK----VKKVGHAGTLDPMATGLLIVCVGKA--TKLVDRYQG--MIKGY 373 (528)
Q Consensus 310 gIL~VdKP~G~TS~--------dVV~klRrlL~----ikKVGHaGTLDP~ATGVLVVgVGkA--TKLl~~l~~--~~K~Y 373 (528)
.+|+||||+|+.+| .+++.+...+. ..+++..+-||-..||||+++-+.. ..+...+.. ..|+|
T Consensus 92 ~~lvvnKP~gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~~~~~~v~K~Y 171 (325)
T PRK11180 92 DILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQKREITREY 171 (325)
T ss_pred CEEEEECCCCCeEeCCCCCCCCcHHHHHHHHhhhccCCcccceeccCCCCCceeEEEECCHHHHHHHHHHHHhCCcceEE
Confidence 48999999999887 25666665542 2467889999999999999998753 456666654 48999
Q ss_pred EEEEEEcc
Q 009707 374 SGVFRLGE 381 (528)
Q Consensus 374 ~at~~LG~ 381 (528)
.|.+. |.
T Consensus 172 ~A~v~-G~ 178 (325)
T PRK11180 172 EAVAI-GH 178 (325)
T ss_pred EEEEe-cC
Confidence 99875 44
No 55
>PRK11112 tRNA pseudouridine synthase C; Provisional
Probab=96.82 E-value=0.0026 Score=63.12 Aligned_cols=71 Identities=28% Similarity=0.487 Sum_probs=51.6
Q ss_pred ceEEEeeCCCCCChHH----------HHHHHHHHhCCccccccCCCCCCCceEeEEEeccc--ccchhhhcC--CCcEEE
Q 009707 309 GTMVLVNKPKGWTSFT----------VCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKA--TKLVDRYQG--MIKGYS 374 (528)
Q Consensus 309 GgIL~VdKP~G~TS~d----------VV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkA--TKLl~~l~~--~~K~Y~ 374 (528)
+.+|+||||+|+.+|. +...++..++ .++...+-||-..||||++|-+.. .+|...+.. ..|+|.
T Consensus 9 ~~~lvvnKPaGl~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~VHRLDr~TSGlll~Ak~~~~~~~L~~~f~~~~v~K~Y~ 87 (257)
T PRK11112 9 EWLVAVNKPAGWLVHRSWLDRHETVFVMQTVRDQIG-QHVFTAHRLDRPTSGVLLMALSSEVARLLAQQFEQHQIQKTYH 87 (257)
T ss_pred CCEEEEECCCCCeecCCCCCCCchHHHHHHHHHHhC-CCceeeccCCCCCeeEEEEECCHHHHHHHHHHHHhCCcceEEE
Confidence 3489999999997763 2234444443 257789999999999999999875 345555554 489999
Q ss_pred EEEEEcc
Q 009707 375 GVFRLGE 381 (528)
Q Consensus 375 at~~LG~ 381 (528)
|.+. |.
T Consensus 88 Alv~-G~ 93 (257)
T PRK11112 88 AIVR-GW 93 (257)
T ss_pred EEEE-eE
Confidence 9876 53
No 56
>PF08068 DKCLD: DKCLD (NUC011) domain; InterPro: IPR012960 This is an N-terminal domain of dyskerin-like proteins, which is often associated with the TruB N-terminal(IPR002501 from INTERPRO) and PUA(IPR002478 from INTERPRO) domains [].; PDB: 3ZV0_D 3UAI_A 3U28_A 2AUS_C 2RFK_A 3LWV_A 3HJY_A 3HAX_A 3LWO_A 3HAY_A ....
Probab=96.82 E-value=0.00067 Score=55.30 Aligned_cols=20 Identities=30% Similarity=0.253 Sum_probs=15.7
Q ss_pred CCceEEEeeCCCCCChHHHH
Q 009707 307 PFGTMVLVNKPKGWTSFTVC 326 (528)
Q Consensus 307 ~~GgIL~VdKP~G~TS~dVV 326 (528)
+.-|||++|||+|+|||+||
T Consensus 40 i~~GvinlDKP~gPtSHeVv 59 (59)
T PF08068_consen 40 IKYGVINLDKPSGPTSHEVV 59 (59)
T ss_dssp HHTEEEEEEE-SSS-HHHHH
T ss_pred HhCCcEEeeCCCCCCccccC
Confidence 34579999999999999997
No 57
>cd02550 PseudoU_synth_Rsu_Rlu_like PseudoU_synth_Rsu_Rlu: Pseudouridine synthase, Rsu/Rlu family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and TruA. Pseudouridine synthases catalyze the isomerization of specific uridines in a n RNA molecule to pseudouridines (5-ribosyluracil, psi) requiring no cofactors. E. coli RluC for example makes psi955, 2504 and 2580 in 23S RNA. Some psi sites such as psi1917 in 23S RNA made by RluD are universally conserved. Other psi sites occur in a more restricted fashion, for example psi2819 in 21S mitochondrial ribosomal RNA made by S. cerevisiae Pus5p is only found in mitochondrial large subunit rRNAs from some other species and in gram negative bacteria. The E. coli counterpart of this psi residue is psi2580 in 23S rRNA. psi2604in 23S RNA made by RluF has only been detected in E.coli.
Probab=96.78 E-value=0.0017 Score=59.06 Aligned_cols=69 Identities=30% Similarity=0.485 Sum_probs=48.6
Q ss_pred EEEeeCCCCCChHH--------HHHHHHHHhCCccccccCCCCCCCceEeEEEeccc-c-cchhhhcCCCcEEEEEEEEc
Q 009707 311 MVLVNKPKGWTSFT--------VCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKA-T-KLVDRYQGMIKGYSGVFRLG 380 (528)
Q Consensus 311 IL~VdKP~G~TS~d--------VV~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkA-T-KLl~~l~~~~K~Y~at~~LG 380 (528)
+++||||+|+-++. ++..+... ...++...|-||-.+||||+++-+.. . ++...-....|+|.|.+. |
T Consensus 1 ~ivvnKP~G~~~~~~~~~~~~~~~~~l~~~-~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~v~K~Y~a~v~-g 78 (154)
T cd02550 1 ILVLNKPSGLVCHPTDRDRDPTVVVRLDKL-HGPRVHAAGRLDKDTSGLLLLTNDGRLQRRLTEPRREIEKEYLVTVR-G 78 (154)
T ss_pred CEEEECCCCCEEecCCCCCCCcHHHhhhcc-cCCceeEeccCCCCCeeEEEEEcCHHHHHHHhhhhccCcEEEEEEEE-e
Confidence 47899999987662 33333222 23568889999999999999999775 3 444432335899999986 5
Q ss_pred c
Q 009707 381 E 381 (528)
Q Consensus 381 ~ 381 (528)
.
T Consensus 79 ~ 79 (154)
T cd02550 79 E 79 (154)
T ss_pred e
Confidence 4
No 58
>cd02870 PseudoU_synth_RsuA_like Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this family are bacterial proteins.
Probab=96.73 E-value=0.0047 Score=55.86 Aligned_cols=65 Identities=26% Similarity=0.305 Sum_probs=43.2
Q ss_pred EEeeCCCCCChHHH--------HHHHHHHhCCccccccCCCCCCCceEeEEEeccc-ccchhhh-cCCCcEEEEEEE
Q 009707 312 VLVNKPKGWTSFTV--------CGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKA-TKLVDRY-QGMIKGYSGVFR 378 (528)
Q Consensus 312 L~VdKP~G~TS~dV--------V~klRrlL~ikKVGHaGTLDP~ATGVLVVgVGkA-TKLl~~l-~~~~K~Y~at~~ 378 (528)
++||||+|+-++.- .+.+.. ...+++..|-||-.+||||+++-... .+.+..- ....|+|.|.+.
T Consensus 2 ivvnKP~G~~~~~~~~~~~~~l~~~l~~--~~~~~~~vhRLD~~TsGlll~ak~~~~~~~l~~~~~~i~K~Y~a~v~ 76 (146)
T cd02870 2 LLLNKPRGVVSTVRDPEGRPTVLDLLKD--VGERLFPVGRLDYDTEGLLLLTNDGELANRLTHPRYGVEKTYLVKVR 76 (146)
T ss_pred EEEECCCCcEecccCCCCCCEEeeeccc--cCCCEEECCCCCCCCeeEEEEeCCHHHHHHhhCccCCCCeEEEEEEC
Confidence 68999999966521 112211 12468899999999999999997653 2222211 124899999975
No 59
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional
Probab=96.66 E-value=0.0036 Score=63.80 Aligned_cols=69 Identities=26% Similarity=0.406 Sum_probs=51.4
Q ss_pred eEEEeeCCCCCChH-------HHHHHHHHHhC-CccccccCCCCCCCceEeEEEecccc--cchhhhcC--CCcEEEEEE
Q 009707 310 TMVLVNKPKGWTSF-------TVCGKLRRLVK-VKKVGHAGTLDPMATGLLIVCVGKAT--KLVDRYQG--MIKGYSGVF 377 (528)
Q Consensus 310 gIL~VdKP~G~TS~-------dVV~klRrlL~-ikKVGHaGTLDP~ATGVLVVgVGkAT--KLl~~l~~--~~K~Y~at~ 377 (528)
.+++||||.|+.+| .+++.+..... ...++..+-||-..||||++|-+..+ .+...+.. ..|+|.|.+
T Consensus 101 ~~lvvnKP~gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~a~~~l~~~~~~~~v~K~Y~a~v 180 (317)
T PRK11025 101 HILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARFLELVHRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALV 180 (317)
T ss_pred CEEEEECCCCCcCcCCCCCCccHHHHHHHhccCCCcCceeCCCCCCCceEEEEEcCHHHHHHHHHHHHhCCccEEEEEEE
Confidence 48999999999875 34555554322 23467899999999999999998853 45455554 489999987
Q ss_pred E
Q 009707 378 R 378 (528)
Q Consensus 378 ~ 378 (528)
.
T Consensus 181 ~ 181 (317)
T PRK11025 181 R 181 (317)
T ss_pred e
Confidence 6
No 60
>cd02869 PseudoU_synth_RluCD_like PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and TruA. Pseudouridine synthases catalyze the isomerization of specific uridines in a n RNA molecule to pseudouridines (5-ribosyluracil, psi) requiring no cofactors. E. coli RluC for example makes psi955, 2504 and 2580 in 23S RNA. Some psi sites such as psi1917 in 23S RNA made by RluD are universally conserved. Other psi sites occur in a more restricted fashion, for example psi2819 in 21S mitochondrial ribosomal RNA made by S. cerevisiae Pus5p is only found in mitochondrial large subunit rRNAs from some other species and in gram negative bacteria. The E. coli counterpart of this psi residue is psi2580 in 23S rRNA. psi2604in 23S RNA made by RluF has only been detected in E.coli.
Probab=96.53 E-value=0.0038 Score=56.86 Aligned_cols=70 Identities=30% Similarity=0.457 Sum_probs=49.2
Q ss_pred EEEeeCCCCCChHH--------HHHHH----HHHhCCccccccCCCCCCCceEeEEEecc-c-ccchhhhcC--CCcEEE
Q 009707 311 MVLVNKPKGWTSFT--------VCGKL----RRLVKVKKVGHAGTLDPMATGLLIVCVGK-A-TKLVDRYQG--MIKGYS 374 (528)
Q Consensus 311 IL~VdKP~G~TS~d--------VV~kl----RrlL~ikKVGHaGTLDP~ATGVLVVgVGk-A-TKLl~~l~~--~~K~Y~ 374 (528)
+++||||.|+-++. +...+ ........+...+.||-.+||||+++-+. + .++...+.. ..|+|.
T Consensus 1 ~lvvnKP~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~RLD~~tsGlll~ak~~~~~~~l~~~~~~~~~~K~Y~ 80 (185)
T cd02869 1 LLVVNKPAGLPVHPGPGHLTGTLVNALLKLLLLLGEEFRPGLVHRLDKDTSGLLLVAKNKKAAAKLSKQFKERKVKKTYL 80 (185)
T ss_pred CEEEECCCCCeeecCCCCCCCCHHHHHHHHHhhcCCCCcCceecccCCCCceEEEEEcCHHHHHHHHHHHhcCceeEEEE
Confidence 47899999986653 23332 21223457889999999999999999965 3 455555433 489999
Q ss_pred EEEEEcc
Q 009707 375 GVFRLGE 381 (528)
Q Consensus 375 at~~LG~ 381 (528)
|.+. |.
T Consensus 81 a~v~-g~ 86 (185)
T cd02869 81 ALVD-GK 86 (185)
T ss_pred EEEe-CC
Confidence 9986 44
No 61
>COG1258 Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=96.05 E-value=0.033 Score=59.47 Aligned_cols=105 Identities=20% Similarity=0.286 Sum_probs=79.8
Q ss_pred CCCcEEEEEEEEcccccCCCCCCCeEeeccCCCCCHHHHHHHHHhCcc-ceeecCCcccccccCChhhHHHHhcCccccc
Q 009707 368 GMIKGYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRG-EIWQVPPMFSAIKVGGEKMYDKARRGESIEL 446 (528)
Q Consensus 368 ~~~K~Y~at~~LG~eTDT~D~eGkVie~~p~~hIT~e~LekaL~kF~G-~i~QvPP~YSAVKVnGKRAYELARkGe~VEL 446 (528)
...|.|.|.+.+.. .|+.++++.++.++.| .|.|.-|.= +. +..|.
T Consensus 279 ~~rK~YrAlV~~~~------------------~v~~e~l~~~~~~L~g~~I~QrTP~R----V~----hrRad------- 325 (398)
T COG1258 279 RHRKVYRALVYSDR------------------PVSDEKLEEVLGSLEGKTIRQRTPRR----VL----HRRAD------- 325 (398)
T ss_pred ccceeEEEEEEECC------------------CcCHHHHHHHHhhccCcEEeecChHH----Hh----hhhcc-------
Confidence 46899999988654 5889999999999999 889988861 11 11111
Q ss_pred CCceEEEEEEEeeeccCCCceEEEEEEecCCccHHHHHH--------HHHHHhcccceecceEEEEEec
Q 009707 447 SPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCA--------DFGKALGSCAHLTALRRDSIGQ 507 (528)
Q Consensus 447 kpR~V~IyeleL~~~l~~~p~~tfeV~CSkGTYIRSLa~--------DIG~aLGt~AhLt~LRRTriG~ 507 (528)
..|.-.||++++... +...+.+.|.|..|+||-.|++ -++..||+.|.|.+|-=+++..
T Consensus 326 lvR~R~V~~l~~~~~--~~~~~~~~i~~egGlYIKElIsGD~GRT~PSlse~lg~~a~~~eLDVl~V~~ 392 (398)
T COG1258 326 LVRIRRVYELSLDLI--DDRHAELEIEAEGGLYIKELISGDGGRTRPSLSEILGVEAVVEELDVLKVED 392 (398)
T ss_pred cceEEEEEEeeeeec--cCceEEEEEEecccceeeeeecCCCCCcCcchHHHhCCcceEEEeeeEEecc
Confidence 122235777776544 4568999999999999999998 4889999999999997776654
No 62
>TIGR00093 pseudouridine synthase. This model identifies panels of pseudouridine synthase enzymes that RNA modifications involved in maturing the protein translation apparatus. Counts per genome vary: two in Staphylococcus aureus, three in Pseudomonas putida, four in E. coli, etc.
Probab=95.20 E-value=0.19 Score=44.89 Aligned_cols=38 Identities=32% Similarity=0.447 Sum_probs=30.1
Q ss_pred EEEEEecCCc--cHHHHHHHHHHHhcccceecceEEEEEeccCccc
Q 009707 469 IFRVTCSKGT--YIRSLCADFGKALGSCAHLTALRRDSIGQYSADD 512 (528)
Q Consensus 469 tfeV~CSkGT--YIRSLa~DIG~aLGt~AhLt~LRRTriG~FtLdd 512 (528)
.++|+...|. -||..+..+|. -+..|.|+++|+|++++
T Consensus 78 ~l~~~l~tGR~HQIR~~~~~lG~------pI~g~~R~~~g~~~l~~ 117 (128)
T TIGR00093 78 WLRITLSEGRNRQVRRMFAAVGF------PVLRLHRVRIGDVSLNG 117 (128)
T ss_pred EEEEEEeCCCCHHHHHHHHHcCC------eEeEEEEEEECCEEcCC
Confidence 4677777776 68888877754 45899999999999974
No 63
>KOG1919 consensus RNA pseudouridylate synthases [RNA processing and modification]
Probab=94.74 E-value=0.053 Score=57.64 Aligned_cols=77 Identities=25% Similarity=0.248 Sum_probs=53.5
Q ss_pred CCCceEEEeeCCCCCChHHH--------HHHHHHHhCCccccccCCCCCCCceEeEEEec--ccccchhhhc--CCCcEE
Q 009707 306 GPFGTMVLVNKPKGWTSFTV--------CGKLRRLVKVKKVGHAGTLDPMATGLLIVCVG--KATKLVDRYQ--GMIKGY 373 (528)
Q Consensus 306 ~~~GgIL~VdKP~G~TS~dV--------V~klRrlL~ikKVGHaGTLDP~ATGVLVVgVG--kATKLl~~l~--~~~K~Y 373 (528)
..+..+++||||.|+.+|-+ ...+..........=+=-||...||||++|-+ .+..+.+.+. ...|.|
T Consensus 110 ~ed~~~vVvnKP~gipVhp~g~~~~n~i~~~l~~~~~~~~~~~~hRLDr~tSGllvlAkt~~~~~~~~~~~r~~~~~k~Y 189 (371)
T KOG1919|consen 110 FEDKDYVVVNKPHGIPVHPTGRYRENTITKILAALHKVEGLRPCHRLDRLTSGLLVLAKTKEAADKFHEVLRKRTVKKEY 189 (371)
T ss_pred EecCCEEEEeCCCCCceeccCccccccchHHHHHhccccccccccccCccccceEEEEechhHhHHHHHHHhcccceeEE
Confidence 34556999999999999921 11222222222334444899999999999999 5688888888 568999
Q ss_pred -EEEEEEccc
Q 009707 374 -SGVFRLGEA 382 (528)
Q Consensus 374 -~at~~LG~e 382 (528)
.+.+....-
T Consensus 190 ~v~~v~g~fp 199 (371)
T KOG1919|consen 190 VVARVEGPFP 199 (371)
T ss_pred EEEEEeccCC
Confidence 566554443
No 64
>cd02575 PseudoU_synth_EcTruD PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruD makes the highly phylogenetically conserved psi13 in tRNAs.
Probab=51.79 E-value=62 Score=33.24 Aligned_cols=47 Identities=26% Similarity=0.305 Sum_probs=41.0
Q ss_pred EEEeeCCCCCChHHHHHHHHHHhCC--ccccccCCCCCCCceEeEEEecc
Q 009707 311 MVLVNKPKGWTSFTVCGKLRRLVKV--KKVGHAGTLDPMATGLLIVCVGK 358 (528)
Q Consensus 311 IL~VdKP~G~TS~dVV~klRrlL~i--kKVGHaGTLDP~ATGVLVVgVGk 358 (528)
++.|.| .||+.++++..|.+.+++ +.||.+|+=|-.|-=..-|+|-.
T Consensus 28 ~~~l~K-~~~~T~~ai~~LAr~lgi~~~~igyAGlKDk~AvT~Q~~sv~~ 76 (253)
T cd02575 28 LLHIRK-TGLNTREVAKELAKALGVKERDVGYAGLKDRHAVTTQWFSVHL 76 (253)
T ss_pred EEEEEE-CCCCHHHHHHHHHHHhCCChhheeecccccCceeeEEEEEEEc
Confidence 555666 899999999999999986 58999999999999999998843
No 65
>cd02577 PSTD1 PSTD1: Pseudouridine synthase, a subgroup of the TruD family. This group consists of several hypothetical archeal pseudouridine synthases assigned to the TruD family of psuedouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). The TruD family is comprised of proteins related to Escherichia coli TruD.
Probab=50.32 E-value=36 Score=35.76 Aligned_cols=68 Identities=24% Similarity=0.416 Sum_probs=50.9
Q ss_pred ccccccCCCCCCCCCCCCCceEEEeeCCCCCChHHHHHHHHHHhCC--ccccccCCCCCCCceEeEEEeccc
Q 009707 290 EPYIVSRSTELPPTWDGPFGTMVLVNKPKGWTSFTVCGKLRRLVKV--KKVGHAGTLDPMATGLLIVCVGKA 359 (528)
Q Consensus 290 ~~~~~~~~~~~p~~~~~~~GgIL~VdKP~G~TS~dVV~klRrlL~i--kKVGHaGTLDP~ATGVLVVgVGkA 359 (528)
+=+.|......++.+.+..- ++.+.| .||+.+++++.|.+.+++ +.+|.+||=|-.|-=...|+|-..
T Consensus 8 eDF~V~Ei~~~~~~~~g~y~-~f~l~K-~n~dT~~ai~~lar~l~i~~~~i~~AG~KDk~AvT~Q~vsv~~~ 77 (319)
T cd02577 8 EDFIVEEITPFDIGKKGKYL-IYLLEK-KNWDTLDAVRRIAKALGISRKRIGYAGTKDKHAVTTQYISIFDP 77 (319)
T ss_pred CceEEEEecCCCCCCCCCEE-EEEEEE-CCCCHHHHHHHHHHHhCCChhheeeccccccccceEEEEEeecc
Confidence 33455555444455554432 555665 799999999999999987 589999999999999999998443
No 66
>TIGR00094 tRNA_TruD_broad tRNA pseudouridine synthase, TruD family. MJ11364 is a strong partial match from 50 to 230 aa.
Probab=44.68 E-value=51 Score=35.04 Aligned_cols=49 Identities=29% Similarity=0.440 Sum_probs=43.3
Q ss_pred eEEEeeCCCCCChHHHHHHHHHHhCC--ccccccCCCCCCCceEeEEEeccc
Q 009707 310 TMVLVNKPKGWTSFTVCGKLRRLVKV--KKVGHAGTLDPMATGLLIVCVGKA 359 (528)
Q Consensus 310 gIL~VdKP~G~TS~dVV~klRrlL~i--kKVGHaGTLDP~ATGVLVVgVGkA 359 (528)
.++.|.| .||+..++++.|.+.+++ +.||.+|+=|-.|-=..-|++...
T Consensus 44 ~~~~l~K-~~~~T~~a~~~iar~l~i~~~~i~yAG~KDk~AvT~Q~~s~~~~ 94 (387)
T TIGR00094 44 IHIRVEK-EGCNTLEVARVLAKFLGVSRREIGFAGTKDKRAVTEQWVCLRVK 94 (387)
T ss_pred EEEEEEE-CCcCHHHHHHHHHHHhCCChhheeecccccccceeEEEEEeccC
Confidence 3778888 899999999999999985 689999999999999998888544
No 67
>COG0575 CdsA CDP-diglyceride synthetase [Lipid metabolism]
Probab=43.43 E-value=15 Score=36.95 Aligned_cols=26 Identities=31% Similarity=0.514 Sum_probs=22.4
Q ss_pred hHHHHH-HHHHHhCCccc-----cccCCCCCC
Q 009707 322 SFTVCG-KLRRLVKVKKV-----GHAGTLDPM 347 (528)
Q Consensus 322 S~dVV~-klRrlL~ikKV-----GHaGTLDP~ 347 (528)
.+|.++ .+||.+|+|.. ||+|-||-+
T Consensus 216 lGDL~eS~iKR~~gvKDsg~liPGHGGilDR~ 247 (265)
T COG0575 216 LGDLFESYIKRLLGIKDSGWLIPGHGGILDRF 247 (265)
T ss_pred HhhHHHHHHHHccCCCCcCCCCCCcCcccccH
Confidence 367888 89999999977 899999975
No 68
>COG0585 Uncharacterized conserved protein [Function unknown]
Probab=42.47 E-value=55 Score=35.81 Aligned_cols=69 Identities=28% Similarity=0.487 Sum_probs=51.5
Q ss_pred CCccccccCCCCCCCCCCCCCceEEEeeCCCCCChHHHHHHHHHHhCC--ccccccCCCCCCCceEeEEEecc
Q 009707 288 SGEPYIVSRSTELPPTWDGPFGTMVLVNKPKGWTSFTVCGKLRRLVKV--KKVGHAGTLDPMATGLLIVCVGK 358 (528)
Q Consensus 288 ~~~~~~~~~~~~~p~~~~~~~GgIL~VdKP~G~TS~dVV~klRrlL~i--kKVGHaGTLDP~ATGVLVVgVGk 358 (528)
.++=+.|......++..++..= ++.|.| .||+..++++.|-+.+|+ +.||.|||=|-.|-=..-|||-.
T Consensus 28 ~pedF~V~Ei~~~~~~~~G~~~-~~~l~K-~~~dT~~a~~~iak~lgv~~r~v~yAGlKDk~AVT~Q~vsi~~ 98 (406)
T COG0585 28 EPEDFIVEEILGYEPSGDGEYL-LFLLRK-RGWDTLDAAREIAKRLGVPRRRVGYAGLKDKRAVTTQYVSIPK 98 (406)
T ss_pred CCCccEEEeecCcCCCCCCCEE-EEEEEE-cCCChHHHHHHHHHHhCCChhhcccccccccceeeEEEEEEEc
Confidence 3444555555555554443332 444444 799999999999999998 89999999999998889999874
No 69
>PRK00984 truD tRNA pseudouridine synthase D; Reviewed
Probab=41.23 E-value=1e+02 Score=32.65 Aligned_cols=65 Identities=23% Similarity=0.458 Sum_probs=49.1
Q ss_pred cccccCCCCCCCCCCCCCceEEEeeCCCCCChHHHHHHHHHHhCC--ccccccCCCCCCCceEeEEEec
Q 009707 291 PYIVSRSTELPPTWDGPFGTMVLVNKPKGWTSFTVCGKLRRLVKV--KKVGHAGTLDPMATGLLIVCVG 357 (528)
Q Consensus 291 ~~~~~~~~~~p~~~~~~~GgIL~VdKP~G~TS~dVV~klRrlL~i--kKVGHaGTLDP~ATGVLVVgVG 357 (528)
=+.|......++.+++.+ .++.|.| .||+.++++..|.+.+++ +.||.+||=|-.|-=..-|+|-
T Consensus 26 DF~V~E~~~~~~~~~G~~-~~~~l~K-~~~~T~~~~~~lar~l~i~~~~i~yAG~KDk~AvT~Q~~si~ 92 (341)
T PRK00984 26 DFVVREILGFEPSGEGEH-LLVRIRK-RGWNTLFVARALAKFLGISLRDVGYAGLKDRHAVTTQWFSIH 92 (341)
T ss_pred ceeEEeccCCCCCCCcCE-EEEEEEE-CCCCHHHHHHHHHHHhCCChhheeecccCcCCeeeEEEEEEE
Confidence 344444444445555444 2555655 799999999999999986 5799999999999999999984
No 70
>cd02552 PseudoU_synth_TruD_like PseudoU_synth_TruD_like: Pseudouridine synthase, TruD family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruD and Saccharomyces cerevisiae Pus7. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruD and S. cerevisiae Pus7 make psi13 in cytoplasmic tRNAs. In addition S. cerevisiae Pus7 makes psi35 in U2 small nuclear RNA (U2 snRNA) and psi35 in pre-tRNATyr. Psi35 in U2 snRNA and psi13 in tRNAs are highly phylogenetically conserved. Psi34 is the mammalian U2 snRNA counterpart of yeast U2 snRNA psi35.
Probab=39.44 E-value=87 Score=31.58 Aligned_cols=50 Identities=24% Similarity=0.258 Sum_probs=42.2
Q ss_pred EEEeeCCCCCChHHHHHHHHHHhCC--ccccccCCCCCCCceEeEEEeccccc
Q 009707 311 MVLVNKPKGWTSFTVCGKLRRLVKV--KKVGHAGTLDPMATGLLIVCVGKATK 361 (528)
Q Consensus 311 IL~VdKP~G~TS~dVV~klRrlL~i--kKVGHaGTLDP~ATGVLVVgVGkATK 361 (528)
++.|.| .||+..+++..|.+.+++ +.||++|+=|-.|-=..-|+|-...+
T Consensus 34 ~~~l~K-~~~~T~~a~~~la~~l~i~~~~i~yAG~KDk~AvT~Q~~sv~~~~~ 85 (232)
T cd02552 34 HFTLYK-ENKDTMEALREIAKALGVPPRDIGYAGTKDKRAVTTQRVSVHKPGK 85 (232)
T ss_pred EEEEEE-CCCCHHHHHHHHHHHcCCCHHHEeEcccccCceeeEEEEEEECCcc
Confidence 455555 799999999999999987 48999999999999999999855433
No 71
>PF08555 DUF1754: Eukaryotic family of unknown function (DUF1754); InterPro: IPR013865 This is a eukaryotic protein of unknown function.
Probab=22.13 E-value=45 Score=28.77 Aligned_cols=25 Identities=20% Similarity=0.367 Sum_probs=20.9
Q ss_pred CCCCCchhhhHHHHHHHHHhhcccc
Q 009707 110 QPGSDNAEMTKSMRKYYNKRRQRMY 134 (528)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~~~~~~~~ 134 (528)
.....++.|+.|.|+|-..||+|++
T Consensus 73 ~~~~~~~~kTeAErrfee~q~KRl~ 97 (98)
T PF08555_consen 73 EDESYDDGKTEAERRFEEAQRKRLM 97 (98)
T ss_pred ccccccCCCCHHHHHHHHHHHHHHc
Confidence 3445678899999999999999985
Done!