Query psy1176
Match_columns 232
No_of_seqs 184 out of 1154
Neff 5.7
Searched_HMMs 46136
Date Fri Aug 16 18:12:43 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1176.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1176hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00431 TruB tRNA pseudourid 100.0 1.5E-69 3.2E-74 469.6 20.4 184 31-219 1-209 (209)
2 TIGR00425 CBF5 rRNA pseudourid 100.0 5.4E-69 1.2E-73 492.4 22.8 208 1-222 3-210 (322)
3 PRK00020 truB tRNA pseudouridi 100.0 5.1E-69 1.1E-73 474.6 21.3 190 30-224 8-225 (244)
4 PRK04642 truB tRNA pseudouridi 100.0 5.9E-69 1.3E-73 486.7 21.3 187 31-222 9-221 (300)
5 PRK01528 truB tRNA pseudouridi 100.0 8.7E-69 1.9E-73 484.5 21.3 190 30-222 1-215 (292)
6 PRK01851 truB tRNA pseudouridi 100.0 1.4E-68 2.9E-73 485.2 22.5 187 31-222 15-226 (303)
7 PRK02755 truB tRNA pseudouridi 100.0 1.8E-68 3.9E-73 483.3 21.2 188 31-222 2-216 (295)
8 PRK04270 H/ACA RNA-protein com 100.0 2.3E-68 5E-73 484.2 21.8 198 11-222 1-198 (300)
9 PRK05033 truB tRNA pseudouridi 100.0 2.4E-68 5.3E-73 485.2 21.9 187 31-222 9-220 (312)
10 PRK00130 truB tRNA pseudouridi 100.0 1.9E-68 4.2E-73 482.4 20.6 187 31-222 1-213 (290)
11 PRK01550 truB tRNA pseudouridi 100.0 2.6E-68 5.7E-73 484.0 21.2 189 31-222 1-220 (304)
12 PRK05389 truB tRNA pseudouridi 100.0 2.9E-68 6.3E-73 483.8 21.5 188 31-222 12-224 (305)
13 PRK14123 tRNA pseudouridine sy 100.0 2.7E-68 5.9E-73 484.1 20.8 190 30-222 1-221 (305)
14 PRK14124 tRNA pseudouridine sy 100.0 3.1E-68 6.8E-73 483.9 21.0 187 30-221 1-212 (308)
15 PRK02484 truB tRNA pseudouridi 100.0 3.1E-68 6.8E-73 481.6 20.8 190 30-222 1-221 (294)
16 cd00506 PseudoU_synth_TruB_lik 100.0 3.7E-68 8E-73 461.5 20.3 184 33-219 1-210 (210)
17 PRK00989 truB tRNA pseudouridi 100.0 5.7E-68 1.2E-72 464.7 21.0 192 30-227 7-224 (230)
18 PRK03287 truB tRNA pseudouridi 100.0 1.1E-67 2.3E-72 478.6 21.3 191 30-223 7-225 (298)
19 PRK14846 truB tRNA pseudouridi 100.0 2E-67 4.3E-72 481.6 21.3 190 30-222 1-215 (345)
20 cd02573 PseudoU_synth_EcTruB P 100.0 3E-67 6.5E-72 472.1 21.1 188 33-223 1-214 (277)
21 PRK04099 truB tRNA pseudouridi 100.0 8.8E-67 1.9E-71 467.3 19.6 185 31-220 1-210 (273)
22 cd02572 PseudoU_synth_hDyskeri 100.0 1.9E-66 4.2E-71 442.1 20.7 179 32-222 2-181 (182)
23 PRK14122 tRNA pseudouridine sy 100.0 5.8E-66 1.3E-70 469.3 21.0 185 34-221 3-245 (312)
24 COG0130 TruB Pseudouridine syn 100.0 7E-66 1.5E-70 461.5 15.6 191 19-223 4-195 (271)
25 PRK02193 truB tRNA pseudouridi 100.0 9.8E-65 2.1E-69 455.7 19.6 176 34-211 2-203 (279)
26 cd02867 PseudoU_synth_TruB_4 P 100.0 1E-61 2.2E-66 441.5 20.0 189 33-223 1-251 (312)
27 cd02868 PseudoU_synth_hTruB2_l 100.0 1.1E-56 2.4E-61 393.5 19.3 191 33-229 1-226 (226)
28 PF01509 TruB_N: TruB family p 100.0 5E-44 1.1E-48 295.9 12.3 123 53-179 1-149 (149)
29 KOG2529|consensus 100.0 2.5E-35 5.5E-40 273.4 5.4 219 1-229 37-255 (395)
30 KOG2559|consensus 100.0 2.8E-28 6E-33 214.5 10.7 192 31-231 9-272 (318)
31 PF08068 DKCLD: DKCLD (NUC011) 99.6 1.5E-15 3.2E-20 107.1 3.0 49 1-49 11-59 (59)
32 TIGR01213 conserved hypothetic 99.4 1.3E-12 2.8E-17 122.7 8.4 123 72-205 251-386 (388)
33 cd01291 PseudoU_synth PseudoU_ 99.2 5.3E-11 1.1E-15 89.3 8.8 86 37-187 1-87 (87)
34 PRK14554 putative pseudouridyl 99.2 2.5E-11 5.4E-16 115.3 8.5 122 73-205 286-419 (422)
35 COG1258 Predicted pseudouridyl 98.8 2.8E-08 6.1E-13 92.9 8.8 106 92-208 280-394 (398)
36 cd02566 PseudoU_synth_RluE Pse 98.5 1.1E-06 2.5E-11 73.5 11.2 155 34-211 1-167 (168)
37 cd02553 PseudoU_synth_RsuA Pse 98.3 2.2E-05 4.9E-10 65.7 12.7 138 34-211 2-152 (167)
38 cd02554 PseudoU_synth_RluF Pse 98.2 2.8E-05 6E-10 65.5 11.1 139 34-211 2-148 (164)
39 PRK10700 23S rRNA pseudouridyl 98.1 7.3E-05 1.6E-09 68.1 13.9 155 33-223 68-241 (289)
40 cd02556 PseudoU_synth_RluB Pse 98.1 8.3E-05 1.8E-09 62.2 13.1 140 34-211 2-155 (167)
41 PRK10475 23S rRNA pseudouridin 98.0 6.7E-05 1.5E-09 68.5 11.9 133 33-211 68-215 (290)
42 PRK11394 23S rRNA pseudouridin 98.0 5E-05 1.1E-09 66.8 10.6 152 33-211 40-206 (217)
43 cd02555 PSSA_1 PSSA_1: Pseudou 97.8 0.00022 4.7E-09 60.6 10.2 137 34-211 6-162 (177)
44 TIGR01621 RluA-like pseudourid 97.8 3.9E-05 8.5E-10 66.9 5.6 70 32-101 9-88 (217)
45 PRK10158 23S rRNA/tRNA pseudou 97.8 4E-05 8.7E-10 66.8 5.5 70 32-104 21-103 (219)
46 cd02558 PSRA_1 PSRA_1: Pseudou 97.7 7E-05 1.5E-09 66.4 6.4 70 32-101 46-127 (246)
47 PRK10839 16S rRNA pseudouridyl 97.7 0.00012 2.6E-09 64.0 7.8 67 33-100 61-136 (232)
48 cd02557 PseudoU_synth_ScRIB2 P 97.7 7.2E-05 1.6E-09 64.9 6.2 72 32-104 23-106 (213)
49 cd02867 PseudoU_synth_TruB_4 P 97.7 1.8E-05 3.8E-10 73.1 1.6 38 173-210 254-291 (312)
50 COG0564 RluA Pseudouridylate s 97.6 0.00015 3.2E-09 66.2 6.2 74 32-106 85-172 (289)
51 cd02563 PseudoU_synth_TruC tRN 97.5 0.00017 3.7E-09 62.9 5.9 71 32-104 8-92 (223)
52 TIGR00005 rluA_subfam pseudour 97.4 0.00025 5.4E-09 64.0 5.3 70 32-101 79-164 (299)
53 COG1187 RsuA 16S rRNA uridine- 97.3 0.004 8.7E-08 55.9 12.1 157 34-225 65-244 (248)
54 cd02550 PseudoU_synth_Rsu_Rlu_ 97.3 0.00028 6.1E-09 57.9 4.0 67 34-101 1-77 (154)
55 PRK11180 rluD 23S rRNA pseudou 97.3 0.00035 7.7E-09 64.3 5.0 70 32-101 91-176 (325)
56 PRK11112 tRNA pseudouridine sy 97.3 0.00052 1.1E-08 61.3 5.9 69 32-101 9-91 (257)
57 PRK11025 23S rRNA pseudouridyl 97.1 0.0008 1.7E-08 61.8 5.8 70 32-101 100-181 (317)
58 PF00849 PseudoU_synth_2: RNA 97.0 0.00029 6.3E-09 57.4 1.5 72 34-105 2-89 (164)
59 cd02869 PseudoU_synth_RluCD_li 96.9 0.0013 2.8E-08 54.4 4.5 68 34-101 1-84 (185)
60 cd02870 PseudoU_synth_RsuA_lik 96.6 0.00089 1.9E-08 54.5 1.4 66 34-101 1-76 (146)
61 KOG1919|consensus 96.1 0.0097 2.1E-07 56.4 5.3 74 32-105 113-199 (371)
62 TIGR00093 pseudouridine syntha 95.9 0.14 3E-06 40.9 10.4 113 64-211 1-117 (128)
63 KOG2529|consensus 91.7 0.021 4.5E-07 54.4 -2.6 150 58-210 114-305 (395)
64 COG0575 CdsA CDP-diglyceride s 58.4 6.4 0.00014 35.3 1.9 26 45-70 216-247 (265)
65 TIGR00094 tRNA_TruD_broad tRNA 45.4 25 0.00055 33.2 3.7 49 32-81 43-93 (387)
66 cd02575 PseudoU_synth_EcTruD P 42.3 31 0.00067 31.2 3.6 48 32-80 26-75 (253)
67 COG0101 TruA Pseudouridylate s 31.9 1.9E+02 0.0042 26.3 7.1 92 87-187 101-200 (266)
68 PF14714 KH_dom-like: KH-domai 30.6 1.8E+02 0.0038 21.5 5.5 68 115-195 3-73 (80)
69 COG0585 Uncharacterized conser 29.9 47 0.001 32.1 2.9 46 34-80 50-97 (406)
70 PF10296 DUF2404: Putative int 28.0 1.8E+02 0.004 21.5 5.3 42 133-176 34-80 (91)
71 TIGR03065 srtB_sig_QVPTGV sort 23.8 51 0.0011 20.4 1.3 21 61-82 4-24 (32)
72 KOG2364|consensus 21.6 24 0.00052 33.9 -0.7 35 148-184 362-396 (433)
73 PF04760 IF2_N: Translation in 21.3 84 0.0018 21.0 2.1 30 41-70 13-42 (54)
74 cd02641 R3H_Smubp-2_like R3H d 20.6 70 0.0015 22.4 1.7 15 180-194 31-45 (60)
75 cd00497 PseudoU_synth_TruA_lik 20.6 5.7E+02 0.012 22.2 8.0 64 114-186 114-178 (224)
No 1
>TIGR00431 TruB tRNA pseudouridine 55 synthase. TruB, the tRNA pseudouridine 55 synthase, converts uracil to pseudouridine in the T loop (not the anticodon loop - beware mis-annotation in Swiss-Prot) of most tRNAs of all three domains of life. This model is built on a seed alignment of bacterial proteins only. Saccharomyces cerevisiae protein YNL292w (Pus4) has been shown to be the pseudouridine 55 synthase of both cytosolic and mitochondrial compartments, active at no other position on tRNA and the only enzyme active at that position in the species. A distinct yeast protein YLR175w, (centromere/microtubule-binding protein CBF5) is an rRNA pseudouridine synthase, and the archaeal set is much more similar to CBF5 than to Pus4. It is unclear whether the archaeal proteins found by this model are tRNA pseudouridine 55 synthases like TruB, rRNA pseudouridine synthases like CBF5, or (as suggested by the absence of paralogs in the Archaea) both. CBF5 likely has additional, eukaryotic-specific
Probab=100.00 E-value=1.5e-69 Score=469.61 Aligned_cols=184 Identities=26% Similarity=0.407 Sum_probs=174.9
Q ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceecccc
Q psy1176 31 RAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVA 110 (232)
Q Consensus 31 ~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~ 110 (232)
+||||+||||+||||||||+++||.++.+||||+|||||+|||||++|+|+|||+++|+++.+|+|+++++||.+|||.|
T Consensus 1 ~~G~l~v~KP~g~tS~~vv~~vkk~~~~kKvGH~GTLDP~AsGvLiv~vG~~Tkl~~~~~~~~K~Y~~~~~~G~~TdT~D 80 (209)
T TIGR00431 1 INGVLLLDKPQGMTSFDALAKVRRLLNVKKVGHTGTLDPFATGVLPILVGKATKLSPYLTDLDKEYRAEIRLGVRTDTLD 80 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCCCcCceEEEEEEChHhhhhHHHcCCCCeEEEEEEECCcCCCCC
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred c---------ccCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEeeCCCc
Q psy1176 111 K---------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISSDVTLS 165 (232)
Q Consensus 111 ~---------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~~~~~~ 165 (232)
. ..++.|+|++++++|+|+++|+||+ |||+|++| +|+++||++++++|+. |
T Consensus 81 ~~G~i~~~~~~~~~~~~l~~~l~~f~G~~~Q~PP~--ySA~Kv~G~raYelAR~g~~v~~~~r~v~I~~i~ll~~~~--~ 156 (209)
T TIGR00431 81 PDGQIVETRPVNPTTEDVEAALPTFRGEIEQIPPM--YSALKVNGKRLYEYARQGIEVERKARPVTVYDLQFLKYEG--P 156 (209)
T ss_pred CCCCEEEecCCCCCHHHHHHHHHHccCcEEEECCh--hhEEeeCCHhHHHHHHCCCccccCcceeEEEEEEEEEEcC--C
Confidence 2 2357899999999999999999999 99999998 4689999999999976 7
Q ss_pred eEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHH
Q psy1176 166 TGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQE 219 (232)
Q Consensus 166 ~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l 219 (232)
.+.|+|+||+||||||||+|||.+|||+|||++||||++|+|+++|| +++|||
T Consensus 157 ~~~~~v~cs~GTYIRsL~~Dig~~L~~~a~l~~L~Rt~~G~f~~~~a-~~l~~l 209 (209)
T TIGR00431 157 ELTLEVHCSKGTYIRTLARDLGEKLGCGAYVSHLRRTAVGDFPLDQS-VTLEEL 209 (209)
T ss_pred cEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHc-CChhhC
Confidence 99999999999999999999999999999999999999999999996 899875
No 2
>TIGR00425 CBF5 rRNA pseudouridine synthase, putative. This family, found in archaea and eukaryotes, includes the only archaeal proteins markedly similar to bacterial TruB, the tRNA pseudouridine 55 synthase. However, among two related yeast proteins, the archaeal set matches yeast YLR175w far better than YNL292w. The first, termed centromere/microtubule binding protein 5 (CBF5), is an apparent rRNA pseudouridine synthase, while the second is the exclusive tRNA pseudouridine 55 synthase for both cytosolic and mitochondrial compartments. It is unclear whether archaeal proteins found by this model modify tRNA, rRNA, or both.
Probab=100.00 E-value=5.4e-69 Score=492.36 Aligned_cols=208 Identities=48% Similarity=0.752 Sum_probs=200.5
Q ss_pred CCcccceeccCCCCCCCCCCCCccchhhhccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEc
Q psy1176 1 NFDKLNVRTNHYTPLPFGKSPLQRTIQEYIRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCID 80 (232)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG 80 (232)
||..|.+.+..+|..++|++|.+|++.+++.+|||+||||.||||||||+++||+++.+||||+|||||+||||||||+|
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~l~i~KP~g~tS~~~v~~vr~~~~~kkvGH~GTLDP~A~GvL~v~~G 82 (322)
T TIGR00425 3 NFENLIVKEEAYTNIDYGCNPLKRDIEEYISYGVVNLDKPSGPSSHEVVAWVRRILNVEKTGHGGTLDPKVTGVLPVCIE 82 (322)
T ss_pred cchheeEeccccCCcccCCCccCCCHHHhcCCCEEEEeCCCCCCHHHHHHHHHHHhcccccCCCCCCCCCCceEEEEEEC
Confidence 78899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccchhhhcCCceEEEEEEecceecccccccCcHHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEEEEeeEe
Q psy1176 81 RATRLVKSQQSAGKEYISIFKLHSAVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISS 160 (232)
Q Consensus 81 ~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~ 160 (232)
+|||+++|+++.+|+|++++.||.. +++++|++++++|+|+++|+||+ |||+|++ .|+++||++++++|
T Consensus 83 ~aTkl~~~~~~~~K~Y~~~v~lG~~--------~~~~~l~~~l~~f~g~i~Q~pP~--~SA~k~~-~r~v~I~~~~l~~~ 151 (322)
T TIGR00425 83 RATRLVKSLQEAPKEYVCLMRLHRD--------AKEEDILRVLKEFTGRIFQRPPL--KSAVKRQ-LRVRTIYESELLEK 151 (322)
T ss_pred hHhhccHHhccCCCEEEEEEEECCC--------CCHHHHHHHHHHcCCcEEeeCCh--heEEecc-CeEEEEEEEEEEEe
Confidence 9999999999999999999999963 47899999999999999999999 9999987 99999999999999
Q ss_pred eCCCceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 161 DVTLSTGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 161 ~~~~~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
+. +.++|+|+||+||||||||+|||++|||+|||++||||++|+|++++| ++|+||.++
T Consensus 152 ~~--~~~~~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~L~R~~~g~f~~~~a-~~l~~l~~~ 210 (322)
T TIGR00425 152 DG--KDVLFRVSCEAGTYIRKLCVDIGEALGTGAHMQELRRTRSGCFGEDDM-VTLHDLLDA 210 (322)
T ss_pred cC--CeEEEEEEeCCCcChHHHHHHHHHHHCCCEEEEEeEeEEECCcccccc-ccHHHHHHh
Confidence 76 579999999999999999999999999999999999999999999886 899999764
No 3
>PRK00020 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=5.1e-69 Score=474.61 Aligned_cols=190 Identities=27% Similarity=0.395 Sum_probs=179.7
Q ss_pred ccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccc
Q psy1176 30 IRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENV 109 (232)
Q Consensus 30 ~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~ 109 (232)
.+||||+||||.||||||||+|+||+++.+||||+|||||+||||||||+|+|||+++|+++.+|+|+++++||.+|||+
T Consensus 8 ~~~Gil~vdKP~G~TS~dvv~~vkr~~~~kKvGH~GTLDP~AtGvLiv~iG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~ 87 (244)
T PRK00020 8 ALDGVLLLDKPVGLSSNHALQRAKRTVDAAKAGHTGTLDPFATGLLVCCMGRATKISGRMLEADKTYQATLQFGEETDSG 87 (244)
T ss_pred CCCeEEEEecCCCCCHHHHHHHHHHHhCCCCCCcCCcCCCcCeeEEEEEECHHhhhhHHhccCCcEEEEEEEeCCcccCC
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cc---c---------cCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEee
Q psy1176 110 AK---A---------SKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISSD 161 (232)
Q Consensus 110 ~~---v---------~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~~ 161 (232)
|. + +++.|++++++++|+|+++|+||+ |||+|++| +|+++||++++++|+
T Consensus 88 D~~G~v~~~~~~~~~~it~e~l~~~l~~f~G~i~Q~PP~--ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~ 165 (244)
T PRK00020 88 DLTGHIVARAPDGFAGVEEAALRDVLSRFVGTIEQIPPM--YSALKRDGKPLYEYARAGIELDRPPRQVTIRHIELLSFS 165 (244)
T ss_pred CCCCcEEEeccCccCCCCHHHHHHHHHhccCeEEEeCCh--hheEEECCeEHHHHHhCCcccccCCeeEEEEEEEEEEEe
Confidence 51 1 368999999999999999999999 99999998 468999999999998
Q ss_pred CCCceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhchh
Q psy1176 162 VTLSTGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMFEH 224 (232)
Q Consensus 162 ~~~~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~~~ 224 (232)
. |.+.|+|+||+||||||||+|||++|||+|||++|||+++|+|++++| +++|+|....+
T Consensus 166 ~--~~~~~~v~cSkGTYIRSL~~DiG~~Lg~~a~l~~LrRt~~G~f~l~~a-~~l~~l~~~~~ 225 (244)
T PRK00020 166 G--MQAQIDVACSKGTYIRTLAQDIGRALGCHAHLAALRRTHVGPFSLDRA-VTLEALQAMPD 225 (244)
T ss_pred C--CEEEEEEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeeEECCCChHHc-CCHHHHHhhhh
Confidence 6 799999999999999999999999999999999999999999999996 89999976543
No 4
>PRK04642 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=5.9e-69 Score=486.71 Aligned_cols=187 Identities=24% Similarity=0.379 Sum_probs=178.1
Q ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceecccc
Q psy1176 31 RAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVA 110 (232)
Q Consensus 31 ~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~ 110 (232)
+||||+||||.||||||||+++||+++.+||||+|||||+||||||||+|+|||+++|+.+.+|+|+++++||.+|||+|
T Consensus 9 m~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~v~~G~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D 88 (300)
T PRK04642 9 LDGILLLDKPAGLSSNNALQAARRLLRAEKGGHTGSLDPLATGLLPLCFGEATKIAGLLLGSAKAYDAEIVLGVTTDTDD 88 (300)
T ss_pred cCeEEEEecCCCCCHHHHHHHHHHHhCCCcccCCCccCCcCeeeEEEEEChhhhhhHHhcCCCcEEEEEEEECccccCcC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred c---------c-cCcHHHHHHHHhcCccCceecCCccCccceeeCCC----------------CccEEEEEEeeEeeCCC
Q psy1176 111 K---------A-SKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPN----------------KKPTYMKSNLISSDVTL 164 (232)
Q Consensus 111 ~---------v-~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~----------------R~v~Iy~i~l~~~~~~~ 164 (232)
. + .++.|+|++++++|.|+++|+||+ |||+|++|+ |+|+||++++++|+.
T Consensus 89 ~~G~v~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~--ySAvKv~GkrlY~lAR~G~~ve~~~R~v~I~~~~ll~~~~-- 164 (300)
T PRK04642 89 ADGQVLRERPVPDLSAAALQAALAPLIGRIRQRAPI--YSALKQGGEPLYAKARRGEVIEAPVREVEVHAIEVLGYAA-- 164 (300)
T ss_pred CCCCEEEecCCCCCCHHHHHHHHHHCCCcEEEeCCc--hHeEeECCeeHHHHHhCCCccccCcEEEEEEEEEEEEEeC--
Confidence 2 1 369999999999999999999999 999999983 678999999999975
Q ss_pred ceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 165 STGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 165 ~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
|.+.|+|+||+||||||||+|||++|||+|||++||||++|+|++++| ++|+||.++
T Consensus 165 ~~~~~~v~cskGTYIRSL~~Dig~~Lg~~a~m~~L~Rt~~G~f~~~~a-~~l~~l~~~ 221 (300)
T PRK04642 165 PRLRLRVTCGSGTYIRSLARDLGEVLGCGAHIAALRRLWVEPFRAPQM-ITLEALEAA 221 (300)
T ss_pred CEEEEEEEeCCCcCHHHHHHHHHHHhCCCEEEEEeEeeEECCcchHHC-ccHHHHHHh
Confidence 789999999999999999999999999999999999999999999986 899999864
No 5
>PRK01528 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=8.7e-69 Score=484.52 Aligned_cols=190 Identities=27% Similarity=0.362 Sum_probs=179.1
Q ss_pred ccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccc
Q psy1176 30 IRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENV 109 (232)
Q Consensus 30 ~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~ 109 (232)
|.||||+||||.||||||||+++||+++.+|+||+|||||+||||||||+|+|||+++|+++.+|+|+++++||.+|||+
T Consensus 1 ~~~GiL~i~KP~G~TS~dvv~~vrk~~~~kKvGH~GTLDP~AtGvL~v~vG~aTKl~~~l~~~~K~Y~~~~~lG~~TdT~ 80 (292)
T PRK01528 1 MSNYWLNIYKPRGISSAKLVSIVKKILGKVKIGHAGTLDVEAEGVLPLAVGEATKLVQLLIDAKKTYIFTVKFGKQTDSG 80 (292)
T ss_pred CCCEEEEEeCCCCCCHHHHHHHHHHHcCCCccCcCccCCCcCceEEEEEEChHhhhhHHHhcCCceEEEEEEECCcccCC
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred cc---------ccCcHHHHHHHHhcCccCceecCCccCccceeeCCC----------------CccEEEEEEeeEeeCCC
Q psy1176 110 AK---------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPN----------------KKPTYMKSNLISSDVTL 164 (232)
Q Consensus 110 ~~---------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~----------------R~v~Iy~i~l~~~~~~~ 164 (232)
|. +.++.|++++++++|+|+++|+||+ |||+|++|+ |+++||++++++|+.+.
T Consensus 81 D~~G~v~~~~~~~~~~e~l~~~l~~f~G~i~Q~PP~--ySAvKv~G~raYelAR~G~~vel~~r~v~I~~i~ll~~~~~~ 158 (292)
T PRK01528 81 DYAGKVIATKDYIPSKEEAYAVCSKFIGNITQIPPA--FSALKVNGVRAYKLAREGKEVELKPRNITIYDLKCLNFDEKN 158 (292)
T ss_pred CCCCCEEEecCCCCCHHHHHHHHHhccceEEeeCCh--hHeEEECCHhHHHHHhCCcccccCceeEEEEEEEEEEEcCCC
Confidence 62 2358999999999999999999999 999999983 57899999999998655
Q ss_pred ceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 165 STGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 165 ~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
+.++|+|+||+||||||||+|||++|||+|||++||||++|+|+++|| ++|++|.++
T Consensus 159 ~~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~a-~~l~~l~~~ 215 (292)
T PRK01528 159 ATATYYTECSKGTYIRTLAEDLALSLQSLGFVIELRRTQVGIFKEENA-IRIKSSDAI 215 (292)
T ss_pred cEEEEEEEECCCccHHHHHHHHHHHHCCceEEeEEEeEEECCccHHHc-CCHHHHHhh
Confidence 689999999999999999999999999999999999999999999996 899999764
No 6
>PRK01851 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.4e-68 Score=485.18 Aligned_cols=187 Identities=29% Similarity=0.447 Sum_probs=178.9
Q ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceecccc
Q psy1176 31 RAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVA 110 (232)
Q Consensus 31 ~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~ 110 (232)
+||||+||||.||||||||+++||+++.+||||+|||||+|||||++|+|+|||+++|+++.+|+|+++++||.+|||+|
T Consensus 15 ~~Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~~~~~lG~~TdT~D 94 (303)
T PRK01851 15 VDGVLLLDKPLGLSSNDALQRAKRLLRAKKAGHTGTLDPLATGLLPLCFGEATKFSQDLLDADKTYEATLRLGVRTSTGD 94 (303)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhCcccCCCCCCCCCCCceEEEEEECHHHhhhHHhcccCeEEEEEEEECCccCCCC
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999976
Q ss_pred c---------ccCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEeeCCCc
Q psy1176 111 K---------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISSDVTLS 165 (232)
Q Consensus 111 ~---------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~~~~~~ 165 (232)
. +.+++++|++++++|+|+++|+||+ |||+|++| +|+++||++++++|+. |
T Consensus 95 ~~G~v~~~~~~~~t~~~i~~~l~~f~G~i~Q~PP~--ySAvKv~GkraYelAR~G~~ve~~~R~v~I~~i~ll~~~~--~ 170 (303)
T PRK01851 95 AEGEVLATRPVDCDPAALEAALARFTGEIRQVPPM--YSALKKDGKPLYEYARAGITVEREARDVTIHALDLLACDL--P 170 (303)
T ss_pred CCCCEEeecCCCCCHHHHHHHHHhccCeeeeeCCc--hheEeeCCeeHHHHHhCCCccccCCcceEEEEEEEEEEeC--C
Confidence 2 2379999999999999999999999 99999998 4689999999999986 7
Q ss_pred eEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 166 TGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 166 ~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
.+.|+|+||+||||||||+|||++|||+|||++|||+++|+|+++|| ++||||.++
T Consensus 171 ~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~a-~~l~~l~~~ 226 (303)
T PRK01851 171 DVTIRVTCSKGTYIRTLAEDIGEALGCGAHLTALRRTGVGGLTLEQA-VTLEALEAA 226 (303)
T ss_pred EEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCchHHc-CCHHHHHhc
Confidence 99999999999999999999999999999999999999999999997 899999865
No 7
>PRK02755 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.8e-68 Score=483.26 Aligned_cols=188 Identities=27% Similarity=0.422 Sum_probs=177.2
Q ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceecccc
Q psy1176 31 RAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVA 110 (232)
Q Consensus 31 ~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~ 110 (232)
+||||+||||.||||||||+++||+++.+||||+|||||+||||||+|+|+|||+++|+.+ +|+|+++++||.+|||.|
T Consensus 2 m~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~i~vG~aTkl~~~l~~-~K~Y~a~~~lG~~TdT~D 80 (295)
T PRK02755 2 MFGFLNLDKPAGLTSHDCVARLRRLLRLKRVGHGGTLDPAATGVLPIALGKATRLLPYLPG-EKTYRGTIRFGVRTSTDD 80 (295)
T ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhCCCccccCCCCCCcCeeEEEEEEChhhhhHHHhCC-CcEEEEEEEECCcccCCC
Confidence 5899999999999999999999999999999999999999999999999999999999987 999999999999999976
Q ss_pred c---c-------cCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEeeC-C
Q psy1176 111 K---A-------SKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISSDV-T 163 (232)
Q Consensus 111 ~---v-------~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~~~-~ 163 (232)
. + +++.|++++++++|+|+++|+||+ |||+|++| +|+++||++++++|+. +
T Consensus 81 ~~G~v~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~--ySAvKv~G~r~Y~lAR~G~~ve~~~r~v~I~~~~l~~~~~~~ 158 (295)
T PRK02755 81 LQGEILSSQPWPHLSLAEIETALPQFRGKIEQRPPQ--YSAIQVDGERLYALARRGETMELPARTVTIFRLQLLDWRPGD 158 (295)
T ss_pred CCCCEEEecCCCCCCHHHHHHHHHhccCeEEEeCCh--hheEeeCCHhHHHHHHCCCccccCceEEEEEEEEEEEEcCCC
Confidence 2 1 379999999999999999999999 99999998 3679999999999975 2
Q ss_pred CceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 164 LSTGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 164 ~~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
.|.++|+|+||+||||||||+|||++|||+|||++||||++|+|++++| ++++||.+.
T Consensus 159 ~~~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~m~~LrRt~~G~f~~~~a-~~l~~l~~~ 216 (295)
T PRK02755 159 QPELDLEIHCGAGTYIRSLARDLGAVLGTGGTLAALRRTQSLGFHLAQS-LPLPELENQ 216 (295)
T ss_pred CceEEEEEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHc-CCHHHHHhh
Confidence 4799999999999999999999999999999999999999999999996 899999764
No 8
>PRK04270 H/ACA RNA-protein complex component Cbf5p; Reviewed
Probab=100.00 E-value=2.3e-68 Score=484.22 Aligned_cols=198 Identities=37% Similarity=0.635 Sum_probs=191.2
Q ss_pred CCCCCCCCCCCCccchhhhccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhh
Q psy1176 11 HYTPLPFGKSPLQRTIQEYIRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQ 90 (232)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~ 90 (232)
++||+..||.|.+||+.++.++|||+||||+||||||||+++||+++.+|+||+|||||+|||||++|+|+|||+++|++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~g~l~i~Kp~g~tS~~~v~~~r~~~~~kkvGH~GTLDp~A~GvL~v~~g~atk~~~~~~ 80 (300)
T PRK04270 1 AETNPEYGCPPEKRPIEELIKFGVVNLDKPPGPTSHEVAAWVRDILGVEKAGHGGTLDPKVTGVLPVALGKATKVVQALL 80 (300)
T ss_pred CCCCccCCCCcccCCHHHhcCCCEEEEECCCCCCHHHHHHHHHHHhccccccCCCCCCCcCeEEEEEEEChHhhhhHHhc
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCceEEEEEEecceecccccccCcHHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEEEEeeEeeCCCceEEEE
Q psy1176 91 SAGKEYISIFKLHSAVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIW 170 (232)
Q Consensus 91 ~~~K~Y~a~~~lG~~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~~~~~~~~~~~ 170 (232)
+.+|+|++++.||.. ++.|+|++++++|+|+++|+||+ |||+|+. +|+++||++++++|+. |.++|+
T Consensus 81 ~~~K~Y~~~~~~g~~--------~~~~~~~~~l~~~~g~i~Q~pP~--~SA~k~~-~r~v~I~~i~~~~~~~--~~~~~~ 147 (300)
T PRK04270 81 ESGKEYVCVMHLHGD--------VPEEDIRKVFKEFTGEIYQKPPL--KSAVKRR-LRVRTIYELEILEIDG--RDVLFR 147 (300)
T ss_pred cCCcEEEEEEEECCC--------CCHHHHHHHHHHCCCcEEeECCH--HHhccCC-ceEEEEEEEEEEEecC--CEEEEE
Confidence 999999999999963 58899999999999999999999 9999977 9999999999999975 799999
Q ss_pred EEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 171 LKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 171 v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
|+||+||||||||+|||++|||+|||++||||++|+|+++|| ++||||.++
T Consensus 148 v~cs~GtYIRsl~~dig~~Lg~~a~~~~L~R~~~g~f~~~~a-~~l~~l~~~ 198 (300)
T PRK04270 148 VRCESGTYIRKLCHDIGLALGTGAHMQELRRTRTGPFTEEDL-VTLQDLADA 198 (300)
T ss_pred EEECCceEHHHHHHHHHHHHCCCeEEEEEEeEEECCCCcchh-cCHHHHHHh
Confidence 999999999999999999999999999999999999999996 899999864
No 9
>PRK05033 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.4e-68 Score=485.15 Aligned_cols=187 Identities=26% Similarity=0.387 Sum_probs=178.5
Q ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceecccc
Q psy1176 31 RAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVA 110 (232)
Q Consensus 31 ~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~ 110 (232)
+||||+||||+||||||||+++|++++.+||||+|||||+|||||+||+|+|||+++|+++.+|+|+++++||.+|||+|
T Consensus 9 ~~Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~~~~~~K~Y~a~~~lG~~TdT~D 88 (312)
T PRK05033 9 INGVLLLDKPQGMSSNDALQKVKRLFNANKAGHTGALDPLATGMLPICLGEATKFSQYLLDSDKRYRVTARLGQRTDTSD 88 (312)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCcCCCcCeeEEEEEECHHhhhhHHhcCCCcEEEEEEEECCcccCCC
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999975
Q ss_pred c---------ccCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEeeCCCc
Q psy1176 111 K---------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISSDVTLS 165 (232)
Q Consensus 111 ~---------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~~~~~~ 165 (232)
. ++++.++|++++++|+|+++|+||+ |||+|++| +|+++||++++++|+. |
T Consensus 89 ~~G~v~~~~~~~~t~~~l~~~l~~f~G~i~Q~PP~--ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~--~ 164 (312)
T PRK05033 89 ADGEVVEERPVTLSAEQLEAALEKFRGDIEQVPSM--YSALKYQGQPLYEYARQGIEVEREARPITIYELELIRFEG--D 164 (312)
T ss_pred CCCCEEEeecCCCCHHHHHHHHHHCcCcEEEeCCh--hHeEeeCCeEHHHHHhCCcccccCceeEEEEEEEEeeEeC--C
Confidence 2 3479999999999999999999999 99999998 3679999999999976 7
Q ss_pred eEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 166 TGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 166 ~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
.+.|+|+||+||||||||+|||++|||+|||++||||++|+|++++| ++|+||.+.
T Consensus 165 ~~~~~v~cs~GTYIRsL~~Dig~~Lg~~a~~~~LrRt~~G~f~~~~a-~~l~~l~~~ 220 (312)
T PRK05033 165 ELELEVHCSKGTYIRTLVDDLGEKLGCGAHVIYLRRTQVAPYPLERM-VTLEQLEAL 220 (312)
T ss_pred EEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCcccccc-cCHHHHHHh
Confidence 99999999999999999999999999999999999999999999986 899999754
No 10
>PRK00130 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.9e-68 Score=482.39 Aligned_cols=187 Identities=29% Similarity=0.476 Sum_probs=177.8
Q ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceecccc
Q psy1176 31 RAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVA 110 (232)
Q Consensus 31 ~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~ 110 (232)
+||||+||||+||||||||+++||+++.+|+||+|||||+||||||+|+|+|||+++|+++.+|+|+++++||.+|||+|
T Consensus 1 m~Gil~i~KP~G~tS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D 80 (290)
T PRK00130 1 MDGILNILKPPGMTSFDVVRKIRKIAKIKKVGHTGTLDPLASGVLPVCLGKATKIVDYLMEGKKTYRAEIKLGVETDTYD 80 (290)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhCCCccCcCCCCCCCCeeEEEEEEChhhhhHHHhccCCcEEEEEEEECCcccCCC
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred c---------c-cCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEeeCCC
Q psy1176 111 K---------A-SKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISSDVTL 164 (232)
Q Consensus 111 ~---------v-~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~~~~~ 164 (232)
. + +++.|+|++++++|+|+++|+||+ |||+|++| +|+++||++++++|+.
T Consensus 81 ~~G~i~~~~~~~~~t~~~l~~~l~~f~G~i~Q~PP~--ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~~~~-- 156 (290)
T PRK00130 81 REGEILKEKEVSHLTEEEIREAILSFQGEIDQVPPM--YSALKINGKKLYELARQGIEVEREARKITIYDIEILEIDL-- 156 (290)
T ss_pred CCCCEEEecCCCCCCHHHHHHHHHHccCeEEEECCh--HHeEecCCHhHHHHHHCCCccccCceEEEEEEEEEEEEeC--
Confidence 2 1 379999999999999999999999 99999998 3679999999999986
Q ss_pred ceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 165 STGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 165 ~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
|.++|+|+||+||||||||+|||++|||+|||++||||++|+|+++|| ++++||.+.
T Consensus 157 ~~~~~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~LrRt~~G~f~~~~a-~~l~~l~~~ 213 (290)
T PRK00130 157 PYVIFDVKCSKGTYIRSLCFDIGEKLNCGAYMWNLIRTETGPFNIENS-ITLEDLNEE 213 (290)
T ss_pred CeEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCCHHHc-CCHHHHhhh
Confidence 799999999999999999999999999999999999999999999996 899999753
No 11
>PRK01550 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.6e-68 Score=484.05 Aligned_cols=189 Identities=30% Similarity=0.422 Sum_probs=177.1
Q ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceecccc
Q psy1176 31 RAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVA 110 (232)
Q Consensus 31 ~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~ 110 (232)
+||||+||||+||||||||+++||+++.+||||+|||||+||||||||+|+|||+++|+++.+|+|+++++||.+|||.|
T Consensus 1 m~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~i~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D 80 (304)
T PRK01550 1 MNGVLLLHKPRGMTSHDCVFKLRKILRTKKVGHTGTLDPEVSGVLPICVGRATKIAEYLTDEGKTYEGEVTLGFSTTTED 80 (304)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHcCCCCcccCCCCCCcCeeEEEEEEChhhhhhHHhcCCCcEEEEEEEECCcccCCC
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred c---------c-c-CcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEe---
Q psy1176 111 K---------A-S-KKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISS--- 160 (232)
Q Consensus 111 ~---------v-~-~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~--- 160 (232)
. + + ++.++|++++++|+|+++|+||+ |||+|++| +|+++||+++++++
T Consensus 81 ~~G~v~~~~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~--ySAvKv~Gkr~YelAR~G~~ve~~~r~v~I~~i~ll~~~~~ 158 (304)
T PRK01550 81 ADGEVVETKPVDRPITREEIEAALASLTGTIEQIPPM--YSAVKVNGKKLYEYARAGIEVERPVRQITIHEFVLLDSRED 158 (304)
T ss_pred CCCCEEeeccCCCCCCHHHHHHHHHhccceEEEeCCh--hHeEecCCHhHHHHHHCCCccccCCcceEEEEEEEEeeccc
Confidence 2 2 2 78999999999999999999999 99999998 36899999999974
Q ss_pred -eCCCceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 161 -DVTLSTGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 161 -~~~~~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
+.+.|.+.|+|+||+||||||||+|||++|||+|||++||||++|+|++++| ++||||.+.
T Consensus 159 ~~~~~~~~~~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~L~Rt~~G~f~~~~a-~~le~l~~~ 220 (304)
T PRK01550 159 FEGETQSFRFRVTCSKGTYVRTLAVMIGEKLGYPAHMSHLVRTASGGFTLEDC-LTFEEIEEN 220 (304)
T ss_pred cccCCceEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCCHHHc-CCHHHHHhh
Confidence 3334799999999999999999999999999999999999999999999996 899999764
No 12
>PRK05389 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.9e-68 Score=483.80 Aligned_cols=188 Identities=26% Similarity=0.393 Sum_probs=178.2
Q ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceecccc
Q psy1176 31 RAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVA 110 (232)
Q Consensus 31 ~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~ 110 (232)
+||||+||||+||||||||+++||+++.+|+||+|||||+||||||||+|+|||+++|+++.+|+|+++++||.+|||+|
T Consensus 12 ~~Gil~i~KP~G~TS~dvv~~vrk~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D 91 (305)
T PRK05389 12 ISGWLILDKPAGMTSTEAVSKVKWLFDAQKAGHAGTLDPLASGVLPIALGEATKTVPYVMDGTKRYRFTVAWGEERDTDD 91 (305)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhcccccCCcccCCCCCceEEEEEEChhhhhhHHhccCCcEEEEEEEECCcccCCC
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999975
Q ss_pred c---------ccCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEeeCCCc
Q psy1176 111 K---------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISSDVTLS 165 (232)
Q Consensus 111 ~---------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~~~~~~ 165 (232)
. +.++.|+|++++++|+|+++|+||+ |||+|++| +|+++||++++++|+. .|
T Consensus 92 ~~G~v~~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~--ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~-~~ 168 (305)
T PRK05389 92 LEGEVTATSDVRPTDEEIRAALPAFTGEIMQVPPQ--FSAIKIDGERAYDLAREGETVELPARPVEIDRLTLVERPD-AD 168 (305)
T ss_pred CCCCEEEecCCCCCHHHHHHHHHhccceEEEeCCc--hheEEECCHhHHHHHHCCCccccCceEEEEEEEEEEEecC-CC
Confidence 2 2379999999999999999999999 99999998 3679999999999953 37
Q ss_pred eEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 166 TGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 166 ~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
.+.|+|+||+||||||||+|||++|||+|||++||||++|+|++++| ++|+||.+.
T Consensus 169 ~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~a-~~l~~l~~~ 224 (305)
T PRK05389 169 HAVFEVECGKGTYVRSLARDLGRALGCYGHIAALRRTRVGPFTEEDA-ITLEKLEAL 224 (305)
T ss_pred eEEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEEEeEEECCCcHHHc-cCHHHHHhc
Confidence 99999999999999999999999999999999999999999999996 899999764
No 13
>PRK14123 tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2.7e-68 Score=484.14 Aligned_cols=190 Identities=28% Similarity=0.385 Sum_probs=177.7
Q ss_pred ccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccc
Q psy1176 30 IRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENV 109 (232)
Q Consensus 30 ~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~ 109 (232)
++||||+||||.||||||||+++||+++.+||||+|||||+||||||+|+|+|||+++|+++.+|+|+++++||.+|||+
T Consensus 1 ~m~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~~~~~lG~~TdT~ 80 (305)
T PRK14123 1 MYNGILPVYKERGLTSHDVVFKLRKILKTKKIGHTGTLDPEVAGVLPVCIGNATRVSDYVMDMGKAYEATVSIGRSTTTE 80 (305)
T ss_pred CcceEEEEeCCCCCCHHHHHHHHHHHhCCCccccCcCCCCcCeeEEEEEEChhhhhHHHhcCCCcEEEEEEEECCcccCC
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred cc---------c---cCcHHHHHHHHhcCccCceecCCccCccceeeCCC----------------CccEEEEEEeeE--
Q psy1176 110 AK---------A---SKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPN----------------KKPTYMKSNLIS-- 159 (232)
Q Consensus 110 ~~---------v---~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~----------------R~v~Iy~i~l~~-- 159 (232)
|. + +++.++|++++++|+|+++|+||+ |||+|++|+ |+++||++++++
T Consensus 81 D~~G~vi~~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~--ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~~~~~~ 158 (305)
T PRK14123 81 DQTGDTLETKGVHSADFNKDDIDRLLEQFKGIIEQIPPM--YSSVKVNGKKLYEYARNNETVERPKRKVNIKDIGRISEL 158 (305)
T ss_pred CCCCCEEEeccCCcCCCCHHHHHHHHHhccCceeecCCh--hheEeeCCHhHHHHHhCCCcccCCceEEEEEEEEEeecc
Confidence 52 1 368999999999999999999999 999999983 689999999884
Q ss_pred -eeCCCceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 160 -SDVTLSTGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 160 -~~~~~~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
|+.+.|.++|+|+||+||||||||+|||++|||+|||++||||++|+|++++| ++||||.+.
T Consensus 159 ~~~~~~~~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~l~~a-~~l~~l~~~ 221 (305)
T PRK14123 159 DFKENECHFKIRVICGKGTYIRTLATDIGVKLGFPAHMSKLTRIESGGFVLKDS-LTLEQIKEL 221 (305)
T ss_pred cccCCCceEEEEEEeCCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCchHHc-CCHHHHHhh
Confidence 65434789999999999999999999999999999999999999999999997 899999754
No 14
>PRK14124 tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=3.1e-68 Score=483.93 Aligned_cols=187 Identities=28% Similarity=0.435 Sum_probs=178.2
Q ss_pred ccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccc
Q psy1176 30 IRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENV 109 (232)
Q Consensus 30 ~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~ 109 (232)
++||||+||||+||||||||+|+||+++.+||||+|||||+||||||+|+|+|||+++|+++.+|+|+++++||.+|||.
T Consensus 1 ~m~Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~ 80 (308)
T PRK14124 1 MKHGFLVAYKPKGPTSHDVVDEVRKKLKTRKVGHAGTLDPFATGVLIVGVNKATRLLEYLKNEKKVYYVKMRLGLITETF 80 (308)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHcCCCccCcCcCCCCCCcEEEEEEEChHHhhhHHHhcCCceEEEEEEeCccccCC
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred cc---------ccCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEeeCCC
Q psy1176 110 AK---------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISSDVTL 164 (232)
Q Consensus 110 ~~---------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~~~~~ 164 (232)
|. .+++.++|++++++|+|+++|+||+ |||+|++| +|+++||++++++|+.
T Consensus 81 D~~G~vi~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~--ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~-- 156 (308)
T PRK14124 81 DITGEVVEERECNVTEEEIREAIFSFVGEYKQVPPA--YSAKKYKGERLYKLAREGKIINLPPKEVKIYEIWDISIEG-- 156 (308)
T ss_pred CCCCCEEEecCCCCCHHHHHHHHHhCcCeEEEeCCc--hHeEEECChhHHHHHhCCCccccCceeeEEEEEEEEEEeC--
Confidence 52 3479999999999999999999999 99999998 3689999999999986
Q ss_pred ceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHh
Q psy1176 165 STGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHM 221 (232)
Q Consensus 165 ~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~ 221 (232)
|.++|+|+||+||||||||+|||++|||+|||++||||++|+|++++| ++++++..
T Consensus 157 ~~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~m~~LrRt~~G~f~l~~a-~~l~~l~~ 212 (308)
T PRK14124 157 PDVSFRVEVSPGTYIRSLCMDIGYKLGCGATAVELVRLSVGKFSIEDS-INVFEVSP 212 (308)
T ss_pred CeEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHc-cCHHHhhh
Confidence 799999999999999999999999999999999999999999999996 89999864
No 15
>PRK02484 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=3.1e-68 Score=481.64 Aligned_cols=190 Identities=29% Similarity=0.388 Sum_probs=177.3
Q ss_pred ccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccc
Q psy1176 30 IRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENV 109 (232)
Q Consensus 30 ~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~ 109 (232)
++||||+||||+||||||||+++||+++.+||||+|||||+||||||+|+|+|||+++|+++.+|+|+++++||.+|||.
T Consensus 1 ~m~Gil~i~KP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~i~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~ 80 (294)
T PRK02484 1 MINGIINLKKEAGMTSHDAVFKLRKILQTKKIGHGGTLDPDVVGVLPIAVGKATRLIEYMTEAGKVYEGEITLGYSTTTE 80 (294)
T ss_pred CcceEEEEeCCCCCCHHHHHHHHHHHhCCCccccCCCCCCCCeeEEEEEEChhhhhhHHhccCCcEEEEEEEECCcccCC
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred cc---------c-c-CcHHHHHHHHhcCccCceecCCccCccceeeCCC----------------CccEEEEEEeeE---
Q psy1176 110 AK---------A-S-KKKMMIKQGLLDKHGKPNENTPASYLAELEAAPN----------------KKPTYMKSNLIS--- 159 (232)
Q Consensus 110 ~~---------v-~-~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~----------------R~v~Iy~i~l~~--- 159 (232)
|. + + ++.++|++++++|+|+++|+||+ |||+|++|+ |+++||++++++
T Consensus 81 D~~G~vi~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~--ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~~~~ 158 (294)
T PRK02484 81 DASGEVVAETPLTQPLTEEEVDQAMTSFTGKITQIPPM--YSAVKVNGKKLYEYARAGEEVERPKRQVTIYQFERTSPLS 158 (294)
T ss_pred CCCCCEEEeccCCCCCCHHHHHHHHHhccCeEEEeCCh--hHeEeeCCHhHHHHHHCCCccccCceEEEEEEEEEecccc
Confidence 52 1 2 69999999999999999999999 999999983 689999999974
Q ss_pred eeC-CCceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 160 SDV-TLSTGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 160 ~~~-~~~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
|+. +.|.+.|+|+||+||||||||+|||++|||+|||++||||++|+|++++| ++||||.+.
T Consensus 159 ~~~~~~~~~~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~L~Rt~~G~f~l~~a-~~l~~l~~~ 221 (294)
T PRK02484 159 FDEDGLCRFSFRVACSKGTYVRTLAVDLGEKLGYAAHMSFLTRTASAGLTLEQA-VTLEEIAEK 221 (294)
T ss_pred ccccCCceEEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHc-CCHHHHHhh
Confidence 642 23789999999999999999999999999999999999999999999996 899999864
No 16
>cd00506 PseudoU_synth_TruB_like PseudoU_synth_TruB: Pseudouridine synthase, TruB family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruB, Saccharomyces cerevisiae Pus4, M. tuberculosis TruB, S. cerevisiae Cbf5 and human dyskerin. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E. coli TruB, M. tuberculosis TruB and S. cerevisiae Pus4, make psi55 in the T loop of tRNAs. Pus4 catalyses the formation of psi55 in both cytoplasmic and mitochondrial tRNAs. Psi55 is almost universally conserved. S. cerevisiae Cbf5 and human dyskerin are nucleolar proteins that, with the help of guide RNAs, make the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Cbf5/Dyskerin is the catalytic subunit of eukaryotic box H/ACA small nucleolar ribonucleoprotein (snoRNP) particles. Mutations in human dysker
Probab=100.00 E-value=3.7e-68 Score=461.46 Aligned_cols=184 Identities=35% Similarity=0.514 Sum_probs=174.7
Q ss_pred eEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccccc-
Q psy1176 33 GYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVAK- 111 (232)
Q Consensus 33 Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~~- 111 (232)
|||+||||+||||||||+++|++++.+||||+|||||+||||||+|+|+|||+++|+++.+|+|+++++||.+|||.|.
T Consensus 1 Gil~i~KP~g~tS~~vv~~ik~~~~~kKvGH~GTLDP~AsGvLiv~vG~aTkl~~~~~~~~K~Y~~~~~lG~~TdT~D~~ 80 (210)
T cd00506 1 GLFAVDKPQGPSSHDVVDTIRRIFLAEKVGHGGTLDPFATGVLVVGIGKATKLLKHLLAATKDYTAIGRLGQATDTFDAT 80 (210)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHhCccccCCCCcCCCcCeeEEEEEECHHHhhhHHHhcCCceEEEEEEECCcCCCCCCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999998752
Q ss_pred ---------ccCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEeeCCCce
Q psy1176 112 ---------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISSDVTLST 166 (232)
Q Consensus 112 ---------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~~~~~~~ 166 (232)
.++|+|+|++++++|+|+++|+||+ |||+|++| +|+++||++++++|+.+.+.
T Consensus 81 G~v~~~~~~~~it~e~l~~~l~~f~G~i~Q~pP~--ySAvKv~G~raYelAR~G~~v~~~~r~v~I~~i~ll~~~~~~~~ 158 (210)
T cd00506 81 GQVIEETPYDHITHEQLERALETLTGDIQQVPPL--YSAVKRQGQRAYELARRGLLVPDEARPPTIYELLCIRFNPPHFL 158 (210)
T ss_pred CCEEEEeCCCCCCHHHHHHHHHHCCCeEEEeCCc--hheEEECCHhHHHHHHCCCccccCcEeEEEEEEEEEEEcCCCcE
Confidence 1479999999999999999999999 99999998 46899999999999875568
Q ss_pred EEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHH
Q psy1176 167 GIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQE 219 (232)
Q Consensus 167 ~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l 219 (232)
+.|++.||+||||||||+|||++|||+|||++|||+++|+|+++|| ++++++
T Consensus 159 ~~~~v~cs~GTYIRsL~~Dig~~Lg~~a~l~~L~R~~~G~f~~~~a-~~l~~l 210 (210)
T cd00506 159 LEVEVVCETGTYIRTLIHDLGLELGVGAHVTELRRTRVGPFKVENA-VTLHHL 210 (210)
T ss_pred EEEEEEECCCcCHHHHHHHHHHHhCCcEEEEEEEEEEECCCchhhc-cchhhC
Confidence 9999999999999999999999999999999999999999999986 788874
No 17
>PRK00989 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=5.7e-68 Score=464.71 Aligned_cols=192 Identities=24% Similarity=0.333 Sum_probs=179.2
Q ss_pred ccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEcc-ccccchhhhcCCceEEEEEEecceecc
Q psy1176 30 IRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDR-ATRLVKSQQSAGKEYISIFKLHSAVEN 108 (232)
Q Consensus 30 ~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~-aTkl~~~l~~~~K~Y~a~~~lG~~tdt 108 (232)
.+||||+||||.||||||||+|+||+++.+||||+|||||+||||||||+|+ +||+++|+++.+|+|+++++||.+|||
T Consensus 7 ~~~G~l~i~KP~g~TS~dvv~~ikk~~~~kKvGH~GTLDP~AtGvLiv~vG~~aTkl~~~~~~~~K~Y~~~~~~G~~TdT 86 (230)
T PRK00989 7 SKEGILLVDKPQGRTSFSLIRSLTKLIGVKKIGHAGTLDPFATGVMVMLIGRKFTRLSDILLFEDKEYAAVAHLGTTTDS 86 (230)
T ss_pred CCCEEEEEeCCCCCCHHHHHHHHHHHhCCCcCCcCccCCCCCeeEEEEEECCchhhhHHHhcCCCcEEEEEEEECCcccC
Confidence 3689999999999999999999999999999999999999999999999998 799999999999999999999999999
Q ss_pred ccc---------ccCcHHHHHHHHhcCccCceecCCccCccceeeCCC----------------CccEEEEEEeeEeeCC
Q psy1176 109 VAK---------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPN----------------KKPTYMKSNLISSDVT 163 (232)
Q Consensus 109 ~~~---------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~----------------R~v~Iy~i~l~~~~~~ 163 (232)
+|. .+++.|+|++++++|+|.++|+||+ |||+|++|+ |+|+|| +++++|+.
T Consensus 87 ~D~~G~vi~~~~~~~~~~~i~~~l~~f~G~~~Q~PP~--ySAvKv~GkraYelAR~G~~ve~~~r~v~i~-~~ll~~~~- 162 (230)
T PRK00989 87 YDCDGKIVGRSKKIPTLEEVLSAASYFQGEIQQVPPM--FSAKKVQGKKLYEYARQGLSIERRPSTVQVH-LQLTKYEY- 162 (230)
T ss_pred CCCCCcEEEecCCCCCHHHHHHHHHhCcceEEeeCCh--hHeEEECCHhHHHHHhCCCccccCcEEEEEE-EEEEEeeC-
Confidence 862 2469999999999999999999999 999999983 567898 99999986
Q ss_pred CceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhchhhhh
Q psy1176 164 LSTGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMFEHIVS 227 (232)
Q Consensus 164 ~~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~~~~v~ 227 (232)
|.++|+|+||+||||||||||||.+|||+|||++|||+++|+|++++| ++++++..-+.-|+
T Consensus 163 -p~~~~~v~cs~GTYIRSL~~DiG~~Lg~~a~~~~LrRt~~G~f~l~~a-~~l~~l~~~~~~~~ 224 (230)
T PRK00989 163 -PLLHFVVQCSKGTYIRSIAHELGNMLGCGAYLEELRRLRSGSFSIDQC-IDGNLLDEPDFDVS 224 (230)
T ss_pred -CeEEEEEEEcCCCcHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHc-CCHHHHhcchhhhh
Confidence 799999999999999999999999999999999999999999999996 89999976655543
No 18
>PRK03287 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=1.1e-67 Score=478.58 Aligned_cols=191 Identities=26% Similarity=0.410 Sum_probs=178.9
Q ss_pred ccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccc
Q psy1176 30 IRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENV 109 (232)
Q Consensus 30 ~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~ 109 (232)
.+||||+||||.||||||||+++||+++.+|+||+|||||+||||||+|+|+|||+++|+++.+|+|+++++||.+|||+
T Consensus 7 ~~~Gil~i~KP~G~TS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~i~vG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~ 86 (298)
T PRK03287 7 TGSGLVVVDKPAGMTSHDVVARCRRLFGTRKVGHAGTLDPMATGVLVLGVERATKLLGHLTLTDKSYTATIRLGQATTTD 86 (298)
T ss_pred CcCeEEEEeCCCCCCHHHHHHHHHHHhCCCCCCcCccCCCcceeEEEEEeChhhhhhHHHhcCCcEEEEEEEeCccccCC
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cc---------c-cCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEeeCC
Q psy1176 110 AK---------A-SKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISSDVT 163 (232)
Q Consensus 110 ~~---------v-~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~~~~ 163 (232)
|. . ++++++|++++++|+|+++|+||+ |||+|++| +|+++||++++++|+.+
T Consensus 87 D~~G~v~~~~~~~~it~~~i~~~l~~f~G~i~Q~PP~--ySAvKv~Gkr~YelAR~G~~ve~~~R~v~I~~~~l~~~~~~ 164 (298)
T PRK03287 87 DAEGEVLASADASAVTDEAIAAAVAALTGEIMQVPSA--VSAIKVDGKRAYARVRAGEEVELPARPVTVSRFEVLAVRRD 164 (298)
T ss_pred CCCCCEEeecCCCCCCHHHHHHHHHhCcCeEEEeCCh--hHeEEECCHHHHHHHhCCCccccCcEEEEeeeeEEEEEecC
Confidence 62 1 479999999999999999999999 99999998 36789999999999753
Q ss_pred C--ceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhch
Q psy1176 164 L--STGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMFE 223 (232)
Q Consensus 164 ~--~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~~ 223 (232)
. +.++|+|+||+||||||||+|||++|||+|||++||||++|+|+++|| ++||||.+..
T Consensus 165 ~~~~~~~~~v~cskGTYIRSL~~Dig~~Lg~~a~~~~LrRt~~G~f~l~~a-~~l~~l~~~~ 225 (298)
T PRK03287 165 GDFIDLDVEVDCSSGTYIRALARDLGAALGVGGHLTALRRTRVGPFTLDQA-RTLDELAEEP 225 (298)
T ss_pred CCccEEEEEEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHc-cCHHHHHhhh
Confidence 2 378999999999999999999999999999999999999999999996 8999998643
No 19
>PRK14846 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=2e-67 Score=481.60 Aligned_cols=190 Identities=26% Similarity=0.352 Sum_probs=179.3
Q ss_pred ccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccc
Q psy1176 30 IRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENV 109 (232)
Q Consensus 30 ~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~ 109 (232)
|.||||+||||.||||||||+++||+++.+||||+|||||+||||||||+|+|||+++|+++.+|+|+++++||.+|||.
T Consensus 1 ~~nGiL~idKP~G~TS~dvv~~vrk~l~~kKVGH~GTLDP~AtGVL~i~vG~aTKl~~~l~~~~K~Y~a~~~lG~~TDT~ 80 (345)
T PRK14846 1 MSNYWLNIYKPRGISSAQLVSIVKKILGKTKIGHAGTLDVEAEGILPFAVGEATKLIHLLIDARKTYIFTVKFGMQTNSG 80 (345)
T ss_pred CCCeEEEEeCCCCCCHHHHHHHHHHHhCCCcCCcCccCCCcCceEEEEEEChhhhhhHHHhcCCceEEEEEEECCccCCC
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cc---------ccCcHHHHHHHHhcCccCceecCCccCccceeeCCC----------------CccEEEEEEeeEeeCCC
Q psy1176 110 AK---------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPN----------------KKPTYMKSNLISSDVTL 164 (232)
Q Consensus 110 ~~---------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~----------------R~v~Iy~i~l~~~~~~~ 164 (232)
|. +.++.++|++++++|+|+++|+||+ |||+|++|+ |+++||++++++|+.+.
T Consensus 81 D~eG~ii~~~~~~~~~e~l~~~L~~f~G~i~Q~PP~--ySAvKv~GkraYelARkG~~Vel~~R~V~I~~i~ll~f~~~~ 158 (345)
T PRK14846 81 DCAGKVIATKDCIPSQEEAYAVCSKFIGNVTQIPPA--FSALKVNGVRAYKLAREGKKVELKPRNITIYDLKCLNFDEKN 158 (345)
T ss_pred CCCCCEEEecCCCCCHHHHHHHHHhCcceEEeeCCh--hheEeECChhHHHHHhCCCccccCceeEEEEEEEEEEEcCCC
Confidence 62 2368899999999999999999999 999999983 67899999999998655
Q ss_pred ceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhc
Q psy1176 165 STGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMF 222 (232)
Q Consensus 165 ~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~ 222 (232)
+.++|+|.||+||||||||||||++|||+|||++||||++|+|++++| +++++|.++
T Consensus 159 ~~~~~~v~CSkGTYIRSLa~DIG~~Lg~~A~l~~LrRtr~G~F~l~~a-i~le~L~~~ 215 (345)
T PRK14846 159 ATATYYTECSKGTYIRTLAEDLALSLQSLGFVIELRRTQVGIFKEENA-IRIKSPDEI 215 (345)
T ss_pred cEEEEEEEECCCCcHHHHHHHHHHHHCCCEEEeEEEeEEECCCcHHHc-CCHHHHHhh
Confidence 789999999999999999999999999999999999999999999996 899999864
No 20
>cd02573 PseudoU_synth_EcTruB PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruB and M. tuberculosis TruB make psi55 in the T loop of tRNAs. Psi55 is nearly universally conserved. E. coli TruB is not inhibited by RNA containing 5-fluorouridine.
Probab=100.00 E-value=3e-67 Score=472.12 Aligned_cols=188 Identities=30% Similarity=0.471 Sum_probs=177.8
Q ss_pred eEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccccc-
Q psy1176 33 GYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVAK- 111 (232)
Q Consensus 33 Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~~- 111 (232)
|||+||||+||||||||+++||+++.+|+||+|||||+|||||++|+|+|||+++|+++.+|+|+++++||.+|||.|.
T Consensus 1 Gil~i~KP~G~tS~~vv~~vr~~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~~~~~~G~~TdT~D~~ 80 (277)
T cd02573 1 GILLLDKPAGLTSHDVVQKVRRLLGTKKVGHTGTLDPLATGVLPIALGEATKLSQYLLDADKTYRATVRLGEATDTDDAE 80 (277)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHhCcCccCCCCCCCCcCeEEEEEEEChHHhhHHHhcCCCcEEEEEEEECCcccCCCCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999999752
Q ss_pred ---------ccCcHHHHHHHHhcCccCceecCCccCccceeeCCC----------------CccEEEEEEeeEeeCCCce
Q psy1176 112 ---------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPN----------------KKPTYMKSNLISSDVTLST 166 (232)
Q Consensus 112 ---------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~----------------R~v~Iy~i~l~~~~~~~~~ 166 (232)
.+++.+++++++++|+|.++|+||+ |||+|++|+ |+++||++++++|+...|.
T Consensus 81 G~v~~~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~--ySAvkv~G~raYelAR~G~~ve~~~r~v~I~~i~ll~~~~~~~~ 158 (277)
T cd02573 81 GEIIETSPPPRLTEEEIEAALKAFTGEIEQVPPM--YSAVKVNGKRLYELARAGEEVERPPRKVTIYSLELLSFDPENPE 158 (277)
T ss_pred CCEEEecCCCCCCHHHHHHHHHHccCcEEeeCCh--hHeEeeCCccHHHHHhCCCccccCCeeEEEEEEEEEEecCCCCe
Confidence 2479999999999999999999999 999999983 6789999999999753479
Q ss_pred EEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhch
Q psy1176 167 GIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMFE 223 (232)
Q Consensus 167 ~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~~ 223 (232)
+.|+|+||+||||||||+|||.+|||+|||++||||++|+|+++|| ++|+||.+..
T Consensus 159 ~~~~v~cs~GTYIRsL~~Dig~~Lg~~a~~~~L~Rt~~G~f~~~~a-~~l~~l~~~~ 214 (277)
T cd02573 159 ADFEVECSKGTYIRSLARDLGKALGCGAHLSALRRTRSGPFTLEDA-ITLEELEALP 214 (277)
T ss_pred EEEEEEECCCCcHHHHHHHHHHHHCCCeEEEEEEEEEECCccHHHc-cCHHHHHhhh
Confidence 9999999999999999999999999999999999999999999996 8999998653
No 21
>PRK04099 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=8.8e-67 Score=467.26 Aligned_cols=185 Identities=22% Similarity=0.273 Sum_probs=174.0
Q ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceecccc
Q psy1176 31 RAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVA 110 (232)
Q Consensus 31 ~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~ 110 (232)
+||||+||||+||||||||+|+||+++.+|+||+|||||+|||||+||+|+|||+++|+++.+|+|+++++||.+|||.|
T Consensus 1 mngil~vdKP~g~tS~~vv~~ikk~~~~kKvGH~GTLDP~AtGvLiv~iG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~D 80 (273)
T PRK04099 1 MNRLFVANKPAGMSSNAFLSRLKRKYGVKKAGFSGTLDPFAKGVLIVAFGQYTKLFRFLKKTPKTYRATLWLGASSPSLD 80 (273)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhCCCccccCccCCCCCeeEEEEEEChHhhhHHHhccCCceEEEEEEECCcccCCC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999976
Q ss_pred cc---------cCcHHHHHHHHhcCccCceecCCccCccceeeCCC----------------CccEEEEEEeeEeeCCCc
Q psy1176 111 KA---------SKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPN----------------KKPTYMKSNLISSDVTLS 165 (232)
Q Consensus 111 ~v---------~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~----------------R~v~Iy~i~l~~~~~~~~ 165 (232)
.- ++++++|++++++|+|+++|+||+ |||+|++|+ |+++||++++++|+. |
T Consensus 81 ~e~i~~~~~~~~~~~~~i~~~l~~f~G~i~Q~PP~--ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~~~ll~~~~--p 156 (273)
T PRK04099 81 IENIESIQIIKPFDKDLIEKILKSLQGEISYTPPK--FSAKKINGKRAYELARKGEEFELKPITMEIFDCKLLSYNH--P 156 (273)
T ss_pred CcceEEeccCCCCCHHHHHHHHHhCcceEEEeCCh--hhEEeeCCHhHHHHHhCCcccccCceeEEEEEEEEEEEeC--C
Confidence 21 368999999999999999999999 999999983 679999999999986 7
Q ss_pred eEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHH
Q psy1176 166 TGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEH 220 (232)
Q Consensus 166 ~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~ 220 (232)
.++|+|+||+||||||||+|||.+|||+|||++|||+++|+|+++|+ .+|..++
T Consensus 157 ~~~f~v~cs~GTYIRSL~~Dig~~Lg~~a~m~~LrRt~~G~f~~~~~-~~l~pl~ 210 (273)
T PRK04099 157 FLTFEITVSEGAYIRSLGELIAKKLGVNGTLSSLERLSEGKFVYENE-KALNPLE 210 (273)
T ss_pred EEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHC-eecCChh
Confidence 99999999999999999999999999999999999999999999996 4555443
No 22
>cd02572 PseudoU_synth_hDyskerin PseudoU_synth_hDyskerin_Like: Pseudouridine synthase, human dyskerin like. This group consists of eukaryotic and archeal pseudouridine synthases similar to human dyskerin, Saccharomyces cerevisiae Cbf5, and Drosophila melanogaster Mfl (minifly protein). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactor is required. S. cerevisiae Cbf5 and human dyskerin are nucleolar proteins that, with the help of guide RNAs, make the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Cbf5/Dyskerin is the catalytic subunit of eukaryotic box H/ACA small nucleolar ribonucleoprotein (snoRNP) particles. D. melanogaster mfl hosts in its fourth intron, a box H/AC snoRNA gene. In addition dyskerin is likely to have a structural role in the telomerase complex. Mutations in human dyskerin cause X-linked dyskeratosis congenitas. Mutations in Drosophila Mfl r
Probab=100.00 E-value=1.9e-66 Score=442.12 Aligned_cols=179 Identities=51% Similarity=0.800 Sum_probs=171.1
Q ss_pred ceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccccc
Q psy1176 32 AGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVAK 111 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~~ 111 (232)
||||+||||.||||||||+|+||+++.+||||+|||||+||||||+|+|+|||+++|+++.+|+|++++.||..
T Consensus 2 ~g~l~i~Kp~g~tS~~~v~~~k~~~~~kkvGH~GTLDp~A~GvLiv~~g~~Tk~~~~~~~~~K~Y~a~v~~g~~------ 75 (182)
T cd02572 2 YGVINLDKPSGPSSHEVVAWIKRILGVEKTGHSGTLDPKVTGCLPVCIDRATRLVKSQQEAGKEYVCVMRLHDD------ 75 (182)
T ss_pred CeEEEEecCCCCCHHHHHHHHHHHhCCCccCcCCCCCCcCeeEEEEEECHHhhhhHHHhCCCCEEEEEEEECCc------
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred ccCcHHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEEEEeeEeeCCCceEEEEEEeeCCcchHHHHHHHHhhcC
Q psy1176 112 ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQAGTYVRTYCVHMGLVLG 191 (232)
Q Consensus 112 v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTYIRsL~~DiG~~Lg 191 (232)
+++|+|++++++|+|+++|+||+ |||+|++ .|+++||++++++|+...|.++|+|+||+||||||||+|||+.||
T Consensus 76 --it~e~l~~~l~~f~G~i~Q~pP~--~SA~K~~-~R~v~I~~i~l~~~~~~~~~~~~~v~cs~GTYIRsL~~dlg~~Lg 150 (182)
T cd02572 76 --VDEEKVRRVLEEFTGAIFQRPPL--ISAVKRQ-LRVRTIYESKLLEYDGERRLVLFRVSCEAGTYIRTLCVHIGLLLG 150 (182)
T ss_pred --CCHHHHHHHHHHCCCcEEeeCCH--hheecCC-ceEEEEEEEEEEEEcCCCcEEEEEEEECCCcCHHHHHHHHHHHHC
Confidence 57899999999999999999999 9999986 999999999999998645799999999999999999999999999
Q ss_pred CcEEEeeEEEEEEeCc-cCcccccChHHHHhc
Q psy1176 192 VGAQMIELRRNRSGIQ-SEEDGLVTFRQEHMF 222 (232)
Q Consensus 192 ~~A~l~~LrRt~~G~f-~l~da~~~l~~l~~~ 222 (232)
|+|||++||||++|+| ++++| ++++|+.+.
T Consensus 151 ~~a~l~~L~R~~~G~f~~~~~~-~~~~~~~~~ 181 (182)
T cd02572 151 VGAHMQELRRTRSGPFSEEDNM-VTLHDVLDA 181 (182)
T ss_pred CCeEEEEEEeEEEcCcCchhcc-ccHHHHHhh
Confidence 9999999999999999 77775 899999753
No 23
>PRK14122 tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=5.8e-66 Score=469.34 Aligned_cols=185 Identities=27% Similarity=0.456 Sum_probs=174.5
Q ss_pred EEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccccc--
Q psy1176 34 YVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVAK-- 111 (232)
Q Consensus 34 il~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~~-- 111 (232)
||+||||.||||||||+++||+++.+||||+|||||+|||||+||+|+|||+++|+...+|+|+++++||.+|||.|.
T Consensus 3 il~idKP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~i~iG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~D~eG 82 (312)
T PRK14122 3 VYAVDKPLGLTSHDVVNRARRALGTRRVGHTGTLDPLATGVLVLCTDDSTKLVPFLSAEDKEYLAWVSFGATTPTLDAEG 82 (312)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcCeeeEEEEEChhhhhhHHhcCCCceEEEEEEECCcCCCCCCCC
Confidence 899999999999999999999999999999999999999999999999999999999999999999999999999752
Q ss_pred -------c-cCcHHHHHHHHhcCccCceecCCccCccceeeCCC----------------CccEEEEEEeeEeeCC----
Q psy1176 112 -------A-SKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPN----------------KKPTYMKSNLISSDVT---- 163 (232)
Q Consensus 112 -------v-~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~----------------R~v~Iy~i~l~~~~~~---- 163 (232)
. +++.++|++++++|+|.++|+||+ |||+|++|+ |+++||++++++|+..
T Consensus 83 ~i~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~--ySAvKv~GkraYelAR~G~~vel~~R~v~I~~i~ll~~~~~~~~~ 160 (312)
T PRK14122 83 PISEEAPVSPLDEKDLEAALPGFLGLTEQVPPQ--YSAIKVGGVRAYEAARAGGALELPARPVVYHELELLAFEPSVAPI 160 (312)
T ss_pred CEEEecCCCCCCHHHHHHHHHhCcCeEEEeCCh--HHeEEECCeEHHHHHhCCCccccCCeeEEEEEEEEEEeccccccc
Confidence 1 479999999999999999999999 999999983 6789999999998641
Q ss_pred ----------------------------CceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccC
Q psy1176 164 ----------------------------LSTGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVT 215 (232)
Q Consensus 164 ----------------------------~~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~ 215 (232)
.|.+.|+++||+||||||||+|||++|||+|||++||||++|+|+++|| ++
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~cSkGTYIRSLa~DiG~~Lg~~a~m~~LrRt~~G~f~l~~a-~~ 239 (312)
T PRK14122 161 PRPIAPSAEGWTPDPRGRPVTLPEPLGEYPTALLRLVVGSGTYVRSFARDLGAALGVPAHLSGLVRTRVGRYGLEDA-VS 239 (312)
T ss_pred ccccccccccccccccccccccccccccCceEEEEEEeCCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCCcHHHc-CC
Confidence 1579999999999999999999999999999999999999999999996 89
Q ss_pred hHHHHh
Q psy1176 216 FRQEHM 221 (232)
Q Consensus 216 l~~l~~ 221 (232)
|+||.+
T Consensus 240 l~~l~~ 245 (312)
T PRK14122 240 LEDLAE 245 (312)
T ss_pred HHHHhh
Confidence 999975
No 24
>COG0130 TruB Pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7e-66 Score=461.47 Aligned_cols=191 Identities=39% Similarity=0.624 Sum_probs=177.4
Q ss_pred CCCCccchhhhccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEE
Q psy1176 19 KSPLQRTIQEYIRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYIS 98 (232)
Q Consensus 19 ~~~~~~~~~~~~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a 98 (232)
..|.+|++..+. ||+++|||.|+|||||++|+||+|+.+|+||+|||||+||||||+|+|+|||+++|+++.+|+|+|
T Consensus 4 ~~~~~~~i~~~~--Gil~ldKP~G~tS~~~v~~vkkil~~~K~GH~GTLDP~atGvLpi~ig~aTKl~~~l~~~~K~Y~a 81 (271)
T COG0130 4 YYPEKRPIEIYI--GVINLDKPPGPTSHEVVAWVKRILGVEKAGHGGTLDPLATGVLPICLGEATKLVQYLLDADKEYVA 81 (271)
T ss_pred cCcccccccccc--ceEEeeCCCCCCHHHHHHHHHHHhCccccccccccCCcccceEEEEechhHhHHHHHhhCCcEEEE
Confidence 467788876554 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEecceecccccccCcHHHHHHHHhcCccCceecCCccCccceeeC-CCCccEEEEEEeeEeeCCCceEEEEEEeeCCc
Q psy1176 99 IFKLHSAVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAA-PNKKPTYMKSNLISSDVTLSTGIIWLKCQAGT 177 (232)
Q Consensus 99 ~~~lG~~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~-G~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GT 177 (232)
+++||.+|+ +.|+|++++++|+|+|+|+||+ |||+|+. -.|.|+||++++++++. |.+.|+|+||+||
T Consensus 82 ~~~lG~~t~-------~~e~i~~~l~~F~G~I~Q~PP~--~SAvK~~v~~R~V~i~~l~~~~~~~--~~~~~~v~CskGT 150 (271)
T COG0130 82 TVRLGDQTD-------SEEEVRAALEAFTGEIYQIPPM--FSAVKREVERRKITIYDLLELDFDR--NLVTLRVECSKGT 150 (271)
T ss_pred EEEeCCcCC-------CHHHHHHHHHhcceeeEecCCc--hhhccceEeeEEEEEEEeeeccCCC--ceEEEEEEEecCc
Confidence 999999997 7899999999999999999999 9999954 13778888888888865 7999999999999
Q ss_pred chHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhch
Q psy1176 178 YVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMFE 223 (232)
Q Consensus 178 YIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~~ 223 (232)
||||||+|||+.|||+|||++||||++|+|+++|+ ++++++....
T Consensus 151 YIRtL~~DlG~~LG~gahm~~LrRt~~g~f~~~~~-~~l~~l~~~~ 195 (271)
T COG0130 151 YIRTLARDLGEALGCGAHMSELRRTRVGPFSEEDA-VTLELLDELD 195 (271)
T ss_pred CHHHHHHHHHHHHCCccchhhhccccccccccccc-cchhhHHHHH
Confidence 99999999999999999999999999999999996 8898887763
No 25
>PRK02193 truB tRNA pseudouridine synthase B; Provisional
Probab=100.00 E-value=9.8e-65 Score=455.68 Aligned_cols=176 Identities=25% Similarity=0.338 Sum_probs=167.3
Q ss_pred EEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccccc--
Q psy1176 34 YVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVAK-- 111 (232)
Q Consensus 34 il~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~~-- 111 (232)
||+||||.||||||||+++||+++.+|+||+|||||+||||||+|+|+|||+++|+++.+|+|+++++||.+|||.|.
T Consensus 2 il~i~KP~G~tS~dvv~~vrr~~~~kKvGH~GTLDP~AtGvL~v~vG~aTkl~~~l~~~~K~Y~a~~~lG~~TdT~D~~G 81 (279)
T PRK02193 2 IKLLYKPKGISSFKFIKNFAKTNNIKKIGHTGTLDPLASGLLLVATDEDTKLIDYLDQKDKTYIAKIKFGFISTTYDSEG 81 (279)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCCccccCccCCCcCeeEEEEEEChhhhhhHHhccCCcEEEEEEEeCCcccCCCCCC
Confidence 799999999999999999999999999999999999999999999999999999999999999999999999999862
Q ss_pred --------ccCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeEeeCCCceE
Q psy1176 112 --------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLISSDVTLSTG 167 (232)
Q Consensus 112 --------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~~~~~~~~~ 167 (232)
..++++++++++++|+|+++|+||+ |||+|++| +|+++||++++++|+.+.+.+
T Consensus 82 ~i~~~~~~~~~~~~~l~~~l~~f~G~i~Q~PP~--ySAvKv~GkraYelAR~G~~ve~~~r~v~I~~i~ll~~~~~~~~~ 159 (279)
T PRK02193 82 QIINVSQNIKVTKENLEEALNNLVGSQKQVPPV--FSAKKVNGKRAYDLARQGKQIELKPIEIKISKIELLNFDEKLQNC 159 (279)
T ss_pred CEEeecCCCCCCHHHHHHHHHhCcCeEEEeCCh--HHeEeeCCHhHHHHHhCCceeccCCeeEEEEEEEEEEEcCCCceE
Confidence 2378999999999999999999999 99999998 367899999999998644589
Q ss_pred EEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcc
Q psy1176 168 IIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEED 211 (232)
Q Consensus 168 ~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~d 211 (232)
.|+|+||+||||||||||||++|||+|||++||||++|+|++++
T Consensus 160 ~~~v~cskGTYIRsL~~DiG~~Lg~~a~~~~LrRt~~G~f~~~~ 203 (279)
T PRK02193 160 VFMWVVSRGTYIRSLIHDLGKMLKTGAYMSDLERTKIGNLDKNF 203 (279)
T ss_pred EEEEEECCCcCHHHHHHHHHHHHCCCEEEEEEEeEEECCcCHHH
Confidence 99999999999999999999999999999999999999999987
No 26
>cd02867 PseudoU_synth_TruB_4 PseudoU_synth_TruB_4: Pseudouridine synthase homolog 4. This group consists of Eukaryotic TruB proteins similar to Saccharomyces cerevisiae Pus4. S. cerevisiae Pus4, makes psi55 in the T loop of both cytoplasmic and mitochondrial tRNAs. Psi55 is almost universally conserved. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi).
Probab=100.00 E-value=1e-61 Score=441.49 Aligned_cols=189 Identities=20% Similarity=0.181 Sum_probs=173.5
Q ss_pred eEEEEeCCCCCCHHHHHHHHHHHhcc-----------------------------ccccCCCCCCCCceEEEEEEEcccc
Q psy1176 33 GYVNLDKPSNPSSHEVVAWIKRILRC-----------------------------EKTGHSGTLDPKTSGCLIVCIDRAT 83 (232)
Q Consensus 33 Gil~v~KP~G~tS~~vv~~ik~~l~~-----------------------------~KvGH~GTLDP~AtGvLvv~iG~aT 83 (232)
|||+||||+|||||+||+++|++|+. +||||+|||||+||||||||+|+||
T Consensus 1 Gil~i~KP~G~TS~~vv~~lk~~l~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KiGH~GTLDPlAsGVLvvgvG~aT 80 (312)
T cd02867 1 GVFAINKPSGITSAQVLNDLKPLFLNSALFKDKIQRAVAKRGKKARRRKGRKRSKLKIGHGGTLDPLATGVLVVGVGAGT 80 (312)
T ss_pred CeEEEeCCCCCCHHHHHHHHHHHhcccccccchhhhhhhhhhhhhhhhccccccccccccccccCCccceeEEEEECcHH
Confidence 89999999999999999999999985 7999999999999999999999999
Q ss_pred ccchhhhcCCceEEEEEEecceeccccc---c-------cCcHHHHHHHHhcCccCceecCCccCccceeeCC-------
Q psy1176 84 RLVKSQQSAGKEYISIFKLHSAVENVAK---A-------SKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP------- 146 (232)
Q Consensus 84 kl~~~l~~~~K~Y~a~~~lG~~tdt~~~---v-------~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G------- 146 (232)
|+++|+++.+|+|++++.||.+|||+|. | ++|.|+|++++++|+|+++|+||+ |||+|++|
T Consensus 81 K~l~~~l~~~K~Y~~~~~lG~~TdT~D~eG~Ii~~~~~~~it~e~i~~~l~~F~G~i~Q~PP~--ySAvKv~GkrlYeyA 158 (312)
T cd02867 81 KQLQDYLSCSKTYEATGLFGASTTTYDREGKILKKKPYSHITREDIEEVLAKFRGDIKQVPPL--YSALKMDGKRLYEYA 158 (312)
T ss_pred HHHHHHhcCCceEEEEEEeCCcccCCCCCCCEEEecCCCCCCHHHHHHHHHhcceeeeeeCcc--hheeeeCCHHHHHHH
Confidence 9999999999999999999999999862 2 479999999999999999999999 99999997
Q ss_pred -----------CCccEEEEEEeeEeeCCCceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcc----
Q psy1176 147 -----------NKKPTYMKSNLISSDVTLSTGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEED---- 211 (232)
Q Consensus 147 -----------~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~d---- 211 (232)
+|.|+||++++++++.+.|.+.|+|+||+|||||||++|||.+||++|||++|||+++|+|++++
T Consensus 159 R~G~~v~~~~~~R~V~I~~~~l~~~~~~~~~~~~~v~cskGTYIRsL~~Dig~~Lg~~a~~~~L~Rt~~g~f~~~~~~~~ 238 (312)
T cd02867 159 REGKPLPRPIERRQVVVSELLVKDWIEPGPLFTRTVEEEGKQYERSVVKMLGKELKTFAEVTELTATAEGDPVEEVEATH 238 (312)
T ss_pred hCCccccCCCCCceEEEEEEEEEeccCCCCeEEEEEEeCCcCCHHHHHHHHHHHhCCCeEEEEEEeeeecCccccccccc
Confidence 35789999999998754579999999999999999999999999999999999999999999872
Q ss_pred -cccChHHHHhch
Q psy1176 212 -GLVTFRQEHMFE 223 (232)
Q Consensus 212 -a~~~l~~l~~~~ 223 (232)
-.+.++|.+...
T Consensus 239 ~~~~~~~~~~~~~ 251 (312)
T cd02867 239 EESKRKSEVEEEA 251 (312)
T ss_pred CCCcccChhhhcc
Confidence 236666666554
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=100.00 E-value=1.1e-56 Score=393.48 Aligned_cols=191 Identities=20% Similarity=0.236 Sum_probs=176.9
Q ss_pred eEEEEeCCCCCCHHHHHHHHHH----HhccccccCC-CCCCCCceEEEEEEEccccccchhhhcC--CceEEEEEEecce
Q psy1176 33 GYVNLDKPSNPSSHEVVAWIKR----ILRCEKTGHS-GTLDPKTSGCLIVCIDRATRLVKSQQSA--GKEYISIFKLHSA 105 (232)
Q Consensus 33 Gil~v~KP~G~tS~~vv~~ik~----~l~~~KvGH~-GTLDP~AtGvLvv~iG~aTkl~~~l~~~--~K~Y~a~~~lG~~ 105 (232)
|||+||||+||+|+++++.+++ .++.+|+||+ |||||+|||||++|+|++||+++++++. +|+|++++.||.+
T Consensus 1 GilvvnKP~Gi~s~~~~~~~~~~l~~~~~~~k~~~~vhrLD~~aSGvl~~a~~~~tkl~~~~~~~~~~K~Y~~~~~lg~~ 80 (226)
T cd02868 1 GLFAVYKPPGVHWKHVRDTIESNLLKYFPEDKVLVGVHRLDAFSSGVLVLGVNHGNKLLSHLYSNHPTRVYTIRGLLGKA 80 (226)
T ss_pred CEEEEEcCCCCChhHHHHHHHHHHHHHccccceeeEccccCCCCceEEEEEeChhHhHHHHHHhcCCCeEEEEEEEEccc
Confidence 8999999999999999998877 4467889999 9999999999999999999999999985 7999999999999
Q ss_pred eccccc----------ccCcHHHHHHHHhcCccCceecCCccCccceeeCC----------------CCccEEEEEEeeE
Q psy1176 106 VENVAK----------ASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP----------------NKKPTYMKSNLIS 159 (232)
Q Consensus 106 tdt~~~----------v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G----------------~R~v~Iy~i~l~~ 159 (232)
|||+|. .+++.++|++++++|+|.+.|.||+ |||+|++| +|+++||++++++
T Consensus 81 TdT~D~~G~v~~~~~~~~it~~~i~~~l~~f~g~~~q~~p~--~sa~kv~GkraYelAR~G~~ve~~~r~v~I~~i~l~~ 158 (226)
T cd02868 81 TENFFHTGRVIEKTTYDHITREKIERLLAVIQSGHQQKAFE--LCSVDDQSQQAAELAARGLIRPADKSPPIIYGIRLLE 158 (226)
T ss_pred cCCCCCCCCEEEecCCCCCCHHHHHHHHHHhhCCceEECCc--eEEEeeCCHHHHHHHHCCCccCCCCcceEEEEEEEEE
Confidence 999762 2479999999999999999999999 99999988 3689999999999
Q ss_pred eeCCCceEEEEEEeeCCc--chHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhchhhhhcc
Q psy1176 160 SDVTLSTGIIWLKCQAGT--YVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMFEHIVSTW 229 (232)
Q Consensus 160 ~~~~~~~~~~~v~cs~GT--YIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~~~~v~~~ 229 (232)
|+. |.++|+|+||+|| ||||||+|||.+|||+|||++|||+++|+|++++| ++++++ ++++|++||
T Consensus 159 ~~~--p~~~~~v~cskGT~~YIRsL~~Dig~~Lg~~a~~~~L~R~~~G~f~~~~a-~~~~~~-~~~~i~~~~ 226 (226)
T cd02868 159 FRP--PEFTLEVQCINETQEYLRKLIHEIGLELRSSAVCTQVRRTRDGPFTVDDA-LLRKQW-NLQNIISNI 226 (226)
T ss_pred ecC--CeEEEEEEEECCCHHHHHHHHHHHHHHhCCcEEEEEEEeeEECCCCHHHc-ccHHHc-ChhhHHhhC
Confidence 976 7999999999999 99999999999999999999999999999999997 788776 889999986
No 28
>PF01509 TruB_N: TruB family pseudouridylate synthase (N terminal domain); InterPro: IPR002501 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. TruB is responsible for the pseudouridine residue present in the T loops of virtually all tRNAs. TruB recognises the preformed 3-D structure of the T loop primarily through shape complementarity. It accesses its substrate uridyl residue by flipping out the nucleotide and disrupts the tertiary structure of tRNA []. This entry represents pseudouridine synthase TruB, as well as Cbf5p that modifies rRNA [].; GO: 0006396 RNA processing; PDB: 1SGV_B 2AUS_C 3UAI_A 3U28_A 2RFK_A 3LWV_A 3HJY_A 3HAX_A 3LWO_A 3HAY_A ....
Probab=100.00 E-value=5e-44 Score=295.87 Aligned_cols=123 Identities=27% Similarity=0.432 Sum_probs=111.7
Q ss_pred HHHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceeccccc----------ccCcHHHHHHH
Q psy1176 53 KRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVAK----------ASKKKMMIKQG 122 (232)
Q Consensus 53 k~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~~----------v~~t~e~l~~~ 122 (232)
||+++.+||||+|||||+||||||+|+|+|||+++++++.+|+|+++++||.+|||+|. .+++.|+|+++
T Consensus 1 r~~~~~~KvGH~GTLDP~AsGvL~v~vg~~Tkl~~~l~~~~K~Y~~~~~lG~~TdT~D~~G~v~~~~~~~~it~e~l~~~ 80 (149)
T PF01509_consen 1 RRILGIKKVGHGGTLDPFASGVLVVGVGKATKLLSYLQNSDKEYVATIRLGVETDTYDIEGEVTETKPYDHITEEDLEKV 80 (149)
T ss_dssp HHHTTBSSEEESS-SSTT-EEEEEEEEGGGGGGHHHHTTSEEEEEEEEEESSEETTSBTTSSEEEE---TT--HHHHHHH
T ss_pred CcccCcceeccccccCCcceEEEEEEECCcchHHHHhhccCCEEEEEEEEEEEeCCcceeeeEEEeeccccCCHHHHHHH
Confidence 68899999999999999999999999999999999999999999999999999999862 24799999999
Q ss_pred HhcCccCceecCCccCccceeeCCC----------------CccEEEEEEeeEeeCCCceEEEEEEeeCCcch
Q psy1176 123 LLDKHGKPNENTPASYLAELEAAPN----------------KKPTYMKSNLISSDVTLSTGIIWLKCQAGTYV 179 (232)
Q Consensus 123 l~~f~G~i~Q~PP~~~ySAvK~~G~----------------R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTYI 179 (232)
+++|+|+++|+||+ |||+|++|. |+++||++++++|+. |.+.|+|+||+||||
T Consensus 81 l~~f~G~~~Q~pP~--ySAvki~G~raY~lAR~G~~v~~~~r~v~I~~i~l~~~~~--~~~~~~v~cs~GTYi 149 (149)
T PF01509_consen 81 LAKFQGEIEQVPPM--YSAVKINGKRAYELARKGEEVELPPRPVTIYSIELLSFNP--PEFTFEVHCSKGTYI 149 (149)
T ss_dssp HHHTSEEEEES-SS--SSSSECTTCEHHHHHHTTSSTSSS-EEEEEEEEEEEEEET--TEEEEEEEECTTTTH
T ss_pred HHhCcCCEeeeCch--heeEcCCCccHHHHHHCCCccCCCCeeEEEEEEEEEEEcC--CeEEEEEEEcCcccC
Confidence 99999999999999 999999984 578999999999987 799999999999998
No 29
>KOG2529|consensus
Probab=100.00 E-value=2.5e-35 Score=273.43 Aligned_cols=219 Identities=53% Similarity=0.798 Sum_probs=201.7
Q ss_pred CCcccceeccCCCCCCCCCCCCccchhhhccceEEEEeCCCCCCHHHHHHHHHHHhccccccCCCCCCCCceEEEEEEEc
Q psy1176 1 NFDKLNVRTNHYTPLPFGKSPLQRTIQEYIRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCID 80 (232)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Gil~v~KP~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG 80 (232)
||++++++++|+||...+.+|++|.+.+....|+++||||++++||++++|++++|...|.||.|||||.+||+|++|++
T Consensus 37 ~~~~~~v~t~~~t~~~~~~splk~~i~~~~~sgv~~i~kpa~pss~e~~swvk~iL~~ek~Gh~gTlDP~vtg~l~v~~~ 116 (395)
T KOG2529|consen 37 NMDKLLVRTGHYTPSAAGVSPLKRGIKEYSRSGVINIDKPANPSSHEVVSWVKNILRVEKTGHSGTLDPEVTGCLIVCID 116 (395)
T ss_pred HHHhhhhhhcCcCchhhhcCHHHHhHHhHhhcCceeccCCCCCchHHHHHHHHHHhhHHHhCCCCCCCccccceEEEEee
Confidence 67899999999999889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccchhhhcCCceEEEEEEecceecccccccCcHHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEEEEeeEe
Q psy1176 81 RATRLVKSQQSAGKEYISIFKLHSAVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISS 160 (232)
Q Consensus 81 ~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~ 160 (232)
++||++...+...|+|.+.+++.-+.++.. .+.+++....|...|.||. -+|+|.. .|...+|+.+++++
T Consensus 117 ~~tr~~~s~~s~gk~yvg~~~lt~~v~~~~-------k~~~~~e~l~g~l~~~~pl--~~~~kr~-~~v~~~y~s~~ie~ 186 (395)
T KOG2529|consen 117 RATRLLKSQQSAGKEYVGIGKLTPEVEDAL-------KLHQKLEHLYGALFQRPPL--ISAVKRV-LRVRTLYESKIIEY 186 (395)
T ss_pred cccccccchhccCcEEEEEEecCcchhhhh-------hhccchhhhhhhhccCCch--hhhccce-eEeechhhhhcccc
Confidence 999999999999999987777666654333 4447888889999999999 9999888 88889999999999
Q ss_pred eCCCceEEEEEEeeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcccccChHHHHhchhhhhcc
Q psy1176 161 DVTLSTGIIWLKCQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGLVTFRQEHMFEHIVSTW 229 (232)
Q Consensus 161 ~~~~~~~~~~v~cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~~~l~~l~~~~~~v~~~ 229 (232)
+.+.+...|++.|-.|||+|+++-.+|..||++++|.++||.+.|.-..++..++++|..+.+.+-.|.
T Consensus 187 d~~~~l~~f~~~~~~~t~~rt~~~~lg~ll~~g~k~~E~~r~r~~~~~E~~~~~t~~d~~~~q~~~d~~ 255 (395)
T KOG2529|consen 187 DRDYPLLRFGVSCEAGTYKRTMCVHLGLLLGFGGKMQELRRVRSGICSEEDDMLTEHDEQDAQFEYDTE 255 (395)
T ss_pred cccchhccccccccccchHHHHHHhhhhHhhhcchhhhhhhcccccccccccccccccchhhhhhhccc
Confidence 998889999999999999999999999999999999999999999999999779999998877665543
No 30
>KOG2559|consensus
Probab=99.95 E-value=2.8e-28 Score=214.52 Aligned_cols=192 Identities=20% Similarity=0.222 Sum_probs=162.7
Q ss_pred cceEEEEeCCCCCCHHHHHHHHHHHhc----------------------------------------------------c
Q psy1176 31 RAGYVNLDKPSNPSSHEVVAWIKRILR----------------------------------------------------C 58 (232)
Q Consensus 31 ~~Gil~v~KP~G~tS~~vv~~ik~~l~----------------------------------------------------~ 58 (232)
++|+|+||||+|+.|..+.+.|-+.+- .
T Consensus 9 l~Gvl~VYKpsGik~khlr~~i~~~i~k~~~~~~~~s~~q~~~~~~g~~eg~e~~~~~~~~~sV~~~~nhPlv~g~s~~~ 88 (318)
T KOG2559|consen 9 LSGVLCVYKPSGIKSKHLRKLITRKIAKSVSDIESTSRIQLPLISIGVIEGHEKSLVVVGRNSVADYRNHPLVSGRSIRQ 88 (318)
T ss_pred hcceeEEecCCCccHHHHHHHHHHHHHhhhcccCCCcccccceEeecccccccceeeeecccchhhhccCCcccCcchhh
Confidence 689999999999999999988877651 1
Q ss_pred ccccCCCCCCCCceEEEEEEEccccccchhhhc--CCceEEEEEEecceecccccccCcHHHHHHHHhcCccCceecCCc
Q psy1176 59 EKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQS--AGKEYISIFKLHSAVENVAKASKKKMMIKQGLLDKHGKPNENTPA 136 (232)
Q Consensus 59 ~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~--~~K~Y~a~~~lG~~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~ 136 (232)
.||+-.-.||-.|+|||++|+|.++++++-++. ....|+..+++-..+ +.| ++|++.|+++++.++|..+-...+
T Consensus 89 ~~V~v~h~l~~~~sgvl~~gVghgc~~i~~~mlg~aT~~~r~Dgri~~~~-n~d--hVs~~ri~~vla~lq~shq~a~f~ 165 (318)
T KOG2559|consen 89 EDVQVVHVLPLATSGVLLFGVGHGCESIPELMLGSATNVYRIDGRIKKSE-NID--HVSKHRIEKVLARLQSSHQSASFR 165 (318)
T ss_pred cceeeEEeecccccceEEEecCcchhhhhhhhhccchhccCccceEeeec-ccc--hhhHHHHHHHHHHHHHHHHHHHHH
Confidence 367777789999999999999999999985543 345555554443333 233 369999999999999998888888
Q ss_pred cCccceeeC----------C-CC-----ccEEEEEEeeEeeCCCceEEEEEEeeCC--cchHHHHHHHHhhcCCcEEEee
Q psy1176 137 SYLAELEAA----------P-NK-----KPTYMKSNLISSDVTLSTGIIWLKCQAG--TYVRTYCVHMGLVLGVGAQMIE 198 (232)
Q Consensus 137 ~~ySAvK~~----------G-~R-----~v~Iy~i~l~~~~~~~~~~~~~v~cs~G--TYIRsL~~DiG~~Lg~~A~l~~ 198 (232)
|+.+..+ | +| +..||.|+|..|+. |.|.++++|+.. .|+|.|+|+||..||+.|+|++
T Consensus 166 --~~nvDl~tqEAyElA~RGl~Rp~~~s~~ivygI~l~~F~~--P~F~le~qc~~Etqe~Lr~LVh~igl~L~T~a~c~q 241 (318)
T KOG2559|consen 166 --HANVDLETQEAYELARRGLPRPQLPSSQIVYGIDLNWFRS--PKFSLETQCSGETQEMLRQLVHHIGLNLGTEATCIQ 241 (318)
T ss_pred --hcCCCchhHHHHHHHHccCCCcCCCCCceEEEEeeeeecC--CccEEEEeeccccHHHHHHHHHHHhhcccceeeeee
Confidence 9998875 3 34 46899999999987 899999999997 6999999999999999999999
Q ss_pred EEEEEEeCccCcccccChHHHHhchhhhhccee
Q psy1176 199 LRRNRSGIQSEEDGLVTFRQEHMFEHIVSTWVL 231 (232)
Q Consensus 199 LrRt~~G~f~l~da~~~l~~l~~~~~~v~~~~~ 231 (232)
|||++.|+|++++|+ |+..+++++|.+|+|+
T Consensus 242 lrr~r~g~F~~d~aL--Lr~qw~L~nI~~nir~ 272 (318)
T KOG2559|consen 242 LRRQRFGPFGSDNAL--LRKQWNLQNIARNIRL 272 (318)
T ss_pred eeeeccCCCCccHHH--HHHhhccHHHHHHHHH
Confidence 999999999999987 9999999999999875
No 31
>PF08068 DKCLD: DKCLD (NUC011) domain; InterPro: IPR012960 This is an N-terminal domain of dyskerin-like proteins, which is often associated with the TruB N-terminal(IPR002501 from INTERPRO) and PUA(IPR002478 from INTERPRO) domains [].; PDB: 3ZV0_D 3UAI_A 3U28_A 2AUS_C 2RFK_A 3LWV_A 3HJY_A 3HAX_A 3LWO_A 3HAY_A ....
Probab=99.56 E-value=1.5e-15 Score=107.10 Aligned_cols=49 Identities=67% Similarity=1.190 Sum_probs=38.7
Q ss_pred CCcccceeccCCCCCCCCCCCCccchhhhccceEEEEeCCCCCCHHHHH
Q psy1176 1 NFDKLNVRTNHYTPLPFGKSPLQRTIQEYIRAGYVNLDKPSNPSSHEVV 49 (232)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Gil~v~KP~G~tS~~vv 49 (232)
||++|++|+.++|++.+|+.|.+|++.+++..||+++|||+|+|||+||
T Consensus 11 n~~~~~vr~~~~T~~~~G~~P~~R~i~~~i~~GvinlDKP~gPtSHeVv 59 (59)
T PF08068_consen 11 NYDELNVRSEHYTPPPYGCSPLKRPIEEYIKYGVINLDKPSGPTSHEVV 59 (59)
T ss_dssp TGGGEEESST----TTSS--GGGS-HHHHHHTEEEEEEE-SSS-HHHHH
T ss_pred CcceeEEEecccCCcccCcCcccCCHHHHHhCCcEEeeCCCCCCccccC
Confidence 6889999999999999999999999999999999999999999999997
No 32
>TIGR01213 conserved hypothetical protein TIGR01213. Members of this family show twilight-zone similarity to several predicted RNA pseudouridine synthases. All trusted members of this family are archaeal. Several eukaryotic homologs lack N-terminal homology including two CXXC motifs.
Probab=99.37 E-value=1.3e-12 Score=122.70 Aligned_cols=123 Identities=19% Similarity=0.219 Sum_probs=99.6
Q ss_pred eE-EEEEEEccccc-cchhhhc--CCceEEEEEEecceecccccccCcHHHHHHHHhcCcc-CceecCCccCccceeeCC
Q psy1176 72 SG-CLIVCIDRATR-LVKSQQS--AGKEYISIFKLHSAVENVAKASKKKMMIKQGLLDKHG-KPNENTPASYLAELEAAP 146 (232)
Q Consensus 72 tG-vLvv~iG~aTk-l~~~l~~--~~K~Y~a~~~lG~~tdt~~~v~~t~e~l~~~l~~f~G-~i~Q~PP~~~ySAvK~~G 146 (232)
.| |-+..+.-+++ ....+.+ ..|+|+|.+.+.... ++++++++++.|.| .|+|.||.| .+..+.+-
T Consensus 251 ~g~V~v~~L~~~~~~~v~~ik~~~~~K~Y~alV~~~~~v--------~~e~L~~~~~~l~g~~I~QrTP~R-V~hRRa~~ 321 (388)
T TIGR01213 251 KGKVEVEGLKFATREEVEEVKEEKHRKVYRALVEVDGPV--------SDEDLEELCKELEGATIYQRTPLR-VLHRRADL 321 (388)
T ss_pred CCCEEEEEeEEEcHHHHHHHhccCCceEEEEEEEECCCC--------CHHHHHHHHHhccCCEEEccCCce-EEEecCCC
Confidence 45 66666665544 2233332 579999999986655 67889999999999 799999995 44444446
Q ss_pred CCccEEEEEEeeEeeCCCceEEEEEEeeCCcchHHHHHH--------HHhhcCCcEEEeeEEEEEEe
Q psy1176 147 NKKPTYMKSNLISSDVTLSTGIIWLKCQAGTYVRTYCVH--------MGLVLGVGAQMIELRRNRSG 205 (232)
Q Consensus 147 ~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTYIRsL~~D--------iG~~Lg~~A~l~~LrRt~~G 205 (232)
.|..+||++++..+++ ..|.++|.|.+|||||.|+|. +|..||+.|+|.+|.-+.+.
T Consensus 322 ~R~R~I~~i~~~~i~~--~~~~l~v~~qaGtYIKElV~GD~GRT~PSl~~lLg~~a~i~eLDV~~V~ 386 (388)
T TIGR01213 322 VRERRVYQVDLSGLDG--NHAELIIEAEGGLYIKELVSGDGGRTRPSVSEVLGVEAVCKELDVLKVC 386 (388)
T ss_pred ceEEEEEEEEEEEEcC--CEEEEEEEecCCCEEEEEEcCCCCCcCCcHHHHhCCCceEEEeEEEEEe
Confidence 8999999999999986 589999999999999999996 99999999999999988764
No 33
>cd01291 PseudoU_synth PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases. Some psi sites such as psi55,13,38 and 39 in tRNA are highly conserved, being in the same position in eubacteria, archeabacteria and eukaryotes. Other psi sites occur in a more restricted fashion, for example psi2604in 23S RNA made by E.coli RluF has only been detected in E.coli. Human dyskerin with the help of guide RNAs makes the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Mutations in human dyskerin cause X-linked dyskeratosis congenitas. Missense mutation in human PUS1 causes mitochondrial myopathy and sideroblastic anemia (MLASA).
Probab=99.23 E-value=5.3e-11 Score=89.33 Aligned_cols=86 Identities=16% Similarity=0.234 Sum_probs=67.7
Q ss_pred EeCCCCCCHHHHHHHHH-HHhccccccCCCCCCCCceEEEEEEEccccccchhhhcCCceEEEEEEecceecccccccCc
Q psy1176 37 LDKPSNPSSHEVVAWIK-RILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVAKASKK 115 (232)
Q Consensus 37 v~KP~G~tS~~vv~~ik-~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~~~K~Y~a~~~lG~~tdt~~~v~~t 115 (232)
++||.+.|++.+....+ ..++.+++||+|++|+.|+|+++++ |+|+++++
T Consensus 1 l~K~~~~t~~~~~~~~~~~~~~~~~i~~aG~kDk~a~t~q~v~---------------n~f~i~~r-------------- 51 (87)
T cd01291 1 LYKPGGDTMEAARQLAKLLGIPPKRVGYAGRKDKRAVTTQLVS---------------NRFTITLR-------------- 51 (87)
T ss_pred CCCCCCChHHHHHHHHHHhCCChheEEECccCCCCeeEEEEEc---------------ccEEEEEE--------------
Confidence 68999999998888886 4567899999999999999999999 99999888
Q ss_pred HHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEEEEeeEeeCCCceEEEEEEeeCCcchHHHHHHHH
Q psy1176 116 KMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQAGTYVRTYCVHMG 187 (232)
Q Consensus 116 ~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTYIRsL~~DiG 187 (232)
+.|. ++...+.+...+.+++.+.+|.|+|++.++++
T Consensus 52 -----------------~~~~-------------------~~~~~~~~~~~~~l~f~l~~~~yat~~l~el~ 87 (87)
T cd01291 52 -----------------VKPL-------------------NLKWPEERKRALVLEFTLPRGSYATMLLRELG 87 (87)
T ss_pred -----------------Eecc-------------------eeEEcccccceEEEEEEcCCcchHHHHHHHhC
Confidence 2222 22222211136788888899999999999875
No 34
>PRK14554 putative pseudouridylate synthase; Provisional
Probab=99.23 E-value=2.5e-11 Score=115.31 Aligned_cols=122 Identities=19% Similarity=0.185 Sum_probs=99.3
Q ss_pred EEEEEEEccccc-cchhhhc--CCceEEEEEEecceecccccccCcHHHHHHHHhcCccC-ceecCCccCccceeeCCCC
Q psy1176 73 GCLIVCIDRATR-LVKSQQS--AGKEYISIFKLHSAVENVAKASKKKMMIKQGLLDKHGK-PNENTPASYLAELEAAPNK 148 (232)
Q Consensus 73 GvLvv~iG~aTk-l~~~l~~--~~K~Y~a~~~lG~~tdt~~~v~~t~e~l~~~l~~f~G~-i~Q~PP~~~ySAvK~~G~R 148 (232)
+|-+..+.-+++ ....+.+ ..|+|+|.+.+.... +.++++++++.|.|. |+|.||.| .+..+.+-.|
T Consensus 286 ~V~v~~l~~~~~~~~~~ik~~~~~K~YralV~~~~~v--------~~e~l~~~~~~l~~~~I~QrTP~R-V~hRR~~~~R 356 (422)
T PRK14554 286 KVEVENLRFATRKEVERIKEEKASKTYRALVESDEPV--------SEEELEKLLDELSGATIEQRTPRR-VKHRRADLVR 356 (422)
T ss_pred CEEEEEEEEEcHHHHHHHhcCCCceEEEEEEEECCCC--------CHHHHHHHHHhccCcEeeccCcHh-hhhhccccce
Confidence 477776766655 2344443 469999999976554 678899999999997 99999995 3333344588
Q ss_pred ccEEEEEEeeEeeCCCceEEEEEEeeCCcchHHHHHH--------HHhhcCCcEEEeeEEEEEEe
Q psy1176 149 KPTYMKSNLISSDVTLSTGIIWLKCQAGTYVRTYCVH--------MGLVLGVGAQMIELRRNRSG 205 (232)
Q Consensus 149 ~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTYIRsL~~D--------iG~~Lg~~A~l~~LrRt~~G 205 (232)
..+||++++..+++ ..|.+++.|.+|||||.|+|. +|..||+.|+|.+|..+.+.
T Consensus 357 ~R~I~~i~~~~i~~--~~~~l~i~~eaGtYIKElv~GD~GRT~Psl~~lLg~~a~~~eLDV~~V~ 419 (422)
T PRK14554 357 VRKVYDISGELIDD--KHFELRIKCEGGLYIKELISGDEGRTTPSLSELLGTPAIVTELDVLDVE 419 (422)
T ss_pred eeEEEEEEEEEEcC--cEEEEEEEEecCCEEEEEEeCCCCcccccHHHHhCCCceEEEeeEEEEe
Confidence 99999999999976 589999999999999999995 99999999999999988774
No 35
>COG1258 Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=98.76 E-value=2.8e-08 Score=92.94 Aligned_cols=106 Identities=17% Similarity=0.166 Sum_probs=92.3
Q ss_pred CCceEEEEEEecceecccccccCcHHHHHHHHhcCcc-CceecCCccCccceeeCCCCccEEEEEEeeEeeCCCceEEEE
Q psy1176 92 AGKEYISIFKLHSAVENVAKASKKKMMIKQGLLDKHG-KPNENTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIW 170 (232)
Q Consensus 92 ~~K~Y~a~~~lG~~tdt~~~v~~t~e~l~~~l~~f~G-~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~~~~~~~~~~~ 170 (232)
..|.|+|.+.+.... +.+++++++.++.| .|.|..|.| ......+-+|...||++++...+. +++.+.
T Consensus 280 ~rK~YrAlV~~~~~v--------~~e~l~~~~~~L~g~~I~QrTP~R-V~hrRadlvR~R~V~~l~~~~~~~--~~~~~~ 348 (398)
T COG1258 280 HRKVYRALVYSDRPV--------SDEKLEEVLGSLEGKTIRQRTPRR-VLHRRADLVRIRRVYELSLDLIDD--RHAELE 348 (398)
T ss_pred cceeEEEEEEECCCc--------CHHHHHHHHhhccCcEEeecChHH-HhhhhcccceEEEEEEeeeeeccC--ceEEEE
Confidence 578888877765443 78999999999999 599999997 677767778999999999999865 699999
Q ss_pred EEeeCCcchHHHHH--------HHHhhcCCcEEEeeEEEEEEeCcc
Q psy1176 171 LKCQAGTYVRTYCV--------HMGLVLGVGAQMIELRRNRSGIQS 208 (232)
Q Consensus 171 v~cs~GTYIRsL~~--------DiG~~Lg~~A~l~~LrRt~~G~f~ 208 (232)
+.|..|+||..|++ .++..||+.|.|.+|.-+++..=+
T Consensus 349 i~~egGlYIKElIsGD~GRT~PSlse~lg~~a~~~eLDVl~V~~~~ 394 (398)
T COG1258 349 IEAEGGLYIKELISGDGGRTRPSLSEILGVEAVVEELDVLKVEDEE 394 (398)
T ss_pred EEecccceeeeeecCCCCCcCcchHHHhCCcceEEEeeeEEeccCc
Confidence 99999999999999 899999999999999999887533
No 36
>cd02566 PseudoU_synth_RluE PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. Escherichia coli RluE makes psi2457 in 23S RNA. psi2457 is not universally conserved.
Probab=98.53 E-value=1.1e-06 Score=73.51 Aligned_cols=155 Identities=18% Similarity=0.145 Sum_probs=86.3
Q ss_pred EEEEeCCCCCCHHH-----HHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhc----CCceEEEEEEecc
Q psy1176 34 YVNLDKPSNPSSHE-----VVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQS----AGKEYISIFKLHS 104 (232)
Q Consensus 34 il~v~KP~G~tS~~-----vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~----~~K~Y~a~~~lG~ 104 (232)
++++|||+|+-|+. -...+...+...++...|-||-.+||+|+++-+. ++...+.+ -.|+|.|.+. |.
T Consensus 1 ~lv~nKP~G~~~~~~~~~~~~~~l~~~l~~~~~~~v~RLD~~TsGlll~a~d~--~~~~~l~~~~~~v~K~Y~a~v~-g~ 77 (168)
T cd02566 1 LILFNKPYGVLSQFTDESEKHKTLKDYIDDPGVYAAGRLDRDSEGLLLLTDDG--RLQHRITDPSFKHPKTYYVQVE-GV 77 (168)
T ss_pred CEEEECCCCCEEecCCCcCCCccHHHHcCcCCeEEccCCCCCCeEEEEEEeCH--HHHHHHHCCCCCCCEEEEEEEC-Cc
Confidence 47899999986661 1233444454467889999999999999999765 35555554 4799999874 21
Q ss_pred eecccccccCcHHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEE-EEeeEeeCCCceEEEEEEeeCCcc--hHH
Q psy1176 105 AVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMK-SNLISSDVTLSTGIIWLKCQAGTY--VRT 181 (232)
Q Consensus 105 ~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~-i~l~~~~~~~~~~~~~v~cs~GTY--IRs 181 (232)
++.++++.....+.-.-.+..|.+ .+. .++ ...++. .+.+.+....+.-.+++..-.|.+ ||.
T Consensus 78 ---------~~~~~~~~l~~g~~~~~~~~~~~~-v~~--~~~--~~~~~~~~~~~~~~~~~~~sll~v~l~tGR~HQIR~ 143 (168)
T cd02566 78 ---------PTEDALEQLRNGVELGDGLTLPAK-VEK--VDE--PPWLWEREPPIRFRKNIPTSWIEITICEGKNRQVRR 143 (168)
T ss_pred ---------CCHHHHHHHhCCcEECCeEecceE-EEE--ecc--cccccccccccccccCCCccEEEEEEecCccHHHHH
Confidence 123333322211111111222321 221 111 111111 111222111123346777777755 565
Q ss_pred HHHHHHhhcCCcEEEeeEEEEEEeCccCcc
Q psy1176 182 YCVHMGLVLGVGAQMIELRRNRSGIQSEED 211 (232)
Q Consensus 182 L~~DiG~~Lg~~A~l~~LrRt~~G~f~l~d 211 (232)
.... +|.. +..|+|+++|++.+++
T Consensus 144 ~la~----lG~p--V~~L~R~~~g~~~l~~ 167 (168)
T cd02566 144 MTAA----VGFP--TLRLIRVSIGDIGLDN 167 (168)
T ss_pred HHHH----cCCe--EeEEEEEEECCEEcCC
Confidence 5544 4444 8899999999999864
No 37
>cd02553 PseudoU_synth_RsuA PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RsuA makes psi516 in 16S RNA. Psi at this position is not generally conserved in other organisms.
Probab=98.26 E-value=2.2e-05 Score=65.68 Aligned_cols=138 Identities=22% Similarity=0.268 Sum_probs=83.9
Q ss_pred EEEEeCCCCCCHH-------HHHHHHHHHhccccccCCCCCCCCceEEEEEEEccc--cccchhhhcCCceEEEEEEecc
Q psy1176 34 YVNLDKPSNPSSH-------EVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRA--TRLVKSQQSAGKEYISIFKLHS 104 (232)
Q Consensus 34 il~v~KP~G~tS~-------~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~a--Tkl~~~l~~~~K~Y~a~~~lG~ 104 (232)
++++|||+|+.|+ .+.+++.+.+...++...+-||..+||+|+++-+.. .++..--.+-.|+|.|.+. |.
T Consensus 2 ~ivvnKP~G~~~~~~~~~~~tl~~~l~~~~~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~i~K~Y~a~V~-G~ 80 (167)
T cd02553 2 YLMLNKPAGVVCATKDPHHPTVIDLLPEPDRRRDLFPVGRLDKDTTGLLLLTNDGQLAHRLTSPKKHVPKTYEVTLA-GP 80 (167)
T ss_pred EEEEECCCCCEeCCCCCCCCcHHHHhhhhcccCCeEEcccCCCCCEEEEEEEeCHHHHHHhhCCcCCCceEEEEEEc-cC
Confidence 5899999998775 256666666555678899999999999999998763 2233222235799999876 21
Q ss_pred eecccccccCcHHHHHHHHhcCccCceecCCccCccceeeCCC--CccEEEEEEeeEeeCCCceEEEEEEeeCC--cchH
Q psy1176 105 AVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPN--KKPTYMKSNLISSDVTLSTGIIWLKCQAG--TYVR 180 (232)
Q Consensus 105 ~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~--R~v~Iy~i~l~~~~~~~~~~~~~v~cs~G--TYIR 180 (232)
++.++++.... | . +. .+|. ++. .++.+ +. ..+++..-.| --||
T Consensus 81 ---------~~~~~~~~~~~---~-------~--~~---~~~~~~~~~---~~~~~--~~----sll~v~l~tGR~HQIR 127 (167)
T cd02553 81 ---------LTEDDIEAFAE---G-------V--LL---HDGYPTKPA---KLEIL--SP----TTVRLTITEGKYHQVK 127 (167)
T ss_pred ---------CCHHHHHHHHC---C-------e--EE---cCCCEeeee---EEEEe--CC----cEEEEEEEeCCCHHHH
Confidence 12333332211 1 1 00 0111 111 11222 11 2345555455 5577
Q ss_pred HHHHHHHhhcCCcEEEeeEEEEEEeCccCcc
Q psy1176 181 TYCVHMGLVLGVGAQMIELRRNRSGIQSEED 211 (232)
Q Consensus 181 sL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~d 211 (232)
-....+|. -+..|.|+++|++++++
T Consensus 128 ~hla~lG~------pI~~~~R~~~g~~~l~~ 152 (167)
T cd02553 128 RMFAAVGN------KVVALHRIRIGGLELDD 152 (167)
T ss_pred HHHHHcCC------eEEEEEEEEECCEecCC
Confidence 66665553 48999999999999985
No 38
>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=98.16 E-value=2.8e-05 Score=65.48 Aligned_cols=139 Identities=17% Similarity=0.205 Sum_probs=78.1
Q ss_pred EEEEeCCCCCCHHHH---HHHHHHHhc-cccccCCCCCCCCceEEEEEEEccc-cc-cchhhhcCCceEEEEEEecceec
Q psy1176 34 YVNLDKPSNPSSHEV---VAWIKRILR-CEKTGHSGTLDPKTSGCLIVCIDRA-TR-LVKSQQSAGKEYISIFKLHSAVE 107 (232)
Q Consensus 34 il~v~KP~G~tS~~v---v~~ik~~l~-~~KvGH~GTLDP~AtGvLvv~iG~a-Tk-l~~~l~~~~K~Y~a~~~lG~~td 107 (232)
.+++|||.|+-|+.- ...+...+. ..++-..|-||-.+||+|++.-... .+ +..-....+|+|.+++. |
T Consensus 2 y~~lnKP~G~l~s~~~~~~~tv~~~l~~~~~~~~vgRLD~~tsGlll~t~dg~~~~~L~~p~~~~~K~Y~V~v~-~---- 76 (164)
T cd02554 2 YIAYNKPVGIDCTLERADEDNIIDFVNPPPRIFPIGRLDKDSEGLILLTNDGDLVNKILHADNNHEKEYLVTVN-K---- 76 (164)
T ss_pred EEEEECCCCcEeecCCCCCCcHHHHhcCcCCEEEccCCCCCCeeEEEEEcCHHHHHHHhhhhcCCCeEEEEEEC-C----
Confidence 478999999844321 011222232 2467888999999999999987443 33 33223335899999843 1
Q ss_pred ccccccCcHHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEEEEeeEeeCCCceEEEEEEeeCCcc--hHHHHHH
Q psy1176 108 NVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQAGTY--VRTYCVH 185 (232)
Q Consensus 108 t~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTY--IRsL~~D 185 (232)
.++++.++.......+.-....|. .| +.. +. . .++|....|.| ||-+...
T Consensus 77 -----~l~~~~l~~l~~G~~~~~~~~~~~--------------~v---~~~--~~--~--~l~i~l~eGr~~qIRrm~~~ 128 (164)
T cd02554 77 -----PITDEFIEGMSNGVVILGTVTKPC--------------KV---ERL--AK--D--KFRIVLTQGLNRQIRRMCEA 128 (164)
T ss_pred -----CCCHHHHHHHhCCCEECCeEEcce--------------EE---EEC--CC--C--EEEEEEECCcCHHHHHHHHH
Confidence 124444443322211111111221 11 111 11 1 25666666655 5555444
Q ss_pred HHhhcCCcEEEeeEEEEEEeCccCcc
Q psy1176 186 MGLVLGVGAQMIELRRNRSGIQSEED 211 (232)
Q Consensus 186 iG~~Lg~~A~l~~LrRt~~G~f~l~d 211 (232)
+|. .+..|+|+++|++++++
T Consensus 129 ----~G~--~V~~L~Ri~iG~~~L~~ 148 (164)
T cd02554 129 ----LGY--RVTDLKRVRIMNIELGD 148 (164)
T ss_pred ----cCC--EEEEEEEEEECcEEcCC
Confidence 443 48999999999999974
No 39
>PRK10700 23S rRNA pseudouridylate synthase B; Provisional
Probab=98.12 E-value=7.3e-05 Score=68.11 Aligned_cols=155 Identities=21% Similarity=0.237 Sum_probs=89.2
Q ss_pred eEEEEeCCCCCCHH--------HHHHHHHHHhccccccCCCCCCCCceEEEEEEEc-cccccchhhh-cCCceEEEEEEe
Q psy1176 33 GYVNLDKPSNPSSH--------EVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCID-RATRLVKSQQ-SAGKEYISIFKL 102 (232)
Q Consensus 33 Gil~v~KP~G~tS~--------~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG-~aTkl~~~l~-~~~K~Y~a~~~l 102 (232)
=++++|||+|+-|+ .+.+.+... ........|-||-.+||+|+++-. +.++.+..=. .-.|+|.+++.
T Consensus 68 ~ylvlnKP~G~~~s~~d~~~~~tv~d~l~~~-~~~~~~~VgRLD~dTsGLLLlTndg~~~~~L~~p~~~i~K~Y~v~V~- 145 (289)
T PRK10700 68 RVLAYYKPEGELCTRNDPEGRPTVFDRLPKL-RGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVF- 145 (289)
T ss_pred eEEEEECCCCCEeecCCCCCCccHHHHhhhh-cCCceeEccCCCCCCceEEEEEcCHHHHHHHhCccCCCCeEEEEEEc-
Confidence 38999999998655 255555442 223567899999999999998763 3333332211 25899999874
Q ss_pred cceecccccccCcHHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEEEEeeEeeCCCceEEEEEEeeCCcc--hH
Q psy1176 103 HSAVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQAGTY--VR 180 (232)
Q Consensus 103 G~~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTY--IR 180 (232)
|. +++++++. + ..|-...--|. ....++... .+.+...++|....|.| ||
T Consensus 146 G~---------~~~~~l~~-l--~~Gv~l~~~~~--------------~~~~v~~~~--~~~~~s~l~v~L~EGk~hQIR 197 (289)
T PRK10700 146 GQ---------VDDAKLRQ-L--SRGVQLEDGPA--------------AFKTIKFSG--GEGINQWYNVTLTEGRNREVR 197 (289)
T ss_pred cC---------CCHHHHHH-H--HcCCEeCCcee--------------eeEEEEecc--CCCCceEEEEEEeCCccHHHH
Confidence 21 23455543 2 12311110011 111222221 11123347777778876 55
Q ss_pred HHHHHHHhhcCCcEEEeeEEEEEEeCccCcccc-------cChHHHHhch
Q psy1176 181 TYCVHMGLVLGVGAQMIELRRNRSGIQSEEDGL-------VTFRQEHMFE 223 (232)
Q Consensus 181 sL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~da~-------~~l~~l~~~~ 223 (232)
-++.. +|. .+..|.|+++|++.+++.+ ++-+++..+.
T Consensus 198 rm~~~----lG~--~V~~L~Ri~iG~l~L~~~L~~G~~R~L~~~E~~~l~ 241 (289)
T PRK10700 198 RLWEA----VGV--QVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 (289)
T ss_pred HHHHH----cCC--EEeEEEEEEEeeeEcCCCCCCCceEECCHHHHHHHH
Confidence 54444 444 4899999999999996334 4556654443
No 40
>cd02556 PseudoU_synth_RluB PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RluB makes psi2605 in 23S RNA. psi2605 has been detected in eubacteria but, not in eukarya and archea despite the presence of a precursor U at that site.
Probab=98.11 E-value=8.3e-05 Score=62.19 Aligned_cols=140 Identities=19% Similarity=0.145 Sum_probs=80.7
Q ss_pred EEEEeCCCCCCHHH--------HHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhhc----CCceEEEEEE
Q psy1176 34 YVNLDKPSNPSSHE--------VVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQS----AGKEYISIFK 101 (232)
Q Consensus 34 il~v~KP~G~tS~~--------vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~----~~K~Y~a~~~ 101 (232)
++++|||+|+-|+. +.+.+... ...+....|-||-.+||+|+++-+.. +...+.. -.|+|.|.+.
T Consensus 2 ~lvvnKP~G~~~~~~~~~~~~tl~~~l~~~-~~~~~~~V~RLD~~TsGLll~ak~~~--~~~~L~~~~~~i~K~Y~a~V~ 78 (167)
T cd02556 2 VLIYHKPEGLICTRKDPKGRPTVFDLLPKL-GIPRWISVGRLDLNTEGLLLFTNDGE--LANRLMHPSNEIEREYAVRVF 78 (167)
T ss_pred EEEEECCCCcEECccCCCCCccHHHhhhhh-ccCceEEcCcCCCCCeeEEEEECCHH--HHHHHhCCcCCCCeEEEEEEC
Confidence 68999999986552 44444432 13467789999999999999987654 2222332 4799999875
Q ss_pred ecceecccccccCcHHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEEEEeeEeeCCCceEEEEEEeeCCcc--h
Q psy1176 102 LHSAVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQAGTY--V 179 (232)
Q Consensus 102 lG~~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTY--I 179 (232)
|. ++.++++. +.. |.. .. +|+..+ ..++.++... +.-.++|..-.|.+ |
T Consensus 79 -g~---------~~~~~~~~-~~~--gv~----~~--------~~~~~~--~~~~~~~~~~--~~sll~v~l~tGR~HQI 129 (167)
T cd02556 79 -GQ---------VTDEQLKS-LKK--GVE----LE--------DGFAGF--KSIQLEGGEG--KNSWYRVTLREGRNREV 129 (167)
T ss_pred -cc---------CCHHHHHH-HHc--CCE----EC--------CCcCcc--eEEEEEecCC--CcEEEEEEEEeCCCHHH
Confidence 22 12333322 111 110 00 111111 2233333222 22346666666644 6
Q ss_pred HHHHHHHHhhcCCcEEEeeEEEEEEeCccCcc
Q psy1176 180 RTYCVHMGLVLGVGAQMIELRRNRSGIQSEED 211 (232)
Q Consensus 180 RsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~d 211 (232)
|-....+| . -+..|+|+++|++.+..
T Consensus 130 R~~~a~~G----~--pV~~L~R~~ig~~~l~~ 155 (167)
T cd02556 130 RRLWEAFG----L--QVSRLIRIRYGPIFLPG 155 (167)
T ss_pred HHHHHHcC----C--eEeEEEEEEECCcccCC
Confidence 66555544 3 48899999999998853
No 41
>PRK10475 23S rRNA pseudouridine synthase F; Provisional
Probab=98.03 E-value=6.7e-05 Score=68.52 Aligned_cols=133 Identities=21% Similarity=0.283 Sum_probs=81.8
Q ss_pred eEEEEeCCCCCCHHH-------HHHHHHHHhccccccCCCCCCCCceEEEEEEEccccccchhhh----cCCceEEEEEE
Q psy1176 33 GYVNLDKPSNPSSHE-------VVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQ----SAGKEYISIFK 101 (232)
Q Consensus 33 Gil~v~KP~G~tS~~-------vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~----~~~K~Y~a~~~ 101 (232)
=++++|||+|+.|+. +++.+.. ..++...|-||-.+||+|+++-+.. +...|. ...|+|.+++.
T Consensus 68 ~~lvlnKP~G~~~~~~~~~~~tv~~~l~~---~~~l~~VgRLDrdTsGLLLlT~dg~--~~~~L~~p~~~i~K~Y~v~V~ 142 (290)
T PRK10475 68 VLIALNKPVGIVSTTEDGERDNIVDFVNH---SKRVFPIGRLDKDSQGLIFLTNHGD--LVNKILRAGNDHEKEYLVTVD 142 (290)
T ss_pred eEEEEECCCCCCcCCCCCCCCcHHHHhhc---cccccccccCCCCCcceEEEecCHH--HHHHhhCcCCCCCeEEEEEEC
Confidence 389999999997762 4444432 2467899999999999999987553 333333 35899999875
Q ss_pred ecceecccccccCcHHHHHHHHhcCccCceecCCccCccceeeCC--CCccEEEEEEeeEeeCCCceEEEEEEeeCCcc-
Q psy1176 102 LHSAVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAP--NKKPTYMKSNLISSDVTLSTGIIWLKCQAGTY- 178 (232)
Q Consensus 102 lG~~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G--~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTY- 178 (232)
|.- +++.++... .|.. ++| .++..+ +.+ + ...++|....|.|
T Consensus 143 -g~~---------~~~~l~~l~---~Gv~-------------l~~~~~~~~~v---~~~--~----~~~~~i~l~eGk~r 187 (290)
T PRK10475 143 -KPI---------TDEFIRGMG---AGVP-------------ILGTVTKKCKV---KKE--A----PFVFRITLVQGLNR 187 (290)
T ss_pred -CCC---------CHHHHHHHh---CCcE-------------ECCEEecceEE---Eec--C----CcEEEEEEECCcCH
Confidence 222 344444332 2211 111 011111 111 1 1246777777766
Q ss_pred -hHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcc
Q psy1176 179 -VRTYCVHMGLVLGVGAQMIELRRNRSGIQSEED 211 (232)
Q Consensus 179 -IRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~d 211 (232)
||-++.- +|. .+..|+|+++|++++++
T Consensus 188 qIRrm~~~----~G~--~V~~L~R~~ig~l~L~~ 215 (290)
T PRK10475 188 QIRRMCEH----FGY--EVTKLERTRIMNVSLSG 215 (290)
T ss_pred HHHHHHHH----cCC--EEeEEEEEEECCEEcCC
Confidence 5544444 443 49999999999999974
No 42
>PRK11394 23S rRNA pseudouridine synthase E; Provisional
Probab=98.03 E-value=5e-05 Score=66.78 Aligned_cols=152 Identities=16% Similarity=0.186 Sum_probs=84.2
Q ss_pred eEEEEeCCCCCCHHHH----HHHHHHHhccccccCCCCCCCCceEEEEEEEccc-cccchhhh-cCCceEEEEEEeccee
Q psy1176 33 GYVNLDKPSNPSSHEV----VAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRA-TRLVKSQQ-SAGKEYISIFKLHSAV 106 (232)
Q Consensus 33 Gil~v~KP~G~tS~~v----v~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~a-Tkl~~~l~-~~~K~Y~a~~~lG~~t 106 (232)
=++++|||.|+-|+.- ...+...+...+....|-||..+||+|+++-+.. .+.+..-. .-+|+|.+.+. |.
T Consensus 40 ~ylllnKP~G~l~~~~d~~~~~tl~d~l~~~~~~~vgRLD~~TsGllLlt~d~~~~~~L~~~~~~i~K~Y~~~v~-g~-- 116 (217)
T PRK11394 40 RVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVE-GI-- 116 (217)
T ss_pred EEEEEECCCCCEEeeCCccCCcchHHhcccCCeEEecCCCCCCeeEEEEECCHHHHHHHhCcccCCCEEEEEEEC-CC--
Confidence 4899999999977621 1223333434578899999999999999998553 44332222 35799999775 21
Q ss_pred cccccccCcHHHHHHHHhc--CccCceecCCccCccceeeC-----CCCccEEEEEEeeEeeCCCceEEEEEEeeCCcc-
Q psy1176 107 ENVAKASKKKMMIKQGLLD--KHGKPNENTPASYLAELEAA-----PNKKPTYMKSNLISSDVTLSTGIIWLKCQAGTY- 178 (232)
Q Consensus 107 dt~~~v~~t~e~l~~~l~~--f~G~i~Q~PP~~~ySAvK~~-----G~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTY- 178 (232)
++.+.++..-+. +.+ ....|.. ...+... +.+.. .+.. ..+...++|....|-+
T Consensus 117 -------~~~~~l~~l~~Gv~i~~--~~~~p~~-~~~i~~~~~~~~~~~~~-------~~~~-~~~~s~l~I~L~eGR~h 178 (217)
T PRK11394 117 -------PTQDALEALRNGVTLND--GPTLPAG-AELVDEPAWLWPRNPPI-------RERK-SIPTSWLKITLYEGRNR 178 (217)
T ss_pred -------CCHHHHHHHhCCeEECC--ccccccE-EEEeccccccccccccc-------cccc-CCCceEEEEEEeCCCCH
Confidence 123333321110 111 1122320 1111000 00100 0011 0123346666666654
Q ss_pred -hHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcc
Q psy1176 179 -VRTYCVHMGLVLGVGAQMIELRRNRSGIQSEED 211 (232)
Q Consensus 179 -IRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~d 211 (232)
||.+...+| ..+..|+|.++|++++++
T Consensus 179 QIRrm~a~lG------~pVl~L~Ry~iG~l~L~~ 206 (217)
T PRK11394 179 QVRRMTAHVG------FPTLRLIRYAMGDYSLDN 206 (217)
T ss_pred HHHHHHHHcC------CeEeeeEEEEECCEEcCC
Confidence 777666644 348999999999999975
No 43
>cd02555 PSSA_1 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family. This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. The TruA family is comprised of proteins related to Escherichia coli RsuA.
Probab=97.79 E-value=0.00022 Score=60.62 Aligned_cols=137 Identities=20% Similarity=0.234 Sum_probs=77.1
Q ss_pred EEEEeCCCCCCHH--------------H--HHHHHHHHhccccccCCCCCCCCceEEEEEEEcc-ccc-cchhhhcCCce
Q psy1176 34 YVNLDKPSNPSSH--------------E--VVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDR-ATR-LVKSQQSAGKE 95 (232)
Q Consensus 34 il~v~KP~G~tS~--------------~--vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~-aTk-l~~~l~~~~K~ 95 (232)
.+++|||.|+-|. + +..++.+.+ .++...|-||-.+||+|+++-.. +.+ +..-...-.|+
T Consensus 6 y~llnKP~G~l~s~~d~~~~~g~~~~~~~~~~~~l~~~~--~~l~~VgRLD~dTsGLLl~t~d~~~~~~L~~~~~~i~K~ 83 (177)
T cd02555 6 TLLLHKPAGMVSEQALALLGPGQRSAADRSGRRPLKGHF--ARLAPIGPLDKDASGLLVFSQDGRVLRKLIGDASRLEQE 83 (177)
T ss_pred EEEEECCCceEecCCCcccccccccccccchhhhhhhcC--CceeEecCCCCCCeeEEEEECCHHHHHHHhChhcCCCEE
Confidence 5789999997551 1 112333322 46889999999999999999744 333 33322335899
Q ss_pred EEEEEEecceecccccccCcHHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEEEEeeEeeCCCceEEEEEEeeC
Q psy1176 96 YISIFKLHSAVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQA 175 (232)
Q Consensus 96 Y~a~~~lG~~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~ 175 (232)
|.+.+. |.-+ ++.++. +.. | . .++|.. .....++ +.. .-.+++....
T Consensus 84 Y~v~v~-g~~~---------~~~l~~-l~~--g-------~------~~~~~~-~~~~~~~---~~~---~~~l~i~l~t 130 (177)
T cd02555 84 YLVEVR-GELT---------AGGLER-LNH--G-------L------TYDGRE-LPPAKVS---WQN---EQRLRFALKE 130 (177)
T ss_pred EEEEEc-ccCC---------HHHHHH-Hhc--C-------c------ccCCee-cceEEEE---EcC---CCEEEEEEEC
Confidence 999886 4322 222211 111 1 1 011111 0111111 111 1235666666
Q ss_pred Ccc--hHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcc
Q psy1176 176 GTY--VRTYCVHMGLVLGVGAQMIELRRNRSGIQSEED 211 (232)
Q Consensus 176 GTY--IRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~d 211 (232)
|.+ ||-... ++|.. +..|+|+++|++++++
T Consensus 131 Gr~hQIR~~~~----~~G~p--V~~L~R~~ig~i~L~~ 162 (177)
T cd02555 131 PQPGQIRRMCE----SVGLE--VVALRRIRIGRVSLGK 162 (177)
T ss_pred CcChHHHHHHH----HcCCe--EEEEEEEEECCEEcCC
Confidence 644 555544 44544 8899999999999975
No 44
>TIGR01621 RluA-like pseudouridine synthase Rlu family protein, TIGR01621. This model represents a clade of sequences within the pseudouridine synthase superfamily (pfam00849). The superfamily includes E. coli proteins: RluA, RluB, RluC, RluD, and RsuA. The sequences modeled here are most closely related to RluA. Neisseria, among those species hitting this model, does not appear to have an RluA homolog. It is presumed that these sequences function as pseudouridine synthases, although perhaps with different specificity.
Probab=97.78 E-value=3.9e-05 Score=66.86 Aligned_cols=70 Identities=19% Similarity=0.281 Sum_probs=55.3
Q ss_pred ceEEEEeCCCCCCHH------HHHHHHHHHhccccccCCCCCCCCceEEEEEEEccc--cccchhhhc--CCceEEEEEE
Q psy1176 32 AGYVNLDKPSNPSSH------EVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRA--TRLVKSQQS--AGKEYISIFK 101 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~------~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~a--Tkl~~~l~~--~~K~Y~a~~~ 101 (232)
+-+++||||+|+.++ .+.+.++..++..++...+-||-.+||+|+++-+.. .++...+.+ -.|+|.|.+.
T Consensus 9 ~~~lvvnKP~Gl~v~~~~~~~~l~~~l~~~~~~~~~~~VhRLDr~TSGlll~Ak~~~~~~~L~~~~~~~~v~K~YlAlV~ 88 (217)
T TIGR01621 9 PDFLLINKHPGISVHKDDGETGLLQEVATQLGVGQVWLVHRLDKMTSGILLLALNAESASELSQGFAKRKIEKTYLALSS 88 (217)
T ss_pred CCEEEEECCCCCeECCCCCcChHHHHHHHhcCCCCccEecCCCCCCceEEEEEcCHHHHHHHHHHHhcCCccEEEEEEEe
Confidence 469999999999875 456666665555689999999999999999998775 335555554 3799999887
No 45
>PRK10158 23S rRNA/tRNA pseudouridine synthase A; Provisional
Probab=97.77 E-value=4e-05 Score=66.79 Aligned_cols=70 Identities=24% Similarity=0.325 Sum_probs=55.3
Q ss_pred ceEEEEeCCCCCCHH---------HHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccc--cchhhhc--CCceEEE
Q psy1176 32 AGYVNLDKPSNPSSH---------EVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATR--LVKSQQS--AGKEYIS 98 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~---------~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTk--l~~~l~~--~~K~Y~a 98 (232)
+-+++||||+|+.++ .+.+.+++.+ .+++..+-||-.+||||++|.++... +...+.+ -.|+|.|
T Consensus 21 ~~~lvvnKPaGl~~~~~~~~~~~~sl~~~l~~~~--~~~~~vhRLDr~TSGlll~Akt~~~~~~l~~~f~~~~v~K~Yla 98 (219)
T PRK10158 21 EHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQRDY--PQAESVHRLDMATSGVIVVALTKAAERELKRQFREREPKKQYVA 98 (219)
T ss_pred CCEEEEECCCCCcEeCCCCCccchhHHHHHHHhC--CCCCEECCCCCCCceEEEEECCHHHHHHHHHHHHhCCccEEEEE
Confidence 579999999999665 2445555443 35889999999999999999998766 7777775 4799999
Q ss_pred EEEecc
Q psy1176 99 IFKLHS 104 (232)
Q Consensus 99 ~~~lG~ 104 (232)
.+. |.
T Consensus 99 ~v~-G~ 103 (219)
T PRK10158 99 RVW-GH 103 (219)
T ss_pred EEe-cc
Confidence 876 54
No 46
>cd02558 PSRA_1 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. The RluA family is comprised of proteins related to Escherichia coli RluA.
Probab=97.73 E-value=7e-05 Score=66.43 Aligned_cols=70 Identities=17% Similarity=0.168 Sum_probs=57.0
Q ss_pred ceEEEEeCCCCCCHH--------HHHHHHHHHhccccccCCCCCCCCceEEEEEEEccccc--cchhhhc--CCceEEEE
Q psy1176 32 AGYVNLDKPSNPSSH--------EVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATR--LVKSQQS--AGKEYISI 99 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~--------~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~aTk--l~~~l~~--~~K~Y~a~ 99 (232)
+-+++||||+|+.++ .++++++..++..++...+-||-.+||+|+++-++... +...+.+ -.|+|.|.
T Consensus 46 ~~~lvvnKPaGl~~~~~~~~~~~t~~~~l~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~~~~~~v~K~YlA~ 125 (246)
T cd02558 46 EHLLVADKPHFLPVTPRGRYVTETLLVRLRRQTGNPDLTPAHRLDRLTAGLVLFSKRPETRGAYQTLFARREVSKTYEAV 125 (246)
T ss_pred CCEEEEECCCCCccCCCCcchhhhHHHHHHHHhCCCcccccccCCCCceeEEEEEcCHHHHHHHHHHHHcCCccEEEEEE
Confidence 579999999999985 36788877777667888999999999999999987543 5555554 47999998
Q ss_pred EE
Q psy1176 100 FK 101 (232)
Q Consensus 100 ~~ 101 (232)
+.
T Consensus 126 v~ 127 (246)
T cd02558 126 AP 127 (246)
T ss_pred Ee
Confidence 86
No 47
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional
Probab=97.72 E-value=0.00012 Score=63.97 Aligned_cols=67 Identities=22% Similarity=0.368 Sum_probs=43.3
Q ss_pred eEEEEeCCCCCCHHH-------HHHHHHHHhccccccCCCCCCCCceEEEEEEEccc--cccchhhhcCCceEEEEE
Q psy1176 33 GYVNLDKPSNPSSHE-------VVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRA--TRLVKSQQSAGKEYISIF 100 (232)
Q Consensus 33 Gil~v~KP~G~tS~~-------vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~a--Tkl~~~l~~~~K~Y~a~~ 100 (232)
-+++||||+|+-+|- +...+.+. ...+....|-||-.+||+|+++-+.. .++..--..-.|+|.|++
T Consensus 61 ~~lvvnKP~G~~~~~~~~~~~tl~~~l~~~-~~~~~~~v~RLD~~TSGlll~ak~~~~~~~l~~~~~~i~K~Y~a~i 136 (232)
T PRK10839 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEP-VAYKLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTL 136 (232)
T ss_pred EEEEEECCCCeEecccCCCCCeEEEecccc-cccCceecCCCCCCceeEEEEecCHHHHHHHhCCCCCCCeEEEEEE
Confidence 499999999996552 11111111 11356788999999999999988763 222221113589999953
No 48
>cd02557 PseudoU_synth_ScRIB2 PseudoU_synth_ScRIB2_like: Pseudouridine synthase, Saccharomyces cerevisiae RIB2_like. This group is comprised of eukaryotic and bacterial proteins similar to Saccharomyces cerevisiae RIB2, S. cerevisiae Pus6p and human hRPUDSD2. S. cerevisiae RIB2 displays two distinct catalytic activities. The N-terminal domain of RIB2 is RNA:psi-synthase which makes psi32 on cytoplasmic tRNAs. Psi32 is highly phylogenetically conserved. The C-terminal domain of RIB2 has a DRAP deaminase activity which catalyses the formation of 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione 5'-phosphate from 2,5-diamino-6-ribitylamino-4(3H)-pyrimidinone 5'-phosphate during riboflavin biosynthesis. S. cerevisiae Pus6p makes the psi31 of cytoplasmic and mitochondrial tRNAs.
Probab=97.72 E-value=7.2e-05 Score=64.91 Aligned_cols=72 Identities=28% Similarity=0.326 Sum_probs=57.1
Q ss_pred ceEEEEeCCCCCCHH--------HHHHHHHHHhccccccCCCCCCCCceEEEEEEEccc--cccchhhhc--CCceEEEE
Q psy1176 32 AGYVNLDKPSNPSSH--------EVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRA--TRLVKSQQS--AGKEYISI 99 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~--------~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~a--Tkl~~~l~~--~~K~Y~a~ 99 (232)
+.+++||||+|+-++ .+.+.+.+.++..++...|-||..+||+|+++-+.. .++...+.+ -.|+|.|.
T Consensus 23 ~~~ivvnKP~Gl~~~~~~~~~~~sl~~~l~~~~~~~~~~~vhRLD~~TSGllllak~~~~~~~l~~~f~~~~v~K~Y~a~ 102 (213)
T cd02557 23 DDLLVVDKPSGIPVHPTGRYRYNTVTEILKSEYGLTELRPCHRLDRLTSGLLLFAKTSQTASRLQQQIRSREVKKEYLAR 102 (213)
T ss_pred CCEEEEECCCCCcCCCCCCCCcChHHHHHHHHcCCCCccCccCCCCCCceEEEEECCHHHHHHHHHHHHcCCccEEEEEE
Confidence 579999999998763 477788877766678999999999999999998764 445555554 47999998
Q ss_pred EEecc
Q psy1176 100 FKLHS 104 (232)
Q Consensus 100 ~~lG~ 104 (232)
+. |.
T Consensus 103 v~-G~ 106 (213)
T cd02557 103 VK-GE 106 (213)
T ss_pred Ee-Cc
Confidence 76 43
No 49
>cd02867 PseudoU_synth_TruB_4 PseudoU_synth_TruB_4: Pseudouridine synthase homolog 4. This group consists of Eukaryotic TruB proteins similar to Saccharomyces cerevisiae Pus4. S. cerevisiae Pus4, makes psi55 in the T loop of both cytoplasmic and mitochondrial tRNAs. Psi55 is almost universally conserved. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi).
Probab=97.66 E-value=1.8e-05 Score=73.12 Aligned_cols=38 Identities=21% Similarity=0.117 Sum_probs=36.8
Q ss_pred eeCCcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCc
Q psy1176 173 CQAGTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEE 210 (232)
Q Consensus 173 cs~GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~ 210 (232)
+|+|||||||+.|+|+++++.|+|..|.|+++|.|.++
T Consensus 254 ~s~g~~~~sl~~~~~~~~~~s~~~v~l~r~~q~~~~~~ 291 (312)
T cd02867 254 KSLGPEARSLESDAGRGSFSPAAMVRLARVGQGTYIRQ 291 (312)
T ss_pred cccCcccccccchhhhhccCCcceEeEEeecccceeec
Confidence 88999999999999999999999999999999999984
No 50
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]
Probab=97.57 E-value=0.00015 Score=66.22 Aligned_cols=74 Identities=24% Similarity=0.348 Sum_probs=61.7
Q ss_pred ceEEEEeCCCCCCH--------HHHHHHHHHHhc--cccccCCCCCCCCceEEEEEEEcc--ccccchhhhcC--CceEE
Q psy1176 32 AGYVNLDKPSNPSS--------HEVVAWIKRILR--CEKTGHSGTLDPKTSGCLIVCIDR--ATRLVKSQQSA--GKEYI 97 (232)
Q Consensus 32 ~Gil~v~KP~G~tS--------~~vv~~ik~~l~--~~KvGH~GTLDP~AtGvLvv~iG~--aTkl~~~l~~~--~K~Y~ 97 (232)
.=+++||||+|+.+ ..+++++....+ ..+++-..-||-..||||++|-+. +..+...|.+. .|+|.
T Consensus 85 ~~llVvnKP~Gl~vhp~~~~~~~tl~~~l~~~~~~~~~~~~~vHRLDkdTSGlll~AK~~~a~~~l~~~f~~r~v~K~Y~ 164 (289)
T COG0564 85 EDLLVVNKPAGLVVHPGGGHHEGTLVNALLRHCQDGVERPGIVHRLDKDTSGLLLVAKNREAARELSEQFKQRKVKKTYL 164 (289)
T ss_pred CCEEEEECCCCCcCcCCCCCccHhHHHHHHHhccccCCceeeeccCCCCCceEEEEECCHHHHHHHHHHHhcCcCcEEEE
Confidence 35999999999998 678888887765 467899999999999999999999 56777777764 79999
Q ss_pred EEEEeccee
Q psy1176 98 SIFKLHSAV 106 (232)
Q Consensus 98 a~~~lG~~t 106 (232)
|.+. |.-.
T Consensus 165 Alv~-G~~~ 172 (289)
T COG0564 165 ALVR-GHLP 172 (289)
T ss_pred EEEE-Cccc
Confidence 9888 7544
No 51
>cd02563 PseudoU_synth_TruC tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not universally conserved.
Probab=97.53 E-value=0.00017 Score=62.87 Aligned_cols=71 Identities=21% Similarity=0.322 Sum_probs=51.8
Q ss_pred ceEEEEeCCCCCCHHH----------HHHHHHHHhccccccCCCCCCCCceEEEEEEEccc-c-ccchhhhc--CCceEE
Q psy1176 32 AGYVNLDKPSNPSSHE----------VVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRA-T-RLVKSQQS--AGKEYI 97 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~~----------vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~a-T-kl~~~l~~--~~K~Y~ 97 (232)
+-+++||||+|+.++- ++..+++.++ .++...+-||..+||+|+++-++. . ++...+.+ -.|+|.
T Consensus 8 ~~~lvvnKP~G~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~f~~~~v~K~Y~ 86 (223)
T cd02563 8 EHLVAINKPSGLLVHRSELDRHETRFALQTLRDQLG-QHVYPVHRLDRPTSGVLLFALSSEVARKLGEQFTEHRVHKTYL 86 (223)
T ss_pred CCEEEEECCCCCeEcCCCCCCCCcHHHHHHHHHHcC-CCcccccCCCCCCeEEEEEEECHHHHHHHHHHHhcCceeEEEE
Confidence 4699999999997652 2334444443 468899999999999999998765 3 34454554 369999
Q ss_pred EEEEecc
Q psy1176 98 SIFKLHS 104 (232)
Q Consensus 98 a~~~lG~ 104 (232)
|.+. |.
T Consensus 87 alv~-G~ 92 (223)
T cd02563 87 AVVR-GY 92 (223)
T ss_pred EEEE-Cc
Confidence 9875 54
No 52
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family. modifies uracil-65 in transfer RNAs to pseudouridine.
Probab=97.39 E-value=0.00025 Score=64.04 Aligned_cols=70 Identities=24% Similarity=0.346 Sum_probs=53.7
Q ss_pred ceEEEEeCCCCCCHH--------HHHHHHHHHhcc----ccccCCCCCCCCceEEEEEEEccc-c-ccchhhhc--CCce
Q psy1176 32 AGYVNLDKPSNPSSH--------EVVAWIKRILRC----EKTGHSGTLDPKTSGCLIVCIDRA-T-RLVKSQQS--AGKE 95 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~--------~vv~~ik~~l~~----~KvGH~GTLDP~AtGvLvv~iG~a-T-kl~~~l~~--~~K~ 95 (232)
+-+++||||+|+-|+ .+++.++..+.. .++...|.||-.+||+|+++-+.. . .+...+.+ -.|+
T Consensus 79 ~~~lvvnKP~g~~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~~~v~K~ 158 (299)
T TIGR00005 79 EDIIVINKPSGLVVHPGGGNPFGTVLNALLAHCPPIAGVERVGIVHRLDRDTSGLMVVAKTPLALRELQRQLKNRTVTKE 158 (299)
T ss_pred CCEEEEECCCCCeEeCCCCCCcccHHHHHHHhcccccCCCcCceECCCCCCCceEEEEEcCHHHHHHHHHHHHhCCcceE
Confidence 579999999998765 367777766643 568899999999999999998764 2 24444443 4799
Q ss_pred EEEEEE
Q psy1176 96 YISIFK 101 (232)
Q Consensus 96 Y~a~~~ 101 (232)
|.|.+.
T Consensus 159 Y~a~v~ 164 (299)
T TIGR00005 159 YVALVH 164 (299)
T ss_pred EEEEEe
Confidence 999875
No 53
>COG1187 RsuA 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]
Probab=97.32 E-value=0.004 Score=55.94 Aligned_cols=157 Identities=20% Similarity=0.264 Sum_probs=90.3
Q ss_pred EEEEeCCCCCCHHHH----HHHHHHHh-----ccccccCCCCCCCCceEEEEEEEccccccchhhhc----CCceEEEEE
Q psy1176 34 YVNLDKPSNPSSHEV----VAWIKRIL-----RCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQS----AGKEYISIF 100 (232)
Q Consensus 34 il~v~KP~G~tS~~v----v~~ik~~l-----~~~KvGH~GTLDP~AtGvLvv~iG~aTkl~~~l~~----~~K~Y~a~~ 100 (232)
++++|||.|+-|..- ..++...+ ..+++=+.|-||-.++|+|++ ++++ .++.-++. .+|+|.+++
T Consensus 65 y~llnKP~G~v~s~~D~~gr~tv~D~lp~~~~~~~~~~pvGRLD~dTeGLLLL-TnDG-~la~rL~~P~~~~~K~Y~v~v 142 (248)
T COG1187 65 YLLLNKPRGYVSSTEDDEGRPTVFDLLPERLPRKKRLFPVGRLDKDTEGLLLL-TNDG-ELAHRLMHPSSEVEKEYLVRV 142 (248)
T ss_pred EEEEECCCCeEecccCCCCCceeeeecccccccccceeeccccCCCCeeEEEE-eCCH-HHHHHhcCCCCCCCEEEEEEE
Confidence 899999999755432 22222222 223588899999999999876 4444 23444443 589999987
Q ss_pred EecceecccccccCcHHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEEEEeeEeeCCCceEEEEEEeeCCcc--
Q psy1176 101 KLHSAVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQAGTY-- 178 (232)
Q Consensus 101 ~lG~~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTY-- 178 (232)
. | .+++++++..- .|-...--|. .+..+- ++.... +.+...+++....|.|
T Consensus 143 ~-g---------~~~~~~l~~l~---~Gv~l~d~~~-----------~~~~~~--~l~~~~-~~~~s~~~itl~EGrnrQ 195 (248)
T COG1187 143 E-G---------PVTEEDLEKLR---KGVTLDDGET-----------KPAKPA--SLEKEP-GKNNSWLRITLTEGRNRQ 195 (248)
T ss_pred e-c---------CCCHHHHHHHh---CCcEecCccc-----------ccceeE--EEEecC-CCCceEEEEEEeCCcCHH
Confidence 5 2 22344443332 2322222111 010111 111111 1135677888888877
Q ss_pred hHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcc-cc-------cChHHHHhchhh
Q psy1176 179 VRTYCVHMGLVLGVGAQMIELRRNRSGIQSEED-GL-------VTFRQEHMFEHI 225 (232)
Q Consensus 179 IRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~d-a~-------~~l~~l~~~~~~ 225 (232)
||-++. ++|. .+..|+|+++|++++.+ .+ ++.+++..+.+.
T Consensus 196 VRRm~~----a~G~--~V~~L~R~~iG~l~L~~L~l~~G~~R~L~~~E~~~l~~~ 244 (248)
T COG1187 196 VRRMFE----AVGL--EVLRLKRIRIGPLSLGDLPLPPGEWRELTLEEIAQLRKL 244 (248)
T ss_pred HHHHHH----HcCC--EEeEEEEEEEeeeEcCCCCCCCceeEECCHHHHHHHHHH
Confidence 444444 4444 49999999999999986 33 466666655443
No 54
>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=97.28 E-value=0.00028 Score=57.88 Aligned_cols=67 Identities=30% Similarity=0.489 Sum_probs=47.5
Q ss_pred EEEEeCCCCCCHHH--------HHHHHHHHhccccccCCCCCCCCceEEEEEEEccc--cccchhhhcCCceEEEEEE
Q psy1176 34 YVNLDKPSNPSSHE--------VVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRA--TRLVKSQQSAGKEYISIFK 101 (232)
Q Consensus 34 il~v~KP~G~tS~~--------vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~a--Tkl~~~l~~~~K~Y~a~~~ 101 (232)
++++|||+|+.++. +...+.+. ...++...|-||-.+||+|+++-+.. .++...-....|+|.|.+.
T Consensus 1 ~ivvnKP~G~~~~~~~~~~~~~~~~~l~~~-~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~v~K~Y~a~v~ 77 (154)
T cd02550 1 ILVLNKPSGLVCHPTDRDRDPTVVVRLDKL-HGPRVHAAGRLDKDTSGLLLLTNDGRLQRRLTEPRREIEKEYLVTVR 77 (154)
T ss_pred CEEEECCCCCEEecCCCCCCCcHHHhhhcc-cCCceeEeccCCCCCeeEEEEEcCHHHHHHHhhhhccCcEEEEEEEE
Confidence 47899999987652 33333322 23568889999999999999998765 2344432336899999875
No 55
>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional
Probab=97.27 E-value=0.00035 Score=64.26 Aligned_cols=70 Identities=24% Similarity=0.355 Sum_probs=54.3
Q ss_pred ceEEEEeCCCCCCHH--------HHHHHHHHHhc----cccccCCCCCCCCceEEEEEEEcc--ccccchhhhc--CCce
Q psy1176 32 AGYVNLDKPSNPSSH--------EVVAWIKRILR----CEKTGHSGTLDPKTSGCLIVCIDR--ATRLVKSQQS--AGKE 95 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~--------~vv~~ik~~l~----~~KvGH~GTLDP~AtGvLvv~iG~--aTkl~~~l~~--~~K~ 95 (232)
+.+++||||+|+.|| .+.+.+...+. ..+++..+-||-.+||+|+++-+. +.++...+.+ -.|+
T Consensus 91 ~~~lvvnKP~gl~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~~~~~l~~~~~~~~v~K~ 170 (325)
T PRK11180 91 DDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQKREITRE 170 (325)
T ss_pred CCEEEEECCCCCeEeCCCCCCCCcHHHHHHHHhhhccCCcccceeccCCCCCceeEEEECCHHHHHHHHHHHHhCCcceE
Confidence 479999999999777 35667766553 246788999999999999999875 3456666665 4799
Q ss_pred EEEEEE
Q psy1176 96 YISIFK 101 (232)
Q Consensus 96 Y~a~~~ 101 (232)
|.|.+.
T Consensus 171 Y~A~v~ 176 (325)
T PRK11180 171 YEAVAI 176 (325)
T ss_pred EEEEEe
Confidence 999765
No 56
>PRK11112 tRNA pseudouridine synthase C; Provisional
Probab=97.27 E-value=0.00052 Score=61.30 Aligned_cols=69 Identities=22% Similarity=0.314 Sum_probs=50.7
Q ss_pred ceEEEEeCCCCCCHHH----------HHHHHHHHhccccccCCCCCCCCceEEEEEEEccc--cccchhhhc--CCceEE
Q psy1176 32 AGYVNLDKPSNPSSHE----------VVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRA--TRLVKSQQS--AGKEYI 97 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~~----------vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~a--Tkl~~~l~~--~~K~Y~ 97 (232)
+-+++||||+|+.++. +...++..++ .++...+-||-.+||||+++-++. .++...+.+ -.|+|.
T Consensus 9 ~~~lvvnKPaGl~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~VHRLDr~TSGlll~Ak~~~~~~~L~~~f~~~~v~K~Y~ 87 (257)
T PRK11112 9 EWLVAVNKPAGWLVHRSWLDRHETVFVMQTVRDQIG-QHVFTAHRLDRPTSGVLLMALSSEVARLLAQQFEQHQIQKTYH 87 (257)
T ss_pred CCEEEEECCCCCeecCCCCCCCchHHHHHHHHHHhC-CCceeeccCCCCCeeEEEEECCHHHHHHHHHHHHhCCcceEEE
Confidence 4699999999997753 2334443333 257789999999999999999775 345555554 479999
Q ss_pred EEEE
Q psy1176 98 SIFK 101 (232)
Q Consensus 98 a~~~ 101 (232)
|.+.
T Consensus 88 Alv~ 91 (257)
T PRK11112 88 AIVR 91 (257)
T ss_pred EEEE
Confidence 9875
No 57
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional
Probab=97.14 E-value=0.0008 Score=61.78 Aligned_cols=70 Identities=24% Similarity=0.383 Sum_probs=52.2
Q ss_pred ceEEEEeCCCCCCHH-------HHHHHHHHHhc-cccccCCCCCCCCceEEEEEEEcccc--ccchhhhc--CCceEEEE
Q psy1176 32 AGYVNLDKPSNPSSH-------EVVAWIKRILR-CEKTGHSGTLDPKTSGCLIVCIDRAT--RLVKSQQS--AGKEYISI 99 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~-------~vv~~ik~~l~-~~KvGH~GTLDP~AtGvLvv~iG~aT--kl~~~l~~--~~K~Y~a~ 99 (232)
+-+++||||+|+.+| .+++.+..... ...++..+-||-.+||||+++-++.+ .+...+.+ -.|+|.|.
T Consensus 100 ~~~lvvnKP~gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~vhRLD~~TSGlll~Ak~~~a~~~l~~~~~~~~v~K~Y~a~ 179 (317)
T PRK11025 100 DHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARFLELVHRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLAL 179 (317)
T ss_pred CCEEEEECCCCCcCcCCCCCCccHHHHHHHhccCCCcCceeCCCCCCCceEEEEEcCHHHHHHHHHHHHhCCccEEEEEE
Confidence 579999999999875 34555554322 23467899999999999999998753 45555554 47999998
Q ss_pred EE
Q psy1176 100 FK 101 (232)
Q Consensus 100 ~~ 101 (232)
+.
T Consensus 180 v~ 181 (317)
T PRK11025 180 VR 181 (317)
T ss_pred Ee
Confidence 65
No 58
>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=97.01 E-value=0.00029 Score=57.36 Aligned_cols=72 Identities=24% Similarity=0.264 Sum_probs=46.0
Q ss_pred EEEEeCCCCCCHHHHH-----------H-HHHHHhccccccCCCCCCCCceEEEEEEEccc--cccchhhhc--CCceEE
Q psy1176 34 YVNLDKPSNPSSHEVV-----------A-WIKRILRCEKTGHSGTLDPKTSGCLIVCIDRA--TRLVKSQQS--AGKEYI 97 (232)
Q Consensus 34 il~v~KP~G~tS~~vv-----------~-~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~a--Tkl~~~l~~--~~K~Y~ 97 (232)
+++||||+|+-++..- . .........+.+-.+-||..+||||+++-... -++...+.+ ..|+|.
T Consensus 2 ~ivvnKP~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~RLD~~TsGlll~a~~~~~~~~l~~~f~~~~~~K~Y~ 81 (164)
T PF00849_consen 2 LIVVNKPAGVPVHPSDGNESKSVKELPALSLKRGDDPPELYPVHRLDRDTSGLLLFAKDKEAAAKLSKQFPKRKVEKTYL 81 (164)
T ss_dssp EEEEEE-TTSBSSSSSTBSSSSHHCHHHHHHHHCTTSGGGEESS---TT-EEEEEEESSHHHHHHHHHHHHTTCSEEEEE
T ss_pred EEEEECCCCCeEecCCCCCcccccchhhhhhhhccCCCceEECCCCCccccCCeeccCCcccccccccccccCCCcEEEE
Confidence 6899999998766433 1 11111245799999999999999999998654 335554433 589999
Q ss_pred EEEEecce
Q psy1176 98 SIFKLHSA 105 (232)
Q Consensus 98 a~~~lG~~ 105 (232)
|.+.-|..
T Consensus 82 a~v~~~~~ 89 (164)
T PF00849_consen 82 ALVEGGPV 89 (164)
T ss_dssp EEECSSSS
T ss_pred EeEccccc
Confidence 98874433
No 59
>cd02869 PseudoU_synth_RluCD_like PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and TruA. Pseudouridine synthases catalyze the isomerization of specific uridines in a n RNA molecule to pseudouridines (5-ribosyluracil, psi) requiring no cofactors. E. coli RluC for example makes psi955, 2504 and 2580 in 23S RNA. Some psi sites such as psi1917 in 23S RNA made by RluD are universally conserved. Other psi sites occur in a more restricted fashion, for example psi2819 in 21S mitochondrial ribosomal RNA made by S. cerevisiae Pus5p is only found in mitochondrial large subunit rRNAs from some other species and in gram negative bacteria. The E. coli counterpart of this psi residue is psi2580 in 23S rRNA. psi2604in 23S RNA made by RluF has only been detected in E.coli.
Probab=96.89 E-value=0.0013 Score=54.43 Aligned_cols=68 Identities=24% Similarity=0.357 Sum_probs=48.3
Q ss_pred EEEEeCCCCCCHHH--------HHHHH----HHHhccccccCCCCCCCCceEEEEEEEccc--cccchhhhc--CCceEE
Q psy1176 34 YVNLDKPSNPSSHE--------VVAWI----KRILRCEKTGHSGTLDPKTSGCLIVCIDRA--TRLVKSQQS--AGKEYI 97 (232)
Q Consensus 34 il~v~KP~G~tS~~--------vv~~i----k~~l~~~KvGH~GTLDP~AtGvLvv~iG~a--Tkl~~~l~~--~~K~Y~ 97 (232)
+++||||+|+.++. +...+ ........+...+.||-.+||+|+++-+.. .++...+.+ ..|+|.
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 57899999986552 33333 111234578899999999999999999653 445555433 589999
Q ss_pred EEEE
Q psy1176 98 SIFK 101 (232)
Q Consensus 98 a~~~ 101 (232)
|.+.
T Consensus 81 a~v~ 84 (185)
T cd02869 81 ALVD 84 (185)
T ss_pred EEEe
Confidence 9876
No 60
>cd02870 PseudoU_synth_RsuA_like Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this family are bacterial proteins.
Probab=96.61 E-value=0.00089 Score=54.51 Aligned_cols=66 Identities=29% Similarity=0.391 Sum_probs=43.5
Q ss_pred EEEEeCCCCCCHHH--------HHHHHHHHhccccccCCCCCCCCceEEEEEEEccc-c-ccchhhhcCCceEEEEEE
Q psy1176 34 YVNLDKPSNPSSHE--------VVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRA-T-RLVKSQQSAGKEYISIFK 101 (232)
Q Consensus 34 il~v~KP~G~tS~~--------vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG~a-T-kl~~~l~~~~K~Y~a~~~ 101 (232)
++++|||+|+-++. +.+.+.. ...++...|-||-.+||+|+++-... . ++..--..-.|+|.|.+.
T Consensus 1 ~ivvnKP~G~~~~~~~~~~~~~l~~~l~~--~~~~~~~vhRLD~~TsGlll~ak~~~~~~~l~~~~~~i~K~Y~a~v~ 76 (146)
T cd02870 1 YLLLNKPRGVVSTVRDPEGRPTVLDLLKD--VGERLFPVGRLDYDTEGLLLLTNDGELANRLTHPRYGVEKTYLVKVR 76 (146)
T ss_pred CEEEECCCCcEecccCCCCCCEEeeeccc--cCCCEEECCCCCCCCeeEEEEeCCHHHHHHhhCccCCCCeEEEEEEC
Confidence 47899999996652 1222221 13468899999999999999997553 2 222211124799999775
No 61
>KOG1919|consensus
Probab=96.06 E-value=0.0097 Score=56.36 Aligned_cols=74 Identities=22% Similarity=0.307 Sum_probs=54.3
Q ss_pred ceEEEEeCCCCCCHH--------HHHHHHHHHhccccccCCCCCCCCceEEEEEEEc--cccccchhhh--cCCceE-EE
Q psy1176 32 AGYVNLDKPSNPSSH--------EVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCID--RATRLVKSQQ--SAGKEY-IS 98 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~--------~vv~~ik~~l~~~KvGH~GTLDP~AtGvLvv~iG--~aTkl~~~l~--~~~K~Y-~a 98 (232)
..+++||||+|+.+| .+...+.......-..=.--||+..||+|+++=+ .+.++.+.+. ...|.| .+
T Consensus 113 ~~~vVvnKP~gipVhp~g~~~~n~i~~~l~~~~~~~~~~~~hRLDr~tSGllvlAkt~~~~~~~~~~~r~~~~~k~Y~v~ 192 (371)
T KOG1919|consen 113 KDYVVVNKPHGIPVHPTGRYRENTITKILAALHKVEGLRPCHRLDRLTSGLLVLAKTKEAADKFHEVLRKRTVKKEYVVA 192 (371)
T ss_pred CCEEEEeCCCCCceeccCccccccchHHHHHhccccccccccccCccccceEEEEechhHhHHHHHHHhcccceeEEEEE
Confidence 589999999999999 2222222222233455667899999999999999 5688999998 568999 57
Q ss_pred EEEecce
Q psy1176 99 IFKLHSA 105 (232)
Q Consensus 99 ~~~lG~~ 105 (232)
.+.....
T Consensus 193 ~v~g~fp 199 (371)
T KOG1919|consen 193 RVEGPFP 199 (371)
T ss_pred EEeccCC
Confidence 6665544
No 62
>TIGR00093 pseudouridine synthase. This model identifies panels of pseudouridine synthase enzymes that RNA modifications involved in maturing the protein translation apparatus. Counts per genome vary: two in Staphylococcus aureus, three in Pseudomonas putida, four in E. coli, etc.
Probab=95.87 E-value=0.14 Score=40.91 Aligned_cols=113 Identities=19% Similarity=0.284 Sum_probs=62.3
Q ss_pred CCCCCCCceEEEEEEEccc-cc-cchhhhcCCceEEEEEEecceecccccccCcHHHHHHHHhcCccCceecCCccCccc
Q psy1176 64 SGTLDPKTSGCLIVCIDRA-TR-LVKSQQSAGKEYISIFKLHSAVENVAKASKKKMMIKQGLLDKHGKPNENTPASYLAE 141 (232)
Q Consensus 64 ~GTLDP~AtGvLvv~iG~a-Tk-l~~~l~~~~K~Y~a~~~lG~~tdt~~~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySA 141 (232)
.|-||-.+||+|+++-... .+ +..--..-.|+|.|.+. |.- +.++++. +. .|
T Consensus 1 v~RLD~~TSGlll~akd~~~~~~L~~~~~~i~K~Y~a~v~-g~~---------~~~~~~~-~~--~g------------- 54 (128)
T TIGR00093 1 AGRLDRDSEGLLLLTNDGELVHRLTHPGHHCEKTYLVTVE-GPV---------TDEDLEA-LR--KG------------- 54 (128)
T ss_pred CCCCCCCCEEEEEEEeCHHHHHHHhCCCCCCCeEEEEEEC-CCC---------CHHHHHH-Hh--CC-------------
Confidence 3789999999999987653 33 33211124899999875 322 2233322 11 11
Q ss_pred eeeCCCCccEEEEEEeeEeeCCCceEEEEEEeeCCc--chHHHHHHHHhhcCCcEEEeeEEEEEEeCccCcc
Q psy1176 142 LEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQAGT--YVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEED 211 (232)
Q Consensus 142 vK~~G~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GT--YIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~d 211 (232)
+.+++.+. ..-.++.++... +.-.+++....|. -||.....+|. -+..+.|+++|++++++
T Consensus 55 ~~~~~~~~-~~~~~~~l~~~~--~~~~l~~~l~tGR~HQIR~~~~~lG~------pI~g~~R~~~g~~~l~~ 117 (128)
T TIGR00093 55 VQLEDGPT-KPAKLEVITEPG--FPTWLRITLSEGRNRQVRRMFAAVGF------PVLRLHRVRIGDVSLNG 117 (128)
T ss_pred eEECCcEE-eeeEEEEEccCC--CceEEEEEEeCCCCHHHHHHHHHcCC------eEeEEEEEEECCEEcCC
Confidence 00111100 001223333221 1234666666674 46666665543 38899999999999964
No 63
>KOG2529|consensus
Probab=91.71 E-value=0.021 Score=54.38 Aligned_cols=150 Identities=11% Similarity=-0.143 Sum_probs=104.8
Q ss_pred cccccCCCCCCCCceEEEEEEEccccccc-hhhhcCCceEEEEEEecceecccccc------------cCcHHHHHHHHh
Q psy1176 58 CEKTGHSGTLDPKTSGCLIVCIDRATRLV-KSQQSAGKEYISIFKLHSAVENVAKA------------SKKKMMIKQGLL 124 (232)
Q Consensus 58 ~~KvGH~GTLDP~AtGvLvv~iG~aTkl~-~~l~~~~K~Y~a~~~lG~~tdt~~~v------------~~t~e~l~~~l~ 124 (232)
..+.||-++.|-.+.|...+|+++.|..+ ....-..|.|++.+.+|+.++....+ ...+.+.+..+.
T Consensus 114 ~~~~~tr~~~s~~s~gk~yvg~~~lt~~v~~~~k~~~~~e~l~g~l~~~~pl~~~~kr~~~v~~~y~s~~ie~d~~~~l~ 193 (395)
T KOG2529|consen 114 CIDRATRLLKSQQSAGKEYVGIGKLTPEVEDALKLHQKLEHLYGALFQRPPLISAVKRVLRVRTLYESKIIEYDRDYPLL 193 (395)
T ss_pred EeecccccccchhccCcEEEEEEecCcchhhhhhhccchhhhhhhhccCCchhhhccceeEeechhhhhcccccccchhc
Confidence 45889999999999999999999999988 45555789999999999987654321 135667788899
Q ss_pred cCccCceecCCccCccceeeCCC-------C----------ccEEEEEEeeEeeCCCc------------eEEEEEEeeC
Q psy1176 125 DKHGKPNENTPASYLAELEAAPN-------K----------KPTYMKSNLISSDVTLS------------TGIIWLKCQA 175 (232)
Q Consensus 125 ~f~G~i~Q~PP~~~ySAvK~~G~-------R----------~v~Iy~i~l~~~~~~~~------------~~~~~v~cs~ 175 (232)
.|.+...|-+++ ++.-...|. | ..+-+ ..+..++.... ...+...+++
T Consensus 194 ~f~~~~~~~t~~--rt~~~~lg~ll~~g~k~~E~~r~r~~~~~E~~-~~~t~~d~~~~q~~~d~~~d~~~~r~~~~~les 270 (395)
T KOG2529|consen 194 RFGVSCEAGTYK--RTMCVHLGLLLGFGGKMQELRRVRSGICSEED-DMLTEHDEQDAQFEYDTERDESYLRRVKKPLES 270 (395)
T ss_pred cccccccccchH--HHHHHhhhhHhhhcchhhhhhhcccccccccc-cccccccchhhhhhhccccCcceeeeeeecccc
Confidence 999999999999 888776542 1 11111 01111111111 3345556666
Q ss_pred CcchHHHHHHHHhhcCCcEEEeeEEEEEEeCccCc
Q psy1176 176 GTYVRTYCVHMGLVLGVGAQMIELRRNRSGIQSEE 210 (232)
Q Consensus 176 GTYIRsL~~DiG~~Lg~~A~l~~LrRt~~G~f~l~ 210 (232)
++|.++.+-+.....+...++..|-+++.+.|..+
T Consensus 271 ~l~~~~~vv~kd~~v~~~cyg~k~~v~~~~r~~~~ 305 (395)
T KOG2529|consen 271 LLTGYKRVVVKDSTVNAPCYGAKLLVPGLLRYSDD 305 (395)
T ss_pred ccccceeeecccchhcCccccceeeeccccccCcc
Confidence 77777777777777777777777777777777643
No 64
>COG0575 CdsA CDP-diglyceride synthetase [Lipid metabolism]
Probab=58.39 E-value=6.4 Score=35.25 Aligned_cols=26 Identities=35% Similarity=0.622 Sum_probs=22.5
Q ss_pred HHHHHH-HHHHHhccccc-----cCCCCCCCC
Q psy1176 45 SHEVVA-WIKRILRCEKT-----GHSGTLDPK 70 (232)
Q Consensus 45 S~~vv~-~ik~~l~~~Kv-----GH~GTLDP~ 70 (232)
.+|.++ .+||.+|.|+. ||+|-||-+
T Consensus 216 lGDL~eS~iKR~~gvKDsg~liPGHGGilDR~ 247 (265)
T COG0575 216 LGDLFESYIKRLLGIKDSGWLIPGHGGILDRF 247 (265)
T ss_pred HhhHHHHHHHHccCCCCcCCCCCCcCcccccH
Confidence 468888 99999999887 899999965
No 65
>TIGR00094 tRNA_TruD_broad tRNA pseudouridine synthase, TruD family. MJ11364 is a strong partial match from 50 to 230 aa.
Probab=45.38 E-value=25 Score=33.18 Aligned_cols=49 Identities=20% Similarity=0.279 Sum_probs=41.8
Q ss_pred ceEEEEeCCCCCCHHHHHHHHHHHhc--cccccCCCCCCCCceEEEEEEEcc
Q psy1176 32 AGYVNLDKPSNPSSHEVVAWIKRILR--CEKTGHSGTLDPKTSGCLIVCIDR 81 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~~vv~~ik~~l~--~~KvGH~GTLDP~AtGvLvv~iG~ 81 (232)
+-++.|.| .|++..++++.|.+.++ .+.+|.+|+=|-.|-=.=-+++..
T Consensus 43 ~~~~~l~K-~~~~T~~a~~~iar~l~i~~~~i~yAG~KDk~AvT~Q~~s~~~ 93 (387)
T TIGR00094 43 FIHIRVEK-EGCNTLEVARVLAKFLGVSRREIGFAGTKDKRAVTEQWVCLRV 93 (387)
T ss_pred EEEEEEEE-CCcCHHHHHHHHHHHhCCChhheeecccccccceeEEEEEecc
Confidence 45888999 89999999999999998 469999999999996666666644
No 66
>cd02575 PseudoU_synth_EcTruD PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruD makes the highly phylogenetically conserved psi13 in tRNAs.
Probab=42.32 E-value=31 Score=31.21 Aligned_cols=48 Identities=15% Similarity=0.197 Sum_probs=40.4
Q ss_pred ceEEEEeCCCCCCHHHHHHHHHHHhcc--ccccCCCCCCCCceEEEEEEEc
Q psy1176 32 AGYVNLDKPSNPSSHEVVAWIKRILRC--EKTGHSGTLDPKTSGCLIVCID 80 (232)
Q Consensus 32 ~Gil~v~KP~G~tS~~vv~~ik~~l~~--~KvGH~GTLDP~AtGvLvv~iG 80 (232)
+-++.|.| .|++.++++..|.+.++. +.+|.+|+=|-.|-=.=-+++-
T Consensus 26 ~l~~~l~K-~~~~T~~ai~~LAr~lgi~~~~igyAGlKDk~AvT~Q~~sv~ 75 (253)
T cd02575 26 HLLLHIRK-TGLNTREVAKELAKALGVKERDVGYAGLKDRHAVTTQWFSVH 75 (253)
T ss_pred EEEEEEEE-CCCCHHHHHHHHHHHhCCChhheeecccccCceeeEEEEEEE
Confidence 44777777 899999999999999985 5999999999999766666663
No 67
>COG0101 TruA Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=31.86 E-value=1.9e+02 Score=26.25 Aligned_cols=92 Identities=5% Similarity=0.013 Sum_probs=54.4
Q ss_pred hhhhcCCceEEEEEEecceecccc-------cccCcHHHHHHHHhcCccCceecCCccCccceeeCCC-CccEEEEEEee
Q psy1176 87 KSQQSAGKEYISIFKLHSAVENVA-------KASKKKMMIKQGLLDKHGKPNENTPASYLAELEAAPN-KKPTYMKSNLI 158 (232)
Q Consensus 87 ~~l~~~~K~Y~a~~~lG~~tdt~~-------~v~~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~-R~v~Iy~i~l~ 158 (232)
.-+....|+|+=.+--....+-.. .-.++.+.++++++.|.|...=.- |++.+-+.. -.++|+++++.
T Consensus 101 aRfsa~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ld~~~m~~aa~~l~G~HDF~s----F~~~~~~~~s~vRti~~~~v~ 176 (266)
T COG0101 101 ARFSAKSRTYRYIIYNAPLRPPFLANYVWHVPYPLDLDAMREAAKLLLGTHDFTS----FRKAGCQSKSPVRTIYRIDVS 176 (266)
T ss_pred CcccccceEEEEEEcCccCCChhhhcccccccCcCCHHHHHHHHHHccccccchh----hccCCCccCCCeEEEEEEEEE
Confidence 344455688876554333211000 112568999999999999876111 333333311 35689999887
Q ss_pred EeeCCCceEEEEEEeeCCcchHHHHHHHH
Q psy1176 159 SSDVTLSTGIIWLKCQAGTYVRTYCVHMG 187 (232)
Q Consensus 159 ~~~~~~~~~~~~v~cs~GTYIRsL~~DiG 187 (232)
... +. +.+.++.-.+++..+|.|-
T Consensus 177 ~~~---~~--i~i~i~g~sFL~~mVR~iV 200 (266)
T COG0101 177 RDG---DL--IVIDISGNSFLWHMVRNIV 200 (266)
T ss_pred ecC---CE--EEEEEEeChhHHHHHHHHH
Confidence 763 23 4477777777777777554
No 68
>PF14714 KH_dom-like: KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; PDB: 2HJG_A 1MKY_A.
Probab=30.57 E-value=1.8e+02 Score=21.45 Aligned_cols=68 Identities=10% Similarity=0.142 Sum_probs=38.4
Q ss_pred cHHHHHHHHhcCccCceecCCccCccceeeCCCCccEEEEEEeeEeeCCCceEEEEEEeeC---CcchHHHHHHHHhhcC
Q psy1176 115 KKMMIKQGLLDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQA---GTYVRTYCVHMGLVLG 191 (232)
Q Consensus 115 t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~---GTYIRsL~~DiG~~Lg 191 (232)
+..+|.+.|..+. ++.||- .+| +.+.||-+.-++..+ |.|.+-+.-.+ -.|.|-|.+.|-+++|
T Consensus 3 ~T~~LN~~l~~~~---~~~~pp-------~~g-~~~Ki~Y~tQv~~~P--PtFv~f~N~~~~~~~sY~ryL~n~lRe~f~ 69 (80)
T PF14714_consen 3 STSELNRFLQKAL---ERHPPP-------SKG-KRLKIYYATQVGTRP--PTFVLFVNDPELLPESYKRYLENQLREAFG 69 (80)
T ss_dssp -HHHHHHHHHHHH---CCS--S-------ETT-CC--EEEEEEEETTT--TEEEEEES-CCC--HHHHHHHHHHHHHHH-
T ss_pred CHHHHHHHHHHHH---HhCCCC-------CCC-ceeEEEEEEeCCCCC--CEEEEEeCCcccCCHHHHHHHHHHHHHHCC
Confidence 3455666666552 334444 244 556677666666654 77777655434 4899999999988887
Q ss_pred CcEE
Q psy1176 192 VGAQ 195 (232)
Q Consensus 192 ~~A~ 195 (232)
-.+.
T Consensus 70 f~G~ 73 (80)
T PF14714_consen 70 FEGV 73 (80)
T ss_dssp -TTS
T ss_pred CCce
Confidence 5543
No 69
>COG0585 Uncharacterized conserved protein [Function unknown]
Probab=29.94 E-value=47 Score=32.08 Aligned_cols=46 Identities=20% Similarity=0.185 Sum_probs=38.6
Q ss_pred EEEEeCCCCCCHHHHHHHHHHHhcc--ccccCCCCCCCCceEEEEEEEc
Q psy1176 34 YVNLDKPSNPSSHEVVAWIKRILRC--EKTGHSGTLDPKTSGCLIVCID 80 (232)
Q Consensus 34 il~v~KP~G~tS~~vv~~ik~~l~~--~KvGH~GTLDP~AtGvLvv~iG 80 (232)
++.+.| .||+..+++.+|-+.+|. +.+|.+||=|-.|-=.=-||+-
T Consensus 50 ~~~l~K-~~~dT~~a~~~iak~lgv~~r~v~yAGlKDk~AVT~Q~vsi~ 97 (406)
T COG0585 50 LFLLRK-RGWDTLDAAREIAKRLGVPRRRVGYAGLKDKRAVTTQYVSIP 97 (406)
T ss_pred EEEEEE-cCCChHHHHHHHHHHhCCChhhcccccccccceeeEEEEEEE
Confidence 455555 799999999999999997 8999999999999666666665
No 70
>PF10296 DUF2404: Putative integral membrane protein conserved region (DUF2404); InterPro: IPR019411 This is entry represents a domain of unknown function found in mitochondrial distribution and morphology proteins Mdm12 and Mdm34, and in maintenance of mitochondrial morphology protein Mmm1. These proteins are components of the ERMES/MDM complex, which serves as a molecular tether to connect the endoplasmic reticulum and mitochondria [].
Probab=27.95 E-value=1.8e+02 Score=21.53 Aligned_cols=42 Identities=12% Similarity=0.003 Sum_probs=24.9
Q ss_pred cCCccCccceeeC----CCCccEEEEEEeeEeeCCC-ceEEEEEEeeCC
Q psy1176 133 NTPASYLAELEAA----PNKKPTYMKSNLISSDVTL-STGIIWLKCQAG 176 (232)
Q Consensus 133 ~PP~~~ySAvK~~----G~R~v~Iy~i~l~~~~~~~-~~~~~~v~cs~G 176 (232)
.|.. .+.+++. |..++.|..+++.+.+.+. -.+.+++.=++|
T Consensus 34 ~P~f--l~~i~v~~~~lG~~~P~i~~~~~~~~~~~g~~~~~~dv~Y~G~ 80 (91)
T PF10296_consen 34 LPSF--LDEISVTELDLGDSPPIISNVRIPDLDPDGELWIEFDVSYSGG 80 (91)
T ss_pred CCCc--cCcEEEEEEECCCCCCEEEeccccccCCCCCEEEEEEEEEcCC
Confidence 6777 7777775 6777777777776555432 233344443443
No 71
>TIGR03065 srtB_sig_QVPTGV sortase B signal domain, QVPTGV class. This model represents a boutique (unusual) sorting signal, recognized by a member of the sortase SrtB family rather than by the housekeeping sortase, SrtA.
Probab=23.77 E-value=51 Score=20.41 Aligned_cols=21 Identities=48% Similarity=0.548 Sum_probs=15.7
Q ss_pred ccCCCCCCCCceEEEEEEEccc
Q psy1176 61 TGHSGTLDPKTSGCLIVCIDRA 82 (232)
Q Consensus 61 vGH~GTLDP~AtGvLvv~iG~a 82 (232)
.|-.|||-||+. +=++++|.+
T Consensus 4 tgv~gtlapf~a-l~iva~gg~ 24 (32)
T TIGR03065 4 TGVAGTLAPFAA-LGIVAIGGA 24 (32)
T ss_pred cceeeeecccee-EEEEEeccE
Confidence 577899999984 456677765
No 72
>KOG2364|consensus
Probab=21.56 E-value=24 Score=33.93 Aligned_cols=35 Identities=20% Similarity=0.332 Sum_probs=23.1
Q ss_pred CccEEEEEEeeEeeCCCceEEEEEEeeCCcchHHHHH
Q psy1176 148 KKPTYMKSNLISSDVTLSTGIIWLKCQAGTYVRTYCV 184 (232)
Q Consensus 148 R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTYIRsL~~ 184 (232)
|.+.||..+-...+. -+|.....-+.||||..++|
T Consensus 362 rer~i~~me~~~~d~--hhf~v~leTqagtyIkefvh 396 (433)
T KOG2364|consen 362 RERCILGMEKMEADW--HHFRVVLETQAGTYIKEFVH 396 (433)
T ss_pred hhhhhhhhccCcccc--eEEEEeehhhhhhHHHHHhc
Confidence 445555555444432 35666777778999999988
No 73
>PF04760 IF2_N: Translation initiation factor IF-2, N-terminal region; InterPro: IPR006847 This region is found in the N-terminal half of translation initiation factor IF-2. It is found in two copies in IF-2 alpha isoforms, and in only one copy in the N-terminally truncated beta and gamma isoforms []. Its function is unknown.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1ND9_A.
Probab=21.26 E-value=84 Score=20.96 Aligned_cols=30 Identities=17% Similarity=0.155 Sum_probs=21.3
Q ss_pred CCCCHHHHHHHHHHHhccccccCCCCCCCC
Q psy1176 41 SNPSSHEVVAWIKRILRCEKTGHSGTLDPK 70 (232)
Q Consensus 41 ~G~tS~~vv~~ik~~l~~~KvGH~GTLDP~ 70 (232)
-|+++.+++..+.+.+|.....|.-+||+-
T Consensus 13 l~v~~~~ii~~l~~~~Gi~~~~~~~~ld~e 42 (54)
T PF04760_consen 13 LGVPSKEIIKKLFKELGIMVKSINSSLDEE 42 (54)
T ss_dssp HSSSHHHHHHHH-HHHTS---SSSS-EETT
T ss_pred HCcCHHHHHHHHHHhCCcCcCCCCCcCCHH
Confidence 488999999999888888778888888864
No 74
>cd02641 R3H_Smubp-2_like R3H domain of Smubp-2_like proteins. Smubp-2_like proteins also contain a helicase_like and an AN1-like Zinc finger domain and have been shown to bind single-stranded DNA. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.
Probab=20.65 E-value=70 Score=22.35 Aligned_cols=15 Identities=20% Similarity=0.246 Sum_probs=13.4
Q ss_pred HHHHHHHHhhcCCcE
Q psy1176 180 RTYCVHMGLVLGVGA 194 (232)
Q Consensus 180 RsL~~DiG~~Lg~~A 194 (232)
|.++|++|+.+|...
T Consensus 31 R~~vH~lA~~~gL~s 45 (60)
T cd02641 31 RLLVHELAEELGLRH 45 (60)
T ss_pred HHHHHHHHHHcCCce
Confidence 999999999999654
No 75
>cd00497 PseudoU_synth_TruA_like PseudoU_synth_TruA: Pseudouridine synthase, TruA family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruA, Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus3p Caenorhabditis elegans Pus1p and human PUS1. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae PUS1 catalyzes the formation of psi34 and psi36 in the intron containing tRNAIle, psi35 in the intron containing tRNATyr, psi27 and/or psi28 in several yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear RNA (U2 snRNA). The presence of the intron is required for the formation of psi 34, 35 and 36. In addition S. cerevisiae PUS1 makes psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Psi44 in U2 snRNA and, psi38 and psi39 in tRNAs are highly ph
Probab=20.59 E-value=5.7e+02 Score=22.23 Aligned_cols=64 Identities=6% Similarity=0.070 Sum_probs=39.9
Q ss_pred CcHHHHHHHHhcCccCceecCCccCccceeeCC-CCccEEEEEEeeEeeCCCceEEEEEEeeCCcchHHHHHHH
Q psy1176 114 KKKMMIKQGLLDKHGKPNENTPASYLAELEAAP-NKKPTYMKSNLISSDVTLSTGIIWLKCQAGTYVRTYCVHM 186 (232)
Q Consensus 114 ~t~e~l~~~l~~f~G~i~Q~PP~~~ySAvK~~G-~R~v~Iy~i~l~~~~~~~~~~~~~v~cs~GTYIRsL~~Di 186 (232)
++.+.++++++.|.|...=.. |+..+.+. .-.++|+++++.+.+ +. +.+.+.+-.+++..+|-|
T Consensus 114 ~d~~~m~~a~~~f~G~HDF~~----F~~~~~~~~~~~RtI~~~~v~~~~---~~--~~i~i~g~sFL~~mVR~m 178 (224)
T cd00497 114 LDIEAMREAAKLLLGTHDFRN----FCKKDGRKKNPVRTIISAEVEEVD---DF--YVFEVKGKSFLWHQVRRI 178 (224)
T ss_pred cCHHHHHHHHHHccCcccHHH----hcCCCCCCCCCeEEEEEEEEEecC---CE--EEEEEEEcHHHHHHHHHH
Confidence 578999999999999876111 33221111 223578888876532 23 455566667888877744
Done!