Query 007467
Match_columns 602
No_of_seqs 329 out of 1592
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 00:00:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007467.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007467hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00425 CBF5 rRNA pseudourid 100.0 1.2E-88 2.6E-93 702.4 33.8 322 69-394 1-322 (322)
2 KOG2529 Pseudouridine synthase 100.0 2E-87 4.3E-92 701.1 8.9 386 44-429 9-395 (395)
3 PRK04270 H/ACA RNA-protein com 100.0 4.4E-82 9.5E-87 647.8 31.8 300 81-384 1-300 (300)
4 COG0130 TruB Pseudouridine syn 100.0 3.7E-76 8E-81 596.9 25.1 266 89-385 4-271 (271)
5 PRK14124 tRNA pseudouridine sy 100.0 2.5E-72 5.4E-77 577.5 29.0 270 101-386 2-308 (308)
6 PRK05033 truB tRNA pseudouridi 100.0 2.7E-71 5.9E-76 570.5 30.6 267 101-390 9-311 (312)
7 PRK04642 truB tRNA pseudouridi 100.0 6.5E-71 1.4E-75 565.0 28.8 256 101-383 9-298 (300)
8 PRK01550 truB tRNA pseudouridi 100.0 1.1E-70 2.3E-75 564.9 28.6 263 101-384 1-302 (304)
9 PRK00130 truB tRNA pseudouridi 100.0 1.8E-70 3.9E-75 560.2 29.3 256 101-384 1-290 (290)
10 PRK01851 truB tRNA pseudouridi 100.0 2.7E-70 5.9E-75 561.2 28.7 254 101-383 15-301 (303)
11 PRK02755 truB tRNA pseudouridi 100.0 6.4E-70 1.4E-74 557.1 28.6 256 101-384 2-292 (295)
12 PRK05389 truB tRNA pseudouridi 100.0 8.3E-70 1.8E-74 558.4 28.9 259 101-384 12-303 (305)
13 PRK01528 truB tRNA pseudouridi 100.0 3E-69 6.4E-74 551.4 28.6 256 100-383 1-289 (292)
14 PRK14123 tRNA pseudouridine sy 100.0 1.1E-68 2.3E-73 550.4 28.7 263 101-384 2-305 (305)
15 PRK03287 truB tRNA pseudouridi 100.0 1.8E-68 3.9E-73 546.9 28.8 250 101-384 8-294 (298)
16 PRK02484 truB tRNA pseudouridi 100.0 1.5E-68 3.2E-73 547.0 27.9 255 100-384 1-294 (294)
17 cd02573 PseudoU_synth_EcTruB P 100.0 3.8E-68 8.3E-73 540.2 26.2 242 103-360 1-276 (277)
18 PRK14122 tRNA pseudouridine sy 100.0 1.8E-66 3.9E-71 534.6 28.1 244 103-384 2-311 (312)
19 PRK04099 truB tRNA pseudouridi 100.0 8.3E-67 1.8E-71 528.9 23.7 225 101-361 1-258 (273)
20 PRK14846 truB tRNA pseudouridi 100.0 2.1E-65 4.6E-70 529.8 23.2 222 100-330 1-255 (345)
21 PRK02193 truB tRNA pseudouridi 100.0 2.3E-63 5E-68 505.4 26.8 236 104-385 2-271 (279)
22 cd02572 PseudoU_synth_hDyskeri 100.0 4.8E-63 1.1E-67 476.3 20.6 180 101-282 1-181 (182)
23 PRK00020 truB tRNA pseudouridi 100.0 2.1E-61 4.5E-66 482.7 20.2 179 101-282 9-223 (244)
24 TIGR00431 TruB tRNA pseudourid 100.0 4.8E-61 1E-65 471.4 19.1 176 101-279 1-209 (209)
25 cd00506 PseudoU_synth_TruB_lik 100.0 1.9E-60 4.1E-65 467.5 19.1 176 103-279 1-210 (210)
26 PRK00989 truB tRNA pseudouridi 100.0 4.1E-60 9E-65 470.1 19.9 177 101-281 8-218 (230)
27 cd02867 PseudoU_synth_TruB_4 P 100.0 1.2E-54 2.7E-59 447.1 19.0 169 103-271 1-234 (312)
28 cd02868 PseudoU_synth_hTruB2_l 100.0 4.4E-47 9.6E-52 376.6 17.3 175 103-280 1-218 (226)
29 PF01509 TruB_N: TruB family p 100.0 1.3E-37 2.7E-42 292.0 11.7 115 123-239 1-149 (149)
30 PF08068 DKCLD: DKCLD (NUC011) 99.9 3.9E-25 8.5E-30 178.4 3.1 59 61-119 1-59 (59)
31 KOG2559 Predicted pseudouridin 99.7 5.2E-18 1.1E-22 170.1 11.0 180 101-288 9-265 (318)
32 TIGR01213 conserved hypothetic 99.6 9.9E-16 2.1E-20 162.9 9.8 122 141-265 250-386 (388)
33 PRK14554 putative pseudouridyl 99.5 6E-14 1.3E-18 151.0 10.4 121 142-265 284-419 (422)
34 PF01472 PUA: PUA domain; Int 99.2 2E-11 4.3E-16 102.0 5.7 74 310-383 1-74 (74)
35 cd01291 PseudoU_synth PseudoU_ 99.2 4.8E-11 1E-15 101.8 8.0 86 107-247 1-87 (87)
36 TIGR00451 unchar_dom_2 unchara 99.1 3.3E-10 7.2E-15 100.6 7.7 76 308-383 29-105 (107)
37 TIGR03684 arCOG00985 arCOG0415 98.9 6E-09 1.3E-13 97.9 8.6 74 309-382 69-143 (150)
38 COG2016 Predicted RNA-binding 98.9 3.4E-09 7.4E-14 101.6 6.2 79 308-388 75-154 (161)
39 COG1258 Predicted pseudouridyl 98.8 1.8E-08 3.9E-13 107.3 9.9 122 144-268 258-394 (398)
40 PRK14560 putative RNA-binding 98.8 1.5E-08 3.1E-13 96.4 8.1 79 309-389 76-155 (160)
41 PRK13794 hypothetical protein; 98.6 1.9E-07 4.2E-12 102.7 9.3 71 311-381 126-197 (479)
42 smart00359 PUA Putative RNA-bi 98.4 5.7E-07 1.2E-11 73.8 6.8 74 311-384 2-77 (77)
43 PRK13795 hypothetical protein; 98.4 5.1E-07 1.1E-11 102.4 7.0 76 309-384 126-201 (636)
44 PRK13534 7-cyano-7-deazaguanin 98.3 1.4E-06 3E-11 99.1 7.2 74 310-383 564-637 (639)
45 cd02566 PseudoU_synth_RluE Pse 98.1 1.2E-05 2.5E-10 76.8 8.5 153 104-270 1-166 (168)
46 cd02553 PseudoU_synth_RsuA Pse 98.1 1.8E-05 3.9E-10 75.5 9.7 140 104-271 2-152 (167)
47 cd02556 PseudoU_synth_RluB Pse 98.0 8.9E-05 1.9E-09 70.7 11.8 142 104-271 2-155 (167)
48 PRK10475 23S rRNA pseudouridin 97.9 0.00014 3.1E-09 75.7 13.4 136 103-270 68-214 (290)
49 PRK10700 23S rRNA pseudouridyl 97.8 0.00029 6.3E-09 73.2 13.2 143 103-271 68-222 (289)
50 cd02555 PSSA_1 PSSA_1: Pseudou 97.8 0.00017 3.8E-09 69.9 10.4 136 104-270 6-161 (177)
51 cd02554 PseudoU_synth_RluF Pse 97.7 0.0003 6.6E-09 67.7 11.0 135 104-270 2-147 (164)
52 PRK05429 gamma-glutamyl kinase 97.7 3.9E-05 8.4E-10 82.1 5.0 63 309-371 280-343 (372)
53 PF09157 TruB-C_2: Pseudouridi 97.7 0.00016 3.4E-09 57.8 6.8 58 310-383 1-58 (58)
54 PRK11394 23S rRNA pseudouridin 97.5 0.00039 8.5E-09 70.0 9.4 157 102-271 39-206 (217)
55 COG1370 Prefoldin, molecular c 97.4 0.00028 6.1E-09 67.6 5.8 71 311-381 82-152 (155)
56 TIGR00432 arcsn_tRNA_tgt tRNA- 97.3 0.00021 4.5E-09 80.4 4.9 70 311-380 468-537 (540)
57 KOG2523 Predicted RNA-binding 97.3 6.2E-05 1.3E-09 73.0 0.4 80 308-389 91-175 (181)
58 PRK10839 16S rRNA pseudouridyl 97.3 0.00031 6.8E-09 69.9 5.4 142 103-272 61-213 (232)
59 TIGR01621 RluA-like pseudourid 97.2 0.00036 7.8E-09 69.4 4.8 71 101-171 8-88 (217)
60 cd02557 PseudoU_synth_ScRIB2 P 97.2 0.00067 1.4E-08 67.1 6.3 73 99-171 20-104 (213)
61 PRK10158 23S rRNA/tRNA pseudou 97.1 0.00053 1.1E-08 68.2 4.5 71 99-171 18-101 (219)
62 COG5270 PUA domain (predicted 97.0 0.00061 1.3E-08 67.4 4.0 71 310-380 129-199 (202)
63 cd02870 PseudoU_synth_RsuA_lik 97.0 0.0012 2.6E-08 61.4 5.4 134 104-264 1-146 (146)
64 cd02558 PSRA_1 PSRA_1: Pseudou 97.0 0.001 2.2E-08 67.4 5.2 73 99-171 43-127 (246)
65 cd02867 PseudoU_synth_TruB_4 P 96.9 0.00031 6.8E-09 74.2 1.5 37 233-269 254-290 (312)
66 cd02563 PseudoU_synth_TruC tRN 96.9 0.0014 2.9E-08 65.2 5.5 71 100-171 6-90 (223)
67 KOG1919 RNA pseudouridylate sy 96.7 0.0049 1.1E-07 66.7 8.5 172 67-253 82-273 (371)
68 COG1187 RsuA 16S rRNA uridine- 96.7 0.006 1.3E-07 62.8 8.3 145 104-271 65-222 (248)
69 COG0564 RluA Pseudouridylate s 96.6 0.0029 6.3E-08 66.0 5.4 75 101-176 84-172 (289)
70 cd02550 PseudoU_synth_Rsu_Rlu_ 96.6 0.0018 3.9E-08 60.6 3.4 67 104-171 1-77 (154)
71 PRK11112 tRNA pseudouridine sy 96.4 0.004 8.7E-08 63.5 5.0 71 100-171 7-91 (257)
72 TIGR00005 rluA_subfam pseudour 96.4 0.0039 8.5E-08 64.1 4.7 71 101-171 78-164 (299)
73 TIGR01027 proB glutamate 5-kin 96.4 0.0044 9.6E-08 66.5 5.2 61 310-370 273-334 (363)
74 PRK11180 rluD 23S rRNA pseudou 96.3 0.0037 7.9E-08 65.7 4.2 72 101-172 90-177 (325)
75 cd02869 PseudoU_synth_RluCD_li 96.2 0.0042 9E-08 58.5 3.6 69 104-172 1-85 (185)
76 PF00849 PseudoU_synth_2: RNA 96.1 0.0038 8.2E-08 57.8 2.5 71 104-174 2-88 (164)
77 COG1549 Queuine tRNA-ribosyltr 96.0 0.0093 2E-07 66.5 5.8 56 327-383 463-518 (519)
78 PRK11025 23S rRNA pseudouridyl 96.0 0.0081 1.7E-07 63.0 4.9 73 100-172 98-182 (317)
79 PF09142 TruB_C: tRNA Pseudour 96.0 0.015 3.3E-07 47.1 5.3 55 309-383 1-55 (56)
80 TIGR00093 pseudouridine syntha 95.0 0.21 4.7E-06 45.8 10.0 111 135-270 2-116 (128)
81 PRK13402 gamma-glutamyl kinase 93.8 0.061 1.3E-06 58.2 4.1 62 310-371 277-339 (368)
82 KOG2529 Pseudouridine synthase 87.7 0.082 1.8E-06 57.8 -2.3 78 127-204 113-210 (395)
83 KOG3492 Ribosome biogenesis pr 85.1 1 2.2E-05 44.1 3.9 67 311-377 96-163 (180)
84 COG0263 ProB Glutamate 5-kinas 83.2 1.2 2.6E-05 48.5 3.9 61 310-371 280-341 (369)
85 PF13636 Nol1_Nop2_Fmu_2: pre- 83.0 2.4 5.3E-05 37.9 5.1 57 309-393 46-102 (102)
86 PF03657 UPF0113: Uncharacteri 82.9 1.6 3.4E-05 42.7 4.2 47 311-359 93-139 (162)
87 KOG2522 Filamentous baseplate 82.3 1.8 4E-05 48.4 4.9 75 320-399 102-179 (560)
88 KOG2572 Ribosome biogenesis pr 51.1 9.9 0.00021 42.4 2.2 54 314-372 265-320 (498)
89 PRK08557 hypothetical protein; 48.9 20 0.00044 39.9 4.2 59 309-371 77-137 (417)
90 PRK15128 23S rRNA m(5)C1962 me 47.9 27 0.00059 38.4 4.9 52 311-362 4-56 (396)
91 KOG2572 Ribosome biogenesis pr 37.3 19 0.00042 40.3 1.8 15 145-159 134-148 (498)
92 KOG2364 Predicted pseudouridyl 36.3 11 0.00023 41.8 -0.3 36 207-244 361-396 (433)
93 COG0575 CdsA CDP-diglyceride s 34.2 24 0.00051 36.5 1.8 26 115-140 216-247 (265)
94 PRK11933 yebU rRNA (cytosine-C 32.2 85 0.0018 35.6 5.8 61 309-396 407-467 (470)
95 KOG2573 Ribosome biogenesis pr 29.7 29 0.00063 39.0 1.6 88 320-426 285-374 (498)
96 COG5426 Uncharacterized membra 28.9 46 0.001 34.3 2.7 45 47-92 158-206 (254)
97 smart00841 Elong-fact-P_C Elon 27.9 51 0.0011 27.3 2.4 29 322-356 26-54 (56)
98 TIGR00094 tRNA_TruD_broad tRNA 27.5 3.5E+02 0.0077 29.6 9.4 48 102-150 43-92 (387)
99 PTZ00397 macrophage migration 26.7 2.4E+02 0.0053 25.3 6.8 70 179-254 17-93 (116)
100 COG4012 Uncharacterized protei 25.4 1.2E+02 0.0026 32.8 5.1 88 103-192 178-276 (342)
101 PF09285 Elong-fact-P_C: Elong 24.5 46 0.001 27.5 1.6 29 322-356 26-54 (56)
102 cd02575 PseudoU_synth_EcTruD P 23.1 5.2E+02 0.011 27.2 9.3 48 102-150 26-75 (253)
103 cd05794 S1_EF-P_repeat_2 S1_EF 23.0 73 0.0016 26.4 2.4 29 322-356 26-54 (56)
104 KOG2573 Ribosome biogenesis pr 21.7 34 0.00075 38.4 0.4 8 244-251 230-237 (498)
105 cd00497 PseudoU_synth_TruA_lik 21.4 5.2E+02 0.011 26.3 8.7 86 159-253 98-186 (224)
No 1
>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=1.2e-88 Score=702.43 Aligned_cols=322 Identities=60% Similarity=0.987 Sum_probs=304.7
Q ss_pred cccccceeeeccCcCCCCCCCCCCCCCccccccceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEE
Q 007467 69 LKNYDRLNVRTGHYTPLPNGYSPLKRPLVDYIRYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVC 148 (602)
Q Consensus 69 lkn~~~l~vr~~~~t~~~~g~~p~~R~i~~~i~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~ 148 (602)
|+||..|.+....+|+..+||+|.+|+|++++.+||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~l~i~KP~g~tS~~~v~~vr~~~~~kkvGH~GTLDP~A~GvL~v~ 80 (322)
T TIGR00425 1 LKNFENLIVKEEAYTNIDYGCNPLKRDIEEYISYGVVNLDKPSGPSSHEVVAWVRRILNVEKTGHGGTLDPKVTGVLPVC 80 (322)
T ss_pred CCcchheeEeccccCCcccCCCccCCCHHHhcCCCEEEEeCCCCCCHHHHHHHHHHHhcccccCCCCCCCCCCceEEEEE
Confidence 78999999888999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeccccccccccCCCcEEEEEEEEcCcCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEE
Q 007467 149 IDRATRLVKSQQGAGKEYVCVARLHDKVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVV 228 (602)
Q Consensus 149 IG~ATKLv~~l~~~~KeYva~i~LG~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~ 228 (602)
+|+||||++|+++.+|+|+|+++||... +.++|.++|..|+|.|+|+||+|||+|++.|.++||++++++|+. +.+.
T Consensus 81 ~G~aTkl~~~~~~~~K~Y~~~v~lG~~~-~~~~l~~~l~~f~g~i~Q~pP~~SA~k~~~r~v~I~~~~l~~~~~--~~~~ 157 (322)
T TIGR00425 81 IERATRLVKSLQEAPKEYVCLMRLHRDA-KEEDILRVLKEFTGRIFQRPPLKSAVKRQLRVRTIYESELLEKDG--KDVL 157 (322)
T ss_pred EChHhhccHHhccCCCEEEEEEEECCCC-CHHHHHHHHHHcCCcEEeeCChheEEeccCeEEEEEEEEEEEecC--CeEE
Confidence 9999999999999999999999999875 689999999999999999999999999999999999999999986 5699
Q ss_pred EEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHHhh
Q 007467 229 FWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLLTS 308 (602)
Q Consensus 229 f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L~~ 308 (602)
|+|+||+||||||||+|||..|||+|||++||||++|+|++++ ++||++|.++.|+|.+..++..++..|+|++.+|.+
T Consensus 158 ~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~L~R~~~g~f~~~~-a~~l~~l~~~~~~~~~~~~~~~l~~~l~p~~~~l~~ 236 (322)
T TIGR00425 158 FRVSCEAGTYIRKLCVDIGEALGTGAHMQELRRTRSGCFGEDD-MVTLHDLLDAYVFWKEDGDESYLRRVIKPMEYALRH 236 (322)
T ss_pred EEEEeCCCcChHHHHHHHHHHHCCCEEEEEeEeEEECCccccc-cccHHHHHHhhhhhhcccchhhHhhhcCCHHHHHhh
Confidence 9999999999999999999999999999999999999999975 689999998877776655555678899999999999
Q ss_pred hceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEeeecCCC
Q 007467 309 YKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVMDRDT 388 (602)
Q Consensus 309 lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRViM~~dt 388 (602)
||++.+++.++.+|+||+.|+.||+...+..+..++.|++++.+|+++|||.+.|++.+|..+.+|+++++.++||++|+
T Consensus 237 lP~V~Vd~~~a~~I~NG~~I~~pgv~~~d~~i~~gd~V~V~~~~G~~LAIGea~~s~~ei~~~~kG~vV~~~~~~~~~~~ 316 (322)
T TIGR00425 237 LKRVVVKDSAVDAICHGADLMVRGIARLEKGIEKGDTVAVITLKGEAVAVGIALMSTKDIANADKGVVADVKRVIMERGT 316 (322)
T ss_pred CCceEeCHHHHHHHHCCCccccccccccccccCCCCEEEEEECCCEEEEEEEEecCHHHHhhcCCcEEEEEEEEeeCCCC
Confidence 99999999999999999999999987766556677888888888999999999999999999999999999999999999
Q ss_pred CCCCcC
Q 007467 389 YPRKWG 394 (602)
Q Consensus 389 YP~~Wg 394 (602)
||++|+
T Consensus 317 ~~~~~~ 322 (322)
T TIGR00425 317 YPRMWK 322 (322)
T ss_pred CCCCcC
Confidence 999995
No 2
>KOG2529 consensus Pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2e-87 Score=701.15 Aligned_cols=386 Identities=65% Similarity=1.017 Sum_probs=379.6
Q ss_pred cccCCccccCCCCCCC-CCCCCcchhcccccceeeeccCcCCCCCCCCCCCCCccccccceEEEeeCCCCCCHHHHHHHH
Q 007467 44 ATAKDFIIKPQSFTPS-IDTSQWPILLKNYDRLNVRTGHYTPLPNGYSPLKRPLVDYIRYGIINLDKPANPSSHEVVAWI 122 (602)
Q Consensus 44 ~~~~~~~~~~~~~~~~-~~~~~wplllkn~~~l~vr~~~~t~~~~g~~p~~R~i~~~i~nGIInlDKP~G~TSheVVa~V 122 (602)
|....|+++|....+. ++++.||+||+||+.++||++||||...|++|++|+|.+|+.+|+||||||+||+||++++|+
T Consensus 9 s~~~~~~~kp~~~~a~~~~~~~~~~ll~~~~~~~v~t~~~t~~~~~~splk~~i~~~~~sgv~~i~kpa~pss~e~~swv 88 (395)
T KOG2529|consen 9 SPQFMFMTKPALETAQKFDASIWALLLANMDKLLVRTGHYTPSAAGVSPLKRGIKEYSRSGVINIDKPANPSSHEVVSWV 88 (395)
T ss_pred ccccccccCccccccccchhhhhHHHHHHHHhhhhhhcCcCchhhhcCHHHHhHHhHhhcCceeccCCCCCchHHHHHHH
Confidence 5667899999999998 999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCCCHHHHHHHHHhccccccccCcchhh
Q 007467 123 KRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVPDVAKVARALEALTGAVFQRPPLISA 202 (602)
Q Consensus 123 KriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~s~e~L~~aL~~F~G~I~Q~PP~ySA 202 (602)
+++|..+++||+|||||.+||||++|++++||++..+++.+|+|+|.++|+..+++...+.+++..+.|..+|+||..+|
T Consensus 89 k~iL~~ek~Gh~gTlDP~vtg~l~v~~~~~tr~~~s~~s~gk~yvg~~~lt~~v~~~~k~~~~~e~l~g~l~~~~pl~~~ 168 (395)
T KOG2529|consen 89 KNILRVEKTGHSGTLDPEVTGCLIVCIDRATRLLKSQQSAGKEYVGIGKLTPEVEDALKLHQKLEHLYGALFQRPPLISA 168 (395)
T ss_pred HHHhhHHHhCCCCCCCccccceEEEEeecccccccchhccCcEEEEEEecCcchhhhhhhccchhhhhhhhccCCchhhh
Confidence 99999999999999999999999999999999999999999999999999999988999999999999999999999999
Q ss_pred cccCCeEEEEEEEEEEEEecCCceEEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHH
Q 007467 203 VKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDA 282 (602)
Q Consensus 203 VKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da 282 (602)
+||++|+++||+..++++|.+.+++.|++.|.+|||+|++|.++|..||||++|+||||+++|.-++++.++||||++++
T Consensus 169 ~kr~~~v~~~y~s~~ie~d~~~~l~~f~~~~~~~t~~rt~~~~lg~ll~~g~k~~E~~r~r~~~~~E~~~~~t~~d~~~~ 248 (395)
T KOG2529|consen 169 VKRVLRVRTLYESKIIEYDRDYPLLRFGVSCEAGTYKRTMCVHLGLLLGFGGKMQELRRVRSGICSEEDDMLTEHDEQDA 248 (395)
T ss_pred ccceeEeechhhhhcccccccchhccccccccccchHHHHHHhhhhHhhhcchhhhhhhcccccccccccccccccchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhHhhcccchHHHhhhccchHHHHhhhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEE
Q 007467 283 QWLYDNYRDEAYLRRVIMPLEVLLTSYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAE 362 (602)
Q Consensus 283 ~~~~~~~~des~Lr~~I~PlE~~L~~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~ 362 (602)
+|.|++.+|++|+++++.|++..|.++++++++|++++++|||++|++||+++++.+|+.+..++++|++|++++.++++
T Consensus 249 q~~~d~~~d~~~~r~~~~~les~l~~~~~vv~kd~~v~~~cyg~k~~v~~~~r~~~~i~~~~e~v~~t~k~e~~~~~i~~ 328 (395)
T KOG2529|consen 249 QFEYDTERDESYLRRVKKPLESLLTGYKRVVVKDSTVNAPCYGAKLLVPGLLRYSDDIDGPFEVVDMTTKGEAIASKIAE 328 (395)
T ss_pred hhhhccccCcceeeeeeeccccccccceeeecccchhcCccccceeeeccccccCccccCceeEEEEeecchhhhhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecccccccCCCCeEEeeeEeeecCCCCCCCcCCCccchhhhhhhhcCcccccCCCCCCCchhhhhcc
Q 007467 363 MTTAVMATCDHGVVARIKRVVMDRDTYPRKWGLGPRASMKKKLIAEGKLDKHGKLNEKTPQEWARNV 429 (602)
Q Consensus 363 mss~~i~~~d~GiVak~kRViM~~dtYP~~Wg~gp~a~~kk~~~~~g~l~k~g~~~~~tp~~w~~~~ 429 (602)
|++.++.+|+||++++++|+||++|+||+.||+||+|+.+++++++|+||+||+||++||.+|...|
T Consensus 329 ~~~~~~~s~dh~~~a~~k~~~me~d~~~~~~g~~~~~~~~~e~~~~g~~~~~~~~~~~t~~~~~~~~ 395 (395)
T KOG2529|consen 329 MSLRQVASCDHGVVAKTKRVIMEADVYERCWGLGPKASPGKEAKAEGKLDKFGKGNETTPKDWIEQV 395 (395)
T ss_pred hhhhhhceeeeeeecccccccccccccceeeccCcccCchHHHHHhhhhhhccCCCCCChhHhccCC
Confidence 9999999999999999999999999999999999999999999999999999999999999997654
No 3
>PRK04270 H/ACA RNA-protein complex component Cbf5p; Reviewed
Probab=100.00 E-value=4.4e-82 Score=647.83 Aligned_cols=300 Identities=47% Similarity=0.831 Sum_probs=281.6
Q ss_pred CcCCCCCCCCCCCCCccccccceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEecccccccccc
Q 007467 81 HYTPLPNGYSPLKRPLVDYIRYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQ 160 (602)
Q Consensus 81 ~~t~~~~g~~p~~R~i~~~i~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~ 160 (602)
.|||+.|||+|.+|||++|+++||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+|||+++|++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~g~l~i~Kp~g~tS~~~v~~~r~~~~~kkvGH~GTLDp~A~GvL~v~~g~atk~~~~~~ 80 (300)
T PRK04270 1 AETNPEYGCPPEKRPIEELIKFGVVNLDKPPGPTSHEVAAWVRDILGVEKAGHGGTLDPKVTGVLPVALGKATKVVQALL 80 (300)
T ss_pred CCCCccCCCCcccCCHHHhcCCCEEEEECCCCCCHHHHHHHHHHHhccccccCCCCCCCcCeEEEEEEEChHhhhhHHhc
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcEEEEEEEEcCcCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecCchhH
Q 007467 161 GAGKEYVCVARLHDKVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAGTYVR 240 (602)
Q Consensus 161 ~~~KeYva~i~LG~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTYIR 240 (602)
+.+|+|+|+++||..+ +.++|+++|.+|+|.|+|+||+|||+|+++|.++||++++++|+. +.+.|+|+||+|||||
T Consensus 81 ~~~K~Y~~~~~~g~~~-~~~~~~~~l~~~~g~i~Q~pP~~SA~k~~~r~v~I~~i~~~~~~~--~~~~~~v~cs~GtYIR 157 (300)
T PRK04270 81 ESGKEYVCVMHLHGDV-PEEDIRKVFKEFTGEIYQKPPLKSAVKRRLRVRTIYELEILEIDG--RDVLFRVRCESGTYIR 157 (300)
T ss_pred cCCcEEEEEEEECCCC-CHHHHHHHHHHCCCcEEeECCHHHhccCCceEEEEEEEEEEEecC--CEEEEEEEECCceEHH
Confidence 9999999999999874 799999999999999999999999999999999999999999976 7899999999999999
Q ss_pred HHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHHhhhceeecCHHHHH
Q 007467 241 TMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLLTSYKRLVVKDTTVN 320 (602)
Q Consensus 241 SL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L~~lPrIvVkDsav~ 320 (602)
|||+|||..|||+|||++||||++|+|++++ ++||++|.++.+.|...++...+...|+|++.+|.+||+++|++.++.
T Consensus 158 sl~~dig~~Lg~~a~~~~L~R~~~g~f~~~~-a~~l~~l~~~~~~~~~~~d~~~l~~~LlPle~aL~~LP~V~Lde~aa~ 236 (300)
T PRK04270 158 KLCHDIGLALGTGAHMQELRRTRTGPFTEED-LVTLQDLADAYYFWKEDGDEEELRRVILPMEYALSHLPKIIIKDSAVD 236 (300)
T ss_pred HHHHHHHHHHCCCeEEEEEEeEEECCCCcch-hcCHHHHHHhhhhhhcccchhhHHhhcCCHHHHhhhCCceEECHHHHH
Confidence 9999999999999999999999999999986 589999998765554443333467789999999999999999999999
Q ss_pred HHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEeee
Q 007467 321 AICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVM 384 (602)
Q Consensus 321 aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRViM 384 (602)
+|+||+.|..+|+...+..+..|+.|++++.+|+++|+|.+.|++.+|....+|+++++.+|||
T Consensus 237 ~I~nG~~L~~~gi~~~~~~~~~gd~V~I~~~~G~~LAIG~~~~ss~el~~~~kG~~vk~~~~~~ 300 (300)
T PRK04270 237 AIAHGAPLYAPGIAKLEKGIKKGDLVAVFTLKGELVALGKALMDSDEILKAEKGIVVDLERVFM 300 (300)
T ss_pred HHHcCCccccCCceecccccCCCCEEEEEeCCCcEEEEEEEccCHHHHHhcCCceEEEEEEeeC
Confidence 9999999999998766656677888888888899999999999999999999999999999998
No 4
>COG0130 TruB Pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.7e-76 Score=596.89 Aligned_cols=266 Identities=51% Similarity=0.821 Sum_probs=235.2
Q ss_pred CCCCCCCccccccceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEE
Q 007467 89 YSPLKRPLVDYIRYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVC 168 (602)
Q Consensus 89 ~~p~~R~i~~~i~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva 168 (602)
+.|..|+|..|+ ||||||||.||||||||+||||+|+++|+||+|||||+||||||||||+||||++|+++++|+|+|
T Consensus 4 ~~~~~~~i~~~~--Gil~ldKP~G~tS~~~v~~vkkil~~~K~GH~GTLDP~atGvLpi~ig~aTKl~~~l~~~~K~Y~a 81 (271)
T COG0130 4 YYPEKRPIEIYI--GVINLDKPPGPTSHEVVAWVKRILGVEKAGHGGTLDPLATGVLPICLGEATKLVQYLLDADKEYVA 81 (271)
T ss_pred cCcccccccccc--ceEEeeCCCCCCHHHHHHHHHHHhCccccccccccCCcccceEEEEechhHhHHHHHhhCCcEEEE
Confidence 688999999888 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEcCcCCCHHHHHHHHHhccccccccCcchhhcccCC--eEEEEEEEEEEEEecCCceEEEEEEeecCchhHHHHHHH
Q 007467 169 VARLHDKVPDVAKVARALEALTGAVFQRPPLISAVKRQL--RIRTIYESKLLEYDVDRHLVVFWISCEAGTYVRTMCVHL 246 (602)
Q Consensus 169 ~i~LG~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~l--R~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTYIRSL~~DI 246 (602)
+++||..+++.++|+++|..|+|.|+|+||+|||||+.+ |.|+||+|.+++++. +.+.|+|+||+||||||||+||
T Consensus 82 ~~~lG~~t~~~e~i~~~l~~F~G~I~Q~PP~~SAvK~~v~~R~V~i~~l~~~~~~~--~~~~~~v~CskGTYIRtL~~Dl 159 (271)
T COG0130 82 TVRLGDQTDSEEEVRAALEAFTGEIYQIPPMFSAVKREVERRKITIYDLLELDFDR--NLVTLRVECSKGTYIRTLARDL 159 (271)
T ss_pred EEEeCCcCCCHHHHHHHHHhcceeeEecCCchhhccceEeeEEEEEEEeeeccCCC--ceEEEEEEEecCcCHHHHHHHH
Confidence 999999998899999999999999999999999999864 556666666666654 7899999999999999999999
Q ss_pred HHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHHhhhceeecCHHHHHHHHcCC
Q 007467 247 GLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLLTSYKRLVVKDTTVNAICYGA 326 (602)
Q Consensus 247 G~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L~~lPrIvVkDsav~aI~nGa 326 (602)
|..|||||||++||||++|+|++++ ++||++|.++.+ ++ +.+.++|++.+|.+||+++++++++++||||+
T Consensus 160 G~~LG~gahm~~LrRt~~g~f~~~~-~~~l~~l~~~~~-------~~-~~~~~~p~e~~l~~lpk~~i~~~~~~~i~~G~ 230 (271)
T COG0130 160 GEALGCGAHMSELRRTRVGPFSEED-AVTLELLDELDA-------ES-LLRLLLPLESALSDLPRLVLKDSAANAIKYGA 230 (271)
T ss_pred HHHHCCccchhhhcccccccccccc-ccchhhHHHHHh-------hh-hhccccchhHHhccCCcEecCHHHHHHHHcCC
Confidence 9999999999999999999999986 578888866432 22 33455999999999999999999999999999
Q ss_pred cccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEeeec
Q 007467 327 KLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVMD 385 (602)
Q Consensus 327 kL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRViM~ 385 (602)
+ +++.. +..+..+++++.+|.++|+|... +.+ .+++||||+
T Consensus 231 ~---~~~~~----~~~~~~v~v~~~~~~~~al~~~~---------~~~--~~~~rv~~~ 271 (271)
T COG0130 231 K---PGLLD----IELGGLVRVYTAKGLGIALGEID---------EEG--LKPKRVFME 271 (271)
T ss_pred c---hhccc----cccCCcEEEEccCCeEEEEeehh---------hcC--cceeEeecC
Confidence 8 55532 56788899999999655555432 222 679999985
No 5
>PRK14124 tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.5e-72 Score=577.55 Aligned_cols=270 Identities=28% Similarity=0.462 Sum_probs=243.7
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC---
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP--- 177 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~--- 177 (602)
+|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+|||+++|++..+|+|+|+++||..|+
T Consensus 2 m~Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D 81 (308)
T PRK14124 2 KHGFLVAYKPKGPTSHDVVDEVRKKLKTRKVGHAGTLDPFATGVLIVGVNKATRLLEYLKNEKKVYYVKMRLGLITETFD 81 (308)
T ss_pred CceEEEEECCCCCCHHHHHHHHHHHcCCCccCcCcCCCCCCcEEEEEEEChHHhhhHHHhcCCceEEEEEEeCccccCCC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999997653
Q ss_pred -------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCceE
Q 007467 178 -------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHLV 227 (602)
Q Consensus 178 -------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~~ 227 (602)
+.++|+++|.+|+|.|+|+||+|||||++ .|.++||+|++++|+. +.+
T Consensus 82 ~~G~vi~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~--~~~ 159 (308)
T PRK14124 82 ITGEVVEERECNVTEEEIREAIFSFVGEYKQVPPAYSAKKYKGERLYKLAREGKIINLPPKEVKIYEIWDISIEG--PDV 159 (308)
T ss_pred CCCCEEEecCCCCCHHHHHHHHHhCcCeEEEeCCchHeEEECChhHHHHHhCCCccccCceeeEEEEEEEEEEeC--CeE
Confidence 57899999999999999999999999965 5999999999999986 689
Q ss_pred EEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHHh
Q 007467 228 VFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLLT 307 (602)
Q Consensus 228 ~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L~ 307 (602)
.|+|+||+||||||||+|||..|||+|||++||||++|+|++++ +++|++|... .+...++|++.+|.
T Consensus 160 ~~~v~cskGTYIRsL~~DiG~~Lg~~a~m~~LrRt~~G~f~l~~-a~~l~~l~~~-----------~~~~~llp~~~~l~ 227 (308)
T PRK14124 160 SFRVEVSPGTYIRSLCMDIGYKLGCGATAVELVRLSVGKFSIED-SINVFEVSPE-----------EIENRIIPMEEILD 227 (308)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHH-ccCHHHhhhh-----------hhhhhcCCHHHHhC
Confidence 99999999999999999999999999999999999999999986 5899988532 13357899999999
Q ss_pred hhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEeccccccc----CCCCeEEeeeEee
Q 007467 308 SYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMAT----CDHGVVARIKRVV 383 (602)
Q Consensus 308 ~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~----~d~GiVak~kRVi 383 (602)
||++.++++++++|+||++|.++++..+ .++..++.+++++.+|+++|||...+++..+.+ ...|+|+++++||
T Consensus 228 -lp~v~l~~~~~~~i~~G~~i~~~~~~~~-~~~~~~~~v~v~~~~g~~lai~~~~~~~~~~~~~~~~~~~~~v~~~~~v~ 305 (308)
T PRK14124 228 -LPKVVIHQESTEKILNGSQIYLEMVKEW-DNFKKDDVVRVFDEEGRLLAIARAERNSSFLETLKKHERNERVLKLKKVF 305 (308)
T ss_pred -CceEEeCHHHHHHHHCCCcccccccccc-cccCCCCEEEEEcCCCeEEEEEEEecCCceeeeeecccccceEEeeeeee
Confidence 9999999999999999999987765443 234456678888889999999999999987775 3469999999998
Q ss_pred ecC
Q 007467 384 MDR 386 (602)
Q Consensus 384 M~~ 386 (602)
.+|
T Consensus 306 ~~~ 308 (308)
T PRK14124 306 RER 308 (308)
T ss_pred ccC
Confidence 543
No 6
>PRK05033 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.7e-71 Score=570.52 Aligned_cols=267 Identities=28% Similarity=0.464 Sum_probs=236.2
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC---
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP--- 177 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~--- 177 (602)
+|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||||+||||++|+++.+|+|+|+++||..|+
T Consensus 9 ~~Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~~~~~~K~Y~a~~~lG~~TdT~D 88 (312)
T PRK05033 9 INGVLLLDKPQGMSSNDALQKVKRLFNANKAGHTGALDPLATGMLPICLGEATKFSQYLLDSDKRYRVTARLGQRTDTSD 88 (312)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCcCCCcCeeEEEEEECHHhhhhHHhcCCCcEEEEEEEECCcccCCC
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999998653
Q ss_pred -------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCceE
Q 007467 178 -------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHLV 227 (602)
Q Consensus 178 -------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~~ 227 (602)
+.++|+++|.+|+|.|+|+||+|||||.+ +|.++||+|++++|+. +.+
T Consensus 89 ~~G~v~~~~~~~~t~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~--~~~ 166 (312)
T PRK05033 89 ADGEVVEERPVTLSAEQLEAALEKFRGDIEQVPSMYSALKYQGQPLYEYARQGIEVEREARPITIYELELIRFEG--DEL 166 (312)
T ss_pred CCCCEEEeecCCCCHHHHHHHHHHCcCcEEEeCChhHeEeeCCeEHHHHHhCCcccccCceeEEEEEEEEeeEeC--CEE
Confidence 68899999999999999999999999953 7999999999999986 789
Q ss_pred EEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHH--hHhhcccchHHHhhhccchHHH
Q 007467 228 VFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQ--WLYDNYRDEAYLRRVIMPLEVL 305 (602)
Q Consensus 228 ~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~--~~~~~~~des~Lr~~I~PlE~~ 305 (602)
.|+|+||+||||||||+|||..|||+|||++||||++|+|++++ ++||+||.++. |.+.+.++++.+...|+|++.+
T Consensus 167 ~~~v~cs~GTYIRsL~~Dig~~Lg~~a~~~~LrRt~~G~f~~~~-a~~l~~l~~~~~~~~~~~~~~~~~l~~~llp~~~~ 245 (312)
T PRK05033 167 ELEVHCSKGTYIRTLVDDLGEKLGCGAHVIYLRRTQVAPYPLER-MVTLEQLEALVEQAEQQEIPPAELLDPLLLPMDSA 245 (312)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCccccc-ccCHHHHHHhhhhhccccccchhhHhhhhCCHHHH
Confidence 99999999999999999999999999999999999999999986 68999998753 2334556666788899999999
Q ss_pred HhhhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEE-ecCCcEEEEEEEEecccccccCCCCeEEeeeEeee
Q 007467 306 LTSYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLM-TTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVM 384 (602)
Q Consensus 306 L~~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vvii-t~kGElIALGia~mss~~i~~~d~GiVak~kRViM 384 (602)
|.+||+|.|+++++..||||++|.++++ ..++.++++ +.+|+++|||.. + +.|. .+++|||+
T Consensus 246 l~~lp~v~l~~~~~~~i~~G~~i~~~~~-------~~~~~v~~~~~~~g~~lai~~~--~-------~~~~-l~p~rvf~ 308 (312)
T PRK05033 246 VSDLPEVNLPEESAYYFKQGQPVRVSGA-------PLEGLVRVTEGENGKFIGIGEI--D-------DDGR-VAPKRLVV 308 (312)
T ss_pred HhhCCeEEECHHHHHHHHCcCccccCcC-------CCCCEEEEEECCCCEEEEEEEE--C-------CCCE-EEEEEEEe
Confidence 9999999999999999999999975442 123456777 678899988853 1 2453 46789984
Q ss_pred cCCCCC
Q 007467 385 DRDTYP 390 (602)
Q Consensus 385 ~~dtYP 390 (602)
.||
T Consensus 309 ---~~~ 311 (312)
T PRK05033 309 ---EYP 311 (312)
T ss_pred ---cCC
Confidence 465
No 7
>PRK04642 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=6.5e-71 Score=564.98 Aligned_cols=256 Identities=29% Similarity=0.468 Sum_probs=226.0
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcC----
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKV---- 176 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t---- 176 (602)
+|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+||||++|+++.+|+|+|+++||..|
T Consensus 9 m~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~v~~G~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D 88 (300)
T PRK04642 9 LDGILLLDKPAGLSSNNALQAARRLLRAEKGGHTGSLDPLATGLLPLCFGEATKIAGLLLGSAKAYDAEIVLGVTTDTDD 88 (300)
T ss_pred cCeEEEEecCCCCCHHHHHHHHHHHhCCCcccCCCccCCcCeeeEEEEEChhhhhhHHhcCCCcEEEEEEEECccccCcC
Confidence 4899999999999999999999999999999999999999999999999999999999999999999999999864
Q ss_pred -------------CCHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCce
Q 007467 177 -------------PDVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHL 226 (602)
Q Consensus 177 -------------~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~ 226 (602)
.+.++|+++|..|+|.|+|+||+|||||++ +|.++||++++++|+. +.
T Consensus 89 ~~G~v~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkrlY~lAR~G~~ve~~~R~v~I~~~~ll~~~~--~~ 166 (300)
T PRK04642 89 ADGQVLRERPVPDLSAAALQAALAPLIGRIRQRAPIYSALKQGGEPLYAKARRGEVIEAPVREVEVHAIEVLGYAA--PR 166 (300)
T ss_pred CCCCEEEecCCCCCCHHHHHHHHHHCCCcEEEeCCchHeEeECCeeHHHHHhCCCccccCcEEEEEEEEEEEEEeC--CE
Confidence 267899999999999999999999999964 7999999999999986 68
Q ss_pred EEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHH
Q 007467 227 VVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLL 306 (602)
Q Consensus 227 ~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L 306 (602)
+.|+|+||+||||||||+|||..|||||||++||||++|+|++++ ++||++|.++.. .. ..+...|+|++.+|
T Consensus 167 ~~~~v~cskGTYIRSL~~Dig~~Lg~~a~m~~L~Rt~~G~f~~~~-a~~l~~l~~~~~----~~--~~~~~~l~p~~~~l 239 (300)
T PRK04642 167 LRLRVTCGSGTYIRSLARDLGEVLGCGAHIAALRRLWVEPFRAPQ-MITLEALEAALE----AG--AEADTLLLPLAAGL 239 (300)
T ss_pred EEEEEEeCCCcCHHHHHHHHHHHhCCCEEEEEeEeeEECCcchHH-CccHHHHHHhHh----cc--cchhhcccCHHHHH
Confidence 999999999999999999999999999999999999999999986 689999986521 11 11456899999999
Q ss_pred hhhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEee
Q 007467 307 TSYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVV 383 (602)
Q Consensus 307 ~~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRVi 383 (602)
.+||+|.++++++.+|+||+.|..+. + ..+.+++++.+|+++|||.. . ..|. .+++|||
T Consensus 240 ~~lp~v~l~~~~~~~i~~G~~i~~~~-------~-~~~~v~i~~~~~~~lai~~~--~-------~~~~-l~p~rvf 298 (300)
T PRK04642 240 ADFPRIELDATLAARFRMGQRLRDAS-------F-PTGQVAVFGPDGSPAGLGLV--D-------ADGL-LSPQRLF 298 (300)
T ss_pred hhCCEEEeCHHHHHHHHCcCccCCCc-------C-CCCeEEEEcCCCeEEEEEEE--C-------CCCE-EEEEEEE
Confidence 99999999999999999999996432 1 12347778888899998854 1 1443 4678887
No 8
>PRK01550 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.1e-70 Score=564.89 Aligned_cols=263 Identities=31% Similarity=0.497 Sum_probs=229.6
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcC----
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKV---- 176 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t---- 176 (602)
+|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+||||++|+++.+|+|+|+++||..|
T Consensus 1 m~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~i~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D 80 (304)
T PRK01550 1 MNGVLLLHKPRGMTSHDCVFKLRKILRTKKVGHTGTLDPEVSGVLPICVGRATKIAEYLTDEGKTYEGEVTLGFSTTTED 80 (304)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHcCCCCcccCCCCCCcCeeEEEEEEChhhhhhHHhcCCCcEEEEEEEECCcccCCC
Confidence 4799999999999999999999999999999999999999999999999999999999999999999999999753
Q ss_pred --------------CCHHHHHHHHHhccccccccCcchhhcc-----------------cCCeEEEEEEEEEEEE----e
Q 007467 177 --------------PDVAKVARALEALTGAVFQRPPLISAVK-----------------RQLRIRTIYESKLLEY----D 221 (602)
Q Consensus 177 --------------~s~e~L~~aL~~F~G~I~Q~PP~ySAVK-----------------r~lR~rtIY~ieLLe~----d 221 (602)
.+.++|+++|.+|+|.|+|+||+||||| +++|.++||+++++++ +
T Consensus 81 ~~G~v~~~~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~ySAvKv~Gkr~YelAR~G~~ve~~~r~v~I~~i~ll~~~~~~~ 160 (304)
T PRK01550 81 ADGEVVETKPVDRPITREEIEAALASLTGTIEQIPPMYSAVKVNGKKLYEYARAGIEVERPVRQITIHEFVLLDSREDFE 160 (304)
T ss_pred CCCCEEeeccCCCCCCHHHHHHHHHhccceEEEeCChhHeEecCCHhHHHHHHCCCccccCCcceEEEEEEEEeeccccc
Confidence 3688999999999999999999999999 4589999999999974 3
Q ss_pred cCCceEEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccc
Q 007467 222 VDRHLVVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMP 301 (602)
Q Consensus 222 ~e~~~~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~P 301 (602)
.+.+.+.|+|+||+||||||||+|||..|||||||++||||++|+|++++ +++|++|.++. ++..+...|+|
T Consensus 161 ~~~~~~~~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~L~Rt~~G~f~~~~-a~~le~l~~~~-------~~~~l~~~l~p 232 (304)
T PRK01550 161 GETQSFRFRVTCSKGTYVRTLAVMIGEKLGYPAHMSHLVRTASGGFTLED-CLTFEEIEENV-------QAGTVESILYP 232 (304)
T ss_pred cCCceEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCCHHH-cCCHHHHHhhh-------hccchhhhcCC
Confidence 33478999999999999999999999999999999999999999999986 58999997642 12235678999
Q ss_pred hHHHHhhhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeE
Q 007467 302 LEVLLTSYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKR 381 (602)
Q Consensus 302 lE~~L~~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kR 381 (602)
++.+|.+||+|.++++++++|+||+.|..+++.. ..++.+++++.+|+++|||..... +.| ...++|
T Consensus 233 ~~~~l~~lp~v~l~~~~~~~i~~G~~i~~~~~~~-----~~~~~v~~~~~~g~~lai~~~~~~-------~~~-~l~p~r 299 (304)
T PRK01550 233 IDRALSHLPKLVIDEKQAEKVKNGAFLKNPLFIT-----VEAEPIVVLDYNDRCLAIYEHHPK-------KPG-LLKPEK 299 (304)
T ss_pred HHHHHhhCCEEEECHHHHHHHHCcCccccCcccc-----cCCCcEEEEcCCCeEEEEEEEecC-------CCC-EEEEEE
Confidence 9999999999999999999999999997654321 124457888889999999864211 234 356788
Q ss_pred eee
Q 007467 382 VVM 384 (602)
Q Consensus 382 ViM 384 (602)
||.
T Consensus 300 vf~ 302 (304)
T PRK01550 300 VLV 302 (304)
T ss_pred eec
Confidence 874
No 9
>PRK00130 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.8e-70 Score=560.23 Aligned_cols=256 Identities=29% Similarity=0.526 Sum_probs=228.6
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcC----
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKV---- 176 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t---- 176 (602)
+|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+|||+++|+++.+|+|+|+++||..|
T Consensus 1 m~Gil~i~KP~G~tS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D 80 (290)
T PRK00130 1 MDGILNILKPPGMTSFDVVRKIRKIAKIKKVGHTGTLDPLASGVLPVCLGKATKIVDYLMEGKKTYRAEIKLGVETDTYD 80 (290)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhCCCccCcCCCCCCCCeeEEEEEEChhhhhHHHhccCCcEEEEEEEECCcccCCC
Confidence 4799999999999999999999999999999999999999999999999999999999999999999999999864
Q ss_pred -------------CCHHHHHHHHHhccccccccCcchhhcc-----------------cCCeEEEEEEEEEEEEecCCce
Q 007467 177 -------------PDVAKVARALEALTGAVFQRPPLISAVK-----------------RQLRIRTIYESKLLEYDVDRHL 226 (602)
Q Consensus 177 -------------~s~e~L~~aL~~F~G~I~Q~PP~ySAVK-----------------r~lR~rtIY~ieLLe~d~e~~~ 226 (602)
.+.++|+++|.+|+|.|+|+||+||||| +++|.++||++++++|+. +.
T Consensus 81 ~~G~i~~~~~~~~~t~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~~~~--~~ 158 (290)
T PRK00130 81 REGEILKEKEVSHLTEEEIREAILSFQGEIDQVPPMYSALKINGKKLYELARQGIEVEREARKITIYDIEILEIDL--PY 158 (290)
T ss_pred CCCCEEEecCCCCCCHHHHHHHHHHccCeEEEECChHHeEecCCHhHHHHHHCCCccccCceEEEEEEEEEEEEeC--Ce
Confidence 2688999999999999999999999999 458999999999999986 68
Q ss_pred EEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHH
Q 007467 227 VVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLL 306 (602)
Q Consensus 227 ~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L 306 (602)
+.|+|+||+||||||||+|||..|||+|||++||||++|+|++++ ++||++|.+.. +...|+|++.+|
T Consensus 159 ~~~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~LrRt~~G~f~~~~-a~~l~~l~~~~-----------~~~~l~p~~~~l 226 (290)
T PRK00130 159 VIFDVKCSKGTYIRSLCFDIGEKLNCGAYMWNLIRTETGPFNIEN-SITLEDLNEEN-----------IEDYIIPIDKAL 226 (290)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCCHHH-cCCHHHHhhhh-----------hhhhccCHHHHH
Confidence 999999999999999999999999999999999999999999986 58999986531 456789999999
Q ss_pred hhhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEeee
Q 007467 307 TSYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVM 384 (602)
Q Consensus 307 ~~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRViM 384 (602)
.+||++.++++++++|+||++|..+++. .++..++.+++++.+|+++|||.. ..|. ..++|||+
T Consensus 227 ~~lp~v~l~~~~~~~i~~G~~i~~~~~~---~~~~~~~~v~~~~~~g~~lai~~~----------~~~~-~~p~~vf~ 290 (290)
T PRK00130 227 KHYPKVSLDEKFEKLLLNGVKIKDRRLL---DNIEENKLYRVYDEENKFIGIGMK----------NDKG-FKIEKLLV 290 (290)
T ss_pred hhCCEEEECHHHHHHHHCcCccccCccc---ccCCCCCEEEEEcCCCeEEEEEEE----------cCCE-EEEEEEEC
Confidence 9999999999999999999999765542 123345668888888999999863 2343 45778763
No 10
>PRK01851 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.7e-70 Score=561.22 Aligned_cols=254 Identities=32% Similarity=0.507 Sum_probs=226.0
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC---
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP--- 177 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~--- 177 (602)
+|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||||+||||++|+++.+|+|+|+++||..|+
T Consensus 15 ~~Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~~~~~lG~~TdT~D 94 (303)
T PRK01851 15 VDGVLLLDKPLGLSSNDALQRAKRLLRAKKAGHTGTLDPLATGLLPLCFGEATKFSQDLLDADKTYEATLRLGVRTSTGD 94 (303)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhCcccCCCCCCCCCCCceEEEEEECHHHhhhHHhcccCeEEEEEEEECCccCCCC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999998653
Q ss_pred -------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCceE
Q 007467 178 -------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHLV 227 (602)
Q Consensus 178 -------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~~ 227 (602)
+.++|.++|.+|+|.|+|+||+|||||++ +|.++||++++++|+. +.+
T Consensus 95 ~~G~v~~~~~~~~t~~~i~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~R~v~I~~i~ll~~~~--~~~ 172 (303)
T PRK01851 95 AEGEVLATRPVDCDPAALEAALARFTGEIRQVPPMYSALKKDGKPLYEYARAGITVEREARDVTIHALDLLACDL--PDV 172 (303)
T ss_pred CCCCEEeecCCCCCHHHHHHHHHhccCeeeeeCCchheEeeCCeeHHHHHhCCCccccCCcceEEEEEEEEEEeC--CEE
Confidence 58999999999999999999999999963 7999999999999986 689
Q ss_pred EEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHHh
Q 007467 228 VFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLLT 307 (602)
Q Consensus 228 ~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L~ 307 (602)
.|+|+||+||||||||+|||..|||+|||++||||++|+|++++ ++||++|.++. +..+...|+|++.+|.
T Consensus 173 ~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~-a~~l~~l~~~~--------~~~~~~~l~p~~~~l~ 243 (303)
T PRK01851 173 TIRVTCSKGTYIRTLAEDIGEALGCGAHLTALRRTGVGGLTLEQ-AVTLEALEAAD--------EAERDALLAPVDALLS 243 (303)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCchHH-cCCHHHHHhch--------hhhhhhhcCCHHHHHh
Confidence 99999999999999999999999999999999999999999986 58999997641 1112347899999999
Q ss_pred hhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEee
Q 007467 308 SYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVV 383 (602)
Q Consensus 308 ~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRVi 383 (602)
+||++.|+++++++|+||+.|.++. +..++.+++++.+|+++|||.. ..| ..+++|||
T Consensus 244 ~lp~v~l~~~~~~~i~~G~~i~~~~-------~~~~~~v~i~~~~g~~lai~~~----------~~~-~l~p~rvf 301 (303)
T PRK01851 244 TFPRVTLDADAAGRFLHGQRLRLSD-------LPDAPRVRVYDDPGRLLGVARW----------QEG-VLAPERLV 301 (303)
T ss_pred hCCEEEeCHHHHHHHHCcCcccccc-------CCCCCEEEEEcCCCeEEEEEEE----------cCC-EEEEEEEe
Confidence 9999999999999999999996432 1223457777778899999864 244 45678887
No 11
>PRK02755 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=6.4e-70 Score=557.09 Aligned_cols=256 Identities=31% Similarity=0.557 Sum_probs=224.4
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC---
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP--- 177 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~--- 177 (602)
+|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+||||++|+++ +|+|+|+++||..|+
T Consensus 2 m~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~i~vG~aTkl~~~l~~-~K~Y~a~~~lG~~TdT~D 80 (295)
T PRK02755 2 MFGFLNLDKPAGLTSHDCVARLRRLLRLKRVGHGGTLDPAATGVLPIALGKATRLLPYLPG-EKTYRGTIRFGVRTSTDD 80 (295)
T ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhCCCccccCCCCCCcCeeEEEEEEChhhhhHHHhCC-CcEEEEEEEECCcccCCC
Confidence 4799999999999999999999999999999999999999999999999999999999997 999999999998642
Q ss_pred --------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEec-CCc
Q 007467 178 --------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDV-DRH 225 (602)
Q Consensus 178 --------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~-e~~ 225 (602)
+.++|+++|.+|+|.|+|+||+|||||++ +|.++||+++|++|+. +.+
T Consensus 81 ~~G~v~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~ySAvKv~G~r~Y~lAR~G~~ve~~~r~v~I~~~~l~~~~~~~~~ 160 (295)
T PRK02755 81 LQGEILSSQPWPHLSLAEIETALPQFRGKIEQRPPQYSAIQVDGERLYALARRGETMELPARTVTIFRLQLLDWRPGDQP 160 (295)
T ss_pred CCCCEEEecCCCCCCHHHHHHHHHhccCeEEEeCChhheEeeCCHhHHHHHHCCCccccCceEEEEEEEEEEEEcCCCCc
Confidence 57899999999999999999999999953 7999999999999975 246
Q ss_pred eEEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHH
Q 007467 226 LVVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVL 305 (602)
Q Consensus 226 ~~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~ 305 (602)
.+.|+|+||+||||||||+|||..|||+|||++||||++|+|++++ ++||+||.+. + .. .. ..|+|++.+
T Consensus 161 ~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~m~~LrRt~~G~f~~~~-a~~l~~l~~~-~--~~---~~---~~llp~~~~ 230 (295)
T PRK02755 161 ELDLEIHCGAGTYIRSLARDLGAVLGTGGTLAALRRTQSLGFHLAQ-SLPLPELENQ-L--QA---GT---FPLLPPDLA 230 (295)
T ss_pred eEEEEEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHH-cCCHHHHHhh-h--hc---cc---ceecCHHHH
Confidence 8999999999999999999999999999999999999999999986 5899999653 1 11 11 268999999
Q ss_pred HhhhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEeee
Q 007467 306 LTSYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVM 384 (602)
Q Consensus 306 L~~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRViM 384 (602)
|.+||+|.++++++++|+||++|..++ +..++.+++++.+|+++|||... ..| ..+++|||.
T Consensus 231 l~~lp~v~l~~~~~~~l~~G~~i~~~~-------~~~~~~~~~~~~~g~~lai~~~~---------~~~-~~~p~rv~~ 292 (295)
T PRK02755 231 LQHLPRVQLSAEEAQRWCCGQRIPLEN-------LPAGGAVVVYDADGRFLGIGLIE---------QDG-LLKPKVVFE 292 (295)
T ss_pred HccCCEEEECHHHHHHHHCcCccccCc-------CCCCCeEEEEcCCCeEEEEEEEC---------CCC-eEEEEEEEe
Confidence 999999999999999999999996532 22345678888889998887531 134 346788875
No 12
>PRK05389 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=8.3e-70 Score=558.42 Aligned_cols=259 Identities=32% Similarity=0.460 Sum_probs=227.4
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC---
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP--- 177 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~--- 177 (602)
+|||||||||.|+|||+||+||||+|+.+|+||+|||||+||||||||+|+|||+++|+++.+|+|+|+++||..|+
T Consensus 12 ~~Gil~i~KP~G~TS~dvv~~vrk~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D 91 (305)
T PRK05389 12 ISGWLILDKPAGMTSTEAVSKVKWLFDAQKAGHAGTLDPLASGVLPIALGEATKTVPYVMDGTKRYRFTVAWGEERDTDD 91 (305)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhcccccCCcccCCCCCceEEEEEEChhhhhhHHhccCCcEEEEEEEECCcccCCC
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999998753
Q ss_pred -------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCceE
Q 007467 178 -------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHLV 227 (602)
Q Consensus 178 -------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~~ 227 (602)
+.++|+++|.+|+|.|+|+||+|||||++ +|.++||+|++++|+. .+.+
T Consensus 92 ~~G~v~~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~-~~~~ 170 (305)
T PRK05389 92 LEGEVTATSDVRPTDEEIRAALPAFTGEIMQVPPQFSAIKIDGERAYDLAREGETVELPARPVEIDRLTLVERPD-ADHA 170 (305)
T ss_pred CCCCEEEecCCCCCHHHHHHHHHhccceEEEeCCchheEEECCHhHHHHHHCCCccccCceEEEEEEEEEEEecC-CCeE
Confidence 58899999999999999999999999964 6999999999999962 3689
Q ss_pred EEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHHh
Q 007467 228 VFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLLT 307 (602)
Q Consensus 228 ~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L~ 307 (602)
.|+|+||+||||||||+|||..|||+|||++||||++|+|++++ +++|++|.++. ++..+...|+|++.+|.
T Consensus 171 ~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~-a~~l~~l~~~~-------~~~~~~~~l~p~~~~l~ 242 (305)
T PRK05389 171 VFEVECGKGTYVRSLARDLGRALGCYGHIAALRRTRVGPFTEED-AITLEKLEALA-------RFAALDALLLPVETALD 242 (305)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEEEeEEECCCcHHH-ccCHHHHHhcc-------cccchhhhcCCHHHHHc
Confidence 99999999999999999999999999999999999999999986 68999997641 22235678999999999
Q ss_pred hhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEeee
Q 007467 308 SYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVM 384 (602)
Q Consensus 308 ~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRViM 384 (602)
+||++.|+++++++|+||+.|.+++. ++..++.++++..+|+++|||.. ..|. .+++|||.
T Consensus 243 ~lp~v~l~~~~~~~l~~G~~i~~~~~-----~~~~~~~~~~~~~~g~~lai~~~----------~~~~-l~p~~v~~ 303 (305)
T PRK05389 243 DLPALALTDEQAARLRQGNPVLLRGR-----DAPLPEAEAYATAGGRLVALGEI----------RAGE-LRPKRVFN 303 (305)
T ss_pred cCCEEEeCHHHHHHHHCcCccccCcc-----ccCCCCcEEEEecCCEEEEEEEE----------cCCE-EEEEEEEe
Confidence 99999999999999999999976541 11122335666678999999864 2343 45788873
No 13
>PRK01528 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=3e-69 Score=551.39 Aligned_cols=256 Identities=28% Similarity=0.410 Sum_probs=225.0
Q ss_pred ccceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC--
Q 007467 100 IRYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP-- 177 (602)
Q Consensus 100 i~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~-- 177 (602)
+.|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+|||+++|+++.+|+|+|+++||..|+
T Consensus 1 ~~~GiL~i~KP~G~TS~dvv~~vrk~~~~kKvGH~GTLDP~AtGvL~v~vG~aTKl~~~l~~~~K~Y~~~~~lG~~TdT~ 80 (292)
T PRK01528 1 MSNYWLNIYKPRGISSAKLVSIVKKILGKVKIGHAGTLDVEAEGVLPLAVGEATKLVQLLIDAKKTYIFTVKFGKQTDSG 80 (292)
T ss_pred CCCEEEEEeCCCCCCHHHHHHHHHHHcCCCccCcCccCCCcCceEEEEEEChHhhhhHHHhcCCceEEEEEEECCcccCC
Confidence 358999999999999999999999999999999999999999999999999999999999999999999999998764
Q ss_pred --------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCce
Q 007467 178 --------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHL 226 (602)
Q Consensus 178 --------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~ 226 (602)
+.++|+++|.+|+|.|+|+||+|||+|++ +|.++||++++++|+.+.+.
T Consensus 81 D~~G~v~~~~~~~~~~e~l~~~l~~f~G~i~Q~PP~ySAvKv~G~raYelAR~G~~vel~~r~v~I~~i~ll~~~~~~~~ 160 (292)
T PRK01528 81 DYAGKVIATKDYIPSKEEAYAVCSKFIGNITQIPPAFSALKVNGVRAYKLAREGKEVELKPRNITIYDLKCLNFDEKNAT 160 (292)
T ss_pred CCCCCEEEecCCCCCHHHHHHHHHhccceEEeeCChhHeEEECCHhHHHHHhCCcccccCceeEEEEEEEEEEEcCCCcE
Confidence 58899999999999999999999999953 68999999999999864467
Q ss_pred EEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHH
Q 007467 227 VVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLL 306 (602)
Q Consensus 227 ~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L 306 (602)
+.|+|+||+||||||||+|||..|||||||++||||++|+|++++ ++||++|.+.. +..+...|+|++.+|
T Consensus 161 ~~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~-a~~l~~l~~~~--------~~~l~~~llp~~~~l 231 (292)
T PRK01528 161 ATYYTECSKGTYIRTLAEDLALSLQSLGFVIELRRTQVGIFKEEN-AIRIKSSDAIT--------KNSLEEKSIKIEAIL 231 (292)
T ss_pred EEEEEEECCCccHHHHHHHHHHHHCCceEEeEEEeEEECCccHHH-cCCHHHHHhhh--------hhhhhhccCCHHHHH
Confidence 999999999999999999999999999999999999999999986 58999996531 113567899999999
Q ss_pred hhhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEee
Q 007467 307 TSYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVV 383 (602)
Q Consensus 307 ~~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRVi 383 (602)
.+||++.++++.+.+|+||+.|.++. + ....++++..+|+++|||.. +.| ..+++|||
T Consensus 232 ~~lp~i~l~~~~~~~~~~G~~i~~~~----~----~~~~~~~~~~~~~~lai~~~----------~~~-~l~p~rvf 289 (292)
T PRK01528 232 DDILVLDATDEQAQKIKYGQKCLFDY----E----KDVNFLWVRYKGVLLAIGSL----------NKN-CFNSLRVF 289 (292)
T ss_pred hhCCeEEeCHHHHHHHHCcCccccCc----C----CCCceEEEEECCEEEEEEEE----------cCC-EEEEEEEE
Confidence 99999999999999999999986321 0 11124555568899988853 234 45678887
No 14
>PRK14123 tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.1e-68 Score=550.38 Aligned_cols=263 Identities=28% Similarity=0.463 Sum_probs=222.8
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC---
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP--- 177 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~--- 177 (602)
+|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+|||+++|+++.+|+|+|+++||..|+
T Consensus 2 m~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~~~~~lG~~TdT~D 81 (305)
T PRK14123 2 YNGILPVYKERGLTSHDVVFKLRKILKTKKIGHTGTLDPEVAGVLPVCIGNATRVSDYVMDMGKAYEATVSIGRSTTTED 81 (305)
T ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhCCCccccCcCCCCcCeeEEEEEEChhhhhHHHhcCCCcEEEEEEEECCcccCCC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999998642
Q ss_pred ----------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEE---Ee
Q 007467 178 ----------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLE---YD 221 (602)
Q Consensus 178 ----------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe---~d 221 (602)
+.++|+++|.+|+|.|+|+||+|||||++ .|.++||+|++++ |+
T Consensus 82 ~~G~vi~~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~~~~~~~~~ 161 (305)
T PRK14123 82 QTGDTLETKGVHSADFNKDDIDRLLEQFKGIIEQIPPMYSSVKVNGKKLYEYARNNETVERPKRKVNIKDIGRISELDFK 161 (305)
T ss_pred CCCCEEEeccCCcCCCCHHHHHHHHHhccCceeecCChhheEeeCCHhHHHHHhCCCcccCCceEEEEEEEEEeeccccc
Confidence 57899999999999999999999999943 6999999999884 65
Q ss_pred cCCceEEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccc
Q 007467 222 VDRHLVVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMP 301 (602)
Q Consensus 222 ~e~~~~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~P 301 (602)
...+.+.|+|+||+||||||||+|||..|||+|||++||||++|+|+++++ +||++|.++. ....+...|+|
T Consensus 162 ~~~~~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~l~~a-~~l~~l~~~~-------~~~~l~~~l~p 233 (305)
T PRK14123 162 ENECHFKIRVICGKGTYIRTLATDIGVKLGFPAHMSKLTRIESGGFVLKDS-LTLEQIKELH-------EQDSLQNKLFP 233 (305)
T ss_pred CCCceEEEEEEeCCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCchHHc-CCHHHHHhhh-------cccchhhccCC
Confidence 434689999999999999999999999999999999999999999999874 7999997531 11236778999
Q ss_pred hHHHHhhhceeecCHHH-HHHHHcCCcccCCccccccCccccCCEEEEEe-cCCcEEEEEEEEecccccccCCCCeEEee
Q 007467 302 LEVLLTSYKRLVVKDTT-VNAICYGAKLMIPGLLRFENDIEVGEEVVLMT-TKGEAVALGIAEMTTAVMATCDHGVVARI 379 (602)
Q Consensus 302 lE~~L~~lPrIvVkDsa-v~aI~nGakL~ipGilr~e~~Ie~ge~Vviit-~kGElIALGia~mss~~i~~~d~GiVak~ 379 (602)
++.+|.+||+|.|++++ ..+|+||++|....+. . . .++.++++. .+|+++|||...-. ..|. .++
T Consensus 234 ~~~~l~~lp~v~l~~~~~~~~i~~G~~i~~~~~~---~-~-~~~~~~~~~~~~g~~lai~~~~~~-------~~~~-l~p 300 (305)
T PRK14123 234 LEYGLKGLPSIKIKDSHIKKRILNGQKFNKNEFD---N-K-IKDQIVFIDDDSEKVLAIYMVHPT-------KESE-IKP 300 (305)
T ss_pred HHHHHhhCCEEEECHHHHHHHHHCcCcccccccc---c-C-CCCcEEEEECCCCeEEEEEEeecC-------CCCE-EEE
Confidence 99999999999999995 7899999999653321 0 1 123344444 46889999854201 1343 467
Q ss_pred eEeee
Q 007467 380 KRVVM 384 (602)
Q Consensus 380 kRViM 384 (602)
.|||+
T Consensus 301 ~rv~~ 305 (305)
T PRK14123 301 KKVFN 305 (305)
T ss_pred EEeEC
Confidence 78763
No 15
>PRK03287 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.8e-68 Score=546.93 Aligned_cols=250 Identities=31% Similarity=0.475 Sum_probs=223.6
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcC----
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKV---- 176 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t---- 176 (602)
.|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+|||+++|+++.+|+|+|+++||..|
T Consensus 8 ~~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~i~vG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~D 87 (298)
T PRK03287 8 GSGLVVVDKPAGMTSHDVVARCRRLFGTRKVGHAGTLDPMATGVLVLGVERATKLLGHLTLTDKSYTATIRLGQATTTDD 87 (298)
T ss_pred cCeEEEEeCCCCCCHHHHHHHHHHHhCCCCCCcCccCCCcceeEEEEEeChhhhhhHHHhcCCcEEEEEEEeCccccCCC
Confidence 5899999999999999999999999999999999999999999999999999999999999999999999999754
Q ss_pred -------------CCHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCC--
Q 007467 177 -------------PDVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDR-- 224 (602)
Q Consensus 177 -------------~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~-- 224 (602)
.+.++|+++|.+|+|.|+|+||+|||||++ +|.++||++++++|+...
T Consensus 88 ~~G~v~~~~~~~~it~~~i~~~l~~f~G~i~Q~PP~ySAvKv~Gkr~YelAR~G~~ve~~~R~v~I~~~~l~~~~~~~~~ 167 (298)
T PRK03287 88 AEGEVLASADASAVTDEAIAAAVAALTGEIMQVPSAVSAIKVDGKRAYARVRAGEEVELPARPVTVSRFEVLAVRRDGDF 167 (298)
T ss_pred CCCCEEeecCCCCCCHHHHHHHHHhCcCeEEEeCChhHeEEECCHHHHHHHhCCCccccCcEEEEeeeeEEEEEecCCCc
Confidence 268899999999999999999999999964 699999999999997532
Q ss_pred ceEEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHH
Q 007467 225 HLVVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEV 304 (602)
Q Consensus 225 ~~~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~ 304 (602)
+.+.|+|+||+||||||||+|||..|||+|||++||||++|+|++++ ++||++|.+.. ..++|++.
T Consensus 168 ~~~~~~v~cskGTYIRSL~~Dig~~Lg~~a~~~~LrRt~~G~f~l~~-a~~l~~l~~~~-------------~~l~p~~~ 233 (298)
T PRK03287 168 IDLDVEVDCSSGTYIRALARDLGAALGVGGHLTALRRTRVGPFTLDQ-ARTLDELAEEP-------------ALSLSLDE 233 (298)
T ss_pred cEEEEEEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHH-ccCHHHHHhhh-------------hhcCCHHH
Confidence 36899999999999999999999999999999999999999999986 58999997531 26789988
Q ss_pred -HHhhhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEee
Q 007467 305 -LLTSYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVV 383 (602)
Q Consensus 305 -~L~~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRVi 383 (602)
+|.+||++.++++++++|+||+.|..++ .++.+++++.+|+++|||.. +.| ..++.|||
T Consensus 234 ~~l~~lp~v~l~~~~~~~i~~G~~i~~~~---------~~~~~~~~~~~~~~lai~~~----------~~~-~l~p~~v~ 293 (298)
T PRK03287 234 AAARSFPRRDLTAAEAEALSHGRRLEPAG---------IDGVYAAVDPDGRVIALLEE----------RGG-RARSVVVF 293 (298)
T ss_pred HHHccCCeEEeCHHHHHHHHCcCccccCC---------CCCeEEEEcCCCeEEEEEEE----------cCC-EEEEEEEE
Confidence 7899999999999999999999996543 13457788888999998863 244 45688887
Q ss_pred e
Q 007467 384 M 384 (602)
Q Consensus 384 M 384 (602)
.
T Consensus 294 ~ 294 (298)
T PRK03287 294 R 294 (298)
T ss_pred c
Confidence 5
No 16
>PRK02484 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.5e-68 Score=547.00 Aligned_cols=255 Identities=29% Similarity=0.443 Sum_probs=220.7
Q ss_pred ccceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcC---
Q 007467 100 IRYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKV--- 176 (602)
Q Consensus 100 i~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t--- 176 (602)
++|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+|||+++|+++.+|+|+|+++||..|
T Consensus 1 ~m~Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~i~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~ 80 (294)
T PRK02484 1 MINGIINLKKEAGMTSHDAVFKLRKILQTKKIGHGGTLDPDVVGVLPIAVGKATRLIEYMTEAGKVYEGEITLGYSTTTE 80 (294)
T ss_pred CcceEEEEeCCCCCCHHHHHHHHHHHhCCCccccCCCCCCCCeeEEEEEEChhhhhhHHhccCCcEEEEEEEECCcccCC
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999999864
Q ss_pred ---------------CCHHHHHHHHHhccccccccCcchhhccc-----------------CCeEEEEEEEEEEE---Ee
Q 007467 177 ---------------PDVAKVARALEALTGAVFQRPPLISAVKR-----------------QLRIRTIYESKLLE---YD 221 (602)
Q Consensus 177 ---------------~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr-----------------~lR~rtIY~ieLLe---~d 221 (602)
.+.++|+++|.+|+|.|+|+||+|||||. +.|.++||++++++ |+
T Consensus 81 D~~G~vi~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~~~~~~ 160 (294)
T PRK02484 81 DASGEVVAETPLTQPLTEEEVDQAMTSFTGKITQIPPMYSAVKVNGKKLYEYARAGEEVERPKRQVTIYQFERTSPLSFD 160 (294)
T ss_pred CCCCCEEEeccCCCCCCHHHHHHHHHhccCeEEEeCChhHeEeeCCHhHHHHHHCCCccccCceEEEEEEEEEecccccc
Confidence 25789999999999999999999999993 47999999999984 64
Q ss_pred c-CCceEEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhcc
Q 007467 222 V-DRHLVVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIM 300 (602)
Q Consensus 222 ~-e~~~~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~ 300 (602)
. +.+.+.|+|+||+||||||||+|||..|||+|||++||||++|+|++++ ++||++|.+.. . +..+ ..|+
T Consensus 161 ~~~~~~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~L~Rt~~G~f~l~~-a~~l~~l~~~~---~----~~~l-~~l~ 231 (294)
T PRK02484 161 EDGLCRFSFRVACSKGTYVRTLAVDLGEKLGYAAHMSFLTRTASAGLTLEQ-AVTLEEIAEKV---E----AGEL-SFLQ 231 (294)
T ss_pred ccCCceEEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHH-cCCHHHHHhhh---h----ccch-heec
Confidence 2 2368999999999999999999999999999999999999999999986 58999997642 1 1123 4799
Q ss_pred chHHHHhhhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeee
Q 007467 301 PLEVLLTSYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIK 380 (602)
Q Consensus 301 PlE~~L~~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~k 380 (602)
|++.+|.+||++.++++++.+|+||+.|..+. .++.++++ .+|+++|||.. ..+ ..++.
T Consensus 232 p~~~~l~~lp~v~l~~~~~~~i~~G~~i~~~~---------~~~~~~~~-~~~~~lai~~~----------~~~-~~~p~ 290 (294)
T PRK02484 232 PIEYGVADLPKVDLTPEQFTEVSFGRFISLDS---------QEPKLAAF-YNDKLKAILEK----------RGQ-LYKPR 290 (294)
T ss_pred CHHHHHccCCeEEeCHHHHHHHHCcCccccCC---------CCCeEEEE-eCCeEEEEEEE----------cCC-EEEEE
Confidence 99999999999999999999999999996532 12335555 46788888753 133 35677
Q ss_pred Eeee
Q 007467 381 RVVM 384 (602)
Q Consensus 381 RViM 384 (602)
|||.
T Consensus 291 rvf~ 294 (294)
T PRK02484 291 KVLL 294 (294)
T ss_pred EEEC
Confidence 8763
No 17
>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=3.8e-68 Score=540.23 Aligned_cols=242 Identities=34% Similarity=0.557 Sum_probs=219.7
Q ss_pred eEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcC------
Q 007467 103 GIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKV------ 176 (602)
Q Consensus 103 GIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t------ 176 (602)
||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+||||++|+++.+|+|+|+++||..|
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 89999999999999999999999999999999999999999999999999999999999999999999999754
Q ss_pred -----------CCHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCceEE
Q 007467 177 -----------PDVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHLVV 228 (602)
Q Consensus 177 -----------~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~~~ 228 (602)
++.++|.++|++|+|.|+|+||+|||||++ +|.++||++++++|+...+.+.
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 368899999999999999999999999953 7999999999999986346899
Q ss_pred EEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHHhh
Q 007467 229 FWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLLTS 308 (602)
Q Consensus 229 f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L~~ 308 (602)
|+|+||+||||||||+|||..|||+|||++||||++|+|++++ +++|++|.++.+ .. +...++|++.+|.+
T Consensus 161 ~~v~cs~GTYIRsL~~Dig~~Lg~~a~~~~L~Rt~~G~f~~~~-a~~l~~l~~~~~-------~~-l~~~l~p~~~~l~~ 231 (277)
T cd02573 161 FEVECSKGTYIRSLARDLGKALGCGAHLSALRRTRSGPFTLED-AITLEELEALPE-------EG-LDELLLPIDAALSH 231 (277)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCeEEEEEEEEEECCccHHH-ccCHHHHHhhhh-------cc-cccccCCHHHHHhh
Confidence 9999999999999999999999999999999999999999986 689999987531 11 56689999999999
Q ss_pred hceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEE
Q 007467 309 YKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGI 360 (602)
Q Consensus 309 lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGi 360 (602)
||++.++++++++|+||+.|..+++ ..++.+++++.+|+++|||.
T Consensus 232 ~p~v~l~~~~~~~i~~G~~i~~~~~-------~~~~~~~~~~~~~~~l~i~~ 276 (277)
T cd02573 232 LPKVELDEEEAKRLRNGQKISLPEE-------PEDGLVRVYDPNGRFLALGE 276 (277)
T ss_pred CCEEEeCHHHHHHHHCcCccccCCC-------CCCCEEEEEeCCCeEEEEEE
Confidence 9999999999999999999975542 23455777877899999974
No 18
>PRK14122 tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.8e-66 Score=534.65 Aligned_cols=244 Identities=32% Similarity=0.457 Sum_probs=217.6
Q ss_pred eEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcC------
Q 007467 103 GIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKV------ 176 (602)
Q Consensus 103 GIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t------ 176 (602)
-|||||||.|||||+||+||||+|+.+|+||+|||||+||||||||||+||||++|+++.+|+|+|+++||..|
T Consensus 2 ~il~idKP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~i~iG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~D~e 81 (312)
T PRK14122 2 PVYAVDKPLGLTSHDVVNRARRALGTRRVGHTGTLDPLATGVLVLCTDDSTKLVPFLSAEDKEYLAWVSFGATTPTLDAE 81 (312)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcCeeeEEEEEChhhhhhHHhcCCCceEEEEEEECCcCCCCCCC
Confidence 38999999999999999999999999999999999999999999999999999999999999999999999864
Q ss_pred -----------CCHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecC-----
Q 007467 177 -----------PDVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVD----- 223 (602)
Q Consensus 177 -----------~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e----- 223 (602)
.+.++|+++|..|+|.|+|+||+|||||++ +|.++||++++++|+..
T Consensus 82 G~i~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~vel~~R~v~I~~i~ll~~~~~~~~~~ 161 (312)
T PRK14122 82 GPISEEAPVSPLDEKDLEAALPGFLGLTEQVPPQYSAIKVGGVRAYEAARAGGALELPARPVVYHELELLAFEPSVAPIP 161 (312)
T ss_pred CCEEEecCCCCCCHHHHHHHHHhCcCeEEEeCChHHeEEECCeEHHHHHhCCCccccCCeeEEEEEEEEEEecccccccc
Confidence 267899999999999999999999999964 69999999999999741
Q ss_pred ---------------------------CceEEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccCh
Q 007467 224 ---------------------------RHLVVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTM 276 (602)
Q Consensus 224 ---------------------------~~~~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL 276 (602)
.+.+.|+|+||+||||||||+|||..|||+|||++||||++|+|++++ +++|
T Consensus 162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~cSkGTYIRSLa~DiG~~Lg~~a~m~~LrRt~~G~f~l~~-a~~l 240 (312)
T PRK14122 162 RPIAPSAEGWTPDPRGRPVTLPEPLGEYPTALLRLVVGSGTYVRSFARDLGAALGVPAHLSGLVRTRVGRYGLED-AVSL 240 (312)
T ss_pred cccccccccccccccccccccccccccCceEEEEEEeCCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHH-cCCH
Confidence 146899999999999999999999999999999999999999999986 5899
Q ss_pred HHHHHHHhHhhcccchHHHhhhccchHHHHhhhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEE
Q 007467 277 HDVMDAQWLYDNYRDEAYLRRVIMPLEVLLTSYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAV 356 (602)
Q Consensus 277 ~dL~Da~~~~~~~~des~Lr~~I~PlE~~L~~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElI 356 (602)
++|.++ .++|++.+| +||++.++++++.+|+||+.|.++. .+.+++++.+|+++
T Consensus 241 ~~l~~~---------------~~~p~~~~l-~lp~v~l~~~~~~~i~~G~~i~~~~----------~~~~~~~~~~g~~~ 294 (312)
T PRK14122 241 EDLAEA---------------PGIPELDAL-DFPRVELSHAEARRVRQGKPPAIPA----------QGRVALVDPKGQLV 294 (312)
T ss_pred HHHhhh---------------hcCCHHHHc-CCCeEEcCHHHHHHHHCcCcccCCC----------CceEEEEcCCCeEE
Confidence 998642 257999888 7999999999999999999986431 24577888899999
Q ss_pred EEEEEEecccccccCCCCeEEeeeEeee
Q 007467 357 ALGIAEMTTAVMATCDHGVVARIKRVVM 384 (602)
Q Consensus 357 ALGia~mss~~i~~~d~GiVak~kRViM 384 (602)
|||.. +.| ..++.|||.
T Consensus 295 ai~~~----------~~~-~l~~~r~~~ 311 (312)
T PRK14122 295 AVAEG----------DGF-KLKIVRVWA 311 (312)
T ss_pred EEEEe----------cCC-EEEEEEEec
Confidence 98863 234 456788863
No 19
>PRK04099 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=8.3e-67 Score=528.91 Aligned_cols=225 Identities=28% Similarity=0.388 Sum_probs=204.2
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC---
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP--- 177 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~--- 177 (602)
+||||+||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+||||++|+++.+|+|+|+++||..|+
T Consensus 1 mngil~vdKP~g~tS~~vv~~ikk~~~~kKvGH~GTLDP~AtGvLiv~iG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~D 80 (273)
T PRK04099 1 MNRLFVANKPAGMSSNAFLSRLKRKYGVKKAGFSGTLDPFAKGVLIVAFGQYTKLFRFLKKTPKTYRATLWLGASSPSLD 80 (273)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhCCCccccCccCCCCCeeEEEEEEChHhhhHHHhccCCceEEEEEEECCcccCCC
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999998743
Q ss_pred -------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCceE
Q 007467 178 -------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHLV 227 (602)
Q Consensus 178 -------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~~ 227 (602)
+.++|+++|++|+|.|+|+||+|||||++ +|.++||++++++|+. +.+
T Consensus 81 ~e~i~~~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~~~ll~~~~--p~~ 158 (273)
T PRK04099 81 IENIESIQIIKPFDKDLIEKILKSLQGEISYTPPKFSAKKINGKRAYELARKGEEFELKPITMEIFDCKLLSYNH--PFL 158 (273)
T ss_pred CcceEEeccCCCCCHHHHHHHHHhCcceEEEeCChhhEEeeCCHhHHHHHhCCcccccCceeEEEEEEEEEEEeC--CEE
Confidence 57899999999999999999999999965 6999999999999986 789
Q ss_pred EEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHHh
Q 007467 228 VFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLLT 307 (602)
Q Consensus 228 ~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L~ 307 (602)
.|+|+||+||||||||+|||..|||+|||++||||++|+|+++++. .|.|++. |
T Consensus 159 ~f~v~cs~GTYIRSL~~Dig~~Lg~~a~m~~LrRt~~G~f~~~~~~------------------------~l~pl~~-l- 212 (273)
T PRK04099 159 TFEITVSEGAYIRSLGELIAKKLGVNGTLSSLERLSEGKFVYENEK------------------------ALNPLEY-L- 212 (273)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHCe------------------------ecCChhh-c-
Confidence 9999999999999999999999999999999999999999987531 3678887 3
Q ss_pred hhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEE
Q 007467 308 SYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIA 361 (602)
Q Consensus 308 ~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia 361 (602)
+||++.+++ .+++||||++|+++++...++ +.++++ .++|+||+..
T Consensus 213 ~l~~~~~~~-~~~~i~~G~ki~~~~~~~~~~-----g~~~~~--~~~f~~I~e~ 258 (273)
T PRK04099 213 NLPQNFYLG-DKNNLELGKKLFVEDLENKED-----GIYYIE--FEDFFSIIEI 258 (273)
T ss_pred ccceEechh-HHHHHhCCCeeccCccccCCC-----CEEEEE--cCceEEEEEE
Confidence 999999999 999999999999998765533 345555 4558877654
No 20
>PRK14846 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.1e-65 Score=529.78 Aligned_cols=222 Identities=29% Similarity=0.441 Sum_probs=205.0
Q ss_pred ccceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC--
Q 007467 100 IRYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP-- 177 (602)
Q Consensus 100 i~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~-- 177 (602)
+.|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||||+|||+++|+++.+|+|+++++||..|+
T Consensus 1 ~~nGiL~idKP~G~TS~dvv~~vrk~l~~kKVGH~GTLDP~AtGVL~i~vG~aTKl~~~l~~~~K~Y~a~~~lG~~TDT~ 80 (345)
T PRK14846 1 MSNYWLNIYKPRGISSAQLVSIVKKILGKTKIGHAGTLDVEAEGILPFAVGEATKLIHLLIDARKTYIFTVKFGMQTNSG 80 (345)
T ss_pred CCCeEEEEeCCCCCCHHHHHHHHHHHhCCCcCCcCccCCCcCceEEEEEEChhhhhhHHHhcCCceEEEEEEECCccCCC
Confidence 358999999999999999999999999999999999999999999999999999999999999999999999997653
Q ss_pred --------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCce
Q 007467 178 --------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHL 226 (602)
Q Consensus 178 --------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~ 226 (602)
+.++|+++|.+|+|.|+|+||+|||||++ +|.++||+|++++|+.+.+.
T Consensus 81 D~eG~ii~~~~~~~~~e~l~~~L~~f~G~i~Q~PP~ySAvKv~GkraYelARkG~~Vel~~R~V~I~~i~ll~f~~~~~~ 160 (345)
T PRK14846 81 DCAGKVIATKDCIPSQEEAYAVCSKFIGNVTQIPPAFSALKVNGVRAYKLAREGKKVELKPRNITIYDLKCLNFDEKNAT 160 (345)
T ss_pred CCCCCEEEecCCCCCHHHHHHHHHhCcceEEeeCChhheEeECChhHHHHHhCCCccccCceeEEEEEEEEEEEcCCCcE
Confidence 57899999999999999999999999953 68999999999999865568
Q ss_pred EEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHH
Q 007467 227 VVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLL 306 (602)
Q Consensus 227 ~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L 306 (602)
+.|+|.||+||||||||||||..|||+|||++||||++|+|++++ +++|++|.+.. . ..+...|+|++.+|
T Consensus 161 ~~~~v~CSkGTYIRSLa~DIG~~Lg~~A~l~~LrRtr~G~F~l~~-ai~le~L~~~~---~-----~~l~~~llpie~~l 231 (345)
T PRK14846 161 ATYYTECSKGTYIRTLAEDLALSLQSLGFVIELRRTQVGIFKEEN-AIRIKSPDEIT---K-----NALEEKSIKIEAIL 231 (345)
T ss_pred EEEEEEECCCCcHHHHHHHHHHHHCCCEEEeEEEeEEECCCcHHH-cCCHHHHHhhh---h-----cchhhccCCHHHHH
Confidence 999999999999999999999999999999999999999999986 58999997641 1 12456799999999
Q ss_pred hhhceeecCHHHHHHHHcCCcccC
Q 007467 307 TSYKRLVVKDTTVNAICYGAKLMI 330 (602)
Q Consensus 307 ~~lPrIvVkDsav~aI~nGakL~i 330 (602)
.+||+|.++++.+.+|+||++|..
T Consensus 232 ~~lp~v~l~~~~~~~i~nG~~i~~ 255 (345)
T PRK14846 232 DDILVLDATDSQAQQIKYGQKCLF 255 (345)
T ss_pred hhCCeEEeCHHHHHHHHCcCEEee
Confidence 999999999999999999999854
No 21
>PRK02193 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.3e-63 Score=505.40 Aligned_cols=236 Identities=28% Similarity=0.405 Sum_probs=204.6
Q ss_pred EEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC------
Q 007467 104 IINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP------ 177 (602)
Q Consensus 104 IInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~------ 177 (602)
||+||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+|||+++|+++.+|+|+++++||..|+
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 79999999999999999999999999999999999999999999999999999999999999999999997542
Q ss_pred -----------CHHHHHHHHHhccccccccCcchhhccc-----------------CCeEEEEEEEEEEEEecCCceEEE
Q 007467 178 -----------DVAKVARALEALTGAVFQRPPLISAVKR-----------------QLRIRTIYESKLLEYDVDRHLVVF 229 (602)
Q Consensus 178 -----------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr-----------------~lR~rtIY~ieLLe~d~e~~~~~f 229 (602)
+.++|+++|.+|+|.|+|+||+|||||. ++|.++||++++++|+.+.+.+.|
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 5789999999999999999999999994 268999999999999864458999
Q ss_pred EEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHHHhHhhcccchHHHhhhccchHHHHhhh
Q 007467 230 WISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDAQWLYDNYRDEAYLRRVIMPLEVLLTSY 309 (602)
Q Consensus 230 ~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da~~~~~~~~des~Lr~~I~PlE~~L~~l 309 (602)
+|.||+||||||||||||..|||+|||++||||++|+|++++ | ...++|++ +.+|
T Consensus 162 ~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~-------l----------------~~~l~p~~--~~~l 216 (279)
T PRK02193 162 MWVVSRGTYIRSLIHDLGKMLKTGAYMSDLERTKIGNLDKNF-------L----------------NQSLNPLD--LIDL 216 (279)
T ss_pred EEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCcCHHH-------H----------------HhhcChhh--HhhC
Confidence 999999999999999999999999999999999999999753 1 12467876 4599
Q ss_pred ceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEeeec
Q 007467 310 KRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVMD 385 (602)
Q Consensus 310 PrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRViM~ 385 (602)
|.+.++++.+..|+||+.|..+. ..+.+++++ +++++|||.. ..| ..+++|||..
T Consensus 217 p~v~l~~~~~~~i~nG~~i~~~~---------~~~~~~~~~-~~~~lai~~~----------~~~-~l~p~rv~~~ 271 (279)
T PRK02193 217 EQVKLDKEELELLLQGKKISFFA---------NSEEYALIF-KDEIVGIGKI----------INN-VLKSKKLFGN 271 (279)
T ss_pred CeEEeCHHHHHHHHCcCccccCC---------CCCeEEEEE-CCEEEEEEEe----------cCC-EEEEEEEEch
Confidence 99999999999999999985321 123355554 4678877753 234 3567888754
No 22
>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=4.8e-63 Score=476.33 Aligned_cols=180 Identities=80% Similarity=1.253 Sum_probs=172.6
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCCCHH
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVPDVA 180 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~s~e 180 (602)
.|||||||||.|+|||+||+||||+|+.+|+||+|||||+||||||||+|+|||+++|++..+|+|+|+++||..+ +.+
T Consensus 1 ~~g~l~i~Kp~g~tS~~~v~~~k~~~~~kkvGH~GTLDp~A~GvLiv~~g~~Tk~~~~~~~~~K~Y~a~v~~g~~i-t~e 79 (182)
T cd02572 1 KYGVINLDKPSGPSSHEVVAWIKRILGVEKTGHSGTLDPKVTGCLPVCIDRATRLVKSQQEAGKEYVCVMRLHDDV-DEE 79 (182)
T ss_pred CCeEEEEecCCCCCHHHHHHHHHHHhCCCccCcCCCCCCcCeeEEEEEECHHhhhhHHHhCCCCEEEEEEEECCcC-CHH
Confidence 3799999999999999999999999999999999999999999999999999999999999999999999999985 689
Q ss_pred HHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecCchhHHHHHHHHHHhCCceEeceee
Q 007467 181 KVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAGTYVRTMCVHLGLILGVGGHMQELR 260 (602)
Q Consensus 181 ~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLR 260 (602)
+|+++|..|+|.|+|+||+|||+|++.|.++||++++++|+...+.+.|+|+||+||||||||+|||..|||+|||.+||
T Consensus 80 ~l~~~l~~f~G~i~Q~pP~~SA~K~~~R~v~I~~i~l~~~~~~~~~~~~~v~cs~GTYIRsL~~dlg~~Lg~~a~l~~L~ 159 (182)
T cd02572 80 KVRRVLEEFTGAIFQRPPLISAVKRQLRVRTIYESKLLEYDGERRLVLFRVSCEAGTYIRTLCVHIGLLLGVGAHMQELR 159 (182)
T ss_pred HHHHHHHHCCCcEEeeCCHhheecCCceEEEEEEEEEEEEcCCCcEEEEEEEECCCcCHHHHHHHHHHHHCCCeEEEEEE
Confidence 99999999999999999999999999999999999999998645689999999999999999999999999999999999
Q ss_pred EEEEeCc-cccCcccChHHHHHH
Q 007467 261 RVRSGIL-GENDNMVTMHDVMDA 282 (602)
Q Consensus 261 RtrsG~F-seed~lvTL~dL~Da 282 (602)
||++|+| +++ ++++|+||.++
T Consensus 160 R~~~G~f~~~~-~~~~~~~~~~~ 181 (182)
T cd02572 160 RTRSGPFSEED-NMVTLHDVLDA 181 (182)
T ss_pred eEEEcCcCchh-ccccHHHHHhh
Confidence 9999999 665 57999999876
No 23
>PRK00020 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.1e-61 Score=482.66 Aligned_cols=179 Identities=32% Similarity=0.519 Sum_probs=169.7
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcC----
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKV---- 176 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t---- 176 (602)
++||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+||||++|+++.+|+|+|+++||..|
T Consensus 9 ~~Gil~vdKP~G~TS~dvv~~vkr~~~~kKvGH~GTLDP~AtGvLiv~iG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~D 88 (244)
T PRK00020 9 LDGVLLLDKPVGLSSNHALQRAKRTVDAAKAGHTGTLDPFATGLLVCCMGRATKISGRMLEADKTYQATLQFGEETDSGD 88 (244)
T ss_pred CCeEEEEecCCCCCHHHHHHHHHHHhCCCCCCcCCcCCCcCeeEEEEEECHHhhhhHHhccCCcEEEEEEEeCCcccCCC
Confidence 4799999999999999999999999999999999999999999999999999999999999999999999999853
Q ss_pred ---------------CCHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCC
Q 007467 177 ---------------PDVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDR 224 (602)
Q Consensus 177 ---------------~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~ 224 (602)
.+.++|.++|.+|+|.|+|+||+|||+|++ +|.++||++++++|+.
T Consensus 89 ~~G~v~~~~~~~~~~it~e~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~-- 166 (244)
T PRK00020 89 LTGHIVARAPDGFAGVEEAALRDVLSRFVGTIEQIPPMYSALKRDGKPLYEYARAGIELDRPPRQVTIRHIELLSFSG-- 166 (244)
T ss_pred CCCcEEEeccCccCCCCHHHHHHHHHhccCeEEEeCChhheEEECCeEHHHHHhCCcccccCCeeEEEEEEEEEEEeC--
Confidence 257899999999999999999999999975 6999999999999986
Q ss_pred ceEEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHHH
Q 007467 225 HLVVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMDA 282 (602)
Q Consensus 225 ~~~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~Da 282 (602)
+.+.|+|+||+||||||||+|||..|||+|||++||||++|+|++++ +++|++|...
T Consensus 167 ~~~~~~v~cSkGTYIRSL~~DiG~~Lg~~a~l~~LrRt~~G~f~l~~-a~~l~~l~~~ 223 (244)
T PRK00020 167 MQAQIDVACSKGTYIRTLAQDIGRALGCHAHLAALRRTHVGPFSLDR-AVTLEALQAM 223 (244)
T ss_pred CEEEEEEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeeEECCCChHH-cCCHHHHHhh
Confidence 68999999999999999999999999999999999999999999986 5899988653
No 24
>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=4.8e-61 Score=471.43 Aligned_cols=176 Identities=35% Similarity=0.553 Sum_probs=167.2
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC---
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP--- 177 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~--- 177 (602)
+|||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+||||++|+++.+|+|+++++||..|+
T Consensus 1 ~~G~l~v~KP~g~tS~~vv~~vkk~~~~kKvGH~GTLDP~AsGvLiv~vG~~Tkl~~~~~~~~K~Y~~~~~~G~~TdT~D 80 (209)
T TIGR00431 1 INGVLLLDKPQGMTSFDALAKVRRLLNVKKVGHTGTLDPFATGVLPILVGKATKLSPYLTDLDKEYRAEIRLGVRTDTLD 80 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCCCcCceEEEEEEChHhhhhHHHcCCCCeEEEEEEECCcCCCCC
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999998763
Q ss_pred -------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCceE
Q 007467 178 -------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHLV 227 (602)
Q Consensus 178 -------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~~ 227 (602)
+.+.|+++|.+|+|.++|+||+|||+|.+ .|.++||++++++|+. +.+
T Consensus 81 ~~G~i~~~~~~~~~~~~l~~~l~~f~G~~~Q~PP~ySA~Kv~G~raYelAR~g~~v~~~~r~v~I~~i~ll~~~~--~~~ 158 (209)
T TIGR00431 81 PDGQIVETRPVNPTTEDVEAALPTFRGEIEQIPPMYSALKVNGKRLYEYARQGIEVERKARPVTVYDLQFLKYEG--PEL 158 (209)
T ss_pred CCCCEEEecCCCCCHHHHHHHHHHccCcEEEECChhhEEeeCCHhHHHHHHCCCccccCcceeEEEEEEEEEEcC--CcE
Confidence 56899999999999999999999999953 7999999999999986 689
Q ss_pred EEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHH
Q 007467 228 VFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDV 279 (602)
Q Consensus 228 ~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL 279 (602)
.|+|+||+||||||||+|||..|||+|||++||||++|+|++++ +++|++|
T Consensus 159 ~~~v~cs~GTYIRsL~~Dig~~L~~~a~l~~L~Rt~~G~f~~~~-a~~l~~l 209 (209)
T TIGR00431 159 TLEVHCSKGTYIRTLARDLGEKLGCGAYVSHLRRTAVGDFPLDQ-SVTLEEL 209 (209)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHH-cCChhhC
Confidence 99999999999999999999999999999999999999999986 5788764
No 25
>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=1.9e-60 Score=467.54 Aligned_cols=176 Identities=47% Similarity=0.734 Sum_probs=167.5
Q ss_pred eEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC-----
Q 007467 103 GIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP----- 177 (602)
Q Consensus 103 GIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~----- 177 (602)
||||||||.|||||+||+||||+|+.+|+||+|||||+||||||||+|+|||+++|++..+|+|+++++||..|+
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 899999999999999999999999999999999999999999999999999999999999999999999998753
Q ss_pred ------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCceEE
Q 007467 178 ------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHLVV 228 (602)
Q Consensus 178 ------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~~~ 228 (602)
+.++|+++|.+|+|.|+|+||+|||||++ +|.++||++++++|+.+.+.+.
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 57899999999999999999999999965 7999999999999987546899
Q ss_pred EEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHH
Q 007467 229 FWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDV 279 (602)
Q Consensus 229 f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL 279 (602)
|+|.||+||||||||+|||..|||+|||++||||++|+|++++ +++|++|
T Consensus 161 ~~v~cs~GTYIRsL~~Dig~~Lg~~a~l~~L~R~~~G~f~~~~-a~~l~~l 210 (210)
T cd00506 161 VEVVCETGTYIRTLIHDLGLELGVGAHVTELRRTRVGPFKVEN-AVTLHHL 210 (210)
T ss_pred EEEEECCCcCHHHHHHHHHHHhCCcEEEEEEEEEEECCCchhh-ccchhhC
Confidence 9999999999999999999999999999999999999999986 5788764
No 26
>PRK00989 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=4.1e-60 Score=470.08 Aligned_cols=177 Identities=33% Similarity=0.541 Sum_probs=167.3
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhcccccccCCCCCCCCccceEEEEec-cccccccccCCCcEEEEEEEEcCcCC--
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDR-ATRLVKSQQGAGKEYVCVARLHDKVP-- 177 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~-ATKLv~~l~~~~KeYva~i~LG~~t~-- 177 (602)
.|||||||||.|+|||+||+||||+|+.+|+||+|||||+||||||||+|+ ||||++|+++.+|+|+++++||..|+
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 479999999999999999999999999999999999999999999999999 79999999999999999999998653
Q ss_pred --------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEecCCce
Q 007467 178 --------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYDVDRHL 226 (602)
Q Consensus 178 --------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d~e~~~ 226 (602)
+.++|+++|.+|+|.++|+||+|||||++ +|.++|| +++++|+. +.
T Consensus 88 D~~G~vi~~~~~~~~~~~i~~~l~~f~G~~~Q~PP~ySAvKv~GkraYelAR~G~~ve~~~r~v~i~-~~ll~~~~--p~ 164 (230)
T PRK00989 88 DCDGKIVGRSKKIPTLEEVLSAASYFQGEIQQVPPMFSAKKVQGKKLYEYARQGLSIERRPSTVQVH-LQLTKYEY--PL 164 (230)
T ss_pred CCCCcEEEecCCCCCHHHHHHHHHhCcceEEeeCChhHeEEECCHhHHHHHhCCCccccCcEEEEEE-EEEEEeeC--Ce
Confidence 57899999999999999999999999954 6899999 99999986 68
Q ss_pred EEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHHH
Q 007467 227 VVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVMD 281 (602)
Q Consensus 227 ~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~D 281 (602)
+.|+|+||+||||||||||||..|||+|||++||||++|+|++++ ++++++|..
T Consensus 165 ~~~~v~cs~GTYIRSL~~DiG~~Lg~~a~~~~LrRt~~G~f~l~~-a~~l~~l~~ 218 (230)
T PRK00989 165 LHFVVQCSKGTYIRSIAHELGNMLGCGAYLEELRRLRSGSFSIDQ-CIDGNLLDE 218 (230)
T ss_pred EEEEEEEcCCCcHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHH-cCCHHHHhc
Confidence 999999999999999999999999999999999999999999986 589988753
No 27
>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=1.2e-54 Score=447.07 Aligned_cols=169 Identities=25% Similarity=0.321 Sum_probs=159.9
Q ss_pred eEEEeeCCCCCCHHHHHHHHHHHhcc-----------------------------cccccCCCCCCCCccceEEEEeccc
Q 007467 103 GIINLDKPANPSSHEVVAWIKRILRV-----------------------------EKTGHSGTLDPKVTGNLIVCIDRAT 153 (602)
Q Consensus 103 GIInlDKP~G~TSheVVa~VKriL~~-----------------------------kKvGHsGTLDP~ATGVL~V~IG~AT 153 (602)
|||+||||.|||||+||+|||++|+. .|+||+|||||+||||||||||+||
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 89999999999999999999999986 7999999999999999999999999
Q ss_pred cccccccCCCcEEEEEEEEcCcC-----------------CCHHHHHHHHHhccccccccCcchhhcccC----------
Q 007467 154 RLVKSQQGAGKEYVCVARLHDKV-----------------PDVAKVARALEALTGAVFQRPPLISAVKRQ---------- 206 (602)
Q Consensus 154 KLv~~l~~~~KeYva~i~LG~~t-----------------~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~---------- 206 (602)
|+++|+++.+|+|+++++||..| ++.++|+++|..|+|.|+|+||+|||||++
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 99999999999999999999854 268999999999999999999999999964
Q ss_pred ---------CeEEEEEEEEEEEEecCCceEEEEEEeecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccccC
Q 007467 207 ---------LRIRTIYESKLLEYDVDRHLVVFWISCEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGEND 271 (602)
Q Consensus 207 ---------lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed 271 (602)
+|.++||++++++|+.+.+.+.|+|+||+||||||||+|||..|||+|||++||||++|+|++++
T Consensus 161 G~~v~~~~~~R~V~I~~~~l~~~~~~~~~~~~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~L~Rt~~g~f~~~~ 234 (312)
T cd02867 161 GKPLPRPIERRQVVVSELLVKDWIEPGPLFTRTVEEEGKQYERSVVKMLGKELKTFAEVTELTATAEGDPVEEV 234 (312)
T ss_pred CccccCCCCCceEEEEEEEEEeccCCCCeEEEEEEeCCcCCHHHHHHHHHHHhCCCeEEEEEEeeeecCccccc
Confidence 68999999999998754578999999999999999999999999999999999999999999873
No 28
>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=4.4e-47 Score=376.64 Aligned_cols=175 Identities=21% Similarity=0.280 Sum_probs=161.0
Q ss_pred eEEEeeCCCCCCHHHHHHHHHH----HhcccccccC-CCCCCCCccceEEEEeccccccccccCC--CcEEEEEEEEcCc
Q 007467 103 GIINLDKPANPSSHEVVAWIKR----ILRVEKTGHS-GTLDPKVTGNLIVCIDRATRLVKSQQGA--GKEYVCVARLHDK 175 (602)
Q Consensus 103 GIInlDKP~G~TSheVVa~VKr----iL~~kKvGHs-GTLDP~ATGVL~V~IG~ATKLv~~l~~~--~KeYva~i~LG~~ 175 (602)
|||+||||+|++||++++.+++ .++..++||+ |||||+|||||++|+|++||+++++... .|+|+++++||..
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 8999999999999999998776 5577889999 9999999999999999999999999885 6999999999986
Q ss_pred CC-----------------CHHHHHHHHHhccccccccCcchhhcccC-----------------CeEEEEEEEEEEEEe
Q 007467 176 VP-----------------DVAKVARALEALTGAVFQRPPLISAVKRQ-----------------LRIRTIYESKLLEYD 221 (602)
Q Consensus 176 t~-----------------s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~-----------------lR~rtIY~ieLLe~d 221 (602)
|+ +.++|+++|..|+|.+.|.||.|||+|.+ +|.++||+++|++|+
T Consensus 81 TdT~D~~G~v~~~~~~~~it~~~i~~~l~~f~g~~~q~~p~~sa~kv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~~~ 160 (226)
T cd02868 81 TENFFHTGRVIEKTTYDHITREKIERLLAVIQSGHQQKAFELCSVDDQSQQAAELAARGLIRPADKSPPIIYGIRLLEFR 160 (226)
T ss_pred cCCCCCCCCEEEecCCCCCCHHHHHHHHHHhhCCceEECCceEEEeeCCHHHHHHHHCCCccCCCCcceEEEEEEEEEec
Confidence 52 68899999999999999999999999942 699999999999997
Q ss_pred cCCceEEEEEEeecCc--hhHHHHHHHHHHhCCceEeceeeEEEEeCccccCcccChHHHH
Q 007467 222 VDRHLVVFWISCEAGT--YVRTMCVHLGLILGVGGHMQELRRVRSGILGENDNMVTMHDVM 280 (602)
Q Consensus 222 ~e~~~~~f~V~Cs~GT--YIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fseed~lvTL~dL~ 280 (602)
. +.+.|+|.||+|| ||||||+|||..|||+|||++||||++|+|++++ +++++++.
T Consensus 161 ~--p~~~~~v~cskGT~~YIRsL~~Dig~~Lg~~a~~~~L~R~~~G~f~~~~-a~~~~~~~ 218 (226)
T cd02868 161 P--PEFTLEVQCINETQEYLRKLIHEIGLELRSSAVCTQVRRTRDGPFTVDD-ALLRKQWN 218 (226)
T ss_pred C--CeEEEEEEEECCCHHHHHHHHHHHHHHhCCcEEEEEEEeeEECCCCHHH-cccHHHcC
Confidence 6 6899999999999 9999999999999999999999999999999987 47887653
No 29
>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=1.3e-37 Score=291.99 Aligned_cols=115 Identities=38% Similarity=0.621 Sum_probs=105.3
Q ss_pred HHHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCC-----------------CHHHHHHH
Q 007467 123 KRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVP-----------------DVAKVARA 185 (602)
Q Consensus 123 KriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~-----------------s~e~L~~a 185 (602)
||+|+.+|+||+|||||+||||||||+|+||||++++++.+|+|+++++||..|+ +.++|+++
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 7899999999999999999999999999999999999999999999999998763 57999999
Q ss_pred HHhccccccccCcchhhccc-----------------CCeEEEEEEEEEEEEecCCceEEEEEEeecCchh
Q 007467 186 LEALTGAVFQRPPLISAVKR-----------------QLRIRTIYESKLLEYDVDRHLVVFWISCEAGTYV 239 (602)
Q Consensus 186 L~~F~G~I~Q~PP~ySAVKr-----------------~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTYI 239 (602)
|..|+|.|+|+||+|||||. ++|.++||+|+|++|+. +.+.|+|+||+||||
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 LAKFQGEIEQVPPMYSAVKINGKRAYELARKGEEVELPPRPVTIYSIELLSFNP--PEFTFEVHCSKGTYI 149 (149)
T ss_dssp HHHTSEEEEES-SSSSSSECTTCEHHHHHHTTSSTSSS-EEEEEEEEEEEEEET--TEEEEEEEECTTTTH
T ss_pred HHhCcCCEeeeCchheeEcCCCccHHHHHHCCCccCCCCeeEEEEEEEEEEEcC--CeEEEEEEEcCcccC
Confidence 99999999999999999994 47999999999999997 689999999999998
No 30
>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=99.90 E-value=3.9e-25 Score=178.39 Aligned_cols=59 Identities=73% Similarity=1.328 Sum_probs=47.6
Q ss_pred CCCCcchhcccccceeeeccCcCCCCCCCCCCCCCccccccceEEEeeCCCCCCHHHHH
Q 007467 61 DTSQWPILLKNYDRLNVRTGHYTPLPNGYSPLKRPLVDYIRYGIINLDKPANPSSHEVV 119 (602)
Q Consensus 61 ~~~~wplllkn~~~l~vr~~~~t~~~~g~~p~~R~i~~~i~nGIInlDKP~G~TSheVV 119 (602)
||++||||||||++|+||++|||++.|||+|++|+|.+|+.+||||||||+||||||||
T Consensus 1 d~s~wpLlLkn~~~~~vr~~~~T~~~~G~~P~~R~i~~~i~~GvinlDKP~gPtSHeVv 59 (59)
T PF08068_consen 1 DTSEWPLLLKNYDELNVRSEHYTPPPYGCSPLKRPIEEYIKYGVINLDKPSGPTSHEVV 59 (59)
T ss_dssp --TTSGGGCTTGGGEEESST----TTSS--GGGS-HHHHHHTEEEEEEE-SSS-HHHHH
T ss_pred CcccCcccccCcceeEEEecccCCcccCcCcccCCHHHHHhCCcEEeeCCCCCCccccC
Confidence 78999999999999999999999999999999999999999999999999999999997
No 31
>KOG2559 consensus Predicted pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=99.75 E-value=5.2e-18 Score=170.12 Aligned_cols=180 Identities=20% Similarity=0.279 Sum_probs=146.6
Q ss_pred cceEEEeeCCCCCCHHHHHHHHHHHhc----------------------------------------------------c
Q 007467 101 RYGIINLDKPANPSSHEVVAWIKRILR----------------------------------------------------V 128 (602)
Q Consensus 101 ~nGIInlDKP~G~TSheVVa~VKriL~----------------------------------------------------~ 128 (602)
++|+|+||||+|+.|..+...|-+.+- .
T Consensus 9 l~Gvl~VYKpsGik~khlr~~i~~~i~k~~~~~~~~s~~q~~~~~~g~~eg~e~~~~~~~~~sV~~~~nhPlv~g~s~~~ 88 (318)
T KOG2559|consen 9 LSGVLCVYKPSGIKSKHLRKLITRKIAKSVSDIESTSRIQLPLISIGVIEGHEKSLVVVGRNSVADYRNHPLVSGRSIRQ 88 (318)
T ss_pred hcceeEEecCCCccHHHHHHHHHHHHHhhhcccCCCcccccceEeecccccccceeeeecccchhhhccCCcccCcchhh
Confidence 589999999999999999887765431 1
Q ss_pred cccccCCCCCCCCccceEEEEeccccccccccC--CCcEEEEEEEEcCc----CCCHHHHHHHHHhccccccccCcchhh
Q 007467 129 EKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQG--AGKEYVCVARLHDK----VPDVAKVARALEALTGAVFQRPPLISA 202 (602)
Q Consensus 129 kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~--~~KeYva~i~LG~~----t~s~e~L~~aL~~F~G~I~Q~PP~ySA 202 (602)
.++|-...||-.++|||++++|-++++++-++. +.-.|+--.++-.. ..+.+.|.++|..++|...---.+|+.
T Consensus 89 ~~V~v~h~l~~~~sgvl~~gVghgc~~i~~~mlg~aT~~~r~Dgri~~~~n~dhVs~~ri~~vla~lq~shq~a~f~~~n 168 (318)
T KOG2559|consen 89 EDVQVVHVLPLATSGVLLFGVGHGCESIPELMLGSATNVYRIDGRIKKSENIDHVSKHRIEKVLARLQSSHQSASFRHAN 168 (318)
T ss_pred cceeeEEeecccccceEEEecCcchhhhhhhhhccchhccCccceEeeecccchhhHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 256667789999999999999999999876653 45667766666432 347899999999999987766777787
Q ss_pred cccC------------CeE-----EEEEEEEEEEEecCCceEEEEEEeecCc--hhHHHHHHHHHHhCCceEeceeeEEE
Q 007467 203 VKRQ------------LRI-----RTIYESKLLEYDVDRHLVVFWISCEAGT--YVRTMCVHLGLILGVGGHMQELRRVR 263 (602)
Q Consensus 203 VKr~------------lR~-----rtIY~ieLLe~d~e~~~~~f~V~Cs~GT--YIRSL~~DIG~~LG~gAhM~eLRRtr 263 (602)
|-.+ +|+ ..||.|.|+-|+. |.|++++.|+.-| |+|.|+||||+.||+-|+|+.|||++
T Consensus 169 vDl~tqEAyElA~RGl~Rp~~~s~~ivygI~l~~F~~--P~F~le~qc~~Etqe~Lr~LVh~igl~L~T~a~c~qlrr~r 246 (318)
T KOG2559|consen 169 VDLETQEAYELARRGLPRPQLPSSQIVYGIDLNWFRS--PKFSLETQCSGETQEMLRQLVHHIGLNLGTEATCIQLRRQR 246 (318)
T ss_pred CCchhHHHHHHHHccCCCcCCCCCceEEEEeeeeecC--CccEEEEeeccccHHHHHHHHHHHhhcccceeeeeeeeeec
Confidence 7643 343 6899999999987 6799999999975 99999999999999999999999999
Q ss_pred EeCccccCcccChHHHHHHHhHhhc
Q 007467 264 SGILGENDNMVTMHDVMDAQWLYDN 288 (602)
Q Consensus 264 sG~Fseed~lvTL~dL~Da~~~~~~ 288 (602)
.|+|+.+++ |+..+|-..|
T Consensus 247 ~g~F~~d~a------LLr~qw~L~n 265 (318)
T KOG2559|consen 247 FGPFGSDNA------LLRKQWNLQN 265 (318)
T ss_pred cCCCCccHH------HHHHhhccHH
Confidence 999999865 4556664433
No 32
>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=99.62 E-value=9.9e-16 Score=162.92 Aligned_cols=122 Identities=24% Similarity=0.355 Sum_probs=106.0
Q ss_pred Ccc-ceEEEEeccccc-cccc--cCCCcEEEEEEEEcCcCCCHHHHHHHHHhccc-cccccCcchhhcccC--CeEEEEE
Q 007467 141 VTG-NLIVCIDRATRL-VKSQ--QGAGKEYVCVARLHDKVPDVAKVARALEALTG-AVFQRPPLISAVKRQ--LRIRTIY 213 (602)
Q Consensus 141 ATG-VL~V~IG~ATKL-v~~l--~~~~KeYva~i~LG~~t~s~e~L~~aL~~F~G-~I~Q~PP~ySAVKr~--lR~rtIY 213 (602)
+.| |-+..+.-+|+- +..+ ....|+|+|.+.++..+ +.++|.++++.|.| .|+|+||..++++|. .|.++||
T Consensus 250 ~~g~V~v~~L~~~~~~~v~~ik~~~~~K~Y~alV~~~~~v-~~e~L~~~~~~l~g~~I~QrTP~RV~hRRa~~~R~R~I~ 328 (388)
T TIGR01213 250 GKGKVEVEGLKFATREEVEEVKEEKHRKVYRALVEVDGPV-SDEDLEELCKELEGATIYQRTPLRVLHRRADLVRERRVY 328 (388)
T ss_pred cCCCEEEEEeEEEcHHHHHHHhccCCceEEEEEEEECCCC-CHHHHHHHHHhccCCEEEccCCceEEEecCCCceEEEEE
Confidence 356 777777766553 3333 23579999999999988 58999999999999 799999999999998 8999999
Q ss_pred EEEEEEEecCCceEEEEEEeecCchhHHHHHH--------HHHHhCCceEeceeeEEEEe
Q 007467 214 ESKLLEYDVDRHLVVFWISCEAGTYVRTMCVH--------LGLILGVGGHMQELRRVRSG 265 (602)
Q Consensus 214 ~ieLLe~d~e~~~~~f~V~Cs~GTYIRSL~~D--------IG~~LG~gAhM~eLRRtrsG 265 (602)
+++++.+++ +.+.|+|.|++|||||.|||. ||.+||++|+|.+|.-+.+.
T Consensus 329 ~i~~~~i~~--~~~~l~v~~qaGtYIKElV~GD~GRT~PSl~~lLg~~a~i~eLDV~~V~ 386 (388)
T TIGR01213 329 QVDLSGLDG--NHAELIIEAEGGLYIKELVSGDGGRTRPSVSEVLGVEAVCKELDVLKVC 386 (388)
T ss_pred EEEEEEEcC--CEEEEEEEecCCCEEEEEEcCCCCCcCCcHHHHhCCCceEEEeEEEEEe
Confidence 999999986 689999999999999999997 99999999999999988763
No 33
>PRK14554 putative pseudouridylate synthase; Provisional
Probab=99.50 E-value=6e-14 Score=151.01 Aligned_cols=121 Identities=26% Similarity=0.380 Sum_probs=105.4
Q ss_pred cc-ceEEEEeccccc-ccccc--CCCcEEEEEEEEcCcCCCHHHHHHHHHhcccc-ccccCcchhhcccC--CeEEEEEE
Q 007467 142 TG-NLIVCIDRATRL-VKSQQ--GAGKEYVCVARLHDKVPDVAKVARALEALTGA-VFQRPPLISAVKRQ--LRIRTIYE 214 (602)
Q Consensus 142 TG-VL~V~IG~ATKL-v~~l~--~~~KeYva~i~LG~~t~s~e~L~~aL~~F~G~-I~Q~PP~ySAVKr~--lR~rtIY~ 214 (602)
+| |-+..+.-+|+- +..+. ...|+|+|++.++..+ +.++|.+++..|.|. |+|+||..++++|. .|.++||+
T Consensus 284 ~g~V~v~~l~~~~~~~~~~ik~~~~~K~YralV~~~~~v-~~e~l~~~~~~l~~~~I~QrTP~RV~hRR~~~~R~R~I~~ 362 (422)
T PRK14554 284 DGKVEVENLRFATRKEVERIKEEKASKTYRALVESDEPV-SEEELEKLLDELSGATIEQRTPRRVKHRRADLVRVRKVYD 362 (422)
T ss_pred CCCEEEEEEEEEcHHHHHHHhcCCCceEEEEEEEECCCC-CHHHHHHHHHhccCcEeeccCcHhhhhhccccceeeEEEE
Confidence 44 777777766654 33342 2459999999999987 589999999999998 99999999999997 79999999
Q ss_pred EEEEEEecCCceEEEEEEeecCchhHHHHHH--------HHHHhCCceEeceeeEEEEe
Q 007467 215 SKLLEYDVDRHLVVFWISCEAGTYVRTMCVH--------LGLILGVGGHMQELRRVRSG 265 (602)
Q Consensus 215 ieLLe~d~e~~~~~f~V~Cs~GTYIRSL~~D--------IG~~LG~gAhM~eLRRtrsG 265 (602)
+++..++. +.+.|+|.|++|||||.|||. ||..||++|+|.+|.-+.+.
T Consensus 363 i~~~~i~~--~~~~l~i~~eaGtYIKElv~GD~GRT~Psl~~lLg~~a~~~eLDV~~V~ 419 (422)
T PRK14554 363 ISGELIDD--KHFELRIKCEGGLYIKELISGDEGRTTPSLSELLGTPAIVTELDVLDVE 419 (422)
T ss_pred EEEEEEcC--cEEEEEEEEecCCEEEEEEeCCCCcccccHHHHhCCCceEEEeeEEEEe
Confidence 99999976 689999999999999999996 99999999999999988764
No 34
>PF01472 PUA: PUA domain; InterPro: IPR002478 The PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was named after the proteins in which it was first found []. PUA is a highly conserved RNA-binding motif found in a wide range of archaeal, bacterial and eukaryotic proteins, including enzymes that catalyse tRNA and rRNA post-transcriptional modifications, proteins involved in ribosome biogenesis and translation, as well as in enzymes involved in proline biosynthesis [, ]. The structures of several PUA-RNA complexes reveal a common RNA recognition surface, but also some versatility in the way in which the motif binds to RNA []. PUA motifs are involved in dyskeratosis congenita and cancer, pointing to links between RNA metabolism and human diseases [].; GO: 0003723 RNA binding; PDB: 1ZE2_A 1ZE1_A 1R3E_A 2AB4_A 3R90_D 2J5T_A 2J5V_B 1Q7H_A 2APO_A 2RFK_A ....
Probab=99.20 E-value=2e-11 Score=102.02 Aligned_cols=74 Identities=34% Similarity=0.626 Sum_probs=68.4
Q ss_pred ceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEee
Q 007467 310 KRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVV 383 (602)
Q Consensus 310 PrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRVi 383 (602)
|+|+|+++++++|++|+.|+.||+..++.+|+.|+.|.+++.+|++||+|++.|++.+|..+.+|.++++.+++
T Consensus 1 g~vvVd~~a~~~i~~Ga~L~~~GV~~~~~~f~~gd~V~i~~~~g~~ia~G~a~~ss~ei~~~~~g~~~~~~~~l 74 (74)
T PF01472_consen 1 GRVVVDDGAVEAILNGASLFAPGVVEVDGDFRKGDEVAIVDEDGEVIAVGRANMSSEEIKKMKKGKAVKIRHVL 74 (74)
T ss_dssp EEEEE-HHHHHHHHTTSEEEGGGEEEEETT--TTSEEEEEETTSSEEEEEEESSTHHHHHHHSSSEEEEEEEEC
T ss_pred CEEEECccHHHHHHcCCCcchHHhEECCCCcCCCCEEEEEcCCCeEEEEEEEecCHHHHHHHcCCcEehhhhhC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999998874
No 35
>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=99.20 E-value=4.8e-11 Score=101.76 Aligned_cols=86 Identities=17% Similarity=0.249 Sum_probs=71.6
Q ss_pred eeCCCCCCHHHHHHHHH-HHhcccccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEEcCcCCCHHHHHHH
Q 007467 107 LDKPANPSSHEVVAWIK-RILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARLHDKVPDVAKVARA 185 (602)
Q Consensus 107 lDKP~G~TSheVVa~VK-riL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~LG~~t~s~e~L~~a 185 (602)
|+||.+.||+.+..+.+ ..++..++||+|+||+.|+|+++|| ++|+.+++
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 68999999999999986 5678899999999999999999999 99999999
Q ss_pred HHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecCchhHHHHHHHH
Q 007467 186 LEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAGTYVRTMCVHLG 247 (602)
Q Consensus 186 L~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTYIRSL~~DIG 247 (602)
+..+++...+.....+.|++.|..|.|+|.++++||
T Consensus 52 --------------------------~~~~~~~~~~~~~~~~~l~f~l~~~~yat~~l~el~ 87 (87)
T cd01291 52 --------------------------VKPLNLKWPEERKRALVLEFTLPRGSYATMLLRELG 87 (87)
T ss_pred --------------------------EecceeEEcccccceEEEEEEcCCcchHHHHHHHhC
Confidence 344444444332246888999999999999999875
No 36
>TIGR00451 unchar_dom_2 uncharacterized domain 2. This uncharacterized domain is found a number of enzymes and uncharacterized proteins, often at the C-terminus. It is found in some but not all members of a family of related tRNA-guanine transglycosylases (tgt), which exchange a guanine base for some modified base without breaking the phosphodiester backbone of the tRNA. It is also found in rRNA pseudouridine synthase, another enzyme of RNA base modification not otherwise homologous to tgt. It is found, again at the C-terminus, in two putative glutamate 5-kinases. It is also found in a family of small, uncharacterized archaeal proteins consisting mostly of this domain.
Probab=99.07 E-value=3.3e-10 Score=100.57 Aligned_cols=76 Identities=29% Similarity=0.470 Sum_probs=71.0
Q ss_pred hhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecC-CcEEEEEEEEecccccccCCCCeEEeeeEee
Q 007467 308 SYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTK-GEAVALGIAEMTTAVMATCDHGVVARIKRVV 383 (602)
Q Consensus 308 ~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~k-GElIALGia~mss~~i~~~d~GiVak~kRVi 383 (602)
.+|.|+|++.++.+|++|+.|+.||+...+.+|+.|+.|.+++.+ |++||+|++.|++.+|..+.+|+++++.+.+
T Consensus 29 ~~~~v~vd~~a~~~l~~Ga~L~~pGV~~~~~~~~~gd~V~I~~~~~~~~iavG~a~~~s~e~~~~~~G~~v~~~h~~ 105 (107)
T TIGR00451 29 DKKIVVVDNGAVKFLKNGADVMRPGIVDADEDIKEGDDVVVVDENKDRPLAVGIALMSGEEMKEMDKGKAVKNIHHI 105 (107)
T ss_pred hCCEEEEChhHHHHHHCCccccCCeeEeCCCCcCCCCEEEEEECCCCeEEEEEEEecCHHHHHhcCCCeEEEEEEec
Confidence 469999999999999999999999999998899999999999887 9999999999999999999999999877654
No 37
>TIGR03684 arCOG00985 arCOG04150 universal archaeal PUA-domain protein. This universal archaeal protein contains a domain possibly associated with RNA binding (pfam01472, TIGR00451).
Probab=98.88 E-value=6e-09 Score=97.92 Aligned_cols=74 Identities=27% Similarity=0.419 Sum_probs=68.6
Q ss_pred hceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecC-CcEEEEEEEEecccccccCCCCeEEeeeEe
Q 007467 309 YKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTK-GEAVALGIAEMTTAVMATCDHGVVARIKRV 382 (602)
Q Consensus 309 lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~k-GElIALGia~mss~~i~~~d~GiVak~kRV 382 (602)
+|+|+|++.++.+|++|+.||.||+...+.+|..|+.|+|++.+ |++||+|++.|++.+|....+|+++++.+.
T Consensus 69 ~~~v~Vd~~a~~~l~~Ga~lm~pGV~~~~~~~~~Gd~V~I~~~~~~~~vavG~a~~ss~ei~~~~kG~av~~~h~ 143 (150)
T TIGR03684 69 KNRVVVDEGAVKFIINGADIMAPGIVSADPSIKEGDIVFVVDETHRKPLAVGIALMDAEEMEEEKKGKAVKNIHH 143 (150)
T ss_pred CCEEEECccHHHHHhcCcccccCceecCCCCCCCCCEEEEEECCCCeEEEEEEEeeCHHHHhhcCCCeEEEEEEE
Confidence 58999999999999999999999999988899999999999887 999999999999999999999999865443
No 38
>COG2016 Predicted RNA-binding protein (contains PUA domain) [Translation, ribosomal structure and biogenesis]
Probab=98.85 E-value=3.4e-09 Score=101.62 Aligned_cols=79 Identities=28% Similarity=0.444 Sum_probs=70.8
Q ss_pred hhceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecC-CcEEEEEEEEecccccccCCCCeEEeeeEeeecC
Q 007467 308 SYKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTK-GEAVALGIAEMTTAVMATCDHGVVARIKRVVMDR 386 (602)
Q Consensus 308 ~lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~k-GElIALGia~mss~~i~~~d~GiVak~kRViM~~ 386 (602)
+++.|+|+..|+..|+|||.||+|||+.++.+|..|+.|++.+.+ |.+||+|+++|++.+|...++|.+++ .++.-.
T Consensus 75 ~~~~V~VD~GAvk~v~nGADvM~PGIv~~~~~ik~Gd~VvV~~e~~~~plAVG~alm~~~em~~~~kGkav~--~iHhvG 152 (161)
T COG2016 75 GKYVVVVDEGAVKFVLNGADVMAPGIVSADGEIKEGDIVVVVDEKKGRPLAVGIALMSGKEMEEKKKGKAVK--NIHHVG 152 (161)
T ss_pred CccEEEEcCccHhhhcCCCceeccceeecCCCccCCCEEEEEEcCCCCeeEEEeeccCHHHHhhhcCCeEEE--EEeccC
Confidence 345899999999999999999999999999999999999998887 99999999999999999999999874 555544
Q ss_pred CC
Q 007467 387 DT 388 (602)
Q Consensus 387 dt 388 (602)
|-
T Consensus 153 D~ 154 (161)
T COG2016 153 DK 154 (161)
T ss_pred hH
Confidence 43
No 39
>COG1258 Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=98.80 E-value=1.8e-08 Score=107.26 Aligned_cols=122 Identities=25% Similarity=0.302 Sum_probs=103.4
Q ss_pred ceEEEEeccccc-cccc---cCCCcEEEEEEEEcCcCCCHHHHHHHHHhccc-cccccCcchhhcccC--CeEEEEEEEE
Q 007467 144 NLIVCIDRATRL-VKSQ---QGAGKEYVCVARLHDKVPDVAKVARALEALTG-AVFQRPPLISAVKRQ--LRIRTIYESK 216 (602)
Q Consensus 144 VL~V~IG~ATKL-v~~l---~~~~KeYva~i~LG~~t~s~e~L~~aL~~F~G-~I~Q~PP~ySAVKr~--lR~rtIY~ie 216 (602)
|-+..+.-+++- +.-+ ..+.|.|.|.+.+...+ +.+++..++..+.| .|.|+.|+.-+.+|. .|.+.||++.
T Consensus 258 vev~~l~f~~~e~v~~ik~~~~~rK~YrAlV~~~~~v-~~e~l~~~~~~L~g~~I~QrTP~RV~hrRadlvR~R~V~~l~ 336 (398)
T COG1258 258 VEVFDLEFVGREEVEEIKETERHRKVYRALVYSDRPV-SDEKLEEVLGSLEGKTIRQRTPRRVLHRRADLVRIRRVYELS 336 (398)
T ss_pred EEEEEEEecCHHHHHHHHhccccceeEEEEEEECCCc-CHHHHHHHHhhccCcEEeecChHHHhhhhcccceEEEEEEee
Confidence 455555444433 2222 34789999999999888 69999999999999 699999999999986 7999999999
Q ss_pred EEEEecCCceEEEEEEeecCchhHHHHH--------HHHHHhCCceEeceeeEEEEeCcc
Q 007467 217 LLEYDVDRHLVVFWISCEAGTYVRTMCV--------HLGLILGVGGHMQELRRVRSGILG 268 (602)
Q Consensus 217 LLe~d~e~~~~~f~V~Cs~GTYIRSL~~--------DIG~~LG~gAhM~eLRRtrsG~Fs 268 (602)
+..++. +.+.+.|.|++|+||..|++ .++..||+.|.|.+|.-+++..=+
T Consensus 337 ~~~~~~--~~~~~~i~~egGlYIKElIsGD~GRT~PSlse~lg~~a~~~eLDVl~V~~~~ 394 (398)
T COG1258 337 LDLIDD--RHAELEIEAEGGLYIKELISGDGGRTRPSLSEILGVEAVVEELDVLKVEDEE 394 (398)
T ss_pred eeeccC--ceEEEEEEecccceeeeeecCCCCCcCcchHHHhCCcceEEEeeeEEeccCc
Confidence 999965 78999999999999999999 799999999999999999887533
No 40
>PRK14560 putative RNA-binding protein; Provisional
Probab=98.79 E-value=1.5e-08 Score=96.36 Aligned_cols=79 Identities=27% Similarity=0.423 Sum_probs=70.3
Q ss_pred hceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecC-CcEEEEEEEEecccccccCCCCeEEeeeEeeecCC
Q 007467 309 YKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTK-GEAVALGIAEMTTAVMATCDHGVVARIKRVVMDRD 387 (602)
Q Consensus 309 lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~k-GElIALGia~mss~~i~~~d~GiVak~kRViM~~d 387 (602)
.|+|+|++.++.+|++|+.|+.||+...+.+|..|+.|+|++.+ |++||+|++.|++.+|....+|+++++ +..-.|
T Consensus 76 ~~~v~Vd~~a~~~i~~Ga~lm~pGV~~~~~~~~~Gd~V~I~~~~~~~~vavG~~~~s~~ei~~~~kG~~v~~--~h~~~D 153 (160)
T PRK14560 76 KRRVVVDAGAVKFVSNGADVMAPGIVEADEDIKEGDIVFVVEETHGKPLAVGRALMDGDEMVEEKKGKAVKN--IHHVGD 153 (160)
T ss_pred CCEEEEeccHHHHHHCCCceecCeeeeCCCCCCCCCEEEEEECCCCeEEEEEEEeeCHHHHhhcCCceEEEE--EEEcCc
Confidence 58999999999999999999999999988899999999999877 999999999999999999999999854 333444
Q ss_pred CC
Q 007467 388 TY 389 (602)
Q Consensus 388 tY 389 (602)
..
T Consensus 154 ~l 155 (160)
T PRK14560 154 EI 155 (160)
T ss_pred hh
Confidence 44
No 41
>PRK13794 hypothetical protein; Provisional
Probab=98.55 E-value=1.9e-07 Score=102.67 Aligned_cols=71 Identities=30% Similarity=0.581 Sum_probs=68.4
Q ss_pred eeecCHHHHHHHH-cCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeE
Q 007467 311 RLVVKDTTVNAIC-YGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKR 381 (602)
Q Consensus 311 rIvVkDsav~aI~-nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kR 381 (602)
+|+|++.++.+|+ +|+.|+.||+...+.+|..|+.|+|++.+|++||+|++.|++.+|...++|+++++++
T Consensus 126 ~V~Vd~ga~~~v~~~G~~v~~~GV~~~~~~i~~gd~V~Iv~~~g~~iavG~a~~s~~ei~~~~~G~~Vkvr~ 197 (479)
T PRK13794 126 FIVVKDDVPKFIRNKGASVLRPGVAEASEDIEEGDDVIILDENGDVVGVGRARMSYEEIVNMEKGMVVKVRK 197 (479)
T ss_pred EEEECccHHHHHHhCCCeecCCceEEecCCcCCCCEEEEEcCCCcEEEEEEeecCHHHHHhccCceEEEEEe
Confidence 4999999999999 9999999999999999999999999999999999999999999999999999998888
No 42
>smart00359 PUA Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase.
Probab=98.43 E-value=5.7e-07 Score=73.80 Aligned_cols=74 Identities=38% Similarity=0.728 Sum_probs=67.4
Q ss_pred eeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccC--CCCeEEeeeEeee
Q 007467 311 RLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATC--DHGVVARIKRVVM 384 (602)
Q Consensus 311 rIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~--d~GiVak~kRViM 384 (602)
+|+|++.+..+|++|+.|+.+++.+...++..|+.|.+++.+|++||+|.+.+++..+... ..|+++++.+.+|
T Consensus 2 ~i~v~~~~~~~i~~g~~v~~~~v~~~~~~~~~g~~V~v~~~~g~~vg~G~~~~~s~~~~~~~~~~g~~v~~~~~~~ 77 (77)
T smart00359 2 KVVVDDGAVKAILNGASLLAPGVVRVDGGIKEGDVVVIVDEKGEPLGIGLANMSSEEMARIKGEKGLAVKVRRAVM 77 (77)
T ss_pred EEEEchhHHHHHHcCCCcccceeEEEeCCcCCCCEEEEEcCCCCEEEEEEEeCCHHHHHHHhccCceEEEEEEecC
Confidence 5789999999999999999999988877899999999999999999999999999998887 4999998888765
No 43
>PRK13795 hypothetical protein; Provisional
Probab=98.37 E-value=5.1e-07 Score=102.39 Aligned_cols=76 Identities=28% Similarity=0.453 Sum_probs=72.2
Q ss_pred hceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEeee
Q 007467 309 YKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVM 384 (602)
Q Consensus 309 lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRViM 384 (602)
.++|+|++.++.+|++|+.|+.|||+..+.+|+.|+.|+|++.+|++||+|++.|++.+|....+|++++++++.-
T Consensus 126 ~~~VvVd~ga~~~v~~Ga~l~~~GI~~~~~~i~~gd~V~I~~e~g~~vavG~a~~s~~e~~~~~kG~~Vkvr~~~~ 201 (636)
T PRK13795 126 KKWVIVDKGALEPIKNGKNVLAPGVVEADLDIKKGDEVVVVTEDGEVVGVGRAKMDGDDMIKRFRGRAVKVRKSGR 201 (636)
T ss_pred CcEEEEcccHHHHHHcCCcccCCceEEEeCCCCCCCEEEEEeCCCCEEEEEEeccCHHHHhhccCCeEEEEEEccc
Confidence 4799999999999999999999999999999999999999998899999999999999999999999999888873
No 44
>PRK13534 7-cyano-7-deazaguanine tRNA-ribosyltransferase; Provisional
Probab=98.26 E-value=1.4e-06 Score=99.12 Aligned_cols=74 Identities=18% Similarity=0.266 Sum_probs=70.5
Q ss_pred ceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEee
Q 007467 310 KRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVV 383 (602)
Q Consensus 310 PrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRVi 383 (602)
.+|+|++.++..+.+|+.|+.|||+..+.+|..|+.|+|++.+|++||+|+|.|++.+|....+|+++++++++
T Consensus 564 ~~V~Vd~~a~~~v~~G~~v~apgVv~~d~~ir~gDeV~Vv~e~~~~lavG~A~~~~~em~~~~~G~avkvR~~~ 637 (639)
T PRK13534 564 YRVVVDKESEPFARKGKSVFAKFVIDCDEEIRPYDEVLVVNEDDELLAYGKALLNGRELMEFNYGLAVKVRGGV 637 (639)
T ss_pred cEEEECCcchhhhhCCCcccCCcceecCCCCCCCCEEEEEecCCcEEEEEEEecCHHHHhhcCCceEEEEeecC
Confidence 58999999999999999999999999999999999999999889999999999999999999999999988764
No 45
>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=1.2e-05 Score=76.79 Aligned_cols=153 Identities=20% Similarity=0.185 Sum_probs=85.4
Q ss_pred EEEeeCCCCCCHHH-----HHHHHHHHhcccccccCCCCCCCCccceEEEEeccccccccccC----CCcEEEEEEEEcC
Q 007467 104 IINLDKPANPSSHE-----VVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATRLVKSQQG----AGKEYVCVARLHD 174 (602)
Q Consensus 104 IInlDKP~G~TShe-----VVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~----~~KeYva~i~LG~ 174 (602)
+|+||||.|+-||- -...+...|....+...|-||=.+||+|+++-+. ++...|.. ..|+|+|.+.=.
T Consensus 1 ~lv~nKP~G~~~~~~~~~~~~~~l~~~l~~~~~~~v~RLD~~TsGlll~a~d~--~~~~~l~~~~~~v~K~Y~a~v~g~- 77 (168)
T cd02566 1 LILFNKPYGVLSQFTDESEKHKTLKDYIDDPGVYAAGRLDRDSEGLLLLTDDG--RLQHRITDPSFKHPKTYYVQVEGV- 77 (168)
T ss_pred CEEEECCCCCEEecCCCcCCCccHHHHcCcCCeEEccCCCCCCeEEEEEEeCH--HHHHHHHCCCCCCCEEEEEEECCc-
Confidence 48999999986661 1233445554567889999999999999999776 34444433 679999998432
Q ss_pred cCCCHHHHHHHHHhcccc-ccccCcchhhcccCCeEEEEEE-EEEEEEecCCceEEEEEEeecCch--hHHHHHHHHHHh
Q 007467 175 KVPDVAKVARALEALTGA-VFQRPPLISAVKRQLRIRTIYE-SKLLEYDVDRHLVVFWISCEAGTY--VRTMCVHLGLIL 250 (602)
Q Consensus 175 ~t~s~e~L~~aL~~F~G~-I~Q~PP~ySAVKr~lR~rtIY~-ieLLe~d~e~~~~~f~V~Cs~GTY--IRSL~~DIG~~L 250 (602)
++.+.+.....-+.-. -.+.|-.++.+.. ..++|. ...+.+....+...++|.-..|-+ ||.++.+||
T Consensus 78 --~~~~~~~~l~~g~~~~~~~~~~~~v~~~~~---~~~~~~~~~~~~~~~~~~~sll~v~l~tGR~HQIR~~la~lG--- 149 (168)
T cd02566 78 --PTEDALEQLRNGVELGDGLTLPAKVEKVDE---PPWLWEREPPIRFRKNIPTSWIEITICEGKNRQVRRMTAAVG--- 149 (168)
T ss_pred --CCHHHHHHHhCCcEECCeEecceEEEEecc---cccccccccccccccCCCccEEEEEEecCccHHHHHHHHHcC---
Confidence 2344443322111100 1111211111110 111111 011222111122345555556644 777777654
Q ss_pred CCceEeceeeEEEEeCcccc
Q 007467 251 GVGGHMQELRRVRSGILGEN 270 (602)
Q Consensus 251 G~gAhM~eLRRtrsG~Fsee 270 (602)
.-+..|+|+++|++.++
T Consensus 150 ---~pV~~L~R~~~g~~~l~ 166 (168)
T cd02566 150 ---FPTLRLIRVSIGDIGLD 166 (168)
T ss_pred ---CeEeEEEEEEECCEEcC
Confidence 45889999999999986
No 46
>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=98.08 E-value=1.8e-05 Score=75.50 Aligned_cols=140 Identities=21% Similarity=0.262 Sum_probs=88.1
Q ss_pred EEEeeCCCCCCHH-------HHHHHHHHHhcccccccCCCCCCCCccceEEEEec--cccccccccCCCcEEEEEEEEcC
Q 007467 104 IINLDKPANPSSH-------EVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDR--ATRLVKSQQGAGKEYVCVARLHD 174 (602)
Q Consensus 104 IInlDKP~G~TSh-------eVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~--ATKLv~~l~~~~KeYva~i~LG~ 174 (602)
+|+||||+|+.|| .+..++...+...+++..|-||-.+||+|+++-+. +.++..-.....|+|.|.+.= .
T Consensus 2 ~ivvnKP~G~~~~~~~~~~~tl~~~l~~~~~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~i~K~Y~a~V~G-~ 80 (167)
T cd02553 2 YLMLNKPAGVVCATKDPHHPTVIDLLPEPDRRRDLFPVGRLDKDTTGLLLLTNDGQLAHRLTSPKKHVPKTYEVTLAG-P 80 (167)
T ss_pred EEEEECCCCCEeCCCCCCCCcHHHHhhhhcccCCeEEcccCCCCCEEEEEEEeCHHHHHHhhCCcCCCceEEEEEEcc-C
Confidence 5899999998876 26777777766667899999999999999999876 333333233467999999973 2
Q ss_pred cCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecC--chhHHHHHHHHHHhCC
Q 007467 175 KVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAG--TYVRTMCVHLGLILGV 252 (602)
Q Consensus 175 ~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~G--TYIRSL~~DIG~~LG~ 252 (602)
.+.+.+.... .|... ..-+ ..+.. .+++++ . ..++|.-..| =-||-.+..||
T Consensus 81 --~~~~~~~~~~---~~~~~------~~~~-~~~~~---~~~~~~----~--sll~v~l~tGR~HQIR~hla~lG----- 134 (167)
T cd02553 81 --LTEDDIEAFA---EGVLL------HDGY-PTKPA---KLEILS----P--TTVRLTITEGKYHQVKRMFAAVG----- 134 (167)
T ss_pred --CCHHHHHHHH---CCeEE------cCCC-Eeeee---EEEEeC----C--cEEEEEEEeCCCHHHHHHHHHcC-----
Confidence 2244443322 12110 0000 01111 122221 1 2344444444 56888777664
Q ss_pred ceEeceeeEEEEeCccccC
Q 007467 253 GGHMQELRRVRSGILGEND 271 (602)
Q Consensus 253 gAhM~eLRRtrsG~Fseed 271 (602)
.-+..|.|+++|+|++.+
T Consensus 135 -~pI~~~~R~~~g~~~l~~ 152 (167)
T cd02553 135 -NKVVALHRIRIGGLELDD 152 (167)
T ss_pred -CeEEEEEEEEECCEecCC
Confidence 458899999999999875
No 47
>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=97.96 E-value=8.9e-05 Score=70.71 Aligned_cols=142 Identities=15% Similarity=0.173 Sum_probs=83.7
Q ss_pred EEEeeCCCCCCHHH--------HHHHHHHHhcccccccCCCCCCCCccceEEEEecc-cccccc-ccCCCcEEEEEEEEc
Q 007467 104 IINLDKPANPSSHE--------VVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRA-TRLVKS-QQGAGKEYVCVARLH 173 (602)
Q Consensus 104 IInlDKP~G~TShe--------VVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~A-TKLv~~-l~~~~KeYva~i~LG 173 (602)
+|+||||+|+-||- +..++... .....+..|-||=.+||+|+++-+.. .+.+.. -....|+|.|.+. |
T Consensus 2 ~lvvnKP~G~~~~~~~~~~~~tl~~~l~~~-~~~~~~~V~RLD~~TsGLll~ak~~~~~~~L~~~~~~i~K~Y~a~V~-g 79 (167)
T cd02556 2 VLIYHKPEGLICTRKDPKGRPTVFDLLPKL-GIPRWISVGRLDLNTEGLLLFTNDGELANRLMHPSNEIEREYAVRVF-G 79 (167)
T ss_pred EEEEECCCCcEECccCCCCCccHHHhhhhh-ccCceEEcCcCCCCCeeEEEEECCHHHHHHHhCCcCCCCeEEEEEEC-c
Confidence 68999999986552 45555433 13467889999999999999988663 332222 1235799999986 3
Q ss_pred CcCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecC--chhHHHHHHHHHHhC
Q 007467 174 DKVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAG--TYVRTMCVHLGLILG 251 (602)
Q Consensus 174 ~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~G--TYIRSL~~DIG~~LG 251 (602)
.. +.+.+.. +.. |.... .. .. ..+ .++++.... ....++|...-| -=||-.+.+||
T Consensus 80 ~~--~~~~~~~-~~~--gv~~~-----~~---~~-~~~--~~~~~~~~~--~~sll~v~l~tGR~HQIR~~~a~~G---- 137 (167)
T cd02556 80 QV--TDEQLKS-LKK--GVELE-----DG---FA-GFK--SIQLEGGEG--KNSWYRVTLREGRNREVRRLWEAFG---- 137 (167)
T ss_pred cC--CHHHHHH-HHc--CCEEC-----CC---cC-cce--EEEEEecCC--CcEEEEEEEEeCCCHHHHHHHHHcC----
Confidence 32 3444432 111 21100 00 01 111 233333221 223455555556 44777777653
Q ss_pred CceEeceeeEEEEeCccccC
Q 007467 252 VGGHMQELRRVRSGILGEND 271 (602)
Q Consensus 252 ~gAhM~eLRRtrsG~Fseed 271 (602)
..+..|+|+++|++.+..
T Consensus 138 --~pV~~L~R~~ig~~~l~~ 155 (167)
T cd02556 138 --LQVSRLIRIRYGPIFLPG 155 (167)
T ss_pred --CeEeEEEEEEECCcccCC
Confidence 568999999999998753
No 48
>PRK10475 23S rRNA pseudouridine synthase F; Provisional
Probab=97.92 E-value=0.00014 Score=75.73 Aligned_cols=136 Identities=20% Similarity=0.276 Sum_probs=86.0
Q ss_pred eEEEeeCCCCCCHHH-------HHHHHHHHhcccccccCCCCCCCCccceEEEEecc--ccccccccCCCcEEEEEEEEc
Q 007467 103 GIINLDKPANPSSHE-------VVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRA--TRLVKSQQGAGKEYVCVARLH 173 (602)
Q Consensus 103 GIInlDKP~G~TShe-------VVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~A--TKLv~~l~~~~KeYva~i~LG 173 (602)
=+|+||||.|+.||- |+..|.. ...+.+.|-||-..||+|+++-+.. .+|..--....|+|+|++. |
T Consensus 68 ~~lvlnKP~G~~~~~~~~~~~tv~~~l~~---~~~l~~VgRLDrdTsGLLLlT~dg~~~~~L~~p~~~i~K~Y~v~V~-g 143 (290)
T PRK10475 68 VLIALNKPVGIVSTTEDGERDNIVDFVNH---SKRVFPIGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVD-K 143 (290)
T ss_pred eEEEEECCCCCCcCCCCCCCCcHHHHhhc---cccccccccCCCCCcceEEEecCHHHHHHhhCcCCCCCeEEEEEEC-C
Confidence 479999999997772 4444432 2467899999999999999998653 3333322346899999985 3
Q ss_pred CcCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecCch--hHHHHHHHHHHhC
Q 007467 174 DKVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAGTY--VRTMCVHLGLILG 251 (602)
Q Consensus 174 ~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTY--IRSL~~DIG~~LG 251 (602)
. .+.+.|..... |...--- ..++. .++.+ +. ..|+|...-|-| ||-+|..+
T Consensus 144 ~--~~~~~l~~l~~---Gv~l~~~--------~~~~~---~v~~~--~~----~~~~i~l~eGk~rqIRrm~~~~----- 196 (290)
T PRK10475 144 P--ITDEFIRGMGA---GVPILGT--------VTKKC---KVKKE--AP----FVFRITLVQGLNRQIRRMCEHF----- 196 (290)
T ss_pred C--CCHHHHHHHhC---CcEECCE--------Eecce---EEEec--CC----cEEEEEEECCcCHHHHHHHHHc-----
Confidence 2 24666654432 3111000 00111 11111 11 246666667765 88888764
Q ss_pred CceEeceeeEEEEeCcccc
Q 007467 252 VGGHMQELRRVRSGILGEN 270 (602)
Q Consensus 252 ~gAhM~eLRRtrsG~Fsee 270 (602)
|-.+..|.|+++|++++.
T Consensus 197 -G~~V~~L~R~~ig~l~L~ 214 (290)
T PRK10475 197 -GYEVTKLERTRIMNVSLS 214 (290)
T ss_pred -CCEEeEEEEEEECCEEcC
Confidence 457999999999999986
No 49
>PRK10700 23S rRNA pseudouridylate synthase B; Provisional
Probab=97.79 E-value=0.00029 Score=73.24 Aligned_cols=143 Identities=20% Similarity=0.228 Sum_probs=87.8
Q ss_pred eEEEeeCCCCCCHH--------HHHHHHHHHhcccccccCCCCCCCCccceEEEEec-cccccccc-cCCCcEEEEEEEE
Q 007467 103 GIINLDKPANPSSH--------EVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDR-ATRLVKSQ-QGAGKEYVCVARL 172 (602)
Q Consensus 103 GIInlDKP~G~TSh--------eVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~-ATKLv~~l-~~~~KeYva~i~L 172 (602)
=+|+||||.|+-|| .|+..+... ........|-||=..||+|+++-+. +++.+..- ....|+|+|++.
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 47899999998655 256666542 2235678999999999999988744 33333222 236899999985
Q ss_pred cCcCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecCch--hHHHHHHHHHHh
Q 007467 173 HDKVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAGTY--VRTMCVHLGLIL 250 (602)
Q Consensus 173 G~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTY--IRSL~~DIG~~L 250 (602)
|. .+.+.+.. | ..|....--| .....++.+.. +.....|+|...-|-| ||-+|..+|
T Consensus 146 G~--~~~~~l~~-l--~~Gv~l~~~~-----------~~~~~v~~~~~--~~~~s~l~v~L~EGk~hQIRrm~~~lG--- 204 (289)
T PRK10700 146 GQ--VDDAKLRQ-L--SRGVQLEDGP-----------AAFKTIKFSGG--EGINQWYNVTLTEGRNREVRRLWEAVG--- 204 (289)
T ss_pred cC--CCHHHHHH-H--HcCCEeCCce-----------eeeEEEEeccC--CCCceEEEEEEeCCccHHHHHHHHHcC---
Confidence 22 24666654 3 2342221001 11122222211 1122346667777766 777777644
Q ss_pred CCceEeceeeEEEEeCccccC
Q 007467 251 GVGGHMQELRRVRSGILGEND 271 (602)
Q Consensus 251 G~gAhM~eLRRtrsG~Fseed 271 (602)
-.+..|.|+++|+|.+.+
T Consensus 205 ---~~V~~L~Ri~iG~l~L~~ 222 (289)
T PRK10700 205 ---VQVSRLIRVRYGDIPLPK 222 (289)
T ss_pred ---CEEeEEEEEEEeeeEcCC
Confidence 469999999999999853
No 50
>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=97.77 E-value=0.00017 Score=69.93 Aligned_cols=136 Identities=21% Similarity=0.269 Sum_probs=80.7
Q ss_pred EEEeeCCCCCCH-HH---------------HHHHHHHHhcccccccCCCCCCCCccceEEEEec-c-ccccccccCCCcE
Q 007467 104 IINLDKPANPSS-HE---------------VVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDR-A-TRLVKSQQGAGKE 165 (602)
Q Consensus 104 IInlDKP~G~TS-he---------------VVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~-A-TKLv~~l~~~~Ke 165 (602)
.|++|||.|+-| +. +..++...+ .++...|-||=-+||||+++-.. + .+|..-.....|+
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 478999999744 11 223444333 47889999999999999999855 3 3334333456899
Q ss_pred EEEEEEEcCcCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecC--chhHHHH
Q 007467 166 YVCVARLHDKVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAG--TYVRTMC 243 (602)
Q Consensus 166 Yva~i~LG~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~G--TYIRSL~ 243 (602)
|+|++. |..+ .+.+.. +.. |. ....+..+.+.+... + ...++|.-..| -=||-++
T Consensus 84 Y~v~v~-g~~~--~~~l~~-l~~--g~-----------~~~~~~~~~~~~~~~--~----~~~l~i~l~tGr~hQIR~~~ 140 (177)
T cd02555 84 YLVEVR-GELT--AGGLER-LNH--GL-----------TYDGRELPPAKVSWQ--N----EQRLRFALKEPQPGQIRRMC 140 (177)
T ss_pred EEEEEc-ccCC--HHHHHH-Hhc--Cc-----------ccCCeecceEEEEEc--C----CCEEEEEEECCcChHHHHHH
Confidence 999997 5433 344322 211 11 011111122222221 1 12345555555 3477766
Q ss_pred HHHHHHhCCceEeceeeEEEEeCcccc
Q 007467 244 VHLGLILGVGGHMQELRRVRSGILGEN 270 (602)
Q Consensus 244 ~DIG~~LG~gAhM~eLRRtrsG~Fsee 270 (602)
..+| -.+..|+|+++|+|++.
T Consensus 141 ~~~G------~pV~~L~R~~ig~i~L~ 161 (177)
T cd02555 141 ESVG------LEVVALRRIRIGRVSLG 161 (177)
T ss_pred HHcC------CeEEEEEEEEECCEEcC
Confidence 6543 45889999999999986
No 51
>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=97.71 E-value=0.0003 Score=67.74 Aligned_cols=135 Identities=19% Similarity=0.275 Sum_probs=80.3
Q ss_pred EEEeeCCCCCCHHH-------HHHHHHHHhcccccccCCCCCCCCccceEEEEec-c-ccccccccCCCcEEEEEEEEcC
Q 007467 104 IINLDKPANPSSHE-------VVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDR-A-TRLVKSQQGAGKEYVCVARLHD 174 (602)
Q Consensus 104 IInlDKP~G~TShe-------VVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~-A-TKLv~~l~~~~KeYva~i~LG~ 174 (602)
.|++|||.|+-|+- |..++.. ..++-..|-||-.+||+|++.-+. + .+|..-.....|+|++++.-
T Consensus 2 y~~lnKP~G~l~s~~~~~~~tv~~~l~~---~~~~~~vgRLD~~tsGlll~t~dg~~~~~L~~p~~~~~K~Y~V~v~~-- 76 (164)
T cd02554 2 YIAYNKPVGIDCTLERADEDNIIDFVNP---PPRIFPIGRLDKDSEGLILLTNDGDLVNKILHADNNHEKEYLVTVNK-- 76 (164)
T ss_pred EEEEECCCCcEeecCCCCCCcHHHHhcC---cCCEEEccCCCCCCeeEEEEEcCHHHHHHHhhhhcCCCeEEEEEECC--
Confidence 47899999984432 3333332 246778899999999999998755 2 34433334568999999632
Q ss_pred cCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecCch--hHHHHHHHHHHhCC
Q 007467 175 KVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAGTY--VRTMCVHLGLILGV 252 (602)
Q Consensus 175 ~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTY--IRSL~~DIG~~LG~ 252 (602)
..+.+.+..... |....-- . .++. .++.+ +. .. ++|...-|-| ||-+|..+
T Consensus 77 -~l~~~~l~~l~~---G~~~~~~------~--~~~~---~v~~~--~~--~~--l~i~l~eGr~~qIRrm~~~~------ 129 (164)
T cd02554 77 -PITDEFIEGMSN---GVVILGT------V--TKPC---KVERL--AK--DK--FRIVLTQGLNRQIRRMCEAL------ 129 (164)
T ss_pred -CCCHHHHHHHhC---CCEECCe------E--Ecce---EEEEC--CC--CE--EEEEEECCcCHHHHHHHHHc------
Confidence 224555544322 3211100 0 0111 11222 11 22 4555555544 77777764
Q ss_pred ceEeceeeEEEEeCcccc
Q 007467 253 GGHMQELRRVRSGILGEN 270 (602)
Q Consensus 253 gAhM~eLRRtrsG~Fsee 270 (602)
|-.+..|+|+++|+|.+.
T Consensus 130 G~~V~~L~Ri~iG~~~L~ 147 (164)
T cd02554 130 GYRVTDLKRVRIMNIELG 147 (164)
T ss_pred CCEEEEEEEEEECcEEcC
Confidence 457999999999999986
No 52
>PRK05429 gamma-glutamyl kinase; Provisional
Probab=97.69 E-value=3.9e-05 Score=82.14 Aligned_cols=63 Identities=22% Similarity=0.384 Sum_probs=59.8
Q ss_pred hceeecCHHHHHHH-HcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccC
Q 007467 309 YKRLVVKDTTVNAI-CYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATC 371 (602)
Q Consensus 309 lPrIvVkDsav~aI-~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~ 371 (602)
-+.|+|++.|+++| ++|+.|..|||..++.+|+.|+.|.+++.+|++||+|++.|++.+|...
T Consensus 280 ~g~i~vd~gA~~al~~~g~sLl~~Gi~~v~g~f~~gd~V~i~~~~g~~va~G~~~~~s~e~~~~ 343 (372)
T PRK05429 280 AGEIVVDAGAVKALLERGKSLLPAGVTAVEGDFSRGDVVRIVDPDGREIARGLVNYSSDELRRI 343 (372)
T ss_pred CCeEEECccHHHHHHhcCCccCccchhheECcccCCCEEEEECCCCCEEEEEEecCCHHHHHHH
Confidence 47999999999999 9999999999999999999999999999999999999999999998764
No 53
>PF09157 TruB-C_2: Pseudouridine synthase II TruB, C-terminal; InterPro: IPR015240 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 []. The C-terminal domain adopts a secondary structure consisting of a four-stranded beta sheet and one alpha helix, similar to that found in PUA domains. It is predominantly involved in RNA-binding, being mostly found in tRNA pseudouridine synthase B (TruB) []. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1ZL3_A 1K8W_A 1R3F_A.
Probab=97.66 E-value=0.00016 Score=57.84 Aligned_cols=58 Identities=16% Similarity=0.260 Sum_probs=36.9
Q ss_pred ceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEee
Q 007467 310 KRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVV 383 (602)
Q Consensus 310 PrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRVi 383 (602)
|.|.|++.++.+|+||+.+.+... .. ..+.|.+++.+|.|||||.. + +.|.+ .++|||
T Consensus 1 P~v~L~~~~~~~~~~Gq~v~~~~~-----~~-~~~~vrvy~~~~~FlGig~~--~-------~~g~L-~P~Rl~ 58 (58)
T PF09157_consen 1 PAVVLDEEQAKRFLHGQRVRLRDD-----AP-PDGLVRVYDEDGRFLGIGEI--D-------DDGRL-KPKRLL 58 (58)
T ss_dssp -EEEE-HHHHHHHTTT--B---SS--------SSSEEEEETTTTEEEEEEEE----------TTS-E-EEEEES
T ss_pred CeEEeCHHHHHHHHCcCcccccCC-----CC-CCceEEEECCCCEEEEEEEE--c-------cCCEE-EeeEcC
Confidence 789999999999999999965221 12 23478888888988877765 3 46755 589986
No 54
>PRK11394 23S rRNA pseudouridine synthase E; Provisional
Probab=97.54 E-value=0.00039 Score=70.02 Aligned_cols=157 Identities=17% Similarity=0.160 Sum_probs=88.0
Q ss_pred ceEEEeeCCCCCCHHHH----HHHHHHHhcccccccCCCCCCCCccceEEEEec-cccccccc-cCCCcEEEEEEEEcCc
Q 007467 102 YGIINLDKPANPSSHEV----VAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDR-ATRLVKSQ-QGAGKEYVCVARLHDK 175 (602)
Q Consensus 102 nGIInlDKP~G~TSheV----Va~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~-ATKLv~~l-~~~~KeYva~i~LG~~ 175 (602)
.=+|+||||.|+-||-- ...|.+.+...+..+.|-||-.+||+|+++-+. +++.+... ....|+|+|.+.=. .
T Consensus 39 ~~ylllnKP~G~l~~~~d~~~~~tl~d~l~~~~~~~vgRLD~~TsGllLlt~d~~~~~~L~~~~~~i~K~Y~~~v~g~-~ 117 (217)
T PRK11394 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGI-P 117 (217)
T ss_pred CEEEEEECCCCCEEeeCCccCCcchHHhcccCCeEEecCCCCCCeeEEEEECCHHHHHHHhCcccCCCEEEEEEECCC-C
Confidence 35799999999977721 123444454567889999999999999999865 44444333 34679999998532 2
Q ss_pred CCCHHHHHHHHHhcccccc---ccCc-chhhcccCCeEEEEEEEEEEEEe-cCCceEEEEEEeecCchhHHHHHHHHHHh
Q 007467 176 VPDVAKVARALEALTGAVF---QRPP-LISAVKRQLRIRTIYESKLLEYD-VDRHLVVFWISCEAGTYVRTMCVHLGLIL 250 (602)
Q Consensus 176 t~s~e~L~~aL~~F~G~I~---Q~PP-~ySAVKr~lR~rtIY~ieLLe~d-~e~~~~~f~V~Cs~GTYIRSL~~DIG~~L 250 (602)
+.+.+.. +.. |.+. ...| .+..+....=...=+.. +.... .+...+.|.+..+.===||.+|..+|
T Consensus 118 --~~~~l~~-l~~--Gv~i~~~~~~p~~~~~i~~~~~~~~~~~~-~~~~~~~~~s~l~I~L~eGR~hQIRrm~a~lG--- 188 (217)
T PRK11394 118 --TQDALEA-LRN--GVTLNDGPTLPAGAELVDEPAWLWPRNPP-IRERKSIPTSWLKITLYEGRNRQVRRMTAHVG--- 188 (217)
T ss_pred --CHHHHHH-HhC--CeEECCccccccEEEEecccccccccccc-cccccCCCceEEEEEEeCCCCHHHHHHHHHcC---
Confidence 3455543 221 2111 1111 11111100000000000 01111 11123444455555556888888753
Q ss_pred CCceEeceeeEEEEeCccccC
Q 007467 251 GVGGHMQELRRVRSGILGEND 271 (602)
Q Consensus 251 G~gAhM~eLRRtrsG~Fseed 271 (602)
..+..|+|+++|+|++++
T Consensus 189 ---~pVl~L~Ry~iG~l~L~~ 206 (217)
T PRK11394 189 ---FPTLRLIRYAMGDYSLDN 206 (217)
T ss_pred ---CeEeeeEEEEECCEEcCC
Confidence 568899999999999863
No 55
>COG1370 Prefoldin, molecular chaperone implicated in de novo protein folding, alpha subunit [Posttranslational modification, protein turnover, chaperones]
Probab=97.38 E-value=0.00028 Score=67.56 Aligned_cols=71 Identities=23% Similarity=0.443 Sum_probs=66.5
Q ss_pred eeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeE
Q 007467 311 RLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKR 381 (602)
Q Consensus 311 rIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kR 381 (602)
||+|.+++...+..|..+...=++..+.+|.+|+++++++.+++++|.|.+.++..+|...++|.++++.+
T Consensus 82 RVvV~~E~e~f~r~Gk~VFaKfVi~~D~~iR~~dEvlVVne~d~LlAvGra~ls~~E~~~~~~G~AVkVr~ 152 (155)
T COG1370 82 RVVVSDEAEEFVRKGKSVFAKFVIDVDEEIRAGDEVLVVNEDDELLAVGRALLSGAEMREFERGMAVKVRE 152 (155)
T ss_pred EEEeccccHHHHHhccchhhhheeccCcccCCCCeEEEECCCCcEEEeeeEeecHHHHhhccccEEEEEec
Confidence 78999999999999999988778888899999999999999999999999999999999999999998754
No 56
>TIGR00432 arcsn_tRNA_tgt tRNA-guanine transglycosylase, archaeosine-15-forming. This tRNA-guanine transglycosylase (tgt) differs from the tgt of E. coli and other Bacteria in the site of action and the modification that results. It exchanges 7-cyano-7-deazaguanine (preQ0) with guanine at position 15 of archaeal tRNA; this nucleotide is subsequently converted to archaeosine, found exclusively in the Archaea. This enzyme from Haloferax volcanii has been purified, characterized, and partially sequenced and is the basis for identifying this family. In contrast, bacterial tgt catalyzes the exchange of preQ0 or preQ1 for the guanine base at position 34; this nucleotide is subsequently modified to queuosine. Archeoglobus fulgidus has both enzymes, while some other Archaea have just this one.
Probab=97.33 E-value=0.00021 Score=80.39 Aligned_cols=70 Identities=20% Similarity=0.355 Sum_probs=67.1
Q ss_pred eeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeee
Q 007467 311 RLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIK 380 (602)
Q Consensus 311 rIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~k 380 (602)
+|+|++.++..+..|..+..+|++..+.+|.+|++|++++.+++++|+|.|.|+..+|...++|++++++
T Consensus 468 rV~v~~~~~~f~~~g~~vfak~V~~ad~~IR~~dEV~vv~~~~~llavGra~lsg~em~~~~~G~AVkvR 537 (540)
T TIGR00432 468 RVAVNEESEPFARKGKSVFAKFIIDCDNNIRANDEVLIVNADDELLATGKALLCAEEMMDLNHGQAVKTR 537 (540)
T ss_pred EEEECCcchhhccCCCcccCCccccCCCCCCCCCeEEEEcCCCcEEEEEehhcCHHHHHhhcCceEEEEe
Confidence 7899999999999999999999999999999999999999999999999999999999999999999764
No 57
>KOG2523 consensus Predicted RNA-binding protein with PUA domain [Translation, ribosomal structure and biogenesis]
Probab=97.31 E-value=6.2e-05 Score=72.97 Aligned_cols=80 Identities=21% Similarity=0.354 Sum_probs=62.2
Q ss_pred hhceeecCHHHHHHHHcCCcccCCcccccc----CccccCCEEEEEecCCc-EEEEEEEEecccccccCCCCeEEeeeEe
Q 007467 308 SYKRLVVKDTTVNAICYGAKLMIPGLLRFE----NDIEVGEEVVLMTTKGE-AVALGIAEMTTAVMATCDHGVVARIKRV 382 (602)
Q Consensus 308 ~lPrIvVkDsav~aI~nGakL~ipGilr~e----~~Ie~ge~Vviit~kGE-lIALGia~mss~~i~~~d~GiVak~kRV 382 (602)
.||.+.|+..|+..+|.||.||.||+..+- .+++.+..|+++-..-+ ++|||.+.|++.+|....+|+=. ..+
T Consensus 91 ~~~~~qvD~GAIkfvlsGAnIMcPGlts~g~~l~~~~ekd~~V~i~aeGK~~alAiG~~~ms~kei~s~nKGiGI--E~~ 168 (181)
T KOG2523|consen 91 IFPHVQVDRGAIKFVLSGANIMCPGLTSPGAKLPPGVEKDTIVAIMAEGKEHALAIGLTKMSAKEIKSVNKGIGI--ENY 168 (181)
T ss_pred ccceEEecCcceeeeecCCceEcccCCCCcccCCCCccCCCEEEEEecCchhhhhhhhhhhcHHHHHhhccCCce--EEE
Confidence 467899999999999999999999996543 45566677777655444 89999999999999999999754 344
Q ss_pred eecCCCC
Q 007467 383 VMDRDTY 389 (602)
Q Consensus 383 iM~~dtY 389 (602)
..-.|-.
T Consensus 169 H~l~DgL 175 (181)
T KOG2523|consen 169 HYLNDGL 175 (181)
T ss_pred EecCCch
Confidence 4444433
No 58
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional
Probab=97.30 E-value=0.00031 Score=69.92 Aligned_cols=142 Identities=18% Similarity=0.259 Sum_probs=78.1
Q ss_pred eEEEeeCCCCCCHHH-------HHHHHHHHhcccccccCCCCCCCCccceEEEEecc--ccccccccCCCcEEEEEEEEc
Q 007467 103 GIINLDKPANPSSHE-------VVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRA--TRLVKSQQGAGKEYVCVARLH 173 (602)
Q Consensus 103 GIInlDKP~G~TShe-------VVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~A--TKLv~~l~~~~KeYva~i~LG 173 (602)
-+|+||||+|+-+|- +...+...+ ..+....|-||=..||||+++-+.. .+|..--....|+|+|++.--
T Consensus 61 ~~lvvnKP~G~~~~~~~~~~~tl~~~l~~~~-~~~~~~v~RLD~~TSGlll~ak~~~~~~~l~~~~~~i~K~Y~a~i~~~ 139 (232)
T PRK10839 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPV-AYKLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLESP 139 (232)
T ss_pred EEEEEECCCCeEecccCCCCCeEEEeccccc-ccCceecCCCCCCceeEEEEecCHHHHHHHhCCCCCCCeEEEEEECCC
Confidence 589999999996652 111111111 1356788999999999999998772 333321124689999975442
Q ss_pred CcCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecC--chhHHHHHHHHHHhC
Q 007467 174 DKVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAG--TYVRTMCVHLGLILG 251 (602)
Q Consensus 174 ~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~G--TYIRSL~~DIG~~LG 251 (602)
. ..+.+.. +.. | +. .--. .|+ -..+.+.. ++. .+++|.-.-| ==||-.+.+||
T Consensus 140 i---~~~~~~~-~~~--~-~~-~~g~-~a~-t~~~~~~~-------~~~----sll~~~l~tGRtHQIR~h~~~~G---- 194 (232)
T PRK10839 140 V---ADDTAEQ-FAK--G-VQ-LHNE-KDL-TKPAVLEV-------ITP----TQVRLTISEGRYHQVKRMFAAVG---- 194 (232)
T ss_pred C---CHHHHHH-HHC--C-eE-ECCC-ccc-ccccEEEE-------ecC----CEEEEEEEcCcCHHHHHHHHHcC----
Confidence 2 2332222 111 1 10 0000 000 01111111 111 2344444555 34676666554
Q ss_pred CceEeceeeEEEEeCccccCc
Q 007467 252 VGGHMQELRRVRSGILGENDN 272 (602)
Q Consensus 252 ~gAhM~eLRRtrsG~Fseed~ 272 (602)
-.+..|-|+++|+|+++++
T Consensus 195 --~pi~gl~R~~~g~~~l~~~ 213 (232)
T PRK10839 195 --NHVVELHRERIGAITLDAD 213 (232)
T ss_pred --CeEeeEEEEEEcCEecCCC
Confidence 4689999999999998633
No 59
>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=97.23 E-value=0.00036 Score=69.40 Aligned_cols=71 Identities=17% Similarity=0.237 Sum_probs=56.6
Q ss_pred cceEEEeeCCCCCCHH------HHHHHHHHHhcccccccCCCCCCCCccceEEEEecc-c-cccccccC--CCcEEEEEE
Q 007467 101 RYGIINLDKPANPSSH------EVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRA-T-RLVKSQQG--AGKEYVCVA 170 (602)
Q Consensus 101 ~nGIInlDKP~G~TSh------eVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~A-T-KLv~~l~~--~~KeYva~i 170 (602)
...+|+||||+|+.+| .++.++...++..+++..+-||=.+||||+++-+.. + +|...+.. ..|+|+|.+
T Consensus 8 d~~~lvvnKP~Gl~v~~~~~~~~l~~~l~~~~~~~~~~~VhRLDr~TSGlll~Ak~~~~~~~L~~~~~~~~v~K~YlAlV 87 (217)
T TIGR01621 8 HPDFLLINKHPGISVHKDDGETGLLQEVATQLGVGQVWLVHRLDKMTSGILLLALNAESASELSQGFAKRKIEKTYLALS 87 (217)
T ss_pred CCCEEEEECCCCCeECCCCCcChHHHHHHHhcCCCCccEecCCCCCCceEEEEEcCHHHHHHHHHHHhcCCccEEEEEEE
Confidence 4579999999999886 566677766666789999999999999999999773 3 34444443 469999999
Q ss_pred E
Q 007467 171 R 171 (602)
Q Consensus 171 ~ 171 (602)
.
T Consensus 88 ~ 88 (217)
T TIGR01621 88 S 88 (217)
T ss_pred e
Confidence 8
No 60
>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=97.19 E-value=0.00067 Score=67.14 Aligned_cols=73 Identities=22% Similarity=0.294 Sum_probs=58.8
Q ss_pred cccceEEEeeCCCCCCHH--------HHHHHHHHHhcccccccCCCCCCCCccceEEEEec--cccccccccC--CCcEE
Q 007467 99 YIRYGIINLDKPANPSSH--------EVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDR--ATRLVKSQQG--AGKEY 166 (602)
Q Consensus 99 ~i~nGIInlDKP~G~TSh--------eVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~--ATKLv~~l~~--~~KeY 166 (602)
|-...+|+||||.|+-+| .++.++.+.++...+...|-||-.+||+|+++-+. +.+|...+.. ..|+|
T Consensus 20 yed~~~ivvnKP~Gl~~~~~~~~~~~sl~~~l~~~~~~~~~~~vhRLD~~TSGllllak~~~~~~~l~~~f~~~~v~K~Y 99 (213)
T cd02557 20 HEDDDLLVVDKPSGIPVHPTGRYRYNTVTEILKSEYGLTELRPCHRLDRLTSGLLLFAKTSQTASRLQQQIRSREVKKEY 99 (213)
T ss_pred EECCCEEEEECCCCCcCCCCCCCCcChHHHHHHHHcCCCCccCccCCCCCCceEEEEECCHHHHHHHHHHHHcCCccEEE
Confidence 345689999999998764 47788888777667899999999999999999977 3555555443 57999
Q ss_pred EEEEE
Q 007467 167 VCVAR 171 (602)
Q Consensus 167 va~i~ 171 (602)
+|.+.
T Consensus 100 ~a~v~ 104 (213)
T cd02557 100 LARVK 104 (213)
T ss_pred EEEEe
Confidence 99987
No 61
>PRK10158 23S rRNA/tRNA pseudouridine synthase A; Provisional
Probab=97.10 E-value=0.00053 Score=68.23 Aligned_cols=71 Identities=24% Similarity=0.342 Sum_probs=56.0
Q ss_pred cccceEEEeeCCCCCCHH---------HHHHHHHHHhcccccccCCCCCCCCccceEEEEecccc--ccccccC--CCcE
Q 007467 99 YIRYGIINLDKPANPSSH---------EVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATR--LVKSQQG--AGKE 165 (602)
Q Consensus 99 ~i~nGIInlDKP~G~TSh---------eVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATK--Lv~~l~~--~~Ke 165 (602)
|-..-+|+||||+|+.+| .+...+...+ ..++..+-||-..||||++|..+... |...+.. ..|+
T Consensus 18 yed~~~lvvnKPaGl~~~~~~~~~~~~sl~~~l~~~~--~~~~~vhRLDr~TSGlll~Akt~~~~~~l~~~f~~~~v~K~ 95 (219)
T PRK10158 18 YQDEHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQRDY--PQAESVHRLDMATSGVIVVALTKAAERELKRQFREREPKKQ 95 (219)
T ss_pred EeCCCEEEEECCCCCcEeCCCCCccchhHHHHHHHhC--CCCCEECCCCCCCceEEEEECCHHHHHHHHHHHHhCCccEE
Confidence 445689999999998765 2445555443 46889999999999999999999766 7777754 5799
Q ss_pred EEEEEE
Q 007467 166 YVCVAR 171 (602)
Q Consensus 166 Yva~i~ 171 (602)
|+|.+.
T Consensus 96 Yla~v~ 101 (219)
T PRK10158 96 YVARVW 101 (219)
T ss_pred EEEEEe
Confidence 999997
No 62
>COG5270 PUA domain (predicted RNA-binding domain) [Translation, ribosomal structure and biogenesis]
Probab=97.01 E-value=0.00061 Score=67.37 Aligned_cols=71 Identities=24% Similarity=0.469 Sum_probs=65.0
Q ss_pred ceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeee
Q 007467 310 KRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIK 380 (602)
Q Consensus 310 PrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~k 380 (602)
.-+.|+-.+++++.||+.+..||++.++.+|+.++.+++++.+|+++|+|++.|+..+|....+|..++++
T Consensus 129 k~~~i~~~~~E~~~Ng~nV~~~gV~e~~~~i~~~d~viVv~~ng~~vGVg~a~~~~~~~in~~rG~~v~~~ 199 (202)
T COG5270 129 KGRKIDRGAVEPVKNGKNVLPPGVIEAEDSIERGDEVIVVSENGRVVGVGIAKKSYEELINPERGTGVKPR 199 (202)
T ss_pred ccEEEEcccchhhhccCcccCCceeeccCCcccCCeEEEEecCCEEEEEEEEecCHHHhcCcccCcccCCC
Confidence 45788999999999999999999999999999999999999999999999999999999988888877654
No 63
>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=96.98 E-value=0.0012 Score=61.40 Aligned_cols=134 Identities=25% Similarity=0.282 Sum_probs=77.5
Q ss_pred EEEeeCCCCCCHHH--------HHHHHHHHhcccccccCCCCCCCCccceEEEEecc--ccccccccCCCcEEEEEEEEc
Q 007467 104 IINLDKPANPSSHE--------VVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRA--TRLVKSQQGAGKEYVCVARLH 173 (602)
Q Consensus 104 IInlDKP~G~TShe--------VVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~A--TKLv~~l~~~~KeYva~i~LG 173 (602)
+|+||||+|+-+|- +..++.. ...+++..|-||=.+||+|+++-+.. -+|...-....|+|+|++.=.
T Consensus 1 ~ivvnKP~G~~~~~~~~~~~~~l~~~l~~--~~~~~~~vhRLD~~TsGlll~ak~~~~~~~l~~~~~~i~K~Y~a~v~g~ 78 (146)
T cd02870 1 YLLLNKPRGVVSTVRDPEGRPTVLDLLKD--VGERLFPVGRLDYDTEGLLLLTNDGELANRLTHPRYGVEKTYLVKVRGV 78 (146)
T ss_pred CEEEECCCCcEecccCCCCCCEEeeeccc--cCCCEEECCCCCCCCeeEEEEeCCHHHHHHhhCccCCCCeEEEEEECCC
Confidence 47899999996652 2223322 13568899999999999999998662 233322223579999998632
Q ss_pred CcCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecC--chhHHHHHHHHHHhC
Q 007467 174 DKVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAG--TYVRTMCVHLGLILG 251 (602)
Q Consensus 174 ~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~G--TYIRSL~~DIG~~LG 251 (602)
. ..+.+.... .|... ......+..++.++... +...++|.-..| --||-.+..+|
T Consensus 79 -~--~~~~~~~~~---~~~~~-----------~~~~~~~t~~~~l~~~~--~~sll~~~l~tGR~HQIR~hla~~G---- 135 (146)
T cd02870 79 -P--SEEELRRLR---AGVEL-----------DDGKTAPAKVKVLSRDP--KNTLLEVTLHEGRNRQVRRMFEAVG---- 135 (146)
T ss_pred -C--CHHHHHHHH---CCeEe-----------CCceEcceEEEEeccCC--CCcEEEEEEEeCCcHHHHHHHHHcC----
Confidence 2 234443221 22111 00111233445555433 223444444445 56888776654
Q ss_pred CceEeceeeEEEE
Q 007467 252 VGGHMQELRRVRS 264 (602)
Q Consensus 252 ~gAhM~eLRRtrs 264 (602)
..+..|+|+++
T Consensus 136 --~pI~~l~R~~~ 146 (146)
T cd02870 136 --HPVLRLKRVRI 146 (146)
T ss_pred --CcCCeEEEEEC
Confidence 45888999975
No 64
>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=96.96 E-value=0.001 Score=67.38 Aligned_cols=73 Identities=18% Similarity=0.140 Sum_probs=59.0
Q ss_pred cccceEEEeeCCCCCCHH--------HHHHHHHHHhcccccccCCCCCCCCccceEEEEecccc--ccccccC--CCcEE
Q 007467 99 YIRYGIINLDKPANPSSH--------EVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRATR--LVKSQQG--AGKEY 166 (602)
Q Consensus 99 ~i~nGIInlDKP~G~TSh--------eVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~ATK--Lv~~l~~--~~KeY 166 (602)
|-.+-+|+||||+|+.+| .++.+++..++...++..+-||=.+||||+++-+.... +...+.. ..|+|
T Consensus 43 yed~~~lvvnKPaGl~~~~~~~~~~~t~~~~l~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~~~~~~v~K~Y 122 (246)
T cd02558 43 HQDEHLLVADKPHFLPVTPRGRYVTETLLVRLRRQTGNPDLTPAHRLDRLTAGLVLFSKRPETRGAYQTLFARREVSKTY 122 (246)
T ss_pred EecCCEEEEECCCCCccCCCCcchhhhHHHHHHHHhCCCcccccccCCCCceeEEEEEcCHHHHHHHHHHHHcCCccEEE
Confidence 345689999999999996 37888888877777888999999999999999987443 4444433 57999
Q ss_pred EEEEE
Q 007467 167 VCVAR 171 (602)
Q Consensus 167 va~i~ 171 (602)
.|.+.
T Consensus 123 lA~v~ 127 (246)
T cd02558 123 EAVAP 127 (246)
T ss_pred EEEEe
Confidence 99997
No 65
>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=96.95 E-value=0.00031 Score=74.21 Aligned_cols=37 Identities=22% Similarity=0.092 Sum_probs=36.2
Q ss_pred eecCchhHHHHHHHHHHhCCceEeceeeEEEEeCccc
Q 007467 233 CEAGTYVRTMCVHLGLILGVGGHMQELRRVRSGILGE 269 (602)
Q Consensus 233 Cs~GTYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fse 269 (602)
+|+|||||||..|||..++..|+|.+|.|++.|.|.+
T Consensus 254 ~s~g~~~~sl~~~~~~~~~~s~~~v~l~r~~q~~~~~ 290 (312)
T cd02867 254 KSLGPEARSLESDAGRGSFSPAAMVRLARVGQGTYIR 290 (312)
T ss_pred cccCcccccccchhhhhccCCcceEeEEeecccceee
Confidence 7899999999999999999999999999999999997
No 66
>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=96.91 E-value=0.0014 Score=65.23 Aligned_cols=71 Identities=20% Similarity=0.304 Sum_probs=52.1
Q ss_pred ccceEEEeeCCCCCCHHH----------HHHHHHHHhcccccccCCCCCCCCccceEEEEecc-cc-ccccccC--CCcE
Q 007467 100 IRYGIINLDKPANPSSHE----------VVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRA-TR-LVKSQQG--AGKE 165 (602)
Q Consensus 100 i~nGIInlDKP~G~TShe----------VVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~A-TK-Lv~~l~~--~~Ke 165 (602)
-.+.||+||||+|+.+|- ++..++..++ .+++..+-||.-+||||+++-+.. .+ |...+.. ..|+
T Consensus 6 ed~~~lvvnKP~G~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 84 (223)
T cd02563 6 QDEHLVAINKPSGLLVHRSELDRHETRFALQTLRDQLG-QHVYPVHRLDRPTSGVLLFALSSEVARKLGEQFTEHRVHKT 84 (223)
T ss_pred ecCCEEEEECCCCCeEcCCCCCCCCcHHHHHHHHHHcC-CCcccccCCCCCCeEEEEEEECHHHHHHHHHHHhcCceeEE
Confidence 346799999999997762 3344555444 368899999999999999998773 33 3443333 4699
Q ss_pred EEEEEE
Q 007467 166 YVCVAR 171 (602)
Q Consensus 166 Yva~i~ 171 (602)
|+|.+.
T Consensus 85 Y~alv~ 90 (223)
T cd02563 85 YLAVVR 90 (223)
T ss_pred EEEEEE
Confidence 999986
No 67
>KOG1919 consensus RNA pseudouridylate synthases [RNA processing and modification]
Probab=96.74 E-value=0.0049 Score=66.71 Aligned_cols=172 Identities=21% Similarity=0.228 Sum_probs=99.3
Q ss_pred hhcccccceeeec-cCcCCCCCCCCCCCCCccccccceEEEeeCCCCCCHHH--------HHHHHHHHhcccccccCCCC
Q 007467 67 ILLKNYDRLNVRT-GHYTPLPNGYSPLKRPLVDYIRYGIINLDKPANPSSHE--------VVAWIKRILRVEKTGHSGTL 137 (602)
Q Consensus 67 lllkn~~~l~vr~-~~~t~~~~g~~p~~R~i~~~i~nGIInlDKP~G~TShe--------VVa~VKriL~~kKvGHsGTL 137 (602)
+.++|.+.+..+- .|--+.++ ..+.| .+.-.++|+||||+|+.+|- +...+.......-..-.--|
T Consensus 82 ~i~k~~d~l~~~vhrh~p~~~~----~~~~I-v~ed~~~vVvnKP~gipVhp~g~~~~n~i~~~l~~~~~~~~~~~~hRL 156 (371)
T KOG1919|consen 82 LIVKNGDVLCHTVHRHEPPVAY----LPIRI-VFEDKDYVVVNKPHGIPVHPTGRYRENTITKILAALHKVEGLRPCHRL 156 (371)
T ss_pred EEeccCCEEEEeeccCCCCccc----cccce-EEecCCEEEEeCCCCCceeccCccccccchHHHHHhcccccccccccc
Confidence 4667777776532 23333333 22222 23456899999999999992 22222232344445666789
Q ss_pred CCCCccceEEEEe--cccccccccc--CCCcEE-EEEEEEcCcCCCHHHHHHHHHhccccccccCcchhhcccCCe----
Q 007467 138 DPKVTGNLIVCID--RATRLVKSQQ--GAGKEY-VCVARLHDKVPDVAKVARALEALTGAVFQRPPLISAVKRQLR---- 208 (602)
Q Consensus 138 DP~ATGVL~V~IG--~ATKLv~~l~--~~~KeY-va~i~LG~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR---- 208 (602)
|+..||||+++=+ .|..+.+.|. ...|.| ++.+.......+.-.+..-. +...+ |+..-......|
T Consensus 157 Dr~tSGllvlAkt~~~~~~~~~~~r~~~~~k~Y~v~~v~g~fp~~~~~~i~~~~----~~~~~-~~~~~l~~~~~~~~~~ 231 (371)
T KOG1919|consen 157 DRLTSGLLVLAKTKEAADKFHEVLRKRTVKKEYVVARVEGPFPVVGEVEIKEPI----GEEER-PLRMGLNAVGVRDEVA 231 (371)
T ss_pred CccccceEEEEechhHhHHHHHHHhcccceeEEEEEEEeccCCCCceEEeCCCc----ccccc-ccceEeeecccccccc
Confidence 9999999999999 5788988887 678999 67777766543222222211 11111 332222222222
Q ss_pred -EEEEEEEEEEEEecCCceEEEEEEeecCchhH-HHHHHHHHHhCCc
Q 007467 209 -IRTIYESKLLEYDVDRHLVVFWISCEAGTYVR-TMCVHLGLILGVG 253 (602)
Q Consensus 209 -~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTYIR-SL~~DIG~~LG~g 253 (602)
.--+..++.++++. ..-+|.|.-=|=.. .|-.|+.. ||++
T Consensus 232 ~k~a~T~~~~~~~~~----~ss~V~~~PlTGRtHQIRvHlq~-lG~P 273 (371)
T KOG1919|consen 232 AKDAKTLFKVLSYDG----GSSLVECRPLTGRTHQIRVHLQY-LGHP 273 (371)
T ss_pred cccceeEEEEcccCC----ceEEEEeeccCCcHHHHHHHHHH-hCCC
Confidence 12233445566552 56777777633222 56667777 7763
No 68
>COG1187 RsuA 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]
Probab=96.68 E-value=0.006 Score=62.83 Aligned_cols=145 Identities=23% Similarity=0.245 Sum_probs=86.5
Q ss_pred EEEeeCCCCCC-HHH---HHHHHHHHh-----cccccccCCCCCCCCccceEEEEec--cccccccccCCCcEEEEEEEE
Q 007467 104 IINLDKPANPS-SHE---VVAWIKRIL-----RVEKTGHSGTLDPKVTGNLIVCIDR--ATRLVKSQQGAGKEYVCVARL 172 (602)
Q Consensus 104 IInlDKP~G~T-She---VVa~VKriL-----~~kKvGHsGTLDP~ATGVL~V~IG~--ATKLv~~l~~~~KeYva~i~L 172 (602)
+|++|||.|.- |++ =-.||-..| ...++=+.|-||-..+|+|++-=.- +.+|+.=-....|+|.+.+.=
T Consensus 65 y~llnKP~G~v~s~~D~~gr~tv~D~lp~~~~~~~~~~pvGRLD~dTeGLLLLTnDG~la~rL~~P~~~~~K~Y~v~v~g 144 (248)
T COG1187 65 YLLLNKPRGYVSSTEDDEGRPTVFDLLPERLPRKKRLFPVGRLDKDTEGLLLLTNDGELAHRLMHPSSEVEKEYLVRVEG 144 (248)
T ss_pred EEEEECCCCeEecccCCCCCceeeeecccccccccceeeccccCCCCeeEEEEeCCHHHHHHhcCCCCCCCEEEEEEEec
Confidence 78999999863 333 122333333 2345888999999999998876533 466665556789999998864
Q ss_pred cCcCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecCch--hHHHHHHHHHHh
Q 007467 173 HDKVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAGTY--VRTMCVHLGLIL 250 (602)
Q Consensus 173 G~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTY--IRSL~~DIG~~L 250 (602)
.++++.+...-. |....=.+. ++..+- .+..... .+...|+|.-.-|-| ||-+|..+
T Consensus 145 ---~~~~~~l~~l~~---Gv~l~d~~~--------~~~~~~--~l~~~~~-~~~s~~~itl~EGrnrQVRRm~~a~---- 203 (248)
T COG1187 145 ---PVTEEDLEKLRK---GVTLDDGET--------KPAKPA--SLEKEPG-KNNSWLRITLTEGRNRQVRRMFEAV---- 203 (248)
T ss_pred ---CCCHHHHHHHhC---CcEecCccc--------ccceeE--EEEecCC-CCceEEEEEEeCCcCHHHHHHHHHc----
Confidence 334555555332 211111000 111111 1111111 123456666666655 77777665
Q ss_pred CCceEeceeeEEEEeCccccC
Q 007467 251 GVGGHMQELRRVRSGILGEND 271 (602)
Q Consensus 251 G~gAhM~eLRRtrsG~Fseed 271 (602)
|-.+..|+|+++|+|++.+
T Consensus 204 --G~~V~~L~R~~iG~l~L~~ 222 (248)
T COG1187 204 --GLEVLRLKRIRIGPLSLGD 222 (248)
T ss_pred --CCEEeEEEEEEEeeeEcCC
Confidence 4569999999999999975
No 69
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]
Probab=96.58 E-value=0.0029 Score=66.02 Aligned_cols=75 Identities=25% Similarity=0.341 Sum_probs=61.2
Q ss_pred cceEEEeeCCCCCCH--------HHHHHHHHHHhc--ccccccCCCCCCCCccceEEEEec--cccccccccC--CCcEE
Q 007467 101 RYGIINLDKPANPSS--------HEVVAWIKRILR--VEKTGHSGTLDPKVTGNLIVCIDR--ATRLVKSQQG--AGKEY 166 (602)
Q Consensus 101 ~nGIInlDKP~G~TS--------heVVa~VKriL~--~kKvGHsGTLDP~ATGVL~V~IG~--ATKLv~~l~~--~~KeY 166 (602)
..=+|+||||+|+.+ ..++.++..-++ ...+|-..-||--.||||++|-++ +..|...+.. ..|+|
T Consensus 84 D~~llVvnKP~Gl~vhp~~~~~~~tl~~~l~~~~~~~~~~~~~vHRLDkdTSGlll~AK~~~a~~~l~~~f~~r~v~K~Y 163 (289)
T COG0564 84 DEDLLVVNKPAGLVVHPGGGHHEGTLVNALLRHCQDGVERPGIVHRLDKDTSGLLLVAKNREAARELSEQFKQRKVKKTY 163 (289)
T ss_pred cCCEEEEECCCCCcCcCCCCCccHhHHHHHHHhccccCCceeeeccCCCCCceEEEEECCHHHHHHHHHHHhcCcCcEEE
Confidence 456999999999998 467777776655 578999999999999999999999 5666666654 47999
Q ss_pred EEEEEEcCcC
Q 007467 167 VCVARLHDKV 176 (602)
Q Consensus 167 va~i~LG~~t 176 (602)
.|.+. |...
T Consensus 164 ~Alv~-G~~~ 172 (289)
T COG0564 164 LALVR-GHLP 172 (289)
T ss_pred EEEEE-Cccc
Confidence 99999 6544
No 70
>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=96.58 E-value=0.0018 Score=60.62 Aligned_cols=67 Identities=28% Similarity=0.492 Sum_probs=49.1
Q ss_pred EEEeeCCCCCCHH--------HHHHHHHHHhcccccccCCCCCCCCccceEEEEecc--ccccccccCCCcEEEEEEE
Q 007467 104 IINLDKPANPSSH--------EVVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRA--TRLVKSQQGAGKEYVCVAR 171 (602)
Q Consensus 104 IInlDKP~G~TSh--------eVVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~A--TKLv~~l~~~~KeYva~i~ 171 (602)
+|+||||+|+.+| .++.++... ...++...|-||-.+||+|+++-+.. .+|...-....|+|+|++.
T Consensus 1 ~ivvnKP~G~~~~~~~~~~~~~~~~~l~~~-~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~v~K~Y~a~v~ 77 (154)
T cd02550 1 ILVLNKPSGLVCHPTDRDRDPTVVVRLDKL-HGPRVHAAGRLDKDTSGLLLLTNDGRLQRRLTEPRREIEKEYLVTVR 77 (154)
T ss_pred CEEEECCCCCEEecCCCCCCCcHHHhhhcc-cCCceeEeccCCCCCeeEEEEEcCHHHHHHHhhhhccCcEEEEEEEE
Confidence 5899999997766 234444332 23568889999999999999999773 3444433447899999987
No 71
>PRK11112 tRNA pseudouridine synthase C; Provisional
Probab=96.41 E-value=0.004 Score=63.51 Aligned_cols=71 Identities=18% Similarity=0.273 Sum_probs=51.9
Q ss_pred ccceEEEeeCCCCCCHHH----------HHHHHHHHhcccccccCCCCCCCCccceEEEEecc--cccccccc--CCCcE
Q 007467 100 IRYGIINLDKPANPSSHE----------VVAWIKRILRVEKTGHSGTLDPKVTGNLIVCIDRA--TRLVKSQQ--GAGKE 165 (602)
Q Consensus 100 i~nGIInlDKP~G~TShe----------VVa~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~A--TKLv~~l~--~~~Ke 165 (602)
-.+.+|+||||+|+.+|- +...++..++ ..+...+-||--+||||+++-+.. .+|...+. ...|+
T Consensus 7 Ed~~~lvvnKPaGl~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~VHRLDr~TSGlll~Ak~~~~~~~L~~~f~~~~v~K~ 85 (257)
T PRK11112 7 QDEWLVAVNKPAGWLVHRSWLDRHETVFVMQTVRDQIG-QHVFTAHRLDRPTSGVLLMALSSEVARLLAQQFEQHQIQKT 85 (257)
T ss_pred ecCCEEEEECCCCCeecCCCCCCCchHHHHHHHHHHhC-CCceeeccCCCCCeeEEEEECCHHHHHHHHHHHHhCCcceE
Confidence 345799999999997763 2344444443 257789999999999999999873 34444444 35799
Q ss_pred EEEEEE
Q 007467 166 YVCVAR 171 (602)
Q Consensus 166 Yva~i~ 171 (602)
|+|.+.
T Consensus 86 Y~Alv~ 91 (257)
T PRK11112 86 YHAIVR 91 (257)
T ss_pred EEEEEE
Confidence 999987
No 72
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family. modifies uracil-65 in transfer RNAs to pseudouridine.
Probab=96.37 E-value=0.0039 Score=64.12 Aligned_cols=71 Identities=24% Similarity=0.321 Sum_probs=54.6
Q ss_pred cceEEEeeCCCCCCHH--------HHHHHHHHHhcc----cccccCCCCCCCCccceEEEEecc-cccc-cccc--CCCc
Q 007467 101 RYGIINLDKPANPSSH--------EVVAWIKRILRV----EKTGHSGTLDPKVTGNLIVCIDRA-TRLV-KSQQ--GAGK 164 (602)
Q Consensus 101 ~nGIInlDKP~G~TSh--------eVVa~VKriL~~----kKvGHsGTLDP~ATGVL~V~IG~A-TKLv-~~l~--~~~K 164 (602)
.+.+|+||||+|+-+| .++..+...+.. ..+...|-||-..||||+++-+.. .+.+ ..+. ...|
T Consensus 78 d~~~lvvnKP~g~~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~~~v~K 157 (299)
T TIGR00005 78 DEDIIVINKPSGLVVHPGGGNPFGTVLNALLAHCPPIAGVERVGIVHRLDRDTSGLMVVAKTPLALRELQRQLKNRTVTK 157 (299)
T ss_pred CCCEEEEECCCCCeEeCCCCCCcccHHHHHHHhcccccCCCcCceECCCCCCCceEEEEEcCHHHHHHHHHHHHhCCcce
Confidence 4679999999998775 377777776653 568899999999999999998763 3333 3333 3679
Q ss_pred EEEEEEE
Q 007467 165 EYVCVAR 171 (602)
Q Consensus 165 eYva~i~ 171 (602)
+|+|++.
T Consensus 158 ~Y~a~v~ 164 (299)
T TIGR00005 158 EYVALVH 164 (299)
T ss_pred EEEEEEe
Confidence 9999986
No 73
>TIGR01027 proB glutamate 5-kinase. Bacterial ProB proteins hit the full length of this model, but the ProB-like domain of delta 1-pyrroline-5-carboxylate synthetase does not hit the C-terminal 100 residues of this model. The noise cutoff is set low enough to hit delta 1-pyrroline-5-carboxylate synthetase and other partial matches to this family.
Probab=96.37 E-value=0.0044 Score=66.46 Aligned_cols=61 Identities=18% Similarity=0.396 Sum_probs=57.4
Q ss_pred ceeecCHHHHHHHHc-CCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEeccccccc
Q 007467 310 KRLVVKDTTVNAICY-GAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMAT 370 (602)
Q Consensus 310 PrIvVkDsav~aI~n-GakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~ 370 (602)
..|+|++.|+.+|.+ |+.|..+||...+..|..|+.|.+++.+|+.||.|++.+++.++..
T Consensus 273 G~i~vD~gA~~al~~~g~sLl~~Gi~~v~g~F~~gd~v~i~~~~~~~ia~g~~~y~s~~~~~ 334 (363)
T TIGR01027 273 GEITVDAGAEEALLERGKSLLPAGIVGVEGNFSRGEVVEILNPEGQDIGRGLVNYSSDELEK 334 (363)
T ss_pred CeEEEChhHHHHHHhcCCccCCccceeeECcccCCCEEEEECCCCCEEEEEEecCCHHHHHH
Confidence 589999999999986 8999999999999999999999999999999999999999998864
No 74
>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional
Probab=96.31 E-value=0.0037 Score=65.67 Aligned_cols=72 Identities=29% Similarity=0.355 Sum_probs=55.8
Q ss_pred cceEEEeeCCCCCCHH--------HHHHHHHHHhc----ccccccCCCCCCCCccceEEEEec--cccccccccC--CCc
Q 007467 101 RYGIINLDKPANPSSH--------EVVAWIKRILR----VEKTGHSGTLDPKVTGNLIVCIDR--ATRLVKSQQG--AGK 164 (602)
Q Consensus 101 ~nGIInlDKP~G~TSh--------eVVa~VKriL~----~kKvGHsGTLDP~ATGVL~V~IG~--ATKLv~~l~~--~~K 164 (602)
...+|+||||+|+.+| .+++.+...+. ..+.+..+-||-..||||+++-+. +..|...+.. ..|
T Consensus 90 d~~~lvvnKP~gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~~~~~~v~K 169 (325)
T PRK11180 90 DDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQKREITR 169 (325)
T ss_pred CCCEEEEECCCCCeEeCCCCCCCCcHHHHHHHHhhhccCCcccceeccCCCCCceeEEEECCHHHHHHHHHHHHhCCcce
Confidence 4579999999999887 36677776653 346788999999999999999875 3555555543 579
Q ss_pred EEEEEEEE
Q 007467 165 EYVCVARL 172 (602)
Q Consensus 165 eYva~i~L 172 (602)
+|.|++.=
T Consensus 170 ~Y~A~v~G 177 (325)
T PRK11180 170 EYEAVAIG 177 (325)
T ss_pred EEEEEEec
Confidence 99999873
No 75
>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=96.21 E-value=0.0042 Score=58.49 Aligned_cols=69 Identities=23% Similarity=0.329 Sum_probs=50.1
Q ss_pred EEEeeCCCCCCHHH--------HHHHHH----HHhcccccccCCCCCCCCccceEEEEec--cccccccc--cCCCcEEE
Q 007467 104 IINLDKPANPSSHE--------VVAWIK----RILRVEKTGHSGTLDPKVTGNLIVCIDR--ATRLVKSQ--QGAGKEYV 167 (602)
Q Consensus 104 IInlDKP~G~TShe--------VVa~VK----riL~~kKvGHsGTLDP~ATGVL~V~IG~--ATKLv~~l--~~~~KeYv 167 (602)
+|+||||.|+.+|- ++.++. .......+...|.||--+||||+++-+. +.+|...+ ....|+|+
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 58999999986663 444432 2223456889999999999999999965 34555553 34689999
Q ss_pred EEEEE
Q 007467 168 CVARL 172 (602)
Q Consensus 168 a~i~L 172 (602)
|.+.=
T Consensus 81 a~v~g 85 (185)
T cd02869 81 ALVDG 85 (185)
T ss_pred EEEeC
Confidence 99974
No 76
>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=96.07 E-value=0.0038 Score=57.78 Aligned_cols=71 Identities=24% Similarity=0.256 Sum_probs=47.1
Q ss_pred EEEeeCCCCCCHHHHH-----------H-HHHHHhcccccccCCCCCCCCccceEEEEecc--ccccccc--cCCCcEEE
Q 007467 104 IINLDKPANPSSHEVV-----------A-WIKRILRVEKTGHSGTLDPKVTGNLIVCIDRA--TRLVKSQ--QGAGKEYV 167 (602)
Q Consensus 104 IInlDKP~G~TSheVV-----------a-~VKriL~~kKvGHsGTLDP~ATGVL~V~IG~A--TKLv~~l--~~~~KeYv 167 (602)
+|+||||.|+-+|-.- . -..........+-.|-||-.+||||+++-... -+|...+ ....|+|+
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 6899999998766433 1 12223356799999999999999999998663 4455544 34689999
Q ss_pred EEEEEcC
Q 007467 168 CVARLHD 174 (602)
Q Consensus 168 a~i~LG~ 174 (602)
|.+.-|.
T Consensus 82 a~v~~~~ 88 (164)
T PF00849_consen 82 ALVEGGP 88 (164)
T ss_dssp EEECSSS
T ss_pred EeEcccc
Confidence 9998443
No 77
>COG1549 Queuine tRNA-ribosyltransferases, contain PUA domain [Translation, ribosomal structure and biogenesis]
Probab=96.05 E-value=0.0093 Score=66.48 Aligned_cols=56 Identities=29% Similarity=0.531 Sum_probs=50.8
Q ss_pred cccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEee
Q 007467 327 KLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVV 383 (602)
Q Consensus 327 kL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRVi 383 (602)
.+..||+++.+.+|.+|++|+++ ..|++.|+|+|.|+..+|....+|+++.++|+.
T Consensus 463 ~v~a~GV~da~edIrpnDeV~vv-~~~~v~gVGrA~msg~eM~~akkGiaV~VR~~~ 518 (519)
T COG1549 463 SVFAPGVVDADEDIRPNDEVVVV-HGGEVRGVGRAVMSGREMVEAKKGIAVRVRRRK 518 (519)
T ss_pred cccccccccCCCCCCcCCEEEEE-eCCeEEEEeeeecChHHhcccCCceEEEEEecc
Confidence 35679999999999999998776 589999999999999999999999999998874
No 78
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional
Probab=96.00 E-value=0.0081 Score=63.01 Aligned_cols=73 Identities=23% Similarity=0.343 Sum_probs=53.6
Q ss_pred ccceEEEeeCCCCCCHH-------HHHHHHHHHhc-ccccccCCCCCCCCccceEEEEeccc--ccccccc--CCCcEEE
Q 007467 100 IRYGIINLDKPANPSSH-------EVVAWIKRILR-VEKTGHSGTLDPKVTGNLIVCIDRAT--RLVKSQQ--GAGKEYV 167 (602)
Q Consensus 100 i~nGIInlDKP~G~TSh-------eVVa~VKriL~-~kKvGHsGTLDP~ATGVL~V~IG~AT--KLv~~l~--~~~KeYv 167 (602)
-...+|+||||+|+.+| .++.++..... ...++..+-||-..||||+++-+..+ .|...+. ...|+|.
T Consensus 98 ed~~~lvvnKP~gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~a~~~l~~~~~~~~v~K~Y~ 177 (317)
T PRK11025 98 EDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARFLELVHRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYL 177 (317)
T ss_pred ECCCEEEEECCCCCcCcCCCCCCccHHHHHHHhccCCCcCceeCCCCCCCceEEEEEcCHHHHHHHHHHHHhCCccEEEE
Confidence 34689999999999876 34566655322 23367899999999999999998843 3444444 3579999
Q ss_pred EEEEE
Q 007467 168 CVARL 172 (602)
Q Consensus 168 a~i~L 172 (602)
|++.=
T Consensus 178 a~v~G 182 (317)
T PRK11025 178 ALVRG 182 (317)
T ss_pred EEEeC
Confidence 99873
No 79
>PF09142 TruB_C: tRNA Pseudouridine synthase II, C terminal; InterPro: IPR015225 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 []. The C-terminal domain adopts a secondary structure consisting of a four-stranded beta sheet and one alpha helix, similar to that found in PUA domains. It is predominantly involved in RNA-binding, being mostly found in tRNA pseudouridine synthase B (TruB) []. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1SGV_B.
Probab=95.98 E-value=0.015 Score=47.14 Aligned_cols=55 Identities=22% Similarity=0.183 Sum_probs=33.7
Q ss_pred hceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEee
Q 007467 309 YKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVV 383 (602)
Q Consensus 309 lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRVi 383 (602)
||.+.|++.+..+|.||++|..++ ..+.++.+..+|++|||... .|--+++..||
T Consensus 1 fP~~~ls~~ea~~l~~Gr~l~~~~---------~~g~~aa~~pdG~lvAL~~~-----------~g~~~rp~~Vf 55 (56)
T PF09142_consen 1 FPVRELSAEEARDLRHGRRLPAAG---------PPGPVAAFAPDGRLVALLEE-----------RGGRARPVVVF 55 (56)
T ss_dssp SEEEE--HHHHHHHHTT---B--------------S-EEEE-TTS-EEEEEEE-----------ETTEEEEEEES
T ss_pred CCceECCHHHHHHHhCCCccCCCC---------CCceEEEECCCCcEEEEEEc-----------cCCcEeEEEee
Confidence 689999999999999999998653 23568889999999999843 34445676765
No 80
>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=95.04 E-value=0.21 Score=45.76 Aligned_cols=111 Identities=22% Similarity=0.251 Sum_probs=65.1
Q ss_pred CCCCCCCccceEEEEecc--ccccccccCCCcEEEEEEEEcCcCCCHHHHHHHHHhccccccccCcchhhcccCCeEEEE
Q 007467 135 GTLDPKVTGNLIVCIDRA--TRLVKSQQGAGKEYVCVARLHDKVPDVAKVARALEALTGAVFQRPPLISAVKRQLRIRTI 212 (602)
Q Consensus 135 GTLDP~ATGVL~V~IG~A--TKLv~~l~~~~KeYva~i~LG~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtI 212 (602)
|-||-.+||+|+++-... -+|..--....|+|+|++. |.. +.+.+.. +. .|... . ..+ ...
T Consensus 2 ~RLD~~TSGlll~akd~~~~~~L~~~~~~i~K~Y~a~v~-g~~--~~~~~~~-~~--~g~~~---------~-~~~-~~~ 64 (128)
T TIGR00093 2 GRLDRDSEGLLLLTNDGELVHRLTHPGHHCEKTYLVTVE-GPV--TDEDLEA-LR--KGVQL---------E-DGP-TKP 64 (128)
T ss_pred CCCCCCCEEEEEEEeCHHHHHHHhCCCCCCCeEEEEEEC-CCC--CHHHHHH-Hh--CCeEE---------C-CcE-Eee
Confidence 789999999999988663 3334322345899999996 432 3444432 11 11100 0 000 011
Q ss_pred EEEEEEEEecCCceEEEEEEeecC--chhHHHHHHHHHHhCCceEeceeeEEEEeCcccc
Q 007467 213 YESKLLEYDVDRHLVVFWISCEAG--TYVRTMCVHLGLILGVGGHMQELRRVRSGILGEN 270 (602)
Q Consensus 213 Y~ieLLe~d~e~~~~~f~V~Cs~G--TYIRSL~~DIG~~LG~gAhM~eLRRtrsG~Fsee 270 (602)
-.++++.... ..-.++|.-..| --||..+..|| -.+..|.|+++|+|+++
T Consensus 65 ~~~~~l~~~~--~~~~l~~~l~tGR~HQIR~~~~~lG------~pI~g~~R~~~g~~~l~ 116 (128)
T TIGR00093 65 AKLEVITEPG--FPTWLRITLSEGRNRQVRRMFAAVG------FPVLRLHRVRIGDVSLN 116 (128)
T ss_pred eEEEEEccCC--CceEEEEEEeCCCCHHHHHHHHHcC------CeEeEEEEEEECCEEcC
Confidence 1234443322 123455555666 45888877664 45889999999999985
No 81
>PRK13402 gamma-glutamyl kinase; Provisional
Probab=93.80 E-value=0.061 Score=58.19 Aligned_cols=62 Identities=16% Similarity=0.318 Sum_probs=56.9
Q ss_pred ceeecCHHHHHHHH-cCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccC
Q 007467 310 KRLVVKDTTVNAIC-YGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATC 371 (602)
Q Consensus 310 PrIvVkDsav~aI~-nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~ 371 (602)
-.|+|++.|+++|. +|..|-..||...+..|..|+.|.|++.+|+.||-|+..+++.++...
T Consensus 277 G~i~vd~ga~~al~~~~~sLl~~gi~~v~g~F~~gd~v~i~~~~g~~~~rg~~~y~s~~~~~i 339 (368)
T PRK13402 277 GEIVVENDFDRALDNHSEQLTSDDVVEIKGDFSVGDTILVRKGDGTKLAKGKSNYSSCLLNFI 339 (368)
T ss_pred eeEEECccHHHHHHhcCCcccccceEEEeCEecCCCEEEEECCCCCEEEEEEccCCHHHHHHH
Confidence 38999999999997 579998889999999999999999999999999999999999988753
No 82
>KOG2529 consensus Pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=87.65 E-value=0.082 Score=57.78 Aligned_cols=78 Identities=12% Similarity=-0.089 Sum_probs=64.9
Q ss_pred cccccccCCCCCCCCccceEEEEecccccc-ccccCCCcEEEEEEEEcCcCC-------------------CHHHHHHHH
Q 007467 127 RVEKTGHSGTLDPKVTGNLIVCIDRATRLV-KSQQGAGKEYVCVARLHDKVP-------------------DVAKVARAL 186 (602)
Q Consensus 127 ~~kKvGHsGTLDP~ATGVL~V~IG~ATKLv-~~l~~~~KeYva~i~LG~~t~-------------------s~e~L~~aL 186 (602)
-+-.+||-++.|-.+.|..-|||++.|.-+ ....-..+.|...+.++...+ .+.+....|
T Consensus 113 v~~~~~tr~~~s~~s~gk~yvg~~~lt~~v~~~~k~~~~~e~l~g~l~~~~pl~~~~kr~~~v~~~y~s~~ie~d~~~~l 192 (395)
T KOG2529|consen 113 VCIDRATRLLKSQQSAGKEYVGIGKLTPEVEDALKLHQKLEHLYGALFQRPPLISAVKRVLRVRTLYESKIIEYDRDYPL 192 (395)
T ss_pred EEeecccccccchhccCcEEEEEEecCcchhhhhhhccchhhhhhhhccCCchhhhccceeEeechhhhhcccccccchh
Confidence 356899999999999999999999999998 555667788999999887653 245667888
Q ss_pred HhccccccccCcchhhcc
Q 007467 187 EALTGAVFQRPPLISAVK 204 (602)
Q Consensus 187 ~~F~G~I~Q~PP~ySAVK 204 (602)
..|.+.+.|-+++++...
T Consensus 193 ~~f~~~~~~~t~~rt~~~ 210 (395)
T KOG2529|consen 193 LRFGVSCEAGTYKRTMCV 210 (395)
T ss_pred ccccccccccchHHHHHH
Confidence 889999999999888776
No 83
>KOG3492 consensus Ribosome biogenesis protein NIP7 [Translation, ribosomal structure and biogenesis]
Probab=85.07 E-value=1 Score=44.07 Aligned_cols=67 Identities=18% Similarity=0.340 Sum_probs=59.8
Q ss_pred eeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCC-CCeEE
Q 007467 311 RLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCD-HGVVA 377 (602)
Q Consensus 311 rIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d-~GiVa 377 (602)
+|.|+.++-..+.||..+.-.|+-|+.++|..++.|++++...-+++.|++--++.+....+ .++|+
T Consensus 96 KvWiKp~~Em~flYGNhvlKs~vgRitd~~p~~~GVvVysm~DvPLGFGv~Akst~d~r~~dp~aiv~ 163 (180)
T KOG3492|consen 96 KVWIKPNAEMQFLYGNHVLKSGVGRITDGIPQHQGVVVYSMNDVPLGFGVTAKSTQDCRKADPTAIVV 163 (180)
T ss_pred eEEeccCcccceeecccchhcccceecCCCCCcceEEEEeccCCccccceeecCcccccccCCcEEEE
Confidence 68999999999999999988999999999999999999999999999999999999888776 44443
No 84
>COG0263 ProB Glutamate 5-kinase [Amino acid transport and metabolism]
Probab=83.21 E-value=1.2 Score=48.53 Aligned_cols=61 Identities=20% Similarity=0.370 Sum_probs=54.5
Q ss_pred ceeecCHHHHHHHH-cCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccC
Q 007467 310 KRLVVKDTTVNAIC-YGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATC 371 (602)
Q Consensus 310 PrIvVkDsav~aI~-nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~ 371 (602)
-.|+|++.++.+|. .|..|-.-|+...+.+|..|+.|.|+ .+|..||-|+..+++.++...
T Consensus 280 G~i~iD~GA~~Al~~~gkSLLpaGV~~V~G~F~rGdvV~i~-~~g~~iarG~v~Y~s~el~~i 341 (369)
T COG0263 280 GEITVDAGAVEALLEQGKSLLPAGVTSVEGNFSRGDVVRIR-PQGGEIARGLVNYSSDELRKI 341 (369)
T ss_pred ceEEECccHHHHHHhcCCccccccceEeeeeecCCCEEEEe-cCCceeEeeeccCCHHHHHHH
Confidence 37999999999999 88888878999999999999999999 788899999999999888753
No 85
>PF13636 Nol1_Nop2_Fmu_2: pre-rRNA processing and ribosome biogenesis; PDB: 3M4X_A 3M6U_B 3M6V_B 3M6W_A 3M6X_A.
Probab=82.95 E-value=2.4 Score=37.90 Aligned_cols=57 Identities=19% Similarity=0.305 Sum_probs=37.2
Q ss_pred hceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEeeecCCC
Q 007467 309 YKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVMDRDT 388 (602)
Q Consensus 309 lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRViM~~dt 388 (602)
.+.|.++++.+.+...|..|.++.- ....++++.+|-+++.|.. ..|.+. |.
T Consensus 46 ~~~iel~~e~a~~yl~Ge~i~~~~~---------~~G~vlv~~~g~~LG~gk~----------~g~~lk---------N~ 97 (102)
T PF13636_consen 46 KNVIELDDEQALRYLRGEDIELDPP---------DKGWVLVTYEGFPLGWGKY----------VGGRLK---------NY 97 (102)
T ss_dssp S-EEEETCHHHHHHHCT--EE-SS-----------EEEEEEEECCCEEEEEEE----------ETTEEE---------E-
T ss_pred ceEEECCHHHHHHHHcCCcccCCCC---------CCcEEEEEECCEeeEEEEe----------eCCEEe---------cc
Confidence 3568899999999999999976541 2346677778988877776 256553 78
Q ss_pred CCCCc
Q 007467 389 YPRKW 393 (602)
Q Consensus 389 YP~~W 393 (602)
||+.|
T Consensus 98 yPk~~ 102 (102)
T PF13636_consen 98 YPKGW 102 (102)
T ss_dssp S-GGG
T ss_pred CCCCC
Confidence 99988
No 86
>PF03657 UPF0113: Uncharacterised protein family (UPF0113); InterPro: IPR005155 This entry represents PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain containing proteins such as the ribosomal biogenesis factor NIP7 [, ]. PUA domains are predicted to bind RNA molecules with complex folded structures []. NIP7 is required for efficient 60S ribosome subunit biogenesis and has been shown to interact with another essential nucleolar protein, Nop8p, and the exosome subunit Rrp43p. These three proteins are required for 60S subunit synthesis and may be part of a dynamic complex involved in this process.; PDB: 1T5Y_A 1SQW_A 2P38_A.
Probab=82.85 E-value=1.6 Score=42.67 Aligned_cols=47 Identities=19% Similarity=0.331 Sum_probs=37.9
Q ss_pred eeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEE
Q 007467 311 RLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALG 359 (602)
Q Consensus 311 rIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALG 359 (602)
+|+|++++...+.||..+.-.+|.++..++..+ |++++.++.++++|
T Consensus 93 kvwvk~~~e~~FLYGndV~ks~i~~i~e~~~~~--VvV~n~~d~~LGfG 139 (162)
T PF03657_consen 93 KVWVKPKAEMLFLYGNDVLKSSIGRITEDTPQN--VVVYNMNDVPLGFG 139 (162)
T ss_dssp EEEE-HHHHHHHCTT--EEGGGEEEEETTS-TC--EEEEETTS-EEEEE
T ss_pred eEEECCCceEEeeecCCchHhhcEEecCCCCce--EEEEeCCCCeEEEE
Confidence 899999999999999999999999988877655 88899899998888
No 87
>KOG2522 consensus Filamentous baseplate protein Ligatin, contains PUA domain [Translation, ribosomal structure and biogenesis]
Probab=82.29 E-value=1.8 Score=48.44 Aligned_cols=75 Identities=25% Similarity=0.407 Sum_probs=49.1
Q ss_pred HHHHcCCcccCCccc-cccCccccCCEEEEEecC-CcEEEEEEEEecccccccC-CCCeEEeeeEeeecCCCCCCCcCCC
Q 007467 320 NAICYGAKLMIPGLL-RFENDIEVGEEVVLMTTK-GEAVALGIAEMTTAVMATC-DHGVVARIKRVVMDRDTYPRKWGLG 396 (602)
Q Consensus 320 ~aI~nGakL~ipGil-r~e~~Ie~ge~Vviit~k-GElIALGia~mss~~i~~~-d~GiVak~kRViM~~dtYP~~Wg~g 396 (602)
..+.+|+.||+.|.+ .+...++.|+.-.|.... --++|||++.|++.+|..| -.|..++|- ..-||-. |..|
T Consensus 102 ~~~~~~~~l~~~~m~ppg~p~~~~G~lcai~lpgn~ap~AiGc~~Msseem~v~GlkGkav~il--H~frD~L---w~sg 176 (560)
T KOG2522|consen 102 EHLFNGANLMISGMIPPGDPRCKIGTLCAIALPGNEAPLAIGCVEMSSEEMKVIGLKGKAVKIL--HHFRDGL---WKSG 176 (560)
T ss_pred hhhcccccccccccCCCCCcccccCceeeEecCCCcCceeeeeeecchHHHHHhccccceEEEE--eehhhhh---hhcC
Confidence 357788777654321 122335667666665433 2489999999999999986 478777544 4445655 9999
Q ss_pred ccc
Q 007467 397 PRA 399 (602)
Q Consensus 397 p~a 399 (602)
|..
T Consensus 177 p~~ 179 (560)
T KOG2522|consen 177 PMK 179 (560)
T ss_pred CCC
Confidence 653
No 88
>KOG2572 consensus Ribosome biogenesis protein - Nop58p/Nop5p [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=51.06 E-value=9.9 Score=42.44 Aligned_cols=54 Identities=20% Similarity=0.313 Sum_probs=27.2
Q ss_pred cCHHHHHHHHcCCcccCCccccccCccccCCE--EEEEecCCcEEEEEEEEecccccccCC
Q 007467 314 VKDTTVNAICYGAKLMIPGLLRFENDIEVGEE--VVLMTTKGEAVALGIAEMTTAVMATCD 372 (602)
Q Consensus 314 VkDsav~aI~nGakL~ipGilr~e~~Ie~ge~--Vviit~kGElIALGia~mss~~i~~~d 372 (602)
..+...+.+.|+..-.+|.+-.+ .|+. .+++..-|.++-|+.+.-+|-+|....
T Consensus 265 yR~qL~dylknrM~~iAPnLTaL-----vGElVGaRlIshaGSL~nLaK~p~StIQilGAE 320 (498)
T KOG2572|consen 265 YRDQLIDYLKNRMRTIAPNLTAL-----VGELVGARLISHAGSLFNLAKAPASTIQILGAE 320 (498)
T ss_pred HHHHHHHHHHHHHHhhcchHHHH-----HHHHHHHHHHHhhhhHHHHhhCChhHHHHHhhH
Confidence 34555566666655445544211 1222 234555666666666655555555443
No 89
>PRK08557 hypothetical protein; Provisional
Probab=48.92 E-value=20 Score=39.90 Aligned_cols=59 Identities=14% Similarity=0.120 Sum_probs=38.5
Q ss_pred hceeecCHHHHHHHHcCCcccCCccccccC--ccccCCEEEEEecCCcEEEEEEEEecccccccC
Q 007467 309 YKRLVVKDTTVNAICYGAKLMIPGLLRFEN--DIEVGEEVVLMTTKGEAVALGIAEMTTAVMATC 371 (602)
Q Consensus 309 lPrIvVkDsav~aI~nGakL~ipGilr~e~--~Ie~ge~Vviit~kGElIALGia~mss~~i~~~ 371 (602)
-+.|.++. ....| .|..+..+++..++. +|..|+.|++. .|+++|+|++.|+...+...
T Consensus 77 ~~~~~~~~-~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~v~~~--~~~~~gvg~~~~~~~k~~~~ 137 (417)
T PRK08557 77 EPKIKLKP-TKRRL-KGKYIKEELIENPEELNEILENDYVGVE--IGNFLGVGVKKEDRIKIKDL 137 (417)
T ss_pred Cceeeecc-ccccc-CCccccccccccccccccCCCCCEEEEe--cCCEEEEEEeecceEEEEec
Confidence 35677765 33344 999998777654443 67788844433 48999999998864444433
No 90
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=47.88 E-value=27 Score=38.44 Aligned_cols=52 Identities=19% Similarity=0.298 Sum_probs=37.7
Q ss_pred eeecCHHHHHHHHcCCccc-CCccccccCccccCCEEEEEecCCcEEEEEEEE
Q 007467 311 RLVVKDTTVNAICYGAKLM-IPGLLRFENDIEVGEEVVLMTTKGEAVALGIAE 362 (602)
Q Consensus 311 rIvVkDsav~aI~nGakL~-ipGilr~e~~Ie~ge~Vviit~kGElIALGia~ 362 (602)
+|.++.....+|.+|.+.- ...|.+....+..|+.|.+++.+|+++|+|.+.
T Consensus 4 ~v~l~~~~~~~~~~ghpwv~~~~i~~~~~~~~~G~~v~v~~~~g~~lg~g~~n 56 (396)
T PRK15128 4 RLVLAKGREKSLLRRHPWVFSGAVARMEGKASLGETIDIVDHQGKWLARGAYS 56 (396)
T ss_pred EEEECcchHhHHhcCCCeEEhHHhccccCCCCCCCEEEEEcCCCCEEEEEEEC
Confidence 4677888888899987543 233333333567899999999999999888763
No 91
>KOG2572 consensus Ribosome biogenesis protein - Nop58p/Nop5p [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=37.28 E-value=19 Score=40.27 Aligned_cols=15 Identities=13% Similarity=0.195 Sum_probs=8.2
Q ss_pred eEEEEeccccccccc
Q 007467 145 LIVCIDRATRLVKSQ 159 (602)
Q Consensus 145 L~V~IG~ATKLv~~l 159 (602)
-++++|-|..|+.|=
T Consensus 134 ~~msLglaHslar~K 148 (498)
T KOG2572|consen 134 AAMSLGLAHSLARYK 148 (498)
T ss_pred hHHHHHHHHHHHhhh
Confidence 345556566665544
No 92
>KOG2364 consensus Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=36.34 E-value=11 Score=41.77 Aligned_cols=36 Identities=28% Similarity=0.415 Sum_probs=26.2
Q ss_pred CeEEEEEEEEEEEEecCCceEEEEEEeecCchhHHHHH
Q 007467 207 LRIRTIYESKLLEYDVDRHLVVFWISCEAGTYVRTMCV 244 (602)
Q Consensus 207 lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~GTYIRSL~~ 244 (602)
.|.|+||..+-...|. .++.....-++||||..+.|
T Consensus 361 irer~i~~me~~~~d~--hhf~v~leTqagtyIkefvh 396 (433)
T KOG2364|consen 361 IRERCILGMEKMEADW--HHFRVVLETQAGTYIKEFVH 396 (433)
T ss_pred hhhhhhhhhccCcccc--eEEEEeehhhhhhHHHHHhc
Confidence 3556777766666652 56777777888999999887
No 93
>COG0575 CdsA CDP-diglyceride synthetase [Lipid metabolism]
Probab=34.21 E-value=24 Score=36.53 Aligned_cols=26 Identities=35% Similarity=0.676 Sum_probs=22.7
Q ss_pred HHHHHH-HHHHHhccccc-----ccCCCCCCC
Q 007467 115 SHEVVA-WIKRILRVEKT-----GHSGTLDPK 140 (602)
Q Consensus 115 SheVVa-~VKriL~~kKv-----GHsGTLDP~ 140 (602)
.||.++ ++||.+|++.. ||+|-||-+
T Consensus 216 lGDL~eS~iKR~~gvKDsg~liPGHGGilDR~ 247 (265)
T COG0575 216 LGDLFESYIKRLLGIKDSGWLIPGHGGILDRF 247 (265)
T ss_pred HhhHHHHHHHHccCCCCcCCCCCCcCcccccH
Confidence 478888 99999999987 899999964
No 94
>PRK11933 yebU rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
Probab=32.24 E-value=85 Score=35.62 Aligned_cols=61 Identities=11% Similarity=0.164 Sum_probs=43.4
Q ss_pred hceeecCHHHHHHHHcCCcccCCccccccCccccCCEEEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEeeecCCC
Q 007467 309 YKRLVVKDTTVNAICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVMDRDT 388 (602)
Q Consensus 309 lPrIvVkDsav~aI~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRViM~~dt 388 (602)
.+.+.+++..+.+..+|..|.+..- ... ..++++.+|-.+++|.. ..|.+ .|.
T Consensus 407 ~~~~~l~~~~~~~Yl~ge~l~~~~~------~~~--G~~lv~~~g~~lG~gK~----------~~~~l---------kN~ 459 (470)
T PRK11933 407 ANAFELTPQEAEEWYMGRDIYPQTA------PPA--GEVIVTYQGQPIGLAKR----------VGNRL---------KNS 459 (470)
T ss_pred cceEecCHHHHHHHHCCCCccCCCC------CCC--CEEEEEECCEeeEEEEe----------eCCEe---------cCC
Confidence 4678899999999999999875421 112 36777889988877765 24443 489
Q ss_pred CCCCcCCC
Q 007467 389 YPRKWGLG 396 (602)
Q Consensus 389 YP~~Wg~g 396 (602)
||+.|--|
T Consensus 460 yPkg~~~~ 467 (470)
T PRK11933 460 LPRELVRD 467 (470)
T ss_pred CCHHHhcC
Confidence 99999654
No 95
>KOG2573 consensus Ribosome biogenesis protein - Nop56p/Sik1p [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=29.71 E-value=29 Score=38.96 Aligned_cols=88 Identities=17% Similarity=0.285 Sum_probs=47.5
Q ss_pred HHHHcCCcccCCccccccCccccCCE--EEEEecCCcEEEEEEEEecccccccCCCCeEEeeeEeeecCCCCCCCcCCCc
Q 007467 320 NAICYGAKLMIPGLLRFENDIEVGEE--VVLMTTKGEAVALGIAEMTTAVMATCDHGVVARIKRVVMDRDTYPRKWGLGP 397 (602)
Q Consensus 320 ~aI~nGakL~ipGilr~e~~Ie~ge~--Vviit~kGElIALGia~mss~~i~~~d~GiVak~kRViM~~dtYP~~Wg~gp 397 (602)
..++.-...-+|.+..+ .|+. .++++.-|.+.-|+.+.-+|-+|....+-+- |-...|+--|+ +|+-
T Consensus 285 ~YL~~KMs~vAPnLa~L-----IGe~vgARLIShAGsLtNLaK~PASTvQIlGAEKALF----RALKtrgnTPK-YGLI- 353 (498)
T KOG2573|consen 285 DYLKDKMSSVAPNLAAL-----IGEVVGARLISHAGSLTNLAKYPASTVQILGAEKALF----RALKTRGNTPK-YGLI- 353 (498)
T ss_pred HHHHHHHhhhcchHHHH-----HHHHHHHHHHHhccccchhhhCcchHHHHhhhHHHHH----HHHHhcCCCCC-ceeE-
Confidence 44555555555655332 1222 2456777877778888778777776654432 33444555555 5553
Q ss_pred cchhhhhhhhcCcccccCCCCCCCchhhh
Q 007467 398 RASMKKKLIAEGKLDKHGKLNEKTPQEWA 426 (602)
Q Consensus 398 ~a~~kk~~~~~g~l~k~g~~~~~tp~~w~ 426 (602)
+-++++.+-|-.|.---+-|+
T Consensus 354 --------yhSsfigrA~akNKGRISRyL 374 (498)
T KOG2573|consen 354 --------YHSSFIGRAGAKNKGRISRYL 374 (498)
T ss_pred --------eecchhhhhhccccchHHHHH
Confidence 334445555555554444444
No 96
>COG5426 Uncharacterized membrane protein [Function unknown]
Probab=28.87 E-value=46 Score=34.32 Aligned_cols=45 Identities=29% Similarity=0.525 Sum_probs=32.2
Q ss_pred CCccccCCCCCCCCCCCCcchhcccccceeeeccCc----CCCCCCCCCC
Q 007467 47 KDFIIKPQSFTPSIDTSQWPILLKNYDRLNVRTGHY----TPLPNGYSPL 92 (602)
Q Consensus 47 ~~~~~~~~~~~~~~~~~~wplllkn~~~l~vr~~~~----t~~~~g~~p~ 92 (602)
....++|+...-.--+.+||+|| .|+++.+|.+.. .+..+|+.|+
T Consensus 158 ~a~~v~peHpiv~g~s~ewP~lL-G~Nev~~rd~aeVva~i~~D~~s~PL 206 (254)
T COG5426 158 TAVIVKPEHPIVAGLSGEWPLLL-GYNEVEVRDRAEVVATINEDQGSHPL 206 (254)
T ss_pred cccccCCCCceecCCCCCCCcee-ccceeEeecCceEEEEecCCCCCCce
Confidence 34567786666555667999998 788999988743 4566777775
No 97
>smart00841 Elong-fact-P_C Elongation factor P, C-terminal. These nucleic acid binding domains are predominantly found in elongation factor P, where they adopt an OB-fold, with five beta-strands forming a beta-barrel in a Greek-key topology PUBMED:15210970.
Probab=27.88 E-value=51 Score=27.28 Aligned_cols=29 Identities=31% Similarity=0.481 Sum_probs=23.6
Q ss_pred HHcCCcccCCccccccCccccCCEEEEEecCCcEE
Q 007467 322 ICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAV 356 (602)
Q Consensus 322 I~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElI 356 (602)
+-+|+.|++|.. |+.|+.|.+-|..|+.+
T Consensus 26 letG~~i~VP~F------I~~Gd~I~V~T~~g~Y~ 54 (56)
T smart00841 26 LETGAVVQVPLF------INEGDKIKVDTRTGEYV 54 (56)
T ss_pred ECCCCEEEcCCc------ccCCCEEEEECCCCcEE
Confidence 568999999864 66889998888888865
No 98
>TIGR00094 tRNA_TruD_broad tRNA pseudouridine synthase, TruD family. MJ11364 is a strong partial match from 50 to 230 aa.
Probab=27.46 E-value=3.5e+02 Score=29.55 Aligned_cols=48 Identities=25% Similarity=0.424 Sum_probs=39.9
Q ss_pred ceEEEeeCCCCCCHHHHHHHHHHHhcc--cccccCCCCCCCCccceEEEEe
Q 007467 102 YGIINLDKPANPSSHEVVAWIKRILRV--EKTGHSGTLDPKVTGNLIVCID 150 (602)
Q Consensus 102 nGIInlDKP~G~TSheVVa~VKriL~~--kKvGHsGTLDP~ATGVL~V~IG 150 (602)
+-++.|.| .|++..+++..|-|.|++ ..+|.+|+=|-.|-=.=-||+.
T Consensus 43 ~~~~~l~K-~~~~T~~a~~~iar~l~i~~~~i~yAG~KDk~AvT~Q~~s~~ 92 (387)
T TIGR00094 43 FIHIRVEK-EGCNTLEVARVLAKFLGVSRREIGFAGTKDKRAVTEQWVCLR 92 (387)
T ss_pred EEEEEEEE-CCcCHHHHHHHHHHHhCCChhheeecccccccceeEEEEEec
Confidence 57899999 899999999999999985 5899999999877554444553
No 99
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=26.70 E-value=2.4e+02 Score=25.32 Aligned_cols=70 Identities=10% Similarity=0.081 Sum_probs=52.5
Q ss_pred HHHHHHHHHhccccccccCcchhhcccCCeEEEEEEEEEEEEecCCceEEEEEEeecC-------chhHHHHHHHHHHhC
Q 007467 179 VAKVARALEALTGAVFQRPPLISAVKRQLRIRTIYESKLLEYDVDRHLVVFWISCEAG-------TYVRTMCVHLGLILG 251 (602)
Q Consensus 179 ~e~L~~aL~~F~G~I~Q~PP~ySAVKr~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~G-------TYIRSL~~DIG~~LG 251 (602)
.+.|...+....-..++.|..|-.|....-...+|. ....+.+.+.|.|..| -+.+.||.-|...||
T Consensus 17 ~~~~~~~~~~~l~~~lgkPe~~~~v~~~~~~~m~f~------g~~~p~a~v~i~~~g~~~~e~k~~l~~~i~~~l~~~lg 90 (116)
T PTZ00397 17 ADAALSDIENAIADVLGKPLSYIMSGYDYQKHMRFG------GSHDGCCFVRVTSIGGISRSNNSSIAAAITKILASHLK 90 (116)
T ss_pred HHHHHHHHHHHHHHHhCCChHHEEEEEeCCceEEEC------CCCCceEEEEEEEecCCCHHHHHHHHHHHHHHHHHHhC
Confidence 567777777777888899998776665544444443 1223788899999887 688999999999999
Q ss_pred Cce
Q 007467 252 VGG 254 (602)
Q Consensus 252 ~gA 254 (602)
+..
T Consensus 91 i~~ 93 (116)
T PTZ00397 91 VKS 93 (116)
T ss_pred cCc
Confidence 964
No 100
>COG4012 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.44 E-value=1.2e+02 Score=32.81 Aligned_cols=88 Identities=16% Similarity=0.097 Sum_probs=64.0
Q ss_pred eEEEeeCCCCCCHHHHHHHHHHHhccc----------ccccCCCCCCCCccceEEEEeccccccccccCCCcEEEEEEEE
Q 007467 103 GIINLDKPANPSSHEVVAWIKRILRVE----------KTGHSGTLDPKVTGNLIVCIDRATRLVKSQQGAGKEYVCVARL 172 (602)
Q Consensus 103 GIInlDKP~G~TSheVVa~VKriL~~k----------KvGHsGTLDP~ATGVL~V~IG~ATKLv~~l~~~~KeYva~i~L 172 (602)
+++-++--.-.+.+-.-+.+-..|... -+--++-+||.|.=.|+|-+|++.-++-.+.+. .-++++.-
T Consensus 178 ~f~fl~~eiPe~FtRMraaa~sal~~~t~av~mDskfaav~gal~dpaa~palvVd~GngHttaalvded--RI~gv~EH 255 (342)
T COG4012 178 DFMFLDDEIPESFTRMRAAAMSALSAGTDAVAMDSKFAAVMGALVDPAADPALVVDYGNGHTTAALVDED--RIVGVYEH 255 (342)
T ss_pred cceecCCcCchhHHHHHHHHHHHHhcCceEEEEcchhHhhhhcccCcccCceEEEEccCCceEEEEecCC--eEEEEeec
Confidence 456666555555555555555555422 233467889999999999999998887776654 88899999
Q ss_pred cCcCCCHHHHHHHHHhc-ccc
Q 007467 173 HDKVPDVAKVARALEAL-TGA 192 (602)
Q Consensus 173 G~~t~s~e~L~~aL~~F-~G~ 192 (602)
|....+.++|+..|..| .|+
T Consensus 256 HT~~Lspekled~I~rf~~Ge 276 (342)
T COG4012 256 HTIRLSPEKLEDQIIRFVEGE 276 (342)
T ss_pred ccccCCHHHHHHHHHHHHhcc
Confidence 99988999999988777 343
No 101
>PF09285 Elong-fact-P_C: Elongation factor P, C-terminal; InterPro: IPR015365 These nucleic acid binding domains are predominantly found in elongation factor P, where they adopt an OB-fold, with five beta-strands forming a beta-barrel in a Greek-key topology []. ; GO: 0043043 peptide biosynthetic process, 0005737 cytoplasm; PDB: 1YBY_A 3OYY_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H.
Probab=24.48 E-value=46 Score=27.52 Aligned_cols=29 Identities=31% Similarity=0.523 Sum_probs=20.4
Q ss_pred HHcCCcccCCccccccCccccCCEEEEEecCCcEE
Q 007467 322 ICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAV 356 (602)
Q Consensus 322 I~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElI 356 (602)
+-+|+.|++|-. |+.|+.|.+-|.+|+++
T Consensus 26 letG~~i~VP~F------I~~Gd~I~VdT~~g~Yv 54 (56)
T PF09285_consen 26 LETGAEIQVPLF------IEEGDKIKVDTRDGSYV 54 (56)
T ss_dssp ETTS-EEEEETT--------TT-EEEEETTTTEEE
T ss_pred EcCCCEEEccce------ecCCCEEEEECCCCeEe
Confidence 568999998864 67899999988888876
No 102
>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=23.07 E-value=5.2e+02 Score=27.24 Aligned_cols=48 Identities=17% Similarity=0.247 Sum_probs=39.6
Q ss_pred ceEEEeeCCCCCCHHHHHHHHHHHhccc--ccccCCCCCCCCccceEEEEe
Q 007467 102 YGIINLDKPANPSSHEVVAWIKRILRVE--KTGHSGTLDPKVTGNLIVCID 150 (602)
Q Consensus 102 nGIInlDKP~G~TSheVVa~VKriL~~k--KvGHsGTLDP~ATGVL~V~IG 150 (602)
+-++.|.| .|++.++++..|-+.|+++ .+|.+|+=|-.|.=.=-|||-
T Consensus 26 ~l~~~l~K-~~~~T~~ai~~LAr~lgi~~~~igyAGlKDk~AvT~Q~~sv~ 75 (253)
T cd02575 26 HLLLHIRK-TGLNTREVAKELAKALGVKERDVGYAGLKDRHAVTTQWFSVH 75 (253)
T ss_pred EEEEEEEE-CCCCHHHHHHHHHHHhCCChhheeecccccCceeeEEEEEEE
Confidence 45778888 7999999999999999964 899999999888665555553
No 103
>cd05794 S1_EF-P_repeat_2 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-tRNA and puromycine in vitro. EF-P binds to both the 30S and 50S ribosomal subunits. EF-P binds near the streptomycine binding site of the 16S rRNA in the 30S subunit. EF-P interacts with domains 2 and 5 of the 23S rRNA. The L16 ribosomal protein of the 50S or its N-terminal fragment are required for EF-P mediated peptide bond synthesis, whereas L11, L15, and L7/L12 are not required in this reaction, suggesting that EF-P may function at a different ribosomal site than most other translation factors. EF-P is essential for cell viability and is required for protein synthesis. EF-P is mainly present in bacteria. The EF-P homologs in archaea and eukaryotes are the initiation factors aIF5A and eIF5A, respectively. EF-P
Probab=22.96 E-value=73 Score=26.38 Aligned_cols=29 Identities=34% Similarity=0.528 Sum_probs=23.4
Q ss_pred HHcCCcccCCccccccCccccCCEEEEEecCCcEE
Q 007467 322 ICYGAKLMIPGLLRFENDIEVGEEVVLMTTKGEAV 356 (602)
Q Consensus 322 I~nGakL~ipGilr~e~~Ie~ge~Vviit~kGElI 356 (602)
+-+|+.|++|-. |+.|+.|.+-|..|+.+
T Consensus 26 letG~~i~VP~F------I~~Gd~I~V~T~~g~Y~ 54 (56)
T cd05794 26 LETGAEVQVPLF------IKEGEKIKVDTRTGEYV 54 (56)
T ss_pred ECCCCEEEcCCe------ecCCCEEEEECCCCcEe
Confidence 567999998864 56899999988888875
No 104
>KOG2573 consensus Ribosome biogenesis protein - Nop56p/Sik1p [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=21.72 E-value=34 Score=38.39 Aligned_cols=8 Identities=38% Similarity=0.086 Sum_probs=4.8
Q ss_pred HHHHHHhC
Q 007467 244 VHLGLILG 251 (602)
Q Consensus 244 ~DIG~~LG 251 (602)
+++.+.||
T Consensus 230 ~~~~e~l~ 237 (498)
T KOG2573|consen 230 HELLEDLG 237 (498)
T ss_pred hHHHHHhc
Confidence 45666666
No 105
>cd00497 PseudoU_synth_TruA_like PseudoU_synth_TruA: Pseudouridine synthase, TruA family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruA, Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus3p Caenorhabditis elegans Pus1p and human PUS1. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae PUS1 catalyzes the formation of psi34 and psi36 in the intron containing tRNAIle, psi35 in the intron containing tRNATyr, psi27 and/or psi28 in several yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear RNA (U2 snRNA). The presence of the intron is required for the formation of psi 34, 35 and 36. In addition S. cerevisiae PUS1 makes psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Psi44 in U2 snRNA and, psi38 and psi39 in tRNAs are highly ph
Probab=21.44 E-value=5.2e+02 Score=26.30 Aligned_cols=86 Identities=15% Similarity=0.144 Sum_probs=54.0
Q ss_pred ccCCCcEEEEEEEEcCcCCCHHHHHHHHHhccccccccCcchhhccc--CCeEEEEEEEEEEEEecCCceEEEEEEeecC
Q 007467 159 QQGAGKEYVCVARLHDKVPDVAKVARALEALTGAVFQRPPLISAVKR--QLRIRTIYESKLLEYDVDRHLVVFWISCEAG 236 (602)
Q Consensus 159 l~~~~KeYva~i~LG~~t~s~e~L~~aL~~F~G~I~Q~PP~ySAVKr--~lR~rtIY~ieLLe~d~e~~~~~f~V~Cs~G 236 (602)
..-..|+|.-.+-.+ ..+.+.++++++.|.|...=. .|+..+. .--.|+|+++++.+.. +.+ .+...+-
T Consensus 98 ~~a~~R~Y~Y~i~~~--~~d~~~m~~a~~~f~G~HDF~--~F~~~~~~~~~~~RtI~~~~v~~~~---~~~--~i~i~g~ 168 (224)
T cd00497 98 FSCVSRTYRYYFPGG--DLDIEAMREAAKLLLGTHDFR--NFCKKDGRKKNPVRTIISAEVEEVD---DFY--VFEVKGK 168 (224)
T ss_pred cccCeEEEEEEECCC--CcCHHHHHHHHHHccCcccHH--HhcCCCCCCCCCeEEEEEEEEEecC---CEE--EEEEEEc
Confidence 344578898866443 457899999999999964211 1222111 2346889999987532 334 4456677
Q ss_pred chhHHHHHHH-HHHhCCc
Q 007467 237 TYVRTMCVHL-GLILGVG 253 (602)
Q Consensus 237 TYIRSL~~DI-G~~LG~g 253 (602)
.+++..+|-| |.+|-+|
T Consensus 169 sFL~~mVR~mvg~ll~vg 186 (224)
T cd00497 169 SFLWHQVRRIVAALFLVG 186 (224)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 7888888744 5555544
Done!