Query 001183
Match_columns 1131
No_of_seqs 406 out of 647
Neff 5.9
Searched_HMMs 46136
Date Thu Mar 28 18:05:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001183.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001183hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0988 RNA-directed RNA polym 100.0 2E-182 5E-187 1636.1 61.7 1070 2-1126 9-1121(1145)
2 PF05183 RdRP: RNA dependent R 100.0 8E-125 2E-129 1144.0 21.7 545 397-976 1-574 (579)
3 PLN03134 glycine-rich RNA-bind 99.5 4.2E-14 9.2E-19 143.7 11.7 83 2-89 33-115 (144)
4 PLN03213 repressor of silencin 99.4 7.6E-13 1.6E-17 150.1 9.4 79 3-90 10-90 (759)
5 KOG0149 Predicted RNA-binding 99.4 1.1E-12 2.3E-17 139.0 8.3 87 3-95 12-98 (247)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.4 1.7E-12 3.7E-17 149.3 10.5 79 4-87 270-348 (352)
7 PF00076 RRM_1: RNA recognitio 99.3 5.8E-12 1.2E-16 110.2 9.2 70 6-81 1-70 (70)
8 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.3 6E-12 1.3E-16 144.8 10.2 79 4-87 4-82 (352)
9 TIGR01659 sex-lethal sex-letha 99.3 9E-12 2E-16 143.5 10.2 80 3-87 107-186 (346)
10 PLN03120 nucleic acid binding 99.3 1.5E-11 3.2E-16 134.4 10.8 78 1-87 2-79 (260)
11 PF14259 RRM_6: RNA recognitio 99.2 2.7E-11 5.9E-16 107.0 8.8 70 6-81 1-70 (70)
12 TIGR01645 half-pint poly-U bin 99.2 5E-11 1.1E-15 144.6 12.0 78 3-85 107-184 (612)
13 TIGR01645 half-pint poly-U bin 99.2 5.1E-11 1.1E-15 144.6 10.6 81 4-89 205-285 (612)
14 KOG0122 Translation initiation 99.1 1.2E-10 2.6E-15 123.9 8.9 79 4-87 190-268 (270)
15 TIGR01659 sex-lethal sex-letha 99.1 1.4E-10 2.9E-15 133.9 10.1 82 4-90 194-277 (346)
16 smart00360 RRM RNA recognition 99.1 3.1E-10 6.6E-15 97.4 8.5 71 8-83 1-71 (71)
17 smart00362 RRM_2 RNA recogniti 99.1 6.8E-10 1.5E-14 95.7 9.1 72 5-83 1-72 (72)
18 TIGR01648 hnRNP-R-Q heterogene 99.0 5.4E-10 1.2E-14 135.6 10.3 77 3-85 58-135 (578)
19 TIGR01628 PABP-1234 polyadenyl 99.0 6.2E-10 1.4E-14 136.5 10.6 81 3-89 285-365 (562)
20 TIGR01642 U2AF_lg U2 snRNP aux 99.0 7E-10 1.5E-14 134.2 10.6 81 4-89 296-376 (509)
21 KOG0108 mRNA cleavage and poly 99.0 4.2E-10 9.1E-15 131.9 8.1 82 4-90 19-100 (435)
22 COG0724 RNA-binding proteins ( 99.0 9.4E-10 2E-14 118.3 10.1 79 4-87 116-194 (306)
23 TIGR01628 PABP-1234 polyadenyl 99.0 9.6E-10 2.1E-14 134.9 10.9 81 4-89 1-81 (562)
24 KOG0125 Ataxin 2-binding prote 99.0 6.9E-10 1.5E-14 122.2 8.2 104 4-114 97-202 (376)
25 TIGR01622 SF-CC1 splicing fact 99.0 9.7E-10 2.1E-14 131.2 10.2 79 3-87 89-167 (457)
26 TIGR01622 SF-CC1 splicing fact 99.0 1.2E-09 2.5E-14 130.6 10.6 79 4-87 187-265 (457)
27 PLN03121 nucleic acid binding 99.0 1.8E-09 3.9E-14 116.6 10.1 78 3-89 5-82 (243)
28 KOG0148 Apoptosis-promoting RN 99.0 8.8E-10 1.9E-14 118.7 6.7 92 5-102 64-155 (321)
29 smart00361 RRM_1 RNA recogniti 98.9 2.4E-09 5.2E-14 95.6 7.8 62 17-83 2-70 (70)
30 KOG0117 Heterogeneous nuclear 98.9 3E-09 6.5E-14 121.1 8.6 90 3-110 83-172 (506)
31 cd00590 RRM RRM (RNA recogniti 98.9 9.5E-09 2.1E-13 89.0 9.7 73 5-83 1-73 (74)
32 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.9 4.7E-09 1E-13 126.6 10.4 83 3-94 2-84 (481)
33 KOG4207 Predicted splicing fac 98.9 3.4E-09 7.3E-14 110.4 6.4 81 3-88 13-93 (256)
34 KOG0111 Cyclophilin-type pepti 98.8 2.2E-09 4.8E-14 112.3 4.6 82 4-90 11-92 (298)
35 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.8 1.8E-08 3.9E-13 121.6 10.9 78 3-90 275-353 (481)
36 KOG0131 Splicing factor 3b, su 98.8 6.5E-09 1.4E-13 106.7 5.4 79 4-87 10-88 (203)
37 KOG0107 Alternative splicing f 98.8 1.5E-08 3.2E-13 103.6 7.9 79 2-90 9-87 (195)
38 TIGR01648 hnRNP-R-Q heterogene 98.8 1.9E-08 4.1E-13 122.3 10.1 75 3-88 233-307 (578)
39 KOG0113 U1 small nuclear ribon 98.8 2.4E-08 5.1E-13 109.2 9.5 82 4-90 102-183 (335)
40 KOG4208 Nucleolar RNA-binding 98.7 2.1E-08 4.6E-13 105.0 7.5 80 5-88 51-130 (214)
41 KOG0145 RNA-binding protein EL 98.7 3.4E-08 7.3E-13 105.8 8.1 79 4-87 42-120 (360)
42 KOG0126 Predicted RNA-binding 98.7 3.6E-09 7.8E-14 108.3 -0.3 96 4-107 36-131 (219)
43 KOG0127 Nucleolar protein fibr 98.7 6.2E-08 1.3E-12 112.6 9.1 82 3-87 292-377 (678)
44 KOG0145 RNA-binding protein EL 98.6 7.1E-08 1.5E-12 103.3 8.6 75 5-84 280-354 (360)
45 TIGR01642 U2AF_lg U2 snRNP aux 98.6 2.9E-08 6.3E-13 120.2 6.2 75 3-86 175-258 (509)
46 KOG0127 Nucleolar protein fibr 98.6 8.9E-08 1.9E-12 111.3 7.1 82 3-89 5-86 (678)
47 KOG0105 Alternative splicing f 98.5 1.1E-07 2.3E-12 97.9 6.4 77 4-88 7-83 (241)
48 KOG0130 RNA-binding protein RB 98.5 1.5E-07 3.3E-12 92.4 5.9 78 5-87 74-151 (170)
49 KOG4212 RNA-binding protein hn 98.5 4E-07 8.7E-12 103.4 8.5 80 5-89 46-125 (608)
50 KOG0144 RNA-binding protein CU 98.4 2.2E-07 4.8E-12 105.8 6.4 97 5-112 36-134 (510)
51 KOG0147 Transcriptional coacti 98.4 1.7E-07 3.6E-12 109.9 5.5 79 6-89 281-359 (549)
52 KOG0121 Nuclear cap-binding pr 98.4 4.1E-07 9E-12 88.8 7.1 77 3-84 36-112 (153)
53 KOG0148 Apoptosis-promoting RN 98.4 4E-07 8.6E-12 98.6 7.5 77 4-91 165-241 (321)
54 PF13893 RRM_5: RNA recognitio 98.4 6.2E-07 1.3E-11 76.2 7.3 55 20-84 1-55 (56)
55 KOG4205 RNA-binding protein mu 98.4 1.8E-07 3.8E-12 106.0 4.4 80 4-89 7-86 (311)
56 KOG0124 Polypyrimidine tract-b 98.4 2.9E-07 6.3E-12 102.4 5.3 75 4-83 114-188 (544)
57 KOG0117 Heterogeneous nuclear 98.4 6.3E-07 1.4E-11 102.6 7.7 74 3-89 259-332 (506)
58 KOG0123 Polyadenylate-binding 98.3 1.1E-06 2.3E-11 102.6 8.5 77 6-90 79-155 (369)
59 KOG0109 RNA-binding protein LA 98.3 9.3E-07 2E-11 96.6 6.7 74 2-88 1-74 (346)
60 KOG0146 RNA-binding protein ET 98.3 8.1E-07 1.8E-11 95.7 6.0 84 4-92 286-369 (371)
61 KOG4205 RNA-binding protein mu 98.3 8.9E-07 1.9E-11 100.4 5.7 82 3-90 97-178 (311)
62 KOG0114 Predicted RNA-binding 98.1 9.4E-06 2E-10 76.9 8.0 74 3-84 18-91 (124)
63 KOG4661 Hsp27-ERE-TATA-binding 98.1 7.1E-06 1.5E-10 95.7 7.6 84 2-90 404-487 (940)
64 KOG0124 Polypyrimidine tract-b 98.0 1.1E-05 2.4E-10 90.1 7.8 81 4-89 211-291 (544)
65 KOG0110 RNA-binding protein (R 98.0 1.5E-05 3.3E-10 96.1 7.8 76 6-86 518-596 (725)
66 KOG0132 RNA polymerase II C-te 97.9 2E-05 4.3E-10 95.6 7.2 73 2-85 420-492 (894)
67 KOG0109 RNA-binding protein LA 97.9 1.2E-05 2.6E-10 88.1 4.9 74 3-89 78-151 (346)
68 KOG4209 Splicing factor RNPS1, 97.8 1.9E-05 4.1E-10 86.6 5.6 82 3-90 101-182 (231)
69 KOG0123 Polyadenylate-binding 97.8 3.3E-05 7.1E-10 90.4 7.9 76 4-90 2-77 (369)
70 KOG0131 Splicing factor 3b, su 97.8 2E-05 4.3E-10 81.6 5.2 82 2-88 95-177 (203)
71 KOG4211 Splicing factor hnRNP- 97.8 3.4E-05 7.4E-10 89.9 7.7 78 4-90 11-88 (510)
72 KOG0533 RRM motif-containing p 97.8 5.9E-05 1.3E-09 82.8 8.7 81 4-90 84-164 (243)
73 KOG0153 Predicted RNA-binding 97.7 5.3E-05 1.2E-09 85.0 7.2 75 3-87 228-302 (377)
74 KOG4206 Spliceosomal protein s 97.7 6.8E-05 1.5E-09 80.3 7.6 77 5-89 11-91 (221)
75 KOG0116 RasGAP SH3 binding pro 97.7 5E-05 1.1E-09 89.4 7.1 82 3-90 288-369 (419)
76 KOG4454 RNA binding protein (R 97.6 2.1E-05 4.4E-10 83.4 1.9 76 2-84 8-83 (267)
77 KOG0144 RNA-binding protein CU 97.5 0.00012 2.5E-09 84.2 6.2 80 3-87 424-503 (510)
78 KOG0415 Predicted peptidyl pro 97.5 0.00017 3.6E-09 81.0 6.4 76 4-84 240-315 (479)
79 KOG0110 RNA-binding protein (R 97.5 0.00012 2.6E-09 88.6 5.2 81 4-89 614-694 (725)
80 KOG0226 RNA-binding proteins [ 97.3 0.00019 4.1E-09 77.9 4.4 76 5-85 192-267 (290)
81 KOG0106 Alternative splicing f 97.1 0.00035 7.5E-09 75.5 4.0 70 4-86 2-71 (216)
82 KOG1457 RNA binding protein (c 97.1 0.0021 4.5E-08 68.7 9.1 83 3-90 34-120 (284)
83 KOG4212 RNA-binding protein hn 96.9 0.0015 3.2E-08 75.2 6.5 70 4-83 537-606 (608)
84 KOG0147 Transcriptional coacti 96.9 0.00044 9.6E-09 81.9 2.0 75 5-85 181-255 (549)
85 KOG0146 RNA-binding protein ET 96.8 0.002 4.3E-08 70.2 5.7 98 4-109 20-118 (371)
86 PF04059 RRM_2: RNA recognitio 96.7 0.0061 1.3E-07 58.3 8.3 65 4-69 2-66 (97)
87 KOG0120 Splicing factor U2AF, 96.7 0.0013 2.7E-08 78.9 4.1 81 5-90 291-371 (500)
88 KOG0151 Predicted splicing reg 96.5 0.004 8.6E-08 75.6 6.7 84 2-90 173-259 (877)
89 KOG0129 Predicted RNA-binding 96.5 0.0062 1.3E-07 72.1 8.1 87 3-103 370-456 (520)
90 KOG1548 Transcription elongati 96.5 0.0075 1.6E-07 68.3 8.1 80 3-88 134-221 (382)
91 KOG4660 Protein Mei2, essentia 96.4 0.0029 6.3E-08 75.4 4.4 69 3-81 75-143 (549)
92 KOG4210 Nuclear localization s 96.4 0.0021 4.6E-08 72.9 3.1 80 4-89 185-265 (285)
93 PF11608 Limkain-b1: Limkain b 96.1 0.032 6.9E-07 51.8 8.6 71 3-87 2-76 (90)
94 KOG1995 Conserved Zn-finger pr 96.1 0.0054 1.2E-07 69.9 4.6 81 4-89 67-155 (351)
95 KOG4211 Splicing factor hnRNP- 96.0 0.011 2.5E-07 69.6 6.8 79 5-90 105-184 (510)
96 KOG4849 mRNA cleavage factor I 95.5 0.0096 2.1E-07 67.1 3.4 77 6-85 83-159 (498)
97 KOG1190 Polypyrimidine tract-b 94.6 0.064 1.4E-06 62.1 6.4 78 3-88 414-491 (492)
98 KOG1365 RNA-binding protein Fu 94.1 0.063 1.4E-06 61.6 5.1 74 5-83 163-238 (508)
99 KOG1190 Polypyrimidine tract-b 94.0 0.25 5.4E-06 57.4 9.5 77 4-90 298-375 (492)
100 KOG1365 RNA-binding protein Fu 93.7 0.074 1.6E-06 61.0 4.7 79 6-87 283-361 (508)
101 KOG0106 Alternative splicing f 93.3 0.046 1E-06 59.4 2.3 65 5-82 101-165 (216)
102 PF14605 Nup35_RRM_2: Nup53/35 92.9 0.22 4.8E-06 42.5 5.4 52 4-65 2-53 (53)
103 PF08777 RRM_3: RNA binding mo 92.8 0.28 6.2E-06 47.7 6.7 70 4-82 2-74 (105)
104 COG5175 MOT2 Transcriptional r 91.6 0.4 8.6E-06 54.4 6.8 76 6-88 117-203 (480)
105 KOG1457 RNA binding protein (c 91.4 0.19 4.1E-06 54.3 3.8 59 4-69 211-269 (284)
106 KOG4307 RNA binding protein RB 90.9 0.36 7.8E-06 59.2 5.9 71 2-83 1-72 (944)
107 KOG4307 RNA binding protein RB 90.5 0.45 9.9E-06 58.4 6.3 73 5-83 869-942 (944)
108 KOG3152 TBP-binding protein, a 90.2 0.19 4.2E-06 55.3 2.7 70 5-79 76-157 (278)
109 KOG4206 Spliceosomal protein s 88.6 1.4 2.9E-05 48.2 7.6 74 4-86 147-220 (221)
110 KOG1548 Transcription elongati 87.4 1.5 3.1E-05 50.5 7.1 60 19-87 292-351 (382)
111 KOG0120 Splicing factor U2AF, 86.4 1.5 3.2E-05 53.4 6.9 70 17-88 416-492 (500)
112 KOG1855 Predicted RNA-binding 85.6 0.86 1.9E-05 53.5 4.3 74 2-78 230-316 (484)
113 KOG2202 U2 snRNP splicing fact 84.7 0.5 1.1E-05 52.3 1.8 64 18-86 83-146 (260)
114 PF05172 Nup35_RRM: Nup53/35/4 84.3 4.1 8.8E-05 39.5 7.6 71 4-81 7-84 (100)
115 KOG0128 RNA-binding protein SA 83.9 0.54 1.2E-05 59.2 1.9 77 5-87 738-814 (881)
116 KOG2314 Translation initiation 80.9 2.6 5.7E-05 51.1 5.8 75 5-85 60-141 (698)
117 KOG0128 RNA-binding protein SA 80.7 0.17 3.7E-06 63.4 -4.0 67 5-76 669-735 (881)
118 KOG1996 mRNA splicing factor [ 80.6 4 8.7E-05 46.0 6.8 62 17-83 300-362 (378)
119 KOG0129 Predicted RNA-binding 79.3 3.9 8.5E-05 49.3 6.6 73 3-84 259-339 (520)
120 smart00663 RPOLA_N RNA polymer 77.6 3.1 6.8E-05 47.7 5.1 53 781-847 198-253 (295)
121 KOG4676 Splicing factor, argin 76.7 3.4 7.4E-05 48.2 4.9 81 5-91 9-92 (479)
122 PF10309 DUF2414: Protein of u 76.7 11 0.00023 33.6 6.9 57 4-68 6-62 (62)
123 PF00623 RNA_pol_Rpb1_2: RNA p 74.4 2.3 4.9E-05 44.9 2.6 52 782-847 95-149 (166)
124 PF08952 DUF1866: Domain of un 73.8 8.9 0.00019 39.6 6.6 58 19-90 52-109 (146)
125 KOG0115 RNA-binding protein p5 72.5 4.7 0.0001 44.9 4.5 65 2-70 30-94 (275)
126 KOG1456 Heterogeneous nuclear 72.2 17 0.00036 42.5 8.8 91 5-107 289-380 (494)
127 PF03880 DbpA: DbpA RNA bindin 70.4 12 0.00027 33.9 6.1 62 13-85 11-74 (74)
128 KOG2253 U1 snRNP complex, subu 65.3 3.5 7.5E-05 51.1 1.9 74 2-89 39-112 (668)
129 PRK02625 rpoC1 DNA-directed RN 64.4 9.4 0.0002 47.8 5.3 51 782-846 423-476 (627)
130 CHL00018 rpoC1 RNA polymerase 63.7 7.4 0.00016 49.0 4.3 51 782-846 444-497 (663)
131 KOG4210 Nuclear localization s 63.0 5.3 0.00011 45.8 2.7 63 4-69 89-151 (285)
132 TIGR02387 rpoC1_cyan DNA-direc 62.3 7.7 0.00017 48.4 4.1 51 782-846 416-469 (619)
133 KOG2416 Acinus (induces apopto 57.6 8.4 0.00018 47.3 3.2 77 3-89 444-523 (718)
134 KOG2193 IGF-II mRNA-binding pr 54.7 11 0.00024 44.6 3.3 72 4-85 2-73 (584)
135 KOG0105 Alternative splicing f 49.0 45 0.00098 35.8 6.5 55 5-69 117-171 (241)
136 KOG2318 Uncharacterized conser 47.0 47 0.001 41.1 7.1 79 3-83 174-301 (650)
137 TIGR02386 rpoC_TIGR DNA-direct 44.5 22 0.00048 47.7 4.3 52 782-847 397-451 (1140)
138 PRK00566 DNA-directed RNA poly 44.5 24 0.00053 47.4 4.6 52 782-847 405-459 (1156)
139 KOG1456 Heterogeneous nuclear 43.3 45 0.00098 39.2 5.9 83 3-94 31-113 (494)
140 PRK14906 DNA-directed RNA poly 42.8 27 0.00058 47.6 4.6 52 782-847 493-547 (1460)
141 KOG0112 Large RNA-binding prot 41.7 38 0.00083 43.8 5.5 100 3-113 455-563 (975)
142 PRK09603 bifunctional DNA-dire 41.5 30 0.00065 50.0 5.0 53 781-847 1803-1858(2890)
143 KOG0112 Large RNA-binding prot 40.8 8.1 0.00017 49.5 -0.4 63 3-69 372-434 (975)
144 PRK08566 DNA-directed RNA poly 38.6 30 0.00066 45.7 4.2 53 781-847 411-466 (882)
145 PF07576 BRAP2: BRCA1-associat 36.6 1.8E+02 0.0038 28.9 8.1 67 5-77 15-81 (110)
146 TIGR02390 RNA_pol_rpoA1 DNA-di 35.8 34 0.00073 45.2 4.0 53 781-847 407-462 (868)
147 cd00292 EF1B Elongation factor 34.9 82 0.0018 30.0 5.3 55 455-512 19-73 (88)
148 TIGR00489 aEF-1_beta translati 34.2 92 0.002 29.7 5.5 59 455-516 19-77 (88)
149 PRK00435 ef1B elongation facto 33.6 92 0.002 29.7 5.4 59 455-516 19-77 (88)
150 PF02714 DUF221: Domain of unk 31.7 42 0.00091 38.6 3.5 33 51-87 1-33 (325)
151 KOG4660 Protein Mei2, essentia 30.8 51 0.0011 40.6 4.1 63 5-69 390-452 (549)
152 PRK14844 bifunctional DNA-dire 29.6 54 0.0012 47.6 4.4 52 782-847 1848-1902(2836)
153 KOG2591 c-Mpl binding protein, 27.6 70 0.0015 39.5 4.4 73 6-86 178-250 (684)
154 COG5207 UBP14 Isopeptidase T [ 26.9 6.3E+02 0.014 31.5 11.8 95 637-754 555-669 (749)
155 KOG2068 MOT2 transcription fac 26.0 39 0.00085 39.3 1.9 79 6-89 80-164 (327)
156 KOG4574 RNA-binding protein (c 25.8 44 0.00096 43.0 2.4 77 5-90 300-376 (1007)
157 PRK14977 bifunctional DNA-dire 25.6 80 0.0017 43.6 4.9 53 781-847 427-482 (1321)
158 KOG0260 RNA polymerase II, lar 24.3 65 0.0014 43.0 3.5 60 788-847 383-482 (1605)
159 PHA02097 hypothetical protein 23.9 63 0.0014 27.6 2.2 28 537-564 30-59 (59)
160 PF01316 Arg_repressor: Argini 23.8 3.8E+02 0.0082 24.5 7.4 58 680-747 12-69 (70)
161 TIGR03636 L23_arch archaeal ri 23.7 2.5E+02 0.0054 26.1 6.3 60 5-68 15-74 (77)
162 PF04847 Calcipressin: Calcipr 21.8 2.1E+02 0.0045 31.0 6.2 63 16-87 8-70 (184)
163 cd01213 tensin Tensin Phosphot 20.4 3.9E+02 0.0084 27.7 7.6 86 391-510 47-133 (138)
No 1
>KOG0988 consensus RNA-directed RNA polymerase QDE-1 required for posttranscriptional gene silencing and RNA interference [RNA processing and modification]
Probab=100.00 E-value=2.4e-182 Score=1636.15 Aligned_cols=1070 Identities=37% Similarity=0.538 Sum_probs=853.8
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCce-e
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQN-L 80 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~-L 80 (1131)
|+.++.+++||.+.++.+|.+|+|..+|.++|+..++-+++..+..+-|+-++|.+.+.--.++.... ....|+.-+ +
T Consensus 9 ~~~~~~~~~f~e~~~~~~~~~f~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~f~~i~l~~~~~~~~~-a~v~f~~~~~~ 87 (1145)
T KOG0988|consen 9 VVEEQDCNGFPESNSAVELGDFLELLIGAITVYLLKMNTTKPYRPNRVYHGSDFTSIALDCSGIETPL-AKVYFKHNQGL 87 (1145)
T ss_pred eeeeeeccCcccchhHHHhhhHHHHHhcchHHHHHhcCCCCCCCCccccccccccccccccccchhhH-HHHhhccCCCC
Confidence 46789999999999999999999999999999999999988665677899999987665544344332 123444444 7
Q ss_pred EeecCCC--CCCCCCCCCcceecCeEEEEeeeec---ccceEEEeee---cccceeeccCceeEEEEEecCCCCcccccc
Q 001183 81 KISETHS--DIVPRPVKAQHRVEDGVLHVGVMCK---EERLRVLQTF---EGVRGWLLPDRRRLEFWVWPKHNGEWQKGI 152 (1131)
Q Consensus 81 ~V~~a~~--~i~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 (1131)
+..++.. ++++.+...++.+..+++++++--. .-.|..+|++ +++.+...+..+.++..+..+.+ .
T Consensus 88 ~~~e~~~~~~~l~~~a~~~~~l~~i~~~~~F~~~~~~t~~~~~~~~~~v~~~v~V~~~~~~~~~~~p~~~~~~-~----- 161 (1145)
T KOG0988|consen 88 NPWEVETSRRILSSLAVIRESLNQIVLEKVFDKPDGITKTFDCLESYKVNDQVTVRGSPVRRIVESPVVEYCK-L----- 161 (1145)
T ss_pred CccchhhhhhhccccccchHHHhhHHHhhccCcccceeeeecceEEEeecceEEEeccceeeeeecccccccc-c-----
Confidence 7777777 6667665567777777776665333 3467777777 66777777766666666652222 1
Q ss_pred cccCCCCCCcceEEEEecccchheeeeccCCCCc----eeEEEEEeccCCeeEEEccCccccccccCccccccccCC-CC
Q 001183 153 QECQSDSSDCCFKVEILFEDVLETVGFSLDEGAT----VNGILFKLKYGPKIYQKVSGPHVASKFPSDRYHICKEDF-DF 227 (1131)
Q Consensus 153 ~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~----~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ 227 (1131)
++..+..+..+.+...++. +... ..+...-.+..|.+++....|.. ..+.++.+.+.+.+. +.
T Consensus 162 ----------~v~f~~~~~~~i~~~~~D~-~~~s~~~~~~~~~~~~~G~~k~~~~~~~p~~-~~~~~~~~Ef~k~~~~~~ 229 (1145)
T KOG0988|consen 162 ----------CVPFEHSCRVLIETVSLDL-DKPSIIRYPKSRRYLDNGGSKYFRFAFSPLL-LALGDSELEFKKDFLADL 229 (1145)
T ss_pred ----------ccchhhcchhheeeEEecc-CcchhccCcchhhhhhcCccceeecccccHH-Hhhccceeeeeccccccc
Confidence 2333333333333222222 1100 00111112555555544333321 223334555566666 88
Q ss_pred ceeEeeCCCCCCcccceeEEEEEEcCCCChhhhhhhhhhhhhh-------cCCceeecCCcccc-cccccccccC-CCCC
Q 001183 228 FWVRTTDFSVTKSIGCSTSFFWEIKNGLLASDISNIFPFYKED-------KTDLILEEGEEFCT-TSEIVPLVKC-RPGF 298 (1131)
Q Consensus 228 ~w~R~td~~~~~~iG~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~-~~~~~~~~~~-~~~~ 298 (1131)
+|+|++||++..++|++|++++++... +.+.+||++.. ...+.++.+..|.+ +.+.+++.+. ..+.
T Consensus 230 ~~i~~~~~~~~~~v~~eta~~~eI~~~-----i~~~lP~~r~~~~~~~~~~~s~~ir~~~~~~~~~~~~~~l~~~~~~gi 304 (1145)
T KOG0988|consen 230 LYIRTTDLRSRTGVGIETASCDEIRVP-----IWKDLPYNRYNGSTAEEFRLSVWIRLGSKYDVSSAQLVPLNDERDFGI 304 (1145)
T ss_pred ceeeecceeccccccceeeccceecch-----hhccCCcccccccchhhhhhhhheecccccccccceeeeccccccccc
Confidence 999999999999999999999999985 44455555431 12456677777764 4556777552 2456
Q ss_pred CCchhhHHHHHHHHhcCCCChhhhhHHHHHHHhCCC---HHHHHHHHHhccccCCCcCChhHHHHHHHHHhcccCCCCCC
Q 001183 299 NLSHEVLFQLNSLVHNQKVSLVAADAELIQILSGLS---METALMVLQKLHKLKSICYDPVSFVKTQLHVLGRNCKSIPL 375 (1131)
Q Consensus 299 ~l~f~v~fql~~lv~~g~l~~~~~~~~~~~~l~~~~---~~~~~~~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~ 375 (1131)
..+++.+++.++||+.|.+.......+|+.++.... .......|++|.....+||||.-+.+.+....-.+-+
T Consensus 305 t~~~e~l~~r~slv~dq~~~~~~~~~~f~~l~~~~~~~d~~v~~a~LekL~~~~~~cfd~~~~~k~i~~~~~~ng~---- 380 (1145)
T KOG0988|consen 305 THLYECLVSRGSLVKDQVLLEEAHLLEFLGLLRHKVLGDDNVLEAKLEKLLKLSTKCFDPYCQYKKIAKLNPSNGK---- 380 (1145)
T ss_pred eeehhhhhcccchhhhhHHhhhhHHHHHHHHHhhhhccchhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHhcccCc----
Confidence 677788888888888999988888999999888643 3555566999999999999999988887753211111
Q ss_pred CCcccccCCCeEEEEEEEEcCCeEEecCCcccccCceecccCcCCCcEEEEEEeeCCCCCCCCCcccccccccccCcchh
Q 001183 376 SSHKRLIDHNVMSCYRALVTPMKIYCLGPELETSNYVVKNFAKYASDFMRVTFVEEDWSKLPANALSTSIQRGIFSKPYR 455 (1131)
Q Consensus 376 ~~~~~~~~~~~~~v~~v~vTPt~i~~~~P~~e~sNRvlR~y~~~~d~FLRV~F~DE~~~~l~~~~~~~~~~~~~~~~~~~ 455 (1131)
-.+..+...|+..|+||+|||||+|+.+||++++|||+|+|..++++||||+|+|||.+ +..+..+.. .+
T Consensus 381 ~~~~~~~~~g~~~vrk~v~TPtrv~~~~PE~~~gNRVlR~f~~~~t~~lRvtF~De~~~-~~ir~~S~~---------~~ 450 (1145)
T KOG0988|consen 381 LVTTKEIMEGLRRVRKVVFTPTRVYLLAPEVEMGNRVLRKFDKDSTRFLRVTFRDEDNK-LKIRTLSTG---------SR 450 (1145)
T ss_pred cccchhhhhcceeEEEEEEcCceeEecCchhhhcchhheeccccCceEEEEEEEccccc-cccccCCcc---------hh
Confidence 12344567899999999999999999999999999999999999999999999999985 333332221 15
Q ss_pred hHHHHHHHHHhhcCeEEcCeEEEEeeecccccccCeEEEEecCCCCCHHHHHHHcCCCCCCCCHHHHHHHHhccccCCcc
Q 001183 456 TKIYSRILTILQDGIVIGDKHYEFLAFSASQLRNNSVWMFASNDEVSAEDVRGWMGCFNKIRSVSKCAARMGQLFSSSKQ 535 (1131)
Q Consensus 456 ~~i~~Rv~~~L~~Gi~I~gr~y~FLafS~SqlR~~s~wff~~~~~~t~~~Ir~wmG~F~~i~~vaK~aARigq~FSsT~~ 535 (1131)
+.+|.||..+|++||+||+|+|+||||||||||+||.||++.....++++||.|||+|.+|.|++|||||||||||+|+.
T Consensus 451 t~l~~rv~~~L~~Gi~v~~r~y~FL~~s~sQlRdngy~m~~~s~~~~i~~iR~wmG~F~~i~nv~K~aARmGqCFs~Sr~ 530 (1145)
T KOG0988|consen 451 TKLDMRVNSYLTDGISVANRRYEFLAFSNSQLRDNGYFMARFSDKTKIEDIREWMGDFRDIDNVPKLAARMGQCFSQSRG 530 (1145)
T ss_pred hHHHHHHHHHHhcccEEccceeEEEEecccccccCceEEeecCCCccHHHHHHHhcchhhccCHHHHHhhcCcceecccc
Confidence 88999999999999999999999999999999999999999888899999999999999999999999999999999999
Q ss_pred eeee-eCCcEEEcCCccccCCCCccccccccceecHHHHHHHHHHcCC-CCCCceeEeecCCceEEEEeeCCCCceEEec
Q 001183 536 TLVV-PVQDVEMIPDVEVTSDGNTYCFSDGIGKISLSFARQVAQKCGL-SHTPSAFQIRYGGYKGVIAVDRNSFRKLSLR 613 (1131)
Q Consensus 536 t~~i-~~~~i~~I~DI~~~~~g~~~~FTDG~G~IS~~la~~I~~~l~l-~~~PSAfQiR~gG~KGvl~vdp~~~~~I~lR 613 (1131)
|..+ +..++..+|||+..++|++||||||||+||.++|++|++++++ +.+|||||||+||+||||+|||.....+.+|
T Consensus 531 T~~~~~~~~~~~~~DI~~g~~g~~y~FSDGvG~iS~~~a~~vsq~~~~~~~vPsaFQiR~~G~KGVvav~Ps~~~~~~~~ 610 (1145)
T KOG0988|consen 531 TGYVLERLDRMCPPDIEGGKRGNNYCFSDGVGMISLQFAREVSQKRKFGKAVPSAFQIRYGGYKGVVAVDPSMDKVLKLR 610 (1145)
T ss_pred ccccccccccccCCcccccccCCceeecCCcccccHHHHHHHHHHHcccccCChheeeeccCCcceEEeCccHhhhhhhh
Confidence 9987 5667889999998778889999999999999999999999999 7799999999999999999999998899999
Q ss_pred cccccccccCcceeEEeecCCccccccHHHHHHHhhCCCCHHHHHHHHHHHHHHHH--HHhcCHHHHHHHHHhccCCChH
Q 001183 614 RSMLKFESRNRMLNVTKWSESMPCFLNREIISLLSTLGVKDEVFEAMQQQQLILLG--KMLINREAALDVLQKLNGVDSK 691 (1131)
Q Consensus 614 ~Sm~KF~s~~~~LeI~~~S~~~p~~LNRQ~I~iL~~lGV~~~vF~~lq~~~l~~l~--~~l~d~~~a~~~L~~~~~~~~~ 691 (1131)
.||.||.|.|..++|+.|++++||+||||+|.+|+.+||++++|+++|+..+++-+ ..+.....+..+|.-....+.+
T Consensus 611 ~~~~~s~S~n~~~~v~~~~~f~~~~lnr~lI~Lls~~gv~n~~F~~il~~vle~~r~~~n~~e~~~~~~~l~~~~~m~~e 690 (1145)
T KOG0988|consen 611 DSMNKSQSFNSLLEVTPSSKFQPAFLNRQLITLLSYLGVLNKPFINILDQVLEKQRRITNRIEELLDRAALNYGEQMDDE 690 (1145)
T ss_pred hhhhhhhhhcceeeeeeccCCccccccHHHHHHHHhcCccchHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhhhhhccch
Confidence 99999999999999999999999999999999999999999999999999998442 3333333344455433223445
Q ss_pred HHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHhhhcceeeeecCceEEEEEecCCCCCCCCcEEEEEccchhhhhccccc
Q 001183 692 NILVKMLLQGYEPNVEPYLSMMLLSHHENQLSDLKSRCRIYVPKGRLLIGCFDETGILNYGQVFVRVTMTREELESKDQS 771 (1131)
Q Consensus 692 ~~l~~ml~~Gf~~~~epfl~~~L~~~~~~~l~~lk~K~rI~Vp~s~~l~GV~DetG~L~~GEVfv~~s~~~~~~~~~~~~ 771 (1131)
++.+.++..++.++.||||++||...+++.++.+|+|.|||||.|++||||+||||+||+||||||++.+...
T Consensus 691 n~a~~~l~~~~~~D~EPflr~mL~~~~k~~~~~~kek~ripv~~Gr~lmGvvDETG~L~ygQVfVq~t~~~~~------- 763 (1145)
T KOG0988|consen 691 NIAAMILKGFPRIDSEPFLRSMLSSLLKFTLQLLKEKIRIPVDLGRSLMGVVDETGILKYGQVFVQYTKTIRN------- 763 (1145)
T ss_pred HHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHhcccccCcCCceeEeeeccccccccCeEEEEEcccccc-------
Confidence 5544445445558889999999999999999999999999999999999999999999999999999975321
Q ss_pred cccccCCcceeEeeeEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCCCCCCCCCeEEEeecCC
Q 001183 772 FFHRVDDKTSIVKGKVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECSGGDLDGDIFFISWDND 851 (1131)
Q Consensus 772 ~~~~~~~~~~vi~G~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lSGGDLDGD~y~ViWD~~ 851 (1131)
.+-++..||+|+|+|||||||||||||+++||++|+| +||+|||||||||+||||+||||||||||+|+|||||+
T Consensus 764 ---~~~~~~~vitG~VlvtKNPcLhpGDVRVl~AV~vp~L--~h~~dvVvFPQkGpRphpdE~aGsDLDGDeYfViWDqk 838 (1145)
T KOG0988|consen 764 ---SDSGRKEVITGKVLVTKNPCLHPGDVRVLKAVYVPAL--EHMVDVVVFPQKGPRPHPDEMAGSDLDGDEYFVIWDQK 838 (1145)
T ss_pred ---cccCCceEEEeeEEEecCCCCCCCceEEEEeeccHHH--HhhcCEEEcCCCCCCCCccccccCCCCCceEEEEeChh
Confidence 1113458999999999999999999999999999999 99999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCccccCCCCCCHHHHHHHHHHhhccCchhHHHHHHHHhcccCCCCCCCHHHHHHHHHHHhcccccC
Q 001183 852 LIPCETEPPMDYTGRRSRIMDHDVTLEEIHKFFVDYMINDTLGAISTAHLVHADRDPDKARSSKCLHLATLHSMAVDFAK 931 (1131)
Q Consensus 852 Lvp~~~~~P~~Y~~~~~~~l~~~vt~~di~~ffv~ym~~d~LG~is~~Hl~~aD~~~~g~~~~~cl~LA~L~S~AVD~~K 931 (1131)
|+|+.+++||+|++.+++.+++.+++++|.+||++||++|+||+|+|||+++||+ .|+.+..|+.||++||+||||||
T Consensus 839 LL~~~~~epmd~~~~~sk~~~~~~~~~~m~effv~yL~~DslG~isnAhl~~aD~--~G~~~~~Cl~LA~k~~~AVDF~K 916 (1145)
T KOG0988|consen 839 LLPPRNEEPMDSSSEKSKILDGRVPLDEMSEFFVEYLKEDSLGLISNAHLANADV--YGLFSDVCLELAKKHSQAVDFPK 916 (1145)
T ss_pred hccCcCCCccccCccccccccCCCCHHHHHHHHHHHHHHHHHHHHhhccccchhh--cchhhHHHHHHHHhhcccccccc
Confidence 9999999999999999999999999999999999999999999999999999999 69999999999999999999999
Q ss_pred CCCCCCCCccCCCCCCCcccCCCCCCcccccchhhHHHHHhhhhhhhhhccccchhhhhhccccccccccchhhhHHHHH
Q 001183 932 TGAPAEMPLALKPKEFPDFMEREDKPRYISFGVLGKLYRATLDSIMQIRSNAIWSEKIAEASYDHDLEVDGFEAFLGVAE 1011 (1131)
Q Consensus 932 TG~~v~lp~~l~~~~~PdFm~k~~~~~Y~S~kiLGkLYr~v~~~~~~~~~~~~~~~~~~~~~~d~~l~~~g~~~~l~~A~ 1011 (1131)
||+.+.||..++|++|||||++.++|+|.|++++|||||.++.............+. .+..||++++++||++|++.|+
T Consensus 917 sG~d~~~~~~ek~e~~PDfm~~~d~p~Y~S~~l~GkLfR~~~aid~~~~~~e~~~~~-~~i~yD~~l~v~gFe~yme~a~ 995 (1145)
T KOG0988|consen 917 SGADESMPEKEKPERYPDFMEKTDKPTYYSERLCGKLFREAKAIDAPLKGSEERSEQ-VEVEYDEDLEVDGFEHYMERAK 995 (1145)
T ss_pred cCCcccccchhchhhcchhhhCCCCceeecchhhhHHHHHHHhhcchhhcCccccCc-ccccCCcccCcCCcHHHHHHHH
Confidence 999999999999999999999999999999999999999875432211111111222 3378999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhcCCCCcchheeh--hhcccchhhhhcchhhhhhHHHHHHHHH-HHHHHHH---------HHhcc
Q 001183 1012 SHKEMYEEEMNALMNYYGASTEDEILTG--NLRNRASYLQRDNRRYGDMKDRILLSAK-NLQNEAK---------EWFGS 1079 (1131)
Q Consensus 1012 ~~~~~Y~~~l~~lm~~y~i~tE~Ev~sG--~i~~~~~~~~~d~~~~~~~~~~i~~~~~-~l~~e~~---------~~f~~ 1079 (1131)
++++.|+.+|++||.+|||++|+||+|| .+..+..+.. ++..+...+++...++ .+.+|++ .+|+.
T Consensus 996 ~~~~~y~~qL~slm~~ygi~~E~eI~sG~~~~ddms~~~t--~~~~e~~~~~l~~~~r~~~~qef~~y~~~~e~l~~fe~ 1073 (1145)
T KOG0988|consen 996 KQVASYNGQLRSLMDFYGISTEGEIFSGILDQDDMSFYNT--ERMIELKLERLVLKLREKFFQEFGAYKLEIEKLSCFED 1073 (1145)
T ss_pred HHHhhhhhHHHHHHHHhCccchhhhhccCccccchhhhcc--cccchhhhHHHHHHHHHHHHHHhhhhcchhhhcccccc
Confidence 9999999999999999999999999999 3333332221 1222233344444444 2334443 22333
Q ss_pred CCCCCChhhHHHHHHH-hhcccccccCCCceeeeccchHHHHHHHHhh
Q 001183 1080 SCKENEHPQLASAWYH-VTYSPSYCKERMALLSFPWIVGDILLNIKSV 1126 (1131)
Q Consensus 1080 ~~~~~~~~~~a~AwY~-Vty~~~~~~~~~~~lSFpWi~~d~L~~ik~~ 1126 (1131)
.+..+.+.+||+|||+ ++|+.+...+..+.+|||||++|+|++||+.
T Consensus 1074 ~~~eE~~~kKa~aWY~v~~ye~~~~~~~~~~~SF~wia~Dvl~~iK~~ 1121 (1145)
T KOG0988|consen 1074 SPEEEFIMKKASAWYRVYRYEMAQAMRETRKLSFAWIAYDVLARIKQT 1121 (1145)
T ss_pred CchhHHHHHHHHHHHHHHHhhhhcccccCcccchHHHHHHHHHHHHHH
Confidence 2233348899999999 9999887777788889999999999999998
No 2
>PF05183 RdRP: RNA dependent RNA polymerase; InterPro: IPR007855 This entry represents various eukaryotic RNA-dependent RNA polymerases (RDRP; 2.7.7.48 from EC), such as RCRP-1, RDRP-2 and RDRP-6. These enzymes are involved in the amplification of regulatory microRNAs during post-transcriptional gene silencing []; they are also required for transcriptional gene silencing. Double-stranded RNA has been shown to induce gene silencing in diverse eukaryotes and by a variety of pathways []. These enzymes also play a role in the RNA interference (RNAi) pathway, which is important for heterochromatin formation, accurate chromosome segregation, centromere cohesion and telomere function during mitosis and meiosis. RDRP enzymes are highly conserved in most eukaryotes, but are missing in archaea and bacteria. The core catalytic domain of RDRP enzymes is structurally similar to the beta' subunit of DNA-dependent RNA polymerases (DDRP), however the other domains of DDRP show no similarity to those of RDRP.; GO: 0003968 RNA-directed RNA polymerase activity; PDB: 2J7O_A 2J7N_A.
Probab=100.00 E-value=8.1e-125 Score=1144.03 Aligned_cols=545 Identities=44% Similarity=0.772 Sum_probs=391.6
Q ss_pred CeEEecCCcccccCceecccCcCCCcEEEEEEeeCCCCCCCCCcccccccccccCcchhhHHHHHHHHHhhcCeEEcCeE
Q 001183 397 MKIYCLGPELETSNYVVKNFAKYASDFMRVTFVEEDWSKLPANALSTSIQRGIFSKPYRTKIYSRILTILQDGIVIGDKH 476 (1131)
Q Consensus 397 t~i~~~~P~~e~sNRvlR~y~~~~d~FLRV~F~DE~~~~l~~~~~~~~~~~~~~~~~~~~~i~~Rv~~~L~~Gi~I~gr~ 476 (1131)
||++|.+|+++.||||+|+|+. |+||||+|+||++..++.+.. .++.|++++|++||.|+||+
T Consensus 1 ~r~~l~~p~~~~snr~~R~fg~--~~Flrv~f~d~~~~~~~~~~~---------------~~~~~~~~~l~~gi~i~~~~ 63 (579)
T PF05183_consen 1 TRIILEPPELEKSNRVLRRFGS--DRFLRVSFPDENSSSLRFSPR---------------VLGRRIRKFLKNGIKIGGRH 63 (579)
T ss_dssp --EEE---EEEE-BHHHHHH-G--GGEEEEEEE-TT---SSS-TT---------------STTEEEEEEEEEE-------
T ss_pred CeEEEECCEecCCCceeEEeCC--CCEEEEEEEcCCCCcccccch---------------hHHHHHHHHHhccceECcEE
Confidence 7999999999999999999964 789999999999887664421 14567889999999999999
Q ss_pred EEEeeecccccccCeEEEEecC----CCCCHHHHHHHcCCCCCCCCH-HHHHHHHhccccCCcceeeeeCCcEEEcCCcc
Q 001183 477 YEFLAFSASQLRNNSVWMFASN----DEVSAEDVRGWMGCFNKIRSV-SKCAARMGQLFSSSKQTLVVPVQDVEMIPDVE 551 (1131)
Q Consensus 477 y~FLafS~SqlR~~s~wff~~~----~~~t~~~Ir~wmG~F~~i~~v-aK~aARigq~FSsT~~t~~i~~~~i~~I~DI~ 551 (1131)
|+|||+|+||+|+++||||+++ ..+++++|++|||+|++++++ +||+||+|||||+|.+++.+++.++..||||.
T Consensus 64 y~fl~~S~sqlr~~~~~f~~~~~~~~~~~~~~~i~~~~g~~~~~~~~~~K~~aRl~l~fS~T~~~~~i~~~~~~~i~Di~ 143 (579)
T PF05183_consen 64 YRFLGFSNSQLRDHSCWFFAEDDGDRPPLTVEDIRNWMGDFSNIQSIPAKYAARLGLCFSSTVPTVVIPPDEIEVIPDIT 143 (579)
T ss_dssp ------------EEEEEEEEEE----B---HHHHHHHHH-GGGTSBH-HHHHHTTHHHHSB-EEEEE--GGGEE-SS--T
T ss_pred EEEeecCCccccCCeEEEEecCCccCCcccHHHHHHhcccccccccHHHHHHHHHHHhccCccceEEecccceEEcCCcC
Confidence 9999999999999999999988 678999999999999998886 99999999999999999999999999999993
Q ss_pred ccCCCCccccccccceecHHHHHHHHHHcCCCCCCceeEeecCCceEEEEeeCCC-CceEEeccccccc----cccCcce
Q 001183 552 VTSDGNTYCFSDGIGKISLSFARQVAQKCGLSHTPSAFQIRYGGYKGVIAVDRNS-FRKLSLRRSMLKF----ESRNRML 626 (1131)
Q Consensus 552 ~~~~g~~~~FTDG~G~IS~~la~~I~~~l~l~~~PSAfQiR~gG~KGvl~vdp~~-~~~I~lR~Sm~KF----~s~~~~L 626 (1131)
++++|+||||||+||++||++||+++++.++|||||||+|||||||+|||++ +.+|+|||||.|| ++.+++|
T Consensus 144 ---~~~~~~ftDG~G~IS~~la~~I~~~l~~~~~PsA~QiR~~G~KGml~vdp~~~~~~I~lr~Sm~Kf~~~~~~~~~~l 220 (579)
T PF05183_consen 144 ---SRNGYVFTDGCGRISPDLARKIAEKLGLDYVPSAFQIRIGGAKGMLVVDPTLDGPWIQLRPSMIKFDEPWDSEHRTL 220 (579)
T ss_dssp ---TSS--BSSTTEEEE-HHHHHHHHHHHT-SS--SEEEEEETTEEEEEEE-TT-----EEE-TTTB-S----SGGGSEE
T ss_pred ---CCCCccccCCchhhCHHHHHHHHHHcCCCCCCeEEEEeccCceeEEEECCCCCcceEEEehhhhhhccCcccccCeE
Confidence 3678999999999999999999999999999999999999999999999998 5799999999999 7889999
Q ss_pred eEEeecC-CccccccHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhccCCChHHHHH-HHHHcCCCC
Q 001183 627 NVTKWSE-SMPCFLNREIISLLSTLGVKDEVFEAMQQQQLILLGKMLINREAALDVLQKLNGVDSKNILV-KMLLQGYEP 704 (1131)
Q Consensus 627 eI~~~S~-~~p~~LNRQ~I~iL~~lGV~~~vF~~lq~~~l~~l~~~l~d~~~a~~~L~~~~~~~~~~~l~-~ml~~Gf~~ 704 (1131)
||+++|+ +.+++||||+|++|+++|||+++|+++|+++|+++.+++.++..|.++|............. +|+.+||++
T Consensus 221 ei~~~s~~~~~~~LN~q~I~iL~~~gv~~~~f~~l~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ll~~g~~~ 300 (579)
T PF05183_consen 221 EIVKYSRPPRPAYLNRQLITILEDLGVPDEVFLELQDEALEELRNILTDPDAARDLLSNQSRDGDFRLIRRQLLDAGFDP 300 (579)
T ss_dssp EEEEE--------B-TTTHHHHHHTBSS-HHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHS--HHHHHHHTHHHHTT--T
T ss_pred EecccCCCCCcccccHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhcCCCcchhHHHHHHHHcCCCc
Confidence 9999998 89999999999999999999999999999999999999999999999998776554444322 899999999
Q ss_pred CCcHHHHHHHHHHHHHHHHhhhcceeeeecCceEEEEEecCCCCCCCCcEEEEEccchhhhhccccccccccCCcceeEe
Q 001183 705 NVEPYLSMMLLSHHENQLSDLKSRCRIYVPKGRLLIGCFDETGILNYGQVFVRVTMTREELESKDQSFFHRVDDKTSIVK 784 (1131)
Q Consensus 705 ~~epfl~~~L~~~~~~~l~~lk~K~rI~Vp~s~~l~GV~DetG~L~~GEVfv~~s~~~~~~~~~~~~~~~~~~~~~~vi~ 784 (1131)
.++||++++++.++++.++++|+|+||+||+|++||||+||||+|+|||||||+|.. ...+....+++
T Consensus 301 ~~~pfl~~~l~~~~~~~l~~~~~~~ri~v~~s~~l~gv~D~~g~L~~geV~~~~s~~------------~~~~~~~~~~~ 368 (579)
T PF05183_consen 301 LNDPFLRSLLKALIKKKLKELKKKARIPVPKSRYLMGVPDPTGVLKEGEVFVQFSSD------------EETGSQSQVLE 368 (579)
T ss_dssp TTBHHHHHHHHHHHHHHHHHHHHC--B--SSEEEEEEEE-TTS---TTEEEEEEEEE------------EEETTEEEEEE
T ss_pred ccCHHHHHHHHHHHHHHHHhccceEEEEcCCCcEEEEeeCCcCCCCCCEEEEEeccc------------cccCCCcceee
Confidence 999999999999999999999999999999999999999999999999999999621 12346678999
Q ss_pred eeEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCCCCCCCCCeEEEeecCCCCCCC-------C
Q 001183 785 GKVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECSGGDLDGDIFFISWDNDLIPCE-------T 857 (1131)
Q Consensus 785 G~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lSGGDLDGD~y~ViWD~~Lvp~~-------~ 857 (1131)
|+|+|+||||+||||||+|+||++|+| +||+||||||++|+||+|++|||||||||.||||||++||..+ .
T Consensus 369 g~VlV~R~P~~~pgDir~~~av~~p~L--~~l~~vIVF~~~G~r~~~~~lsGgDlDGD~~~V~wd~~lv~~~~~~~~~~~ 446 (579)
T PF05183_consen 369 GDVLVTRNPCLHPGDIRKVKAVDKPEL--RHLKDVIVFSTKGDRPLPSELSGGDLDGDEYFVCWDPRLVEPFKNPPPPKS 446 (579)
T ss_dssp -EEEEE-SS--SGGGEEEEEE---GGG--TT--SEEEE-S-SSS-HHHHTTT--SSS-EEEEE--HHHHHTB--------
T ss_pred eeEEEecCCccCcCceeEEEeeccHHH--cccCCEEEeCCCCCCCchHHhcCCCCCCceEEEEeCHhhhhhhhccCcccC
Confidence 999999999999999999999999999 9999999999999999999999999999999999999995444 4
Q ss_pred CCCCCCCCCc-------cccCCCCCCHHHHHHHHHH-hhccCchhHHHHHHHHhcccCCCCCCCHHHHHHHHHHHhcccc
Q 001183 858 EPPMDYTGRR-------SRIMDHDVTLEEIHKFFVD-YMINDTLGAISTAHLVHADRDPDKARSSKCLHLATLHSMAVDF 929 (1131)
Q Consensus 858 ~~P~~Y~~~~-------~~~l~~~vt~~di~~ffv~-ym~~d~LG~is~~Hl~~aD~~~~g~~~~~cl~LA~L~S~AVD~ 929 (1131)
.+|+.|...+ +..+.++++.+++.+||++ ||.++.||+|+|+|+++||+.. |+.++.|++||++||+||||
T Consensus 447 ~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~lG~~s~~h~~~~d~~~-g~~~~~~~~La~l~s~~vD~ 525 (579)
T PF05183_consen 447 EEPMNYESEKVSDSSGDPKPLSRPVTEEDIQDFFLEFYINNDNLGLISNAHLAIADQSS-GIDSPECLKLAQLHSQAVDA 525 (579)
T ss_dssp ---TTTSEE---BHHHHTT-SSHHHHHHHHHHHHHHHHTS--HHHHHHHHHHHHHHHHT--SSSHHHHHHHHHHHHHTTH
T ss_pred CCccccccccccccccCccccCccccHHHHHHHHHHhhcccCcHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHhCc
Confidence 5566654332 2234556788999999999 9999999999999999999876 99999999999999999999
Q ss_pred cCCCCCCCCCcc-CCCCCCCcccCCCCCCc-ccccchhhHHHHHhhhhh
Q 001183 930 AKTGAPAEMPLA-LKPKEFPDFMEREDKPR-YISFGVLGKLYRATLDSI 976 (1131)
Q Consensus 930 ~KTG~~v~lp~~-l~~~~~PdFm~k~~~~~-Y~S~kiLGkLYr~v~~~~ 976 (1131)
+|||+++.++.. ++++.+||||++..++. |+|++|||+|||+|++..
T Consensus 526 ~KtG~~~~~~~~~~~~~~~P~~~~~~~~~~~y~S~~ilg~ly~~v~~~~ 574 (579)
T PF05183_consen 526 PKTGVPVKLPRWPLKPPEYPDFMEKEDKKSYYKSTSILGQLYREVKEIV 574 (579)
T ss_dssp HHHTEE--HHHHHSS-----GGGSS-----SSS--SHHHHHHHTTH---
T ss_pred cccCCCccccchhhcCCCCChhhccccccccCCCccHHHHHHHHHHhhc
Confidence 999999999988 89999999999887665 799999999999998754
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.53 E-value=4.2e-14 Score=143.66 Aligned_cols=83 Identities=17% Similarity=0.240 Sum_probs=78.4
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
++++|||+|||+.+|+++|+++|+++ |+|.+|+|+.|++|+++||||||+|+++++|+.|++.+ |+..++|+.|+
T Consensus 33 ~~~~lfVgnL~~~~te~~L~~~F~~~---G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~l--ng~~i~Gr~l~ 107 (144)
T PLN03134 33 MSTKLFIGGLSWGTDDASLRDAFAHF---GDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEM--DGKELNGRHIR 107 (144)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcC---CCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHc--CCCEECCEEEE
Confidence 57789999999999999999999997 79999999999999999999999999999999999999 48999999999
Q ss_pred eecCCCCC
Q 001183 82 ISETHSDI 89 (1131)
Q Consensus 82 V~~a~~~i 89 (1131)
|+.+.+..
T Consensus 108 V~~a~~~~ 115 (144)
T PLN03134 108 VNPANDRP 115 (144)
T ss_pred EEeCCcCC
Confidence 99987654
No 4
>PLN03213 repressor of silencing 3; Provisional
Probab=99.39 E-value=7.6e-13 Score=150.10 Aligned_cols=79 Identities=16% Similarity=0.261 Sum_probs=73.9
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCCh--HHHHHHHHhhcCCCceecCcee
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSL--DFKSKAQNLSLNDKLVFNSQNL 80 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~--e~A~~Ai~~~~~~~~~~~gr~L 80 (1131)
+++||||||+++++++||.+.|.+| |+|.+|+|+ |+|| ||||||+|.++ +++.+||+.+ ||..++||.|
T Consensus 10 gMRIYVGNLSydVTEDDLravFSeF---GsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaL--NGAEWKGR~L 80 (759)
T PLN03213 10 GVRLHVGGLGESVGRDDLLKIFSPM---GTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTY--NGCVWKGGRL 80 (759)
T ss_pred ceEEEEeCCCCCCCHHHHHHHHHhc---CCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHh--cCCeecCcee
Confidence 4689999999999999999999998 799999999 8889 99999999987 7899999999 5999999999
Q ss_pred EeecCCCCCC
Q 001183 81 KISETHSDIV 90 (1131)
Q Consensus 81 ~V~~a~~~i~ 90 (1131)
+|+.|++.-+
T Consensus 81 KVNKAKP~YL 90 (759)
T PLN03213 81 RLEKAKEHYL 90 (759)
T ss_pred EEeeccHHHH
Confidence 9999988764
No 5
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.37 E-value=1.1e-12 Score=138.96 Aligned_cols=87 Identities=18% Similarity=0.316 Sum_probs=79.6
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
-++|+||||+|.+..++|++|||++ |+|..+.||+||.||||||||||.|.+.|+|.+|..-. .-.++||.-.+
T Consensus 12 ~TKifVggL~w~T~~~~l~~yFeqf---GeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp---~piIdGR~aNc 85 (247)
T KOG0149|consen 12 FTKIFVGGLAWETHKETLRRYFEQF---GEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDP---NPIIDGRKANC 85 (247)
T ss_pred EEEEEEcCcccccchHHHHHHHHHh---CceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCC---CCccccccccc
Confidence 4689999999999999999999998 89999999999999999999999999999999999887 48999999999
Q ss_pred ecCCCCCCCCCCC
Q 001183 83 SETHSDIVPRPVK 95 (1131)
Q Consensus 83 ~~a~~~i~~~~~~ 95 (1131)
|.|.---.||+..
T Consensus 86 nlA~lg~~pR~~~ 98 (247)
T KOG0149|consen 86 NLASLGGKPRPVP 98 (247)
T ss_pred chhhhcCccCCCC
Confidence 9988766666643
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.36 E-value=1.7e-12 Score=149.26 Aligned_cols=79 Identities=19% Similarity=0.208 Sum_probs=74.7
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.+|+|+|||+.+++++|+++|+.+ |.|.+|+|+.|+.||+|||||||+|.+.++|.+||+++ ||..++||.|+|+
T Consensus 270 ~~lfV~NL~~~~~e~~L~~~F~~f---G~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~l--nG~~~~gr~i~V~ 344 (352)
T TIGR01661 270 YCIFVYNLSPDTDETVLWQLFGPF---GAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSL--NGYTLGNRVLQVS 344 (352)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhC---CCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHh--CCCEECCeEEEEE
Confidence 369999999999999999999998 79999999999999999999999999999999999999 4999999999998
Q ss_pred cCCC
Q 001183 84 ETHS 87 (1131)
Q Consensus 84 ~a~~ 87 (1131)
-+..
T Consensus 345 ~~~~ 348 (352)
T TIGR01661 345 FKTN 348 (352)
T ss_pred EccC
Confidence 7644
No 7
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=99.32 E-value=5.8e-12 Score=110.17 Aligned_cols=70 Identities=21% Similarity=0.351 Sum_probs=66.5
Q ss_pred EEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 6 VWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 6 i~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
|||+|||..+|+++|+++|+++ |.|..+++..+ .+++++|+|||+|++.++|++|++.+ +|..++|+.|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~---g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l--~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQF---GKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEEL--NGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTT---STEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHH--TTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHh---hhccccccccc-ccccccceEEEEEcCHHHHHHHHHHc--CCCEECccCcC
Confidence 7999999999999999999997 79999999998 68999999999999999999999999 48999999986
No 8
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.30 E-value=6e-12 Score=144.80 Aligned_cols=79 Identities=20% Similarity=0.304 Sum_probs=75.0
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
++|||||||+.+|++||+++|+++ |+|.+|+|+.|+.||+|||||||+|.++++|++|++.+ ||..++|+.|+|.
T Consensus 4 ~~l~V~nLp~~~~e~~l~~~F~~~---G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l--~g~~l~g~~i~v~ 78 (352)
T TIGR01661 4 TNLIVNYLPQTMTQEEIRSLFTSI---GEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSL--NGLRLQNKTIKVS 78 (352)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHcc---CCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhc--ccEEECCeeEEEE
Confidence 589999999999999999999997 79999999999999999999999999999999999999 4899999999998
Q ss_pred cCCC
Q 001183 84 ETHS 87 (1131)
Q Consensus 84 ~a~~ 87 (1131)
.+.+
T Consensus 79 ~a~~ 82 (352)
T TIGR01661 79 YARP 82 (352)
T ss_pred eecc
Confidence 7653
No 9
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.28 E-value=9e-12 Score=143.54 Aligned_cols=80 Identities=19% Similarity=0.217 Sum_probs=75.5
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
.++|||+|||+++|+++|+++|+.+ |.|.+|+|+.|+.||++||||||+|+++++|+.|+..+ |+..+.++.|+|
T Consensus 107 ~~~LfVgnLp~~~te~~L~~lF~~~---G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~L--nG~~l~gr~i~V 181 (346)
T TIGR01659 107 GTNLIVNYLPQDMTDRELYALFRTI---GPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNL--NGITVRNKRLKV 181 (346)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhc---CCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHc--CCCccCCceeee
Confidence 3689999999999999999999997 69999999999999999999999999999999999999 489999999999
Q ss_pred ecCCC
Q 001183 83 SETHS 87 (1131)
Q Consensus 83 ~~a~~ 87 (1131)
..+.+
T Consensus 182 ~~a~p 186 (346)
T TIGR01659 182 SYARP 186 (346)
T ss_pred ecccc
Confidence 98764
No 10
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.27 E-value=1.5e-11 Score=134.35 Aligned_cols=78 Identities=21% Similarity=0.219 Sum_probs=71.5
Q ss_pred CcccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCcee
Q 001183 1 MVLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNL 80 (1131)
Q Consensus 1 ~m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L 80 (1131)
||.++|||||||+.+|++||++||+.+ |+|.+|+|..|++ ++|||||+|+++++|+.|+. + ||..++||.|
T Consensus 2 ~~~rtVfVgNLs~~tTE~dLrefFS~~---G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-L--nG~~l~gr~V 72 (260)
T PLN03120 2 MQVRTVKVSNVSLKATERDIKEFFSFS---GDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-L--SGATIVDQSV 72 (260)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhc---CCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-h--cCCeeCCceE
Confidence 578899999999999999999999997 7999999999874 57999999999999999995 6 4899999999
Q ss_pred EeecCCC
Q 001183 81 KISETHS 87 (1131)
Q Consensus 81 ~V~~a~~ 87 (1131)
+|+.+..
T Consensus 73 ~Vt~a~~ 79 (260)
T PLN03120 73 TITPAED 79 (260)
T ss_pred EEEeccC
Confidence 9999764
No 11
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.24 E-value=2.7e-11 Score=107.01 Aligned_cols=70 Identities=26% Similarity=0.402 Sum_probs=64.3
Q ss_pred EEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 6 VWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 6 i~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
|||+|||+++++++|.++|+.+ |.|..+++..++. |++||+|||+|.++++|+.|+...+ +..++||.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~---g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~--~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRF---GPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLN--GKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTS---SBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHT--TEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhc---CCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCC--CcEECCEEcC
Confidence 7999999999999999999997 6999999999987 9999999999999999999999994 8999999985
No 12
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.21 E-value=5e-11 Score=144.64 Aligned_cols=78 Identities=13% Similarity=0.212 Sum_probs=73.9
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
..+|||||||+.+++++|+++|+.+ |.|.+|+|..|+.||+|||||||+|+++++|++|+..+ ||..++||.|+|
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr~lF~~f---G~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~l--nG~~i~GR~IkV 181 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIRRAFDPF---GPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQM--NGQMLGGRNIKV 181 (612)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHcc---CCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhc--CCeEEecceeee
Confidence 4689999999999999999999997 79999999999999999999999999999999999999 599999999999
Q ss_pred ecC
Q 001183 83 SET 85 (1131)
Q Consensus 83 ~~a 85 (1131)
+..
T Consensus 182 ~rp 184 (612)
T TIGR01645 182 GRP 184 (612)
T ss_pred ccc
Confidence 843
No 13
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.19 E-value=5.1e-11 Score=144.62 Aligned_cols=81 Identities=12% Similarity=0.221 Sum_probs=77.0
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.+|||||||..+++++|+++|+.| |.|.+|+|..|+.||++||||||+|++.++|.+|+..+| ++.++|+.|+|.
T Consensus 205 ~rLfVgnLp~~vteedLk~lFs~F---G~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amN--g~elgGr~LrV~ 279 (612)
T TIGR01645 205 NRIYVASVHPDLSETDIKSVFEAF---GEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMN--LFDLGGQYLRVG 279 (612)
T ss_pred ceEEeecCCCCCCHHHHHHHHhhc---CCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhC--CCeeCCeEEEEE
Confidence 589999999999999999999998 799999999999999999999999999999999999994 899999999999
Q ss_pred cCCCCC
Q 001183 84 ETHSDI 89 (1131)
Q Consensus 84 ~a~~~i 89 (1131)
.|-.++
T Consensus 280 kAi~pP 285 (612)
T TIGR01645 280 KCVTPP 285 (612)
T ss_pred ecCCCc
Confidence 887655
No 14
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.13 E-value=1.2e-10 Score=123.94 Aligned_cols=79 Identities=20% Similarity=0.229 Sum_probs=75.2
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.||+|.|||.++++.||.++|-.+ |.|.++.|..|++||.|||||||+|.+.+.|++||+.+ ||.-|+.-.|+|.
T Consensus 190 ~tvRvtNLsed~~E~dL~eLf~~f---g~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~L--nG~gyd~LILrvE 264 (270)
T KOG0122|consen 190 ATVRVTNLSEDMREDDLEELFRPF---GPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADL--NGYGYDNLILRVE 264 (270)
T ss_pred ceeEEecCccccChhHHHHHhhcc---CccceeEEEEccccCcccceEEEEEecHHHHHHHHHHc--cCcccceEEEEEE
Confidence 579999999999999999999998 79999999999999999999999999999999999999 5999999999998
Q ss_pred cCCC
Q 001183 84 ETHS 87 (1131)
Q Consensus 84 ~a~~ 87 (1131)
=+.+
T Consensus 265 wskP 268 (270)
T KOG0122|consen 265 WSKP 268 (270)
T ss_pred ecCC
Confidence 7665
No 15
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.13 E-value=1.4e-10 Score=133.87 Aligned_cols=82 Identities=17% Similarity=0.252 Sum_probs=74.6
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecC--ceeE
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNS--QNLK 81 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~g--r~L~ 81 (1131)
++|||+|||+++|+++|+++|+.+ |.|.+|+|..|+.||++||||||+|++.++|++||+.++ +..+.| ++|+
T Consensus 194 ~~lfV~nLp~~vtee~L~~~F~~f---G~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~ln--g~~~~g~~~~l~ 268 (346)
T TIGR01659 194 TNLYVTNLPRTITDDQLDTIFGKY---GQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALN--NVIPEGGSQPLT 268 (346)
T ss_pred ceeEEeCCCCcccHHHHHHHHHhc---CCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhC--CCccCCCceeEE
Confidence 579999999999999999999998 799999999999999999999999999999999999995 666644 7999
Q ss_pred eecCCCCCC
Q 001183 82 ISETHSDIV 90 (1131)
Q Consensus 82 V~~a~~~i~ 90 (1131)
|..|...--
T Consensus 269 V~~a~~~~~ 277 (346)
T TIGR01659 269 VRLAEEHGK 277 (346)
T ss_pred EEECCcccc
Confidence 998887543
No 16
>smart00360 RRM RNA recognition motif.
Probab=99.10 E-value=3.1e-10 Score=97.40 Aligned_cols=71 Identities=21% Similarity=0.310 Sum_probs=66.8
Q ss_pred EeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 8 VSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 8 Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
|+|||..+++++|+++|+++ |.|..+++..++.++.++|+|||+|.+.++|..|++.++ +..++|+.|+|+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~---g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~--~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKF---GKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALN--GKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhh---CCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcC--CCeeCCcEEEeC
Confidence 68999999999999999997 799999999999899999999999999999999999994 788999999884
No 17
>smart00362 RRM_2 RNA recognition motif.
Probab=99.06 E-value=6.8e-10 Score=95.70 Aligned_cols=72 Identities=24% Similarity=0.313 Sum_probs=66.8
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
+|+|+|+|..++.++|+++|+++ |.|..+++..++ +.++|+|||+|.+.++|+.|+..++ +..++|+.|+|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~---g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~--~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKF---GPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALN--GTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhc---CCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhC--CcEECCEEEeeC
Confidence 58999999999999999999997 799999999887 8899999999999999999999984 789999999874
No 18
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.04 E-value=5.4e-10 Score=135.56 Aligned_cols=77 Identities=19% Similarity=0.310 Sum_probs=69.9
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCcee-cCceeE
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVF-NSQNLK 81 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~-~gr~L~ 81 (1131)
..+|+|||||+++++++|+++|+++ |.|..|+|+.| .+|+|||||||+|++.|+|++|++.++ +..+ .|+.|.
T Consensus 58 ~~~lFVgnLp~~~tEd~L~~~F~~~---G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~ln--g~~i~~Gr~l~ 131 (578)
T TIGR01648 58 GCEVFVGKIPRDLYEDELVPLFEKA---GPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLN--NYEIRPGRLLG 131 (578)
T ss_pred CCEEEeCCCCCCCCHHHHHHHHHhh---CCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcC--CCeecCCcccc
Confidence 4689999999999999999999997 79999999999 799999999999999999999999995 6665 588888
Q ss_pred eecC
Q 001183 82 ISET 85 (1131)
Q Consensus 82 V~~a 85 (1131)
|..+
T Consensus 132 V~~S 135 (578)
T TIGR01648 132 VCIS 135 (578)
T ss_pred cccc
Confidence 7654
No 19
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.03 E-value=6.2e-10 Score=136.54 Aligned_cols=81 Identities=16% Similarity=0.212 Sum_probs=75.9
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+.+|||+|||+++|+++|+++|+++ |+|.+|+|..| .+|+|||||||+|.+.++|.+|+..++ |..++|+.|+|
T Consensus 285 ~~~l~V~nl~~~~~~~~L~~~F~~~---G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~--g~~~~gk~l~V 358 (562)
T TIGR01628 285 GVNLYVKNLDDTVTDEKLRELFSEC---GEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMH--GRMLGGKPLYV 358 (562)
T ss_pred CCEEEEeCCCCccCHHHHHHHHHhc---CCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhc--CCeeCCceeEE
Confidence 4579999999999999999999998 79999999999 699999999999999999999999994 89999999999
Q ss_pred ecCCCCC
Q 001183 83 SETHSDI 89 (1131)
Q Consensus 83 ~~a~~~i 89 (1131)
..|...-
T Consensus 359 ~~a~~k~ 365 (562)
T TIGR01628 359 ALAQRKE 365 (562)
T ss_pred EeccCcH
Confidence 9988754
No 20
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.02 E-value=7e-10 Score=134.17 Aligned_cols=81 Identities=15% Similarity=0.184 Sum_probs=76.1
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.+|||||||+.+|+++|+++|+.+ |.|..++|+.++.||.++|||||+|.+.++|..|+..+ ||..++|+.|+|.
T Consensus 296 ~~l~v~nlp~~~~~~~l~~~f~~~---G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l--~g~~~~~~~l~v~ 370 (509)
T TIGR01642 296 DRIYIGNLPLYLGEDQIKELLESF---GDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAAL--NGKDTGDNKLHVQ 370 (509)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHhc---CCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHc--CCCEECCeEEEEE
Confidence 589999999999999999999997 79999999999999999999999999999999999999 4999999999999
Q ss_pred cCCCCC
Q 001183 84 ETHSDI 89 (1131)
Q Consensus 84 ~a~~~i 89 (1131)
.|....
T Consensus 371 ~a~~~~ 376 (509)
T TIGR01642 371 RACVGA 376 (509)
T ss_pred ECccCC
Confidence 886543
No 21
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.02 E-value=4.2e-10 Score=131.93 Aligned_cols=82 Identities=23% Similarity=0.393 Sum_probs=77.4
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
..|||||+|+++++++|.++|++. |.|.+.+++.|++||++|||||++|++.+.|+.|+..+ ||.+++||.|+|+
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~---g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~l--Ng~~~~gr~l~v~ 93 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGV---GPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNL--NGAEFNGRKLRVN 93 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhcc---CccceeeecccccCCCcCceeeEecCchhhHHHHHHhc--CCcccCCceEEee
Confidence 469999999999999999999986 79999999999999999999999999999999999999 5999999999999
Q ss_pred cCCCCCC
Q 001183 84 ETHSDIV 90 (1131)
Q Consensus 84 ~a~~~i~ 90 (1131)
-+..+-.
T Consensus 94 ~~~~~~~ 100 (435)
T KOG0108|consen 94 YASNRKN 100 (435)
T ss_pred cccccch
Confidence 8887654
No 22
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.02 E-value=9.4e-10 Score=118.29 Aligned_cols=79 Identities=24% Similarity=0.337 Sum_probs=75.9
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.+|||||||+.+|+++|.++|.++ |.|.+++|..|+.||++||||||+|.+++.|..|+..++ +..|.|+.|+|.
T Consensus 116 ~~l~v~nL~~~~~~~~l~~~F~~~---g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~--~~~~~~~~~~v~ 190 (306)
T COG0724 116 NTLFVGNLPYDVTEEDLRELFKKF---GPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELN--GKELEGRPLRVQ 190 (306)
T ss_pred ceEEEeCCCCCCCHHHHHHHHHhc---CceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcC--CCeECCceeEee
Confidence 689999999999999999999998 799999999999999999999999999999999999994 899999999999
Q ss_pred cCCC
Q 001183 84 ETHS 87 (1131)
Q Consensus 84 ~a~~ 87 (1131)
.+..
T Consensus 191 ~~~~ 194 (306)
T COG0724 191 KAQP 194 (306)
T ss_pred cccc
Confidence 9765
No 23
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.01 E-value=9.6e-10 Score=134.90 Aligned_cols=81 Identities=16% Similarity=0.226 Sum_probs=75.9
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.+|||||||.++|+++|.++|+++ |.|.+|+|..|+.|++|+|||||+|.+.++|++|++.++ +..++|+.|+|.
T Consensus 1 ~sl~VgnLp~~vte~~L~~~F~~~---G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln--~~~i~gk~i~i~ 75 (562)
T TIGR01628 1 ASLYVGDLDPDVTEAKLYDLFKPF---GPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMN--FKRLGGKPIRIM 75 (562)
T ss_pred CeEEEeCCCCCCCHHHHHHHHHhc---CCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhC--CCEECCeeEEee
Confidence 379999999999999999999997 799999999999999999999999999999999999994 788999999998
Q ss_pred cCCCCC
Q 001183 84 ETHSDI 89 (1131)
Q Consensus 84 ~a~~~i 89 (1131)
-+..+.
T Consensus 76 ~s~~~~ 81 (562)
T TIGR01628 76 WSQRDP 81 (562)
T ss_pred cccccc
Confidence 877655
No 24
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.00 E-value=6.9e-10 Score=122.15 Aligned_cols=104 Identities=20% Similarity=0.217 Sum_probs=84.6
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
|.|+|+|||+..-+-||+..||.+ |.|.+|+||..- ..|||||||+|+++++|++|-++++ |..+.||.|-||
T Consensus 97 kRLhVSNIPFrFRdpDL~aMF~kf---G~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LH--gt~VEGRkIEVn 169 (376)
T KOG0125|consen 97 KRLHVSNIPFRFRDPDLRAMFEKF---GKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELH--GTVVEGRKIEVN 169 (376)
T ss_pred ceeEeecCCccccCccHHHHHHhh---CceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhh--cceeeceEEEEe
Confidence 689999999999999999999998 799999999854 5799999999999999999999994 999999999999
Q ss_pred cCCCCCC-CCCCCCcc-eecCeEEEEeeeeccc
Q 001183 84 ETHSDIV-PRPVKAQH-RVEDGVLHVGVMCKEE 114 (1131)
Q Consensus 84 ~a~~~i~-~~~~~~~~-~~~~~~~~~g~~~~~~ 114 (1131)
-|-..+- ++-...|+ +.-..-.-.|.+++.+
T Consensus 170 ~ATarV~n~K~~v~p~~~g~~~~~a~~al~~~e 202 (376)
T KOG0125|consen 170 NATARVHNKKKKVLPYPNGWKLLPAVGALYSAE 202 (376)
T ss_pred ccchhhccCCcccCCCccccccccchhhhhchh
Confidence 9988763 44333343 3333333445554444
No 25
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.00 E-value=9.7e-10 Score=131.24 Aligned_cols=79 Identities=23% Similarity=0.342 Sum_probs=73.1
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
.+||||||||+.+++++|++||+.+ |.|..|+|+.|+.||++||||||+|.+.++|.+|+.+ +|..+.|++|.|
T Consensus 89 ~~~l~V~nlp~~~~~~~l~~~F~~~---G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l---~g~~~~g~~i~v 162 (457)
T TIGR01622 89 DRTVFVLQLALKARERDLYEFFSKV---GKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALAL---TGQMLLGRPIIV 162 (457)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhc---CCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHh---CCCEECCeeeEE
Confidence 4689999999999999999999997 6999999999999999999999999999999999974 389999999999
Q ss_pred ecCCC
Q 001183 83 SETHS 87 (1131)
Q Consensus 83 ~~a~~ 87 (1131)
..+..
T Consensus 163 ~~~~~ 167 (457)
T TIGR01622 163 QSSQA 167 (457)
T ss_pred eecch
Confidence 87654
No 26
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=98.99 E-value=1.2e-09 Score=130.60 Aligned_cols=79 Identities=15% Similarity=0.267 Sum_probs=75.5
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.+|||||||..+|+++|+++|+.+ |.|..|+|..++.||++||||||+|.+.++|..|+..++ |..++|+.|+|.
T Consensus 187 ~~l~v~nl~~~~te~~l~~~f~~~---G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~--g~~i~g~~i~v~ 261 (457)
T TIGR01622 187 LKLYVGNLHFNITEQELRQIFEPF---GDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMN--GFELAGRPIKVG 261 (457)
T ss_pred CEEEEcCCCCCCCHHHHHHHHHhc---CCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcC--CcEECCEEEEEE
Confidence 689999999999999999999997 799999999999999999999999999999999999994 899999999999
Q ss_pred cCCC
Q 001183 84 ETHS 87 (1131)
Q Consensus 84 ~a~~ 87 (1131)
-|..
T Consensus 262 ~a~~ 265 (457)
T TIGR01622 262 YAQD 265 (457)
T ss_pred EccC
Confidence 9884
No 27
>PLN03121 nucleic acid binding protein; Provisional
Probab=98.98 E-value=1.8e-09 Score=116.56 Aligned_cols=78 Identities=22% Similarity=0.115 Sum_probs=69.3
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+.||+|+||++.+|++||++||+.+ |+|..|+|+.|+ +++|||||+|.++++|+.|+.+. |..+.+++|.|
T Consensus 5 g~TV~V~NLS~~tTE~dLrefFS~~---G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAllLn---Ga~l~d~~I~I 75 (243)
T PLN03121 5 GYTAEVTNLSPKATEKDVYDFFSHC---GAIEHVEIIRSG---EYACTAYVTFKDAYALETAVLLS---GATIVDQRVCI 75 (243)
T ss_pred ceEEEEecCCCCCCHHHHHHHHHhc---CCeEEEEEecCC---CcceEEEEEECCHHHHHHHHhcC---CCeeCCceEEE
Confidence 4589999999999999999999996 799999999986 45589999999999999999653 89999999999
Q ss_pred ecCCCCC
Q 001183 83 SETHSDI 89 (1131)
Q Consensus 83 ~~a~~~i 89 (1131)
.++..-.
T Consensus 76 t~~~~y~ 82 (243)
T PLN03121 76 TRWGQYE 82 (243)
T ss_pred EeCcccc
Confidence 9877633
No 28
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.95 E-value=8.8e-10 Score=118.66 Aligned_cols=92 Identities=14% Similarity=0.138 Sum_probs=82.2
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeec
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISE 84 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~ 84 (1131)
-++||-|+..++-++|++-|..+ |+|..|||+.|-.|++|+|||||.|...++|+.||..| ||.++|+|.++-|=
T Consensus 64 hvfvgdls~eI~~e~lr~aF~pF---GevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~M--nGqWlG~R~IRTNW 138 (321)
T KOG0148|consen 64 HVFVGDLSPEIDNEKLREAFAPF---GEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQM--NGQWLGRRTIRTNW 138 (321)
T ss_pred eEEehhcchhcchHHHHHHhccc---cccccceEeecccCCcccceeEEeccchHHHHHHHHHh--CCeeeccceeeccc
Confidence 38999999999999999999998 89999999999999999999999999999999999999 59999999999999
Q ss_pred CCCCCCCCCCCCcceecC
Q 001183 85 THSDIVPRPVKAQHRVED 102 (1131)
Q Consensus 85 a~~~i~~~~~~~~~~~~~ 102 (1131)
|-+.+- +....+++++.
T Consensus 139 ATRKp~-e~n~~~ltfde 155 (321)
T KOG0148|consen 139 ATRKPS-EMNGKPLTFDE 155 (321)
T ss_pred cccCcc-ccCCCCccHHH
Confidence 888773 33334555554
No 29
>smart00361 RRM_1 RNA recognition motif.
Probab=98.93 E-value=2.4e-09 Score=95.56 Aligned_cols=62 Identities=16% Similarity=0.113 Sum_probs=56.8
Q ss_pred HHHHHHHHh----hccCCceEEEEE-EeecCCC--CCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 17 AKDLLLFLE----SKLGKNSVFALE-IITDRSN--WKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 17 ~~~L~~~fe----~~~G~G~V~~~~-i~~dr~t--g~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
+++|+++|+ .+ |+|.++. |..|+.+ |++||||||+|++.++|..|+..+ ||..++||.|+++
T Consensus 2 ~~~l~~~~~~~~~~f---G~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l--~g~~~~gr~l~~~ 70 (70)
T smart00361 2 DEDFEREFSEEEEYF---GEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDL--NGRYFDGRTVKAE 70 (70)
T ss_pred chhHHHHHHHHHHhc---CCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHh--CCCEECCEEEEeC
Confidence 578999999 87 7999995 8888887 999999999999999999999999 4899999999874
No 30
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.90 E-value=3e-09 Score=121.10 Aligned_cols=90 Identities=19% Similarity=0.290 Sum_probs=78.3
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+.-||||+||.++.++||.-+||.. |.||.+||.+|+.+|.+||||||.|.+.++|+.||..+| |.-.-.|+.|+|
T Consensus 83 G~EVfvGkIPrD~~EdeLvplfEki---G~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~ln-n~Eir~GK~igv 158 (506)
T KOG0117|consen 83 GCEVFVGKIPRDVFEDELVPLFEKI---GKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELN-NYEIRPGKLLGV 158 (506)
T ss_pred CceEEecCCCccccchhhHHHHHhc---cceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhh-CccccCCCEeEE
Confidence 4569999999999999999999997 799999999999999999999999999999999999997 333457899998
Q ss_pred ecCCCCCCCCCCCCcceecCeEEEEeee
Q 001183 83 SETHSDIVPRPVKAQHRVEDGVLHVGVM 110 (1131)
Q Consensus 83 ~~a~~~i~~~~~~~~~~~~~~~~~~g~~ 110 (1131)
+-+ +++-+|-||..
T Consensus 159 c~S--------------van~RLFiG~I 172 (506)
T KOG0117|consen 159 CVS--------------VANCRLFIGNI 172 (506)
T ss_pred EEe--------------eecceeEeccC
Confidence 853 44566777763
No 31
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=98.89 E-value=9.5e-09 Score=88.97 Aligned_cols=73 Identities=23% Similarity=0.354 Sum_probs=67.4
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
+|+|+|+|+.+++++|+++|+.+ |.|..+++..++.+ +++|+|||+|.+.++|..|++.++ +..++|+.+.|+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~---g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~--~~~~~~~~~~v~ 73 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKF---GKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALN--GKELGGRPLRVE 73 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhc---CCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhC--CCeECCeEEEEe
Confidence 58999999999999999999997 69999999998866 789999999999999999999984 788999999986
No 32
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.88 E-value=4.7e-09 Score=126.62 Aligned_cols=83 Identities=18% Similarity=0.187 Sum_probs=73.7
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+++|+|||||++++++||+++|+++ |+|.+|+|+. +||||||||++.|+|+.|++.++.++..++|+.|+|
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~f---G~V~~v~i~~------~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v 72 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPF---GPVSYVMMLP------GKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFF 72 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhc---CCeeEEEEEC------CCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEE
Confidence 6899999999999999999999998 7999999984 568999999999999999998654689999999999
Q ss_pred ecCCCCCCCCCC
Q 001183 83 SETHSDIVPRPV 94 (1131)
Q Consensus 83 ~~a~~~i~~~~~ 94 (1131)
..+...-+.|+.
T Consensus 73 ~~s~~~~~~~~~ 84 (481)
T TIGR01649 73 NYSTSQEIKRDG 84 (481)
T ss_pred EecCCcccccCC
Confidence 998776555543
No 33
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=98.85 E-value=3.4e-09 Score=110.38 Aligned_cols=81 Identities=22% Similarity=0.264 Sum_probs=76.6
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+.+|.|-||-+.+++++|...||.| |.|-.|.|--|+.|+.|||||||-|-...+|+.|+++| +|..++|+.|+|
T Consensus 13 m~SLkVdNLTyRTspd~LrrvFekY---G~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~dam--DG~~ldgRelrV 87 (256)
T KOG4207|consen 13 MTSLKVDNLTYRTSPDDLRRVFEKY---GRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAM--DGAVLDGRELRV 87 (256)
T ss_pred ceeEEecceeccCCHHHHHHHHHHh---CcccceecccccccccccceeEEEeeecchHHHHHHhh--cceeeccceeee
Confidence 3579999999999999999999998 79999999999999999999999999999999999999 599999999999
Q ss_pred ecCCCC
Q 001183 83 SETHSD 88 (1131)
Q Consensus 83 ~~a~~~ 88 (1131)
..|.-.
T Consensus 88 q~aryg 93 (256)
T KOG4207|consen 88 QMARYG 93 (256)
T ss_pred hhhhcC
Confidence 988764
No 34
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.84 E-value=2.2e-09 Score=112.32 Aligned_cols=82 Identities=16% Similarity=0.209 Sum_probs=77.5
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
+|||||||...||++=|...|=.+ |.|..+++..|-++++-||||||+|+-.|+|.+||+-|| +.++-||.|+||
T Consensus 11 rtlYVGGladeVtekvLhaAFIPF---GDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMn--esEL~GrtirVN 85 (298)
T KOG0111|consen 11 RTLYVGGLADEVTEKVLHAAFIPF---GDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMN--ESELFGRTIRVN 85 (298)
T ss_pred eeEEeccchHHHHHHHHHhccccc---cchhhcccccchhcccccceeEEEeeccchhHHHhhcCc--hhhhcceeEEEe
Confidence 489999999999999999999998 799999999999999999999999999999999999994 899999999999
Q ss_pred cCCCCCC
Q 001183 84 ETHSDIV 90 (1131)
Q Consensus 84 ~a~~~i~ 90 (1131)
.|.+.-+
T Consensus 86 ~AkP~ki 92 (298)
T KOG0111|consen 86 LAKPEKI 92 (298)
T ss_pred ecCCccc
Confidence 9987554
No 35
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.79 E-value=1.8e-08 Score=121.64 Aligned_cols=78 Identities=10% Similarity=0.086 Sum_probs=71.1
Q ss_pred ccEEEEeCCCC-cCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 3 LATVWVSNIPQ-TAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 3 ~~ti~Vgnl~~-~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
+.+|||+|||+ .+|+++|+++|+.| |.|.+|+|..+ +||||||||.+.++|+.|+..++ |..+.|+.|+
T Consensus 275 ~~~l~v~nL~~~~vt~~~L~~lF~~y---G~V~~vki~~~-----~~g~afV~f~~~~~A~~Ai~~ln--g~~l~g~~l~ 344 (481)
T TIGR01649 275 GSVLMVSGLHQEKVNCDRLFNLFCVY---GNVERVKFMKN-----KKETALIEMADPYQAQLALTHLN--GVKLFGKPLR 344 (481)
T ss_pred CCEEEEeCCCCCCCCHHHHHHHHHhc---CCeEEEEEEeC-----CCCEEEEEECCHHHHHHHHHHhC--CCEECCceEE
Confidence 35899999998 69999999999998 79999999986 36999999999999999999994 8999999999
Q ss_pred eecCCCCCC
Q 001183 82 ISETHSDIV 90 (1131)
Q Consensus 82 V~~a~~~i~ 90 (1131)
|+.+....+
T Consensus 345 v~~s~~~~~ 353 (481)
T TIGR01649 345 VCPSKQQNV 353 (481)
T ss_pred EEEcccccc
Confidence 999877654
No 36
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.77 E-value=6.5e-09 Score=106.72 Aligned_cols=79 Identities=19% Similarity=0.276 Sum_probs=75.1
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.|||||||+..++++-|.++|=+. |.|.++++-.||.|...+|||||||.++|+|+-|+..+| ..-+-||+|+|+
T Consensus 10 ~tiyvgnld~kvs~~~l~EL~iqa---gpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln--~VkLYgrpIrv~ 84 (203)
T KOG0131|consen 10 ATLYVGNLDEKVSEELLYELFIQA---GPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILN--MVKLYGRPIRVN 84 (203)
T ss_pred ceEEEecCCHHHHHHHHHHHHHhc---CceeeeecchhhhcccccceeEEEEechhhhHHHHHHHH--HHHhcCceeEEE
Confidence 599999999999999999999996 699999999999999999999999999999999999995 788999999999
Q ss_pred cCCC
Q 001183 84 ETHS 87 (1131)
Q Consensus 84 ~a~~ 87 (1131)
.|..
T Consensus 85 kas~ 88 (203)
T KOG0131|consen 85 KASA 88 (203)
T ss_pred eccc
Confidence 9883
No 37
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=98.77 E-value=1.5e-08 Score=103.56 Aligned_cols=79 Identities=13% Similarity=0.111 Sum_probs=70.8
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
+.++||||||+..++..||...|..| |.+.+|=|.. ++.|||||||+++.+|+.|+..| +|..+.|..++
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~y---G~lrsvWvAr-----nPPGfAFVEFed~RDA~DAvr~L--DG~~~cG~r~r 78 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKY---GPLRSVWVAR-----NPPGFAFVEFEDPRDAEDAVRYL--DGKDICGSRIR 78 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhc---CcceeEEEee-----cCCCceEEeccCcccHHHHHhhc--CCccccCceEE
Confidence 45789999999999999999999997 7888877764 67799999999999999999999 59999999999
Q ss_pred eecCCCCCC
Q 001183 82 ISETHSDIV 90 (1131)
Q Consensus 82 V~~a~~~i~ 90 (1131)
|....-..-
T Consensus 79 VE~S~G~~r 87 (195)
T KOG0107|consen 79 VELSTGRPR 87 (195)
T ss_pred EEeecCCcc
Confidence 998877653
No 38
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.77 E-value=1.9e-08 Score=122.30 Aligned_cols=75 Identities=13% Similarity=0.121 Sum_probs=67.7
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
.++|||+|||+++|+++|+++|+++ ++|+|.+|+++ |+||||+|++.++|++|++.+ |+..++|+.|+|
T Consensus 233 ~k~LfVgNL~~~~tee~L~~~F~~f-~~G~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~l--nG~~i~Gr~I~V 301 (578)
T TIGR01648 233 VKILYVRNLMTTTTEEIIEKSFSEF-KPGKVERVKKI--------RDYAFVHFEDREDAVKAMDEL--NGKELEGSEIEV 301 (578)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHhc-CCCceEEEEee--------cCeEEEEeCCHHHHHHHHHHh--CCCEECCEEEEE
Confidence 3689999999999999999999995 55799999875 579999999999999999999 489999999999
Q ss_pred ecCCCC
Q 001183 83 SETHSD 88 (1131)
Q Consensus 83 ~~a~~~ 88 (1131)
+.|++.
T Consensus 302 ~~Akp~ 307 (578)
T TIGR01648 302 TLAKPV 307 (578)
T ss_pred EEccCC
Confidence 999653
No 39
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.76 E-value=2.4e-08 Score=109.19 Aligned_cols=82 Identities=13% Similarity=0.201 Sum_probs=76.2
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
+||+|+-|++.++++.|+..||.| |.|.+++|+.|+.||.|||||||+|+++.+...|-..+ +|+.++|+-+.|.
T Consensus 102 ~TLFv~RLnydT~EskLrreF~~Y---G~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~a--dG~~Idgrri~VD 176 (335)
T KOG0113|consen 102 KTLFVARLNYDTSESKLRREFEKY---GPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDA--DGIKIDGRRILVD 176 (335)
T ss_pred ceeeeeeccccccHHHHHHHHHhc---CcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhc--cCceecCcEEEEE
Confidence 699999999999999999999998 79999999999999999999999999999999999999 5999999999998
Q ss_pred cCCCCCC
Q 001183 84 ETHSDIV 90 (1131)
Q Consensus 84 ~a~~~i~ 90 (1131)
--....+
T Consensus 177 vERgRTv 183 (335)
T KOG0113|consen 177 VERGRTV 183 (335)
T ss_pred ecccccc
Confidence 6555443
No 40
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.72 E-value=2.1e-08 Score=104.99 Aligned_cols=80 Identities=18% Similarity=0.292 Sum_probs=75.3
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeec
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISE 84 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~ 84 (1131)
-+||+-+|..+-+.++..||.++ | |+|.++++...+.||.|||||||||+++|.|.-|.+.|| ++.|+|+-|.+..
T Consensus 51 ~~~~~~~p~g~~e~~~~~~~~q~-~-g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMN--NYLl~e~lL~c~v 126 (214)
T KOG4208|consen 51 VVYVDHIPHGFFETEILNYFRQF-G-GTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMN--NYLLMEHLLECHV 126 (214)
T ss_pred ceeecccccchhHHHHhhhhhhc-C-CeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhh--hhhhhhheeeeEE
Confidence 37899999999999999999997 5 799999999999999999999999999999999999995 8999999999999
Q ss_pred CCCC
Q 001183 85 THSD 88 (1131)
Q Consensus 85 a~~~ 88 (1131)
+++.
T Consensus 127 mppe 130 (214)
T KOG4208|consen 127 MPPE 130 (214)
T ss_pred eCch
Confidence 8886
No 41
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.70 E-value=3.4e-08 Score=105.79 Aligned_cols=79 Identities=20% Similarity=0.284 Sum_probs=74.4
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
+++-|--||...|++|++.+|.+. |+|.+||++.|+-||.|-|||||-..++++|++||+.+ |||.+..+.+||+
T Consensus 42 TNLIvNYLPQ~MTqdE~rSLF~Si---GeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~Aintl--NGLrLQ~KTIKVS 116 (360)
T KOG0145|consen 42 TNLIVNYLPQNMTQDELRSLFGSI---GEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTL--NGLRLQNKTIKVS 116 (360)
T ss_pred ceeeeeecccccCHHHHHHHhhcc---cceeeeeeeeccccccccccceeeecChHHHHHHHhhh--cceeeccceEEEE
Confidence 357788999999999999999997 79999999999999999999999999999999999999 5999999999999
Q ss_pred cCCC
Q 001183 84 ETHS 87 (1131)
Q Consensus 84 ~a~~ 87 (1131)
-|.+
T Consensus 117 yARP 120 (360)
T KOG0145|consen 117 YARP 120 (360)
T ss_pred eccC
Confidence 8754
No 42
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.66 E-value=3.6e-09 Score=108.34 Aligned_cols=96 Identities=11% Similarity=0.218 Sum_probs=81.0
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.-|||||||+..|+.||...|++| |.|..+.++.|+.||.|+||||.-.++..+--.|++-+ ||.-+.||.|+|.
T Consensus 36 A~Iyiggl~~~LtEgDil~VFSqy---Ge~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~--NGiki~gRtirVD 110 (219)
T KOG0126|consen 36 AYIYIGGLPYELTEGDILCVFSQY---GEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNL--NGIKILGRTIRVD 110 (219)
T ss_pred eEEEECCCcccccCCcEEEEeecc---CceEEEEEEecCCCCcccceEEEEecCccceEEEEecc--CCceecceeEEee
Confidence 359999999999999999999998 79999999999999999999999999998888888888 5999999999997
Q ss_pred cCCCCCCCCCCCCcceecCeEEEE
Q 001183 84 ETHSDIVPRPVKAQHRVEDGVLHV 107 (1131)
Q Consensus 84 ~a~~~i~~~~~~~~~~~~~~~~~~ 107 (1131)
-...-.. +.....+++++.++
T Consensus 111 Hv~~Yk~---pk~~E~~d~~t~~L 131 (219)
T KOG0126|consen 111 HVSNYKK---PKESEEMDAVTKEL 131 (219)
T ss_pred ecccccC---CchhhhhhHHHHHH
Confidence 5444222 23355666666554
No 43
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.65 E-value=6.2e-08 Score=112.60 Aligned_cols=82 Identities=18% Similarity=0.236 Sum_probs=75.9
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhh----cCCCceecCc
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLS----LNDKLVFNSQ 78 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~----~~~~~~~~gr 78 (1131)
++||+|-|||+++|+++|++.|..+ |.|..+.|+.++.||+|+|-|||+|.+..+|+.+|.++ +-.++.++||
T Consensus 292 ~~tVFvRNL~fD~tEEel~~~fskF---G~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR 368 (678)
T KOG0127|consen 292 GKTVFVRNLPFDTTEEELKEHFSKF---GEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGR 368 (678)
T ss_pred cceEEEecCCccccHHHHHHHHHhh---ccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEecc
Confidence 5799999999999999999999998 89999999999999999999999999999999999998 3333899999
Q ss_pred eeEeecCCC
Q 001183 79 NLKISETHS 87 (1131)
Q Consensus 79 ~L~V~~a~~ 87 (1131)
.|+|+.|=+
T Consensus 369 ~Lkv~~Av~ 377 (678)
T KOG0127|consen 369 LLKVTLAVT 377 (678)
T ss_pred EEeeeeccc
Confidence 999998744
No 44
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.64 E-value=7.1e-08 Score=103.35 Aligned_cols=75 Identities=21% Similarity=0.239 Sum_probs=72.0
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeec
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISE 84 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~ 84 (1131)
-|+|.||+.++.+.-|..+|..+ |.|..|||+.|-.|.+-+|||||.|++-++|.-||..+ ||..+++|.|.|+-
T Consensus 280 ciFvYNLspd~de~~LWQlFgpF---GAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sL--NGy~lg~rvLQVsF 354 (360)
T KOG0145|consen 280 CIFVYNLSPDADESILWQLFGPF---GAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASL--NGYRLGDRVLQVSF 354 (360)
T ss_pred EEEEEecCCCchHhHHHHHhCcc---cceeeEEEEecCCcccccceeEEEecchHHHHHHHHHh--cCccccceEEEEEE
Confidence 48999999999999999999998 89999999999999999999999999999999999999 59999999999985
No 45
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.63 E-value=2.9e-08 Score=120.21 Aligned_cols=75 Identities=20% Similarity=0.366 Sum_probs=60.6
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhc---cCC------ceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCc
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESK---LGK------NSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKL 73 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~---~G~------G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~ 73 (1131)
.++|||||||+.+|+++|++||+++ +|. +.|..+.+ ++++|||||+|.+.|+|..|+. + ||.
T Consensus 175 ~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~~~kg~afVeF~~~e~A~~Al~-l--~g~ 245 (509)
T TIGR01642 175 ARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------NKEKNFAFLEFRTVEEATFAMA-L--DSI 245 (509)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------CCCCCEEEEEeCCHHHHhhhhc-C--CCe
Confidence 4689999999999999999999985 111 23444433 5678999999999999999995 6 489
Q ss_pred eecCceeEeecCC
Q 001183 74 VFNSQNLKISETH 86 (1131)
Q Consensus 74 ~~~gr~L~V~~a~ 86 (1131)
.|+|+.|+|....
T Consensus 246 ~~~g~~l~v~r~~ 258 (509)
T TIGR01642 246 IYSNVFLKIRRPH 258 (509)
T ss_pred EeeCceeEecCcc
Confidence 9999999997543
No 46
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.56 E-value=8.9e-08 Score=111.32 Aligned_cols=82 Identities=20% Similarity=0.282 Sum_probs=76.6
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+.||+|++||++++.++|.+||+.. |.|..|-|++++.++.+||||||.|+-.|+++.|+...+ +.-|+||.|+|
T Consensus 5 g~TlfV~~lp~~~~~~qL~e~FS~v---GPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~--~~kf~Gr~l~v 79 (678)
T KOG0127|consen 5 GATLFVSRLPFSSTGEQLEEFFSYV---GPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETE--QSKFEGRILNV 79 (678)
T ss_pred CceEEEecCCCccchhHHHHhhhcc---cCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhh--cCcccceeccc
Confidence 4799999999999999999999996 699999999999999999999999999999999999995 68899999999
Q ss_pred ecCCCCC
Q 001183 83 SETHSDI 89 (1131)
Q Consensus 83 ~~a~~~i 89 (1131)
..|....
T Consensus 80 ~~A~~R~ 86 (678)
T KOG0127|consen 80 DPAKKRA 86 (678)
T ss_pred ccccccc
Confidence 9988743
No 47
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.55 E-value=1.1e-07 Score=97.86 Aligned_cols=77 Identities=13% Similarity=0.161 Sum_probs=69.8
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.+|||||||.++-++|+.++|-.| |.|..++++..+ +.-+||||+|+++.+|+-||-.- +|..|+|..|+|.
T Consensus 7 ~~iyvGNLP~diRekeieDlFyKy---g~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygR--dGYdydg~rLRVE 78 (241)
T KOG0105|consen 7 RRIYVGNLPGDIREKEIEDLFYKY---GRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGR--DGYDYDGCRLRVE 78 (241)
T ss_pred ceEEecCCCcchhhccHHHHHhhh---cceEEEEeccCC---CCCCeeEEEecCccchhhhhhcc--cccccCcceEEEE
Confidence 579999999999999999999998 799999999866 45699999999999999999876 6999999999999
Q ss_pred cCCCC
Q 001183 84 ETHSD 88 (1131)
Q Consensus 84 ~a~~~ 88 (1131)
.+..-
T Consensus 79 fprgg 83 (241)
T KOG0105|consen 79 FPRGG 83 (241)
T ss_pred eccCC
Confidence 76653
No 48
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.50 E-value=1.5e-07 Score=92.41 Aligned_cols=78 Identities=14% Similarity=0.184 Sum_probs=73.4
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeec
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISE 84 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~ 84 (1131)
-|+|.|+-..+|++|+.+.|..| |.|..+.+--||.||+.+|||.|+.++.++|++||+++ ||+.+.|.++.|.-
T Consensus 74 Ii~VtgvHeEatEedi~d~F~dy---GeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~--Ng~~ll~q~v~VDw 148 (170)
T KOG0130|consen 74 IIFVTGVHEEATEEDIHDKFADY---GEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDAL--NGAELLGQNVSVDW 148 (170)
T ss_pred EEEEeccCcchhHHHHHHHHhhc---ccccceeeccccccccccceeeeehHhHHHHHHHHHhc--cchhhhCCceeEEE
Confidence 48999999999999999999998 79999999999999999999999999999999999999 59999999999975
Q ss_pred CCC
Q 001183 85 THS 87 (1131)
Q Consensus 85 a~~ 87 (1131)
+.-
T Consensus 149 ~Fv 151 (170)
T KOG0130|consen 149 CFV 151 (170)
T ss_pred EEe
Confidence 543
No 49
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.45 E-value=4e-07 Score=103.39 Aligned_cols=80 Identities=29% Similarity=0.379 Sum_probs=75.2
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeec
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISE 84 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~ 84 (1131)
.+|++||||++.=.|||+++-+.+| +|.=|++..|. +|++||-|.|||.++|.+++|++.+| ..++.||.|+|.|
T Consensus 46 ~vfItNIpyd~rWqdLKdLvrekvG--ev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~ln--k~~~~GR~l~vKE 120 (608)
T KOG4212|consen 46 SVFITNIPYDYRWQDLKDLVREKVG--EVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLN--KYEVNGRELVVKE 120 (608)
T ss_pred eEEEecCcchhhhHhHHHHHHHhcC--ceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhh--hccccCceEEEec
Confidence 5999999999999999999999875 99999999999 89999999999999999999999995 8999999999999
Q ss_pred CCCCC
Q 001183 85 THSDI 89 (1131)
Q Consensus 85 a~~~i 89 (1131)
.+.--
T Consensus 121 d~d~q 125 (608)
T KOG4212|consen 121 DHDEQ 125 (608)
T ss_pred cCchh
Confidence 77744
No 50
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.45 E-value=2.2e-07 Score=105.76 Aligned_cols=97 Identities=25% Similarity=0.370 Sum_probs=79.0
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCcee--cCceeEe
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVF--NSQNLKI 82 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~--~gr~L~V 82 (1131)
++|||-+|.+.+|+||+++||+| |.|+.|.|+.||.||.|||..||.|.+.++|.+|+.++. |...+ +..+++|
T Consensus 36 KlfVgqIprt~sE~dlr~lFe~y---g~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alh-n~ktlpG~~~pvqv 111 (510)
T KOG0144|consen 36 KLFVGQIPRTASEKDLRELFEKY---GNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALH-NQKTLPGMHHPVQV 111 (510)
T ss_pred hheeccCCccccHHHHHHHHHHh---CceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhh-cccccCCCCcceee
Confidence 68999999999999999999998 799999999999999999999999999999999999996 34433 4466777
Q ss_pred ecCCCCCCCCCCCCcceecCeEEEEeeeec
Q 001183 83 SETHSDIVPRPVKAQHRVEDGVLHVGVMCK 112 (1131)
Q Consensus 83 ~~a~~~i~~~~~~~~~~~~~~~~~~g~~~~ 112 (1131)
..|+.-- .+. .++-+|-+|++-.
T Consensus 112 k~Ad~E~---er~----~~e~KLFvg~lsK 134 (510)
T KOG0144|consen 112 KYADGER---ERI----VEERKLFVGMLSK 134 (510)
T ss_pred cccchhh---hcc----ccchhhhhhhccc
Confidence 7665522 111 4566777887543
No 51
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.45 E-value=1.7e-07 Score=109.86 Aligned_cols=79 Identities=16% Similarity=0.220 Sum_probs=74.4
Q ss_pred EEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeecC
Q 001183 6 VWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISET 85 (1131)
Q Consensus 6 i~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a 85 (1131)
+|||||=...+|++|+..||.+ |.|..+.+..|-+||+++||||+||.+.+.|..|...+| |+++.||.++|...
T Consensus 281 l~vgnLHfNite~~lr~ifepf---g~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~ln--gfelAGr~ikV~~v 355 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLRGIFEPF---GKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLN--GFELAGRLIKVSVV 355 (549)
T ss_pred hhhcccccCchHHHHhhhccCc---ccceeeeeccccccccccCcceEEEecHHHHHHHHHHhc--cceecCceEEEEEe
Confidence 8999999999999999999998 899999999999999999999999999999999999995 89999999999876
Q ss_pred CCCC
Q 001183 86 HSDI 89 (1131)
Q Consensus 86 ~~~i 89 (1131)
-+.+
T Consensus 356 ~~r~ 359 (549)
T KOG0147|consen 356 TERV 359 (549)
T ss_pred eeec
Confidence 5544
No 52
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=98.44 E-value=4.1e-07 Score=88.82 Aligned_cols=77 Identities=16% Similarity=0.154 Sum_probs=71.0
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+.|||||||++.++++++-++|+.. |+|.++-.=-||.+-.+=||.||+|-+.++|+.|+.-+ ||..++.|+|++
T Consensus 36 S~tvyVgNlSfyttEEqiyELFs~c---G~irriiMGLdr~kktpCGFCFVeyy~~~dA~~Alryi--sgtrLddr~ir~ 110 (153)
T KOG0121|consen 36 SCTVYVGNLSFYTTEEQIYELFSKC---GDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYI--SGTRLDDRPIRI 110 (153)
T ss_pred cceEEEeeeeeeecHHHHHHHHHhc---cchheeEeccccCCcCccceEEEEEecchhHHHHHHHh--ccCcccccceee
Confidence 5699999999999999999999995 69999888889999989999999999999999999999 489999999988
Q ss_pred ec
Q 001183 83 SE 84 (1131)
Q Consensus 83 ~~ 84 (1131)
.-
T Consensus 111 D~ 112 (153)
T KOG0121|consen 111 DW 112 (153)
T ss_pred ec
Confidence 64
No 53
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.43 E-value=4e-07 Score=98.59 Aligned_cols=77 Identities=14% Similarity=0.113 Sum_probs=71.1
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
+|||||||+..+|++++++.|+.+ |.+..|||..|+ ||+||-|++.|+|..||-.+| +.+++|...|-+
T Consensus 165 tsVY~G~I~~~lte~~mr~~Fs~f---G~I~EVRvFk~q------GYaFVrF~tkEaAahAIv~mN--ntei~G~~VkCs 233 (321)
T KOG0148|consen 165 TSVYVGNIASGLTEDLMRQTFSPF---GPIQEVRVFKDQ------GYAFVRFETKEAAAHAIVQMN--NTEIGGQLVRCS 233 (321)
T ss_pred ceEEeCCcCccccHHHHHHhcccC---CcceEEEEeccc------ceEEEEecchhhHHHHHHHhc--CceeCceEEEEe
Confidence 589999999999999999999998 799999999877 999999999999999999994 899999999998
Q ss_pred cCCCCCCC
Q 001183 84 ETHSDIVP 91 (1131)
Q Consensus 84 ~a~~~i~~ 91 (1131)
=.++....
T Consensus 234 WGKe~~~~ 241 (321)
T KOG0148|consen 234 WGKEGDDG 241 (321)
T ss_pred ccccCCCC
Confidence 87776643
No 54
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=98.43 E-value=6.2e-07 Score=76.22 Aligned_cols=55 Identities=27% Similarity=0.332 Sum_probs=48.6
Q ss_pred HHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeec
Q 001183 20 LLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISE 84 (1131)
Q Consensus 20 L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~ 84 (1131)
|.++|+.+ |+|.++++...+ +|+|||+|.+.++|+.|+..++ |..++|+.|+|+-
T Consensus 1 L~~~f~~f---G~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~--~~~~~g~~l~V~~ 55 (56)
T PF13893_consen 1 LYKLFSKF---GEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLN--GRQFNGRPLKVSY 55 (56)
T ss_dssp HHHHHTTT---S-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHT--TSEETTEEEEEEE
T ss_pred ChHHhCCc---ccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhC--CCEECCcEEEEEE
Confidence 68899998 799999997544 7999999999999999999994 8999999999974
No 55
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.41 E-value=1.8e-07 Score=106.00 Aligned_cols=80 Identities=15% Similarity=0.214 Sum_probs=71.1
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.+++||+|+|.++++.|+++|+++ |+|..|.|..|+.|++|||||||+|++++...+++..- ...++||.+-+.
T Consensus 7 ~KlfiGgisw~ttee~Lr~yf~~~---Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~---~h~~dgr~ve~k 80 (311)
T KOG4205|consen 7 GKLFIGGLSWETTEESLREYFSQF---GEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNAR---THKLDGRSVEPK 80 (311)
T ss_pred cceeecCcCccccHHHHHHHhccc---CceeeEEEeccCCCCCcccccceecCCCcchheeeccc---ccccCCccccce
Confidence 579999999999999999999998 79999999999999999999999999998887777765 578899988877
Q ss_pred cCCCCC
Q 001183 84 ETHSDI 89 (1131)
Q Consensus 84 ~a~~~i 89 (1131)
+|-..-
T Consensus 81 ~av~r~ 86 (311)
T KOG4205|consen 81 RAVSRE 86 (311)
T ss_pred eccCcc
Confidence 765543
No 56
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.39 E-value=2.9e-07 Score=102.39 Aligned_cols=75 Identities=13% Similarity=0.206 Sum_probs=72.5
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
-.||||.+++...++.++..|..+ |.+.++..--|.-|++-+||||||++-+|+|+.|++.+ ||.-+|||+|||+
T Consensus 114 cRvYVGSIsfEl~EDtiR~AF~PF---GPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqM--Ng~mlGGRNiKVg 188 (544)
T KOG0124|consen 114 CRVYVGSISFELREDTIRRAFDPF---GPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQM--NGQMLGGRNIKVG 188 (544)
T ss_pred HheeeeeeEEEechHHHHhhccCC---CCcceeecccccccccccceEEEEEeCcHHHHHHHHHh--ccccccCcccccc
Confidence 479999999999999999999998 79999999999999999999999999999999999999 4999999999999
No 57
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.37 E-value=6.3e-07 Score=102.61 Aligned_cols=74 Identities=12% Similarity=0.149 Sum_probs=68.6
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+|-|||-||+.++|++.|++.|++| |.|.+|+.+ |-||||||++.++|-+|++.+ ||.+++|..|-|
T Consensus 259 VKvLYVRNL~~~tTeE~lk~~F~~~---G~veRVkk~--------rDYaFVHf~eR~davkAm~~~--ngkeldG~~iEv 325 (506)
T KOG0117|consen 259 VKVLYVRNLMESTTEETLKKLFNEF---GKVERVKKP--------RDYAFVHFAEREDAVKAMKET--NGKELDGSPIEV 325 (506)
T ss_pred eeeeeeeccchhhhHHHHHHHHHhc---cceEEeecc--------cceeEEeecchHHHHHHHHHh--cCceecCceEEE
Confidence 3579999999999999999999999 799999887 459999999999999999999 499999999999
Q ss_pred ecCCCCC
Q 001183 83 SETHSDI 89 (1131)
Q Consensus 83 ~~a~~~i 89 (1131)
..|++.-
T Consensus 326 tLAKP~~ 332 (506)
T KOG0117|consen 326 TLAKPVD 332 (506)
T ss_pred EecCChh
Confidence 9998865
No 58
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.33 E-value=1.1e-06 Score=102.60 Aligned_cols=77 Identities=21% Similarity=0.267 Sum_probs=72.2
Q ss_pred EEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeecC
Q 001183 6 VWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISET 85 (1131)
Q Consensus 6 i~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a 85 (1131)
|||-||+.+++.++|.++|+.+ |.|.+|+|.+|+ .| |+|| ||||+++++|.+||+.+ ||..+.|+.+-|-..
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~~---g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~--ng~ll~~kki~vg~~ 150 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSEF---GNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKL--NGMLLNGKKIYVGLF 150 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhh---cCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHh--cCcccCCCeeEEeec
Confidence 8999999999999999999998 799999999999 44 9999 99999999999999999 499999999999988
Q ss_pred CCCCC
Q 001183 86 HSDIV 90 (1131)
Q Consensus 86 ~~~i~ 90 (1131)
.....
T Consensus 151 ~~~~e 155 (369)
T KOG0123|consen 151 ERKEE 155 (369)
T ss_pred cchhh
Confidence 88775
No 59
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.31 E-value=9.3e-07 Score=96.62 Aligned_cols=74 Identities=16% Similarity=0.305 Sum_probs=68.3
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
|.-+++|||||..+++.+|+.+||++ |+|..|.|+. -|||||+++..+|+-||.-+ +|.-++|.+++
T Consensus 1 ~~~KLFIGNLp~~~~~~elr~lFe~y---gkVlECDIvK--------NYgFVHiEdktaaedairNL--hgYtLhg~nIn 67 (346)
T KOG0109|consen 1 MPVKLFIGNLPREATEQELRSLFEQY---GKVLECDIVK--------NYGFVHIEDKTAAEDAIRNL--HGYTLHGVNIN 67 (346)
T ss_pred CccchhccCCCcccchHHHHHHHHhh---CceEeeeeec--------ccceEEeecccccHHHHhhc--ccceecceEEE
Confidence 55679999999999999999999998 7999999994 68999999999999999988 49999999999
Q ss_pred eecCCCC
Q 001183 82 ISETHSD 88 (1131)
Q Consensus 82 V~~a~~~ 88 (1131)
|..++-.
T Consensus 68 VeaSksK 74 (346)
T KOG0109|consen 68 VEASKSK 74 (346)
T ss_pred EEecccc
Confidence 9988775
No 60
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.30 E-value=8.1e-07 Score=95.74 Aligned_cols=84 Identities=15% Similarity=0.247 Sum_probs=77.0
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
-+|++..||....+.||...|-.+ |.|.++||..||-|..||-||||.|+++.+|++||.++ ||..+|=+.|||-
T Consensus 286 CNlFIYHLPQEFgDaEliQmF~PF---GhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAM--NGFQIGMKRLKVQ 360 (371)
T KOG0146|consen 286 CNLFIYHLPQEFGDAELIQMFLPF---GHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAM--NGFQIGMKRLKVQ 360 (371)
T ss_pred ceEEEEeCchhhccHHHHHHhccc---cceeeeeeeehhccccccceeeEecCCchhHHHHHHHh--cchhhhhhhhhhh
Confidence 479999999999999999999998 79999999999999999999999999999999999999 5999999999998
Q ss_pred cCCCCCCCC
Q 001183 84 ETHSDIVPR 92 (1131)
Q Consensus 84 ~a~~~i~~~ 92 (1131)
...+.-.-|
T Consensus 361 LKRPkdanR 369 (371)
T KOG0146|consen 361 LKRPKDANR 369 (371)
T ss_pred hcCccccCC
Confidence 765544333
No 61
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.27 E-value=8.9e-07 Score=100.38 Aligned_cols=82 Identities=22% Similarity=0.330 Sum_probs=75.8
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+++|+||++|.+++++++++|||++ |.|..+.+..|+++.++||||||+|.++++..++...- -..|+|+.+.|
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~---g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~---f~~~~gk~vev 170 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQF---GKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQK---FHDFNGKKVEV 170 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhcc---ceeEeeEEeecccccccccceeeEeccccccceecccc---eeeecCceeeE
Confidence 4689999999999999999999998 79999999999999999999999999999888887765 57999999999
Q ss_pred ecCCCCCC
Q 001183 83 SETHSDIV 90 (1131)
Q Consensus 83 ~~a~~~i~ 90 (1131)
.-|.++-+
T Consensus 171 krA~pk~~ 178 (311)
T KOG4205|consen 171 KRAIPKEV 178 (311)
T ss_pred eeccchhh
Confidence 99988775
No 62
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.11 E-value=9.4e-06 Score=76.92 Aligned_cols=74 Identities=12% Similarity=0.184 Sum_probs=67.4
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
..-+||-|||+++|++|.-++|..| |+|.-+||=.+++ -||-|||-.++-.+|.+|.+-+ +|..+.+++|.|
T Consensus 18 nriLyirNLp~~ITseemydlFGky---g~IrQIRiG~~k~---TrGTAFVVYedi~dAk~A~dhl--sg~n~~~ryl~v 89 (124)
T KOG0114|consen 18 NRILYIRNLPFKITSEEMYDLFGKY---GTIRQIRIGNTKE---TRGTAFVVYEDIFDAKKACDHL--SGYNVDNRYLVV 89 (124)
T ss_pred heeEEEecCCccccHHHHHHHhhcc---cceEEEEecCccC---cCceEEEEehHhhhHHHHHHHh--cccccCCceEEE
Confidence 3468999999999999999999998 7999999988774 4699999999999999999999 499999999998
Q ss_pred ec
Q 001183 83 SE 84 (1131)
Q Consensus 83 ~~ 84 (1131)
--
T Consensus 90 ly 91 (124)
T KOG0114|consen 90 LY 91 (124)
T ss_pred Ee
Confidence 53
No 63
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.06 E-value=7.1e-06 Score=95.68 Aligned_cols=84 Identities=15% Similarity=0.224 Sum_probs=77.9
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
.+.++.|+||+.++-|.||+++|+.| |.|..++|+|.-.+-.-|-||||+|.+.++|.+.|+-+. ..++.||.|.
T Consensus 404 ~gRNlWVSGLSstTRAtDLKnlFSKy---GKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLH--rTELHGrmIS 478 (940)
T KOG4661|consen 404 LGRNLWVSGLSSTTRATDLKNLFSKY---GKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLH--RTELHGRMIS 478 (940)
T ss_pred cccceeeeccccchhhhHHHHHHHHh---cceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhh--hhhhcceeee
Confidence 46789999999999999999999998 799999999988787889999999999999999999995 7899999999
Q ss_pred eecCCCCCC
Q 001183 82 ISETHSDIV 90 (1131)
Q Consensus 82 V~~a~~~i~ 90 (1131)
|..|+--|.
T Consensus 479 VEkaKNEp~ 487 (940)
T KOG4661|consen 479 VEKAKNEPG 487 (940)
T ss_pred eeecccCcc
Confidence 999888775
No 64
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.02 E-value=1.1e-05 Score=90.09 Aligned_cols=81 Identities=12% Similarity=0.221 Sum_probs=74.4
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
..|||..+-.+.+++|++..||.+ |.+..|++..+..++.-|||||+||.+..+-..||..+| =.++||.+|+|-
T Consensus 211 nRiYVaSvHpDLSe~DiKSVFEAF---G~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMN--lFDLGGQyLRVG 285 (544)
T KOG0124|consen 211 NRIYVASVHPDLSETDIKSVFEAF---GEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMN--LFDLGGQYLRVG 285 (544)
T ss_pred heEEeeecCCCccHHHHHHHHHhh---cceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcc--hhhcccceEecc
Confidence 479999999999999999999998 799999999999889999999999999999999999994 679999999998
Q ss_pred cCCCCC
Q 001183 84 ETHSDI 89 (1131)
Q Consensus 84 ~a~~~i 89 (1131)
.+-+++
T Consensus 286 k~vTPP 291 (544)
T KOG0124|consen 286 KCVTPP 291 (544)
T ss_pred cccCCC
Confidence 665444
No 65
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.95 E-value=1.5e-05 Score=96.07 Aligned_cols=76 Identities=20% Similarity=0.295 Sum_probs=69.1
Q ss_pred EEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCC---CccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 6 VWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNW---KSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 6 i~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg---~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
|||.|+++++|.++|.+.|... |+|.++.|...+... -|.|||||||.+++.|+.|+.+++ |..++|+.|.|
T Consensus 518 lfvkNlnf~Tt~e~l~~~F~k~---G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lq--gtvldGH~l~l 592 (725)
T KOG0110|consen 518 LFVKNLNFDTTLEDLEDLFSKQ---GTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQ--GTVLDGHKLEL 592 (725)
T ss_pred hhhhcCCcccchhHHHHHHHhc---CeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhc--CceecCceEEE
Confidence 9999999999999999999995 799999999977433 245999999999999999999994 99999999999
Q ss_pred ecCC
Q 001183 83 SETH 86 (1131)
Q Consensus 83 ~~a~ 86 (1131)
.-++
T Consensus 593 k~S~ 596 (725)
T KOG0110|consen 593 KISE 596 (725)
T ss_pred Eecc
Confidence 9887
No 66
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=97.88 E-value=2e-05 Score=95.58 Aligned_cols=73 Identities=21% Similarity=0.320 Sum_probs=66.1
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
+++||+||+++..+++.||++.||++ |.|.++.++. +||+|||.|.+..+|.+|+.+++ ..-+.++.+|
T Consensus 420 ~SrTLwvG~i~k~v~e~dL~~~feef---GeiqSi~li~------~R~cAfI~M~~RqdA~kalqkl~--n~kv~~k~Ik 488 (894)
T KOG0132|consen 420 CSRTLWVGGIPKNVTEQDLANLFEEF---GEIQSIILIP------PRGCAFIKMVRRQDAEKALQKLS--NVKVADKTIK 488 (894)
T ss_pred eeeeeeeccccchhhHHHHHHHHHhc---ccceeEeecc------CCceeEEEEeehhHHHHHHHHHh--cccccceeeE
Confidence 57899999999999999999999998 7999999994 77999999999999999999995 5778888887
Q ss_pred eecC
Q 001183 82 ISET 85 (1131)
Q Consensus 82 V~~a 85 (1131)
+.=|
T Consensus 489 i~Wa 492 (894)
T KOG0132|consen 489 IAWA 492 (894)
T ss_pred Eeee
Confidence 7644
No 67
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=97.88 E-value=1.2e-05 Score=88.15 Aligned_cols=74 Identities=19% Similarity=0.254 Sum_probs=67.5
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+++|.|||+..+.++.||++.||.+ |+|..|+|. |++|||+|+-.+.|..||..+ |+.+|.|+.++|
T Consensus 78 stkl~vgNis~tctn~ElRa~fe~y---gpviecdiv--------kdy~fvh~d~~eda~~air~l--~~~~~~gk~m~v 144 (346)
T KOG0109|consen 78 STKLHVGNISPTCTNQELRAKFEKY---GPVIECDIV--------KDYAFVHFDRAEDAVEAIRGL--DNTEFQGKRMHV 144 (346)
T ss_pred ccccccCCCCccccCHHHhhhhccc---CCceeeeee--------cceeEEEEeeccchHHHHhcc--cccccccceeee
Confidence 5689999999999999999999998 799999998 479999999999999999999 489999999999
Q ss_pred ecCCCCC
Q 001183 83 SETHSDI 89 (1131)
Q Consensus 83 ~~a~~~i 89 (1131)
..+-..+
T Consensus 145 q~stsrl 151 (346)
T KOG0109|consen 145 QLSTSRL 151 (346)
T ss_pred eeecccc
Confidence 8765544
No 68
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.84 E-value=1.9e-05 Score=86.58 Aligned_cols=82 Identities=17% Similarity=0.311 Sum_probs=76.1
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
.+.++|||+++.+|.+++..-|+.. |+|.++.|.+|+.+|.+||||||+|.+.+.++.|+. + ||-.+.|+.++|
T Consensus 101 ~~sv~v~nvd~~~t~~~~e~hf~~C---g~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l--~gs~i~~~~i~v 174 (231)
T KOG4209|consen 101 APSVWVGNVDFLVTLTKIELHFESC---GGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-L--DGSEIPGPAIEV 174 (231)
T ss_pred CceEEEeccccccccchhhheeecc---CCccceeeeccccCCCcceeEEEecccHhhhHHHhh-c--CCccccccccee
Confidence 4679999999999999999999985 699999999999999999999999999999999999 6 489999999999
Q ss_pred ecCCCCCC
Q 001183 83 SETHSDIV 90 (1131)
Q Consensus 83 ~~a~~~i~ 90 (1131)
......+.
T Consensus 175 t~~r~~~p 182 (231)
T KOG4209|consen 175 TLKRTNVP 182 (231)
T ss_pred eeeeeecC
Confidence 99888864
No 69
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=97.84 E-value=3.3e-05 Score=90.35 Aligned_cols=76 Identities=17% Similarity=0.191 Sum_probs=70.7
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
..+||| .+||++.|.++|+.+ |.|.+++|..|- | |=|||+|.|.++++|++|++.+| ...+.|+++++-
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~---~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n--~~~~~~~~~rim 70 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPA---GPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMN--FDVLKGKPIRIM 70 (369)
T ss_pred CceecC---CcCChHHHHHHhccc---CCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcC--CcccCCcEEEee
Confidence 468999 999999999999997 799999999999 7 99999999999999999999995 789999999999
Q ss_pred cCCCCCC
Q 001183 84 ETHSDIV 90 (1131)
Q Consensus 84 ~a~~~i~ 90 (1131)
.+.+|+.
T Consensus 71 ~s~rd~~ 77 (369)
T KOG0123|consen 71 WSQRDPS 77 (369)
T ss_pred hhccCCc
Confidence 8888763
No 70
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=97.83 E-value=2e-05 Score=81.60 Aligned_cols=82 Identities=17% Similarity=0.216 Sum_probs=71.8
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEE-EEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCcee
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVF-ALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNL 80 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~-~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L 80 (1131)
++.+++||||+..+.+.-|-+.|+.+ | ... .=+|..|..||.++|||||-|++.|++.+|+..+| |..++.|++
T Consensus 95 vganlfvgNLd~~vDe~~L~dtFsaf-G--~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~n--gq~l~nr~i 169 (203)
T KOG0131|consen 95 VGANLFVGNLDPEVDEKLLYDTFSAF-G--VLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMN--GQYLCNRPI 169 (203)
T ss_pred ccccccccccCcchhHHHHHHHHHhc-c--ccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhc--cchhcCCce
Confidence 35679999999999999999999997 4 433 34788888999999999999999999999999994 999999999
Q ss_pred EeecCCCC
Q 001183 81 KISETHSD 88 (1131)
Q Consensus 81 ~V~~a~~~ 88 (1131)
+|+-|...
T Consensus 170 tv~ya~k~ 177 (203)
T KOG0131|consen 170 TVSYAFKK 177 (203)
T ss_pred EEEEEEec
Confidence 99977653
No 71
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=97.83 E-value=3.4e-05 Score=89.95 Aligned_cols=78 Identities=19% Similarity=0.224 Sum_probs=70.0
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.-|++-||||++|++||.+||+.. +|.+ ++..|+||+..|=|||||+++|+++.|+..- ...++.|+|-|-
T Consensus 11 ~~vr~rGLPwsat~~ei~~Ff~~~----~I~~--~~~~r~~Gr~sGeA~Ve~~seedv~~Alkkd---R~~mg~RYIEVf 81 (510)
T KOG4211|consen 11 FEVRLRGLPWSATEKEILDFFSNC----GIEN--LEIPRRNGRPSGEAYVEFTSEEDVEKALKKD---RESMGHRYIEVF 81 (510)
T ss_pred eEEEecCCCccccHHHHHHHHhcC----ceeE--EEEeccCCCcCcceEEEeechHHHHHHHHhh---HHHhCCceEEEE
Confidence 358899999999999999999996 7888 7778889999999999999999999999985 688999999999
Q ss_pred cCCCCCC
Q 001183 84 ETHSDIV 90 (1131)
Q Consensus 84 ~a~~~i~ 90 (1131)
.+..+..
T Consensus 82 ~~~~~e~ 88 (510)
T KOG4211|consen 82 TAGGAEA 88 (510)
T ss_pred ccCCccc
Confidence 8866553
No 72
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=97.80 E-value=5.9e-05 Score=82.84 Aligned_cols=81 Identities=23% Similarity=0.232 Sum_probs=75.0
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.+|+|.|||+.|+++||+++|+++ |.+..+-|-.++ +|+|-|-|=|.|...++|..|+...+ +..++|+.+++.
T Consensus 84 ~~v~v~NL~~~V~~~Dl~eLF~~~---~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~--gv~ldG~~mk~~ 157 (243)
T KOG0533|consen 84 TKVNVSNLPYGVIDADLKELFAEF---GELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYN--GVALDGRPMKIE 157 (243)
T ss_pred ceeeeecCCcCcchHHHHHHHHHh---ccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhc--CcccCCceeeeE
Confidence 579999999999999999999998 688888888888 89999999999999999999999995 799999999999
Q ss_pred cCCCCCC
Q 001183 84 ETHSDIV 90 (1131)
Q Consensus 84 ~a~~~i~ 90 (1131)
....+..
T Consensus 158 ~i~~~~~ 164 (243)
T KOG0533|consen 158 IISSPSQ 164 (243)
T ss_pred EecCccc
Confidence 9888875
No 73
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.74 E-value=5.3e-05 Score=85.04 Aligned_cols=75 Identities=23% Similarity=0.360 Sum_probs=67.8
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
.+|+||||+-..+++.||++.|.+| |.+.++.+...+ |-|||+|++.++|+.|+..+- |.+.++|+.|+|
T Consensus 228 I~tLyIg~l~d~v~e~dIrdhFyqy---Geirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~-n~lvI~G~Rl~i 297 (377)
T KOG0153|consen 228 IKTLYIGGLNDEVLEQDIRDHFYQY---GEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSF-NKLVINGFRLKI 297 (377)
T ss_pred eeEEEecccccchhHHHHHHHHhhc---CCeeeEEeeccc------ccceeeehhhHHHHHHHHhhc-ceeeecceEEEE
Confidence 4799999998899999999999998 799999999754 699999999999999999886 589999999999
Q ss_pred ecCCC
Q 001183 83 SETHS 87 (1131)
Q Consensus 83 ~~a~~ 87 (1131)
.=+++
T Consensus 298 ~Wg~~ 302 (377)
T KOG0153|consen 298 KWGRP 302 (377)
T ss_pred EeCCC
Confidence 86655
No 74
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.73 E-value=6.8e-05 Score=80.32 Aligned_cols=77 Identities=18% Similarity=0.264 Sum_probs=70.8
Q ss_pred EEEEeCCCCcCCHHHHHH----HHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCcee
Q 001183 5 TVWVSNIPQTAIAKDLLL----FLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNL 80 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~----~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L 80 (1131)
||||-||......++|+. +|++| |+|..+.... |.+.||=|||.|.+.++|..|+.++ +|..|-|+++
T Consensus 11 TlYInnLnekI~~~elkrsL~~LFsqf---G~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l--~gfpFygK~m 82 (221)
T KOG4206|consen 11 TLYINNLNEKIKKDELKRSLYLLFSQF---GKILDISAFK---TPKMRGQAFVVFKETEAASAALRAL--QGFPFYGKPM 82 (221)
T ss_pred eEeehhccccccHHHHHHHHHHHHHhh---CCeEEEEecC---CCCccCceEEEecChhHHHHHHHHh--cCCcccCchh
Confidence 899999999999999999 99998 7998887764 6789999999999999999999999 4999999999
Q ss_pred EeecCCCCC
Q 001183 81 KISETHSDI 89 (1131)
Q Consensus 81 ~V~~a~~~i 89 (1131)
++--|..+-
T Consensus 83 riqyA~s~s 91 (221)
T KOG4206|consen 83 RIQYAKSDS 91 (221)
T ss_pred heecccCcc
Confidence 999888765
No 75
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=97.73 E-value=5e-05 Score=89.38 Aligned_cols=82 Identities=18% Similarity=0.198 Sum_probs=71.4
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
..+|||.|||..++.++|+++|..+ |.|...+|..-...+.+-.||||+|++.++++.|+.+. -+.++|+.|.|
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~F---G~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As---p~~ig~~kl~V 361 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQF---GPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS---PLEIGGRKLNV 361 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhc---ccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC---ccccCCeeEEE
Confidence 4569999999999999999999998 79999888775444555599999999999999999998 79999999999
Q ss_pred ecCCCCCC
Q 001183 83 SETHSDIV 90 (1131)
Q Consensus 83 ~~a~~~i~ 90 (1131)
.|-...-.
T Consensus 362 eek~~~~~ 369 (419)
T KOG0116|consen 362 EEKRPGFR 369 (419)
T ss_pred Eecccccc
Confidence 99766553
No 76
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.64 E-value=2.1e-05 Score=83.38 Aligned_cols=76 Identities=13% Similarity=0.099 Sum_probs=68.6
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
|-.||+|+|+...|+++-|.++|-+. |.|..|.|..++ .+..+ ||||.|+++-+...|++++ ||..+-++.++
T Consensus 8 ~drtl~v~n~~~~v~eelL~Elfiqa---GPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~--ng~~l~~~e~q 80 (267)
T KOG4454|consen 8 MDRTLLVQNMYSGVSEELLSELFIQA---GPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLE--NGDDLEEDEEQ 80 (267)
T ss_pred hhhHHHHHhhhhhhhHHHHHHHhhcc---CceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhc--ccchhccchhh
Confidence 56799999999999999999999996 799999999988 55565 9999999999999999999 48888899888
Q ss_pred eec
Q 001183 82 ISE 84 (1131)
Q Consensus 82 V~~ 84 (1131)
+..
T Consensus 81 ~~~ 83 (267)
T KOG4454|consen 81 RTL 83 (267)
T ss_pred ccc
Confidence 875
No 77
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=97.53 E-value=0.00012 Score=84.17 Aligned_cols=80 Identities=18% Similarity=0.245 Sum_probs=75.3
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+++++++++|.+.-+.||-.-|..+ |.|.+++|..|+.||-|+-||||..++..+|..||.++| |.-++++.|||
T Consensus 424 GanlfiyhlPqefgdq~l~~~f~pf---G~Vlsakvfidk~tnlskcfgfvSyen~~sa~~aI~amn--gfQig~KrlkV 498 (510)
T KOG0144|consen 424 GANLFIYHLPQEFGDQDLIATFQPF---GGVLSAKVFIDKVTNLSKCFGFVSYENAQSAQNAISAMN--GFQIGSKRLKV 498 (510)
T ss_pred ccceeeeeCchhhhhHHHHHHhccc---cceeEEEEEEecccCHhhhcCcccccchhhhHHHHHHhc--chhhccccceE
Confidence 5789999999999999999999998 799999999999999999999999999999999999994 99999999999
Q ss_pred ecCCC
Q 001183 83 SETHS 87 (1131)
Q Consensus 83 ~~a~~ 87 (1131)
-...+
T Consensus 499 Qlk~~ 503 (510)
T KOG0144|consen 499 QLKRD 503 (510)
T ss_pred Eeeec
Confidence 76544
No 78
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=0.00017 Score=80.97 Aligned_cols=76 Identities=13% Similarity=0.215 Sum_probs=68.5
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.-++|--|...+|.+||.-.|+.+ |+|.+|+||.|+.||-|--||||||++.++.++|--.|. ...++.|.|-|.
T Consensus 240 NVLFVCKLNPVTtDeDLeiIFSrF---G~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMd--NvLIDDrRIHVD 314 (479)
T KOG0415|consen 240 NVLFVCKLNPVTTDEDLEIIFSRF---GKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMD--NVLIDDRRIHVD 314 (479)
T ss_pred ceEEEEecCCcccccchhhHHhhc---ccceeeeEEecccccchhheeeeeecchhhHHHHHhhhc--ceeeccceEEee
Confidence 358999999999999999999998 899999999999999999999999999999999999994 577777766664
Q ss_pred c
Q 001183 84 E 84 (1131)
Q Consensus 84 ~ 84 (1131)
-
T Consensus 315 F 315 (479)
T KOG0415|consen 315 F 315 (479)
T ss_pred h
Confidence 3
No 79
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.45 E-value=0.00012 Score=88.58 Aligned_cols=81 Identities=17% Similarity=0.182 Sum_probs=73.4
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
+.|-|-|+|+.++-.+++.+|..+ |.|.+|+|..-...+.+||||||+|-++.+|..|++++. ..-+-||.|..-
T Consensus 614 tKIlVRNipFeAt~rEVr~LF~aF---GqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~--STHlyGRrLVLE 688 (725)
T KOG0110|consen 614 TKILVRNIPFEATKREVRKLFTAF---GQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALG--STHLYGRRLVLE 688 (725)
T ss_pred ceeeeeccchHHHHHHHHHHHhcc---cceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhc--ccceechhhhee
Confidence 578899999999999999999998 799999998875567789999999999999999999995 688889999998
Q ss_pred cCCCCC
Q 001183 84 ETHSDI 89 (1131)
Q Consensus 84 ~a~~~i 89 (1131)
-|..|-
T Consensus 689 wA~~d~ 694 (725)
T KOG0110|consen 689 WAKSDN 694 (725)
T ss_pred hhccch
Confidence 888776
No 80
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=97.33 E-value=0.00019 Score=77.87 Aligned_cols=76 Identities=17% Similarity=0.193 Sum_probs=70.5
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeec
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISE 84 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~ 84 (1131)
.|+.|-+...++.+-|..-|..+ =+-..++|+.|+.||+|+|||||-|-+++++..|+..+ ||...|.|+++.+.
T Consensus 192 RIfcgdlgNevnd~vl~raf~Kf---psf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem--~gkyVgsrpiklRk 266 (290)
T KOG0226|consen 192 RIFCGDLGNEVNDDVLARAFKKF---PSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREM--NGKYVGSRPIKLRK 266 (290)
T ss_pred eeecccccccccHHHHHHHHHhc---cchhhccccccccccccccceeeeecCHHHHHHHHHhh--cccccccchhHhhh
Confidence 68999999999999999999998 57889999999999999999999999999999999999 59999999998764
Q ss_pred C
Q 001183 85 T 85 (1131)
Q Consensus 85 a 85 (1131)
+
T Consensus 267 S 267 (290)
T KOG0226|consen 267 S 267 (290)
T ss_pred h
Confidence 3
No 81
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.14 E-value=0.00035 Score=75.48 Aligned_cols=70 Identities=16% Similarity=0.231 Sum_probs=61.1
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
..+|||+||+.+.++||..||..+ |.+..|.++. |||||+|++.-+|.-|+.-++ +.+|+|-.+.|.
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~y---g~~~d~~mk~--------gf~fv~fed~rda~Dav~~l~--~~~l~~e~~vve 68 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGY---GKIPDADMKN--------GFGFVEFEDPRDADDAVHDLD--GKELCGERLVVE 68 (216)
T ss_pred CceeecccCCccchhHHHHHHhhc---cccccceeec--------ccceeccCchhhhhcccchhc--Cceecceeeeee
Confidence 468999999999999999999998 7888888764 899999999999999999994 888888886555
Q ss_pred cCC
Q 001183 84 ETH 86 (1131)
Q Consensus 84 ~a~ 86 (1131)
-+.
T Consensus 69 ~~r 71 (216)
T KOG0106|consen 69 HAR 71 (216)
T ss_pred ccc
Confidence 444
No 82
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.10 E-value=0.0021 Score=68.71 Aligned_cols=83 Identities=18% Similarity=0.242 Sum_probs=67.9
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEee-cCCCCCccceEEEEeCChHHHHHHHHhhcCCCceec---Cc
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIIT-DRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFN---SQ 78 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~-dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~---gr 78 (1131)
.+|++|+|||-++...||-.+|-.+-| -..+-|+. ++..---+++|||.|.+...|.+|+.++| |..|+ |+
T Consensus 34 VRTLFVSGLP~DvKpREiynLFR~f~G---YEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLN--GvrFDpE~~s 108 (284)
T KOG1457|consen 34 VRTLFVSGLPNDVKPREIYNLFRRFHG---YEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALN--GVRFDPETGS 108 (284)
T ss_pred cceeeeccCCcccCHHHHHHHhccCCC---ccceeeeeccCCCccccceEEEEecchHHHHHHHHHhc--CeeeccccCc
Confidence 479999999999999999999999855 44455554 33222234999999999999999999994 99887 78
Q ss_pred eeEeecCCCCCC
Q 001183 79 NLKISETHSDIV 90 (1131)
Q Consensus 79 ~L~V~~a~~~i~ 90 (1131)
.|.+..|+.+.-
T Consensus 109 tLhiElAKSNtK 120 (284)
T KOG1457|consen 109 TLHIELAKSNTK 120 (284)
T ss_pred eeEeeehhcCcc
Confidence 999999988884
No 83
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=96.91 E-value=0.0015 Score=75.22 Aligned_cols=70 Identities=23% Similarity=0.273 Sum_probs=64.8
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.+|.|-|+|.+.|=+-|++-|.++ |.|.-+.| +. +|+|+| .|-|.+++.|+.|+.++ |+..++||.|+|.
T Consensus 537 ~qIiirNlP~dfTWqmlrDKfre~---G~v~yadi-me--~GkskG--VVrF~s~edAEra~a~M--ngs~l~Gr~I~V~ 606 (608)
T KOG4212|consen 537 CQIIIRNLPFDFTWQMLRDKFREI---GHVLYADI-ME--NGKSKG--VVRFFSPEDAERACALM--NGSRLDGRNIKVT 606 (608)
T ss_pred cEEEEecCCccccHHHHHHHHHhc---cceehhhh-hc--cCCccc--eEEecCHHHHHHHHHHh--ccCcccCceeeee
Confidence 479999999999999999999997 79999999 43 599999 89999999999999999 4999999999996
No 84
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=96.87 E-value=0.00044 Score=81.87 Aligned_cols=75 Identities=24% Similarity=0.279 Sum_probs=66.7
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeec
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISE 84 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~ 84 (1131)
|+++.-++..+++.||.+||+.. |+|..|+||+|+.+++|+|-|+|+|-+.+....||.+. |..++|-+|.|..
T Consensus 181 tvf~~qla~r~~pRdL~efFs~~---gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaLs---Gqrllg~pv~vq~ 254 (549)
T KOG0147|consen 181 TVFCMQLARRNPPRDLEEFFSIV---GKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIALS---GQRLLGVPVIVQL 254 (549)
T ss_pred HHHHHHHhhcCCchhHHHHHHhh---cCcceeEeeccccchhhcceeEEEEecccchhhHhhhc---CCcccCceeEecc
Confidence 45555667788899999999996 79999999999999999999999999999999999776 8999999999865
Q ss_pred C
Q 001183 85 T 85 (1131)
Q Consensus 85 a 85 (1131)
.
T Consensus 255 s 255 (549)
T KOG0147|consen 255 S 255 (549)
T ss_pred c
Confidence 3
No 85
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=96.76 E-value=0.002 Score=70.23 Aligned_cols=98 Identities=14% Similarity=0.168 Sum_probs=77.3
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCC-ceecCceeEe
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDK-LVFNSQNLKI 82 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~-~~~~gr~L~V 82 (1131)
++++||=|...-+|+|++.+|..+ |.+..|-|.... .|.|||-|||-|.+..+|+.||+++.... ..=.++.|.|
T Consensus 20 rklfvgml~kqq~e~dvrrlf~pf---G~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVV 95 (371)
T KOG0146|consen 20 RKLFVGMLNKQQSEDDVRRLFQPF---GNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVV 95 (371)
T ss_pred hhhhhhhhcccccHHHHHHHhccc---CCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEE
Confidence 578999999999999999999998 799999999876 78999999999999999999999996211 1234578999
Q ss_pred ecCCCCCCCCCCCCcceecCeEEEEee
Q 001183 83 SETHSDIVPRPVKAQHRVEDGVLHVGV 109 (1131)
Q Consensus 83 ~~a~~~i~~~~~~~~~~~~~~~~~~g~ 109 (1131)
.-|+++--+ ..-||.-..-++|.
T Consensus 96 K~ADTdkER----~lRRMQQma~qlGm 118 (371)
T KOG0146|consen 96 KFADTDKER----TLRRMQQMAGQLGM 118 (371)
T ss_pred EeccchHHH----HHHHHHHHHHHhcc
Confidence 999887631 12344444444553
No 86
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=96.75 E-value=0.0061 Score=58.33 Aligned_cols=65 Identities=23% Similarity=0.174 Sum_probs=60.9
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhc
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSL 69 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~ 69 (1131)
+||-+-|||...|.++|.+.+++.+ +|+..=+.+..|-.++.++|||||-|.++++|..-.+..+
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~-~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~ 66 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHF-KGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFN 66 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhc-cCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHc
Confidence 6899999999999999999999985 4899999999999999999999999999999999999885
No 87
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=96.70 E-value=0.0013 Score=78.87 Aligned_cols=81 Identities=12% Similarity=0.228 Sum_probs=76.6
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeec
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISE 84 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~ 84 (1131)
.|+|||+|...++.+++++++.+ |...+.+++.|..||.|+||||-++.++.-...|++.+ ||..++++.|.|..
T Consensus 291 ki~v~~lp~~l~~~q~~Ell~~f---g~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agL--nGm~lgd~~lvvq~ 365 (500)
T KOG0120|consen 291 KIFVGGLPLYLTEDQVKELLDSF---GPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGL--NGMQLGDKKLVVQR 365 (500)
T ss_pred hhhhccCcCccCHHHHHHHHHhc---ccchhheeecccccccccceeeeeeeCCcchhhhhccc--chhhhcCceeEeeh
Confidence 58999999999999999999998 79999999999999999999999999999999999999 59999999999999
Q ss_pred CCCCCC
Q 001183 85 THSDIV 90 (1131)
Q Consensus 85 a~~~i~ 90 (1131)
|-.+-.
T Consensus 366 A~~g~~ 371 (500)
T KOG0120|consen 366 AIVGAS 371 (500)
T ss_pred hhccch
Confidence 877663
No 88
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=96.53 E-value=0.004 Score=75.60 Aligned_cols=84 Identities=14% Similarity=0.151 Sum_probs=74.9
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCC---CCCccceEEEEeCChHHHHHHHHhhcCCCceecCc
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRS---NWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQ 78 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~---tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr 78 (1131)
|++++||||++.+++++.|..-|..| |.|.+++|.-+|. ..+.|--|||-|-+.++|++|+..++ |..+.++
T Consensus 173 ~TTNlyv~Nlnpsv~E~~ll~tfGrf---gPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lq--g~iv~~~ 247 (877)
T KOG0151|consen 173 QTTNLYVGNLNPSVDENFLLRTFGRF---GPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQ--GIIVMEY 247 (877)
T ss_pred cccceeeecCCccccHHHHHHHhccc---CcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhc--ceeeeee
Confidence 68899999999999999999999998 7999999998773 56778899999999999999999994 8999999
Q ss_pred eeEeecCCCCCC
Q 001183 79 NLKISETHSDIV 90 (1131)
Q Consensus 79 ~L~V~~a~~~i~ 90 (1131)
.+|.-=+++-++
T Consensus 248 e~K~gWgk~V~i 259 (877)
T KOG0151|consen 248 EMKLGWGKAVPI 259 (877)
T ss_pred eeeecccccccc
Confidence 999877765554
No 89
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.52 E-value=0.0062 Score=72.12 Aligned_cols=87 Identities=29% Similarity=0.368 Sum_probs=71.9
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
.+||+|||+|--++|+||...||..+| -|.=|-|-||.+=.+++|=|.|.|.+..+=-+||++ |.|.+
T Consensus 370 rrTVFVGgvprpl~A~eLA~imd~lyG--gV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa----------rFvql 437 (520)
T KOG0129|consen 370 RRTVFVGGLPRPLTAEELAMIMEDLFG--GVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA----------RFVQL 437 (520)
T ss_pred cceEEecCCCCcchHHHHHHHHHHhcC--ceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh----------heEEE
Confidence 479999999999999999999998886 888899999988999999999999999988889887 45555
Q ss_pred ecCCCCCCCCCCCCcceecCe
Q 001183 83 SETHSDIVPRPVKAQHRVEDG 103 (1131)
Q Consensus 83 ~~a~~~i~~~~~~~~~~~~~~ 103 (1131)
.-. ||--|=-..||-|+|.
T Consensus 438 ~h~--d~~KRVEIkPYv~eDq 456 (520)
T KOG0129|consen 438 DHT--DIDKRVEIKPYVMEDQ 456 (520)
T ss_pred ecc--ccceeeeecceecccc
Confidence 433 3333445667888775
No 90
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.49 E-value=0.0075 Score=68.29 Aligned_cols=80 Identities=14% Similarity=0.210 Sum_probs=68.4
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceE--------EEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCce
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSV--------FALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLV 74 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V--------~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~ 74 (1131)
.+.|||+|||.++|-+|..++|+.. | -| ..|++-.+. .|..+|=|.+.+--.|+...|+..+ ++..
T Consensus 134 Nt~VYVsgLP~DiT~dE~~~~~sKc-G--iI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~il--De~~ 207 (382)
T KOG1548|consen 134 NTSVYVSGLPLDITVDEFAEVMSKC-G--IIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKIL--DEDE 207 (382)
T ss_pred CceEEecCCCCcccHHHHHHHHHhc-c--eEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHh--Cccc
Confidence 3569999999999999999999984 5 33 346776666 4889999999999999999999999 5899
Q ss_pred ecCceeEeecCCCC
Q 001183 75 FNSQNLKISETHSD 88 (1131)
Q Consensus 75 ~~gr~L~V~~a~~~ 88 (1131)
|+|+.|+|..|.-.
T Consensus 208 ~rg~~~rVerAkfq 221 (382)
T KOG1548|consen 208 LRGKKLRVERAKFQ 221 (382)
T ss_pred ccCcEEEEehhhhh
Confidence 99999999988643
No 91
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=96.40 E-value=0.0029 Score=75.36 Aligned_cols=69 Identities=20% Similarity=0.213 Sum_probs=62.6
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
..+|.|-|+|.+|+.++|...|+.| |+|.. .++|-..||+.||||=+-..|++|+.+++ +.++.|+.|+
T Consensus 75 ~~~L~v~nl~~~Vsn~~L~~~f~~y---Geir~-----ir~t~~~~~~~~v~FyDvR~A~~Alk~l~--~~~~~~~~~k 143 (549)
T KOG4660|consen 75 QGTLVVFNLPRSVSNDTLLRIFGAY---GEIRE-----IRETPNKRGIVFVEFYDVRDAERALKALN--RREIAGKRIK 143 (549)
T ss_pred cceEEEEecCCcCCHHHHHHHHHhh---cchhh-----hhcccccCceEEEEEeehHhHHHHHHHHH--HHHhhhhhhc
Confidence 4589999999999999999999997 56655 56778899999999999999999999994 8999999999
No 92
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=96.38 E-value=0.0021 Score=72.89 Aligned_cols=80 Identities=20% Similarity=0.251 Sum_probs=70.3
Q ss_pred cEEE-EeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 4 ATVW-VSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 4 ~ti~-Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
-+++ |+|++..++.++|+.+|... |.|..+++.+++.+|.++|||+|.|.+...+..++.. + .-..+|+++.+
T Consensus 185 ~~~~~~~~~~f~~~~d~~~~~~~~~---~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~--~~~~~~~~~~~ 258 (285)
T KOG4210|consen 185 DTIFFVGELDFSLTRDDLKEHFVSS---GEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-Q--TRSIGGRPLRL 258 (285)
T ss_pred ccceeecccccccchHHHhhhccCc---CcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-c--cCcccCccccc
Confidence 3667 99999999999999888775 7999999999999999999999999998888777776 3 67889999999
Q ss_pred ecCCCCC
Q 001183 83 SETHSDI 89 (1131)
Q Consensus 83 ~~a~~~i 89 (1131)
.+.++..
T Consensus 259 ~~~~~~~ 265 (285)
T KOG4210|consen 259 EEDEPRP 265 (285)
T ss_pred ccCCCCc
Confidence 9888754
No 93
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=96.12 E-value=0.032 Score=51.82 Aligned_cols=71 Identities=17% Similarity=0.272 Sum_probs=47.0
Q ss_pred ccEEEEeCCCCcCCHHHHHH----HHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCc
Q 001183 3 LATVWVSNIPQTAIAKDLLL----FLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQ 78 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~----~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr 78 (1131)
-+.++|.|||.......++. +.+. +| |.|-.+- .|-|+|-|.+.+.|++|..-++ |-+.-|+
T Consensus 2 ~s~L~V~NLP~~~d~~~I~~RL~qLsdN-CG-GkVl~v~----------~~tAilrF~~~~~A~RA~KRme--gEdVfG~ 67 (90)
T PF11608_consen 2 HSLLYVSNLPTNKDPSSIKNRLRQLSDN-CG-GKVLSVS----------GGTAILRFPNQEFAERAQKRME--GEDVFGN 67 (90)
T ss_dssp SEEEEEES--TTS-HHHHHHHHHHHHHT-TT---EEE------------TT-EEEEESSHHHHHHHHHHHT--T--SSSS
T ss_pred ccEEEEecCCCCCCHHHHHHHHHHHhhc-cC-CEEEEEe----------CCEEEEEeCCHHHHHHHHHhhc--ccccccc
Confidence 35699999999988877654 4445 78 9998762 3789999999999999999995 7777788
Q ss_pred eeEeecCCC
Q 001183 79 NLKISETHS 87 (1131)
Q Consensus 79 ~L~V~~a~~ 87 (1131)
.|.|+..+.
T Consensus 68 kI~v~~~~~ 76 (90)
T PF11608_consen 68 KISVSFSPK 76 (90)
T ss_dssp --EEESS--
T ss_pred eEEEEEcCC
Confidence 899988754
No 94
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=96.12 E-value=0.0054 Score=69.92 Aligned_cols=81 Identities=19% Similarity=0.224 Sum_probs=71.5
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEE--------EEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCcee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVF--------ALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVF 75 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~--------~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~ 75 (1131)
-||||-++|-++++.++.+||-+. | .|- .+.|-+|++|++++|=|.|.++++-+|++||.-. ++..|
T Consensus 67 ~ti~v~g~~d~~~~~~~~~~f~qc-g--~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~--agkdf 141 (351)
T KOG1995|consen 67 ETIFVWGCPDSVCENDNADFFLQC-G--VIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWF--AGKDF 141 (351)
T ss_pred ccceeeccCccchHHHHHHHHhhc-c--eeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhh--ccccc
Confidence 489999999999999999999994 4 443 4566679999999999999999999999999998 48999
Q ss_pred cCceeEeecCCCCC
Q 001183 76 NSQNLKISETHSDI 89 (1131)
Q Consensus 76 ~gr~L~V~~a~~~i 89 (1131)
.|..|+|+.|....
T Consensus 142 ~gn~ikvs~a~~r~ 155 (351)
T KOG1995|consen 142 CGNTIKVSLAERRT 155 (351)
T ss_pred cCCCchhhhhhhcc
Confidence 99999999988744
No 95
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.04 E-value=0.011 Score=69.57 Aligned_cols=79 Identities=16% Similarity=0.204 Sum_probs=62.6
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEE-EEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFA-LEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~-~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.|++-|||+++|++|+.+||+-. --|.. +-+..|+ .|++-|=|||||++.+.|+.|+..- ...++.|++-|-
T Consensus 105 vVRLRGLPfscte~dI~~FFaGL---~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~rh---re~iGhRYIEvF 177 (510)
T KOG4211|consen 105 VVRLRGLPFSCTEEDIVEFFAGL---EIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGRH---RENIGHRYIEVF 177 (510)
T ss_pred eEEecCCCccCcHHHHHHHhcCC---cccccceeeeccC-CCCcccceEEEecCHHHHHHHHHHH---HHhhccceEEee
Confidence 58899999999999999999986 23333 2233344 5778899999999999999999876 578999999987
Q ss_pred cCCCCCC
Q 001183 84 ETHSDIV 90 (1131)
Q Consensus 84 ~a~~~i~ 90 (1131)
.+...-+
T Consensus 178 ~Ss~~e~ 184 (510)
T KOG4211|consen 178 RSSRAEV 184 (510)
T ss_pred hhHHHHH
Confidence 7654443
No 96
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=95.53 E-value=0.0096 Score=67.06 Aligned_cols=77 Identities=18% Similarity=0.205 Sum_probs=66.7
Q ss_pred EEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeecC
Q 001183 6 VWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISET 85 (1131)
Q Consensus 6 i~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a 85 (1131)
+|||||-|-+|++||.+.+.+ +|-..+..+|....|.+|.|+|||.|-..++++.++-++++- ...+.|+.=.|-.-
T Consensus 83 ~YvGNL~W~TTD~DL~~A~~S-~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP--~k~iHGQ~P~V~~~ 159 (498)
T KOG4849|consen 83 CYVGNLLWYTTDADLLKALQS-TGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILP--TKTIHGQSPTVLSY 159 (498)
T ss_pred EEecceeEEeccHHHHHHHHh-hhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcc--cceecCCCCeeecc
Confidence 799999999999999999998 575566777778899999999999999999999999999994 67788887666543
No 97
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=94.56 E-value=0.064 Score=62.06 Aligned_cols=78 Identities=24% Similarity=0.258 Sum_probs=62.1
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+.|+..+|+|.+++++||++.|.+. | |.|.+-+- -++.|-.|.+||++.|+|..|+-.+. |...=.+.-|+|
T Consensus 414 satlHlsnip~svsee~lk~~f~~~-g-~~vkafkf-----f~kd~kmal~q~~sveeA~~ali~~h-nh~lgen~hlRv 485 (492)
T KOG1190|consen 414 SATLHLSNIPPSVSEEDLKNLFQEP-G-GQVKAFKF-----FQKDRKMALPQLESVEEAIQALIDLH-NHYLGENHHLRV 485 (492)
T ss_pred hhheeeccCCcccchhHHHHhhhcC-C-ceEEeeee-----cCCCcceeecccCChhHhhhhccccc-cccCCCCceEEE
Confidence 4689999999999999999999995 6 56655544 36788999999999999999988884 334444558999
Q ss_pred ecCCCC
Q 001183 83 SETHSD 88 (1131)
Q Consensus 83 ~~a~~~ 88 (1131)
+-++-.
T Consensus 486 SFSks~ 491 (492)
T KOG1190|consen 486 SFSKST 491 (492)
T ss_pred Eeeccc
Confidence 877654
No 98
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=94.13 E-value=0.063 Score=61.58 Aligned_cols=74 Identities=16% Similarity=0.146 Sum_probs=56.7
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhcc--CCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKL--GKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~--G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
-|+.-|||++.++.|+.+||...+ +-|++--+-| .|.+||..|=|||.|+.++.|+.|+..- +..+|-|++-+
T Consensus 163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV--~rpdgrpTGdAFvlfa~ee~aq~aL~kh---rq~iGqRYIEl 237 (508)
T KOG1365|consen 163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFV--TRPDGRPTGDAFVLFACEEDAQFALRKH---RQNIGQRYIEL 237 (508)
T ss_pred EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEE--ECCCCCcccceEEEecCHHHHHHHHHHH---HHHHhHHHHHH
Confidence 478899999999999999996332 4244443333 3447999999999999999999998875 56777788765
Q ss_pred e
Q 001183 83 S 83 (1131)
Q Consensus 83 ~ 83 (1131)
-
T Consensus 238 F 238 (508)
T KOG1365|consen 238 F 238 (508)
T ss_pred H
Confidence 3
No 99
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=93.95 E-value=0.25 Score=57.39 Aligned_cols=77 Identities=13% Similarity=0.157 Sum_probs=67.2
Q ss_pred cEEEEeCC-CCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 4 ATVWVSNI-PQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 4 ~ti~Vgnl-~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
..|-|+|+ ++.+|.+-|-.+|.-| |.|.+++|.-.+ +-.|-|||.+...|+.|++.++ |..+-|+.|+|
T Consensus 298 ~vllvsnln~~~VT~d~LftlFgvY---GdVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~--g~~l~gk~lrv 367 (492)
T KOG1190|consen 298 VVLLVSNLNEEAVTPDVLFTLFGVY---GDVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLE--GHKLYGKKLRV 367 (492)
T ss_pred eEEEEecCchhccchhHHHHHHhhh---cceEEEEeeecC-----CcceeeeecchhHHHHHHHHhh--cceecCceEEE
Confidence 35677777 5678999999999998 799999999755 3789999999999999999994 88888899999
Q ss_pred ecCCCCCC
Q 001183 83 SETHSDIV 90 (1131)
Q Consensus 83 ~~a~~~i~ 90 (1131)
+.++..-+
T Consensus 368 t~SKH~~v 375 (492)
T KOG1190|consen 368 TLSKHTNV 375 (492)
T ss_pred eeccCccc
Confidence 99988775
No 100
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=93.71 E-value=0.074 Score=60.99 Aligned_cols=79 Identities=15% Similarity=0.197 Sum_probs=59.7
Q ss_pred EEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeecC
Q 001183 6 VWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISET 85 (1131)
Q Consensus 6 i~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a 85 (1131)
|++-||||+++-+|+.+||..+.-.=.-..|.+.... -|++-|=|||||.++|.|.+|+..-. .....+|++-|-++
T Consensus 283 vRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~h--k~~mk~RYiEvfp~ 359 (508)
T KOG1365|consen 283 VRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCH--KKLMKSRYIEVFPC 359 (508)
T ss_pred eEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHH--HhhcccceEEEeec
Confidence 8899999999999999999988531111225555544 47788999999999999999888763 23345999988765
Q ss_pred CC
Q 001183 86 HS 87 (1131)
Q Consensus 86 ~~ 87 (1131)
..
T Consensus 360 S~ 361 (508)
T KOG1365|consen 360 SV 361 (508)
T ss_pred cH
Confidence 44
No 101
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=93.33 E-value=0.046 Score=59.41 Aligned_cols=65 Identities=17% Similarity=0.206 Sum_probs=56.0
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
.+.|-|++..+...+|++.|+.+ |.+....+ .+++|||+|++.++|..|++++ ++..+.|+.|++
T Consensus 101 r~~~~~~~~r~~~qdl~d~~~~~---g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l--~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 101 RLIVRNLSLRVSWQDLKDHFRPA---GEVTYVDA--------RRNFAFVEFSEQEDAKRALEKL--DGKKLNGRRISV 165 (216)
T ss_pred eeeeccchhhhhHHHHhhhhccc---CCCchhhh--------hccccceeehhhhhhhhcchhc--cchhhcCceeee
Confidence 46788999999999999999997 56622222 6799999999999999999999 489999999999
No 102
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=92.94 E-value=0.22 Score=42.47 Aligned_cols=52 Identities=17% Similarity=0.168 Sum_probs=42.0
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHH
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQ 65 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai 65 (1131)
+.|.|.|+|.+.. +++..+|.++ |.|...++- ......+|.|.++.+|++|+
T Consensus 2 ~wI~V~Gf~~~~~-~~vl~~F~~f---GeI~~~~~~------~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLA-EEVLEHFASF---GEIVDIYVP------ESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHH-HHHHHHHHhc---CCEEEEEcC------CCCcEEEEEECCHHHHHhhC
Confidence 6799999997766 4555688886 699987776 34578999999999999984
No 103
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=92.82 E-value=0.28 Score=47.73 Aligned_cols=70 Identities=14% Similarity=0.155 Sum_probs=41.4
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCC---CceecCcee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLND---KLVFNSQNL 80 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~---~~~~~gr~L 80 (1131)
.-|.+.|++..++-++|++.|+++ |.|.=|.... .-.-|+|-|.++++|+.|++.+... ++.+.+..+
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~---g~V~yVD~~~------G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~ 72 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQF---GEVAYVDFSR------GDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEV 72 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS-----EEEEE--T------T-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSE
T ss_pred eEEEEecCCCCcCHHHHHHHHHhc---CCcceEEecC------CCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceE
Confidence 357899999999999999999997 6777655542 2357899999999999999988643 344444444
Q ss_pred Ee
Q 001183 81 KI 82 (1131)
Q Consensus 81 ~V 82 (1131)
++
T Consensus 73 ~~ 74 (105)
T PF08777_consen 73 TL 74 (105)
T ss_dssp EE
T ss_pred EE
Confidence 43
No 104
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.61 E-value=0.4 Score=54.39 Aligned_cols=76 Identities=11% Similarity=0.230 Sum_probs=60.0
Q ss_pred EEEeCCCCcCCHHHH------HHHHhhccCCceEEEEEEeecCCC--CCcc-ceE--EEEeCChHHHHHHHHhhcCCCce
Q 001183 6 VWVSNIPQTAIAKDL------LLFLESKLGKNSVFALEIITDRSN--WKSR-GIG--RVQFTSLDFKSKAQNLSLNDKLV 74 (1131)
Q Consensus 6 i~Vgnl~~~~t~~~L------~~~fe~~~G~G~V~~~~i~~dr~t--g~sR-gfg--fV~f~~~e~A~~Ai~~~~~~~~~ 74 (1131)
+||-|||..+-.+++ .+||.+| |.+..+-| .|.| ..|- +|+ ++.|.+.|+|.++|.+. +|..
T Consensus 117 vYVigi~pkva~Ee~~~vLk~~eyFGQy---GkI~KIvv--Nkkt~s~nst~~h~gvYITy~~kedAarcIa~v--Dgs~ 189 (480)
T COG5175 117 VYVIGIPPKVADEEVAPVLKRHEYFGQY---GKIKKIVV--NKKTSSLNSTASHAGVYITYSTKEDAARCIAEV--DGSL 189 (480)
T ss_pred eEEecCCCCCCcccccccccchhhhhhc---cceeEEEe--cccccccccccccceEEEEecchHHHHHHHHHh--cccc
Confidence 899999999998883 4799997 68765544 3333 2232 667 99999999999999999 5999
Q ss_pred ecCceeEeecCCCC
Q 001183 75 FNSQNLKISETHSD 88 (1131)
Q Consensus 75 ~~gr~L~V~~a~~~ 88 (1131)
++||.||..-.-..
T Consensus 190 ~DGr~lkatYGTTK 203 (480)
T COG5175 190 LDGRVLKATYGTTK 203 (480)
T ss_pred ccCceEeeecCchH
Confidence 99999999865543
No 105
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=91.38 E-value=0.19 Score=54.31 Aligned_cols=59 Identities=19% Similarity=0.268 Sum_probs=46.8
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhc
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSL 69 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~ 69 (1131)
.|++|.||...+|+++|+.+|+.|-| -..+||.. | | .-.-|||+|++-|.|..|+.-+.
T Consensus 211 stlfianl~~~~~ed~l~~~~~~~~g---f~~l~~~~-~--~-g~~vaf~~~~~~~~at~am~~lq 269 (284)
T KOG1457|consen 211 STLFIANLGPNCTEDELKQLLSRYPG---FHILKIRA-R--G-GMPVAFADFEEIEQATDAMNHLQ 269 (284)
T ss_pred hhHhhhccCCCCCHHHHHHHHHhCCC---ceEEEEec-C--C-CcceEeecHHHHHHHHHHHHHhh
Confidence 48999999999999999999999966 34444432 2 2 33789999999988888888774
No 106
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=90.91 E-value=0.36 Score=59.24 Aligned_cols=71 Identities=18% Similarity=0.262 Sum_probs=57.6
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhcc-CCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCcee
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKL-GKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNL 80 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~-G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L 80 (1131)
|+--|++-|||+++.+.|++.||+... =.| .|.|| |.--|=|||-|.+.|+|..|+-.. ++-+.|...
T Consensus 1 MsVIIRLqnLP~tAga~DIR~FFSGL~IPdG---gVHII-----GGe~GeaFI~FsTDeDARlaM~kd---r~~i~g~~V 69 (944)
T KOG4307|consen 1 MSVIIRLQNLPMTAGASDIRTFFSGLKIPDG---GVHII-----GGEEGEAFIGFSTDEDARLAMTKD---RLMIHGAEV 69 (944)
T ss_pred CceEEEecCCcccccchHHHHhhcccccCCC---ceEEe-----cccccceEEEecccchhhhhhhhc---ccceecceE
Confidence 677899999999999999999999763 112 35677 667799999999999999999876 677777666
Q ss_pred Eee
Q 001183 81 KIS 83 (1131)
Q Consensus 81 ~V~ 83 (1131)
+.-
T Consensus 70 rLl 72 (944)
T KOG4307|consen 70 RLL 72 (944)
T ss_pred EEE
Confidence 553
No 107
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=90.50 E-value=0.45 Score=58.39 Aligned_cols=73 Identities=16% Similarity=0.139 Sum_probs=59.4
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecC-CCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDR-SNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr-~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
-|.+-|+|++|+=+|+.+||..| .+..=.|+.-+ +.|...|=+.|-|++.++|.+|..-+ ++..+..|.+++.
T Consensus 869 V~~~~n~Pf~v~l~dI~~FF~dY----~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl--~~~~i~nr~V~l~ 942 (944)
T KOG4307|consen 869 VLSCNNFPFDVTLEDIVEFFNDY----EPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDL--DGQKIRNRVVSLR 942 (944)
T ss_pred EEEecCCCccccHHHHHHHhccc----ccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhcc--ccCcccceeEEEE
Confidence 58899999999999999999998 55443333322 25888999999999999999999888 4788888887764
No 108
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=90.22 E-value=0.19 Score=55.28 Aligned_cols=70 Identities=19% Similarity=0.164 Sum_probs=58.6
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCC--------CCcc----ceEEEEeCChHHHHHHHHhhcCCC
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSN--------WKSR----GIGRVQFTSLDFKSKAQNLSLNDK 72 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~t--------g~sR----gfgfV~f~~~e~A~~Ai~~~~~~~ 72 (1131)
-||+||||......-|+++|++| |.|-+|.+.....+ |+++ -=|-|||.+...|.++.+++| +
T Consensus 76 VvylS~IPp~m~~~rlReil~~y---GeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Ln--n 150 (278)
T KOG3152|consen 76 VVYLSNIPPYMDPVRLREILSQY---GEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLN--N 150 (278)
T ss_pred EEEeccCCCccCHHHHHHHHHhc---cccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhC--C
Confidence 49999999999999999999998 79999999875544 3333 337799999999999999995 7
Q ss_pred ceecCce
Q 001183 73 LVFNSQN 79 (1131)
Q Consensus 73 ~~~~gr~ 79 (1131)
..+||+.
T Consensus 151 ~~Iggkk 157 (278)
T KOG3152|consen 151 TPIGGKK 157 (278)
T ss_pred CccCCCC
Confidence 7888874
No 109
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=88.63 E-value=1.4 Score=48.16 Aligned_cols=74 Identities=22% Similarity=0.251 Sum_probs=54.8
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
.++.+.|+|..++++.|..+|+++-|.. .++.+-. -+|.|||+|.++..|..|.++++ +...--...++|.
T Consensus 147 ~ilf~~niP~es~~e~l~~lf~qf~g~k---eir~i~~-----~~~iAfve~~~d~~a~~a~~~lq-~~~it~~~~m~i~ 217 (221)
T KOG4206|consen 147 NILFLTNIPSESESEMLSDLFEQFPGFK---EIRLIPP-----RSGIAFVEFLSDRQASAAQQALQ-GFKITKKNTMQIT 217 (221)
T ss_pred eEEEEecCCcchhHHHHHHHHhhCcccc---eeEeccC-----CCceeEEecchhhhhHHHhhhhc-cceeccCceEEec
Confidence 4689999999999999999999996633 3444431 24999999999999999999885 2222225666665
Q ss_pred cCC
Q 001183 84 ETH 86 (1131)
Q Consensus 84 ~a~ 86 (1131)
.|+
T Consensus 218 ~a~ 220 (221)
T KOG4206|consen 218 FAK 220 (221)
T ss_pred ccC
Confidence 543
No 110
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=87.36 E-value=1.5 Score=50.50 Aligned_cols=60 Identities=20% Similarity=0.168 Sum_probs=48.5
Q ss_pred HHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeecCCC
Q 001183 19 DLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISETHS 87 (1131)
Q Consensus 19 ~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a~~ 87 (1131)
||++=-+.+ |.|.+|-|-- | .+.|-+-|.|.++++|..+|..| +|-+|+||.|.++.-..
T Consensus 292 dl~eec~K~---G~v~~vvv~d-~---hPdGvvtV~f~n~eeA~~ciq~m--~GR~fdgRql~A~i~DG 351 (382)
T KOG1548|consen 292 DLTEECEKF---GQVRKVVVYD-R---HPDGVVTVSFRNNEEADQCIQTM--DGRWFDGRQLTASIWDG 351 (382)
T ss_pred HHHHHHHHh---CCcceEEEec-c---CCCceeEEEeCChHHHHHHHHHh--cCeeecceEEEEEEeCC
Confidence 333444555 7999998764 3 47799999999999999999999 49999999999886544
No 111
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=86.36 E-value=1.5 Score=53.39 Aligned_cols=70 Identities=17% Similarity=0.098 Sum_probs=52.0
Q ss_pred HHHHHHHHhh----ccCCceEEEEEEeecCCCCC---ccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeecCCCC
Q 001183 17 AKDLLLFLES----KLGKNSVFALEIITDRSNWK---SRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISETHSD 88 (1131)
Q Consensus 17 ~~~L~~~fe~----~~G~G~V~~~~i~~dr~tg~---sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a~~~ 88 (1131)
++|..+++|. ..+-|.|.+|+|-.+-.++. +-|--||||++.++++.|.++| +|..|+||.++.+=-++|
T Consensus 416 d~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L--~GrKF~nRtVvtsYydeD 492 (500)
T KOG0120|consen 416 DEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEEL--TGRKFANRTVVASYYDED 492 (500)
T ss_pred hHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHc--cCceeCCcEEEEEecCHH
Confidence 3444455552 22347999999998743333 3488899999999999999999 499999999887654443
No 112
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=85.59 E-value=0.86 Score=53.51 Aligned_cols=74 Identities=14% Similarity=0.145 Sum_probs=60.2
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeec---CCCCCc----------cceEEEEeCChHHHHHHHHhh
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITD---RSNWKS----------RGIGRVQFTSLDFKSKAQNLS 68 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~d---r~tg~s----------RgfgfV~f~~~e~A~~Ai~~~ 68 (1131)
-++||-+-|||.+-.-+.|.++|... |.|.+++|-.+ .++++. +-+|+|+|++.++|.+|.+++
T Consensus 230 ~srtivaenLP~Dh~~enl~kiFg~~---G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~ 306 (484)
T KOG1855|consen 230 PSRTIVAENLPLDHSYENLSKIFGTV---GSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELL 306 (484)
T ss_pred ccceEEEecCCcchHHHHHHHHhhcc---cceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhh
Confidence 36899999999999999999999996 69999999997 444333 467999999999999999999
Q ss_pred cCCCceecCc
Q 001183 69 LNDKLVFNSQ 78 (1131)
Q Consensus 69 ~~~~~~~~gr 78 (1131)
|.-+.+-.|-
T Consensus 307 ~~e~~wr~gl 316 (484)
T KOG1855|consen 307 NPEQNWRMGL 316 (484)
T ss_pred chhhhhhhcc
Confidence 6323344443
No 113
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=84.75 E-value=0.5 Score=52.30 Aligned_cols=64 Identities=17% Similarity=0.109 Sum_probs=49.7
Q ss_pred HHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeecCC
Q 001183 18 KDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISETH 86 (1131)
Q Consensus 18 ~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a~ 86 (1131)
+||-..|+..+ |+|..++|-... .-.-+|-++|+|..+|+|++|++.+| +-+|+|+++.....+
T Consensus 83 Ed~f~E~~~ky--gEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~ln--nRw~~G~pi~ae~~p 146 (260)
T KOG2202|consen 83 EDVFTELEDKY--GEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLN--NRWYNGRPIHAELSP 146 (260)
T ss_pred HHHHHHHHHHh--hhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHc--CccccCCcceeeecC
Confidence 45555566444 599888776544 34568999999999999999999995 899999999877543
No 114
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=84.35 E-value=4.1 Score=39.53 Aligned_cols=71 Identities=10% Similarity=0.061 Sum_probs=46.7
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecC-------CCCCccceEEEEeCChHHHHHHHHhhcCCCceec
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDR-------SNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFN 76 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr-------~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~ 76 (1131)
.-|-|.|||.+ ....+.+.|+++ |+|....-.... ..-.....--|+|+++.+|.+|+.. ||..++
T Consensus 7 ~wVtVFGfp~~-~~~~Vl~~F~~~---G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~---NG~i~~ 79 (100)
T PF05172_consen 7 TWVTVFGFPPS-ASNQVLRHFSSF---GTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK---NGTIFS 79 (100)
T ss_dssp CEEEEE---GG-GHHHHHHHHHCC---S-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT---TTEEET
T ss_pred eEEEEEccCHH-HHHHHHHHHHhc---ceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh---CCeEEc
Confidence 35889999999 678899999997 688665411110 0112336788999999988888765 589999
Q ss_pred CceeE
Q 001183 77 SQNLK 81 (1131)
Q Consensus 77 gr~L~ 81 (1131)
|..+.
T Consensus 80 g~~mv 84 (100)
T PF05172_consen 80 GSLMV 84 (100)
T ss_dssp TCEEE
T ss_pred CcEEE
Confidence 87664
No 115
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=83.93 E-value=0.54 Score=59.18 Aligned_cols=77 Identities=19% Similarity=0.211 Sum_probs=67.4
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeec
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISE 84 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~ 84 (1131)
.+.|.|.|+.-|.++|+..+..+ |+|.+.++++.| .|.++|-|+|.+.++..|+.+.... +..-+.-+.+.|+.
T Consensus 738 ~v~i~g~pf~gt~e~~k~l~~~~---gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~--d~~~~rE~~~~v~v 811 (881)
T KOG0128|consen 738 SVAISGPPFQGTKEELKSLASKT---GNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASV--DVAGKRENNGEVQV 811 (881)
T ss_pred hhheeCCCCCCchHHHHhhcccc---CCccccchhhhh-ccccccceeccCCCcchhhhhcccc--hhhhhhhcCccccc
Confidence 57899999999999999999987 799999999988 8999999999999999999988877 36667777777777
Q ss_pred CCC
Q 001183 85 THS 87 (1131)
Q Consensus 85 a~~ 87 (1131)
+.+
T Consensus 812 snp 814 (881)
T KOG0128|consen 812 SNP 814 (881)
T ss_pred cCC
Confidence 655
No 116
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=80.90 E-value=2.6 Score=51.12 Aligned_cols=75 Identities=15% Similarity=0.088 Sum_probs=58.2
Q ss_pred EEEEeCCCCcCCHH------HHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCc-eecC
Q 001183 5 TVWVSNIPQTAIAK------DLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKL-VFNS 77 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~------~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~-~~~g 77 (1131)
-|.|-|+|---.+. -|...|+.+ |.+....+..+.++| ++||.|+++++...|+.|+..++ |. .-..
T Consensus 60 vVvv~g~PvV~~~rl~klk~vl~kvfsk~---gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~--G~~ldkn 133 (698)
T KOG2314|consen 60 VVVVDGAPVVGPARLEKLKKVLTKVFSKA---GKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLN--GKRLDKN 133 (698)
T ss_pred EEEECCCcccChhHHHHHHHHHHHHHHhh---ccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcc--cceeccc
Confidence 46778888655543 356678886 688888888888776 99999999999999999999996 44 4556
Q ss_pred ceeEeecC
Q 001183 78 QNLKISET 85 (1131)
Q Consensus 78 r~L~V~~a 85 (1131)
+.+.|+..
T Consensus 134 Htf~v~~f 141 (698)
T KOG2314|consen 134 HTFFVRLF 141 (698)
T ss_pred ceEEeehh
Confidence 77777753
No 117
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=80.67 E-value=0.17 Score=63.37 Aligned_cols=67 Identities=19% Similarity=0.328 Sum_probs=57.9
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceec
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFN 76 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~ 76 (1131)
+++|+|+++.....||..+|..+ |++..++|.....+++-||.|+|+|..++.|.+|+.-. .+..++
T Consensus 669 ~~fvsnl~~~~~~~dl~~~~~~~---~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~--d~~~~g 735 (881)
T KOG0128|consen 669 KIFVSNLSPKMSEEDLSERFSPS---GTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFR--DSCFFG 735 (881)
T ss_pred HHHHhhcchhhcCchhhhhcCcc---chhhhHHHHHHhhccccccceeeEeecCCchhhhhhhh--hhhhhh
Confidence 57899999999999999999997 57777777777788999999999999999999999876 345555
No 118
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=80.57 E-value=4 Score=46.00 Aligned_cols=62 Identities=15% Similarity=-0.047 Sum_probs=47.2
Q ss_pred HHHHHHHHhhccCCceEEEEEEeecCCCCCcc-ceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 17 AKDLLLFLESKLGKNSVFALEIITDRSNWKSR-GIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 17 ~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sR-gfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
+++.++=.|.| |+|.+|-|..+..---.+ ---||||+..++|.+|.--+ ||..||||..++-
T Consensus 300 ede~keEceKy---g~V~~viifeip~~p~deavRiFveF~r~e~aiKA~Vdl--nGRyFGGr~v~A~ 362 (378)
T KOG1996|consen 300 EDETKEECEKY---GKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDL--NGRYFGGRVVSAC 362 (378)
T ss_pred HHHHHHHHHhh---cceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhc--CCceecceeeehe
Confidence 45566667776 799999988875222222 34699999999999999999 5999999987653
No 119
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=79.35 E-value=3.9 Score=49.35 Aligned_cols=73 Identities=15% Similarity=0.074 Sum_probs=52.9
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCC-CC----Cccc---eEEEEeCChHHHHHHHHhhcCCCce
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRS-NW----KSRG---IGRVQFTSLDFKSKAQNLSLNDKLV 74 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~-tg----~sRg---fgfV~f~~~e~A~~Ai~~~~~~~~~ 74 (1131)
+.+|+|||||++.++++|...|-.+ | +| .|-=++. .. -++| |+|.-|+++.+...-+++- ...
T Consensus 259 S~KVFvGGlp~dise~~i~~~F~~F-G--s~---~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC---~~~ 329 (520)
T KOG0129|consen 259 SRKVFVGGLPWDITEAQINASFGQF-G--SV---KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC---SEG 329 (520)
T ss_pred ccceeecCCCccccHHHHHhhcccc-c--ce---EeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH---hhc
Confidence 4689999999999999999999997 4 43 2322211 11 2236 9999999988777777765 345
Q ss_pred ecCceeEeec
Q 001183 75 FNSQNLKISE 84 (1131)
Q Consensus 75 ~~gr~L~V~~ 84 (1131)
-+.-+++|+.
T Consensus 330 ~~~~yf~vss 339 (520)
T KOG0129|consen 330 EGNYYFKVSS 339 (520)
T ss_pred ccceEEEEec
Confidence 6677788875
No 120
>smart00663 RPOLA_N RNA polymerase I subunit A N-terminus.
Probab=77.60 E-value=3.1 Score=47.75 Aligned_cols=53 Identities=26% Similarity=0.423 Sum_probs=39.1
Q ss_pred eeEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEEe
Q 001183 781 SIVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFIS 847 (1131)
Q Consensus 781 ~vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 847 (1131)
.+..| .|++-|.|+||..-|+-.++.-.|.- + =|=+|..|+ +.|+|||+..+.
T Consensus 198 ~l~dgd~Vl~NRqPsLHr~si~a~~v~v~~~~-------t-------ir~n~~~c~~fNADFDGDeMnih 253 (295)
T smart00663 198 HVIDGDVVLFNRQPTLHRMSIQAHRVRVLEGK-------T-------IRLNPLVCSPYNADFDGDEMNLH 253 (295)
T ss_pred ehhcCCEEEEecCCccccccceeEEEEEecCc-------e-------EEecCccCCcccCCcCCCEEEEe
Confidence 35567 78999999999999999888776642 1 122444454 689999999874
No 121
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=76.68 E-value=3.4 Score=48.20 Aligned_cols=81 Identities=17% Similarity=0.206 Sum_probs=67.3
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecC---CCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDR---SNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr---~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
-|.|.||+.++|-+++..+|... |.|..++|...- .-.-..--+||-|.+...+..|-.+-| ..|=++.|.
T Consensus 9 vIqvanispsat~dqm~tlFg~l---GkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtn---tvfvdrali 82 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNL---GKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTN---TVFVDRALI 82 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhc---cccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhcc---ceeeeeeEE
Confidence 59999999999999999999986 699999887622 112334678999999999999988874 889999999
Q ss_pred eecCCCCCCC
Q 001183 82 ISETHSDIVP 91 (1131)
Q Consensus 82 V~~a~~~i~~ 91 (1131)
|-++...++|
T Consensus 83 v~p~~~~~~p 92 (479)
T KOG4676|consen 83 VRPYGDEVIP 92 (479)
T ss_pred EEecCCCCCc
Confidence 9988777665
No 122
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=76.66 E-value=11 Score=33.59 Aligned_cols=57 Identities=16% Similarity=0.253 Sum_probs=47.0
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhh
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLS 68 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~ 68 (1131)
..|+|-|++. .+.+|++.||..|++.....+++=|-|. -+=|-|.+++.|.+|+.++
T Consensus 6 eavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 3688999864 8889999999999655678889988776 2578999999999998764
No 123
>PF00623 RNA_pol_Rpb1_2: RNA polymerase Rpb1, domain 2; InterPro: IPR000722 RNA polymerases catalyse the DNA dependent polymerisation of RNA from DNA, using the four ribonucleoside triphosphates as substrates. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Eukaryotic RNA polymerase I is essentially used to transcribe ribosomal RNA units, polymerase II is used for mRNA precursors, and III is used to transcribe 5S and tRNA genes. Each class of RNA polymerase is assembled from nine to fourteen different polypeptides. Members of the family include the largest subunit from eukaryotes; the gamma subunit from Cyanobacteria; the beta' subunit from bacteria; the A' subunit from archaea; and the B'' subunit from chloroplast RNA polymerases.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_M 2PMZ_Q 3HKZ_I 1ZYR_D 1SMY_D 2A68_N 2O5J_D 3AOH_N 2O5I_D 2CW0_N ....
Probab=74.35 E-value=2.3 Score=44.89 Aligned_cols=52 Identities=31% Similarity=0.452 Sum_probs=34.6
Q ss_pred eEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEEe
Q 001183 782 IVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFIS 847 (1131)
Q Consensus 782 vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 847 (1131)
+..| .|++-|.|+||..-++-++++-.+.-. | |=+|..|+ +.|+|||+-.|.
T Consensus 95 l~~gd~vl~nRqPtLh~~s~~a~~~~~~~~~t-------~-------~~~~~~c~~~NADFDGDem~i~ 149 (166)
T PF00623_consen 95 LCDGDIVLLNRQPTLHRMSIMAHKVRVLPGKT-------I-------RINPLVCSPFNADFDGDEMNIH 149 (166)
T ss_dssp HTTT-EEEEEESS-SSGGGEEEEEEEEESSSS-------E-------EEEGGGHHHHT--TSS-EEEEE
T ss_pred hhcCceeEEeccchhccceeeeeeeeeecccE-------E-------EeeccchhhhhccCCcceEEEE
Confidence 3456 599999999999999999988766531 0 11344454 789999999884
No 124
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=73.76 E-value=8.9 Score=39.62 Aligned_cols=58 Identities=22% Similarity=0.233 Sum_probs=42.8
Q ss_pred HHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeecCCCCCC
Q 001183 19 DLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISETHSDIV 90 (1131)
Q Consensus 19 ~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a~~~i~ 90 (1131)
+|.+-|+++ |+|.=+|.+.+ -=.|.|.+.+.|-+|+++. |..++|+.|+|+..-+|=+
T Consensus 52 ~ll~~~~~~---GevvLvRfv~~--------~mwVTF~dg~sALaals~d---g~~v~g~~l~i~LKtpdW~ 109 (146)
T PF08952_consen 52 ELLQKFAQY---GEVVLVRFVGD--------TMWVTFRDGQSALAALSLD---GIQVNGRTLKIRLKTPDWL 109 (146)
T ss_dssp HHHHHHHCC---S-ECEEEEETT--------CEEEEESSCHHHHHHHHGC---CSEETTEEEEEEE------
T ss_pred HHHHHHHhC---CceEEEEEeCC--------eEEEEECccHHHHHHHccC---CcEECCEEEEEEeCCccHH
Confidence 677778886 69988888753 3589999998888888875 8999999999999777764
No 125
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=72.54 E-value=4.7 Score=44.92 Aligned_cols=65 Identities=20% Similarity=0.083 Sum_probs=56.6
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcC
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLN 70 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~ 70 (1131)
|-+-|||-|++..|+-+.|..-|+.+ |.|.++=++.|- -|++-|=|+|+|...-+|..|....+.
T Consensus 30 ~~a~l~V~nl~~~~sndll~~~f~~f---g~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~~~ 94 (275)
T KOG0115|consen 30 MHAELYVVNLMQGASNDLLEQAFRRF---GPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRCRE 94 (275)
T ss_pred ccceEEEEecchhhhhHHHHHhhhhc---Cccchheeeecc-cccccccchhhhhcchhHHHHHHHhcc
Confidence 34679999999999999999999998 799988888876 477778999999999899999988754
No 126
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=72.15 E-value=17 Score=42.55 Aligned_cols=91 Identities=13% Similarity=0.182 Sum_probs=70.6
Q ss_pred EEEEeCCCCcCCH-HHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 5 TVWVSNIPQTAIA-KDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 5 ti~Vgnl~~~~t~-~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
-+-|.||...... +-|-++|=.| |.|.+++....+ -|-|.|||.++.+.++|+.-+| +..+=|..|.|-
T Consensus 289 VmMVyGLdh~k~N~drlFNl~ClY---GNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLn--n~~lfG~kl~v~ 358 (494)
T KOG1456|consen 289 VMMVYGLDHGKMNCDRLFNLFCLY---GNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLN--NIPLFGGKLNVC 358 (494)
T ss_pred EEEEEeccccccchhhhhhhhhhc---CceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhc--cCccccceEEEe
Confidence 3568888876554 7789999997 799999988655 2779999999999999999996 444456678888
Q ss_pred cCCCCCCCCCCCCcceecCeEEEE
Q 001183 84 ETHSDIVPRPVKAQHRVEDGVLHV 107 (1131)
Q Consensus 84 ~a~~~i~~~~~~~~~~~~~~~~~~ 107 (1131)
.++..-+. |. -+|-|+|..-.|
T Consensus 359 ~SkQ~~v~-~~-~pflLpDgSpSf 380 (494)
T KOG1456|consen 359 VSKQNFVS-PV-QPFLLPDGSPSF 380 (494)
T ss_pred eccccccc-cC-CceecCCCCcch
Confidence 88887762 22 578888875443
No 127
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=70.42 E-value=12 Score=33.89 Aligned_cols=62 Identities=8% Similarity=0.133 Sum_probs=39.0
Q ss_pred CcCCHHHHHHHHhhccC--CceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeecC
Q 001183 13 QTAIAKDLLLFLESKLG--KNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISET 85 (1131)
Q Consensus 13 ~~~t~~~L~~~fe~~~G--~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a 85 (1131)
..++..+|..++...+| +..|-+++|.. -|.||+-... .|+.++++++ +..+.|+.++|.+|
T Consensus 11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~--------~~S~vev~~~-~a~~v~~~l~--~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 11 DGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------NFSFVEVPEE-VAEKVLEALN--GKKIKGKKVRVERA 74 (74)
T ss_dssp GT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------S-EEEEE-TT--HHHHHHHHT--T--SSS----EEE-
T ss_pred cCCCHHHHHHHHHhccCCCHHhEEEEEEee--------eEEEEEECHH-HHHHHHHHhc--CCCCCCeeEEEEEC
Confidence 46788999999998765 45666676653 6889999654 7999999994 89999999999876
No 128
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=65.33 E-value=3.5 Score=51.09 Aligned_cols=74 Identities=20% Similarity=0.095 Sum_probs=63.3
Q ss_pred cccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeE
Q 001183 2 VLATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLK 81 (1131)
Q Consensus 2 m~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~ 81 (1131)
|.-|++|||+.+.+..+=++..++.. |-|.+++.+. |||.+|.....+..|+.++. .+..+|..|.
T Consensus 39 ~~~~vfv~~~~~~~s~~~~~~il~~~---g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t--~~~~~~~kl~ 104 (668)
T KOG2253|consen 39 PRDTVFVGNISYLVSQEFWKSILAKS---GFVPSWKRDK---------FGFCEFLKHIGDLRASRLLT--ELNIDDQKLI 104 (668)
T ss_pred CCceeEecchhhhhhHHHHHHHHhhC---Ccchhhhhhh---------hcccchhhHHHHHHHHHHhc--ccCCCcchhh
Confidence 44589999999999999999999984 5999988775 99999999999999999995 5788899999
Q ss_pred eecCCCCC
Q 001183 82 ISETHSDI 89 (1131)
Q Consensus 82 V~~a~~~i 89 (1131)
++.-...+
T Consensus 105 ~~~d~q~~ 112 (668)
T KOG2253|consen 105 ENVDEQTI 112 (668)
T ss_pred ccchhhhh
Confidence 88754443
No 129
>PRK02625 rpoC1 DNA-directed RNA polymerase subunit gamma; Provisional
Probab=64.39 E-value=9.4 Score=47.76 Aligned_cols=51 Identities=27% Similarity=0.557 Sum_probs=38.2
Q ss_pred eEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEE
Q 001183 782 IVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFI 846 (1131)
Q Consensus 782 vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~V 846 (1131)
++.| .|+.-|.|+||.--||-++++-.+.-. =|=||..|+ ..|+|||+-.|
T Consensus 423 v~~gd~VLlNRqPTLHR~sIqAf~~~l~~~kt--------------irlhplvC~~fNADFDGDeMnv 476 (627)
T PRK02625 423 VIEGHPVLLNRAPTLHRLGIQAFEPILVEGRA--------------IQLHPLVCPAFNADFDGDQMAV 476 (627)
T ss_pred eecCcEEEecCCCccccccceeEeeEEcCCCe--------------EEeccccCCcccCCcCCCeEEE
Confidence 5566 799999999999999999887655421 122455555 58999999877
No 130
>CHL00018 rpoC1 RNA polymerase beta' subunit
Probab=63.71 E-value=7.4 Score=49.02 Aligned_cols=51 Identities=25% Similarity=0.511 Sum_probs=37.6
Q ss_pred eEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEE
Q 001183 782 IVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFI 846 (1131)
Q Consensus 782 vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~V 846 (1131)
++.| .|+.-|.|.||.--||-+++|-.+.-. =|=||..|+ ..|+|||+..|
T Consensus 444 v~~gd~VLlNRqPTLHR~sIqAf~~~L~~gkt--------------IrLhplvC~~fNADFDGDqMnv 497 (663)
T CHL00018 444 VMQGHPVLLNRAPTLHRLGIQAFQPILVEGRA--------------ICLHPLVCKGFNADFDGDQMAV 497 (663)
T ss_pred hhcCceeeecCCCcccccccceeeEEecCCCe--------------EEeCcccCCcccCCccCcEEEE
Confidence 5566 789999999999999988887655420 122445555 58999999887
No 131
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=63.03 E-value=5.3 Score=45.78 Aligned_cols=63 Identities=14% Similarity=0.013 Sum_probs=57.9
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhc
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSL 69 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~ 69 (1131)
.+.++|+..+.+...+...++.+. |++..+....-+....++|++-|+|...+.+..|+..+.
T Consensus 89 ~~~f~g~~s~~~e~~~~~~~~~~~---g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~ 151 (285)
T KOG4210|consen 89 STFFVGELSENIEESEDDNFSSEA---GLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESG 151 (285)
T ss_pred ccccccccccchhhccccccchhh---cCcccchhhhhccccccccceeeccccHHHHHHHHHhhh
Confidence 578999999999999999999997 699999999988899999999999999999999999883
No 132
>TIGR02387 rpoC1_cyan DNA-directed RNA polymerase, gamma subunit. The RNA polymerase gamma subunit, encoded by the rpoC1 gene, is found in cyanobacteria and corresponds to the N-terminal region the beta' subunit, encoded by rpoC, in other bacteria. The equivalent subunit in plastids and chloroplasts is designated beta', while the product of the rpoC2 gene is designated beta''.
Probab=62.26 E-value=7.7 Score=48.41 Aligned_cols=51 Identities=25% Similarity=0.539 Sum_probs=37.7
Q ss_pred eEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEE
Q 001183 782 IVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFI 846 (1131)
Q Consensus 782 vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~V 846 (1131)
++.| .|+.-|.|+||.--||-++++-.+.- -=|=+|..|+ ..|+|||+..|
T Consensus 416 v~~gd~VLlNRqPTLHR~sIqAf~~~l~~~k--------------tirlhplvC~~fNADFDGDeMnv 469 (619)
T TIGR02387 416 VITGHPVMLNRAPTLHRLGIQAFEPILVDGR--------------AIQLHPLVCPAFNADFDGDQMAV 469 (619)
T ss_pred HhcCCEEEecCCCccchhcceeeeeEEecCC--------------eEEECcccCCcccCCCCCceeee
Confidence 5566 68999999999999999887655432 1122555565 58999999877
No 133
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=57.59 E-value=8.4 Score=47.29 Aligned_cols=77 Identities=14% Similarity=0.157 Sum_probs=62.4
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCce---ecCce
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLV---FNSQN 79 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~---~~gr~ 79 (1131)
+.-|||.||-.-.|..+|+++|... | |.|... ++|+ =+.|+||.+.+.++|.+-+.+|+ |+. -+++.
T Consensus 444 SnvlhI~nLvRPFTlgQLkelL~rt-g-g~Vee~--WmDk----IKShCyV~yss~eEA~atr~Alh--nV~WP~sNPK~ 513 (718)
T KOG2416|consen 444 SNVLHIDNLVRPFTLGQLKELLGRT-G-GNVEEF--WMDK----IKSHCYVSYSSVEEAAATREALH--NVQWPPSNPKH 513 (718)
T ss_pred cceEeeecccccchHHHHHHHHhhc-c-CchHHH--HHHH----hhcceeEecccHHHHHHHHHHHh--ccccCCCCCce
Confidence 4579999999999999999999985 5 688776 6666 56899999999999999999995 542 46677
Q ss_pred eEeecCCCCC
Q 001183 80 LKISETHSDI 89 (1131)
Q Consensus 80 L~V~~a~~~i 89 (1131)
|.+--+..+-
T Consensus 514 L~adf~~~de 523 (718)
T KOG2416|consen 514 LIADFVRADE 523 (718)
T ss_pred eEeeecchhH
Confidence 7776655544
No 134
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=54.66 E-value=11 Score=44.55 Aligned_cols=72 Identities=11% Similarity=0.130 Sum_probs=54.2
Q ss_pred cEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 4 ATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 4 ~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
..+|+|||+..++.+||...|....- -...+-=---||+||...+..-|.+|++.++ +..++.|..+.|.
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~---------~~~g~fl~k~gyafvd~pdq~wa~kaie~~s-gk~elqGkr~e~~ 71 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKI---------PGSGQFLVKSGYAFVDCPDQQWANKAIETLS-GKVELQGKRQEVE 71 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccC---------CCCcceeeecceeeccCCchhhhhhhHHhhc-hhhhhcCceeecc
Confidence 46899999999999999999987521 0000000112999999999999999999996 3568999988775
Q ss_pred cC
Q 001183 84 ET 85 (1131)
Q Consensus 84 ~a 85 (1131)
-.
T Consensus 72 ~s 73 (584)
T KOG2193|consen 72 HS 73 (584)
T ss_pred ch
Confidence 43
No 135
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=48.96 E-value=45 Score=35.76 Aligned_cols=55 Identities=22% Similarity=0.229 Sum_probs=48.7
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhc
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSL 69 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~ 69 (1131)
.|-|+|||.+.+=.|||+..-+. |.|.=+.|..| |.|.|+|...|+.+-|+..+.
T Consensus 117 RVvVsGLp~SgSWQDLKDHmRea---GdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld 171 (241)
T KOG0105|consen 117 RVVVSGLPPSGSWQDLKDHMREA---GDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLD 171 (241)
T ss_pred eEEEecCCCCCchHHHHHHHHhh---CCeeeeeeecc-------cceeeeeeehhhHHHHHHhhc
Confidence 57799999999999999999996 69988877654 489999999999999999885
No 136
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.04 E-value=47 Score=41.06 Aligned_cols=79 Identities=22% Similarity=0.234 Sum_probs=61.9
Q ss_pred ccEEEEeCCCCc-CCHHHHHHHHhhccCC-ceEEEEEEeecCC----------CCC------------------------
Q 001183 3 LATVWVSNIPQT-AIAKDLLLFLESKLGK-NSVFALEIITDRS----------NWK------------------------ 46 (1131)
Q Consensus 3 ~~ti~Vgnl~~~-~t~~~L~~~fe~~~G~-G~V~~~~i~~dr~----------tg~------------------------ 46 (1131)
+++|=|-|++|+ +.++||--+|.+++-+ |.|.+|.|-...+ .|-
T Consensus 174 T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~~~ 253 (650)
T KOG2318|consen 174 TKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEEDV 253 (650)
T ss_pred cceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhhhH
Confidence 467889999996 6789999999999832 6999999976221 111
Q ss_pred ------------cc-ceEEEEeCChHHHHHHHHhhcCCCceecCceeEee
Q 001183 47 ------------SR-GIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKIS 83 (1131)
Q Consensus 47 ------------sR-gfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~ 83 (1131)
-| =||.|+|.+.+.|..+-..- +|.+|.....++-
T Consensus 254 ~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~C--DG~EfEsS~~~~D 301 (650)
T KOG2318|consen 254 DREKLRQYQLNRLKYYYAVVECDSIETAKAVYEEC--DGIEFESSANKLD 301 (650)
T ss_pred HHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhc--Ccceeccccceee
Confidence 11 48999999999999999888 5999988877664
No 137
>TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit, predominant form. Bacteria have a single DNA-directed RNA polymerase, with required subunits that include alpha, beta, and beta-prime. This model describes the predominant architecture of the beta-prime subunit in most bacteria. This model excludes from among the bacterial mostly sequences from the cyanobacteria, where RpoC is replaced by two tandem genes homologous to it but also encoding an additional domain.
Probab=44.48 E-value=22 Score=47.71 Aligned_cols=52 Identities=31% Similarity=0.544 Sum_probs=37.7
Q ss_pred eEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEEe
Q 001183 782 IVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFIS 847 (1131)
Q Consensus 782 vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 847 (1131)
++.| .|+.-|.|.||.--||=++++-.|.- -=|=||.-|+ ..|+|||+-.|-
T Consensus 397 vi~~d~VLlNRqPTLHRlsIqAf~~~l~~gk--------------tirlhplvC~~fNADFDGDeMnvH 451 (1140)
T TIGR02386 397 VIKEHPVLLNRAPTLHRLGIQAFEPVLVEGK--------------AIRLHPLVCTAFNADFDGDQMAVH 451 (1140)
T ss_pred ccCCcEEEecCCCcccccccceeEEEEecCc--------------eEEEcccccCcccCCCCcceeEee
Confidence 4445 79999999999999998888776542 1122445555 589999998874
No 138
>PRK00566 DNA-directed RNA polymerase subunit beta'; Provisional
Probab=44.46 E-value=24 Score=47.42 Aligned_cols=52 Identities=29% Similarity=0.515 Sum_probs=38.0
Q ss_pred eEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEEe
Q 001183 782 IVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFIS 847 (1131)
Q Consensus 782 vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 847 (1131)
++.| .|+.-|.|.||.--||=++++-.|.-. =|=||..|+ ..|+|||+-.|-
T Consensus 405 vi~gd~VLlNRqPTLHR~sIqAf~~~l~~gkt--------------irLhplvC~~fNADFDGDqMnvH 459 (1156)
T PRK00566 405 VIKEHPVLLNRAPTLHRLGIQAFEPVLIEGKA--------------IQLHPLVCTAFNADFDGDQMAVH 459 (1156)
T ss_pred ecCCCEEEecCCCcccccccceeEEEEecCce--------------EEECccccCccccccccceeEEe
Confidence 4556 799999999999999988887665421 122444444 579999998874
No 139
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=43.30 E-value=45 Score=39.17 Aligned_cols=83 Identities=16% Similarity=0.241 Sum_probs=66.9
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEe
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKI 82 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V 82 (1131)
+.-|.|-|+=..+++.||.+-++.+ |+|.=+-.+..+ --|.|+|++-+.|+.++.-+..|-...+|+.--+
T Consensus 31 spvvhvr~l~~~v~eadl~eal~~f---G~i~yvt~~P~~------r~alvefedi~~akn~Vnfaa~n~i~i~gq~Al~ 101 (494)
T KOG1456|consen 31 SPVVHVRGLHQGVVEADLVEALSNF---GPIAYVTCMPHK------RQALVEFEDIEGAKNCVNFAADNQIYIAGQQALF 101 (494)
T ss_pred CceEEEeccccccchhHHHHHHhcC---CceEEEEecccc------ceeeeeeccccchhhheehhccCcccccCchhhc
Confidence 3468899999999999999999998 688766665433 3579999999999999998776677889999888
Q ss_pred ecCCCCCCCCCC
Q 001183 83 SETHSDIVPRPV 94 (1131)
Q Consensus 83 ~~a~~~i~~~~~ 94 (1131)
|-+--+-|.||.
T Consensus 102 NyStsq~i~R~g 113 (494)
T KOG1456|consen 102 NYSTSQCIERPG 113 (494)
T ss_pred ccchhhhhccCC
Confidence 888555555554
No 140
>PRK14906 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional
Probab=42.79 E-value=27 Score=47.62 Aligned_cols=52 Identities=27% Similarity=0.526 Sum_probs=38.0
Q ss_pred eEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEEe
Q 001183 782 IVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFIS 847 (1131)
Q Consensus 782 vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 847 (1131)
++.| .|+.-|.|.||.--||=++++-.|.- -=|=||.-|+ ..|+|||+..|-
T Consensus 493 vi~gd~VLlNRqPTLHRlsIqAf~~~L~~gk--------------tIrLhplvC~~fNADFDGDqMnvH 547 (1460)
T PRK14906 493 VIQDHPVLLNRAPTLHRLGIQAFEPVLVEGK--------------AIKLHPLVCTAFNADFDGDQMAVH 547 (1460)
T ss_pred eeccceeEeccCcccchhccceeeEEecCCc--------------eEEecccccCccccCCcCceeeee
Confidence 5566 79999999999999998887766542 1122444454 589999998875
No 141
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=41.72 E-value=38 Score=43.78 Aligned_cols=100 Identities=6% Similarity=-0.035 Sum_probs=76.8
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecC--cee
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNS--QNL 80 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~g--r~L 80 (1131)
++.++|||++....-.-|..-|..+ |.|..+.+.. | -.||.|+.++..+|+.|..-+. |..+|| +.|
T Consensus 455 ttr~~sgglg~w~p~~~l~r~fd~f---Gpir~Idy~h----g--q~yayi~yes~~~aq~a~~~~r--gap~G~P~~r~ 523 (975)
T KOG0112|consen 455 TTRLQSGGLGPWSPVSRLNREFDRF---GPIRIIDYRH----G--QPYAYIQYESPPAAQAATHDMR--GAPLGGPPRRL 523 (975)
T ss_pred ceeeccCCCCCCChHHHHHHHhhcc---Ccceeeeccc----C--CcceeeecccCccchhhHHHHh--cCcCCCCCccc
Confidence 4679999999999999999999998 7887644432 2 3799999999999999999885 777776 668
Q ss_pred EeecCCCCC-------CCCCCCCcceecCeEEEEeeeecc
Q 001183 81 KISETHSDI-------VPRPVKAQHRVEDGVLHVGVMCKE 113 (1131)
Q Consensus 81 ~V~~a~~~i-------~~~~~~~~~~~~~~~~~~g~~~~~ 113 (1131)
+|..|.+.- ..+|+.++=.+..++..+|-..+.
T Consensus 524 rvdla~~~~~~Pqq~~~~~p~~~~k~~~~at~~~~~p~~~ 563 (975)
T KOG0112|consen 524 RVDLASPPGATPQQNLLTSPPVPPKHYIEATDTGTHPVSD 563 (975)
T ss_pred ccccccCCCCChhhhcccCCCCCCCCccccccccCCCCCc
Confidence 888877644 256666666667777777664443
No 142
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=41.54 E-value=30 Score=49.99 Aligned_cols=53 Identities=28% Similarity=0.501 Sum_probs=39.4
Q ss_pred eeEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEEe
Q 001183 781 SIVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFIS 847 (1131)
Q Consensus 781 ~vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 847 (1131)
.++.| .|+.-|.|.||.--||=++++-.|.- -=|=||..|+ ..|+|||+-.|-
T Consensus 1803 ~vi~gd~VLlNRqPTLHR~sIqAf~~~l~~gk--------------tIrLhplvC~~fNADFDGDqMnvH 1858 (2890)
T PRK09603 1803 EITEGYPVLLNRAPTLHKQSIQAFHPKLIDGK--------------AIQLHPLVCSAFNADFDGDQMAVH 1858 (2890)
T ss_pred eeecCCeEEecCCCccccccceeeeEEEecCc--------------eEEeccccCCcccCCCCCceeEEe
Confidence 46678 68999999999999998888765532 1122455555 689999998774
No 143
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=40.80 E-value=8.1 Score=49.52 Aligned_cols=63 Identities=13% Similarity=0.124 Sum_probs=53.2
Q ss_pred ccEEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhc
Q 001183 3 LATVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSL 69 (1131)
Q Consensus 3 ~~ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~ 69 (1131)
+.|+++||++..+++.+++--|+.+ |.|..|.|.+.+ -++--.||||-|.+..++-.|...+.
T Consensus 372 trTLf~Gnl~~kl~eseiR~af~e~---gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s 434 (975)
T KOG0112|consen 372 TRTLFLGNLDSKLTESEIRPAFDES---GKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEES 434 (975)
T ss_pred hhhhhhcCcccchhhhhhhhhhhhh---ccccccccccCC-CCcccchhhhhhhccccCcccchhhc
Confidence 4689999999999999999999998 799999999986 23344899999988877777766663
No 144
>PRK08566 DNA-directed RNA polymerase subunit A'; Validated
Probab=38.65 E-value=30 Score=45.74 Aligned_cols=53 Identities=23% Similarity=0.332 Sum_probs=39.1
Q ss_pred eeEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEEe
Q 001183 781 SIVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFIS 847 (1131)
Q Consensus 781 ~vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 847 (1131)
.++.| .|++-|.|+||.--|+=.+++-.|.- -=|=+|+.|+ ..|+|||+-++-
T Consensus 411 hl~dgd~vl~NRqPsLHr~si~a~~~~v~~~~--------------t~r~n~~~c~~~NADFDGDeMn~h 466 (882)
T PRK08566 411 HLIDGDIVLFNRQPSLHRMSIMAHRVRVLPGK--------------TFRLNLAVCPPYNADFDGDEMNLH 466 (882)
T ss_pred hhhcCceeeecCCCcccccccceeEEEEecCc--------------eEeeccccCCCccCCccCcEEEEe
Confidence 35667 68899999999999988888776642 1133455555 689999998874
No 145
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=36.56 E-value=1.8e+02 Score=28.91 Aligned_cols=67 Identities=18% Similarity=0.104 Sum_probs=51.9
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecC
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNS 77 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~g 77 (1131)
.+-+...|+.++.++|..|.+... ..|..++|+.|. ...|=-+-+.|.+.++|..=-...| |..|+.
T Consensus 15 ~~~l~vp~~~~~~d~l~~f~~~~~--~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fN--Gk~Fns 81 (110)
T PF07576_consen 15 LCCLAVPPYMTPSDFLLFFGAPFR--EDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFN--GKPFNS 81 (110)
T ss_pred EEEEEeCcccccHHHHHHhhhccc--ccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhC--CCccCC
Confidence 455778888899999998888765 489999999876 2356678889999998888877774 555543
No 146
>TIGR02390 RNA_pol_rpoA1 DNA-directed RNA polymerase subunit A'. This family consists of the archaeal A' subunit of the DNA-directed RNA polymerase. The example from Methanocaldococcus jannaschii contains an intein.
Probab=35.81 E-value=34 Score=45.22 Aligned_cols=53 Identities=23% Similarity=0.308 Sum_probs=38.8
Q ss_pred eeEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEEe
Q 001183 781 SIVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFIS 847 (1131)
Q Consensus 781 ~vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 847 (1131)
.++.| .|++-|.|+||.--|+=.++.-.|.- -=|=+|+.|+ ..|+|||+-++-
T Consensus 407 hl~dgd~vl~NRqPsLHr~si~a~~~~v~~~~--------------t~r~n~~~c~~~NADFDGDeMn~h 462 (868)
T TIGR02390 407 HLIDGDIVLFNRQPSLHRMSMMGHKVKVLPGK--------------TFRLNLAVCPPYNADFDGDEMNLH 462 (868)
T ss_pred ehhcCccceeccCCccccccceeEEEEEecCc--------------eEeeccccCCccccCcccceeeEe
Confidence 35567 68899999999999988888776642 1123455555 689999998875
No 147
>cd00292 EF1B Elongation factor 1 beta (EF1B) guanine nucleotide exchange domain. EF1B catalyzes the exchange of GDP bound to the G-protein, EF1A, for GTP, an important step in the elongation cycle of the protein biosynthesis. EF1A binds to and delivers the aminoacyl tRNA to the ribosome. The guanine nucleotide exchange domain of EF1B, which is the alpha subunit in yeast, is responsible for the catalysis of this exchange reaction.
Probab=34.92 E-value=82 Score=29.99 Aligned_cols=55 Identities=22% Similarity=0.405 Sum_probs=41.0
Q ss_pred hhHHHHHHHHHhhcCeEEcCeEEEEeeecccccccCeEEEEecCCCCCHHHHHHHcCC
Q 001183 455 RTKIYSRILTILQDGIVIGDKHYEFLAFSASQLRNNSVWMFASNDEVSAEDVRGWMGC 512 (1131)
Q Consensus 455 ~~~i~~Rv~~~L~~Gi~I~gr~y~FLafS~SqlR~~s~wff~~~~~~t~~~Ir~wmG~ 512 (1131)
.+++.+.|+.++.+|+.+++.+.+.+||+-.-| .+.+.-++.....+++-+-+..
T Consensus 19 l~~l~~~Ik~~~~~gl~~~~~~~epiaFGlk~L---~i~~vv~D~~~~td~lee~i~~ 73 (88)
T cd00292 19 LDELEEKIRAILMDGLLWGKSKLEPIAFGLKAL---QIYCVVEDDEGGTDELEEAISE 73 (88)
T ss_pred HHHHHHHHHHhCcCCcEEEEEEEEEeeeEeeEE---EEEEEEEeCCcCcHHHHHHHhc
Confidence 478889999999999999999999999995444 4445455555566776655433
No 148
>TIGR00489 aEF-1_beta translation elongation factor aEF-1 beta. This model describes the archaeal translation elongation factor aEF-1 beta. The member from Sulfolobus solfataricus was demonstrated experimentally. It is a dimer that catalyzes the exchange of GDP for GTP on aEF-1 alpha.
Probab=34.23 E-value=92 Score=29.69 Aligned_cols=59 Identities=15% Similarity=0.179 Sum_probs=44.8
Q ss_pred hhHHHHHHHHHhhcCeEEcCeEEEEeeecccccccCeEEEEecCCCCCHHHHHHHcCCCCCC
Q 001183 455 RTKIYSRILTILQDGIVIGDKHYEFLAFSASQLRNNSVWMFASNDEVSAEDVRGWMGCFNKI 516 (1131)
Q Consensus 455 ~~~i~~Rv~~~L~~Gi~I~gr~y~FLafS~SqlR~~s~wff~~~~~~t~~~Ir~wmG~F~~i 516 (1131)
.+++.++++.++.+|..+++-..+.+||+- +-=.+.+.-++.....+.|-+-+..+...
T Consensus 19 le~L~~~ik~~~~~g~~~~~~~~ePiaFGL---kaL~~~~vv~D~~g~td~lee~i~~ve~V 77 (88)
T TIGR00489 19 LEALKEKIKERIPEGVEIRKIDEEPIAFGL---VAINVMVVMGDAEGGTEAAEESLSGIEGV 77 (88)
T ss_pred HHHHHHHHHHhCcCCcEEeeeEEEeeeccc---eeeEEEEEEecCCcChHHHHHHHhcCCCc
Confidence 478899999999999999999999999994 44445555555545567777766666543
No 149
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=33.62 E-value=92 Score=29.70 Aligned_cols=59 Identities=19% Similarity=0.308 Sum_probs=44.7
Q ss_pred hhHHHHHHHHHhhcCeEEcCeEEEEeeecccccccCeEEEEecCCCCCHHHHHHHcCCCCCC
Q 001183 455 RTKIYSRILTILQDGIVIGDKHYEFLAFSASQLRNNSVWMFASNDEVSAEDVRGWMGCFNKI 516 (1131)
Q Consensus 455 ~~~i~~Rv~~~L~~Gi~I~gr~y~FLafS~SqlR~~s~wff~~~~~~t~~~Ir~wmG~F~~i 516 (1131)
.+++.+.|+.++.+|+.+++-..+.+||+ |+.=.+.+.-++.....+.+-+-+..|...
T Consensus 19 l~~L~~~ik~~~~~g~~~~~~~~ePIaFG---LkaL~i~~vv~D~~~~td~lee~i~~~e~V 77 (88)
T PRK00435 19 LDELKEKIKEVLPEGYKINGIEEEPIAFG---LKALKLYVIMPDEEGGTEPVEEAFANVEGV 77 (88)
T ss_pred HHHHHHHHHHhCcCCcEEeEeEEEEeecc---ceeEEEEEEEEcCCcCcHHHHHHHhccCCC
Confidence 47788999999999999999999999999 454445555555555667777666666543
No 150
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=31.68 E-value=42 Score=38.64 Aligned_cols=33 Identities=21% Similarity=0.165 Sum_probs=25.6
Q ss_pred EEEEeCChHHHHHHHHhhcCCCceecCceeEeecCCC
Q 001183 51 GRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISETHS 87 (1131)
Q Consensus 51 gfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a~~ 87 (1131)
|||.|.+.++|+.|.+.. ....++.++|.+|++
T Consensus 1 aFVtF~~~~~a~~~~q~~----~~~~~~~~~v~~APe 33 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLL----LSKRPNSWRVSPAPE 33 (325)
T ss_pred CEEEECCHHHHHHHHHHH----hcCCCCCceEeeCCC
Confidence 799999999999999976 333456667777765
No 151
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=30.81 E-value=51 Score=40.57 Aligned_cols=63 Identities=22% Similarity=0.092 Sum_probs=48.3
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhc
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSL 69 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~ 69 (1131)
|+.+-|+|..-|..-|.+..|... |+-.=+.+..|-.+--.-|||||.|++++++..+-.+-+
T Consensus 390 t~~iknipNK~T~~ml~~~d~~~~--gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFn 452 (549)
T KOG4660|consen 390 TLMIKNIPNKYTSKMLLAADEKNK--GTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFN 452 (549)
T ss_pred hhHhhccCchhhHHhhhhhhcccc--CccceEEeccccccccccceeEEeecCHHHHHHHHHHHc
Confidence 344556666667777666666554 477778888887666667999999999999999999986
No 152
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=29.63 E-value=54 Score=47.55 Aligned_cols=52 Identities=27% Similarity=0.516 Sum_probs=38.2
Q ss_pred eEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEEe
Q 001183 782 IVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFIS 847 (1131)
Q Consensus 782 vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 847 (1131)
++.| .|+.-|.|+||.--||=++++-.|.- -=|=||..|+ ..|+|||+-.|-
T Consensus 1848 vi~gd~VLlNRqPTLHR~sIqAf~~~l~~gk--------------tirlhp~vC~~fNADFDGDeMnvH 1902 (2836)
T PRK14844 1848 VIKEHPVLLNRAPTLHRLGIQAFEPILIEGK--------------AIQLHPLVCTAFNADFDGDQMAVH 1902 (2836)
T ss_pred EecCCEEEecCCCccccccccceeeEeecCc--------------eEEecccCCCcccCCCCCceeeee
Confidence 4566 89999999999998888877655532 1133555565 589999998874
No 153
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=27.59 E-value=70 Score=39.47 Aligned_cols=73 Identities=16% Similarity=0.234 Sum_probs=58.4
Q ss_pred EEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeecC
Q 001183 6 VWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISET 85 (1131)
Q Consensus 6 i~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a 85 (1131)
|-+--||.++-.+++|.+|... -.=.|.+|+-...- +| ||.|+++++|+.|-..+.+--..|-|++|.++-.
T Consensus 178 vilREIpettp~e~Vk~lf~~e-ncPk~iscefa~N~-nW------yITfesd~DAQqAykylreevk~fqgKpImARIK 249 (684)
T KOG2591|consen 178 VILREIPETTPIEVVKALFKGE-NCPKVISCEFAHND-NW------YITFESDTDAQQAYKYLREEVKTFQGKPIMARIK 249 (684)
T ss_pred EEEeecCCCChHHHHHHHhccC-CCCCceeeeeeecC-ce------EEEeecchhHHHHHHHHHHHHHhhcCcchhhhhh
Confidence 4467799999999999999873 12478999987644 55 9999999999999999975456899999887643
Q ss_pred C
Q 001183 86 H 86 (1131)
Q Consensus 86 ~ 86 (1131)
.
T Consensus 250 a 250 (684)
T KOG2591|consen 250 A 250 (684)
T ss_pred h
Confidence 3
No 154
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=26.91 E-value=6.3e+02 Score=31.45 Aligned_cols=95 Identities=22% Similarity=0.302 Sum_probs=55.3
Q ss_pred ccccHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH-hccCCC------------------hHHHHHHH
Q 001183 637 CFLNREIISLLSTLGVKDEVFEAMQQQQLILLGKMLINREAALDVLQ-KLNGVD------------------SKNILVKM 697 (1131)
Q Consensus 637 ~~LNRQ~I~iL~~lGV~~~vF~~lq~~~l~~l~~~l~d~~~a~~~L~-~~~~~~------------------~~~~l~~m 697 (1131)
..=|+-.|.-|.++|.|.+.-.+ +| +..--.|.+.|+.+|- .+...+ .+.-+..|
T Consensus 555 ~t~Nqs~I~qL~~mGfp~~~~~r----AL--~~tgNqDaEsAMNWLFqHMdDPdlndP~~~~~~vPKkDkeVdE~~~~Sl 628 (749)
T COG5207 555 FTDNQSLIRQLVDMGFPEEDAAR----AL--GITGNQDAESAMNWLFQHMDDPDLNDPFVPPPNVPKKDKEVDESKARSL 628 (749)
T ss_pred cCchHHHHHHHHHcCCCHHHHHH----HH--hhccCcchHHHHHHHHhhccCcccCCCCCCCCCCCcccccccHHHHHHH
Confidence 34688899999999999543221 11 1222346777888773 332211 23446788
Q ss_pred HHcCCCCCCcHHHHHHHHHHHHHHHHhhhcceeeeecCceEEEEEe-cCCCCCCCCcE
Q 001183 698 LLQGYEPNVEPYLSMMLLSHHENQLSDLKSRCRIYVPKGRLLIGCF-DETGILNYGQV 754 (1131)
Q Consensus 698 l~~Gf~~~~epfl~~~L~~~~~~~l~~lk~K~rI~Vp~s~~l~GV~-DetG~L~~GEV 754 (1131)
+..||.|..+ ++.|.+.... + -|.+.+|. |+.|+.+|.||
T Consensus 629 le~Gln~n~~-----------Rkal~~~n~d----~--~r~V~w~~N~~D~tF~EP~v 669 (749)
T COG5207 629 LENGLNPNLC-----------RKALMDMNTD----S--KRRVVWCINDDDGTFPEPEV 669 (749)
T ss_pred HHcCCCHHHH-----------HHHHHHccCC----c--hheEEEEEeCCCCCCCCCCC
Confidence 8899977432 1222223221 1 24455555 89999998887
No 155
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=25.99 E-value=39 Score=39.26 Aligned_cols=79 Identities=14% Similarity=0.138 Sum_probs=58.1
Q ss_pred EEEeCCCCcCCHHHHH---HHHhhccCCceEEEEEEeecCC--CC-CccceEEEEeCChHHHHHHHHhhcCCCceecCce
Q 001183 6 VWVSNIPQTAIAKDLL---LFLESKLGKNSVFALEIITDRS--NW-KSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQN 79 (1131)
Q Consensus 6 i~Vgnl~~~~t~~~L~---~~fe~~~G~G~V~~~~i~~dr~--tg-~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~ 79 (1131)
+||-|++..+-.+++. ++|.+| |.|..+.+..+.. .+ ..-..+.|.|+..|+|..+|+.- +|..++|+.
T Consensus 80 vyvvgl~~~~ade~~l~~~eyfgqy---gki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v--~g~~~dg~~ 154 (327)
T KOG2068|consen 80 VYVVGLPLDLADESVLERTEYFGQY---GKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDV--DGFVDDGRA 154 (327)
T ss_pred hhhhCCCccccchhhhhCccccccc---ccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHh--hhHHhhhhh
Confidence 6777888776555553 466665 6888888777662 11 11144899999999999999999 489999999
Q ss_pred eEeecCCCCC
Q 001183 80 LKISETHSDI 89 (1131)
Q Consensus 80 L~V~~a~~~i 89 (1131)
|+.+++....
T Consensus 155 lka~~gttky 164 (327)
T KOG2068|consen 155 LKASLGTTKY 164 (327)
T ss_pred hHHhhCCCcc
Confidence 9999876643
No 156
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=25.77 E-value=44 Score=42.96 Aligned_cols=77 Identities=12% Similarity=0.051 Sum_probs=58.6
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeec
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISE 84 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~ 84 (1131)
+.++-|.+-..+..-|..++..| |.|.+++-.. .=-+|.|+|.+.|.|..|.+++.....-.-|-+-+|.+
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~y---g~v~s~wtlr------~~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ 370 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDY---GSVASAWTLR------DLNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSF 370 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhh---cchhhheecc------cccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEe
Confidence 44566777888999999999998 7888765442 23689999999999999999996223446677777777
Q ss_pred CCCCCC
Q 001183 85 THSDIV 90 (1131)
Q Consensus 85 a~~~i~ 90 (1131)
|+.-+.
T Consensus 371 ak~~~~ 376 (1007)
T KOG4574|consen 371 AKTLPM 376 (1007)
T ss_pred cccccc
Confidence 776553
No 157
>PRK14977 bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional
Probab=25.60 E-value=80 Score=43.61 Aligned_cols=53 Identities=25% Similarity=0.404 Sum_probs=37.7
Q ss_pred eeEee-eEEEeeCCCCCCCCeeEEEEEccCcccccCCcceEEecCCCCCCCCCcCC--CCCCCCCeEEEe
Q 001183 781 SIVKG-KVLVTKNPCLHPGDVRVLEAVYEMKLEEKDYVDCIIFPQKGERPHPNECS--GGDLDGDIFFIS 847 (1131)
Q Consensus 781 ~vi~G-~VlV~RnP~lhPGDIr~v~AV~~P~L~~~hl~dvIVFp~kG~Rplps~lS--GGDLDGD~y~Vi 847 (1131)
.++.| .|++-|.|+||.--|+=.++.-.|.-- =|=+|+-|+ ..|+|||+-.+-
T Consensus 427 hl~dGD~VL~NRQPSLHk~Simah~vkvl~~kT--------------~Rln~~vC~pyNADFDGDEMNlH 482 (1321)
T PRK14977 427 HLADGDIVIFNRQPSLHKLSILAHRVKVLPGAT--------------FRLHPAVCPPYNADFDGDEMNLH 482 (1321)
T ss_pred EeecCcEEEeccCCccccccceEEEEEEecCce--------------EEecccccCcccCCcccceeeee
Confidence 35667 789999999999988888877766421 122333444 589999998774
No 158
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=24.28 E-value=65 Score=43.02 Aligned_cols=60 Identities=25% Similarity=0.436 Sum_probs=39.0
Q ss_pred EEeeCCCCCCC-------CeeEEEEEccC-----cccc-----cCCc--ceEEecCCC-------------------CCC
Q 001183 788 LVTKNPCLHPG-------DVRVLEAVYEM-----KLEE-----KDYV--DCIIFPQKG-------------------ERP 829 (1131)
Q Consensus 788 lV~RnP~lhPG-------DIr~v~AV~~P-----~L~~-----~hl~--dvIVFp~kG-------------------~Rp 829 (1131)
+|-+-|+.||| +=+.+.+..++ .|+. |||. |+|+|...- =|=
T Consensus 383 LV~~g~~~~pgakyiird~G~Ridlr~~~~~~d~~Lq~G~kVeRhl~DGD~VlfNRqPSlHKmSmmahrVrVlp~sTfrL 462 (1605)
T KOG0260|consen 383 LVRRGLLEHPGAKYIIRDNGDRIDLRYHKRAGDIHLQPGYKVERHLMDGDVVLFNRQPSLHKMSMMAHRVRVLPYSTFRL 462 (1605)
T ss_pred HhhCCCCCCCCcceeeecCCcEEEEeecCCccccccccccEEEEeeccCCEEEEcCCCcHHHhhhhhcEEEEccCceEEe
Confidence 45566777777 66666666666 4432 6776 477776431 133
Q ss_pred CCCcCC--CCCCCCCeEEEe
Q 001183 830 HPNECS--GGDLDGDIFFIS 847 (1131)
Q Consensus 830 lps~lS--GGDLDGD~y~Vi 847 (1131)
.+++|| .+|+|||....-
T Consensus 463 NlsvtsPynADFDGDemnlh 482 (1605)
T KOG0260|consen 463 NLSVTSPYNADFDGDEMNLH 482 (1605)
T ss_pred CeeecCCccCCCCCceeecc
Confidence 456676 799999998653
No 159
>PHA02097 hypothetical protein
Probab=23.86 E-value=63 Score=27.57 Aligned_cols=28 Identities=21% Similarity=0.353 Sum_probs=19.7
Q ss_pred eeeeCCcEEEcCCccc--cCCCCccccccc
Q 001183 537 LVVPVQDVEMIPDVEV--TSDGNTYCFSDG 564 (1131)
Q Consensus 537 ~~i~~~~i~~I~DI~~--~~~g~~~~FTDG 564 (1131)
.+++.-+++.||||.+ +.|+++|.|--|
T Consensus 30 f~~~~f~~~fi~~ikvv~~~n~ng~~~~hg 59 (59)
T PHA02097 30 FDVSNFKIQFIAGVKVVKDANYNGFELVHG 59 (59)
T ss_pred EeeccceEEEeCCcEEEecCCCCcEEEecC
Confidence 3445556889999986 457788887654
No 160
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=23.80 E-value=3.8e+02 Score=24.49 Aligned_cols=58 Identities=12% Similarity=0.155 Sum_probs=35.4
Q ss_pred HHHHhccCCChHHHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHhhhcceeeeecCceEEEEEecCCC
Q 001183 680 DVLQKLNGVDSKNILVKMLLQGYEPNVEPYLSMMLLSHHENQLSDLKSRCRIYVPKGRLLIGCFDETG 747 (1131)
Q Consensus 680 ~~L~~~~~~~~~~~l~~ml~~Gf~~~~epfl~~~L~~~~~~~l~~lk~K~rI~Vp~s~~l~GV~DetG 747 (1131)
+++.........+++..|...||..+ ++.+.+-|++|.- .|++..+|.+.|.++++++
T Consensus 12 ~li~~~~i~sQ~eL~~~L~~~Gi~vT---------QaTiSRDLkeL~~-vKv~~~~g~~~Y~l~~~~~ 69 (70)
T PF01316_consen 12 ELISEHEISSQEELVELLEEEGIEVT---------QATISRDLKELGA-VKVPDGNGKYRYVLPEETE 69 (70)
T ss_dssp HHHHHS---SHHHHHHHHHHTT-T-----------HHHHHHHHHHHT--EEEECTTSSEEEE-TTSTT
T ss_pred HHHHHCCcCCHHHHHHHHHHcCCCcc---------hhHHHHHHHHcCc-EEeeCCCCCEEEEecCcCC
Confidence 34555555566777778888999753 2334455666654 7788888999999988875
No 161
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=23.69 E-value=2.5e+02 Score=26.13 Aligned_cols=60 Identities=8% Similarity=-0.019 Sum_probs=47.9
Q ss_pred EEEEeCCCCcCCHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhh
Q 001183 5 TVWVSNIPQTAIAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLS 68 (1131)
Q Consensus 5 ti~Vgnl~~~~t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~ 68 (1131)
+-|+-..+..++-.|++..+|..+| =.|.+|+...-+.. .--|||.+...+.|..+...+
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~-VkV~~Vnt~~~~~~---~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFD-VKVEKVNTLITPRG---EKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhC-CceEEEEeEEcCCC---ceEEEEEECCCCcHHHHHHhh
Confidence 5788889999999999999999887 68888888776622 245899998887777666655
No 162
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=21.85 E-value=2.1e+02 Score=30.98 Aligned_cols=63 Identities=19% Similarity=0.162 Sum_probs=41.2
Q ss_pred CHHHHHHHHhhccCCceEEEEEEeecCCCCCccceEEEEeCChHHHHHHHHhhcCCCceecCceeEeecCCC
Q 001183 16 IAKDLLLFLESKLGKNSVFALEIITDRSNWKSRGIGRVQFTSLDFKSKAQNLSLNDKLVFNSQNLKISETHS 87 (1131)
Q Consensus 16 t~~~L~~~fe~~~G~G~V~~~~i~~dr~tg~sRgfgfV~f~~~e~A~~Ai~~~~~~~~~~~gr~L~V~~a~~ 87 (1131)
.-+.|+++|..+ +.+....... |=+=..|-|.+.++|.+|...+...+..++|..|++--+..
T Consensus 8 ~~~~l~~l~~~~---~~~~~~~~L~------sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~ 70 (184)
T PF04847_consen 8 NLAELEELFSTY---DPPVQFSPLK------SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQP 70 (184)
T ss_dssp -HHHHHHHHHTT----SS-EEEEET------TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----
T ss_pred hHHHHHHHHHhc---CCceEEEEcC------CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccc
Confidence 347889999987 4665555442 33556899999999999999984337899999999887633
No 163
>cd01213 tensin Tensin Phosphotyrosine-binding (PTB) domain. Tensin Phosphotyrosine-binding (PTB) domain. Tensin is a a focal adhesion protein, which contains a C-terminal SH2 domain followed by a PTB domain. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=20.43 E-value=3.9e+02 Score=27.66 Aligned_cols=86 Identities=15% Similarity=0.180 Sum_probs=53.7
Q ss_pred EEEEcCCeEEecCCcccccCceecccCcCCCcEEEEEEeeCCCCCCCCCcccccccccccCcchhhHHHHHHHHHhhcCe
Q 001183 391 RALVTPMKIYCLGPELETSNYVVKNFAKYASDFMRVTFVEEDWSKLPANALSTSIQRGIFSKPYRTKIYSRILTILQDGI 470 (1131)
Q Consensus 391 ~v~vTPt~i~~~~P~~e~sNRvlR~y~~~~d~FLRV~F~DE~~~~l~~~~~~~~~~~~~~~~~~~~~i~~Rv~~~L~~Gi 470 (1131)
++.|+..+|.+..|.-.. -..|+|+.+ .|+|+.-+.+.-+ ++..|-
T Consensus 47 h~kVS~qGItLtDn~rk~--ffrrhypl~-----~Vs~ca~dp~n~~---------------------------~~~~~~ 92 (138)
T cd01213 47 HFKVSSQGITLTDNTRKK--FFRRHYKVD-----SVIFCAIDPEERM---------------------------WENEGA 92 (138)
T ss_pred EEEEEcCCeeeeccccce--eehhhCCcC-----eEEEEeeCCcccc---------------------------cccccc
Confidence 777888888887765211 123446642 6888886654211 111211
Q ss_pred EEcCeEEEEeeecccccccCeEEEEecC-CCCCHHHHHHHc
Q 001183 471 VIGDKHYEFLAFSASQLRNNSVWMFASN-DEVSAEDVRGWM 510 (1131)
Q Consensus 471 ~I~gr~y~FLafS~SqlR~~s~wff~~~-~~~t~~~Ir~wm 510 (1131)
....|.|-|.+=...+..++.|+-|++- ....+..|.+..
T Consensus 93 ~~~kriFgFVar~~~~~~~~~ChvF~e~~~~qpa~~iv~~~ 133 (138)
T cd01213 93 IAKARIFAFVARIPHSSTDNACHVFAELEPEQPASAIVNFA 133 (138)
T ss_pred ccccEEEEEEEecCCCCCCeeEEEeccCCCCCCHHHHHHHH
Confidence 2267888888876555678999999974 456788887654
Done!