Query psy8191
Match_columns 257
No_of_seqs 254 out of 1480
Neff 7.9
Searched_HMMs 46136
Date Fri Aug 16 20:55:57 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8191.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8191hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0564 RluA Pseudouridylate s 100.0 1.7E-65 3.6E-70 453.4 24.9 234 3-243 53-289 (289)
2 PRK11180 rluD 23S rRNA pseudou 100.0 9.7E-61 2.1E-65 431.3 27.6 243 3-253 60-313 (325)
3 PRK11025 23S rRNA pseudouridyl 100.0 9E-60 2E-64 423.5 26.2 219 27-253 91-314 (317)
4 TIGR00005 rluA_subfam pseudour 100.0 2.7E-59 5.9E-64 417.6 28.5 245 2-252 47-298 (299)
5 PRK11112 tRNA pseudouridine sy 100.0 3.6E-59 7.8E-64 408.2 23.5 222 29-255 2-237 (257)
6 cd02563 PseudoU_synth_TruC tRN 100.0 2.6E-57 5.6E-62 389.0 24.6 209 29-242 1-223 (223)
7 PRK10158 23S rRNA/tRNA pseudou 100.0 4.1E-57 8.9E-62 386.6 23.1 205 27-242 12-218 (219)
8 cd02558 PSRA_1 PSRA_1: Pseudou 100.0 6.8E-57 1.5E-61 391.5 23.5 225 2-242 17-245 (246)
9 TIGR01621 RluA-like pseudourid 100.0 4.6E-56 1E-60 379.5 24.2 201 29-249 2-203 (217)
10 cd02557 PseudoU_synth_ScRIB2 P 100.0 2.8E-54 6.1E-59 367.7 21.0 199 26-245 13-212 (213)
11 cd02869 PseudoU_synth_RluCD_li 100.0 3.8E-46 8.2E-51 310.1 20.1 184 38-226 1-185 (185)
12 KOG1919|consensus 100.0 2.6E-40 5.7E-45 298.4 20.8 219 27-255 104-355 (371)
13 cd02550 PseudoU_synth_Rsu_Rlu_ 100.0 5.2E-39 1.1E-43 260.7 15.6 147 38-199 1-147 (154)
14 PF00849 PseudoU_synth_2: RNA 100.0 1.2E-35 2.5E-40 242.6 16.2 155 37-193 1-164 (164)
15 cd02870 PseudoU_synth_RsuA_lik 100.0 1.2E-35 2.7E-40 238.8 9.9 140 38-200 1-140 (146)
16 cd02556 PseudoU_synth_RluB Pse 100.0 1E-34 2.2E-39 238.6 13.9 142 37-200 1-142 (167)
17 PRK10839 16S rRNA pseudouridyl 100.0 2.2E-35 4.7E-40 254.7 7.3 145 34-203 58-202 (232)
18 cd02553 PseudoU_synth_RsuA Pse 100.0 4.3E-34 9.4E-39 234.7 10.4 144 38-207 2-146 (167)
19 cd02566 PseudoU_synth_RluE Pse 100.0 2.3E-32 4.9E-37 224.8 9.9 153 38-204 1-158 (168)
20 cd02555 PSSA_1 PSSA_1: Pseudou 100.0 8.6E-30 1.9E-34 210.8 10.5 140 37-205 5-154 (177)
21 PRK11394 23S rRNA pseudouridin 100.0 2.7E-29 5.8E-34 212.9 12.6 158 36-207 39-200 (217)
22 TIGR00093 pseudouridine syntha 100.0 9.8E-29 2.1E-33 194.5 9.2 111 80-207 1-111 (128)
23 PRK10700 23S rRNA pseudouridyl 99.9 3.8E-26 8.2E-31 202.6 14.2 145 34-200 65-209 (289)
24 cd02554 PseudoU_synth_RluF Pse 99.9 1.6E-24 3.4E-29 177.0 12.0 135 38-201 2-136 (164)
25 PRK10475 23S rRNA pseudouridin 99.9 2.1E-24 4.5E-29 191.2 13.0 139 33-200 64-202 (290)
26 COG1187 RsuA 16S rRNA uridine- 99.8 1.2E-20 2.6E-25 162.5 10.6 149 35-201 62-210 (248)
27 cd02868 PseudoU_synth_hTruB2_l 99.3 5.8E-12 1.2E-16 107.8 7.1 76 37-121 1-76 (226)
28 cd02572 PseudoU_synth_hDyskeri 98.0 2.9E-05 6.3E-10 64.5 7.4 70 36-121 2-71 (182)
29 PRK04099 truB tRNA pseudouridi 97.7 0.00012 2.5E-09 64.5 7.2 73 36-124 2-75 (273)
30 PRK00989 truB tRNA pseudouridi 97.7 8.9E-05 1.9E-09 63.6 6.1 73 36-123 9-82 (230)
31 cd00506 PseudoU_synth_TruB_lik 97.7 0.00015 3.2E-09 61.7 7.0 72 37-124 1-73 (210)
32 TIGR00431 TruB tRNA pseudourid 97.6 0.00015 3.2E-09 61.5 6.8 73 36-124 2-75 (209)
33 PRK00020 truB tRNA pseudouridi 97.6 0.00028 6E-09 61.0 7.4 73 36-124 10-83 (244)
34 PRK02484 truB tRNA pseudouridi 97.5 0.00031 6.7E-09 62.6 7.4 73 36-124 3-76 (294)
35 PRK03287 truB tRNA pseudouridi 97.5 0.00033 7.1E-09 62.5 7.2 73 35-123 8-81 (298)
36 PRK14124 tRNA pseudouridine sy 97.5 0.0004 8.6E-09 62.2 7.6 70 36-121 3-72 (308)
37 PRK02755 truB tRNA pseudouridi 97.5 0.00032 6.9E-09 62.5 6.9 72 36-124 3-75 (295)
38 PRK14123 tRNA pseudouridine sy 97.5 0.00033 7.2E-09 62.7 7.0 73 36-124 3-76 (305)
39 PRK00130 truB tRNA pseudouridi 97.5 0.00039 8.5E-09 61.9 7.4 73 36-124 2-75 (290)
40 PRK05389 truB tRNA pseudouridi 97.4 0.00047 1E-08 61.7 7.1 73 36-124 13-86 (305)
41 PRK05033 truB tRNA pseudouridi 97.4 0.00052 1.1E-08 61.5 7.4 72 36-123 10-82 (312)
42 PRK04270 H/ACA RNA-protein com 97.4 0.00051 1.1E-08 61.6 7.2 73 33-121 19-91 (300)
43 PRK02193 truB tRNA pseudouridi 97.4 0.0005 1.1E-08 60.7 6.8 70 38-123 2-72 (279)
44 PRK14846 truB tRNA pseudouridi 97.4 0.00057 1.2E-08 61.7 7.2 72 36-123 3-75 (345)
45 PRK01851 truB tRNA pseudouridi 97.3 0.00078 1.7E-08 60.2 7.6 72 36-123 16-88 (303)
46 PRK01550 truB tRNA pseudouridi 97.3 0.0007 1.5E-08 60.6 7.3 73 36-124 2-75 (304)
47 cd02573 PseudoU_synth_EcTruB P 97.3 0.00067 1.5E-08 60.0 7.0 72 37-124 1-73 (277)
48 PRK01528 truB tRNA pseudouridi 97.3 0.00078 1.7E-08 59.9 7.1 73 36-124 3-76 (292)
49 cd01291 PseudoU_synth PseudoU_ 97.3 0.0013 2.8E-08 47.8 7.1 64 75-195 24-87 (87)
50 PRK14122 tRNA pseudouridine sy 97.1 0.0014 3.1E-08 58.7 6.8 72 37-124 2-74 (312)
51 TIGR00425 CBF5 rRNA pseudourid 97.0 0.0017 3.7E-08 58.7 6.5 71 35-121 33-103 (322)
52 PRK04642 truB tRNA pseudouridi 97.0 0.0022 4.7E-08 57.3 6.8 70 36-121 10-79 (300)
53 cd02867 PseudoU_synth_TruB_4 P 97.0 0.0025 5.4E-08 57.2 7.0 75 37-123 1-101 (312)
54 COG0130 TruB Pseudouridine syn 96.7 0.0046 9.9E-08 54.5 6.6 69 37-121 16-84 (271)
55 cd00165 S4 S4/Hsp/ tRNA synthe 92.4 0.17 3.7E-06 33.7 3.4 13 30-42 58-70 (70)
56 KOG2559|consensus 92.3 0.16 3.4E-06 43.9 3.6 22 76-97 90-111 (318)
57 PF01509 TruB_N: TruB family p 85.2 1.2 2.5E-05 35.9 3.7 43 75-121 7-49 (149)
58 PF08068 DKCLD: DKCLD (NUC011) 56.7 4.5 9.7E-05 27.2 0.4 18 33-50 39-56 (59)
59 KOG2529|consensus 51.7 17 0.00036 33.8 3.4 77 33-125 65-141 (395)
60 PF13021 DUF3885: Domain of un 46.3 32 0.00069 20.9 3.0 24 86-109 5-28 (38)
61 PF11969 DcpS_C: Scavenger mRN 35.5 25 0.00055 26.6 1.8 19 27-45 12-32 (116)
62 PF11623 DUF3252: Protein of u 27.2 63 0.0014 21.1 2.2 38 1-38 1-41 (53)
63 KOG3275|consensus 25.6 61 0.0013 25.0 2.2 22 21-42 22-43 (127)
64 cd01276 PKCI_related Protein K 22.7 91 0.002 22.5 2.8 16 26-41 11-26 (104)
65 PRK10687 purine nucleoside pho 22.6 82 0.0018 24.0 2.6 20 22-41 10-29 (119)
No 1
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.7e-65 Score=453.37 Aligned_cols=234 Identities=46% Similarity=0.647 Sum_probs=207.8
Q ss_pred ccCCEEEEEcCCCccccCcCcCCCCCccEEEecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCC
Q psy8191 3 ISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHR 82 (257)
Q Consensus 3 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhR 82 (257)
-.||+|.+..+.... ...+.+++++++|||||++++|||||+||+|||+.++..+|+.+++..++... ..++++|||
T Consensus 53 ~~gd~i~~~~~~~~~-~~~~~~~~~~l~IlyED~~llVvnKP~Gl~vhp~~~~~~~tl~~~l~~~~~~~--~~~~~~vHR 129 (289)
T COG0564 53 KPGDVVRIPLPEEPE-EEKLVPEDIPLDILYEDEDLLVVNKPAGLVVHPGGGHHEGTLVNALLRHCQDG--VERPGIVHR 129 (289)
T ss_pred CCCCEEEEecccccc-cccccccCCCccEEEecCCEEEEECCCCCcCcCCCCCccHhHHHHHHHhcccc--CCceeeecc
Confidence 467888888776453 45677788889999999999999999999999998888899999999887544 467899999
Q ss_pred CCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEEEEEeccCCC-CcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEe
Q psy8191 83 LDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKL-NGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYER 161 (257)
Q Consensus 83 LD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~alv~G~~~~-~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~v 161 (257)
|||+|||+||+|||..+++.|+++|+++.++|+|+|+|.|.+++ +|+|+.|++++...+.++.+....+||.|+|.|++
T Consensus 130 LDkdTSGlll~AK~~~a~~~l~~~f~~r~v~K~Y~Alv~G~~~~~~~~i~~pi~r~~~~~~~~~v~~~~~gk~A~T~~~~ 209 (289)
T COG0564 130 LDKDTSGLLLVAKNREAARELSEQFKQRKVKKTYLALVRGHLPEDEGTIDAPIGRDPKNRKKMAVVKEGSGKPAITHYEV 209 (289)
T ss_pred CCCCCceEEEEECCHHHHHHHHHHHhcCcCcEEEEEEEECcccCCCCEEeeeeecCCcCCceEEEeccCCCCceEEEEEe
Confidence 99999999999999999999999999999999999999999986 69999999999888888877753348999999999
Q ss_pred eeeccccCCc-EEEEEEEeccCCcchHHHHHHHcCCceecCCCCCCCc-cccccccccccccceeEEecCCCCceEEEEE
Q psy8191 162 LATGIINKKH-ISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKY-SKSLIFNRQALHAYKLGLIHPKNNLKLKWRI 239 (257)
Q Consensus 162 l~~~~~~~~~-~slv~~~~~TGRtHQIR~hla~lG~PIvGD~~Yg~~~-~~~~~~~r~~LHa~~l~f~~p~~~~~~~~~a 239 (257)
+++. .. +||++|+|.||||||||+||+++||||+||++||+.. .......|++|||++|.|.||.+++.+.|++
T Consensus 210 l~~~----~~~~tlv~~~~~TGRTHQIRVHl~~lghPI~GD~~Yg~~~~~~~~~~~r~~LHA~~l~f~hp~t~~~~~~~a 285 (289)
T COG0564 210 LERF----GDNYTLVELKPETGRTHQIRVHLAHLGHPIVGDPLYGGKDKSAGAGLKRQALHAYKLSFTHPLTGEELEFEA 285 (289)
T ss_pred hhcc----CCceEEEEEEeCCCCHhHHHHHHHHCCCCeeCCcccCCchhhcccCcchhhhhhceeEccCCCCCCEEEEec
Confidence 9998 45 7999999999999999999999999999999999852 1111578999999999999999999999999
Q ss_pred cCCH
Q psy8191 240 NLPD 243 (257)
Q Consensus 240 p~P~ 243 (257)
|+|.
T Consensus 286 ~~p~ 289 (289)
T COG0564 286 PLPE 289 (289)
T ss_pred CCCC
Confidence 9984
No 2
>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional
Probab=100.00 E-value=9.7e-61 Score=431.26 Aligned_cols=243 Identities=41% Similarity=0.678 Sum_probs=206.9
Q ss_pred ccCCEEEEEcCCCccccCcCcCCCCCccEEEecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCC
Q psy8191 3 ISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHR 82 (257)
Q Consensus 3 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhR 82 (257)
-.||+|.+..+.... ..+.+...+++|||||++++|||||+|++||++.+...+++.+.+..++.......++++|||
T Consensus 60 ~~gD~I~v~~~~~~~--~~~~~~~~~~~iiyed~~~lvvnKP~gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhR 137 (325)
T PRK11180 60 LGGEQVAIDAEIEEE--ARFEPQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHR 137 (325)
T ss_pred CCCCEEEEeeccccc--cCCCCCCCCCcEEEECCCEEEEECCCCCeEeCCCCCCCCcHHHHHHHHhhhccCCcccceecc
Confidence 358888887653321 123455667899999999999999999999998877777899988877654333456789999
Q ss_pred CCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEEEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEee
Q psy8191 83 LDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERL 162 (257)
Q Consensus 83 LD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl 162 (257)
||++|||+||||||.++++.|+++|+++.++|+|+|+|.|.++.+|+++.|+.+....+..+.+. +.|+.|.|.|+++
T Consensus 138 LD~~TSGlll~Ak~~~~~~~l~~~~~~~~v~K~Y~A~v~G~~~~~~~i~~~l~~~~~~~~~~~~~--~~gk~a~T~~~~l 215 (325)
T PRK11180 138 LDKDTTGLMVVAKTVPAQTRLVEALQKREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAVH--PMGKPAVTHYRIM 215 (325)
T ss_pred CCCCCceeEEEECCHHHHHHHHHHHHhCCcceEEEEEEecCCCCCCEEECceecCCCcCcEEEeC--CCCcEEeEEEEEe
Confidence 99999999999999999999999999999999999999999988899999998765554444444 6789999999999
Q ss_pred eeccccCCcEEEEEEEeccCCcchHHHHHHHcCCceecCCCCCCCccc------cc-----cccccccccceeEEecCCC
Q psy8191 163 ATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKYSK------SL-----IFNRQALHAYKLGLIHPKN 231 (257)
Q Consensus 163 ~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG~PIvGD~~Yg~~~~~------~~-----~~~r~~LHa~~l~f~~p~~ 231 (257)
... .++||++|+|.||||||||+|||++||||+||.+||+.... ++ ...|++|||++|+|.||.+
T Consensus 216 ~~~----~~~slv~~~~~TGRtHQIRvhla~lG~PI~GD~~Yg~~~~~~~~~~~~~~~~~~~~~r~~Lha~~l~f~hP~~ 291 (325)
T PRK11180 216 EHF----RVHTRLRLRLETGRTHQIRVHMAHITHPLVGDQVYGGRPRPPKGASEEFISTLRKFDRQALHATMLRLYHPIT 291 (325)
T ss_pred EEc----CCeEEEEEEeCCCCHHHHHHHHHhCCCCEeCccccCCCcccccccchhhhhhccccchhhhhcceeEeeCCCC
Confidence 987 78999999999999999999999999999999999965210 10 2468999999999999999
Q ss_pred CceEEEEEcCCHHHHHHHHHcC
Q psy8191 232 NLKLKWRINLPDDISKLITFSG 253 (257)
Q Consensus 232 ~~~~~~~ap~P~~~~~~l~~l~ 253 (257)
++.+.|.||+|++|..+++.|+
T Consensus 292 ~~~~~~~a~~p~~~~~~~~~l~ 313 (325)
T PRK11180 292 GIEMEWHAPLPQDMVELIEALR 313 (325)
T ss_pred CCeEEEECCChHHHHHHHHHhh
Confidence 9999999999999999998775
No 3
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional
Probab=100.00 E-value=9e-60 Score=423.53 Aligned_cols=219 Identities=31% Similarity=0.426 Sum_probs=184.3
Q ss_pred CCccEEEecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHH
Q psy8191 27 IKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQ 106 (257)
Q Consensus 27 ~~~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~ 106 (257)
++++|||||++++|||||+|++||++.+... ++.+.+...... ...+++|||||++||||||||||+++++.|+++
T Consensus 91 ~~~~Ilyed~~~lvvnKP~gl~~~~~~~~~~-~~~~~~~~~~~~---~~~~~~vhRLD~~TSGlll~Ak~~~a~~~l~~~ 166 (317)
T PRK11025 91 LADVILYEDDHILVLNKPSGTAVHGGSGLSF-GVIEGLRALRPE---ARFLELVHRLDRDTSGVLLVAKKRSALRSLHEQ 166 (317)
T ss_pred CcCCEEEECCCEEEEECCCCCcCcCCCCCCc-cHHHHHHHhccC---CCcCceeCCCCCCCceEEEEEcCHHHHHHHHHH
Confidence 5679999999999999999999998866543 456666543221 123678999999999999999999999999999
Q ss_pred HHcCeEEEEEEEEEeccCCC-CcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcc
Q psy8191 107 LKMHIVQRKYLAMVWGIPKL-NGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTH 185 (257)
Q Consensus 107 f~~~~v~K~Y~alv~G~~~~-~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtH 185 (257)
|+++.++|+|+|+|.|.++. +|+|+.|+.++........+...++|+.|.|+|++++.. .++|||+|+|.|||||
T Consensus 167 ~~~~~v~K~Y~a~v~G~~~~~~~~i~~~i~~~~~~~~~~~~~~~~~gk~a~T~~~~l~~~----~~~sLv~~~~~TGRtH 242 (317)
T PRK11025 167 LREKGMQKDYLALVRGQWQSHVKVVQAPLLKNILQSGERIVRVSQEGKPSETRFKVEERY----AFATLVRASPVTGRTH 242 (317)
T ss_pred HHhCCccEEEEEEEeCcccCCCceEecccccCcccCCceEEecCCCCccceEEEEEeEEc----CCcEEEEEEeCCCCHH
Confidence 99999999999999999864 799999998765332222221116799999999999987 7899999999999999
Q ss_pred hHHHHHHHcCCceecCCCCCCCcc-c---cccccccccccceeEEecCCCCceEEEEEcCCHHHHHHHHHcC
Q psy8191 186 QIRVHMQWLGHGIVGDNLYGKKYS-K---SLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLITFSG 253 (257)
Q Consensus 186 QIR~hla~lG~PIvGD~~Yg~~~~-~---~~~~~r~~LHa~~l~f~~p~~~~~~~~~ap~P~~~~~~l~~l~ 253 (257)
|||+|||++||||+||.+||.... . .....|++|||++|+|.||.+++.+.|+||+|++|..+++.|+
T Consensus 243 QIRvhla~lG~PIlGD~~Yg~~~~~~~~~~~~~~r~~LHa~~l~f~~P~~~~~~~~~aplP~~~~~~l~~l~ 314 (317)
T PRK11025 243 QIRVHTQYAGHPIAFDDRYGDREFDQQLTGTGLNRLFLHAAALKFTHPGTGEVMRIEAPLDEQLKRCLQKLR 314 (317)
T ss_pred HHHHHHHHCCCCEECCcccCCcccchhhhccCCcchhhhcCcceeeCCCCCCeEEEEcCCCHHHHHHHHHHh
Confidence 999999999999999999996521 1 1135789999999999999999999999999999999998764
No 4
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family. modifies uracil-65 in transfer RNAs to pseudouridine.
Probab=100.00 E-value=2.7e-59 Score=417.61 Aligned_cols=245 Identities=44% Similarity=0.689 Sum_probs=204.8
Q ss_pred cccCCEEEEEcCCCccccCcCcCCCCCccEEEecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccC
Q psy8191 2 IISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVH 81 (257)
Q Consensus 2 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vh 81 (257)
+..||+|.+..+... ..+..+...+++|+|||++++|||||+|++||++.+...+++.+.+..++.......++++||
T Consensus 47 v~~gd~I~i~~~~~~--~~~~~~~~~~~~i~~ed~~~lvvnKP~g~~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vh 124 (299)
T TIGR00005 47 VKDGDRITVRVPEEE--EHEVPPQDIPLDILFEDEDIIVINKPSGLVVHPGGGNPFGTVLNALLAHCPPIAGVERVGIVH 124 (299)
T ss_pred CCCCCEEEEecCCcc--cccCCccCCCccEEEeCCCEEEEECCCCCeEeCCCCCCcccHHHHHHHhcccccCCCcCceEC
Confidence 346888888655321 123344455689999999999999999999999887777789888887764333334688999
Q ss_pred CCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEEEEEeccCCC-CcEEEeceeeCCCCCeeEEEecCCCCcceeeeeE
Q psy8191 82 RLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKL-NGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYE 160 (257)
Q Consensus 82 RLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~alv~G~~~~-~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~ 160 (257)
|||++|||+||||||.++++.++++|+++.++|+|+|+|.|.++. +|+|+.||.+.......+.+....+|+.|.|.|+
T Consensus 125 RLD~~TSGlll~ak~~~~~~~l~~~~~~~~v~K~Y~a~v~g~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~k~a~t~~~ 204 (299)
T TIGR00005 125 RLDRDTSGLMVVAKTPLALRELQRQLKNRTVTKEYVALVHGQFDSGGGTVDAPLGRVPNNRGLMAVHPSSEGKPAVTHFR 204 (299)
T ss_pred CCCCCCceEEEEEcCHHHHHHHHHHHHhCCcceEEEEEEeccccCCCCEEeCceecCCCCCceEEEecCCCCCeeeEEEE
Confidence 999999999999999999999999999999999999999999874 8899999987655444444432245899999999
Q ss_pred eeeeccccCCcEEEEEEEeccCCcchHHHHHHHcCCceecCCCCCCCccc------cccccccccccceeEEecCCCCce
Q psy8191 161 RLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKYSK------SLIFNRQALHAYKLGLIHPKNNLK 234 (257)
Q Consensus 161 vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG~PIvGD~~Yg~~~~~------~~~~~r~~LHa~~l~f~~p~~~~~ 234 (257)
++... .++||++|+|.||||||||+||+++||||+||.+||+.... .....|++|||++|+|.||.+++.
T Consensus 205 ~l~~~----~~~slv~~~l~tGR~HQIR~hla~lG~pI~gD~~Yg~~~~~~~~~~~~~~~~r~~Lha~~l~f~~p~~~~~ 280 (299)
T TIGR00005 205 VLERF----GNASLVECELETGRTHQIRVHLQYLGHPLAGDPLYGNKPVPGNNLNGLLNFDRQALHAYELGFIHPATGEI 280 (299)
T ss_pred EeEEc----CCeEEEEEEeCCCChHHHHHHHHHCCCcEeCccccCCccccccccccccCCcchhhccCeeeccCCCCCCE
Confidence 99876 78999999999999999999999999999999999975321 113578999999999999999999
Q ss_pred EEEEEcCCHHHHHHHHHc
Q psy8191 235 LKWRINLPDDISKLITFS 252 (257)
Q Consensus 235 ~~~~ap~P~~~~~~l~~l 252 (257)
+.|+||+|++|..+++.|
T Consensus 281 ~~~~a~~p~~~~~~~~~~ 298 (299)
T TIGR00005 281 LEFEAPLPADLVLLLEAL 298 (299)
T ss_pred EEEEcCChHHHHHHHHhh
Confidence 999999999999998765
No 5
>PRK11112 tRNA pseudouridine synthase C; Provisional
Probab=100.00 E-value=3.6e-59 Score=408.15 Aligned_cols=222 Identities=28% Similarity=0.398 Sum_probs=181.7
Q ss_pred ccEEEecCcEEEEECCCCceeeeCCCCCccc--HHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHH
Q psy8191 29 LDIIYEDNEIIILNKSAGLVVHPAIGNLSGT--LFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQ 106 (257)
Q Consensus 29 ~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~t--l~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~ 106 (257)
++|||||++++|||||+|++||++......+ +...+...+. .++++|||||++||||||||||+++++.|+++
T Consensus 2 l~IlyEd~~~lvvnKPaGl~~~~~~~~~~~~~~~~~~l~~~~~-----~~~~~VHRLDr~TSGlll~Ak~~~~~~~L~~~ 76 (257)
T PRK11112 2 LEILYQDEWLVAVNKPAGWLVHRSWLDRHETVFVMQTVRDQIG-----QHVFTAHRLDRPTSGVLLMALSSEVARLLAQQ 76 (257)
T ss_pred CcEEEecCCEEEEECCCCCeecCCCCCCCchHHHHHHHHHHhC-----CCceeeccCCCCCeeEEEEECCHHHHHHHHHH
Confidence 5799999999999999999999875433332 2333332221 24678999999999999999999999999999
Q ss_pred HHcCeEEEEEEEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccc-------cCCcEEEEEEEe
Q psy8191 107 LKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGII-------NKKHISLIRCNL 179 (257)
Q Consensus 107 f~~~~v~K~Y~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~-------~~~~~slv~~~~ 179 (257)
|+++.|+|+|+|+|.|.++.+|+++.|+.+...............++.|.|.|+++..... ...++||++|+|
T Consensus 77 f~~~~v~K~Y~Alv~G~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~k~a~T~~~~l~~~~~~~~~~~~~~~~~slv~i~~ 156 (257)
T PRK11112 77 FEQHQIQKTYHAIVRGWLMEEAVLDYPLKEELDKIADKFAREDKAPQPAVTHYRGLATVEMPVATGRYPTTRYSLVELEP 156 (257)
T ss_pred HHhCCcceEEEEEEEeEeCCCCeEeeeeeecccccceeecccCCCCeEeEEEEEEEEEecccccccccCCCCeEEEEEEc
Confidence 9999999999999999988789999999865333222222112568999999999976310 124689999999
Q ss_pred ccCCcchHHHHHHHcCCceecCCCCCCCccc-----cccccccccccceeEEecCCCCceEEEEEcCCHHHHHHHHHcCC
Q psy8191 180 KTGRTHQIRVHMQWLGHGIVGDNLYGKKYSK-----SLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLITFSGI 254 (257)
Q Consensus 180 ~TGRtHQIR~hla~lG~PIvGD~~Yg~~~~~-----~~~~~r~~LHa~~l~f~~p~~~~~~~~~ap~P~~~~~~l~~l~~ 254 (257)
.||||||||+|||++||||+||.+||....+ .+...|++|||++|+|.||.+++.+.|+||+|++|+.+++.+++
T Consensus 157 ~TGRtHQIRvhla~lG~PIvGD~~Yg~~~~~~~~~~~~~~~rl~LHA~~L~F~hP~t~e~~~~~a~~p~~~~~~~~~~~~ 236 (257)
T PRK11112 157 KTGRKHQLRRHMAHLRHPIIGDTKHGDLRQNRSLAEHFGCSRLMLHASELSLTHPFTGEPLTITAGLDETWQQLLSQFGW 236 (257)
T ss_pred CCCChHHHHHHHHHcCCCEeCCcccCCcccchhhhhccCCcchhHhhCccCccCCCCCCEEEEEcCCCHHHHHHHHHcCC
Confidence 9999999999999999999999999974221 11357899999999999999999999999999999999999987
Q ss_pred C
Q psy8191 255 K 255 (257)
Q Consensus 255 ~ 255 (257)
+
T Consensus 237 ~ 237 (257)
T PRK11112 237 R 237 (257)
T ss_pred C
Confidence 5
No 6
>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=100.00 E-value=2.6e-57 Score=389.01 Aligned_cols=209 Identities=29% Similarity=0.397 Sum_probs=171.2
Q ss_pred ccEEEecCcEEEEECCCCceeeeCCCCCccc--HHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHH
Q psy8191 29 LDIIYEDNEIIILNKSAGLVVHPAIGNLSGT--LFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQ 106 (257)
Q Consensus 29 ~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~t--l~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~ 106 (257)
++|||||++++|||||+|++||++.+....+ +...+...+. .++++|||||++||||||||||+++++.|+++
T Consensus 1 ~~Ilyed~~~lvvnKP~G~~~~~~~~~~~~~~~~~~~l~~~~~-----~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~ 75 (223)
T cd02563 1 LEILYQDEHLVAINKPSGLLVHRSELDRHETRFALQTLRDQLG-----QHVYPVHRLDRPTSGVLLFALSSEVARKLGEQ 75 (223)
T ss_pred CcEEEecCCEEEEECCCCCeEcCCCCCCCCcHHHHHHHHHHcC-----CCcccccCCCCCCeEEEEEEECHHHHHHHHHH
Confidence 4799999999999999999999876443322 2233332221 35778999999999999999999999999999
Q ss_pred HHcCeEEEEEEEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccc-------cCCcEEEEEEEe
Q psy8191 107 LKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGII-------NKKHISLIRCNL 179 (257)
Q Consensus 107 f~~~~v~K~Y~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~-------~~~~~slv~~~~ 179 (257)
|+++.++|+|+|+|.|.++.+|+|+.++.++........+.....++.|.|.|+++..... ...++||++|+|
T Consensus 76 f~~~~v~K~Y~alv~G~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~a~t~~~~l~~~~~~~~~~~~~~~~~slv~~~~ 155 (223)
T cd02563 76 FTEHRVHKTYLAVVRGYVPESGTIDYPLSEELDKLADKFASDDKAPQAATTHYRLLAVEELPVVVGKYPTSRYSLVELTP 155 (223)
T ss_pred HhcCceeEEEEEEEECccCCCCeEEEeeeeCCCccceEEeecCCCCceeEEEEEEeeecccccccccCCCCCeEEEEEEe
Confidence 9999999999999999987789999999876654433333222568999999999975310 113689999999
Q ss_pred ccCCcchHHHHHHHcCCceecCCCCCCCccc-----cccccccccccceeEEecCCCCceEEEEEcCC
Q psy8191 180 KTGRTHQIRVHMQWLGHGIVGDNLYGKKYSK-----SLIFNRQALHAYKLGLIHPKNNLKLKWRINLP 242 (257)
Q Consensus 180 ~TGRtHQIR~hla~lG~PIvGD~~Yg~~~~~-----~~~~~r~~LHa~~l~f~~p~~~~~~~~~ap~P 242 (257)
.||||||||+|||++||||+||.+||+...+ .....|++|||++|.|+||.+++.+.|+||+|
T Consensus 156 ~TGR~HQIRvhla~lG~PIvGD~~Yg~~~~~~~~~~~~~~~rl~Lha~~L~F~hP~t~~~~~~~a~~~ 223 (223)
T cd02563 156 HTGRKHQLRRHLAHIRHPIIGDTTHGDGRHNRFFREHFGCHRLLLAATRLEFTHPVTGERLLIEAPLD 223 (223)
T ss_pred CCCCHHHHHHHHHHcCCCeeCCcccCCcccChhHHhhcCCccceeecCeeEeeCCCCCCeEEEEccCC
Confidence 9999999999999999999999999975321 12357899999999999999999999999987
No 7
>PRK10158 23S rRNA/tRNA pseudouridine synthase A; Provisional
Probab=100.00 E-value=4.1e-57 Score=386.58 Aligned_cols=205 Identities=32% Similarity=0.494 Sum_probs=174.5
Q ss_pred CCccEEEecCcEEEEECCCCceeeeCCC-CCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHH
Q psy8191 27 IKLDIIYEDNEIIILNKSAGLVVHPAIG-NLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVN 105 (257)
Q Consensus 27 ~~~~ilyed~~~ivvnKP~Gl~~~~~~~-~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~ 105 (257)
.+++|||||++++|||||+|++||++.. ....++.+.+...+. ++.+|||||++||||||+|||+++++.|++
T Consensus 12 ~~~~iiyed~~~lvvnKPaGl~~~~~~~~~~~~sl~~~l~~~~~------~~~~vhRLDr~TSGlll~Akt~~~~~~l~~ 85 (219)
T PRK10158 12 PWLVILYQDEHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQRDYP------QAESVHRLDMATSGVIVVALTKAAERELKR 85 (219)
T ss_pred CCCCEEEeCCCEEEEECCCCCcEeCCCCCccchhHHHHHHHhCC------CCCEECCCCCCCceEEEEECCHHHHHHHHH
Confidence 3478999999999999999999998763 334567777655432 467899999999999999999999999999
Q ss_pred HHHcCeEEEEEEEEEeccCCC-CcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCc
Q psy8191 106 QLKMHIVQRKYLAMVWGIPKL-NGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRT 184 (257)
Q Consensus 106 ~f~~~~v~K~Y~alv~G~~~~-~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRt 184 (257)
+|++++++|+|+|+|.|.++. +|+++.|+.++......+.+.. ++|+.|.|.|++++... ...++++|+|.||||
T Consensus 86 ~f~~~~v~K~Yla~v~G~~~~~~~~i~~~i~~~~~~~~~~~~~~-~~gk~a~t~~~~l~~~~---~~~sll~~~~~TGRt 161 (219)
T PRK10158 86 QFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPKQKVCY-ETGKPAQTEYEVVEYAA---DNTARVVLKPITGRS 161 (219)
T ss_pred HHHhCCccEEEEEEEecccCCCCcEEecceecCCCCCceEEecC-CCCceeeEEEEEEEEcC---CCCEEEEEEeCCCCH
Confidence 999999999999999999874 8999999987654444444432 57899999999999762 346899999999999
Q ss_pred chHHHHHHHcCCceecCCCCCCCccccccccccccccceeEEecCCCCceEEEEEcCC
Q psy8191 185 HQIRVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLP 242 (257)
Q Consensus 185 HQIR~hla~lG~PIvGD~~Yg~~~~~~~~~~r~~LHa~~l~f~~p~~~~~~~~~ap~P 242 (257)
||||+||+++||||+||.+||...... ..+|++|||++|.|+||.+++.+.|.||.|
T Consensus 162 HQIR~hla~lG~PIvGD~~Yg~~~~~~-~~~r~~Lha~~l~f~~P~~~~~~~~~a~~~ 218 (219)
T PRK10158 162 HQLRVHMLALGHPILGDRFYASPEARA-MAPRLLLHAEMLTITHPAYGNSMTFKAPAD 218 (219)
T ss_pred HHHHHHHHHCCCcEECCcccCCccccc-cccchhhhhCccCccCCCCCCeEEEEeCCC
Confidence 999999999999999999999753211 246899999999999999999999999875
No 8
>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=100.00 E-value=6.8e-57 Score=391.45 Aligned_cols=225 Identities=22% Similarity=0.212 Sum_probs=181.8
Q ss_pred cccCCEEEEEcCCCccccCcCcCCCCCccEEEecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccC
Q psy8191 2 IISGYELIIIKPKKNFFLNKTEKKVIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVH 81 (257)
Q Consensus 2 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vh 81 (257)
+-.||+|.+..+... ..+...+++|||||++++|||||+|++|||+.+...+++.+.+..++. ...+.+||
T Consensus 17 l~~gd~i~~~~~~~~-----~~~~~~~~~Iiyed~~~lvvnKPaGl~~~~~~~~~~~t~~~~l~~~~~----~~~~~~vh 87 (246)
T cd02558 17 YRPGTFVWYYRELPD-----EPPIPFEETILHQDEHLLVADKPHFLPVTPRGRYVTETLLVRLRRQTG----NPDLTPAH 87 (246)
T ss_pred ecCCCEEEEeCCCCC-----CCCCCCCcceEEecCCEEEEECCCCCccCCCCcchhhhHHHHHHHHhC----CCcccccc
Confidence 456999988743211 112234589999999999999999999999887777788887765532 23567899
Q ss_pred CCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEEEEEeccCCC-Cc-EEEeceeeCCCCCeeEEEecCCCCcceeeee
Q psy8191 82 RLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKL-NG-MINAAIMRNPHNRIKMTVSKNFNAKPALTYY 159 (257)
Q Consensus 82 RLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~alv~G~~~~-~g-~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~ 159 (257)
|||++|||+||||||+++++.++.+|++++++|+|+|+|.|.++. .+ .++.++.+.... ..+... .+++.|.|+|
T Consensus 88 RLD~~TSGlll~Ak~~~~~~~l~~~~~~~~v~K~YlA~v~G~~~~~~~~~~~~~i~~~~~~-~~~~~~--~~~~~a~T~~ 164 (246)
T cd02558 88 RLDRLTAGLVLFSKRPETRGAYQTLFARREVSKTYEAVAPYVPALTFPLTVRSRIVKGRGF-FQAREV--EGEPNAETRI 164 (246)
T ss_pred cCCCCceeEEEEEcCHHHHHHHHHHHHcCCccEEEEEEEecCCCCCCCcceeccccccCCc-ceeecc--CCCCCceEEE
Confidence 999999999999999999999999999999999999999998863 33 567777554322 222222 4567899999
Q ss_pred EeeeeccccCCcEEEEEEEeccCCcchHHHHHHHcCCceecCCCCCCCcccc-cc-ccccccccceeEEecCCCCceEEE
Q psy8191 160 ERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKKYSKS-LI-FNRQALHAYKLGLIHPKNNLKLKW 237 (257)
Q Consensus 160 ~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG~PIvGD~~Yg~~~~~~-~~-~~r~~LHa~~l~f~~p~~~~~~~~ 237 (257)
++++.. .++||++|+|.||||||||+|||++||||+||.+||...... .. ..+++|||++|+|.||.|++.+.|
T Consensus 165 ~~l~~~----~~~slv~~~l~TGRtHQIRvhla~lG~PIvGD~~Yg~~~~~~~~~~~~~~~Lha~~l~f~hP~t~~~~~~ 240 (246)
T cd02558 165 ELLARR----GGWGLYRLSPHTGKTHQLRVHMAALGVPILNDPFYPVLLDKDPDDFSRPLQLLAKELEFTDPLTGRPRRF 240 (246)
T ss_pred EEEEec----CCeEEEEEEeCCCCHHHHHHHHHHCCCcccCCccCCCCCcccccccccCchhhhcccCccCCCCCCEEEE
Confidence 999877 789999999999999999999999999999999999742111 01 245899999999999999999999
Q ss_pred EEcCC
Q psy8191 238 RINLP 242 (257)
Q Consensus 238 ~ap~P 242 (257)
+||+|
T Consensus 241 ~~~~~ 245 (246)
T cd02558 241 ESGRS 245 (246)
T ss_pred ecCCC
Confidence 99987
No 9
>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=100.00 E-value=4.6e-56 Score=379.52 Aligned_cols=201 Identities=28% Similarity=0.475 Sum_probs=171.4
Q ss_pred ccEEEecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHH
Q psy8191 29 LDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLK 108 (257)
Q Consensus 29 ~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~ 108 (257)
++|||||++++|||||+|++||++.+ ..++.+.+..+. ....+++|||||++|||+||||||+++++.|+++|+
T Consensus 2 ~~ilyed~~~lvvnKP~Gl~v~~~~~--~~~l~~~l~~~~----~~~~~~~VhRLDr~TSGlll~Ak~~~~~~~L~~~~~ 75 (217)
T TIGR01621 2 FEILFTHPDFLLINKHPGISVHKDDG--ETGLLQEVATQL----GVGQVWLVHRLDKMTSGILLLALNAESASELSQGFA 75 (217)
T ss_pred ceEEEeCCCEEEEECCCCCeECCCCC--cChHHHHHHHhc----CCCCccEecCCCCCCceEEEEEcCHHHHHHHHHHHh
Confidence 57999999999999999999998754 245666665432 123578999999999999999999999999999999
Q ss_pred cCeEEEEEEEEEeccCCC-CcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchH
Q psy8191 109 MHIVQRKYLAMVWGIPKL-NGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQI 187 (257)
Q Consensus 109 ~~~v~K~Y~alv~G~~~~-~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQI 187 (257)
++.++|+|+|+|.|.++. +|+|+.++.+...+... +.. ..++.|.|+|+++... .++|+++|+|.|||||||
T Consensus 76 ~~~v~K~YlAlV~g~~~~~~~~i~~~~~~~~~~~~~--~~~-~~~k~a~t~~~~~~~~----~~~slv~~~~~TGR~HQI 148 (217)
T TIGR01621 76 KRKIEKTYLALSSKKPKKKQGLICGDMEKSRRGSWK--LVN-SQENPAITRFFSASAA----TGLRLFILKPHTGKTHQL 148 (217)
T ss_pred cCCccEEEEEEEeccccCCCCEEeCCcccCCCCCEE--EeC-CCCCceeEEEEEEEEc----CCeEEEEEEeCCCCHHHH
Confidence 999999999999999875 79999998765544322 222 5789999999999987 789999999999999999
Q ss_pred HHHHHHcCCceecCCCCCCCccccccccccccccceeEEecCCCCceEEEEEcCCHHHHHHH
Q psy8191 188 RVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDISKLI 249 (257)
Q Consensus 188 R~hla~lG~PIvGD~~Yg~~~~~~~~~~r~~LHa~~l~f~~p~~~~~~~~~ap~P~~~~~~l 249 (257)
|+||+++||||+||.+||+.. ...|++|||++|.|+| +++.+.|+|| |++|..++
T Consensus 149 Rvhla~lG~PIlGD~~Yg~~~----~~~~~~Lha~~l~f~~--~~~~~~~~~~-~~~~~~~~ 203 (217)
T TIGR01621 149 RVAMKSLGSPILGDPLYGTTD----ESDRGYLHAFALRFDY--QNEVIQWLCD-PRQFQKWH 203 (217)
T ss_pred HHHHHHCCCceeCCcccCCCC----CccCceeeeeEeEEEE--CCeEEEEEEC-cHHHHHHH
Confidence 999999999999999999742 3578999999999998 4899999999 77776554
No 10
>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=100.00 E-value=2.8e-54 Score=367.69 Aligned_cols=199 Identities=30% Similarity=0.404 Sum_probs=169.7
Q ss_pred CCCccEEEecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHH
Q psy8191 26 VIKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVN 105 (257)
Q Consensus 26 ~~~~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~ 105 (257)
..+++|||||++++|+|||+|++|+++......++.+.|..++. ...+.+|||||++|||+||||||+++++.|++
T Consensus 13 ~~~~~iiyed~~~ivvnKP~Gl~~~~~~~~~~~sl~~~l~~~~~----~~~~~~vhRLD~~TSGllllak~~~~~~~l~~ 88 (213)
T cd02557 13 NDPIKIVHEDDDLLVVDKPSGIPVHPTGRYRYNTVTEILKSEYG----LTELRPCHRLDRLTSGLLLFAKTSQTASRLQQ 88 (213)
T ss_pred CCCCcEEEECCCEEEEECCCCCcCCCCCCCCcChHHHHHHHHcC----CCCccCccCCCCCCceEEEEECCHHHHHHHHH
Confidence 34579999999999999999999998876666788888876542 13577899999999999999999999999999
Q ss_pred HHHcCeEEEEEEEEEeccCCC-CcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCc
Q psy8191 106 QLKMHIVQRKYLAMVWGIPKL-NGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRT 184 (257)
Q Consensus 106 ~f~~~~v~K~Y~alv~G~~~~-~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRt 184 (257)
+|++++++|+|+|+|.|.++. +++++.|+.+....... .......++.|.|.|+++...+ ..++||++|+|.|||+
T Consensus 89 ~f~~~~v~K~Y~a~v~G~~~~~~~~i~~~l~~~~~~~~~-~~~~~~~~~~a~t~~~~~~~~~--~~~~slv~v~~~TGR~ 165 (213)
T cd02557 89 QIRSREVKKEYLARVKGEFPDGEVVVDQPIGLVSPKGGL-RNDVDEKGKDARTIFKRLSYNG--DLNTSVVLCKPITGRT 165 (213)
T ss_pred HHHcCCccEEEEEEEeCcCCCCCeEEecceeccCcCCce-eeccCCCCceeeEEEEEEEEcC--CCCeEEEEEEeCCCCH
Confidence 999999999999999999875 88999999765432221 1111157899999999998761 1389999999999999
Q ss_pred chHHHHHHHcCCceecCCCCCCCccccccccccccccceeEEecCCCCceEEEEEcCCHHH
Q psy8191 185 HQIRVHMQWLGHGIVGDNLYGKKYSKSLIFNRQALHAYKLGLIHPKNNLKLKWRINLPDDI 245 (257)
Q Consensus 185 HQIR~hla~lG~PIvGD~~Yg~~~~~~~~~~r~~LHa~~l~f~~p~~~~~~~~~ap~P~~~ 245 (257)
||||+||+++||||+||.+||. .|++|||++|.|+ .+.|++|+|.+|
T Consensus 166 HQIR~hla~lG~PIlGD~~Yg~--------~~l~Lha~~l~f~------~~~~~~~~p~~~ 212 (213)
T cd02557 166 HQIRVHLQYLGHPIVNDPIYNN--------LGIYLHALRYEGP------DWSYETELPDWA 212 (213)
T ss_pred HHHHHHHHHCCCCCcCccccCC--------cChhhhhccCcCc------cEEEEeCCCccc
Confidence 9999999999999999999996 4689999999995 789999999876
No 11
>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=100.00 E-value=3.8e-46 Score=310.09 Aligned_cols=184 Identities=45% Similarity=0.672 Sum_probs=149.7
Q ss_pred EEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEE
Q psy8191 38 IIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYL 117 (257)
Q Consensus 38 ~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~ 117 (257)
++|+|||+|++|++.......++.+.+............+.+|||||++|||+||||+|+++++.|.++|+++.++|+|+
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 58999999999999887777777766532222222335688999999999999999999999999999999999999999
Q ss_pred EEEeccCCC-CcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHHHcCC
Q psy8191 118 AMVWGIPKL-NGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGH 196 (257)
Q Consensus 118 alv~G~~~~-~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG~ 196 (257)
|+|.|.++. .+.++.++..+........... .+++.+.|.|+++... .++|+++|+|.|||+||||+||+++||
T Consensus 81 a~v~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~t~~~~l~~~----~~~s~~~~~l~tGR~HQIR~hl~~~G~ 155 (185)
T cd02869 81 ALVDGKPPEDEGTIDAPLGRKKRKKRARVVVS-EDGKPAITHYKVLERF----GNVTLVELQLETGRTHQIRVHLASIGH 155 (185)
T ss_pred EEEeCCCCCCccEEecccccCCccCceEEEEC-CCCeEEEEEEEEEEEc----CCcEEEEEEeCcCCccHHHHHHHHCCC
Confidence 999999975 7888888865422222222221 6789999999999877 689999999999999999999999999
Q ss_pred ceecCCCCCCCccccccccccccccceeEE
Q psy8191 197 GIVGDNLYGKKYSKSLIFNRQALHAYKLGL 226 (257)
Q Consensus 197 PIvGD~~Yg~~~~~~~~~~r~~LHa~~l~f 226 (257)
||+||.+||..........|++|||++|.|
T Consensus 156 pIvGD~~Yg~~~~~~~~~~~~~Lha~~l~~ 185 (185)
T cd02869 156 PIVGDPKYGGKASDSPGLKRLALHAYRLSF 185 (185)
T ss_pred CEeCccccCCccccccCCcchhhcccEeEC
Confidence 999999999864311014789999999987
No 12
>KOG1919|consensus
Probab=100.00 E-value=2.6e-40 Score=298.41 Aligned_cols=219 Identities=31% Similarity=0.457 Sum_probs=167.5
Q ss_pred CCccEEEecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHH
Q psy8191 27 IKLDIIYEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQ 106 (257)
Q Consensus 27 ~~~~ilyed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~ 106 (257)
.++.|+|||++++|||||+|++|||++....+++...+... .....+.+|||||+.|||+|+|||+++++..++++
T Consensus 104 ~~~~Iv~ed~~~vVvnKP~gipVhp~g~~~~n~i~~~l~~~----~~~~~~~~~hRLDr~tSGllvlAkt~~~~~~~~~~ 179 (371)
T KOG1919|consen 104 LPIRIVFEDKDYVVVNKPHGIPVHPTGRYRENTITKILAAL----HKVEGLRPCHRLDRLTSGLLVLAKTKEAADKFHEV 179 (371)
T ss_pred cccceEEecCCEEEEeCCCCCceeccCccccccchHHHHHh----ccccccccccccCccccceEEEEechhHhHHHHHH
Confidence 57899999999999999999999998888888877766553 12234778999999999999999999999999999
Q ss_pred HHcCeEEEEE-EEEEeccCCCCc--EEEeceeeCCCCCeeEEEecC-----CCCcceeeeeEeeeeccccCCcEEEEEEE
Q psy8191 107 LKMHIVQRKY-LAMVWGIPKLNG--MINAAIMRNPHNRIKMTVSKN-----FNAKPALTYYERLATGIINKKHISLIRCN 178 (257)
Q Consensus 107 f~~~~v~K~Y-~alv~G~~~~~g--~i~~~l~~~~~~~~~~~v~~~-----~~~k~a~t~~~vl~~~~~~~~~~slv~~~ 178 (257)
|++++++|.| .|-|.|.++..| ++..++..... ..++.+... ..++.|.|.|+++... ...|+|+|.
T Consensus 180 ~r~~~~~k~Y~v~~v~g~fp~~~~~~i~~~~~~~~~-~~~~~l~~~~~~~~~~~k~a~T~~~~~~~~----~~ss~V~~~ 254 (371)
T KOG1919|consen 180 LRKRTVKKEYVVARVEGPFPVVGEVEIKEPIGEEER-PLRMGLNAVGVRDEVAAKDAKTLFKVLSYD----GGSSLVECR 254 (371)
T ss_pred HhcccceeEEEEEEEeccCCCCceEEeCCCcccccc-ccceEeeecccccccccccceeEEEEcccC----CceEEEEee
Confidence 9999999999 789999988545 44444433221 133333321 2389999999999988 899999999
Q ss_pred eccCCcchHHHHHHHcCCceecCCCCCCCcc------------c-----c-c--cccccccccceeEEecCCCC---ceE
Q psy8191 179 LKTGRTHQIRVHMQWLGHGIVGDNLYGKKYS------------K-----S-L--IFNRQALHAYKLGLIHPKNN---LKL 235 (257)
Q Consensus 179 ~~TGRtHQIR~hla~lG~PIvGD~~Yg~~~~------------~-----~-~--~~~r~~LHa~~l~f~~p~~~---~~~ 235 (257)
|+||||||||+||+++|+||+||.+|++... . + . ......+++-... .||.++ +.+
T Consensus 255 PlTGRtHQIRvHlq~lG~PI~gD~~Y~~~~~~~~~P~~g~~~~~~~~~~e~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 333 (371)
T KOG1919|consen 255 PLTGRTHQIRVHLQYLGHPIAGDPKYGNHIVWAGLPFTGREGTAKKKSLEEEIQRLIDVHLLENWLG-FHPRTGPLIEEL 333 (371)
T ss_pred ccCCcHHHHHHHHHHhCCCcCCCcccccccccccCCCCCCCCCccccCccccccccchhhccccccc-cccccccchhhh
Confidence 9999999999999999999999999965410 0 0 0 1112233333333 567766 556
Q ss_pred EEEEcCC--HHHHHHHHHcCCC
Q psy8191 236 KWRINLP--DDISKLITFSGIK 255 (257)
Q Consensus 236 ~~~ap~P--~~~~~~l~~l~~~ 255 (257)
...++.| .|+..++..+.-.
T Consensus 334 ~~~C~~~~~~Dl~~~lha~~y~ 355 (371)
T KOG1919|consen 334 CQECKVPIDNDLELFLHALKYE 355 (371)
T ss_pred hhhCCCCCCchHhHhhhhcccc
Confidence 6677777 8888888877543
No 13
>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=100.00 E-value=5.2e-39 Score=260.66 Aligned_cols=147 Identities=31% Similarity=0.428 Sum_probs=123.0
Q ss_pred EEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEE
Q psy8191 38 IIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYL 117 (257)
Q Consensus 38 ~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~ 117 (257)
++|+|||+|++||++.+....++.+.+... ...++++|||||++|||+||||+|+++++.|+++ ++.++|+|+
T Consensus 1 ~ivvnKP~G~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~--~~~v~K~Y~ 73 (154)
T cd02550 1 ILVLNKPSGLVCHPTDRDRDPTVVVRLDKL-----HGPRVHAAGRLDKDTSGLLLLTNDGRLQRRLTEP--RREIEKEYL 73 (154)
T ss_pred CEEEECCCCCEEecCCCCCCCcHHHhhhcc-----cCCceeEeccCCCCCeeEEEEEcCHHHHHHHhhh--hccCcEEEE
Confidence 589999999999998876667777655432 1245789999999999999999999999999998 788999999
Q ss_pred EEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHHHcCCc
Q psy8191 118 AMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHG 197 (257)
Q Consensus 118 alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG~P 197 (257)
|+|.|.+++++.+..++.+ ..+...... ++++.+.|.|+++... .++|+++++|.|||+||||+|||++|||
T Consensus 74 a~v~g~~~~~~~~~~~~~~--~~~~~~~~~--~~~~~~~t~~~~l~~~----~~~sll~~~l~tGR~HQIR~hla~~G~p 145 (154)
T cd02550 74 VTVRGELDEEGIEDLATVR--RGRLSGLVD--EGVPLAVTKVRVIGEH----GGTGRLRLTLKTGRTHQIRRHCAAVGFP 145 (154)
T ss_pred EEEEeecCcchheeccccc--cCcceeEEc--CCCcccceEEEEEEec----CCcEEEEEEEcCCCcHHHHHHHHHcCCc
Confidence 9999999877777777654 222222233 5688899999999866 6789999999999999999999999999
Q ss_pred ee
Q psy8191 198 IV 199 (257)
Q Consensus 198 Iv 199 (257)
|.
T Consensus 146 I~ 147 (154)
T cd02550 146 VL 147 (154)
T ss_pred EE
Confidence 96
No 14
>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=100.00 E-value=1.2e-35 Score=242.58 Aligned_cols=155 Identities=36% Similarity=0.499 Sum_probs=115.7
Q ss_pred cEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEE
Q psy8191 37 EIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKY 116 (257)
Q Consensus 37 ~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y 116 (257)
||+|||||+|++|++..+.....................++++|||||++||||||||+|+++++.|+++|+.+.++|+|
T Consensus 1 ~~ivvnKP~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~RLD~~TsGlll~a~~~~~~~~l~~~f~~~~~~K~Y 80 (164)
T PF00849_consen 1 NLIVVNKPAGVPVHPSDGNESKSVKELPALSLKRGDDPPELYPVHRLDRDTSGLLLFAKDKEAAAKLSKQFPKRKVEKTY 80 (164)
T ss_dssp SEEEEEE-TTSBSSSSSTBSSSSHHCHHHHHHHHCTTSGGGEESS---TT-EEEEEEESSHHHHHHHHHHHHTTCSEEEE
T ss_pred CEEEEECCCCCeEecCCCCCcccccchhhhhhhhccCCCceEECCCCCccccCCeeccCCcccccccccccccCCCcEEE
Confidence 68999999999999887433333333322222233445678999999999999999999999999999999999999999
Q ss_pred EEEEeccC-CCCcEEEeceeeC---CCCCeeEEEecCCCCcceeeeeEeeeec-----cccCCcEEEEEEEeccCCcchH
Q psy8191 117 LAMVWGIP-KLNGMINAAIMRN---PHNRIKMTVSKNFNAKPALTYYERLATG-----IINKKHISLIRCNLKTGRTHQI 187 (257)
Q Consensus 117 ~alv~G~~-~~~g~i~~~l~~~---~~~~~~~~v~~~~~~k~a~t~~~vl~~~-----~~~~~~~slv~~~~~TGRtHQI 187 (257)
+|+|.|.+ +.+|.++.++... .......... .+++.+.|.|++++.. .....++++++|+|.|||+|||
T Consensus 81 ~a~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~t~~~~l~~~~~~~~~~~~~~~s~v~~~l~tGr~HQI 158 (164)
T PF00849_consen 81 LALVEGGPVEEEGKINSPLGKDVGKNKSSNKDPPG--RDGKPAITRYRVLRSGSRTPSKDENAGCSLVECELITGRTHQI 158 (164)
T ss_dssp EEEECSSSSTTCEEEESHEEE-EECSSCTCCEEET--TTSBTSEEEEEEEEEETT---EECCSSEEEEEEEESS-STTHH
T ss_pred EEeEcccccccceeeeccccccccccccceeeeec--ccccccceeeeeeccccccccccccCCCEEEEEEECcCCCHHH
Confidence 99999554 5689999999772 1122222222 7889999999999975 1123789999999999999999
Q ss_pred HHHHHH
Q psy8191 188 RVHMQW 193 (257)
Q Consensus 188 R~hla~ 193 (257)
|+|||+
T Consensus 159 R~hla~ 164 (164)
T PF00849_consen 159 RVHLAH 164 (164)
T ss_dssp HHHHHH
T ss_pred HHHhcC
Confidence 999996
No 15
>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=100.00 E-value=1.2e-35 Score=238.83 Aligned_cols=140 Identities=24% Similarity=0.307 Sum_probs=112.1
Q ss_pred EEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEE
Q psy8191 38 IIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYL 117 (257)
Q Consensus 38 ~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~ 117 (257)
|+|+|||+|++|++.......++.+.+... ..++.+|||||++|||+||||+|.++++.|.. +++.++|+|+
T Consensus 1 ~ivvnKP~G~~~~~~~~~~~~~l~~~l~~~------~~~~~~vhRLD~~TsGlll~ak~~~~~~~l~~--~~~~i~K~Y~ 72 (146)
T cd02870 1 YLLLNKPRGVVSTVRDPEGRPTVLDLLKDV------GERLFPVGRLDYDTEGLLLLTNDGELANRLTH--PRYGVEKTYL 72 (146)
T ss_pred CEEEECCCCcEecccCCCCCCEEeeecccc------CCCEEECCCCCCCCeeEEEEeCCHHHHHHhhC--ccCCCCeEEE
Confidence 589999999999987765556666544321 24578999999999999999999999999986 4778999999
Q ss_pred EEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHHHcCCc
Q psy8191 118 AMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHG 197 (257)
Q Consensus 118 alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG~P 197 (257)
|+|.|.++++. +.. + . ... .. .+++.+.|+|++++.. .++|+++|+|.|||+||||+||+++|||
T Consensus 73 a~v~g~~~~~~-~~~-~---~---~~~-~~--~~~~~~~t~~~~l~~~----~~~sll~~~l~tGR~HQIR~hla~~G~p 137 (146)
T cd02870 73 VKVRGVPSEEE-LRR-L---R---AGV-EL--DDGKTAPAKVKVLSRD----PKNTLLEVTLHEGRNRQVRRMFEAVGHP 137 (146)
T ss_pred EEECCCCCHHH-HHH-H---H---CCe-Ee--CCceEcceEEEEeccC----CCCcEEEEEEEeCCcHHHHHHHHHcCCc
Confidence 99999986522 111 1 0 111 12 4678899999999876 6789999999999999999999999999
Q ss_pred eec
Q psy8191 198 IVG 200 (257)
Q Consensus 198 IvG 200 (257)
|+-
T Consensus 138 I~~ 140 (146)
T cd02870 138 VLR 140 (146)
T ss_pred CCe
Confidence 973
No 16
>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=100.00 E-value=1e-34 Score=238.55 Aligned_cols=142 Identities=20% Similarity=0.276 Sum_probs=115.0
Q ss_pred cEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEE
Q psy8191 37 EIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKY 116 (257)
Q Consensus 37 ~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y 116 (257)
.++|+|||+|++|++.+.....++.+.+..+. ..++++|||||++|||+||||+|.++++.|+. .++.++|+|
T Consensus 1 ~~lvvnKP~G~~~~~~~~~~~~tl~~~l~~~~-----~~~~~~V~RLD~~TsGLll~ak~~~~~~~L~~--~~~~i~K~Y 73 (167)
T cd02556 1 RVLIYHKPEGLICTRKDPKGRPTVFDLLPKLG-----IPRWISVGRLDLNTEGLLLFTNDGELANRLMH--PSNEIEREY 73 (167)
T ss_pred CEEEEECCCCcEECccCCCCCccHHHhhhhhc-----cCceEEcCcCCCCCeeEEEEECCHHHHHHHhC--CcCCCCeEE
Confidence 37899999999999876555678888776542 23577999999999999999999999999975 688899999
Q ss_pred EEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHHHcCC
Q psy8191 117 LAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGH 196 (257)
Q Consensus 117 ~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG~ 196 (257)
+|+|.|.++++. ++ .+ . ..+.. .+++.+.|.|+++... .++|+++|+|.|||+||||+||+++||
T Consensus 74 ~a~V~g~~~~~~-~~-~~---~---~gv~~---~~~~~~~~~~~~~~~~----~~~sll~v~l~tGR~HQIR~~~a~~G~ 138 (167)
T cd02556 74 AVRVFGQVTDEQ-LK-SL---K---KGVEL---EDGFAGFKSIQLEGGE----GKNSWYRVTLREGRNREVRRLWEAFGL 138 (167)
T ss_pred EEEECccCCHHH-HH-HH---H---cCCEE---CCCcCcceEEEEEecC----CCcEEEEEEEEeCCCHHHHHHHHHcCC
Confidence 999999986532 11 01 0 11111 4578899999999765 577999999999999999999999999
Q ss_pred ceec
Q psy8191 197 GIVG 200 (257)
Q Consensus 197 PIvG 200 (257)
||+-
T Consensus 139 pV~~ 142 (167)
T cd02556 139 QVSR 142 (167)
T ss_pred eEeE
Confidence 9975
No 17
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional
Probab=100.00 E-value=2.2e-35 Score=254.66 Aligned_cols=145 Identities=19% Similarity=0.202 Sum_probs=110.8
Q ss_pred ecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEE
Q psy8191 34 EDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQ 113 (257)
Q Consensus 34 ed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~ 113 (257)
++++++|+|||+||+||++.... .++.+.+... ...++++|||||++||||||||||.+++..|.. .++.++
T Consensus 58 ~~~~~lvvnKP~G~~~~~~~~~~-~tl~~~l~~~-----~~~~~~~v~RLD~~TSGlll~ak~~~~~~~l~~--~~~~i~ 129 (232)
T PRK10839 58 HGPRYFMLNKPQGYVCSTDDPDH-PTVLYFLDEP-----VAYKLHAAGRLDIDTTGLVLMTDDGQWSHRITS--PRHHCE 129 (232)
T ss_pred CCCEEEEEECCCCeEecccCCCC-CeEEEecccc-----cccCceecCCCCCCceeEEEEecCHHHHHHHhC--CCCCCC
Confidence 45689999999999999875432 4544333211 123577899999999999999999999999986 578899
Q ss_pred EEEEEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHHH
Q psy8191 114 RKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQW 193 (257)
Q Consensus 114 K~Y~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~ 193 (257)
|+|+|.+.+.+.. +........+. .+|+.|.|+|.+++.. . .|+++|+|.||||||||+||++
T Consensus 130 K~Y~a~i~~~i~~----------~~~~~~~~~~~--~~g~~a~t~~~~~~~~----~-~sll~~~l~tGRtHQIR~h~~~ 192 (232)
T PRK10839 130 KTYLVTLESPVAD----------DTAEQFAKGVQ--LHNEKDLTKPAVLEVI----T-PTQVRLTISEGRYHQVKRMFAA 192 (232)
T ss_pred eEEEEEECCCCCH----------HHHHHHHCCeE--ECCCcccccccEEEEe----c-CCEEEEEEEcCcCHHHHHHHHH
Confidence 9999988776643 11011111122 3588899999999876 3 3899999999999999999999
Q ss_pred cCCceecCCC
Q psy8191 194 LGHGIVGDNL 203 (257)
Q Consensus 194 lG~PIvGD~~ 203 (257)
+||||+|=..
T Consensus 193 ~G~pi~gl~R 202 (232)
T PRK10839 193 VGNHVVELHR 202 (232)
T ss_pred cCCeEeeEEE
Confidence 9999998643
No 18
>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=100.00 E-value=4.3e-34 Score=234.74 Aligned_cols=144 Identities=22% Similarity=0.227 Sum_probs=108.6
Q ss_pred EEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEE
Q psy8191 38 IIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYL 117 (257)
Q Consensus 38 ~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~ 117 (257)
++|+|||+|++|+++. ....++.+.+..++. ..++.+|||||++|||+||||||.++++.+.+ +++.++|+|+
T Consensus 2 ~ivvnKP~G~~~~~~~-~~~~tl~~~l~~~~~----~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~--~~~~i~K~Y~ 74 (167)
T cd02553 2 YLMLNKPAGVVCATKD-PHHPTVIDLLPEPDR----RRDLFPVGRLDKDTTGLLLLTNDGQLAHRLTS--PKKHVPKTYE 74 (167)
T ss_pred EEEEECCCCCEeCCCC-CCCCcHHHHhhhhcc----cCCeEEcccCCCCCEEEEEEEeCHHHHHHhhC--CcCCCceEEE
Confidence 7999999999999654 445788887765542 23578999999999999999999998888876 4778999999
Q ss_pred EEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCC-cceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHHHcCC
Q psy8191 118 AMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNA-KPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGH 196 (257)
Q Consensus 118 alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~-k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG~ 196 (257)
|+|.|.++++. +.... ..+.+ .++ +...+.+++++ . ++++|+|.|||+||||+||+++||
T Consensus 75 a~V~G~~~~~~-~~~~~-------~~~~~---~~~~~~~~~~~~~~~------~--sll~v~l~tGR~HQIR~hla~lG~ 135 (167)
T cd02553 75 VTLAGPLTEDD-IEAFA-------EGVLL---HDGYPTKPAKLEILS------P--TTVRLTITEGKYHQVKRMFAAVGN 135 (167)
T ss_pred EEEccCCCHHH-HHHHH-------CCeEE---cCCCEeeeeEEEEeC------C--cEEEEEEEeCCCHHHHHHHHHcCC
Confidence 99999986421 11110 01111 223 22344555552 2 899999999999999999999999
Q ss_pred ceecCCCCCCC
Q psy8191 197 GIVGDNLYGKK 207 (257)
Q Consensus 197 PIvGD~~Yg~~ 207 (257)
||++|..++-+
T Consensus 136 pI~~~~R~~~g 146 (167)
T cd02553 136 KVVALHRIRIG 146 (167)
T ss_pred eEEEEEEEEEC
Confidence 99999877644
No 19
>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=99.97 E-value=2.3e-32 Score=224.77 Aligned_cols=153 Identities=16% Similarity=0.170 Sum_probs=106.9
Q ss_pred EEEEECCCCceeeeCCC-CCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEE
Q psy8191 38 IIILNKSAGLVVHPAIG-NLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKY 116 (257)
Q Consensus 38 ~ivvnKP~Gl~~~~~~~-~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y 116 (257)
++|+|||+|++||++++ ....++.+.+.. .++.+|||||++|||+||||+|.++++.|.+. ++.++|+|
T Consensus 1 ~lv~nKP~G~~~~~~~~~~~~~~l~~~l~~--------~~~~~v~RLD~~TsGlll~a~d~~~~~~l~~~--~~~v~K~Y 70 (168)
T cd02566 1 LILFNKPYGVLSQFTDESEKHKTLKDYIDD--------PGVYAAGRLDRDSEGLLLLTDDGRLQHRITDP--SFKHPKTY 70 (168)
T ss_pred CEEEECCCCCEEecCCCcCCCccHHHHcCc--------CCeEEccCCCCCCeEEEEEEeCHHHHHHHHCC--CCCCCEEE
Confidence 58999999999998765 445677665521 35678999999999999999999988888764 45699999
Q ss_pred EEEEeccCCCCcE--EEecee-eCCC-CCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHH
Q psy8191 117 LAMVWGIPKLNGM--INAAIM-RNPH-NRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQ 192 (257)
Q Consensus 117 ~alv~G~~~~~g~--i~~~l~-~~~~-~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla 192 (257)
+|+|.|.++++.. +...+. .+.. ........ ..+....|.|+++.... ..+.|+++|+|.|||+||||+||+
T Consensus 71 ~a~v~g~~~~~~~~~l~~g~~~~~~~~~~~~v~~~--~~~~~~~~~~~~~~~~~--~~~~sll~v~l~tGR~HQIR~~la 146 (168)
T cd02566 71 YVQVEGVPTEDALEQLRNGVELGDGLTLPAKVEKV--DEPPWLWEREPPIRFRK--NIPTSWIEITICEGKNRQVRRMTA 146 (168)
T ss_pred EEEECCcCCHHHHHHHhCCcEECCeEecceEEEEe--ccccccccccccccccc--CCCccEEEEEEecCccHHHHHHHH
Confidence 9999999864210 011111 1111 11111111 22334455666676431 146789999999999999999999
Q ss_pred HcCCceecCCCC
Q psy8191 193 WLGHGIVGDNLY 204 (257)
Q Consensus 193 ~lG~PIvGD~~Y 204 (257)
++||||+.....
T Consensus 147 ~lG~pV~~L~R~ 158 (168)
T cd02566 147 AVGFPTLRLIRV 158 (168)
T ss_pred HcCCeEeEEEEE
Confidence 999999876543
No 20
>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=99.96 E-value=8.6e-30 Score=210.81 Aligned_cols=140 Identities=22% Similarity=0.303 Sum_probs=100.6
Q ss_pred cEEEEECCCCceeeeCCC--------CCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHH
Q psy8191 37 EIIILNKSAGLVVHPAIG--------NLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLK 108 (257)
Q Consensus 37 ~~ivvnKP~Gl~~~~~~~--------~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~ 108 (257)
-++++|||+|++|+..+. ....+..+.+..++ .++.+|||||++||||||||+|.++++.|.++
T Consensus 5 ~y~llnKP~G~l~s~~d~~~~~g~~~~~~~~~~~~l~~~~------~~l~~VgRLD~dTsGLLl~t~d~~~~~~L~~~-- 76 (177)
T cd02555 5 VTLLLHKPAGMVSEQALALLGPGQRSAADRSGRRPLKGHF------ARLAPIGPLDKDASGLLVFSQDGRVLRKLIGD-- 76 (177)
T ss_pred EEEEEECCCceEecCCCcccccccccccccchhhhhhhcC------CceeEecCCCCCCeeEEEEECCHHHHHHHhCh--
Confidence 478999999999864431 11123333443222 35789999999999999999999999999986
Q ss_pred cCeEEEEEEEEEeccCCCCcE--EEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcch
Q psy8191 109 MHIVQRKYLAMVWGIPKLNGM--INAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQ 186 (257)
Q Consensus 109 ~~~v~K~Y~alv~G~~~~~g~--i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQ 186 (257)
.+.++|+|+|+|.|.+++++. ++.++. .+++. .+.+++. . .+.+++++.|.|||+||
T Consensus 77 ~~~i~K~Y~v~v~g~~~~~~l~~l~~g~~--------------~~~~~-~~~~~~~--~----~~~~~l~i~l~tGr~hQ 135 (177)
T cd02555 77 ASRLEQEYLVEVRGELTAGGLERLNHGLT--------------YDGRE-LPPAKVS--W----QNEQRLRFALKEPQPGQ 135 (177)
T ss_pred hcCCCEEEEEEEcccCCHHHHHHHhcCcc--------------cCCee-cceEEEE--E----cCCCEEEEEEECCcChH
Confidence 467999999999999876331 222111 11221 1222221 1 23479999999999999
Q ss_pred HHHHHHHcCCceecCCCCC
Q psy8191 187 IRVHMQWLGHGIVGDNLYG 205 (257)
Q Consensus 187 IR~hla~lG~PIvGD~~Yg 205 (257)
||+||+++||||+|+....
T Consensus 136 IR~~~~~~G~pV~~L~R~~ 154 (177)
T cd02555 136 IRRMCESVGLEVVALRRIR 154 (177)
T ss_pred HHHHHHHcCCeEEEEEEEE
Confidence 9999999999999997764
No 21
>PRK11394 23S rRNA pseudouridine synthase E; Provisional
Probab=99.96 E-value=2.7e-29 Score=212.94 Aligned_cols=158 Identities=17% Similarity=0.140 Sum_probs=108.4
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
..|+++|||+|++|+..+.....++.+.+. ..++++|||||++|||+||||+|.++++.|.+. ++.++|+
T Consensus 39 ~~ylllnKP~G~l~~~~d~~~~~tl~d~l~--------~~~~~~vgRLD~~TsGllLlt~d~~~~~~L~~~--~~~i~K~ 108 (217)
T PRK11394 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIP--------VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQP--GKRTGKI 108 (217)
T ss_pred CEEEEEECCCCCEEeeCCccCCcchHHhcc--------cCCeEEecCCCCCCeeEEEEECCHHHHHHHhCc--ccCCCEE
Confidence 369999999999999765555567776653 135789999999999999999999999999996 7789999
Q ss_pred EEEEEeccCCC-CcEE-Eecee-eCCC-CCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHH
Q psy8191 116 YLAMVWGIPKL-NGMI-NAAIM-RNPH-NRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHM 191 (257)
Q Consensus 116 Y~alv~G~~~~-~g~i-~~~l~-~~~~-~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hl 191 (257)
|+|+|.|.+.+ .... ...+. .+.. ......+.. ....-...+..+.... ..+.|++++.|.|||+||||+||
T Consensus 109 Y~~~v~g~~~~~~l~~l~~Gv~i~~~~~~p~~~~~i~--~~~~~~~~~~~~~~~~--~~~~s~l~I~L~eGR~hQIRrm~ 184 (217)
T PRK11394 109 YYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVD--EPAWLWPRNPPIRERK--SIPTSWLKITLYEGRNRQVRRMT 184 (217)
T ss_pred EEEEECCCCCHHHHHHHhCCeEECCccccccEEEEec--cccccccccccccccc--CCCceEEEEEEeCCCCHHHHHHH
Confidence 99999999864 1111 11110 0000 000010100 0000000111111110 13578999999999999999999
Q ss_pred HHcCCceecCCCCCCC
Q psy8191 192 QWLGHGIVGDNLYGKK 207 (257)
Q Consensus 192 a~lG~PIvGD~~Yg~~ 207 (257)
+++||||+||.+|+-+
T Consensus 185 a~lG~pVl~L~Ry~iG 200 (217)
T PRK11394 185 AHVGFPTLRLIRYAMG 200 (217)
T ss_pred HHcCCeEeeeEEEEEC
Confidence 9999999999999865
No 22
>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=99.95 E-value=9.8e-29 Score=194.45 Aligned_cols=111 Identities=19% Similarity=0.241 Sum_probs=91.0
Q ss_pred cCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEEEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeee
Q psy8191 80 VHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYY 159 (257)
Q Consensus 80 vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~ 159 (257)
|||||++|||+||||+|.++++.|.. .++.++|+|+|+|.|.++++. ++ ++. ....+ .+++.+.+.|
T Consensus 1 v~RLD~~TSGlll~akd~~~~~~L~~--~~~~i~K~Y~a~v~g~~~~~~-~~-~~~------~g~~~---~~~~~~~~~~ 67 (128)
T TIGR00093 1 AGRLDRDSEGLLLLTNDGELVHRLTH--PGHHCEKTYLVTVEGPVTDED-LE-ALR------KGVQL---EDGPTKPAKL 67 (128)
T ss_pred CCCCCCCCEEEEEEEeCHHHHHHHhC--CCCCCCeEEEEEECCCCCHHH-HH-HHh------CCeEE---CCcEEeeeEE
Confidence 79999999999999999999999987 578899999999999986522 11 111 11112 3456678899
Q ss_pred EeeeeccccCCcEEEEEEEeccCCcchHHHHHHHcCCceecCCCCCCC
Q psy8191 160 ERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHGIVGDNLYGKK 207 (257)
Q Consensus 160 ~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG~PIvGD~~Yg~~ 207 (257)
+++... .+.++++|+|.|||+||||+||+++||||+||..+.-+
T Consensus 68 ~~l~~~----~~~~~l~~~l~tGR~HQIR~~~~~lG~pI~g~~R~~~g 111 (128)
T TIGR00093 68 EVITEP----GFPTWLRITLSEGRNRQVRRMFAAVGFPVLRLHRVRIG 111 (128)
T ss_pred EEEccC----CCceEEEEEEeCCCCHHHHHHHHHcCCeEeEEEEEEEC
Confidence 999765 56789999999999999999999999999999887644
No 23
>PRK10700 23S rRNA pseudouridylate synthase B; Provisional
Probab=99.94 E-value=3.8e-26 Score=202.61 Aligned_cols=145 Identities=17% Similarity=0.194 Sum_probs=106.1
Q ss_pred ecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEE
Q psy8191 34 EDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQ 113 (257)
Q Consensus 34 ed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~ 113 (257)
||++|+++|||+|++|++.......|+.+.+.... ..++++|||||++||||||||+|.++++.|.. .++.++
T Consensus 65 e~~~ylvlnKP~G~~~s~~d~~~~~tv~d~l~~~~-----~~~~~~VgRLD~dTsGLLLlTndg~~~~~L~~--p~~~i~ 137 (289)
T PRK10700 65 QICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLR-----GARWIAVGRLDVNTCGLLLFTTDGELANRLMH--PSREVE 137 (289)
T ss_pred cCCeEEEEECCCCCEeecCCCCCCccHHHHhhhhc-----CCceeEccCCCCCCceEEEEEcCHHHHHHHhC--ccCCCC
Confidence 45679999999999999887665678888775421 13567999999999999999999999999976 578899
Q ss_pred EEEEEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHHH
Q psy8191 114 RKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQW 193 (257)
Q Consensus 114 K~Y~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~ 193 (257)
|+|+|+|.|.++++. +. .+. ..+.+ .++. +.+..+.... .....+++++.+.+||+||||.||++
T Consensus 138 K~Y~v~V~G~~~~~~-l~-~l~------~Gv~l---~~~~---~~~~~v~~~~-~~~~~s~l~v~L~EGk~hQIRrm~~~ 202 (289)
T PRK10700 138 REYAVRVFGQVDDAK-LR-QLS------RGVQL---EDGP---AAFKTIKFSG-GEGINQWYNVTLTEGRNREVRRLWEA 202 (289)
T ss_pred eEEEEEEccCCCHHH-HH-HHH------cCCEe---CCce---eeeEEEEecc-CCCCceEEEEEEeCCccHHHHHHHHH
Confidence 999999999886521 11 010 11111 1222 2233332210 01345889999999999999999999
Q ss_pred cCCceec
Q psy8191 194 LGHGIVG 200 (257)
Q Consensus 194 lG~PIvG 200 (257)
+|+|++.
T Consensus 203 lG~~V~~ 209 (289)
T PRK10700 203 VGVQVSR 209 (289)
T ss_pred cCCEEeE
Confidence 9999974
No 24
>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=99.92 E-value=1.6e-24 Score=176.96 Aligned_cols=135 Identities=20% Similarity=0.186 Sum_probs=97.9
Q ss_pred EEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEE
Q psy8191 38 IIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYL 117 (257)
Q Consensus 38 ~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~ 117 (257)
++++|||+|+.|+++.. ...++.+.+.. ..++++|||||++|||+||||+|.++++.|+.. .+.++|+|+
T Consensus 2 y~~lnKP~G~l~s~~~~-~~~tv~~~l~~-------~~~~~~vgRLD~~tsGlll~t~dg~~~~~L~~p--~~~~~K~Y~ 71 (164)
T cd02554 2 YIAYNKPVGIDCTLERA-DEDNIIDFVNP-------PPRIFPIGRLDKDSEGLILLTNDGDLVNKILHA--DNNHEKEYL 71 (164)
T ss_pred EEEEECCCCcEeecCCC-CCCcHHHHhcC-------cCCEEEccCCCCCCeeEEEEEcCHHHHHHHhhh--hcCCCeEEE
Confidence 68999999999997754 34677766532 146889999999999999999999999999765 456899999
Q ss_pred EEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHHHcCCc
Q psy8191 118 AMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLGHG 197 (257)
Q Consensus 118 alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG~P 197 (257)
|.|.|.+.++. +..-..+ ..+ .+ +.|....++.. .. +.++|.+.+||+||||.||+++|+|
T Consensus 72 V~v~~~l~~~~-----l~~l~~G---~~~---~~---~~~~~~~v~~~----~~-~~l~i~l~eGr~~qIRrm~~~~G~~ 132 (164)
T cd02554 72 VTVNKPITDEF-----IEGMSNG---VVI---LG---TVTKPCKVERL----AK-DKFRIVLTQGLNRQIRRMCEALGYR 132 (164)
T ss_pred EEECCCCCHHH-----HHHHhCC---CEE---CC---eEEcceEEEEC----CC-CEEEEEEECCcCHHHHHHHHHcCCE
Confidence 99999886521 1000000 111 11 22333333332 12 2499999999999999999999999
Q ss_pred eecC
Q psy8191 198 IVGD 201 (257)
Q Consensus 198 IvGD 201 (257)
|+-=
T Consensus 133 V~~L 136 (164)
T cd02554 133 VTDL 136 (164)
T ss_pred EEEE
Confidence 9753
No 25
>PRK10475 23S rRNA pseudouridine synthase F; Provisional
Probab=99.92 E-value=2.1e-24 Score=191.19 Aligned_cols=139 Identities=22% Similarity=0.204 Sum_probs=100.1
Q ss_pred EecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeE
Q psy8191 33 YEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIV 112 (257)
Q Consensus 33 yed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v 112 (257)
+||++++|+|||+|++|++... ...++.+.+..+ .++++|||||++||||||||+|.+++..|... .+.+
T Consensus 64 ~ed~~~lvlnKP~G~~~~~~~~-~~~tv~~~l~~~-------~~l~~VgRLDrdTsGLLLlT~dg~~~~~L~~p--~~~i 133 (290)
T PRK10475 64 AEDLVLIALNKPVGIVSTTEDG-ERDNIVDFVNHS-------KRVFPIGRLDKDSQGLIFLTNHGDLVNKILRA--GNDH 133 (290)
T ss_pred cCCCeEEEEECCCCCCcCCCCC-CCCcHHHHhhcc-------ccccccccCCCCCcceEEEecCHHHHHHhhCc--CCCC
Confidence 4788999999999999997655 456787777532 35778999999999999999999999999773 5579
Q ss_pred EEEEEEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHH
Q psy8191 113 QRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQ 192 (257)
Q Consensus 113 ~K~Y~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla 192 (257)
+|+|+|+|.|.+.++. +.. + ..+ +.+.+ ...+++. .+.+ +-+.+++.+.+||.||||.+|+
T Consensus 134 ~K~Y~v~V~g~~~~~~-l~~-l---~~G---v~l~~-~~~~~~~--v~~~--------~~~~~~i~l~eGk~rqIRrm~~ 194 (290)
T PRK10475 134 EKEYLVTVDKPITDEF-IRG-M---GAG---VPILG-TVTKKCK--VKKE--------APFVFRITLVQGLNRQIRRMCE 194 (290)
T ss_pred CeEEEEEECCCCCHHH-HHH-H---hCC---cEECC-EEecceE--EEec--------CCcEEEEEEECCcCHHHHHHHH
Confidence 9999999999886511 110 0 000 11100 0001111 1111 1246999999999999999999
Q ss_pred HcCCceec
Q psy8191 193 WLGHGIVG 200 (257)
Q Consensus 193 ~lG~PIvG 200 (257)
++|+|++-
T Consensus 195 ~~G~~V~~ 202 (290)
T PRK10475 195 HFGYEVTK 202 (290)
T ss_pred HcCCEEeE
Confidence 99999974
No 26
>COG1187 RsuA 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]
Probab=99.84 E-value=1.2e-20 Score=162.52 Aligned_cols=149 Identities=24% Similarity=0.259 Sum_probs=106.0
Q ss_pred cCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEE
Q psy8191 35 DNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQR 114 (257)
Q Consensus 35 d~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K 114 (257)
...|+++|||.|+.|+..+.....|+.+.+.... ....++++|.|||+||+|+|||+.|.+.+..|.. ....++|
T Consensus 62 ~~~y~llnKP~G~v~s~~D~~gr~tv~D~lp~~~---~~~~~~~pvGRLD~dTeGLLLLTnDG~la~rL~~--P~~~~~K 136 (248)
T COG1187 62 ERVYLLLNKPRGYVSSTEDDEGRPTVFDLLPERL---PRKKRLFPVGRLDKDTEGLLLLTNDGELAHRLMH--PSSEVEK 136 (248)
T ss_pred cceEEEEECCCCeEecccCCCCCceeeeeccccc---ccccceeeccccCCCCeeEEEEeCCHHHHHHhcC--CCCCCCE
Confidence 3449999999999998765666678777665321 1334688999999999999999999999999976 4778999
Q ss_pred EEEEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcceeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHHHc
Q psy8191 115 KYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKPALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWL 194 (257)
Q Consensus 115 ~Y~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~l 194 (257)
+|+|-|.|.+.++. +..- +..+.+ .+++...+....+.... ..+.|++++.+..||.||||.+++++
T Consensus 137 ~Y~v~v~g~~~~~~-----l~~l---~~Gv~l---~d~~~~~~~~~~l~~~~--~~~~s~~~itl~EGrnrQVRRm~~a~ 203 (248)
T COG1187 137 EYLVRVEGPVTEED-----LEKL---RKGVTL---DDGETKPAKPASLEKEP--GKNNSWLRITLTEGRNRQVRRMFEAV 203 (248)
T ss_pred EEEEEEecCCCHHH-----HHHH---hCCcEe---cCcccccceeEEEEecC--CCCceEEEEEEeCCcCHHHHHHHHHc
Confidence 99999999886511 0000 001111 23333233322222221 02679999999999999999999999
Q ss_pred CCceecC
Q psy8191 195 GHGIVGD 201 (257)
Q Consensus 195 G~PIvGD 201 (257)
|+|++.=
T Consensus 204 G~~V~~L 210 (248)
T COG1187 204 GLEVLRL 210 (248)
T ss_pred CCEEeEE
Confidence 9998754
No 27
>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=99.29 E-value=5.8e-12 Score=107.80 Aligned_cols=76 Identities=26% Similarity=0.277 Sum_probs=56.5
Q ss_pred cEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEE
Q psy8191 37 EIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKY 116 (257)
Q Consensus 37 ~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y 116 (257)
.++|||||+|+.++... +++...+...++. ....+.|||||++|||+|+||+++.+ ++.++|.++.+.|+|
T Consensus 1 GilvvnKP~Gi~s~~~~----~~~~~~l~~~~~~---~k~~~~vhrLD~~aSGvl~~a~~~~t--kl~~~~~~~~~~K~Y 71 (226)
T cd02868 1 GLFAVYKPPGVHWKHVR----DTIESNLLKYFPE---DKVLVGVHRLDAFSSGVLVLGVNHGN--KLLSHLYSNHPTRVY 71 (226)
T ss_pred CEEEEEcCCCCChhHHH----HHHHHHHHHHccc---cceeeEccccCCCCceEEEEEeChhH--hHHHHHHhcCCCeEE
Confidence 48999999999775432 3344434333321 12256789999999999999999987 699999999999999
Q ss_pred EEEEe
Q psy8191 117 LAMVW 121 (257)
Q Consensus 117 ~alv~ 121 (257)
+|...
T Consensus 72 ~~~~~ 76 (226)
T cd02868 72 TIRGL 76 (226)
T ss_pred EEEEE
Confidence 96443
No 28
>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=97.96 E-value=2.9e-05 Score=64.55 Aligned_cols=70 Identities=21% Similarity=0.319 Sum_probs=52.2
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.++ .+++.+...+. ..+.+-.+-||...||||+++-++. -++.+.+.+ -.|+
T Consensus 2 ~g~l~i~Kp~g~tS~--------~~v~~~k~~~~----~kkvGH~GTLDp~A~GvLiv~~g~~--Tk~~~~~~~--~~K~ 65 (182)
T cd02572 2 YGVINLDKPSGPSSH--------EVVAWIKRILG----VEKTGHSGTLDPKVTGCLPVCIDRA--TRLVKSQQE--AGKE 65 (182)
T ss_pred CeEEEEecCCCCCHH--------HHHHHHHHHhC----CCccCcCCCCCCcCeeEEEEEECHH--hhhhHHHhC--CCCE
Confidence 479999999999764 45666665442 2467779999999999999998873 344444444 3499
Q ss_pred EEEEEe
Q psy8191 116 YLAMVW 121 (257)
Q Consensus 116 Y~alv~ 121 (257)
|.|.+.
T Consensus 66 Y~a~v~ 71 (182)
T cd02572 66 YVCVMR 71 (182)
T ss_pred EEEEEE
Confidence 999776
No 29
>PRK04099 truB tRNA pseudouridine synthase B; Provisional
Probab=97.70 E-value=0.00012 Score=64.46 Aligned_cols=73 Identities=30% Similarity=0.523 Sum_probs=55.2
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.++++|||+|+.+| .+++.+...+. ..+.+-.+.||-..||||+++-.+.+ ++.+.+.+ -.|+
T Consensus 2 ngil~vdKP~g~tS~--------~vv~~ikk~~~----~kKvGH~GTLDP~AtGvLiv~iG~aT--Kl~~~l~~--~~K~ 65 (273)
T PRK04099 2 NRLFVANKPAGMSSN--------AFLSRLKRKYG----VKKAGFSGTLDPFAKGVLIVAFGQYT--KLFRFLKK--TPKT 65 (273)
T ss_pred CeEEEEeCCCCCCHH--------HHHHHHHHHhC----CCccccCccCCCCCeeEEEEEEChHh--hhHHHhcc--CCce
Confidence 479999999999775 46777776553 24677899999999999999998753 35555544 4899
Q ss_pred EEEEEe-ccC
Q psy8191 116 YLAMVW-GIP 124 (257)
Q Consensus 116 Y~alv~-G~~ 124 (257)
|.|.+. |.-
T Consensus 66 Y~a~~~lG~~ 75 (273)
T PRK04099 66 YRATLWLGAS 75 (273)
T ss_pred EEEEEEECCc
Confidence 999765 543
No 30
>PRK00989 truB tRNA pseudouridine synthase B; Provisional
Probab=97.68 E-value=8.9e-05 Score=63.58 Aligned_cols=73 Identities=23% Similarity=0.413 Sum_probs=54.7
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.+...+. ..+.+-.+.||...||||+++-.+ ++.+|.+.+.+ ..|+
T Consensus 9 ~G~l~i~KP~g~TS~--------dvv~~ikk~~~----~kKvGH~GTLDP~AtGvLiv~vG~-~aTkl~~~~~~--~~K~ 73 (230)
T PRK00989 9 EGILLVDKPQGRTSF--------SLIRSLTKLIG----VKKIGHAGTLDPFATGVMVMLIGR-KFTRLSDILLF--EDKE 73 (230)
T ss_pred CEEEEEeCCCCCCHH--------HHHHHHHHHhC----CCcCCcCccCCCCCeeEEEEEECC-chhhhHHHhcC--CCcE
Confidence 379999999999765 45667766543 346778999999999999999776 33455555544 7799
Q ss_pred EEEEEe-cc
Q psy8191 116 YLAMVW-GI 123 (257)
Q Consensus 116 Y~alv~-G~ 123 (257)
|.|.+. |.
T Consensus 74 Y~~~~~~G~ 82 (230)
T PRK00989 74 YAAVAHLGT 82 (230)
T ss_pred EEEEEEECC
Confidence 999876 44
No 31
>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=97.66 E-value=0.00015 Score=61.66 Aligned_cols=72 Identities=22% Similarity=0.374 Sum_probs=53.7
Q ss_pred cEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEE
Q psy8191 37 EIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKY 116 (257)
Q Consensus 37 ~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y 116 (257)
.++.||||.|+.++ .+++.++..+. ..+.+-.+.||-..||||+++-+.. -++...|.+ ..|+|
T Consensus 1 Gil~i~KP~g~tS~--------~vv~~ik~~~~----~kKvGH~GTLDP~AsGvLiv~vG~a--Tkl~~~~~~--~~K~Y 64 (210)
T cd00506 1 GLFAVDKPQGPSSH--------DVVDTIRRIFL----AEKVGHGGTLDPFATGVLVVGIGKA--TKLLKHLLA--ATKDY 64 (210)
T ss_pred CEEEEEcCCCCCHH--------HHHHHHHHHhC----ccccCCCCcCCCcCeeEEEEEECHH--HhhhHHHhc--CCceE
Confidence 47999999999764 45677765542 2467789999999999999999874 344444444 88999
Q ss_pred EEEEe-ccC
Q psy8191 117 LAMVW-GIP 124 (257)
Q Consensus 117 ~alv~-G~~ 124 (257)
.|.+. |.-
T Consensus 65 ~~~~~lG~~ 73 (210)
T cd00506 65 TAIGRLGQA 73 (210)
T ss_pred EEEEEECCc
Confidence 99776 543
No 32
>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=97.64 E-value=0.00015 Score=61.48 Aligned_cols=73 Identities=19% Similarity=0.376 Sum_probs=55.1
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.++ .+++.+...+. ..+.+-.+.||-..||||+++-+..+ ++.+.+. .-.|+
T Consensus 2 ~G~l~v~KP~g~tS~--------~vv~~vkk~~~----~kKvGH~GTLDP~AsGvLiv~vG~~T--kl~~~~~--~~~K~ 65 (209)
T TIGR00431 2 NGVLLLDKPQGMTSF--------DALAKVRRLLN----VKKVGHTGTLDPFATGVLPILVGKAT--KLSPYLT--DLDKE 65 (209)
T ss_pred CeEEEEECCCCCCHH--------HHHHHHHHHhC----CCcCCCCCCCCCcCceEEEEEEChHh--hhhHHHc--CCCCe
Confidence 379999999999764 46667766543 24567799999999999999999854 4555554 47899
Q ss_pred EEEEEe-ccC
Q psy8191 116 YLAMVW-GIP 124 (257)
Q Consensus 116 Y~alv~-G~~ 124 (257)
|.|.+. |.-
T Consensus 66 Y~~~~~~G~~ 75 (209)
T TIGR00431 66 YRAEIRLGVR 75 (209)
T ss_pred EEEEEEECCc
Confidence 999765 543
No 33
>PRK00020 truB tRNA pseudouridine synthase B; Provisional
Probab=97.56 E-value=0.00028 Score=61.03 Aligned_cols=73 Identities=19% Similarity=0.332 Sum_probs=53.5
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.+...+. ..+.+-.+-||...||||+++-.+. -++.+.+.+ ..|+
T Consensus 10 ~Gil~vdKP~G~TS~--------dvv~~vkr~~~----~kKvGH~GTLDP~AtGvLiv~iG~a--TKl~~~l~~--~~K~ 73 (244)
T PRK00020 10 DGVLLLDKPVGLSSN--------HALQRAKRTVD----AAKAGHTGTLDPFATGLLVCCMGRA--TKISGRMLE--ADKT 73 (244)
T ss_pred CeEEEEecCCCCCHH--------HHHHHHHHHhC----CCCCCcCCcCCCcCeeEEEEEECHH--hhhhHHhcc--CCcE
Confidence 479999999999775 45666765542 2467779999999999999998873 344444443 4599
Q ss_pred EEEEEe-ccC
Q psy8191 116 YLAMVW-GIP 124 (257)
Q Consensus 116 Y~alv~-G~~ 124 (257)
|.|.+. |.-
T Consensus 74 Y~a~~~lG~~ 83 (244)
T PRK00020 74 YQATLQFGEE 83 (244)
T ss_pred EEEEEEeCCc
Confidence 999765 443
No 34
>PRK02484 truB tRNA pseudouridine synthase B; Provisional
Probab=97.52 E-value=0.00031 Score=62.59 Aligned_cols=73 Identities=25% Similarity=0.340 Sum_probs=54.1
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.++++|||+|+.+| .+++.++..+. ..+.+-.+.||-..||||+++-.+.+ ++.+.+.+ -.|+
T Consensus 3 ~Gil~i~KP~G~TS~--------dvv~~vrr~l~----~kKvGH~GTLDP~AtGvL~i~vG~aT--kl~~~l~~--~~K~ 66 (294)
T PRK02484 3 NGIINLKKEAGMTSH--------DAVFKLRKILQ----TKKIGHGGTLDPDVVGVLPIAVGKAT--RLIEYMTE--AGKV 66 (294)
T ss_pred ceEEEEeCCCCCCHH--------HHHHHHHHHhC----CCccccCCCCCCCCeeEEEEEEChhh--hhhHHhcc--CCcE
Confidence 479999999999775 46667765543 24677899999999999999988743 35455444 4599
Q ss_pred EEEEEe-ccC
Q psy8191 116 YLAMVW-GIP 124 (257)
Q Consensus 116 Y~alv~-G~~ 124 (257)
|.|.+. |.-
T Consensus 67 Y~a~~~lG~~ 76 (294)
T PRK02484 67 YEGEITLGYS 76 (294)
T ss_pred EEEEEEECCc
Confidence 999776 543
No 35
>PRK03287 truB tRNA pseudouridine synthase B; Provisional
Probab=97.48 E-value=0.00033 Score=62.46 Aligned_cols=73 Identities=19% Similarity=0.444 Sum_probs=54.3
Q ss_pred cCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEE
Q psy8191 35 DNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQR 114 (257)
Q Consensus 35 d~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K 114 (257)
-+.+++||||.|+.+| .+++.+...+. ..+.+-.+-||-..||||+++-.+. -++.+.+.+ -.|
T Consensus 8 ~~Gil~i~KP~G~TS~--------dvv~~vrr~~~----~kKvGH~GTLDP~AtGvL~i~vG~a--TKl~~~l~~--~~K 71 (298)
T PRK03287 8 GSGLVVVDKPAGMTSH--------DVVARCRRLFG----TRKVGHAGTLDPMATGVLVLGVERA--TKLLGHLTL--TDK 71 (298)
T ss_pred cCeEEEEeCCCCCCHH--------HHHHHHHHHhC----CCCCCcCccCCCcceeEEEEEeChh--hhhhHHHhc--CCc
Confidence 3589999999999775 46677766543 2467779999999999999998863 344444444 489
Q ss_pred EEEEEEe-cc
Q psy8191 115 KYLAMVW-GI 123 (257)
Q Consensus 115 ~Y~alv~-G~ 123 (257)
+|.|.+. |.
T Consensus 72 ~Y~a~~~lG~ 81 (298)
T PRK03287 72 SYTATIRLGQ 81 (298)
T ss_pred EEEEEEEeCc
Confidence 9999775 54
No 36
>PRK14124 tRNA pseudouridine synthase B; Provisional
Probab=97.48 E-value=0.0004 Score=62.22 Aligned_cols=70 Identities=19% Similarity=0.321 Sum_probs=53.2
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||+|+.+| .+++.+...+. ..+.+-.+-||-..||||+++-++. -++.+.+.. -.|+
T Consensus 3 ~Gil~i~KP~G~TS~--------dvv~~vrr~l~----~kKvGH~GTLDP~AtGvL~v~vG~a--Tkl~~~l~~--~~K~ 66 (308)
T PRK14124 3 HGFLVAYKPKGPTSH--------DVVDEVRKKLK----TRKVGHAGTLDPFATGVLIVGVNKA--TRLLEYLKN--EKKV 66 (308)
T ss_pred ceEEEEECCCCCCHH--------HHHHHHHHHcC----CCccCcCcCCCCCCcEEEEEEEChH--HhhhHHHhc--CCce
Confidence 479999999999775 46677766543 2457779999999999999999874 334455554 3899
Q ss_pred EEEEEe
Q psy8191 116 YLAMVW 121 (257)
Q Consensus 116 Y~alv~ 121 (257)
|.|.+.
T Consensus 67 Y~a~~~ 72 (308)
T PRK14124 67 YYVKMR 72 (308)
T ss_pred EEEEEE
Confidence 999776
No 37
>PRK02755 truB tRNA pseudouridine synthase B; Provisional
Probab=97.47 E-value=0.00032 Score=62.50 Aligned_cols=72 Identities=24% Similarity=0.366 Sum_probs=54.5
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.++..+. ..+.+-.+-||-..||||+++-.+.+ ++.+.+. . .|+
T Consensus 3 ~Gil~i~KP~G~TS~--------dvv~~vrr~~~----~kKvGH~GTLDP~AtGvL~i~vG~aT--kl~~~l~--~-~K~ 65 (295)
T PRK02755 3 FGFLNLDKPAGLTSH--------DCVARLRRLLR----LKRVGHGGTLDPAATGVLPIALGKAT--RLLPYLP--G-EKT 65 (295)
T ss_pred ceEEEEeCCCCCCHH--------HHHHHHHHHhC----CCccccCCCCCCcCeeEEEEEEChhh--hhHHHhC--C-CcE
Confidence 479999999999775 46677765543 24677799999999999999998854 4555554 3 699
Q ss_pred EEEEEe-ccC
Q psy8191 116 YLAMVW-GIP 124 (257)
Q Consensus 116 Y~alv~-G~~ 124 (257)
|.|.+. |.-
T Consensus 66 Y~a~~~lG~~ 75 (295)
T PRK02755 66 YRGTIRFGVR 75 (295)
T ss_pred EEEEEEECCc
Confidence 999765 543
No 38
>PRK14123 tRNA pseudouridine synthase B; Provisional
Probab=97.47 E-value=0.00033 Score=62.71 Aligned_cols=73 Identities=23% Similarity=0.309 Sum_probs=55.1
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.++..+. ..+.+-.+.||-..||||+++-.+.+ ++.+.+.. ..|+
T Consensus 3 ~Gil~i~KP~G~TS~--------dvv~~vrr~~~----~kKvGH~GTLDP~AtGvL~v~vG~aT--kl~~~l~~--~~K~ 66 (305)
T PRK14123 3 NGILPVYKERGLTSH--------DVVFKLRKILK----TKKIGHTGTLDPEVAGVLPVCIGNAT--RVSDYVMD--MGKA 66 (305)
T ss_pred ceEEEEeCCCCCCHH--------HHHHHHHHHhC----CCccccCcCCCCcCeeEEEEEEChhh--hhHHHhcC--CCcE
Confidence 479999999999765 46667766542 24677899999999999999998754 45555544 6799
Q ss_pred EEEEEe-ccC
Q psy8191 116 YLAMVW-GIP 124 (257)
Q Consensus 116 Y~alv~-G~~ 124 (257)
|.|.+. |.-
T Consensus 67 Y~~~~~lG~~ 76 (305)
T PRK14123 67 YEATVSIGRS 76 (305)
T ss_pred EEEEEEECCc
Confidence 999775 543
No 39
>PRK00130 truB tRNA pseudouridine synthase B; Provisional
Probab=97.47 E-value=0.00039 Score=61.86 Aligned_cols=73 Identities=21% Similarity=0.328 Sum_probs=54.6
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.++..+. ..+.+-.+-||-..||||+++-.+. -++.+.+.+ -.|+
T Consensus 2 ~Gil~i~KP~G~tS~--------dvv~~vrr~~~----~kKvGH~GTLDP~AtGvL~v~vG~a--Tkl~~~l~~--~~K~ 65 (290)
T PRK00130 2 DGILNILKPPGMTSF--------DVVRKIRKIAK----IKKVGHTGTLDPLASGVLPVCLGKA--TKIVDYLME--GKKT 65 (290)
T ss_pred CeEEEEeCCCCCCHH--------HHHHHHHHHhC----CCccCcCCCCCCCCeeEEEEEEChh--hhhHHHhcc--CCcE
Confidence 479999999999765 45667765543 2467779999999999999999874 335555554 4899
Q ss_pred EEEEEe-ccC
Q psy8191 116 YLAMVW-GIP 124 (257)
Q Consensus 116 Y~alv~-G~~ 124 (257)
|.|.+. |.-
T Consensus 66 Y~a~~~lG~~ 75 (290)
T PRK00130 66 YRAEIKLGVE 75 (290)
T ss_pred EEEEEEECCc
Confidence 999776 543
No 40
>PRK05389 truB tRNA pseudouridine synthase B; Provisional
Probab=97.40 E-value=0.00047 Score=61.72 Aligned_cols=73 Identities=22% Similarity=0.273 Sum_probs=54.1
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.++..+. ..+.+-.+-||...||||+++-.+. -++.+.+.. -.|+
T Consensus 13 ~Gil~i~KP~G~TS~--------dvv~~vrk~~~----~kKvGH~GTLDP~AtGvL~v~vG~a--Tkl~~~l~~--~~K~ 76 (305)
T PRK05389 13 SGWLILDKPAGMTST--------EAVSKVKWLFD----AQKAGHAGTLDPLASGVLPIALGEA--TKTVPYVMD--GTKR 76 (305)
T ss_pred CeEEEEeCCCCCCHH--------HHHHHHHHHhc----ccccCCcccCCCCCceEEEEEEChh--hhhhHHhcc--CCcE
Confidence 489999999999775 46667765543 2356779999999999999998873 344444443 4899
Q ss_pred EEEEEe-ccC
Q psy8191 116 YLAMVW-GIP 124 (257)
Q Consensus 116 Y~alv~-G~~ 124 (257)
|.|.+. |.-
T Consensus 77 Y~a~~~lG~~ 86 (305)
T PRK05389 77 YRFTVAWGEE 86 (305)
T ss_pred EEEEEEECCc
Confidence 999775 544
No 41
>PRK05033 truB tRNA pseudouridine synthase B; Provisional
Probab=97.40 E-value=0.00052 Score=61.53 Aligned_cols=72 Identities=17% Similarity=0.361 Sum_probs=54.4
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.+...+. ..+.+-.+-||-..||||+++-.+.+ ++.+.+.+ -.|+
T Consensus 10 ~Gil~i~KP~G~TS~--------dvv~~vrr~l~----~kKvGH~GTLDP~AtGvL~v~vG~aT--kl~~~~~~--~~K~ 73 (312)
T PRK05033 10 NGVLLLDKPQGMSSN--------DALQKVKRLFN----ANKAGHTGALDPLATGMLPICLGEAT--KFSQYLLD--SDKR 73 (312)
T ss_pred CeEEEEeCCCCCCHH--------HHHHHHHHHhC----CCCCCCCCcCCCcCeeEEEEEECHHh--hhhHHhcC--CCcE
Confidence 589999999999775 35666665542 24577799999999999999998753 35555554 4899
Q ss_pred EEEEEe-cc
Q psy8191 116 YLAMVW-GI 123 (257)
Q Consensus 116 Y~alv~-G~ 123 (257)
|.|.+. |.
T Consensus 74 Y~a~~~lG~ 82 (312)
T PRK05033 74 YRVTARLGQ 82 (312)
T ss_pred EEEEEEECC
Confidence 999776 54
No 42
>PRK04270 H/ACA RNA-protein complex component Cbf5p; Reviewed
Probab=97.39 E-value=0.00051 Score=61.57 Aligned_cols=73 Identities=22% Similarity=0.297 Sum_probs=53.9
Q ss_pred EecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeE
Q psy8191 33 YEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIV 112 (257)
Q Consensus 33 yed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v 112 (257)
|-.+.++++|||.|+.+| .+++.++..+. ..+.+-.+-||...||+|+++-++. -++.+.+.+ -
T Consensus 19 ~~~~g~l~i~Kp~g~tS~--------~~v~~~r~~~~----~kkvGH~GTLDp~A~GvL~v~~g~a--tk~~~~~~~--~ 82 (300)
T PRK04270 19 LIKFGVVNLDKPPGPTSH--------EVAAWVRDILG----VEKAGHGGTLDPKVTGVLPVALGKA--TKVVQALLE--S 82 (300)
T ss_pred hcCCCEEEEECCCCCCHH--------HHHHHHHHHhc----cccccCCCCCCCcCeEEEEEEEChH--hhhhHHhcc--C
Confidence 345689999999999775 45666765542 2356779999999999999998874 344455444 4
Q ss_pred EEEEEEEEe
Q psy8191 113 QRKYLAMVW 121 (257)
Q Consensus 113 ~K~Y~alv~ 121 (257)
.|+|.|.+.
T Consensus 83 ~K~Y~~~~~ 91 (300)
T PRK04270 83 GKEYVCVMH 91 (300)
T ss_pred CcEEEEEEE
Confidence 599998765
No 43
>PRK02193 truB tRNA pseudouridine synthase B; Provisional
Probab=97.37 E-value=0.0005 Score=60.73 Aligned_cols=70 Identities=26% Similarity=0.431 Sum_probs=52.0
Q ss_pred EEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEE
Q psy8191 38 IIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYL 117 (257)
Q Consensus 38 ~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~ 117 (257)
++++|||.|+.+| .+++.+...+. ..+.+-.+.||-..||||+++-.+. -++.+.+. ...|+|.
T Consensus 2 il~i~KP~G~tS~--------dvv~~vrr~~~----~kKvGH~GTLDP~AtGvL~v~vG~a--Tkl~~~l~--~~~K~Y~ 65 (279)
T PRK02193 2 IKLLYKPKGISSF--------KFIKNFAKTNN----IKKIGHTGTLDPLASGLLLVATDED--TKLIDYLD--QKDKTYI 65 (279)
T ss_pred EEEEECCCCCCHH--------HHHHHHHHHcC----CCccccCccCCCcCeeEEEEEEChh--hhhhHHhc--cCCcEEE
Confidence 7899999999775 35666665442 2467789999999999999998874 33445543 3679999
Q ss_pred EEEe-cc
Q psy8191 118 AMVW-GI 123 (257)
Q Consensus 118 alv~-G~ 123 (257)
|.+. |.
T Consensus 66 a~~~lG~ 72 (279)
T PRK02193 66 AKIKFGF 72 (279)
T ss_pred EEEEeCC
Confidence 9776 53
No 44
>PRK14846 truB tRNA pseudouridine synthase B; Provisional
Probab=97.36 E-value=0.00057 Score=61.67 Aligned_cols=72 Identities=21% Similarity=0.293 Sum_probs=53.2
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.++..+. ..+.+-.+.||...||||+++-.+. -++.+.+.+ ..|+
T Consensus 3 nGiL~idKP~G~TS~--------dvv~~vrk~l~----~kKVGH~GTLDP~AtGVL~i~vG~a--TKl~~~l~~--~~K~ 66 (345)
T PRK14846 3 NYWLNIYKPRGISSA--------QLVSIVKKILG----KTKIGHAGTLDVEAEGILPFAVGEA--TKLIHLLID--ARKT 66 (345)
T ss_pred CeEEEEeCCCCCCHH--------HHHHHHHHHhC----CCcCCcCccCCCcCceEEEEEEChh--hhhhHHHhc--CCce
Confidence 579999999999765 45667765542 2467789999999999999998874 334444433 6788
Q ss_pred EEEEEe-cc
Q psy8191 116 YLAMVW-GI 123 (257)
Q Consensus 116 Y~alv~-G~ 123 (257)
|.|.+. |.
T Consensus 67 Y~a~~~lG~ 75 (345)
T PRK14846 67 YIFTVKFGM 75 (345)
T ss_pred EEEEEEECC
Confidence 999775 53
No 45
>PRK01851 truB tRNA pseudouridine synthase B; Provisional
Probab=97.33 E-value=0.00078 Score=60.18 Aligned_cols=72 Identities=19% Similarity=0.356 Sum_probs=53.7
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.+...+. ..+.+-..-||-..||||+++-.+.+ ++.+.+.+ -.|+
T Consensus 16 ~Gil~i~KP~G~TS~--------dvv~~vrr~l~----~kKvGH~GTLDP~AtGvL~v~vG~aT--kl~~~l~~--~~K~ 79 (303)
T PRK01851 16 DGVLLLDKPLGLSSN--------DALQRAKRLLR----AKKAGHTGTLDPLATGLLPLCFGEAT--KFSQDLLD--ADKT 79 (303)
T ss_pred CeEEEEeCCCCCCHH--------HHHHHHHHHhC----cccCCCCCCCCCCCceEEEEEECHHH--hhhHHhcc--cCeE
Confidence 489999999999775 46677766543 23566789999999999999998743 35555544 4599
Q ss_pred EEEEEe-cc
Q psy8191 116 YLAMVW-GI 123 (257)
Q Consensus 116 Y~alv~-G~ 123 (257)
|.|.+. |.
T Consensus 80 Y~~~~~lG~ 88 (303)
T PRK01851 80 YEATLRLGV 88 (303)
T ss_pred EEEEEEECC
Confidence 999776 54
No 46
>PRK01550 truB tRNA pseudouridine synthase B; Provisional
Probab=97.33 E-value=0.0007 Score=60.61 Aligned_cols=73 Identities=22% Similarity=0.348 Sum_probs=54.3
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.++..+. ..+.+-..-||-..||||+++-.+.+ ++.+.+.+ -.|+
T Consensus 2 ~Gil~i~KP~G~TS~--------dvv~~vrr~~~----~kKvGH~GTLDP~AtGvL~i~vG~aT--kl~~~l~~--~~K~ 65 (304)
T PRK01550 2 NGVLLLHKPRGMTSH--------DCVFKLRKILR----TKKVGHTGTLDPEVSGVLPICVGRAT--KIAEYLTD--EGKT 65 (304)
T ss_pred CeEEEEECCCCCCHH--------HHHHHHHHHcC----CCCcccCCCCCCcCeeEEEEEEChhh--hhhHHhcC--CCcE
Confidence 479999999999775 45667766543 23567789999999999999988743 35555544 4899
Q ss_pred EEEEEe-ccC
Q psy8191 116 YLAMVW-GIP 124 (257)
Q Consensus 116 Y~alv~-G~~ 124 (257)
|.|.+. |.-
T Consensus 66 Y~a~~~lG~~ 75 (304)
T PRK01550 66 YEGEVTLGFS 75 (304)
T ss_pred EEEEEEECCc
Confidence 999776 543
No 47
>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=97.31 E-value=0.00067 Score=60.02 Aligned_cols=72 Identities=25% Similarity=0.382 Sum_probs=54.1
Q ss_pred cEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEE
Q psy8191 37 EIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKY 116 (257)
Q Consensus 37 ~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y 116 (257)
.++++|||.|+.+| .+++.++..+. ..+.+-.+-||-..||||+++-+.. -+|.+.+.+ ..|+|
T Consensus 1 Gil~i~KP~G~tS~--------~vv~~vr~~~~----~kKvGH~GTLDP~AtGvL~v~vG~a--Tkl~~~l~~--~~K~Y 64 (277)
T cd02573 1 GILLLDKPAGLTSH--------DVVQKVRRLLG----TKKVGHTGTLDPLATGVLPIALGEA--TKLSQYLLD--ADKTY 64 (277)
T ss_pred CEEEEECCCCCCHH--------HHHHHHHHHhC----cCccCCCCCCCCcCeEEEEEEEChH--HhhHHHhcC--CCcEE
Confidence 47999999999775 45677766543 2357779999999999999999875 335555554 58999
Q ss_pred EEEEe-ccC
Q psy8191 117 LAMVW-GIP 124 (257)
Q Consensus 117 ~alv~-G~~ 124 (257)
.|.+. |.-
T Consensus 65 ~~~~~~G~~ 73 (277)
T cd02573 65 RATVRLGEA 73 (277)
T ss_pred EEEEEECCc
Confidence 99876 543
No 48
>PRK01528 truB tRNA pseudouridine synthase B; Provisional
Probab=97.29 E-value=0.00078 Score=59.94 Aligned_cols=73 Identities=22% Similarity=0.261 Sum_probs=53.6
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.+...+. ..+.+-.+-||-..||||+++-.+. -++.+.+.+ -.|+
T Consensus 3 ~GiL~i~KP~G~TS~--------dvv~~vrk~~~----~kKvGH~GTLDP~AtGvL~v~vG~a--TKl~~~l~~--~~K~ 66 (292)
T PRK01528 3 NYWLNIYKPRGISSA--------KLVSIVKKILG----KVKIGHAGTLDVEAEGVLPLAVGEA--TKLVQLLID--AKKT 66 (292)
T ss_pred CEEEEEeCCCCCCHH--------HHHHHHHHHcC----CCccCcCccCCCcCceEEEEEEChH--hhhhHHHhc--CCce
Confidence 589999999999765 45667766553 2467779999999999999998874 334444433 5689
Q ss_pred EEEEEe-ccC
Q psy8191 116 YLAMVW-GIP 124 (257)
Q Consensus 116 Y~alv~-G~~ 124 (257)
|.|.+. |.-
T Consensus 67 Y~~~~~lG~~ 76 (292)
T PRK01528 67 YIFTVKFGKQ 76 (292)
T ss_pred EEEEEEECCc
Confidence 999765 543
No 49
>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=97.28 E-value=0.0013 Score=47.79 Aligned_cols=64 Identities=17% Similarity=0.183 Sum_probs=45.4
Q ss_pred CcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEEEEEeccCCCCcEEEeceeeCCCCCeeEEEecCCCCcc
Q psy8191 75 PRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVWGIPKLNGMINAAIMRNPHNRIKMTVSKNFNAKP 154 (257)
Q Consensus 75 ~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~alv~G~~~~~g~i~~~l~~~~~~~~~~~v~~~~~~k~ 154 (257)
.+++.++++|+.++|+++++ +.|...+. +
T Consensus 24 ~~i~~aG~kDk~a~t~q~v~-------------------n~f~i~~r--~------------------------------ 52 (87)
T cd01291 24 KRVGYAGRKDKRAVTTQLVS-------------------NRFTITLR--V------------------------------ 52 (87)
T ss_pred heEEECccCCCCeeEEEEEc-------------------ccEEEEEE--E------------------------------
Confidence 46788999999999999999 78888777 0
Q ss_pred eeeeeEeeeeccccCCcEEEEEEEeccCCcchHHHHHHHcC
Q psy8191 155 ALTYYERLATGIINKKHISLIRCNLKTGRTHQIRVHMQWLG 195 (257)
Q Consensus 155 a~t~~~vl~~~~~~~~~~slv~~~~~TGRtHQIR~hla~lG 195 (257)
...+...... ......+++.+ |+.||+|.+++.+|
T Consensus 53 --~~~~~~~~~~--~~~~~~l~f~l--~~~~yat~~l~el~ 87 (87)
T cd01291 53 --KPLNLKWPEE--RKRALVLEFTL--PRGSYATMLLRELG 87 (87)
T ss_pred --ecceeEEccc--ccceEEEEEEc--CCcchHHHHHHHhC
Confidence 0111111110 01356788888 99999999999875
No 50
>PRK14122 tRNA pseudouridine synthase B; Provisional
Probab=97.09 E-value=0.0014 Score=58.71 Aligned_cols=72 Identities=25% Similarity=0.367 Sum_probs=53.4
Q ss_pred cEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEE
Q psy8191 37 EIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKY 116 (257)
Q Consensus 37 ~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y 116 (257)
-+++||||.|+.+| .+++.++..+. ..+.+-..-||-..||||+++-.+.+. |.+.+. ...|+|
T Consensus 2 ~il~idKP~G~TS~--------dvv~~vrr~l~----~kKvGH~GTLDP~AtGvL~i~iG~aTK--l~~~l~--~~~K~Y 65 (312)
T PRK14122 2 PVYAVDKPLGLTSH--------DVVNRARRALG----TRRVGHTGTLDPLATGVLVLCTDDSTK--LVPFLS--AEDKEY 65 (312)
T ss_pred cEEEEECCCCCCHH--------HHHHHHHHHhC----CCCCCCCCCCCCcCeeeEEEEEChhhh--hhHHhc--CCCceE
Confidence 37999999999765 45667765542 245677899999999999999987543 555553 478999
Q ss_pred EEEEe-ccC
Q psy8191 117 LAMVW-GIP 124 (257)
Q Consensus 117 ~alv~-G~~ 124 (257)
.|.+. |.-
T Consensus 66 ~a~~~lG~~ 74 (312)
T PRK14122 66 LAWVSFGAT 74 (312)
T ss_pred EEEEEECCc
Confidence 99775 443
No 51
>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=97.00 E-value=0.0017 Score=58.71 Aligned_cols=71 Identities=21% Similarity=0.346 Sum_probs=53.0
Q ss_pred cCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEE
Q psy8191 35 DNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQR 114 (257)
Q Consensus 35 d~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K 114 (257)
.+.+++||||.|+.+| .+++.++..+. ..+.+-..-||-..||||+++-.+. -++.+.+. .-.|
T Consensus 33 ~~G~l~i~KP~g~tS~--------~~v~~vr~~~~----~kkvGH~GTLDP~A~GvL~v~~G~a--Tkl~~~~~--~~~K 96 (322)
T TIGR00425 33 SYGVVNLDKPSGPSSH--------EVVAWVRRILN----VEKTGHGGTLDPKVTGVLPVCIERA--TRLVKSLQ--EAPK 96 (322)
T ss_pred CCCEEEEeCCCCCCHH--------HHHHHHHHHhc----ccccCCCCCCCCCCceEEEEEEChH--hhccHHhc--cCCC
Confidence 3589999999999775 45667766543 2356678999999999999998874 34444444 3689
Q ss_pred EEEEEEe
Q psy8191 115 KYLAMVW 121 (257)
Q Consensus 115 ~Y~alv~ 121 (257)
+|.|.+.
T Consensus 97 ~Y~~~v~ 103 (322)
T TIGR00425 97 EYVCLMR 103 (322)
T ss_pred EEEEEEE
Confidence 9998775
No 52
>PRK04642 truB tRNA pseudouridine synthase B; Provisional
Probab=96.97 E-value=0.0022 Score=57.26 Aligned_cols=70 Identities=20% Similarity=0.292 Sum_probs=52.7
Q ss_pred CcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEE
Q psy8191 36 NEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRK 115 (257)
Q Consensus 36 ~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~ 115 (257)
+.+++||||.|+.+| .+++.++..+. ..+.+-..-||-..||||+++-.+. -++.+.+.. -.|+
T Consensus 10 ~Gil~i~KP~G~TS~--------dvv~~vrr~~~----~kKvGH~GTLDP~AtGvL~v~~G~a--Tkl~~~l~~--~~K~ 73 (300)
T PRK04642 10 DGILLLDKPAGLSSN--------NALQAARRLLR----AEKGGHTGSLDPLATGLLPLCFGEA--TKIAGLLLG--SAKA 73 (300)
T ss_pred CeEEEEecCCCCCHH--------HHHHHHHHHhC----CCcccCCCccCCcCeeeEEEEEChh--hhhhHHhcC--CCcE
Confidence 489999999999775 46677766543 2356678999999999999998874 344444443 6799
Q ss_pred EEEEEe
Q psy8191 116 YLAMVW 121 (257)
Q Consensus 116 Y~alv~ 121 (257)
|.|.+.
T Consensus 74 Y~a~~~ 79 (300)
T PRK04642 74 YDAEIV 79 (300)
T ss_pred EEEEEE
Confidence 999775
No 53
>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=0.0025 Score=57.21 Aligned_cols=75 Identities=19% Similarity=0.262 Sum_probs=52.5
Q ss_pred cEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcC-------------------------CCCCcccccCCCCCCCceEE
Q psy8191 37 EIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFL-------------------------INVPRAGIVHRLDKNSSGLM 91 (257)
Q Consensus 37 ~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~-------------------------~~~~~~~~vhRLD~~TSGll 91 (257)
.+++||||.|+.++ .+++.+...+... ....+.+-.+-||-..||||
T Consensus 1 Gil~i~KP~G~TS~--------~vv~~lk~~l~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KiGH~GTLDPlAsGVL 72 (312)
T cd02867 1 GVFAINKPSGITSA--------QVLNDLKPLFLNSALFKDKIQRAVAKRGKKARRRKGRKRSKLKIGHGGTLDPLATGVL 72 (312)
T ss_pred CeEEEeCCCCCCHH--------HHHHHHHHHhcccccccchhhhhhhhhhhhhhhhccccccccccccccccCCccceeE
Confidence 47999999999765 3566666544320 01146777899999999999
Q ss_pred EEecCHHHHHHHHHHHHcCeEEEEEEEEEe-cc
Q psy8191 92 VVAKSIKSYIHLVNQLKMHIVQRKYLAMVW-GI 123 (257)
Q Consensus 92 l~Ak~~~~~~~l~~~f~~~~v~K~Y~alv~-G~ 123 (257)
+++-... .+.++.. .. ..|+|.|... |.
T Consensus 73 vvgvG~a-TK~l~~~-l~--~~K~Y~~~~~lG~ 101 (312)
T cd02867 73 VVGVGAG-TKQLQDY-LS--CSKTYEATGLFGA 101 (312)
T ss_pred EEEECcH-HHHHHHH-hc--CCceEEEEEEeCC
Confidence 9998864 4444443 33 7899999765 43
No 54
>COG0130 TruB Pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=96.70 E-value=0.0046 Score=54.51 Aligned_cols=69 Identities=23% Similarity=0.296 Sum_probs=51.5
Q ss_pred cEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEE
Q psy8191 37 EIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKY 116 (257)
Q Consensus 37 ~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y 116 (257)
.++++|||.|+.+| .++..+...+. ..+.+-..-||-..||+|++|-. ++.+.++ .+. .-.|+|
T Consensus 16 Gil~ldKP~G~tS~--------~~v~~vkkil~----~~K~GH~GTLDP~atGvLpi~ig-~aTKl~~-~l~--~~~K~Y 79 (271)
T COG0130 16 GVINLDKPPGPTSH--------EVVAWVKRILG----VEKAGHGGTLDPLATGVLPICLG-EATKLVQ-YLL--DADKEY 79 (271)
T ss_pred ceEEeeCCCCCCHH--------HHHHHHHHHhC----ccccccccccCCcccceEEEEec-hhHhHHH-HHh--hCCcEE
Confidence 89999999999775 45666666553 34566689999999999999988 4444443 333 267999
Q ss_pred EEEEe
Q psy8191 117 LAMVW 121 (257)
Q Consensus 117 ~alv~ 121 (257)
.|.+.
T Consensus 80 ~a~~~ 84 (271)
T COG0130 80 VATVR 84 (271)
T ss_pred EEEEE
Confidence 99886
No 55
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=92.43 E-value=0.17 Score=33.65 Aligned_cols=13 Identities=46% Similarity=1.132 Sum_probs=12.4
Q ss_pred cEEEecCcEEEEE
Q psy8191 30 DIIYEDNEIIILN 42 (257)
Q Consensus 30 ~ilyed~~~ivvn 42 (257)
+|+|||++++|+|
T Consensus 58 ~i~~ed~~~lvv~ 70 (70)
T cd00165 58 DIVYEDKKLLVVN 70 (70)
T ss_pred ceeeccCCEEEeC
Confidence 9999999999997
No 56
>KOG2559|consensus
Probab=92.28 E-value=0.16 Score=43.86 Aligned_cols=22 Identities=23% Similarity=0.365 Sum_probs=19.1
Q ss_pred cccccCCCCCCCceEEEEecCH
Q psy8191 76 RAGIVHRLDKNSSGLMVVAKSI 97 (257)
Q Consensus 76 ~~~~vhRLD~~TSGlll~Ak~~ 97 (257)
...++||||-.|||+++|.-+.
T Consensus 90 ~V~v~h~l~~~~sgvl~~gVgh 111 (318)
T KOG2559|consen 90 DVQVVHVLPLATSGVLLFGVGH 111 (318)
T ss_pred ceeeEEeecccccceEEEecCc
Confidence 4678999999999999998664
No 57
>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=85.16 E-value=1.2 Score=35.86 Aligned_cols=43 Identities=26% Similarity=0.403 Sum_probs=31.2
Q ss_pred CcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeEEEEEEEEEe
Q psy8191 75 PRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIVQRKYLAMVW 121 (257)
Q Consensus 75 ~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~alv~ 121 (257)
.+.+-.+.||-..||||+++-++.+ ++.+.+.+ ..|+|.|...
T Consensus 7 ~KvGH~GTLDP~AsGvL~v~vg~~T--kl~~~l~~--~~K~Y~~~~~ 49 (149)
T PF01509_consen 7 KKVGHGGTLDPFASGVLVVGVGKAT--KLLSYLQN--SDKEYVATIR 49 (149)
T ss_dssp SSEEESS-SSTT-EEEEEEEEGGGG--GGHHHHTT--SEEEEEEEEE
T ss_pred ceeccccccCCcceEEEEEEECCcc--hHHHHhhc--cCCEEEEEEE
Confidence 4677789999999999999987743 35556655 4499999765
No 58
>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=56.70 E-value=4.5 Score=27.15 Aligned_cols=18 Identities=33% Similarity=0.517 Sum_probs=12.9
Q ss_pred EecCcEEEEECCCCceee
Q psy8191 33 YEDNEIIILNKSAGLVVH 50 (257)
Q Consensus 33 yed~~~ivvnKP~Gl~~~ 50 (257)
|-+..+|.+|||+|-.+|
T Consensus 39 ~i~~GvinlDKP~gPtSH 56 (59)
T PF08068_consen 39 YIKYGVINLDKPSGPTSH 56 (59)
T ss_dssp HHHTEEEEEEE-SSS-HH
T ss_pred HHhCCcEEeeCCCCCCcc
Confidence 445789999999998765
No 59
>KOG2529|consensus
Probab=51.67 E-value=17 Score=33.85 Aligned_cols=77 Identities=17% Similarity=0.289 Sum_probs=50.8
Q ss_pred EecCcEEEEECCCCceeeeCCCCCcccHHHHHHhhcCcCCCCCcccccCCCCCCCceEEEEecCHHHHHHHHHHHHcCeE
Q psy8191 33 YEDNEIIILNKSAGLVVHPAIGNLSGTLFDNLLEIYPFLINVPRAGIVHRLDKNSSGLMVVAKSIKSYIHLVNQLKMHIV 112 (257)
Q Consensus 33 yed~~~ivvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v 112 (257)
|---.+++++||++ |... .+.+++.+.++. ...+-..-||-+.||+++.+-+.....-.+. ...
T Consensus 65 ~~~sgv~~i~kpa~----pss~----e~~swvk~iL~~----ek~Gh~gTlDP~vtg~l~v~~~~~tr~~~s~----~s~ 128 (395)
T KOG2529|consen 65 YSRSGVINIDKPAN----PSSH----EVVSWVKNILRV----EKTGHSGTLDPEVTGCLIVCIDRATRLLKSQ----QSA 128 (395)
T ss_pred HhhcCceeccCCCC----CchH----HHHHHHHHHhhH----HHhCCCCCCCccccceEEEEeecccccccch----hcc
Confidence 44557888888884 3222 344555544421 2344578899999999999988765444433 357
Q ss_pred EEEEEEEEeccCC
Q psy8191 113 QRKYLAMVWGIPK 125 (257)
Q Consensus 113 ~K~Y~alv~G~~~ 125 (257)
.|+|.+++...++
T Consensus 129 gk~yvg~~~lt~~ 141 (395)
T KOG2529|consen 129 GKEYVGIGKLTPE 141 (395)
T ss_pred CcEEEEEEecCcc
Confidence 8999999988764
No 60
>PF13021 DUF3885: Domain of unknown function (DUF3885)
Probab=46.33 E-value=32 Score=20.95 Aligned_cols=24 Identities=17% Similarity=0.182 Sum_probs=20.7
Q ss_pred CCceEEEEecCHHHHHHHHHHHHc
Q psy8191 86 NSSGLMVVAKSIKSYIHLVNQLKM 109 (257)
Q Consensus 86 ~TSGlll~Ak~~~~~~~l~~~f~~ 109 (257)
+-.||-|+|.|++..+.|-+.|.+
T Consensus 5 DDRGcdvia~~~~~i~~ly~~y~~ 28 (38)
T PF13021_consen 5 DDRGCDVIANNKERIRPLYEKYND 28 (38)
T ss_pred cCCCcEEeeCCHHHHHHHHHHHHH
Confidence 567999999999999999888764
No 61
>PF11969 DcpS_C: Scavenger mRNA decapping enzyme C-term binding; PDB: 1VLR_B 1XMM_D 1XML_B 1ST0_A 3BLA_B 3BL9_B 3BL7_B 1ST4_B 1XQU_B.
Probab=35.53 E-value=25 Score=26.64 Aligned_cols=19 Identities=16% Similarity=0.499 Sum_probs=15.1
Q ss_pred CCccEEEecCcEEEEE--CCC
Q psy8191 27 IKLDIIYEDNEIIILN--KSA 45 (257)
Q Consensus 27 ~~~~ilyed~~~ivvn--KP~ 45 (257)
.+-+|+|||++++|++ +|.
T Consensus 12 ~~~~vly~d~~~v~~~D~~P~ 32 (116)
T PF11969_consen 12 EPERVLYEDDDFVVFKDIYPK 32 (116)
T ss_dssp SGGGESEEETSEEEEE-TT-S
T ss_pred CCCcEEEEeCCEEEeeCCCCC
Confidence 3668999999999998 555
No 62
>PF11623 DUF3252: Protein of unknown function (DUF3252); InterPro: IPR021659 This family of proteins has no known function. Some members are annotated as Ssl0352 however this cannot be confirmed. Currently there is no known function. ; PDB: 3C4S_B 2JZ2_A.
Probab=27.17 E-value=63 Score=21.06 Aligned_cols=38 Identities=16% Similarity=0.273 Sum_probs=20.7
Q ss_pred CcccCCEEEEEcCCCccccCcCcC---CCCCccEEEecCcE
Q psy8191 1 MIISGYELIIIKPKKNFFLNKTEK---KVIKLDIIYEDNEI 38 (257)
Q Consensus 1 ~~~~g~~~~~~~~~~~~~~~~~~~---~~~~~~ilyed~~~ 38 (257)
||.+|..|++.-|+..++.-.=.. .+-..-||||..++
T Consensus 1 ~ilPG~~V~V~n~~~~Y~~y~G~VQRvsdgkaaVLFEGGnW 41 (53)
T PF11623_consen 1 MILPGSTVRVKNPNDIYYGYEGFVQRVSDGKAAVLFEGGNW 41 (53)
T ss_dssp ---TT-EEEE--TTSTTTT-EEEEEEEETTEEEEEEEETTE
T ss_pred CccCCCEEEEeCCCCccchheEEEEEeeCCeEEEEecCCCc
Confidence 789999999999988865422111 23346788888764
No 63
>KOG3275|consensus
Probab=25.60 E-value=61 Score=24.99 Aligned_cols=22 Identities=32% Similarity=0.526 Sum_probs=17.5
Q ss_pred cCcCCCCCccEEEecCcEEEEE
Q psy8191 21 KTEKKVIKLDIIYEDNEIIILN 42 (257)
Q Consensus 21 ~~~~~~~~~~ilyed~~~ivvn 42 (257)
.+...++|-.|||||+..+++-
T Consensus 22 kIi~keIPa~ii~Edd~~lAF~ 43 (127)
T KOG3275|consen 22 KIIRKEIPAKIIFEDDRCLAFH 43 (127)
T ss_pred eeecccCCcceEeeccceEEEE
Confidence 3555678889999999888764
No 64
>cd01276 PKCI_related Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a hydrophobic residue) that is a signature for this family. No enzymatic activity has been reported however, for PKCI and its related members.
Probab=22.72 E-value=91 Score=22.52 Aligned_cols=16 Identities=31% Similarity=0.642 Sum_probs=12.9
Q ss_pred CCCccEEEecCcEEEE
Q psy8191 26 VIKLDIIYEDNEIIIL 41 (257)
Q Consensus 26 ~~~~~ilyed~~~ivv 41 (257)
..+-+|||||++++++
T Consensus 11 e~~~~iv~e~~~~~a~ 26 (104)
T cd01276 11 EIPAKKVYEDDEVLAF 26 (104)
T ss_pred CCccCEEEECCCEEEE
Confidence 3456899999998877
No 65
>PRK10687 purine nucleoside phosphoramidase; Provisional
Probab=22.63 E-value=82 Score=24.00 Aligned_cols=20 Identities=25% Similarity=0.489 Sum_probs=15.6
Q ss_pred CcCCCCCccEEEecCcEEEE
Q psy8191 22 TEKKVIKLDIIYEDNEIIIL 41 (257)
Q Consensus 22 ~~~~~~~~~ilyed~~~ivv 41 (257)
+.....+-.++|||++++++
T Consensus 10 I~~g~~p~~~v~edd~~~af 29 (119)
T PRK10687 10 IIRREIPSDIVYQDELVTAF 29 (119)
T ss_pred hhcCCCCCCEEEECCCEEEE
Confidence 44556778899999988776
Done!