Query 042710
Match_columns 237
No_of_seqs 217 out of 1052
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 08:43:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042710.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042710hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0101 TruA Pseudouridylate s 100.0 1.1E-73 2.3E-78 503.8 23.7 204 24-233 1-204 (266)
2 PRK12434 tRNA pseudouridine sy 100.0 2.7E-73 5.9E-78 498.1 24.5 205 24-234 1-206 (245)
3 PRK14586 tRNA pseudouridine sy 100.0 1.6E-72 3.5E-77 493.3 24.6 205 24-234 1-206 (245)
4 PRK00021 truA tRNA pseudouridi 100.0 7.9E-72 1.7E-76 488.7 24.7 205 24-234 1-205 (244)
5 PRK14588 tRNA pseudouridine sy 100.0 1.7E-71 3.6E-76 493.2 24.4 204 24-234 1-208 (272)
6 cd02570 PseudoU_synth_EcTruA P 100.0 9E-70 2E-74 474.3 23.9 200 29-234 1-200 (239)
7 TIGR00071 hisT_truA pseudourid 100.0 1.4E-69 2.9E-74 470.0 23.9 193 25-234 1-193 (227)
8 PRK14589 tRNA pseudouridine sy 100.0 1.5E-66 3.2E-71 459.6 22.4 186 25-234 1-187 (265)
9 cd02569 PseudoU_synth_ScPus3 P 100.0 1.5E-66 3.2E-71 458.0 21.8 190 29-234 1-215 (256)
10 cd00497 PseudoU_synth_TruA_lik 100.0 3.4E-66 7.4E-71 447.9 21.0 183 31-234 1-184 (224)
11 cd02866 PseudoU_synth_TruA_Arc 100.0 1E-65 2.2E-70 444.1 20.8 181 29-234 1-182 (221)
12 cd02568 PseudoU_synth_PUS1_PUS 100.0 5.7E-65 1.2E-69 445.6 18.6 190 29-234 1-207 (245)
13 PRK14587 tRNA pseudouridine sy 100.0 5.9E-61 1.3E-65 421.5 20.0 173 25-234 1-174 (256)
14 PLN03078 Putative tRNA pseudou 100.0 1.2E-60 2.5E-65 447.8 23.1 210 21-235 67-381 (513)
15 KOG2554 Pseudouridylate syntha 100.0 4.4E-54 9.5E-59 383.7 15.5 198 20-233 61-278 (425)
16 KOG2553 Pseudouridylate syntha 100.0 1.2E-53 2.7E-58 388.3 17.3 216 15-234 27-290 (416)
17 KOG4393 Predicted pseudouridyl 100.0 4.4E-47 9.6E-52 327.0 14.7 209 24-236 4-235 (295)
18 PF01416 PseudoU_synth_1: tRNA 99.6 9.1E-17 2E-21 122.8 -1.7 61 170-233 1-61 (105)
19 PF01416 PseudoU_synth_1: tRNA 98.4 1.4E-08 3E-13 77.3 -2.6 82 31-131 3-105 (105)
20 PF10105 DUF2344: Uncharacteri 97.4 0.0061 1.3E-07 51.6 13.2 113 49-179 19-137 (187)
21 TIGR01213 conserved hypothetic 96.7 0.056 1.2E-06 50.6 14.1 155 47-219 184-348 (388)
22 COG1258 Predicted pseudouridyl 95.9 0.26 5.6E-06 45.9 13.7 156 47-221 190-355 (398)
23 PRK14554 putative pseudouridyl 95.0 0.97 2.1E-05 43.0 14.4 153 48-219 220-381 (422)
24 cd01291 PseudoU_synth PseudoU_ 92.9 1.2 2.6E-05 32.4 8.7 21 68-89 23-43 (87)
25 COG5011 Uncharacterized protei 84.0 1.2 2.5E-05 38.2 3.3 73 52-125 23-101 (228)
26 cd02572 PseudoU_synth_hDyskeri 56.4 1.1E+02 0.0024 25.7 8.9 82 126-226 55-143 (182)
27 TIGR00685 T6PP trehalose-phosp 45.7 32 0.00068 29.7 4.2 50 25-76 2-51 (244)
28 PF07683 CobW_C: Cobalamin syn 42.6 1.1E+02 0.0024 21.8 6.1 86 88-174 4-93 (94)
29 PRK04099 truB tRNA pseudouridi 35.3 3.2E+02 0.0069 24.6 8.9 100 129-228 58-177 (273)
30 PF05125 Phage_cap_P2: Phage m 30.8 49 0.0011 30.6 3.0 34 47-80 29-78 (333)
31 PF09153 DUF1938: Domain of un 30.6 37 0.00081 25.1 1.8 24 209-232 25-48 (86)
32 PRK00020 truB tRNA pseudouridi 28.3 4.2E+02 0.0091 23.4 9.0 101 126-226 63-186 (244)
33 PF07166 DUF1398: Protein of u 27.8 30 0.00066 27.4 1.0 31 157-187 62-93 (125)
34 KOG2894 Uncharacterized conser 26.5 1.2E+02 0.0025 27.6 4.5 36 27-62 187-223 (331)
35 PRK05340 UDP-2,3-diacylglucosa 25.2 1.3E+02 0.0028 25.8 4.6 22 208-229 106-132 (241)
36 PRK02193 truB tRNA pseudouridi 24.6 5.2E+02 0.011 23.3 9.1 54 126-179 53-109 (279)
37 PF11688 DUF3285: Protein of u 24.2 34 0.00073 22.1 0.5 7 221-227 12-18 (45)
38 PLN02580 trehalose-phosphatase 22.7 95 0.0021 29.3 3.5 50 24-77 117-166 (384)
39 smart00833 CobW_C Cobalamin sy 22.5 2.8E+02 0.0061 19.4 8.6 84 88-173 4-90 (92)
40 PLN02151 trehalose-phosphatase 22.4 1.1E+02 0.0023 28.6 3.7 59 24-86 96-154 (354)
41 KOG2364 Predicted pseudouridyl 21.4 1.9E+02 0.004 27.4 5.0 88 33-124 207-308 (433)
42 PF05137 PilN: Fimbrial assemb 21.3 1.2E+02 0.0027 20.7 3.1 23 102-124 2-24 (78)
43 TIGR00431 TruB tRNA pseudourid 21.2 5.3E+02 0.012 22.1 10.1 98 129-229 58-174 (209)
44 PRK10187 trehalose-6-phosphate 20.7 2.3E+02 0.0051 24.7 5.5 57 26-84 14-70 (266)
45 PF12124 Nsp3_PL2pro: Coronavi 20.7 55 0.0012 22.2 1.1 31 76-106 34-65 (66)
46 COG1877 OtsB Trehalose-6-phosp 20.4 1.6E+02 0.0034 26.4 4.2 62 23-86 15-76 (266)
No 1
>COG0101 TruA Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-73 Score=503.83 Aligned_cols=204 Identities=46% Similarity=0.769 Sum_probs=193.0
Q ss_pred ceeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHH
Q 042710 24 GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIH 103 (237)
Q Consensus 24 ~~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~ 103 (237)
|+||+|.|+||||+|+|||+||+.+|||++||+||.+++. .++.+.+|||||+||||.+||+||+++.+.. ++.|.
T Consensus 1 m~ri~l~iaYdGt~f~G~Q~Qp~~~TVQ~~le~aL~~i~~---~~~~i~~AGRTD~GVHA~gqv~hfd~~~~~~-~~~~~ 76 (266)
T COG0101 1 MKRIALKIAYDGTRFHGWQRQPNVRTVQGELEKALSKIGG---ESVRVIGAGRTDAGVHALGQVVHFDTPADRP-LEKLV 76 (266)
T ss_pred CceEEEEEEEcCCceeeeccCCCCCCHHHHHHHHHHHhcC---CcceeEEecCCCcCccccccEEEEEcCCccc-HHHHH
Confidence 4699999999999999999999999999999999999986 4679999999999999999999999987643 78999
Q ss_pred HHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccccccc
Q 042710 104 AALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF 183 (237)
Q Consensus 104 ~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F 183 (237)
.+||++||+||+|+++++||++|||||+|.+|+|+|+|++...++||..+++|+++.+||+++|++|++.|+|+|||+||
T Consensus 77 ~~lN~~Lp~dI~V~~~~~v~~~FhaRfsa~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ld~~~m~~aa~~l~G~HDF~sF 156 (266)
T COG0101 77 RALNALLPPDIRVLDVAEVPDDFHARFSAKSRTYRYIIYNAPLRPPFLANYVWHVPYPLDLDAMREAAKLLLGTHDFTSF 156 (266)
T ss_pred HHHHhcCCCCcEEEEEEECCCCCCCcccccceEEEEEEcCccCCChhhhcccccccCcCCHHHHHHHHHHccccccchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCcEEEEEEEEEEeCcEEEEEEEeCccchHhHHHHHHHHh
Q 042710 184 VNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVNHSY 233 (237)
Q Consensus 184 ~~~~~~~~~~~~vR~I~~~~i~~~~~~~~i~i~G~sFL~~qVR~mVG~~~ 233 (237)
|+.++. .++++|||+++++.+.++++.|+|+|+||||||||+|||+++
T Consensus 157 ~~~~~~--~~s~vRti~~~~v~~~~~~i~i~i~g~sFL~~mVR~iVg~l~ 204 (266)
T COG0101 157 RKAGCQ--SKSPVRTIYRIDVSRDGDLIVIDISGNSFLWHMVRNIVGALL 204 (266)
T ss_pred ccCCCc--cCCCeEEEEEEEEEecCCEEEEEEEeChhHHHHHHHHHHHHH
Confidence 998753 458999999999999999999999999999999999999554
No 2
>PRK12434 tRNA pseudouridine synthase A; Reviewed
Probab=100.00 E-value=2.7e-73 Score=498.15 Aligned_cols=205 Identities=39% Similarity=0.641 Sum_probs=192.8
Q ss_pred ceeEEEEEEEeCCCceeeeeCCC-CCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHH
Q 042710 24 GFKWRLVIGYDGTRYAGWQFQTS-PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESI 102 (237)
Q Consensus 24 ~~~~~l~i~YdGt~y~G~Q~Q~~-~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l 102 (237)
|++|+|.|+||||+|+|||+||+ .+|||++||+||.++.+ +++++.+|||||+||||++||+||+++... +++.+
T Consensus 1 m~~~~l~i~YdGt~y~G~Q~Q~~~~~TVq~~le~aL~~~~~---~~~~~~~agRTD~GVHA~~qv~~f~~~~~~-~~~~l 76 (245)
T PRK12434 1 MRNIKLTIQYDGSRYKGWQKLGNNDNTIQGKIESVLSEMTG---EEIEIIGCGRTDAGVHALNQVANFQTDEKL-SEDKI 76 (245)
T ss_pred CceEEEEEEECCCccceEeeCCCCCCCHHHHHHHHHHHHhC---CCeEEEEeccCCCCcCccCcEEEEEcCCCC-CHHHH
Confidence 57999999999999999999996 89999999999999875 689999999999999999999999998654 57899
Q ss_pred HHHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhccccccccc
Q 042710 103 HAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSA 182 (237)
Q Consensus 103 ~~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~ 182 (237)
..+||+.||+||+|+++.+|+++|||||+|++|+|+|+|++....+||.++|+|+++.+||+++|++||+.|+|+|||++
T Consensus 77 ~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~f~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~ 156 (245)
T PRK12434 77 KKYLNEYLPNDIVVTNVEEVDERFHARYNVKSKTYLYKIWNEKFHNVFMRKYSMHVNEKLDVKAMKEAAKYLVGSHDFTS 156 (245)
T ss_pred HHHHHccCCCCeEEEEEEECCCCcccccCCCcEEEEEEEccCCCCChhhCCeEEEeCCCCCHHHHHHHHHHccCCcCHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCCCCCcEEEEEEEEEEeCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 183 FVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 183 F~~~~~~~~~~~~vR~I~~~~i~~~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
||+.++ +.++++|+|+++++.+.++++.|+|+|+||||||||+|||+++.
T Consensus 157 F~~~~~--~~~~~~R~I~~~~v~~~~~~~~i~i~g~~FL~~mVR~mvg~ll~ 206 (245)
T PRK12434 157 FTNAKS--KKKSTVREIYSIDIMEEDGFVQIRVSGNGFLHNMVRIIVGALIE 206 (245)
T ss_pred hcCCCC--CCCCCEEEEEEEEEEEeCCEEEEEEEecHHHHHHHHHHHHHHHH
Confidence 997643 35689999999999988899999999999999999999997764
No 3
>PRK14586 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=1.6e-72 Score=493.27 Aligned_cols=205 Identities=38% Similarity=0.589 Sum_probs=191.4
Q ss_pred ceeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHH
Q 042710 24 GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIH 103 (237)
Q Consensus 24 ~~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~ 103 (237)
|++|+|.|+||||+|+|||+||+.+|||++||+||.++.+ +++.+++||||||||||++||+||+++.+..+++.|.
T Consensus 1 m~~~~l~i~YdGt~f~G~Q~Q~~~~TVq~~le~aL~~~~~---~~i~~~~agRTD~GVHA~~qv~~f~~~~~~~~~~~l~ 77 (245)
T PRK14586 1 MKRVAAVVSYDGSNFFGYQGQPDVRTVQGVFEDALERIFK---QRIYTQAAGRTDTGVHANGQVIAFNCPNDRMTEEDIK 77 (245)
T ss_pred CeEEEEEEEEcCCceeeEEECCCCCCHHHHHHHHHHHHhC---CCeeEEEecCCccCCCccCcEEEEEecCCcCCHHHHH
Confidence 5799999999999999999999999999999999999975 6899999999999999999999999987634678999
Q ss_pred HHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccccccc
Q 042710 104 AALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF 183 (237)
Q Consensus 104 ~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F 183 (237)
.+||++||+||+|+++.+||++|||||+|++|+|+|+|++++.++||.++|+|+.+.+||+++|++||+.|+|+|||++|
T Consensus 78 ~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~f~~~~~~~~~~~ld~~~m~~a~~~l~G~HDF~~F 157 (245)
T PRK14586 78 NAMNANLPDDIYVKKVFEVPKNFHPRFDAKKRIYHYFILTSKEKNVFLRKYVWWFPYELDLEAMRKAAKYLEGEHDFTSF 157 (245)
T ss_pred HHHHccCCCCeEEEEEEECCCCcCcccCCCcEEEEEEEecCCCCChhhCCceEEeCCCCCHHHHHHHHHHccCcchHHhh
Confidence 99999999999999999999999999999999999999999889999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCcEEEEEEEEEE-eCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 184 VNIQRNDRALNPVKSIFRFDVIE-MGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 184 ~~~~~~~~~~~~vR~I~~~~i~~-~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
+..+ +.++++|+|+++++.+ .++++.|+|+|+||||||||+|||+++.
T Consensus 158 -~~~~--~~~~~vR~I~~~~~~~~~~~~i~~~i~g~~FL~~mVR~mvg~l~~ 206 (245)
T PRK14586 158 -KTGS--DERNPVRTIYRIRILRLKKDLILIRVEGRSFLRRMVRNIVGALVK 206 (245)
T ss_pred -cCCC--CCCCCcEEEEEEEEEEccCCEEEEEEEechhHHHHHHHHHHHHHH
Confidence 4432 3568999999999988 4789999999999999999999997765
No 4
>PRK00021 truA tRNA pseudouridine synthase A; Validated
Probab=100.00 E-value=7.9e-72 Score=488.71 Aligned_cols=205 Identities=42% Similarity=0.693 Sum_probs=193.6
Q ss_pred ceeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHH
Q 042710 24 GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIH 103 (237)
Q Consensus 24 ~~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~ 103 (237)
|++|+|.|+||||+|+|||+||+.+|||++||+||.+++. +++++.+||||||||||++||++|+++.. .+++.+.
T Consensus 1 m~~~~l~i~YdGt~y~G~q~q~~~~TVq~~le~aL~~~~~---~~~~~~~agRTD~GVHA~~qvv~~~~~~~-~~~~~~~ 76 (244)
T PRK00021 1 MMRIALTIEYDGTNFHGWQRQPNGRTVQGELEKALSKLAG---EPVRVIGAGRTDAGVHALGQVAHFDTPAP-RPPEKWR 76 (244)
T ss_pred CeEEEEEEEECCCccceeeeCCCCCCHHHHHHHHHHHHhC---CCeEEEEEccCCCcccccCcEEEEEeCCC-CCHHHHH
Confidence 6799999999999999999999999999999999999985 68999999999999999999999999875 3578999
Q ss_pred HHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccccccc
Q 042710 104 AALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF 183 (237)
Q Consensus 104 ~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F 183 (237)
.+||+.||+||+|+++.+||++|||||+|++|+|+|+|+....++||.++++|++..++|+++|++|++.|+|+|||+||
T Consensus 77 ~~lN~~Lp~dI~V~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ld~~~m~~a~~~~~G~HdF~~F 156 (244)
T PRK00021 77 RALNALLPDDIAVLWAEEVPDDFHARFSAKARRYRYRIYNRPARPPFLRGYVWHYPYPLDVDAMNEAAQYLLGEHDFTSF 156 (244)
T ss_pred HHHHhcCCCCEEEEEeEecCCCcCcCcCCCceEEEEEEecCCCCChhhCCcEEEeCCCCcHHHHHHHHHHhcCceeeeee
Confidence 99999999999999999999999999999999999999999889999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCcEEEEEEEEEEeCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 184 VNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 184 ~~~~~~~~~~~~vR~I~~~~i~~~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
|+.+. +.++++|+|+++++.++++++.|+|+|+||||||||+|||+++.
T Consensus 157 ~~~~~--~~~~~~R~I~~~~v~~~~~~~~i~i~g~sFL~~qVR~mvg~l~~ 205 (244)
T PRK00021 157 RASGC--QSKSPVRTIYEADVTREGDFIVFDISANGFLHNMVRNIVGTLLE 205 (244)
T ss_pred eCCCC--CCCCCeEEEEEEEEEEcCCEEEEEEEEchhHHHHHHHHHHHHHH
Confidence 86542 35789999999999988899999999999999999999998875
No 5
>PRK14588 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=1.7e-71 Score=493.24 Aligned_cols=204 Identities=37% Similarity=0.507 Sum_probs=190.8
Q ss_pred ceeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHH
Q 042710 24 GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIH 103 (237)
Q Consensus 24 ~~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~ 103 (237)
|++|+|.|+||||+|+|||+||+.+|||++||+||.++.. +++.+.+|||||+||||++||+||+++... +++.+.
T Consensus 1 m~~~~l~iaYdGt~f~G~Q~Q~~~~TVq~~Le~aL~~l~~---~~i~i~~AgRTDaGVHA~gQv~~f~~~~~~-~~~~l~ 76 (272)
T PRK14588 1 MRTIALLLEYDGTDFAGSQWQTDGRTVQGALEAAWQALTQ---ERRRIVLAGRTDAGVHARGQVAHVQTDTRH-SLATIW 76 (272)
T ss_pred CceEEEEEEEcCCceeeeEECCCCCCHHHHHHHHHHHhhC---CCceEEEecCCCcCcCccccEEEEEcCCCC-CHHHHH
Confidence 5799999999999999999999999999999999999874 689999999999999999999999998664 578999
Q ss_pred HHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccccccc
Q 042710 104 AALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF 183 (237)
Q Consensus 104 ~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F 183 (237)
.+||+.||+||+|+++.+|+++|||||+|++|+|+|+|+++..++||.++|+|+++.++|+++|++||+.|+|+|||++|
T Consensus 77 ~~LN~~LP~dI~V~~v~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~lDi~~m~~a~~~f~G~HDF~~F 156 (272)
T PRK14588 77 RGLNAHLPEDIGVQNAWEAPPDFHARFSAIQREYRYVIDCAPAPSPQLRHQVLHYAGTLDVAAMDAALKLLIGTHDFAAF 156 (272)
T ss_pred HHHHhcCCCCeEEEEEEECCCCcCcccCCCcEEEEEEEcCCCCCChhhcCceEecCCCCCHHHHHHHHHHccCCcchHhh
Confidence 99999999999999999999999999999999999999999889999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCcEEEEEEEEEEe----CcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 184 VNIQRNDRALNPVKSIFRFDVIEM----GALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 184 ~~~~~~~~~~~~vR~I~~~~i~~~----~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
|+.. +.++++|+|+++++.+. ++++.|+|+|+||||||||+|||+++.
T Consensus 157 ~~~~---~~~~~vRtI~~~~~~~~~~~~~~~i~~~i~g~~FL~~mVR~mVg~ll~ 208 (272)
T PRK14588 157 TTAP---QEGSTVRTCYWARCTDTEWFGRPLLAIEVAANAFLQHMVRNIVGTLLL 208 (272)
T ss_pred cCCC---CCCCCeEEEEEEEEEEcccCCCCEEEEEEEEchhHHHHHHHHHHHHHH
Confidence 9762 24689999999999874 378999999999999999999997764
No 6
>cd02570 PseudoU_synth_EcTruA PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E. coli TruA makes psi38/39 and/or 40 in tRNA. psi38 and psi39 in tRNAs are highly phylogenetically conserved. P. aeruginosa truA is required for induction of type III secretory genes and may act through modifying tRNAs critical for the expression of type III genes or their regulators.
Probab=100.00 E-value=9e-70 Score=474.27 Aligned_cols=200 Identities=47% Similarity=0.752 Sum_probs=189.1
Q ss_pred EEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHHHHHHc
Q 042710 29 LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNG 108 (237)
Q Consensus 29 l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~~~lN~ 108 (237)
|+|+||||+|+|||+||+.+|||++||+||.+++. +++++.+|||||+||||++||+||+++.+. +++.+..+||+
T Consensus 1 l~i~Y~Gt~f~G~q~q~~~~TVq~~le~aL~~~~~---~~~~i~~agRTD~GVHA~~qvv~~~~~~~~-~~~~~~~~lN~ 76 (239)
T cd02570 1 LTIEYDGTNFSGWQRQPNGRTVQGELEKALSKIAG---EPVRVIGAGRTDAGVHALGQVAHFDTPSEI-PLEKLIKALNS 76 (239)
T ss_pred CEEEEeCCccceeeeCCCCCCHHHHHHHHHHHHhC---CCeEEEEECcCCCCcCccccEEEEEECCCC-CHHHHHHHHHc
Confidence 57999999999999999999999999999999975 689999999999999999999999998764 57899999999
Q ss_pred cCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhccccccccccccccc
Q 042710 109 LLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQR 188 (237)
Q Consensus 109 ~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F~~~~~ 188 (237)
.||+||+|+++.+|+++|||||+|++|+|+|+|+....++||.++++|+++.++|+++|++|+++|+|+|||+|||+.+.
T Consensus 77 ~Lp~dI~v~~i~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~d~~~m~~a~~~f~G~HdF~~F~~~~~ 156 (239)
T cd02570 77 LLPPDIRVLSAEEVPDDFHARFSAKSRTYRYRILNRPVPSPFLRRYVWHVPRPLDIEAMQEAAKLLLGTHDFSSFRAAGC 156 (239)
T ss_pred cCCCCEEEEEEEECCCCcCcccCCCceEEEEEEccCCCCChhhCCeEEEeCCCCCHHHHHHHHHHccCCcchhhhCCCCC
Confidence 99999999999999999999999999999999999888899999999999999999999999999999999999998653
Q ss_pred cCCCCCCcEEEEEEEEEEeCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 189 NDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 189 ~~~~~~~vR~I~~~~i~~~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
..++++|+|+++++.+.++++.|+|+|+||||||||+|||+++.
T Consensus 157 --~~~~~~R~I~~~~v~~~~~~~~i~i~g~sFL~~qVR~mvg~ll~ 200 (239)
T cd02570 157 --QSKSTVRTIYRADVYREGDLIVFEIRANGFLYHMVRNIVGTLLE 200 (239)
T ss_pred --CCCCCeEEEEEEEEEEeCCEEEEEEEEcHHHHHHHHHHHHHHHH
Confidence 24689999999999998899999999999999999999998876
No 7
>TIGR00071 hisT_truA pseudouridylate synthase I. universal so far, single copy in all prokaryotes, 3 in yeast. Trusted cutoff for orthology is about 100 based on 1 match only in complete prokaryote with length 200.
Probab=100.00 E-value=1.4e-69 Score=470.00 Aligned_cols=193 Identities=40% Similarity=0.654 Sum_probs=178.3
Q ss_pred eeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHHH
Q 042710 25 FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHA 104 (237)
Q Consensus 25 ~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~~ 104 (237)
++|+|.|+||||+|+|||+||+.+|||++||+||.+++. +++++.+|||||+||||++||+||+++.+. +++.|..
T Consensus 1 ~~~~l~i~YdGt~f~G~Q~Q~~~~TVq~~le~aL~~~~~---~~i~~~~agRTD~GVHA~~qv~~f~~~~~~-~~~~~~~ 76 (227)
T TIGR00071 1 RKIALKIAYDGSNYHGWQRQPNKRTVQGELEKALEAIGK---KKITIMSAGRTDKGVHAMGQVISFDTPKEI-PDNKLNA 76 (227)
T ss_pred CeEEEEEEEcCCCeeEEeECcCCCCHHHHHHHHHHHHhC---CCeeEEeeccCcCCccccccEEEEEecCCC-CHHHHHH
Confidence 589999999999999999999999999999999999975 689999999999999999999999998764 5788999
Q ss_pred HHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhccccccccccc
Q 042710 105 ALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV 184 (237)
Q Consensus 105 ~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F~ 184 (237)
+||+.||+||+|+++.+|+++|||||+|++|+|+|+|+... ++..++|+++|++|++.|+|+|||++||
T Consensus 77 ~lN~~Lp~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~-----------~~~~~ld~~~m~~a~~~~~G~HDF~~F~ 145 (227)
T TIGR00071 77 KLNALLPPDIRVKALAPVNDNFHARFSASKRHYRYILYNHR-----------HYYSPLDLEKMRAAAKQLLGKHDFSNFS 145 (227)
T ss_pred HHHccCCCCEEEEEEEeCCCCcCCCCCCCcEEEEEEEccCc-----------ccCCCCCHHHHHHHHHHccCcccHHHhc
Confidence 99999999999999999999999999999999999997643 3346799999999999999999999999
Q ss_pred cccccCCCCCCcEEEEEEEEEEeCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 185 NIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 185 ~~~~~~~~~~~vR~I~~~~i~~~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
+..+ +.++++|+|+++++.+.++++.|+|+|+||||||||+|||+++.
T Consensus 146 ~~~~--~~~~~~R~i~~~~v~~~~~~~~i~i~g~~FL~~mVR~mvg~l~~ 193 (227)
T TIGR00071 146 KAKS--KSRSPIRTISDIKVSESGEYIIFDIIGNSFLWHMVRKIVGALVL 193 (227)
T ss_pred CCCC--CCCCCeEEEEEEEEEEcCCEEEEEEEecHHHHHHHHHHHHHHHH
Confidence 7642 35789999999999998899999999999999999999997763
No 8
>PRK14589 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=1.5e-66 Score=459.64 Aligned_cols=186 Identities=35% Similarity=0.513 Sum_probs=171.5
Q ss_pred eeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhcccc-ccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHH
Q 042710 25 FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLE-REDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIH 103 (237)
Q Consensus 25 ~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~-~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~ 103 (237)
++|+|.|+||||+|+|||+||+.+|||++||+||.+++.+. .+++.+.+|||||+||||++||+||+++. ++.+.
T Consensus 1 ~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~Le~aL~~~~~~~~~~~~~i~~agRTDaGVHA~gqv~~f~~~~----~~~~~ 76 (265)
T PRK14589 1 MRLAFRISYIGTRFFGSQYQPDQRTVEGEFIAACRRLGLFSDWREAGFALAGRTDRGVHARGQVLAFSTHK----PERAV 76 (265)
T ss_pred CcEEEEEEEcCCCeeeeeeCCCCCCHHHHHHHHHHHhhCccCCceeeEEEeccCCcCccccccEEEEEeCC----hHHHH
Confidence 38999999999999999999999999999999999997542 25789999999999999999999999863 57799
Q ss_pred HHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccccccc
Q 042710 104 AALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF 183 (237)
Q Consensus 104 ~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F 183 (237)
.+||+.||+||+|+++.+|+++|||||+|++|+|+|+|+. .++|+++|++||+.|+|+|||+||
T Consensus 77 ~~lN~~LP~dI~V~~~~~v~~~FhAR~~a~~R~Y~Y~i~~----------------~~lD~~~m~~a~~~f~G~HDF~~F 140 (265)
T PRK14589 77 EALNGQLPPDIWCTGWAEVPESFHPRYDAISRTYRYYFSR----------------PPSDINAMRDAAGEFIGTHDFSCF 140 (265)
T ss_pred HHHHhhCCCCeEEEEEEEcCCCCCcccCCceeEEEEEEec----------------CccHHHHHHHHHHHccCCccHHHH
Confidence 9999999999999999999999999999999999999852 358999999999999999999999
Q ss_pred ccccccCCCCCCcEEEEEEEEEEeCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 184 VNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 184 ~~~~~~~~~~~~vR~I~~~~i~~~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
|+.+ .++++|+|+++++.+.++++.|+|+|+||||||||+|||+++.
T Consensus 141 ~~~~----~~~~vRtI~~i~v~~~~~~~~~~i~G~~FL~~mVR~mVG~ll~ 187 (265)
T PRK14589 141 ARVE----GKSPVRTILRIRVFSDGGFPVFEVTAQSFLWHMVRCMAGALLQ 187 (265)
T ss_pred hccC----CCCCeEEEEEEEEEEeCCEEEEEEEechhHHHHHHHHHHHHHH
Confidence 9763 3578999999999998899999999999999999999997765
No 9
>cd02569 PseudoU_synth_ScPus3 PseudoU_synth_ScPus3-like: Pseudouridine synthase, Saccharomyces cerevisiae Pus3 like. This group consists of eukaryotic pseudouridine synthases similar to S. cerevisiae Pus3p, mouse Pus3p and, human PUS2. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Mouse Pus3p has been shown to makes psi38 and, possibly also psi 39, in tRNAs. Psi38 and psi39 are highly conserved in tRNAs from eubacteria, archea and eukarya.
Probab=100.00 E-value=1.5e-66 Score=457.99 Aligned_cols=190 Identities=33% Similarity=0.513 Sum_probs=168.6
Q ss_pred EEEEEeCCCceeeeeCCC-CCcHHHHHHHHHHHhcccc-ccceeeeecccCCCcccccCcEEEEEeCCCCCCH-------
Q 042710 29 LVIGYDGTRYAGWQFQTS-PPTIQCIVEKALIRVTKLE-REDLRLVGASRTDTGVHAWGQVAHFITPFSYDGL------- 99 (237)
Q Consensus 29 l~i~YdGt~y~G~Q~Q~~-~~TVq~~le~aL~~~~~~~-~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~------- 99 (237)
|+|+||||+|+|||+||+ .+|||++||+||.+++.+. .+++.+.+|||||+||||++||+||+++.+..+.
T Consensus 1 l~i~YdGt~y~G~Q~Q~~~~~TVq~~Le~aL~~~~~i~~~~~~~~~~agRTD~GVHA~~qv~~f~~~~~~~~~~~~~~~~ 80 (256)
T cd02569 1 LRFAYLGWNYNGFAVQEETTNTVEETLFEALEKTRLIEDRQTSNYSRCGRTDKGVSAFGQVISLDVRSNLKPEDGLDPST 80 (256)
T ss_pred CEEEEeCCcceeeeECCCCCCCHHHHHHHHHHHhcCCCCCCceeEEeecccCccccccCcEEEEEecCCCCccccccccc
Confidence 579999999999999997 5899999999999998543 3589999999999999999999999997543211
Q ss_pred ----------HHHHHHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHH
Q 042710 100 ----------ESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMRE 169 (237)
Q Consensus 100 ----------~~l~~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~ 169 (237)
..+..+||++||+||+|+++.+|+++|||||+|++|+|+|+|+.. ++|+++|++
T Consensus 81 ~~~~~~~~~~~~~~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~----------------~ldi~~m~~ 144 (256)
T cd02569 81 DVKSTADEEELPYCKILNRVLPPDIRILAWAPVPPDFSARFSCVSRTYRYFFPKG----------------DLDIELMRK 144 (256)
T ss_pred cccccccchHHHHHHHHHhhCCCCcEEEEEEECCCCcCCCccCCceEEEEEecCC----------------CCCHHHHHH
Confidence 258899999999999999999999999999999999999999753 599999999
Q ss_pred HHhhccccccccccccccccCCCCCCcEEEEEEEEEEeC------cEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 170 AAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG------ALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 170 a~~~~~G~HDF~~F~~~~~~~~~~~~vR~I~~~~i~~~~------~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
||++|+|+|||++||+.....+.++++|+|+++++.+.+ +++.|+|+|+||||||||+|||+++.
T Consensus 145 a~~~f~G~HDF~~F~~~~~~~~~~~~~RtI~~~~v~~~~~~~~~~~~~~~~i~g~~FL~~mVR~mvg~ll~ 215 (256)
T cd02569 145 AAKLLLGEHDFRNFCKMDVANQVTNYVRRVLSAEVEPVDQHPDGDGLYYFEVRGSAFLWHQVRCMMAVLFL 215 (256)
T ss_pred HHHHhhCCcchHHHhccCcccCCCCCceEEEEEEEEEccCCCCCCcEEEEEEEEcHHHHHHHHHHHHHHHH
Confidence 999999999999999764322357899999999998753 78999999999999999999997765
No 10
>cd00497 PseudoU_synth_TruA_like PseudoU_synth_TruA: Pseudouridine synthase, TruA family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruA, Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus3p Caenorhabditis elegans Pus1p and human PUS1. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae PUS1 catalyzes the formation of psi34 and psi36 in the intron containing tRNAIle, psi35 in the intron containing tRNATyr, psi27 and/or psi28 in several yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear RNA (U2 snRNA). The presence of the intron is required for the formation of psi 34, 35 and 36. In addition S. cerevisiae PUS1 makes psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Psi44 in U2 snRNA and, psi38 and psi39 in tRNAs are highly ph
Probab=100.00 E-value=3.4e-66 Score=447.88 Aligned_cols=183 Identities=39% Similarity=0.597 Sum_probs=167.7
Q ss_pred EEEeCCCceeeeeCCCCCcHHHHHHHHHHHhcccc-ccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHHHHHHcc
Q 042710 31 IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLE-REDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGL 109 (237)
Q Consensus 31 i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~-~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~~~lN~~ 109 (237)
|+||||+|+|||+||+.+|||++||+||.+++..+ .+++.+.+|||||+||||++||+||+++... +.+..+||+.
T Consensus 1 i~YdGt~f~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~i~~agRTD~GVHA~~qv~~~~~~~~~---~~~~~~lN~~ 77 (224)
T cd00497 1 IAYDGWKYHGFQRQPDVPTVEGELFKALLKTGLIESPKPSNYSRAGRTDKGVSALGQVVSLETRSKL---KPYPDILNGL 77 (224)
T ss_pred CEEcCCceeeEeeCcCCCCHHHHHHHHHHHhhCcCCCcceeEEEeccccccccccccEEEEEECCCc---HHHHHHHHhh
Confidence 68999999999999999999999999999998631 1379999999999999999999999998653 2799999999
Q ss_pred CCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccccccccccccc
Q 042710 110 LPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRN 189 (237)
Q Consensus 110 LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F~~~~~~ 189 (237)
||+||+|+++++|+++||||++|++|+|+|+|+.. ++|+++|++|++.|+|+|||+|||+.++
T Consensus 78 Lp~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~----------------~~d~~~m~~a~~~f~G~HDF~~F~~~~~- 140 (224)
T cd00497 78 LPKDIRVLAWAPVPEDFHARFSCVSRTYRYYFPGG----------------DLDIEAMREAAKLLLGTHDFRNFCKKDG- 140 (224)
T ss_pred CCCCcEEEEEEEeCCCCCCCcccCeEEEEEEECCC----------------CcCHHHHHHHHHHccCcccHHHhcCCCC-
Confidence 99999999999999999999999999999999753 5899999999999999999999997643
Q ss_pred CCCCCCcEEEEEEEEEEeCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 190 DRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 190 ~~~~~~vR~I~~~~i~~~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
..++++|||+++++.+.++++.|+|+|+||||||||+|||+++.
T Consensus 141 -~~~~~~RtI~~~~v~~~~~~~~i~i~g~sFL~~mVR~mvg~ll~ 184 (224)
T cd00497 141 -RKKNPVRTIISAEVEEVDDFYVFEVKGKSFLWHQVRRIVAALFL 184 (224)
T ss_pred -CCCCCeEEEEEEEEEecCCEEEEEEEEcHHHHHHHHHHHHHHHH
Confidence 24789999999999998899999999999999999999997764
No 11
>cd02866 PseudoU_synth_TruA_Archea PseudoU_synth_archea: Pseudouridine synthase,. This group consists of archealpseudouridine synthases.Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. This group of proteins make Psedouridine in tRNAs.
Probab=100.00 E-value=1e-65 Score=444.07 Aligned_cols=181 Identities=36% Similarity=0.550 Sum_probs=166.0
Q ss_pred EEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhcccc-ccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHHHHHH
Q 042710 29 LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLE-REDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALN 107 (237)
Q Consensus 29 l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~-~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~~~lN 107 (237)
|.|+||||+|+|||+||+.+|||++||+||.+++.+. .+++.+++|||||+||||++||+||+++.. .+..+||
T Consensus 1 l~i~Y~Gt~y~G~q~q~~~~TVq~~le~aL~~~~~~~~~~~i~~~~agRTD~GVHA~~qv~~f~~~~~-----~~~~~lN 75 (221)
T cd02866 1 LKVAYDGTPYHGFQRQPDVRTVEGELIKALRRLGIIESPKRPRLYSAGRTDAGVSALGNVVAFETEKE-----LTPPAIN 75 (221)
T ss_pred CEEEEeCCceeeeeeCCCCCCHHHHHHHHHHHhhccccCCceEEEEEcCCccccCccccEEEEEeCcH-----HHHHHHH
Confidence 5799999999999999999999999999999997532 357999999999999999999999998743 2789999
Q ss_pred ccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccccccccccc
Q 042710 108 GLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQ 187 (237)
Q Consensus 108 ~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F~~~~ 187 (237)
++||+||+|+++.+||++||||++|++|+|+|+|+.. ++|+++|++|++.|+|+|||++||+.+
T Consensus 76 ~~LP~dI~v~~~~~v~~~F~ar~~a~~r~Y~Y~i~~~----------------~ld~~~m~~a~~~~~G~HDF~~F~~~~ 139 (221)
T cd02866 76 NALPKDIRVWAWAKVPEDFHPRRDARRRYYRYYLGAE----------------DYDVEAMAEAAKKLIGTHDFSNFSKRD 139 (221)
T ss_pred hhCCCCEEEEEEEEeCCCCCCCccCCeEEEEEEECCC----------------cCCHHHHHHHHHHhcCCcCHHHhhCCC
Confidence 9999999999999999999999999999999998642 589999999999999999999999753
Q ss_pred ccCCCCCCcEEEEEEEEEEeCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 188 RNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 188 ~~~~~~~~vR~I~~~~i~~~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
+ .+++|+|+++++.+.++++.|+|+|+||||||||+|||+++.
T Consensus 140 ~----~~~~R~I~~~~~~~~~~~~~~~i~g~~FL~~mVR~mvg~ll~ 182 (221)
T cd02866 140 G----RDPVRTIERIEIRENGEFLVIDVVGESFLWNMVRRIVGALSL 182 (221)
T ss_pred C----CCCcEEEEEEEEEEcCCEEEEEEEEcHHHHHHHHHHHHHHHH
Confidence 2 378999999999998899999999999999999999997764
No 12
>cd02568 PseudoU_synth_PUS1_PUS2 PseudoU_synth_PUS1_PUS2: Pseudouridine synthase, PUS1/ PUS2 like. This group consists of eukaryotic pseudouridine synthases similar to Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus2p, Caenorhabditis elegans Pus1p and human PUS1. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae Pus1p catalyzes the formation of psi34 and psi36 in the intron-containing tRNAIle, psi35 in the intron-containing tRNATyr, psi27 and/or psi28 in several yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear RNA (U2 snRNA). The presence of the intron is required for the formation of psi 34, 35 and 36. In addition S. cerevisiae PUS1 makes are psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. Mouse Pus1p makes psi27/28 in pre- tRNASer , tRNAVal and tRNAIle, psi 34/36 in tRNAIle and, psi 32 and potentially 67 in tRNAVal. Psi44 in U
Probab=100.00 E-value=5.7e-65 Score=445.59 Aligned_cols=190 Identities=29% Similarity=0.442 Sum_probs=170.3
Q ss_pred EEEEEeCCCceeeeeCCCC-CcHHHHHHHHHHHhcccc------ccceeeeecccCCCcccccCcEEEEEeCCCCCC---
Q 042710 29 LVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLE------REDLRLVGASRTDTGVHAWGQVAHFITPFSYDG--- 98 (237)
Q Consensus 29 l~i~YdGt~y~G~Q~Q~~~-~TVq~~le~aL~~~~~~~------~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~--- 98 (237)
|.|+||||+|+|||+||+. +|||++||+||.+++.++ .+++++++|||||+||||++||+||+++...++
T Consensus 1 l~i~Y~Gt~f~G~Q~Q~~~~~TVq~~le~aL~~~~~~~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~ 80 (245)
T cd02568 1 LLFGYCGTGYHGMQYNPGNYKTIEGELERALVKAGAISESNAGDPKKIGFSRAARTDKGVHAARNVVSLKVIIDDPEGLG 80 (245)
T ss_pred CEEEEeCCCccccccCCCCCCChHHHHHHHHHHcCCcCccccCChhhcceeeecccccchhheeeEEEEEEecccccccc
Confidence 5799999999999999998 999999999999998642 257999999999999999999999999866432
Q ss_pred -HHHHHHHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccc
Q 042710 99 -LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGK 177 (237)
Q Consensus 99 -~~~l~~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~ 177 (237)
++++..+||+.||+||+|+++.+|+++|||||+|++|+|+|+|+... + +|+++|++|++.|+|+
T Consensus 81 ~~~~~~~~lN~~Lp~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~----~-----------~d~~~m~~a~~~~~G~ 145 (245)
T cd02568 81 IGEDLVEKLNSHLPEDIRVFGITRVTKSFNARKACDSRTYEYLLPTFA----L-----------ETLDRFNEILKLYVGT 145 (245)
T ss_pred chHHHHHHHHccCCCceEEEEEEcCCCCCCcchhhhcceeEEECCccc----H-----------hHHHHHHHHHHHhhCc
Confidence 67899999999999999999999999999999999999999996532 1 8999999999999999
Q ss_pred ccccccccccccCCCCCCcEEEEEEEEEEe------CcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 178 HDFSAFVNIQRNDRALNPVKSIFRFDVIEM------GALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 178 HDF~~F~~~~~~~~~~~~vR~I~~~~i~~~------~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
|||++||+... .+.++++|+|.++++.+. .+++.|+|+|+||||||||+|||+++.
T Consensus 146 HdF~~F~~~~~-~~~~~~~R~i~~~~~~~~~~~~~~~~~i~i~i~g~~FL~~mVR~mvg~l~~ 207 (245)
T cd02568 146 HNFHNFTVRKK-FEDPSANRFIISFYVSEPFVIEEGLEWVSIEIHGQSFMLHQIRKMIGLAIA 207 (245)
T ss_pred cccccCccccc-ccCCCceeEEEEEEEecceeecCCccEEEEEEEechHHHHHHHHHHHHHHH
Confidence 99999998643 134689999999999864 378999999999999999999998765
No 13
>PRK14587 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=5.9e-61 Score=421.49 Aligned_cols=173 Identities=26% Similarity=0.397 Sum_probs=154.3
Q ss_pred eeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHHH
Q 042710 25 FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHA 104 (237)
Q Consensus 25 ~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~~ 104 (237)
++|+|.|+||||+|+|||+||+ |||++||+||.++.. .|||||+||||++||+||. .+. + ..
T Consensus 1 ~~~~l~i~YdGt~f~G~Q~Q~~--TVq~~Le~aL~~i~~---------~agRTDaGVHA~~qv~~~~--~~~-~----~~ 62 (256)
T PRK14587 1 MPYLYRIAYDGTLFYGFTGHPN--SLEPALRRVFGEILG---------RGSRTDPGVSAVGNVVMTS--QKL-P----LG 62 (256)
T ss_pred CcEEEEEEECCCcccceecCcc--hHHHHHHHHHHHhcc---------CccCCccCCCcccCEEEEC--CcC-C----HH
Confidence 4799999999999999999998 999999999998742 2999999999999999983 222 1 46
Q ss_pred HHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhccccccccccc
Q 042710 105 ALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV 184 (237)
Q Consensus 105 ~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~~F~ 184 (237)
+||+.||+||+|+++.+|+++||||+ |++|+|+|+|+ ..++|+++|++|++.|+|+|||++||
T Consensus 63 ~LN~~LP~dI~V~~~~~V~~~FhaR~-a~~R~Y~Y~i~----------------~~~lDi~~m~~aa~~l~G~HDF~~F~ 125 (256)
T PRK14587 63 YVNSKLPRGVWAWAVAEVPEGFNPRR-AKRRRYLYVAP----------------HWGEDVEAMREAAELLAGTHDYSSFI 125 (256)
T ss_pred HHHhcCCCCeEEEEEEECCCCcCcCc-ccceEEEEEEc----------------cCcchHHHHHHHHHHhcCCcChHHhc
Confidence 89999999999999999999999997 99999999983 12499999999999999999999999
Q ss_pred cccccCCCCC-CcEEEEEEEEEEeCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 185 NIQRNDRALN-PVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 185 ~~~~~~~~~~-~vR~I~~~~i~~~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
+.++. .++ ++|+|+++++.+.++++.|+|+|+||||||||+|||+++.
T Consensus 126 ~~~~~--~~~~~vRtI~~i~v~~~~~~i~i~i~g~sFL~~mVR~mVG~Ll~ 174 (256)
T PRK14587 126 QRRGE--KATPTVTTVYEIGVELRGDLIYLYFVGRGFRNKMIRKMAWAILA 174 (256)
T ss_pred cCCCC--CCCCCEEEEEEEEEEEeCCEEEEEEEechhHHHHHHHHHHHHHH
Confidence 76432 345 8999999999988899999999999999999999997764
No 14
>PLN03078 Putative tRNA pseudouridine synthase; Provisional
Probab=100.00 E-value=1.2e-60 Score=447.83 Aligned_cols=210 Identities=23% Similarity=0.318 Sum_probs=176.5
Q ss_pred CCCceeEEEEEEEeCCCceeeeeCCC---CCcHHHHHHHHHHHhcccc------ccceeeeecccCCCcccccCcEEEEE
Q 042710 21 SFPGFKWRLVIGYDGTRYAGWQFQTS---PPTIQCIVEKALIRVTKLE------REDLRLVGASRTDTGVHAWGQVAHFI 91 (237)
Q Consensus 21 ~~~~~~~~l~i~YdGt~y~G~Q~Q~~---~~TVq~~le~aL~~~~~~~------~~~~~~~~agRTD~GVHA~~qv~~~~ 91 (237)
..+|++|+|.|+||||+|+|||+|++ .+|||++||+||.+++++. .+++.+.+||||||||||++||+||+
T Consensus 67 ~~~krrvaL~IaYdGt~Y~G~Q~Q~n~~~~~TVEg~LE~AL~k~~~I~e~n~~~~~ki~~~rAgRTDkGVHA~gQVvsf~ 146 (513)
T PLN03078 67 SARKKKVVLRVGYVGTDYRGLQKQRDLSSLSTIEGELETAIFKAGGIRESNYGNLHKIGWARSSRTDKGVHSLATMISLK 146 (513)
T ss_pred cccceEEEEEEEEcCCCcceeeECCCCCCCCCHHHHHHHHHHHHhCccccccccccceeEEeeccCCcCccccccEEEEe
Confidence 36789999999999999999999987 4799999999999997642 25789999999999999999999999
Q ss_pred eCCCC------CCHHHHHHHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeec--CCCCCccccccccccCCCCC
Q 042710 92 TPFSY------DGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN--DAVMDPFQHHYAYHSVYKLN 163 (237)
Q Consensus 92 ~~~~~------~~~~~l~~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~--~~~~~p~~~~~~~~~~~~ld 163 (237)
++.+. .+...|..+||++||+||+|+++.+|+++|||||+|++|+|+|+|++ ....++|...+.|+ |
T Consensus 147 l~~p~~~~~~d~~~~~L~~~LN~~LP~DIRVl~v~~V~~~FhAR~sc~sRtY~Y~iP~~~~~~k~~f~~~~~~~-----d 221 (513)
T PLN03078 147 MEIPENAWKDDPDGIALAKFINSHLPDNIRVFSILPAQRSFDPRRECDLRKYSYLLPAEVIGIKSGFSSEEIDE-----H 221 (513)
T ss_pred ccCcchhccccchHHHHHHHHHhcCCCCeEEEEEEECCCCcCCCCCCCceEEEEEEccccccCCCccchhhhHH-----H
Confidence 85421 11236889999999999999999999999999999999999999988 44455666666554 8
Q ss_pred HHHHHHHHhhccccccccccccccccCCC---------------------------------------------------
Q 042710 164 TTLMREAAEYFVGKHDFSAFVNIQRNDRA--------------------------------------------------- 192 (237)
Q Consensus 164 ~~~m~~a~~~~~G~HDF~~F~~~~~~~~~--------------------------------------------------- 192 (237)
+++|++|+++|+|+|||+|||...+-...
T Consensus 222 I~kMneAl~~fiGtHDFhNFT~r~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~ 301 (513)
T PLN03078 222 ISEFNSILNGFEGEHPFHNYTARSKYRKKLPGKHKQRNGAVSRRAKSSKEMSSSESEENHGEISEEDEEDLSFSSIPSGS 301 (513)
T ss_pred HHHHHHHHHhcccccCcccccCCCccCccccccccccccccccccccccccccccccccccccccchhhhhccccccccc
Confidence 99999999999999999999975421100
Q ss_pred --------------------------------CCCcEEEEEEEEEE-----eCcEEEEEEEeCccchHhHHHHHHHHhhc
Q 042710 193 --------------------------------LNPVKSIFRFDVIE-----MGALLQLEVEGSGFLYRQVRNMVNHSYCS 235 (237)
Q Consensus 193 --------------------------------~~~vR~I~~~~i~~-----~~~~~~i~i~G~sFL~~qVR~mVG~~~a~ 235 (237)
.+..|.|+++.+.. +.+++.|+|.|+|||+||||+|||+++|.
T Consensus 302 ~~~~~~~~~~~~~~~~~~~~wl~e~d~~d~i~~s~~R~I~~~~~~~~~~~~g~~fv~i~I~GqSFmlhQIRKMIG~~~aV 381 (513)
T PLN03078 302 SDENEDILKFQSSQVQIRARWLHEPDETDRISASHFRKIFRCSCGKLEKSLGFDFVELSIWGESFMLHQIRKMVGTAVAV 381 (513)
T ss_pred cccccccccccccchhhhhhhccCCccccccchhheEEEEEeecCCccccCCceEEEEEEEehhHHHHHHHHHHHHHHHH
Confidence 02368899888632 34799999999999999999999999875
No 15
>KOG2554 consensus Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.4e-54 Score=383.72 Aligned_cols=198 Identities=31% Similarity=0.470 Sum_probs=172.2
Q ss_pred CCCCceeEEEEEEEeCCCceeeeeCC--CCCcHHHHHHHHHHHhccc-cccceeeeecccCCCcccccCcEEEEEeCCCC
Q 042710 20 DSFPGFKWRLVIGYDGTRYAGWQFQT--SPPTIQCIVEKALIRVTKL-EREDLRLVGASRTDTGVHAWGQVAHFITPFSY 96 (237)
Q Consensus 20 ~~~~~~~~~l~i~YdGt~y~G~Q~Q~--~~~TVq~~le~aL~~~~~~-~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~ 96 (237)
...+++.++|.|+|+|++|.|+..|+ +.+|||+.|++||.+...+ +.++..+++||||||||+|.|||+|+++.+..
T Consensus 61 s~~~kR~IAlkiaY~GW~Y~Gla~Qe~T~~~TIEg~l~eAL~kt~Lies~~~~~ysRCGRTDKGVSAfgQviSl~lRS~~ 140 (425)
T KOG2554|consen 61 SAHSKRHIALKIAYLGWNYQGLAPQEHTNNPTIEGKLFEALKKTRLIESRQTCNYSRCGRTDKGVSAFGQVISLVLRSRI 140 (425)
T ss_pred hcccceEEEEEEEEeccccCceecCCCCCCcchHHHHHHHHHhhhcccCcccccccccCCcccchhhhhheeeeeeeccC
Confidence 44788999999999999999999995 4579999999999998754 35567899999999999999999999875432
Q ss_pred CCH--------------HHHHHHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCccccccccccCCCC
Q 042710 97 DGL--------------ESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKL 162 (237)
Q Consensus 97 ~~~--------------~~l~~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~l 162 (237)
+.+ -.....||++||+||||.+|.+||+.|+|||+|..|+|+|+++- ..|
T Consensus 141 p~~~s~~~~~~~a~~~Ei~Y~~mLN~vLP~dIRi~awapvp~~FsARFsC~~RtYrY~F~k----------------~dL 204 (425)
T KOG2554|consen 141 PMPDSQRDAVATADSEEIPYVHMLNRVLPPDIRIVAWAPVPPTFSARFSCVQRTYRYYFPK----------------KDL 204 (425)
T ss_pred CCchhhhccccccccccccHHHHHhccCCCcceEEEEecCCCCccceeehhhceeeEeccC----------------CCc
Confidence 211 13567899999999999999999999999999999999999863 479
Q ss_pred CHHHHHHHHhhccccccccccccccccCCCCCCcEEEEEEEEEEeCc---EEEEEEEeCccchHhHHHHHHHHh
Q 042710 163 NTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGA---LLQLEVEGSGFLYRQVRNMVNHSY 233 (237)
Q Consensus 163 d~~~m~~a~~~~~G~HDF~~F~~~~~~~~~~~~vR~I~~~~i~~~~~---~~~i~i~G~sFL~~qVR~mVG~~~ 233 (237)
|+++|.+||++|+|+|||+|||+-+...+..+..|+|.+++|...++ ++.|+|.|++|||||||+||++++
T Consensus 205 dI~~M~kAA~l~vGe~DFrNFCK~D~~n~vtny~Rti~s~kV~~~~~~~~my~ldi~g~AFLwHqVRcimaiL~ 278 (425)
T KOG2554|consen 205 DIDRMSKAASLLVGEHDFRNFCKIDVSNGVTNYERTILSAKVEDVGQTPGMYYLDIQGSAFLWHQVRCIMAILF 278 (425)
T ss_pred CHHHHHHHHHHHhcchhhhhhhhhcchhhhHHHHhhhheeeEEEcCCCCceEEEEeechhhHHHHHHHHHHHHH
Confidence 99999999999999999999999765444567899999999987654 699999999999999999999554
No 16
>KOG2553 consensus Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-53 Score=388.28 Aligned_cols=216 Identities=26% Similarity=0.397 Sum_probs=182.5
Q ss_pred CCCCCCCCCceeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhcccc------ccceeeeecccCCCcccccCcEE
Q 042710 15 KPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLE------REDLRLVGASRTDTGVHAWGQVA 88 (237)
Q Consensus 15 ~~~~~~~~~~~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~------~~~~~~~~agRTD~GVHA~~qv~ 88 (237)
+++...+.+++++++.++|+|++|+|+|+||+.+|||++|++||.+++.+. .+++.+.+|+||||||||++||+
T Consensus 27 ~e~~~~k~~KrKVail~gY~G~gY~GmQ~N~~~kTIEgeL~~al~~aGaI~e~n~~dpkk~~~~raARTDKGVhA~~nvi 106 (416)
T KOG2553|consen 27 KESKAPKPRKRKVAILLGYCGTGYHGMQYNPPLKTIEGELFEALFKAGAISESNAGDPKKIGFARAARTDKGVHAAGNVI 106 (416)
T ss_pred cccccccccceEEEEEEEeccCCccceecCCCCCchHHHHHHHHHHcCCcccccccChHHhhhHHhhccccchhhhhhee
Confidence 344556678999999999999999999999999999999999999998763 45788999999999999999999
Q ss_pred EEEeCCCCCCHHHHHHHHHccCCCCeEEeeeeecCCCCcccccccceEEEEEeecCCCCCcccc----------------
Q 042710 89 HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQH---------------- 152 (237)
Q Consensus 89 ~~~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~---------------- 152 (237)
|++++.+. ..+...||..||++|||+++.+|++.||||..|.+|+|+|.||+..+.+|-..
T Consensus 107 SlK~~~~~---~~lv~~lN~~Lp~~IRv~~v~r~~k~F~pr~~CdsR~YeYllPtfal~~p~~~~~~~~~~~~~~e~~~~ 183 (416)
T KOG2553|consen 107 SLKLELDD---PELVEKLNEILPEQIRVWGVKRVTKSFNPRKQCDSRTYEYLLPTFALAPPKPSSLLEVDIQYDKEFEKE 183 (416)
T ss_pred EEEEeeCc---HHHHHHHhhhCCcceEEEEEEecCCCCCccccccceeEEEecceeeecCCCCccHHHhhhhhhhhhhhh
Confidence 99998652 67999999999999999999999999999999999999999998765433111
Q ss_pred ---cc-------------ccccCCCCC---HHHHHHHHhhccccccccccccccccCCCCCCcEEEEEEEEE-------E
Q 042710 153 ---HY-------------AYHSVYKLN---TTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI-------E 206 (237)
Q Consensus 153 ---~~-------------~~~~~~~ld---~~~m~~a~~~~~G~HDF~~F~~~~~~~~~~~~vR~I~~~~i~-------~ 206 (237)
.+ .....+.++ ++.++++++.++|+||||||+.... ...++..|.|.++.+. +
T Consensus 184 f~~~~~~~~~~~~s~~~~~~~~~yr~s~~~l~~~~~~ls~Y~GthnFHNfT~~~~-~~dpss~R~I~s~~~~~pfv~~~~ 262 (416)
T KOG2553|consen 184 FWNTYPLSAKERLSGQDRKTESGYRLSEEKLEVFNTILSKYVGTHNFHNFTTGKD-FTDPSSNRFIKSFTVSEPFVINDE 262 (416)
T ss_pred hccccchhhhhhhcccccccccceeeCHHHHHHHHHHHHHhhcccccceecccCC-CCCccccceeeEEEecCcceeccC
Confidence 00 011223344 4578899999999999999998653 2356788999999887 3
Q ss_pred eCcEEEEEEEeCccchHhHHHHHHHHhh
Q 042710 207 MGALLQLEVEGSGFLYRQVRNMVNHSYC 234 (237)
Q Consensus 207 ~~~~~~i~i~G~sFL~~qVR~mVG~~~a 234 (237)
+-+++.+.|+|+|||.||||+|||+|++
T Consensus 263 ~~e~V~i~i~GQSFMLHQIRKMVglav~ 290 (416)
T KOG2553|consen 263 GVEFVKIKIHGQSFMLHQIRKMVGLAVL 290 (416)
T ss_pred CceEEEEEEEcchhHHHHHHHHHHHHHH
Confidence 4579999999999999999999998886
No 17
>KOG4393 consensus Predicted pseudouridylate synthase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.4e-47 Score=327.03 Aligned_cols=209 Identities=35% Similarity=0.486 Sum_probs=181.3
Q ss_pred ceeEEEEEEEeCCCceeeeeCCCCC--cHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEEEeCCCCC-CHH
Q 042710 24 GFKWRLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYD-GLE 100 (237)
Q Consensus 24 ~~~~~l~i~YdGt~y~G~Q~Q~~~~--TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~-~~~ 100 (237)
.+||+|+|+||||+|.|||.+.... |||+-||+|.+..+.. +++++..|||||+||||+.|+++++++.... ...
T Consensus 4 ~~ryll~i~ydgT~f~e~a~~~s~~~~tIq~~leea~eeqt~l--~~l~l~~ssrtDa~Vha~~naa~~~vpr~sg~~~~ 81 (295)
T KOG4393|consen 4 IMRYLLKIPYDGTAFEESAERLSKVARTIQGFLEEASEEQTGL--DRLDLESSSRTDAGVHAYLNAAHYIVPRFSGSQQQ 81 (295)
T ss_pred hheeEEEecccccccHHHHhccCCcceehhhhhhhhHHhhcCC--cceeecccCCCchhhheeeeeEEEEeecccCCcHH
Confidence 5799999999999999999998765 9999999999999875 6799999999999999999999999987621 244
Q ss_pred HHHHHHHccC-CC--CeEEeeeeecCCCCcccccccceEEEEEeecC-CCCCccccccccccCCCCCHHHHHHHHhhccc
Q 042710 101 SIHAALNGLL-PP--DIRVREISAAVPEFHARFSAKSKIYHYKIYND-AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVG 176 (237)
Q Consensus 101 ~l~~~lN~~L-P~--dIrV~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~-~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G 176 (237)
....++|..| ++ ||+|.++..||.+|||||+|.+|+|.|++.++ ...++|+++++|++++.||..+|++|+++|+|
T Consensus 82 ~~~~a~nt~l~~k~gdirV~dv~~Vps~FhaR~sassRtY~YRla~g~d~l~~fERd~cW~lp~~lna~kmqeaa~lf~G 161 (295)
T KOG4393|consen 82 AKDRAVNTVLQRKDGDIRVIDVRCVPSNFHARYSASSRTYFYRLASGSDPLSIFERDRCWHLPEELNARKMQEAAPLFEG 161 (295)
T ss_pred HHHHHHhccccCCCCceEEEEeeecCcchhheecccceeEEEEeecCCCccChhhhcccccCCcccCHHHHHhhhhhhcc
Confidence 5666777766 44 99999999999999999999999999999984 45578999999999999999999999999999
Q ss_pred cccccccccccccCCCCCCcEEEEEEEEE----------------EeCcEEEEEEEeCccchHhHHHHHHHHhhcc
Q 042710 177 KHDFSAFVNIQRNDRALNPVKSIFRFDVI----------------EMGALLQLEVEGSGFLYRQVRNMVNHSYCSR 236 (237)
Q Consensus 177 ~HDF~~F~~~~~~~~~~~~vR~I~~~~i~----------------~~~~~~~i~i~G~sFL~~qVR~mVG~~~a~~ 236 (237)
+|||.+|++... ....+++|+-...+. ...+++.++++++||||.|||+|+..+++.+
T Consensus 162 ~hdfsaf~~ats--~~y~P~~t~rr~sv~~~g~~~a~~~~~~~e~~~~~~~nve~e~~gflyrQvRrm~a~LV~~g 235 (295)
T KOG4393|consen 162 SHDFSAFTEATS--TVYFPSITERRLSVLNNGDPLACSNQPETEGVTTNVGNVEGETEGFLYRQVRRMRAYLVTAG 235 (295)
T ss_pred chhhhhhhcCCC--CCCCCcccceeeeecccCCccccccCCccccceeeeEEEEEEecchHHHHHHhhheeeeeec
Confidence 999999998752 355677777666652 1346899999999999999999999877643
No 18
>PF01416 PseudoU_synth_1: tRNA pseudouridine synthase; InterPro: IPR020097 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. This entry represents pseudouridine synthase I (TruA). TruA from Escherichia coli modifies positions uracil-38, U-39 and/or U-40 in tRNA [, ]. TruA contains one atom of zinc essential for its native conformation and tRNA recognition and has a strictly conserved aspartic acid that is likely to be involved in catalysis []. These enzymes are dimeric proteins that contain two positively charged, RNA-binding clefts along their surface. Each cleft contains a highly conserved aspartic acid located at its centre. The structural domains have a topological similarity to those of other RNA-binding proteins, though the mode of interaction with tRNA appears to be unique. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1VS3_B 2NR0_B 2NQP_D 1DJ0_A 2NRE_A.
Probab=99.58 E-value=9.1e-17 Score=122.76 Aligned_cols=61 Identities=41% Similarity=0.690 Sum_probs=50.7
Q ss_pred HHhhccccccccccccccccCCCCCCcEEEEEEEEEEeCcEEEEEEEeCccchHhHHHHHHHHh
Q 042710 170 AAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVNHSY 233 (237)
Q Consensus 170 a~~~~~G~HDF~~F~~~~~~~~~~~~vR~I~~~~i~~~~~~~~i~i~G~sFL~~qVR~mVG~~~ 233 (237)
|++.|+|+|||++|++..+. .++++|+|.++++.+.++++. +|+|+|||+||||+|||.++
T Consensus 1 A~~~~~G~HdF~~f~~~~~~--~~~~~r~i~~~~~~~~~~~~~-~i~g~~Fl~~~vR~~vg~~~ 61 (105)
T PF01416_consen 1 AAKLYVGTHDFSGFQKQKTV--EKNTIRTIFSIDIIEEGDVVV-EIHGNSFLRHQVRIMVGTLL 61 (105)
T ss_dssp -CCEETCEEECCGCSSCS-H--HHHHCCCEEEEECCCCCCEEE-EEEESS--TTHHHHHHCCCC
T ss_pred CcceeEecCCCcCCEECCcc--cccHHHHHHHHhhhcCCCEEE-EEEecccccccchhhhHHHH
Confidence 67899999999999987432 257899999999999899999 99999999999999999654
No 19
>PF01416 PseudoU_synth_1: tRNA pseudouridine synthase; InterPro: IPR020097 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. This entry represents pseudouridine synthase I (TruA). TruA from Escherichia coli modifies positions uracil-38, U-39 and/or U-40 in tRNA [, ]. TruA contains one atom of zinc essential for its native conformation and tRNA recognition and has a strictly conserved aspartic acid that is likely to be involved in catalysis []. These enzymes are dimeric proteins that contain two positively charged, RNA-binding clefts along their surface. Each cleft contains a highly conserved aspartic acid located at its centre. The structural domains have a topological similarity to those of other RNA-binding proteins, though the mode of interaction with tRNA appears to be unique. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1VS3_B 2NR0_B 2NQP_D 1DJ0_A 2NRE_A.
Probab=98.43 E-value=1.4e-08 Score=77.35 Aligned_cols=82 Identities=29% Similarity=0.424 Sum_probs=62.4
Q ss_pred EEEeCC-CceeeeeCCCCCcHHHHHHHHHHHhcccccc----------------ceeeeecccCCCcccccCcEEEEEeC
Q 042710 31 IGYDGT-RYAGWQFQTSPPTIQCIVEKALIRVTKLERE----------------DLRLVGASRTDTGVHAWGQVAHFITP 93 (237)
Q Consensus 31 i~YdGt-~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~----------------~~~~~~agRTD~GVHA~~qv~~~~~~ 93 (237)
..|+|+ +|+|||+| +|++...+++|..+...... ..-+..++|||+|||+..|+..+
T Consensus 3 ~~~~G~HdF~~f~~~---~~~~~~~~r~i~~~~~~~~~~~~~~i~g~~Fl~~~vR~~vg~~~~~~~G~~~~~~i~~~--- 76 (105)
T PF01416_consen 3 KLYVGTHDFSGFQKQ---KTVEKNTIRTIFSIDIIEEGDVVVEIHGNSFLRHQVRIMVGTLLRTGRGVHSLEQIAEL--- 76 (105)
T ss_dssp CEETCEEECCGCSSC---S-HHHHHCCCEEEEECCCCCCEEEEEEESS--TTHHHHHHCCCCHHHTTSCEEECCCCC---
T ss_pred ceeEecCCCcCCEEC---CcccccHHHHHHHHhhhcCCCEEEEEEecccccccchhhhHHHHHHhcCCCCHHHHHHH---
Confidence 579999 99999999 56776666666665432111 22356799999999999987765
Q ss_pred CCCCCHHHHHHHHHccCCC---CeEEeeeeecC-CCCccccc
Q 042710 94 FSYDGLESIHAALNGLLPP---DIRVREISAAV-PEFHARFS 131 (237)
Q Consensus 94 ~~~~~~~~l~~~lN~~LP~---dIrV~~~~~v~-~~FhaR~~ 131 (237)
||..+|+ + +|+.+.+++ -.||++|+
T Consensus 77 ------------L~~~~~~~~~~-ri~~ap~~gL~L~~v~y~ 105 (105)
T PF01416_consen 77 ------------LNSKLRPKAPP-RILTAPAVGLYLFHVRYD 105 (105)
T ss_dssp ------------HHHHSCTTS-T-EEEEEEECCECCEECCTT
T ss_pred ------------HhccCccccCC-CcceeeCCCCCceEeeCc
Confidence 7888855 6 999999999 89999985
No 20
>PF10105 DUF2344: Uncharacterized protein conserved in bacteria (DUF2344); InterPro: IPR018768 This domain, found in various hypothetical bacterial proteins and Radical Sam domain proteins, has no known function.
Probab=97.37 E-value=0.0061 Score=51.60 Aligned_cols=113 Identities=19% Similarity=0.249 Sum_probs=82.1
Q ss_pred cHHHHHHHHHHHhccc---c---ccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHHHHHHccCCCCeEEeeeeec
Q 042710 49 TIQCIVEKALIRVTKL---E---REDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAA 122 (237)
Q Consensus 49 TVq~~le~aL~~~~~~---~---~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~v 122 (237)
-+...+|.||.+++.- + ....+++.+.=.=-||.+.+-++.+.+..+. +++.+.+.||+.||++|+|.++.++
T Consensus 19 dl~r~~eRa~rRA~lp~a~SqGFnP~Pkisf~~aLpvGv~S~~E~~di~l~~~~-~~~~~~~rLn~~lP~Gl~i~~~~~i 97 (187)
T PF10105_consen 19 DLMRVFERALRRAGLPVAYSQGFNPHPKISFAPALPVGVESLAEYMDIELEEDI-DPEEVLERLNAVLPEGLRILEAEEI 97 (187)
T ss_pred HHHHHHHHHhhhcCCCeeecCCCCCCcceeecccccCceeeccEEEEEEEecCC-CHHHHHHHHHHhCCCCCEEEEEEEc
Confidence 3466889999987631 0 1246788888888999999999999997654 5889999999999999999999999
Q ss_pred CCCCcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccc
Q 042710 123 VPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHD 179 (237)
Q Consensus 123 ~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HD 179 (237)
+....+ ..+.-..+.|.+... ..+.+.+.++++.|.-..+
T Consensus 98 ~~~~~s-l~~~i~~~~Y~i~~~----------------~~~~~~~~~~~~~~~~~~~ 137 (187)
T PF10105_consen 98 PPKAPS-LMALINAAEYRITLP----------------EIDEEELEEAIEAFLAAEE 137 (187)
T ss_pred cCCCcc-hhhhcceEEEEEEec----------------CCCHHHHHHHHHHHHCCCC
Confidence 854422 233345677776421 3456677777776654433
No 21
>TIGR01213 conserved hypothetical protein TIGR01213. Members of this family show twilight-zone similarity to several predicted RNA pseudouridine synthases. All trusted members of this family are archaeal. Several eukaryotic homologs lack N-terminal homology including two CXXC motifs.
Probab=96.70 E-value=0.056 Score=50.64 Aligned_cols=155 Identities=17% Similarity=0.251 Sum_probs=103.2
Q ss_pred CCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCc----EEEEEeCCC-CCCHHHHHHHHHccCCCCeEEeeeee
Q 042710 47 PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ----VAHFITPFS-YDGLESIHAALNGLLPPDIRVREISA 121 (237)
Q Consensus 47 ~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~q----v~~~~~~~~-~~~~~~l~~~lN~~LP~dIrV~~~~~ 121 (237)
..|||+.|...+..+.+ ..+..+++|||-|.-|--+|. |+-+.-|.. ..+++.+.+.+|+.....|.|.+..-
T Consensus 184 ~~SVeelI~~~v~~~~~--~~~~~Fh~aGREDvDvRMLG~GRPFvlEi~~P~rr~~dl~~le~~IN~~~~g~V~v~~L~~ 261 (388)
T TIGR01213 184 PESVEELIASPFLKATG--GTDAYFHGAGREDVDVRMLGTGRPFVLEVKEPRYRKIDLDPLEEEINTSGKGKVEVEGLKF 261 (388)
T ss_pred CchHHHHHHHHHHHHhC--CceeEEeccCccccceeeccCCCceEEEecCCccCCCCHHHHHHHHhhccCCCEEEEEeEE
Confidence 46999999998888765 357999999999999998863 333332321 23577899999999999999999886
Q ss_pred cCCCCc--ccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccc--ccccccccccccCCCCCCcE
Q 042710 122 AVPEFH--ARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGK--HDFSAFVNIQRNDRALNPVK 197 (237)
Q Consensus 122 v~~~Fh--aR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~--HDF~~F~~~~~~~~~~~~vR 197 (237)
++..=- -......|+|+=.+.. ..+++.+.++++++.|.|. +-.+--...-. .....-.|
T Consensus 262 ~~~~~v~~ik~~~~~K~Y~alV~~---------------~~~v~~e~L~~~~~~l~g~~I~QrTP~RV~hR-Ra~~~R~R 325 (388)
T TIGR01213 262 ATREEVEEVKEEKHRKVYRALVEV---------------DGPVSDEDLEELCKELEGATIYQRTPLRVLHR-RADLVRER 325 (388)
T ss_pred EcHHHHHHHhccCCceEEEEEEEE---------------CCCCCHHHHHHHHHhccCCEEEccCCceEEEe-cCCCceEE
Confidence 654210 1122336888866643 3468889999999998883 11111111100 11123469
Q ss_pred EEEEEEEEEe-CcEEEEEEEeCc
Q 042710 198 SIFRFDVIEM-GALLQLEVEGSG 219 (237)
Q Consensus 198 ~I~~~~i~~~-~~~~~i~i~G~s 219 (237)
+|+++++... +..+.+.|.+++
T Consensus 326 ~I~~i~~~~i~~~~~~l~v~~qa 348 (388)
T TIGR01213 326 RVYQVDLSGLDGNHAELIIEAEG 348 (388)
T ss_pred EEEEEEEEEEcCCEEEEEEEecC
Confidence 9999998764 446677777665
No 22
>COG1258 Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=95.92 E-value=0.26 Score=45.94 Aligned_cols=156 Identities=17% Similarity=0.240 Sum_probs=104.3
Q ss_pred CCcHHHHHHHHHHHhccccccceeeeecccCCCcccccC----cEEEEEeCC-CCCCHHHHHHHHHccCCCCeEEeeeee
Q 042710 47 PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG----QVAHFITPF-SYDGLESIHAALNGLLPPDIRVREISA 121 (237)
Q Consensus 47 ~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~----qv~~~~~~~-~~~~~~~l~~~lN~~LP~dIrV~~~~~ 121 (237)
..||++.|-..+..+.+ ..+..+++|||-|--|--+| -|+-+.-|. ...+++.+...+|.-. .+.|..+.-
T Consensus 190 ~~sve~~i~~~~~~~f~--g~~~~fhgAGREDvDvRMLG~GRPfVlEvk~Pr~R~~dl~~l~~~in~~~--~vev~~l~f 265 (398)
T COG1258 190 PESVEELIKQPIKEAFG--GLDAKFHGAGREDVDVRMLGTGRPFVLEVKEPRRRNVDLDELEEEINRGG--KVEVFDLEF 265 (398)
T ss_pred cccHHHHHHHHHHHhcc--CceeEEEccCCCccceeeecCCCceEEEecCcccccCChHHHHHHhccCC--cEEEEEEEe
Confidence 46888888886666654 35789999999999998888 455555552 2246889999999988 889998887
Q ss_pred cCCCCcccc---cccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccc-ccccccccccccCCCCCCcE
Q 042710 122 AVPEFHARF---SAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGK-HDFSAFVNIQRNDRALNPVK 197 (237)
Q Consensus 122 v~~~FhaR~---~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~-HDF~~F~~~~~~~~~~~~vR 197 (237)
+...=-.+. .-..|+|+=.+. +..+++.+++.+++.-|.|. =.=+.+..........-.+|
T Consensus 266 ~~~e~v~~ik~~~~~rK~YrAlV~---------------~~~~v~~e~l~~~~~~L~g~~I~QrTP~RV~hrRadlvR~R 330 (398)
T COG1258 266 VGREEVEEIKETERHRKVYRALVY---------------SDRPVSDEKLEEVLGSLEGKTIRQRTPRRVLHRRADLVRIR 330 (398)
T ss_pred cCHHHHHHHHhccccceeEEEEEE---------------ECCCcCHHHHHHHHhhccCcEEeecChHHHhhhhcccceEE
Confidence 764322221 233566766553 24578999999999999994 33333332211111223478
Q ss_pred EEEEEEEEEe-CcEEEEEEEeCccc
Q 042710 198 SIFRFDVIEM-GALLQLEVEGSGFL 221 (237)
Q Consensus 198 ~I~~~~i~~~-~~~~~i~i~G~sFL 221 (237)
.|+.+.+... +....+.|.+.+=|
T Consensus 331 ~V~~l~~~~~~~~~~~~~i~~egGl 355 (398)
T COG1258 331 RVYELSLDLIDDRHAELEIEAEGGL 355 (398)
T ss_pred EEEEeeeeeccCceEEEEEEecccc
Confidence 8999888764 45667777666533
No 23
>PRK14554 putative pseudouridylate synthase; Provisional
Probab=94.97 E-value=0.97 Score=42.96 Aligned_cols=153 Identities=15% Similarity=0.186 Sum_probs=94.3
Q ss_pred CcHHHHHHHHHHHhccccccceeeeecccCCCcccccCc----EEEEEeCCC-CCCHHHHHHHHHccCCCCeEEeeeeec
Q 042710 48 PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ----VAHFITPFS-YDGLESIHAALNGLLPPDIRVREISAA 122 (237)
Q Consensus 48 ~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~q----v~~~~~~~~-~~~~~~l~~~lN~~LP~dIrV~~~~~v 122 (237)
.|||+.|...+..... ..+..+++|||-|.-|--+|. |+-+.-|.. ..+++.+. +|..-...|.|.....+
T Consensus 220 ~SVeelI~~~i~~~f~--~~~~~fh~aGREDvDVRmLG~GRPFViEi~~p~r~~~~~~~l~--~~~~~~g~V~v~~l~~~ 295 (422)
T PRK14554 220 ESVEELIAKPVIEAFG--GEDAVFHGAGREDVDARMLGTGRPFVIEVKEPRKRKVDLEALE--EEINADGKVEVENLRFA 295 (422)
T ss_pred CCHHHHHHHHHHHHhC--CCceEEecCCCCCcceEecCCCCceEEEecCcccccCCHHHHH--HhhccCCCEEEEEEEEE
Confidence 6999999988877654 368999999999999999986 444433321 12345555 44444688999998877
Q ss_pred CCCCcc--cccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhccccc-cccccccccccCCCCCCcEEE
Q 042710 123 VPEFHA--RFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKH-DFSAFVNIQRNDRALNPVKSI 199 (237)
Q Consensus 123 ~~~Fha--R~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~H-DF~~F~~~~~~~~~~~~vR~I 199 (237)
+..--. ......|+|+=.++. ..+++.+.++++++.|.|.- .=+.............-+|+|
T Consensus 296 ~~~~~~~ik~~~~~K~YralV~~---------------~~~v~~e~l~~~~~~l~~~~I~QrTP~RV~hRR~~~~R~R~I 360 (422)
T PRK14554 296 TRKEVERIKEEKASKTYRALVES---------------DEPVSEEELEKLLDELSGATIEQRTPRRVKHRRADLVRVRKV 360 (422)
T ss_pred cHHHHHHHhcCCCceEEEEEEEE---------------CCCCCHHHHHHHHHhccCcEeeccCcHhhhhhccccceeeEE
Confidence 654211 112233788765543 34678888999998887651 101111110001112346899
Q ss_pred EEEEEEEe-CcEEEEEEEeCc
Q 042710 200 FRFDVIEM-GALLQLEVEGSG 219 (237)
Q Consensus 200 ~~~~i~~~-~~~~~i~i~G~s 219 (237)
+++++... +..+.+.|.+++
T Consensus 361 ~~i~~~~i~~~~~~l~i~~ea 381 (422)
T PRK14554 361 YDISGELIDDKHFELRIKCEG 381 (422)
T ss_pred EEEEEEEEcCcEEEEEEEEec
Confidence 99988764 344555555543
No 24
>cd01291 PseudoU_synth PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases. Some psi sites such as psi55,13,38 and 39 in tRNA are highly conserved, being in the same position in eubacteria, archeabacteria and eukaryotes. Other psi sites occur in a more restricted fashion, for example psi2604in 23S RNA made by E.coli RluF has only been detected in E.coli. Human dyskerin with the help of guide RNAs makes the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Mutations in human dyskerin cause X-linked dyskeratosis congenitas. Missense mutation in human PUS1 causes mitochondrial myopathy and sideroblastic anemia (MLASA).
Probab=92.93 E-value=1.2 Score=32.42 Aligned_cols=21 Identities=24% Similarity=0.120 Sum_probs=18.4
Q ss_pred ceeeeecccCCCcccccCcEEE
Q 042710 68 DLRLVGASRTDTGVHAWGQVAH 89 (237)
Q Consensus 68 ~~~~~~agRTD~GVHA~~qv~~ 89 (237)
.-++..||+.|+..... |+++
T Consensus 23 ~~~i~~aG~kDk~a~t~-q~v~ 43 (87)
T cd01291 23 PKRVGYAGRKDKRAVTT-QLVS 43 (87)
T ss_pred hheEEECccCCCCeeEE-EEEc
Confidence 45789999999999999 8777
No 25
>COG5011 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=83.97 E-value=1.2 Score=38.22 Aligned_cols=73 Identities=15% Similarity=0.207 Sum_probs=55.8
Q ss_pred HHHHHHHHHhccc------cccceeeeecccCCCcccccCcEEEEEeCCCCCCHHHHHHHHHccCCCCeEEeeeeecCCC
Q 042710 52 CIVEKALIRVTKL------EREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPE 125 (237)
Q Consensus 52 ~~le~aL~~~~~~------~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~v~~~ 125 (237)
..+++++.+++.- -....+++.|.=---|+...|-.+-|++.... +++++.+.||+.||+|+.+.+++.+++.
T Consensus 23 RlidR~iRRAglpiayT~GFhP~prmsia~alpvG~~ssge~fd~eL~e~v-~~dk~~etl~~~lp~Dl~~~~v~~iD~k 101 (228)
T COG5011 23 RLIDRTIRRAGLPIAYTGGFHPHPRMSIAQALPVGIYSSGEIFDFELTEEV-SEDKFKETLNKALPNDLPAYDVEKIDKK 101 (228)
T ss_pred HHHHHHHHhcCCceeecCCCCCCCceeeccccccccccCceEEEEEeeeec-CcHHHHHHHHHhCCCCcchhheeeecCC
Confidence 3466777775421 01245677777777899999999999886543 5789999999999999999999999763
No 26
>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=56.38 E-value=1.1e+02 Score=25.67 Aligned_cols=82 Identities=13% Similarity=0.156 Sum_probs=51.0
Q ss_pred CcccccccceEEEEEeecCCCCCccccccccccCCCCCHHHHHHHHhhcccccccc--ccccccccCCCCCCcEEEEEEE
Q 042710 126 FHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFS--AFVNIQRNDRALNPVKSIFRFD 203 (237)
Q Consensus 126 FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ld~~~m~~a~~~~~G~HDF~--~F~~~~~~~~~~~~vR~I~~~~ 203 (237)
+-..+....|+|+-.+..+ ..++.+.++++++.|.|++.=. .|+..+ .+...++|++++
T Consensus 55 ~~~~~~~~~K~Y~a~v~~g---------------~~it~e~l~~~l~~f~G~i~Q~pP~~SA~K----~~~R~v~I~~i~ 115 (182)
T cd02572 55 LVKSQQEAGKEYVCVMRLH---------------DDVDEEKVRRVLEEFTGAIFQRPPLISAVK----RQLRVRTIYESK 115 (182)
T ss_pred hhHHHhCCCCEEEEEEEEC---------------CcCCHHHHHHHHHHCCCcEEeeCCHhheec----CCceEEEEEEEE
Confidence 4444556679999877543 2378999999999999996421 233222 123357899988
Q ss_pred EEEeC---cEEEEEEEe--CccchHhHH
Q 042710 204 VIEMG---ALLQLEVEG--SGFLYRQVR 226 (237)
Q Consensus 204 i~~~~---~~~~i~i~G--~sFL~~qVR 226 (237)
+.+.+ +.+.|+++- --.++.-+|
T Consensus 116 l~~~~~~~~~~~~~v~cs~GTYIRsL~~ 143 (182)
T cd02572 116 LLEYDGERRLVLFRVSCEAGTYIRTLCV 143 (182)
T ss_pred EEEEcCCCcEEEEEEEECCCcCHHHHHH
Confidence 76643 466666655 334444444
No 27
>TIGR00685 T6PP trehalose-phosphatase. At least 18 distinct sequences from Arabidopsis have been identified, roughly half of these are of the fungal type, with a fused synthase and half are like the bacterial members having only the phosphatase domain. It has been suggested that trehalose is being used in Arabidopsis as a regulatory molecule in development and possibly other processes.
Probab=45.71 E-value=32 Score=29.67 Aligned_cols=50 Identities=14% Similarity=0.106 Sum_probs=34.9
Q ss_pred eeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeeccc
Q 042710 25 FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASR 76 (237)
Q Consensus 25 ~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agR 76 (237)
++.+|.+-||||-- -+...|+...+-..+.++|.++..- ....-++.|||
T Consensus 2 ~~~~l~lD~DGTL~-~~~~~p~~~~~~~~~~~~L~~L~~~-~~~~v~ivSGR 51 (244)
T TIGR00685 2 RKRAFFFDYDGTLS-EIVPDPDAAVVSDRLLTILQKLAAR-PHNAIWIISGR 51 (244)
T ss_pred CcEEEEEecCcccc-CCcCCCcccCCCHHHHHHHHHHHhC-CCCeEEEEECC
Confidence 46778899999964 4666676666777888889988641 11223478888
No 28
>PF07683 CobW_C: Cobalamin synthesis protein cobW C-terminal domain; InterPro: IPR011629 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [].; PDB: 1NIJ_A.
Probab=42.64 E-value=1.1e+02 Score=21.81 Aligned_cols=86 Identities=15% Similarity=0.040 Sum_probs=44.4
Q ss_pred EEEEeCCCCCCHHHHHHHHHccCCCCeEEeeeeecCCC-CcccccccceEEEEEeecCCCCC---ccccccccccCCCCC
Q 042710 88 AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPE-FHARFSAKSKIYHYKIYNDAVMD---PFQHHYAYHSVYKLN 163 (237)
Q Consensus 88 ~~~~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~v~~~-FhaR~~a~~R~Y~Y~i~~~~~~~---p~~~~~~~~~~~~ld 163 (237)
++|..+.+. +++.|...|+..-++=.|+..+..+++. ----+++....|...-......+ .-.....-.+...||
T Consensus 4 ~~~~~~~p~-~~~~l~~~l~~~~~~vlR~KG~v~~~~~~~~~~~q~v~~~~~~~~~~~~~~~~~~~~~~~~lV~IG~~ld 82 (94)
T PF07683_consen 4 VTFEFDRPF-DPERLEAWLQELPGDVLRAKGIVWVADGPRRLVFQGVGGRYDIEPAGRWWPPMLGEDRDSRLVFIGKNLD 82 (94)
T ss_dssp EEEEESS-B--HHHHHHHHHHTTTTEEEEEEEE-BTT-SEEEEEEEETTEEEEE-EEEE-TT---S---EEEEEEEES--
T ss_pred EEEEeCCCC-CHHHHHHHHHhCCCCEEEEEEEEEeCCcCeEEEEEeeCCEEEecccccccccccCCCCCeEEEEEECCCC
Confidence 455555543 5788999998833444789999999876 22345566666666521111110 001111222345899
Q ss_pred HHHHHHHHhhc
Q 042710 164 TTLMREAAEYF 174 (237)
Q Consensus 164 ~~~m~~a~~~~ 174 (237)
.+.+++++..+
T Consensus 83 ~~~l~~~l~~c 93 (94)
T PF07683_consen 83 KEALREALDAC 93 (94)
T ss_dssp HHHHHHHHHT-
T ss_pred HHHHHHHHHcc
Confidence 99999988654
No 29
>PRK04099 truB tRNA pseudouridine synthase B; Provisional
Probab=35.33 E-value=3.2e+02 Score=24.60 Aligned_cols=100 Identities=11% Similarity=0.181 Sum_probs=56.2
Q ss_pred cccccceEEEEEeecCCCCCccccccccc--cCCCCCHHHHHHHHhhccccccccc--ccccccc-------------CC
Q 042710 129 RFSAKSKIYHYKIYNDAVMDPFQHHYAYH--SVYKLNTTLMREAAEYFVGKHDFSA--FVNIQRN-------------DR 191 (237)
Q Consensus 129 R~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~--~~~~ld~~~m~~a~~~~~G~HDF~~--F~~~~~~-------------~~ 191 (237)
-.....|+|+=.+..+..-+.+...-... ....++.+.++++++.|.|++.-.- ||..+.+ -+
T Consensus 58 ~l~~~~K~Y~a~~~lG~~TdT~D~e~i~~~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR~G~~ve 137 (273)
T PRK04099 58 FLKKTPKTYRATLWLGASSPSLDIENIESIQIIKPFDKDLIEKILKSLQGEISYTPPKFSAKKINGKRAYELARKGEEFE 137 (273)
T ss_pred HhccCCceEEEEEEECCcccCCCCcceEEeccCCCCCHHHHHHHHHhCcceEEEeCChhhEEeeCCHhHHHHHhCCcccc
Confidence 34455788888887665444332221111 1125889999999999999987543 3332211 01
Q ss_pred CCCCcEEEEEEEEEEe-CcEEEEEE--EeCccchHhHHHH
Q 042710 192 ALNPVKSIFRFDVIEM-GALLQLEV--EGSGFLYRQVRNM 228 (237)
Q Consensus 192 ~~~~vR~I~~~~i~~~-~~~~~i~i--~G~sFL~~qVR~m 228 (237)
.+....+|+++++.+. .+.+.|++ ..-..++..+|-|
T Consensus 138 ~~~r~v~I~~~~ll~~~~p~~~f~v~cs~GTYIRSL~~Di 177 (273)
T PRK04099 138 LKPITMEIFDCKLLSYNHPFLTFEITVSEGAYIRSLGELI 177 (273)
T ss_pred cCceeEEEEEEEEEEEeCCEEEEEEEECCCCCHHHHHHHH
Confidence 1234578889887653 35555544 4334454444443
No 30
>PF05125 Phage_cap_P2: Phage major capsid protein, P2 family ; InterPro: IPR006441 This entry is represented by Bacteriophage P2, GpN. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family represents the major capsid protein component of the heads (capsids) of bacteriophage P2 and related phage including prophage. These sequences represent one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease. ; GO: 0019028 viral capsid
Probab=30.78 E-value=49 Score=30.63 Aligned_cols=34 Identities=38% Similarity=0.512 Sum_probs=22.9
Q ss_pred CCcHHHHHHHHHHHhc----cc--------cccceeee----ecccCCCc
Q 042710 47 PPTIQCIVEKALIRVT----KL--------EREDLRLV----GASRTDTG 80 (237)
Q Consensus 47 ~~TVq~~le~aL~~~~----~~--------~~~~~~~~----~agRTD~G 80 (237)
.|+||..||+++..-. .| .++++.+- .|||||++
T Consensus 29 ~P~v~q~L~~~i~ess~FL~~INvv~V~e~~Ge~i~lg~~g~iagrt~t~ 78 (333)
T PF05125_consen 29 EPSVQQKLEDAIQESSEFLKKINVVPVDEQKGEKIGLGVSGPIAGRTDTG 78 (333)
T ss_pred CcHHHHHHHHHHHHHHHHHhcCCccccchhcCcEEeccCCCCccccccCC
Confidence 4799999999987532 11 13344433 39999999
No 31
>PF09153 DUF1938: Domain of unknown function (DUF1938); InterPro: IPR015236 This domain, which is predominantly found in the archaeal protein O6-alkylguanine-DNA alkyltransferase, adopts a secondary structure consisting of a three stranded antiparallel beta-sheet and three alpha helices. The exact function has not, as yet, been defined, though it has been postulated that this domain may confer thermostability to the protein []. ; GO: 0005737 cytoplasm; PDB: 1MGT_A.
Probab=30.64 E-value=37 Score=25.07 Aligned_cols=24 Identities=13% Similarity=0.415 Sum_probs=20.6
Q ss_pred cEEEEEEEeCccchHhHHHHHHHH
Q 042710 209 ALLQLEVEGSGFLYRQVRNMVNHS 232 (237)
Q Consensus 209 ~~~~i~i~G~sFL~~qVR~mVG~~ 232 (237)
+-+.|.+.|..||.++|+.|++++
T Consensus 25 qGItfslDg~efl~eri~~L~~~L 48 (86)
T PF09153_consen 25 QGITFSLDGEEFLRERISRLIEFL 48 (86)
T ss_dssp EEEEEESSHHHHHH-HHHHHHHHH
T ss_pred eeEEEEeccHHHHHHHHHHHHHHH
Confidence 468899999999999999999876
No 32
>PRK00020 truB tRNA pseudouridine synthase B; Provisional
Probab=28.27 E-value=4.2e+02 Score=23.42 Aligned_cols=101 Identities=13% Similarity=0.209 Sum_probs=54.4
Q ss_pred CcccccccceEEEEEeecCCCCCccccc--ccccc---CCCCCHHHHHHHHhhccccccccc--ccccccc---------
Q 042710 126 FHARFSAKSKIYHYKIYNDAVMDPFQHH--YAYHS---VYKLNTTLMREAAEYFVGKHDFSA--FVNIQRN--------- 189 (237)
Q Consensus 126 FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~--~~~~~---~~~ld~~~m~~a~~~~~G~HDF~~--F~~~~~~--------- 189 (237)
+-..+....|+|.-.+..+..-+-+... -.... ...++.+.++++++.|.|+++=.- |+..+.+
T Consensus 63 l~~~l~~~~K~Y~a~~~lG~~TdT~D~~G~v~~~~~~~~~~it~e~l~~~l~~f~G~i~Q~PP~ySAvKv~GkraYelAR 142 (244)
T PRK00020 63 ISGRMLEADKTYQATLQFGEETDSGDLTGHIVARAPDGFAGVEEAALRDVLSRFVGTIEQIPPMYSALKRDGKPLYEYAR 142 (244)
T ss_pred hhHHhccCCcEEEEEEEeCCcccCCCCCCcEEEeccCccCCCCHHHHHHHHHhccCeEEEeCChhheEEECCeEHHHHHh
Confidence 4445566679999988765543322111 01001 124789999999999999987333 2222110
Q ss_pred ----CCCCCCcEEEEEEEEEEe-CcEEEEEE--EeCccchHhHH
Q 042710 190 ----DRALNPVKSIFRFDVIEM-GALLQLEV--EGSGFLYRQVR 226 (237)
Q Consensus 190 ----~~~~~~vR~I~~~~i~~~-~~~~~i~i--~G~sFL~~qVR 226 (237)
-+.+...-+|+++++.+. .+++.|++ ..-..++..+|
T Consensus 143 ~G~~ve~~~r~v~I~~i~ll~~~~~~~~~~v~cSkGTYIRSL~~ 186 (244)
T PRK00020 143 AGIELDRPPRQVTIRHIELLSFSGMQAQIDVACSKGTYIRTLAQ 186 (244)
T ss_pred CCcccccCCeeEEEEEEEEEEEeCCEEEEEEEECCCcCHHHHHH
Confidence 011233457888887553 34555544 33334444443
No 33
>PF07166 DUF1398: Protein of unknown function (DUF1398); InterPro: IPR009833 This entry is represented by Bacteriophage DE3, Orf: ECD_10033. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Enterobacterial proteins of around 130 residues in length. Members of this family seem to be found exclusively in Escherichia coli and Salmonella species. The function of this family is unknown.; PDB: 2HH8_A.
Probab=27.75 E-value=30 Score=27.41 Aligned_cols=31 Identities=26% Similarity=0.336 Sum_probs=18.1
Q ss_pred ccCCCCCHHHHHHHHhh-cccccccccccccc
Q 042710 157 HSVYKLNTTLMREAAEY-FVGKHDFSAFVNIQ 187 (237)
Q Consensus 157 ~~~~~ld~~~m~~a~~~-~~G~HDF~~F~~~~ 187 (237)
.+...-|.++++++++. ..|+.||..||..-
T Consensus 62 ~Va~~~n~~~~~~~lk~hq~Gqtdf~tfC~~~ 93 (125)
T PF07166_consen 62 PVASTSNKALFKEALKRHQQGQTDFETFCKDA 93 (125)
T ss_dssp ---S---HHHHHHHHHHHHHT---HHHHHHHH
T ss_pred EecCcCCHHHHHHHHHHHHcCCccHHHHHHHH
Confidence 34566788999988876 67999999999754
No 34
>KOG2894 consensus Uncharacterized conserved protein XAP-5 [Function unknown]
Probab=26.53 E-value=1.2e+02 Score=27.57 Aligned_cols=36 Identities=25% Similarity=0.255 Sum_probs=24.3
Q ss_pred EEEEEEE-eCCCceeeeeCCCCCcHHHHHHHHHHHhc
Q 042710 27 WRLVIGY-DGTRYAGWQFQTSPPTIQCIVEKALIRVT 62 (237)
Q Consensus 27 ~~l~i~Y-dGt~y~G~Q~Q~~~~TVq~~le~aL~~~~ 62 (237)
+-+++|| ||+.-.---.-..++|||.-|.+||..+.
T Consensus 187 i~it~sYWDGsgHRr~v~~rKGnti~qfL~~~~e~L~ 223 (331)
T KOG2894|consen 187 IEITFSYWDGSGHRRNVKVRKGNTIQQFLQKALEQLR 223 (331)
T ss_pred eEEEEEeecCCCcceeeeecCCChHHHHHHHHHHHHH
Confidence 5566776 55543332223457999999999998764
No 35
>PRK05340 UDP-2,3-diacylglucosamine hydrolase; Provisional
Probab=25.19 E-value=1.3e+02 Score=25.76 Aligned_cols=22 Identities=23% Similarity=0.294 Sum_probs=14.3
Q ss_pred CcEEEEEEEeCcc-----chHhHHHHH
Q 042710 208 GALLQLEVEGSGF-----LYRQVRNMV 229 (237)
Q Consensus 208 ~~~~~i~i~G~sF-----L~~qVR~mV 229 (237)
++.-.+-.+|+.| .|...|+++
T Consensus 106 ~g~~i~l~HGd~~~~~d~~y~~~r~~~ 132 (241)
T PRK05340 106 YGQRVLLLHGDTLCTDDKAYQRFRRKV 132 (241)
T ss_pred CCEEEEEECCcccccCCHHHHHHHHHH
Confidence 3445677889888 555555554
No 36
>PRK02193 truB tRNA pseudouridine synthase B; Provisional
Probab=24.61 E-value=5.2e+02 Score=23.27 Aligned_cols=54 Identities=19% Similarity=0.226 Sum_probs=33.8
Q ss_pred CcccccccceEEEEEeecCCCCCcccc--cccc-ccCCCCCHHHHHHHHhhcccccc
Q 042710 126 FHARFSAKSKIYHYKIYNDAVMDPFQH--HYAY-HSVYKLNTTLMREAAEYFVGKHD 179 (237)
Q Consensus 126 FhaR~~a~~R~Y~Y~i~~~~~~~p~~~--~~~~-~~~~~ld~~~m~~a~~~~~G~HD 179 (237)
+-..+....|+|+-.+..+..-|-+.. .... .....++.+.++++++.|.|+++
T Consensus 53 l~~~l~~~~K~Y~a~~~lG~~TdT~D~~G~i~~~~~~~~~~~~~l~~~l~~f~G~i~ 109 (279)
T PRK02193 53 LIDYLDQKDKTYIAKIKFGFISTTYDSEGQIINVSQNIKVTKENLEEALNNLVGSQK 109 (279)
T ss_pred hhHHhccCCcEEEEEEEeCCcccCCCCCCCEEeecCCCCCCHHHHHHHHHhCcCeEE
Confidence 333445667899888866543332221 1111 11225889999999999999987
No 37
>PF11688 DUF3285: Protein of unknown function (DUF3285); InterPro: IPR021702 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=24.18 E-value=34 Score=22.14 Aligned_cols=7 Identities=29% Similarity=0.439 Sum_probs=4.8
Q ss_pred chHhHHH
Q 042710 221 LYRQVRN 227 (237)
Q Consensus 221 L~~qVR~ 227 (237)
|+||||+
T Consensus 12 MRNMVRK 18 (45)
T PF11688_consen 12 MRNMVRK 18 (45)
T ss_pred HHHHHHc
Confidence 5677775
No 38
>PLN02580 trehalose-phosphatase
Probab=22.68 E-value=95 Score=29.28 Aligned_cols=50 Identities=22% Similarity=0.204 Sum_probs=36.5
Q ss_pred ceeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccC
Q 042710 24 GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRT 77 (237)
Q Consensus 24 ~~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRT 77 (237)
..+.+|.+-||||- .-++..|+.-.+-..+.++|.++... ..-.+.|||.
T Consensus 117 ~k~~~LfLDyDGTL-aPIv~~Pd~A~~s~~~~~aL~~La~~---~~VAIVSGR~ 166 (384)
T PLN02580 117 GKKIALFLDYDGTL-SPIVDDPDRALMSDAMRSAVKNVAKY---FPTAIISGRS 166 (384)
T ss_pred cCCeEEEEecCCcc-CCCCCCcccccCCHHHHHHHHHHhhC---CCEEEEeCCC
Confidence 46788999999996 56777787777778889999988642 1245566663
No 39
>smart00833 CobW_C Cobalamin synthesis protein cobW C-terminal domain. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis PUBMED:12869542. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K, a Pseudomonas chlororaphis protein needed for nitrile hydratase expression PUBMED:7765511.
Probab=22.53 E-value=2.8e+02 Score=19.39 Aligned_cols=84 Identities=12% Similarity=-0.010 Sum_probs=46.0
Q ss_pred EEEEeCCCCCCHHHHHHHHHccCCCCeEEeeeeecCCC--CcccccccceEEEEEeecCCCCCc-cccccccccCCCCCH
Q 042710 88 AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPE--FHARFSAKSKIYHYKIYNDAVMDP-FQHHYAYHSVYKLNT 164 (237)
Q Consensus 88 ~~~~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~v~~~--FhaR~~a~~R~Y~Y~i~~~~~~~p-~~~~~~~~~~~~ld~ 164 (237)
+++..+.. .+.+.|...|...++.=+|+..+..++++ .--.++.....|...- ....++. -.....-.+...+|.
T Consensus 4 ~~~~~~~~-~~~~~l~~~l~~l~~~i~R~KG~v~~~~~~~~~~~~q~v~~~~~~~~-~~~~~~~~~~~~~lV~IG~~l~~ 81 (92)
T smart00833 4 FVYRARRP-FHPQRLLAALDELPEGVLRAKGFFWLASRPDLPGVLSGAGGRLRIEP-AGAWPAAGDRRTRLVFIGRDLDE 81 (92)
T ss_pred EEEecCCC-CCHHHHHHHHHhccCCeEEEEEEEEeCCCCCeEEEEEccCCeeEccc-CCCCCCCCCcceEEEEEeCCCCH
Confidence 34444433 35788888898777777899998888654 2123344445554421 1111100 011222234456899
Q ss_pred HHHHHHHhh
Q 042710 165 TLMREAAEY 173 (237)
Q Consensus 165 ~~m~~a~~~ 173 (237)
+.+++.+..
T Consensus 82 ~~l~~~l~~ 90 (92)
T smart00833 82 EAIRAALDA 90 (92)
T ss_pred HHHHHHHHH
Confidence 888887764
No 40
>PLN02151 trehalose-phosphatase
Probab=22.37 E-value=1.1e+02 Score=28.64 Aligned_cols=59 Identities=14% Similarity=0.123 Sum_probs=42.3
Q ss_pred ceeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCc
Q 042710 24 GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86 (237)
Q Consensus 24 ~~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~q 86 (237)
-.+.++.+-||||-- -++..|+.-.+...+.++|..+.. ...-.+.|||.=..+...-.
T Consensus 96 ~~~~ll~lDyDGTL~-PIv~~P~~A~~~~~~~~aL~~La~---~~~vaIvSGR~~~~l~~~~~ 154 (354)
T PLN02151 96 GKQIVMFLDYDGTLS-PIVDDPDRAFMSKKMRNTVRKLAK---CFPTAIVSGRCREKVSSFVK 154 (354)
T ss_pred CCceEEEEecCccCC-CCCCCcccccCCHHHHHHHHHHhc---CCCEEEEECCCHHHHHHHcC
Confidence 367899999999974 466677766777888899998863 12356678887666655443
No 41
>KOG2364 consensus Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=21.40 E-value=1.9e+02 Score=27.43 Aligned_cols=88 Identities=18% Similarity=0.231 Sum_probs=56.5
Q ss_pred EeCCCceeeeeC---C----C-----CCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCcEEEE--EeCCCCCC
Q 042710 33 YDGTRYAGWQFQ---T----S-----PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF--ITPFSYDG 98 (237)
Q Consensus 33 YdGt~y~G~Q~Q---~----~-----~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~--~~~~~~~~ 98 (237)
|.-.+|.=+.+. . + .++|++.+-+-|..... .+++.++.|||-|--|--+|.==-| .++.....
T Consensus 207 yiAGRY~KySR~LpqTPWi~dg~Rl~enSveE~i~dhl~~~F~--a~d~~F~sSGREDvDVRmLG~GRPFvlEl~N~rr~ 284 (433)
T KOG2364|consen 207 YIAGRYIKYSRNLPQTPWIVDGPRLKENSVEEDIKDHLKEFFS--ADDVVFISSGREDVDVRMLGTGRPFVLELKNPRRN 284 (433)
T ss_pred EEeeehhhhhccCCCCCcccCCcccccccHHHHHHHHHHhhcC--ccceeeccCCCcceeeEeccCCCceEEEcCCcccc
Confidence 444566666653 1 1 36899888888887765 3679999999999999998843333 33322111
Q ss_pred HHHHHHHHHccCCCCeEEeeeeecCC
Q 042710 99 LESIHAALNGLLPPDIRVREISAAVP 124 (237)
Q Consensus 99 ~~~l~~~lN~~LP~dIrV~~~~~v~~ 124 (237)
.---..++| +-.++.|.+.+.|+.
T Consensus 285 ~~~~q~~~n--~~~~lqV~~l~~v~r 308 (433)
T KOG2364|consen 285 LGFEQLRLN--LYGGLDVKNLCVVRR 308 (433)
T ss_pred chHHHhhhh--ccCCeeeeeheeehH
Confidence 111223444 557889998888864
No 42
>PF05137 PilN: Fimbrial assembly protein (PilN); InterPro: IPR007813 PilN is a plasmid-encoded, lipoprotein which locates to the outer membrane of bacteria and are part of a thin pilus required only for liquid mating [].
Probab=21.28 E-value=1.2e+02 Score=20.67 Aligned_cols=23 Identities=17% Similarity=0.238 Sum_probs=19.0
Q ss_pred HHHHHHccCCCCeEEeeeeecCC
Q 042710 102 IHAALNGLLPPDIRVREISAAVP 124 (237)
Q Consensus 102 l~~~lN~~LP~dIrV~~~~~v~~ 124 (237)
+...|+..+|+++++.++..-.+
T Consensus 2 ll~~L~~~~P~~v~l~~l~~~~~ 24 (78)
T PF05137_consen 2 LLDELARALPEGVWLTSLSINGN 24 (78)
T ss_pred hHHHHHhhCCCCEEEEEEEEeCC
Confidence 45778999999999999986544
No 43
>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=21.15 E-value=5.3e+02 Score=22.13 Aligned_cols=98 Identities=16% Similarity=0.202 Sum_probs=54.5
Q ss_pred cccccceEEEEEeecCCCCCcccc--ccccccCCCCCHHHHHHHHhhcccccccc--cccccccc-------------CC
Q 042710 129 RFSAKSKIYHYKIYNDAVMDPFQH--HYAYHSVYKLNTTLMREAAEYFVGKHDFS--AFVNIQRN-------------DR 191 (237)
Q Consensus 129 R~~a~~R~Y~Y~i~~~~~~~p~~~--~~~~~~~~~ld~~~m~~a~~~~~G~HDF~--~F~~~~~~-------------~~ 191 (237)
-+....|+|.-.+..+..-|-+.. ......+.+.+.+.++++++.|.|++.=. .|+..+-+ -+
T Consensus 58 ~~~~~~K~Y~~~~~~G~~TdT~D~~G~i~~~~~~~~~~~~l~~~l~~f~G~~~Q~PP~ySA~Kv~G~raYelAR~g~~v~ 137 (209)
T TIGR00431 58 YLTDLDKEYRAEIRLGVRTDTLDPDGQIVETRPVNPTTEDVEAALPTFRGEIEQIPPMYSALKVNGKRLYEYARQGIEVE 137 (209)
T ss_pred HHcCCCCeEEEEEEECCcCCCCCCCCCEEEecCCCCCHHHHHHHHHHccCcEEEECChhhEEeeCCHhHHHHHHCCCccc
Confidence 344668899888866543332211 11112233467889999999999998732 24433210 01
Q ss_pred CCCCcEEEEEEEEEEe-CcEEEEEE-EeCccchHhHHHHH
Q 042710 192 ALNPVKSIFRFDVIEM-GALLQLEV-EGSGFLYRQVRNMV 229 (237)
Q Consensus 192 ~~~~vR~I~~~~i~~~-~~~~~i~i-~G~sFL~~qVR~mV 229 (237)
.+...-+|+++++.+. .+.+.|++ ..+|+ -||.++
T Consensus 138 ~~~r~v~I~~i~ll~~~~~~~~~~v~cs~GT---YIRsL~ 174 (209)
T TIGR00431 138 RKARPVTVYDLQFLKYEGPELTLEVHCSKGT---YIRTLA 174 (209)
T ss_pred cCcceeEEEEEEEEEEcCCcEEEEEEECCCC---CHHHHH
Confidence 1233457888887653 35566665 33344 455544
No 44
>PRK10187 trehalose-6-phosphate phosphatase; Provisional
Probab=20.75 E-value=2.3e+02 Score=24.75 Aligned_cols=57 Identities=11% Similarity=0.084 Sum_probs=38.6
Q ss_pred eEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccCCCccccc
Q 042710 26 KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84 (237)
Q Consensus 26 ~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~ 84 (237)
+.++.+=||||-.. ++..|+..++-..+.++|.++... ..-.-++.|||.-..+..+
T Consensus 14 ~~li~~D~DGTLl~-~~~~p~~~~i~~~~~~~L~~L~~~-~g~~v~i~SGR~~~~~~~~ 70 (266)
T PRK10187 14 NYAWFFDLDGTLAE-IKPHPDQVVVPDNILQGLQLLATA-NDGALALISGRSMVELDAL 70 (266)
T ss_pred CEEEEEecCCCCCC-CCCCcccccCCHHHHHHHHHHHhC-CCCcEEEEeCCCHHHHHHh
Confidence 68888999999764 555566666666777778777521 1123467889988777543
No 45
>PF12124 Nsp3_PL2pro: Coronavirus polyprotein cleavage domain; InterPro: IPR022733 This domain is found in SARS coronaviruses, and is about 70 amino acids in length. It is found associated with various other coronavirus proteins due to the polyprotein nature of most viral translation. PL2pro is a domain of the non-structural protein nsp3. The domain performs three of the cleavages required to separate the translated polyprotein into its distinct proteins. ; GO: 0004197 cysteine-type endopeptidase activity, 0008242 omega peptidase activity, 0016740 transferase activity, 0016788 hydrolase activity, acting on ester bonds, 0016817 hydrolase activity, acting on acid anhydrides; PDB: 2KAF_A 2KQW_A.
Probab=20.68 E-value=55 Score=22.21 Aligned_cols=31 Identities=23% Similarity=0.162 Sum_probs=18.2
Q ss_pred cCCCcc-cccCcEEEEEeCCCCCCHHHHHHHH
Q 042710 76 RTDTGV-HAWGQVAHFITPFSYDGLESIHAAL 106 (237)
Q Consensus 76 RTD~GV-HA~~qv~~~~~~~~~~~~~~l~~~l 106 (237)
|-|+=| |.+++++.|.++-+..++++++..|
T Consensus 34 rgdkivyht~~~~iefh~~gevl~l~klk~ll 65 (66)
T PF12124_consen 34 RGDKIVYHTVENPIEFHMDGEVLPLDKLKSLL 65 (66)
T ss_dssp ETTEEEEE-SSSS--EEETTEEE-HHHHHHHH
T ss_pred cCCEEEEEecCCceEEEecCcEeeHHHHHhhh
Confidence 444444 8889999998876555677776654
No 46
>COG1877 OtsB Trehalose-6-phosphatase [Carbohydrate transport and metabolism]
Probab=20.36 E-value=1.6e+02 Score=26.36 Aligned_cols=62 Identities=13% Similarity=0.029 Sum_probs=44.6
Q ss_pred CceeEEEEEEEeCCCceeeeeCCCCCcHHHHHHHHHHHhccccccceeeeecccCCCcccccCc
Q 042710 23 PGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86 (237)
Q Consensus 23 ~~~~~~l~i~YdGt~y~G~Q~Q~~~~TVq~~le~aL~~~~~~~~~~~~~~~agRTD~GVHA~~q 86 (237)
.-++.++.+=||||- ...-..|..-.+-+.|-++|.++..- ...+-++.|||.=+.+-.+-.
T Consensus 15 ~a~~~~~~lDyDGTl-~~i~~~p~~a~~~~~l~~lL~~Las~-~~~~v~iiSGR~~~~l~~~~~ 76 (266)
T COG1877 15 NARKRLLFLDYDGTL-TEIVPHPEAAVPDDRLLSLLQDLASD-PRNVVAIISGRSLAELERLFG 76 (266)
T ss_pred cccceEEEEeccccc-cccccCccccCCCHHHHHHHHHHHhc-CCCeEEEEeCCCHHHHHHhcC
Confidence 346789999999986 44555677777788899999998752 223567888887665555554
Done!