Query 041390
Match_columns 639
No_of_seqs 358 out of 1706
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 06:35:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041390.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041390hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0144 RNA-binding protein CU 99.6 1.6E-15 3.5E-20 162.1 6.0 132 242-395 66-214 (510)
2 PLN03134 glycine-rich RNA-bind 99.5 3.6E-14 7.8E-19 134.3 12.0 85 305-390 28-116 (144)
3 KOG0153 Predicted RNA-binding 99.5 9.2E-14 2E-18 145.8 9.3 76 309-387 226-302 (377)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.4 4.1E-13 8.8E-18 140.8 11.1 81 309-390 267-351 (352)
5 KOG0125 Ataxin 2-binding prote 99.4 9.8E-13 2.1E-17 137.3 9.0 79 310-389 95-175 (376)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.4 2.2E-12 4.7E-17 135.4 10.8 78 311-389 3-84 (352)
7 PF00076 RRM_1: RNA recognitio 99.3 4.3E-12 9.4E-17 101.9 8.6 67 314-381 1-70 (70)
8 TIGR01659 sex-lethal sex-letha 99.3 7.3E-12 1.6E-16 134.2 10.0 80 308-388 104-187 (346)
9 KOG0149 Predicted RNA-binding 99.3 4E-12 8.6E-17 128.1 6.7 76 309-386 10-89 (247)
10 PLN03120 nucleic acid binding 99.3 1.3E-11 2.9E-16 127.0 10.6 76 311-388 4-80 (260)
11 TIGR01628 PABP-1234 polyadenyl 99.3 1.7E-11 3.7E-16 137.6 11.3 89 309-398 283-374 (562)
12 KOG0111 Cyclophilin-type pepti 99.2 5.7E-12 1.2E-16 125.9 4.5 79 309-388 8-90 (298)
13 TIGR01659 sex-lethal sex-letha 99.2 5.1E-11 1.1E-15 127.7 10.2 81 310-391 192-278 (346)
14 TIGR01645 half-pint poly-U bin 99.2 1E-10 2.2E-15 132.9 10.7 78 310-388 203-284 (612)
15 smart00362 RRM_2 RNA recogniti 99.1 2.9E-10 6.3E-15 89.3 9.4 70 313-383 1-72 (72)
16 KOG0122 Translation initiation 99.1 1.4E-10 3E-15 117.6 9.0 78 310-388 188-269 (270)
17 KOG0148 Apoptosis-promoting RN 99.1 1.5E-10 3.3E-15 118.7 9.3 81 308-391 161-241 (321)
18 PF14259 RRM_6: RNA recognitio 99.1 2.5E-10 5.3E-15 93.2 8.7 67 314-381 1-70 (70)
19 PLN03121 nucleic acid binding 99.1 2.8E-10 6.2E-15 115.9 10.5 77 309-387 3-80 (243)
20 TIGR01645 half-pint poly-U bin 99.1 1.9E-10 4.2E-15 130.7 10.1 76 310-386 106-185 (612)
21 PF13893 RRM_5: RNA recognitio 99.1 2.8E-10 6.2E-15 90.0 8.0 56 329-385 1-56 (56)
22 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.1 3.4E-10 7.3E-15 125.7 11.0 79 309-388 273-351 (481)
23 KOG4207 Predicted splicing fac 99.1 1.2E-10 2.6E-15 115.7 6.1 74 313-387 15-92 (256)
24 KOG0107 Alternative splicing f 99.1 2.7E-10 5.7E-15 110.9 7.9 78 311-390 10-87 (195)
25 KOG0148 Apoptosis-promoting RN 99.1 1.7E-10 3.7E-15 118.3 6.9 76 313-389 64-143 (321)
26 PLN03213 repressor of silencin 99.1 3.1E-10 6.7E-15 123.6 9.0 78 310-388 9-88 (759)
27 TIGR01628 PABP-1234 polyadenyl 99.1 4.2E-10 9E-15 126.5 10.3 74 313-387 2-79 (562)
28 KOG0124 Polypyrimidine tract-b 99.1 2.7E-10 5.9E-15 120.5 7.7 207 235-503 77-294 (544)
29 TIGR01622 SF-CC1 splicing fact 99.1 5.9E-10 1.3E-14 121.6 10.6 79 309-388 184-266 (457)
30 KOG0113 U1 small nuclear ribon 99.0 5.1E-10 1.1E-14 116.1 9.0 86 309-395 99-188 (335)
31 TIGR01642 U2AF_lg U2 snRNP aux 99.0 8.4E-10 1.8E-14 121.8 11.1 78 310-388 294-375 (509)
32 COG0724 RNA-binding proteins ( 99.0 9.3E-10 2E-14 105.9 9.9 76 311-387 115-194 (306)
33 smart00360 RRM RNA recognition 99.0 1.1E-09 2.4E-14 85.6 8.3 63 321-383 5-71 (71)
34 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.0 1E-09 2.2E-14 121.9 10.5 75 311-388 2-78 (481)
35 TIGR01648 hnRNP-R-Q heterogene 99.0 1.1E-09 2.4E-14 124.1 10.7 76 310-390 232-309 (578)
36 TIGR01648 hnRNP-R-Q heterogene 99.0 1E-09 2.2E-14 124.6 9.7 78 308-386 55-136 (578)
37 TIGR01622 SF-CC1 splicing fact 99.0 1.4E-09 3.1E-14 118.5 10.7 77 309-387 87-167 (457)
38 smart00361 RRM_1 RNA recogniti 99.0 1.7E-09 3.6E-14 89.9 7.7 57 326-382 2-69 (70)
39 KOG0131 Splicing factor 3b, su 99.0 5.6E-10 1.2E-14 109.2 5.5 76 310-386 8-87 (203)
40 cd00590 RRM RRM (RNA recogniti 99.0 5.4E-09 1.2E-13 82.5 9.7 71 313-384 1-74 (74)
41 KOG0109 RNA-binding protein LA 98.9 1.8E-09 4E-14 111.8 5.6 79 313-396 4-82 (346)
42 KOG0117 Heterogeneous nuclear 98.9 6.3E-09 1.4E-13 112.7 9.1 82 305-387 77-163 (506)
43 KOG0126 Predicted RNA-binding 98.8 1.1E-09 2.4E-14 107.2 2.1 75 311-386 35-113 (219)
44 KOG0108 mRNA cleavage and poly 98.8 1.3E-08 2.9E-13 111.9 9.2 79 312-391 19-101 (435)
45 KOG0117 Heterogeneous nuclear 98.8 8.6E-09 1.9E-13 111.7 7.4 78 310-392 258-335 (506)
46 KOG0121 Nuclear cap-binding pr 98.8 8.9E-09 1.9E-13 96.2 6.4 77 309-386 34-114 (153)
47 KOG0145 RNA-binding protein EL 98.8 2.5E-08 5.3E-13 102.3 9.2 78 310-388 277-358 (360)
48 KOG0146 RNA-binding protein ET 98.7 1.7E-08 3.8E-13 103.7 7.4 87 298-397 18-111 (371)
49 KOG0127 Nucleolar protein fibr 98.7 2.1E-08 4.6E-13 110.7 8.5 79 313-392 119-200 (678)
50 KOG4205 RNA-binding protein mu 98.7 5.7E-09 1.2E-13 110.5 4.0 82 310-393 5-90 (311)
51 KOG0114 Predicted RNA-binding 98.7 5E-08 1.1E-12 88.4 9.3 80 309-389 16-96 (124)
52 KOG0132 RNA polymerase II C-te 98.7 1.7E-08 3.6E-13 115.0 7.5 81 309-392 419-499 (894)
53 KOG0145 RNA-binding protein EL 98.7 3.3E-08 7.2E-13 101.3 8.2 79 310-389 40-122 (360)
54 KOG0105 Alternative splicing f 98.7 2.4E-08 5.1E-13 98.3 6.8 79 309-388 4-83 (241)
55 KOG0147 Transcriptional coacti 98.7 1.8E-08 3.8E-13 111.6 6.2 79 314-393 281-363 (549)
56 KOG0144 RNA-binding protein CU 98.7 2.4E-08 5.2E-13 107.9 6.9 81 310-391 33-120 (510)
57 KOG0123 Polyadenylate-binding 98.7 3.9E-08 8.4E-13 106.6 8.4 77 314-392 79-157 (369)
58 KOG4205 RNA-binding protein mu 98.6 3.7E-08 8E-13 104.5 5.6 82 310-393 96-181 (311)
59 TIGR01642 U2AF_lg U2 snRNP aux 98.6 1.2E-07 2.6E-12 104.9 9.3 75 308-386 172-258 (509)
60 KOG0130 RNA-binding protein RB 98.5 9.5E-08 2.1E-12 90.1 5.7 77 312-389 73-153 (170)
61 KOG4206 Spliceosomal protein s 98.5 2.2E-07 4.8E-12 93.7 7.8 83 310-393 8-95 (221)
62 KOG4212 RNA-binding protein hn 98.5 2.9E-07 6.3E-12 99.8 8.9 79 308-387 41-123 (608)
63 KOG0127 Nucleolar protein fibr 98.5 1.9E-07 4.1E-12 103.4 6.8 79 312-391 6-88 (678)
64 KOG0131 Splicing factor 3b, su 98.4 4.1E-07 8.9E-12 89.4 5.8 81 310-391 95-180 (203)
65 KOG4208 Nucleolar RNA-binding 98.4 1.5E-06 3.2E-11 87.0 9.7 76 312-388 50-130 (214)
66 KOG0415 Predicted peptidyl pro 98.3 7E-07 1.5E-11 94.9 6.7 80 309-390 237-321 (479)
67 KOG0146 RNA-binding protein ET 98.3 4.8E-07 1E-11 93.3 4.7 82 308-390 282-367 (371)
68 KOG0123 Polyadenylate-binding 98.3 5.7E-07 1.2E-11 97.6 5.5 84 309-393 268-354 (369)
69 KOG0109 RNA-binding protein LA 98.3 8.8E-07 1.9E-11 92.3 5.4 80 308-392 75-154 (346)
70 KOG0124 Polypyrimidine tract-b 98.2 1.7E-06 3.7E-11 92.3 6.1 77 309-386 208-288 (544)
71 KOG4661 Hsp27-ERE-TATA-binding 98.2 1.9E-06 4.2E-11 95.8 6.5 77 310-387 404-484 (940)
72 KOG0110 RNA-binding protein (R 98.2 2.2E-06 4.8E-11 97.5 5.9 80 310-390 612-695 (725)
73 KOG0110 RNA-binding protein (R 98.1 4.2E-06 9.2E-11 95.3 7.7 72 314-386 518-596 (725)
74 KOG0151 Predicted splicing reg 98.0 9.6E-06 2.1E-10 92.4 7.2 80 306-386 169-255 (877)
75 KOG4212 RNA-binding protein hn 97.9 1.3E-05 2.9E-10 87.2 6.6 73 309-384 534-607 (608)
76 KOG0116 RasGAP SH3 binding pro 97.9 1.6E-05 3.4E-10 87.7 7.0 74 312-387 289-366 (419)
77 KOG4454 RNA binding protein (R 97.8 8.8E-06 1.9E-10 82.2 1.8 79 308-388 6-87 (267)
78 KOG0106 Alternative splicing f 97.8 2.3E-05 4.9E-10 79.6 4.3 70 313-387 3-72 (216)
79 KOG0533 RRM motif-containing p 97.7 0.00011 2.3E-09 76.0 7.6 77 309-386 81-160 (243)
80 KOG0226 RNA-binding proteins [ 97.6 7.2E-05 1.6E-09 77.1 4.4 77 313-390 192-272 (290)
81 KOG4209 Splicing factor RNPS1, 97.6 0.00011 2.3E-09 75.5 5.7 77 310-388 100-180 (231)
82 KOG2135 Proteins containing th 97.4 0.0002 4.4E-09 78.9 5.1 63 324-389 385-447 (526)
83 KOG4660 Protein Mei2, essentia 97.3 0.00017 3.6E-09 80.9 4.1 74 306-381 70-143 (549)
84 PF00642 zf-CCCH: Zinc finger 97.2 6.7E-05 1.5E-09 52.3 -0.3 23 192-214 3-26 (27)
85 PF14605 Nup35_RRM_2: Nup53/35 97.1 0.0014 2.9E-08 52.7 5.7 51 312-367 2-53 (53)
86 KOG0147 Transcriptional coacti 97.0 0.0007 1.5E-08 75.9 4.6 73 312-386 180-256 (549)
87 KOG1190 Polypyrimidine tract-b 97.0 0.0023 5.1E-08 69.8 8.2 75 311-386 297-371 (492)
88 smart00356 ZnF_C3H1 zinc finge 96.8 0.00071 1.5E-08 46.0 1.6 22 193-214 5-26 (27)
89 KOG1457 RNA binding protein (c 96.7 0.0045 9.7E-08 63.3 7.8 83 310-393 33-123 (284)
90 KOG1548 Transcription elongati 96.6 0.0048 1E-07 66.3 7.5 78 308-386 131-219 (382)
91 KOG4211 Splicing factor hnRNP- 96.6 0.0056 1.2E-07 68.2 8.1 69 319-389 17-87 (510)
92 KOG0106 Alternative splicing f 96.6 0.0013 2.8E-08 67.0 2.8 69 312-385 100-168 (216)
93 KOG1548 Transcription elongati 96.6 0.0093 2E-07 64.1 9.0 82 308-389 262-353 (382)
94 PF05172 Nup35_RRM: Nup53/35/4 96.5 0.01 2.2E-07 53.8 8.0 64 317-386 13-90 (100)
95 PF04059 RRM_2: RNA recognitio 96.5 0.014 3E-07 52.7 8.2 74 312-386 2-85 (97)
96 KOG4210 Nuclear localization s 96.3 0.0023 4.9E-08 67.8 2.8 82 309-391 182-267 (285)
97 COG5175 MOT2 Transcriptional r 96.3 0.009 1.9E-07 64.1 7.1 79 308-386 111-201 (480)
98 KOG1456 Heterogeneous nuclear 96.2 0.026 5.6E-07 61.4 9.6 79 309-388 285-363 (494)
99 KOG0120 Splicing factor U2AF, 96.1 0.014 3E-07 66.0 7.5 60 327-386 424-490 (500)
100 PF00658 PABP: Poly-adenylate 95.8 0.0073 1.6E-07 51.7 3.1 50 8-60 22-71 (72)
101 smart00517 PolyA C-terminal do 95.7 0.011 2.4E-07 49.7 3.7 51 8-61 11-61 (64)
102 PF11608 Limkain-b1: Limkain b 95.7 0.035 7.6E-07 49.2 6.9 70 312-388 3-77 (90)
103 PF14608 zf-CCCH_2: Zinc finge 95.5 0.0067 1.5E-07 39.2 1.3 18 194-213 1-18 (19)
104 KOG2314 Translation initiation 95.0 0.027 5.8E-07 63.9 4.8 59 327-385 79-141 (698)
105 PF08777 RRM_3: RNA binding mo 95.0 0.056 1.2E-06 49.2 6.1 54 314-370 4-57 (105)
106 KOG4211 Splicing factor hnRNP- 94.9 0.04 8.8E-07 61.7 5.6 72 313-386 105-180 (510)
107 KOG0120 Splicing factor U2AF, 94.7 0.025 5.4E-07 64.0 3.6 79 310-389 288-370 (500)
108 KOG2185 Predicted RNA-processi 94.5 0.013 2.8E-07 64.2 0.9 25 191-215 139-163 (486)
109 KOG1855 Predicted RNA-binding 94.5 0.023 5.1E-07 62.6 2.7 65 309-374 229-310 (484)
110 PF08952 DUF1866: Domain of un 94.4 0.15 3.3E-06 49.3 7.6 77 305-386 21-105 (146)
111 KOG1995 Conserved Zn-finger pr 94.1 0.053 1.2E-06 58.7 4.2 82 309-391 64-157 (351)
112 KOG4307 RNA binding protein RB 94.0 0.069 1.5E-06 62.0 5.1 80 310-390 433-516 (944)
113 KOG3152 TBP-binding protein, a 93.9 0.032 6.8E-07 58.2 2.1 67 312-379 75-157 (278)
114 KOG1677 CCCH-type Zn-finger pr 93.6 0.03 6.5E-07 59.5 1.3 25 190-214 175-200 (332)
115 KOG1456 Heterogeneous nuclear 93.0 0.34 7.3E-06 53.1 8.0 74 314-388 124-199 (494)
116 KOG4206 Spliceosomal protein s 92.9 0.37 8E-06 49.5 7.8 76 309-386 144-220 (221)
117 KOG2202 U2 snRNP splicing fact 92.1 0.066 1.4E-06 55.8 1.3 59 327-385 83-145 (260)
118 KOG1457 RNA binding protein (c 91.8 0.17 3.8E-06 52.1 3.9 70 305-375 204-273 (284)
119 KOG1996 mRNA splicing factor [ 91.6 0.42 9.1E-06 51.0 6.5 61 326-386 300-365 (378)
120 KOG0129 Predicted RNA-binding 91.1 0.68 1.5E-05 52.5 7.8 76 309-386 368-452 (520)
121 KOG0129 Predicted RNA-binding 89.2 0.84 1.8E-05 51.8 6.7 72 309-385 257-338 (520)
122 KOG4285 Mitotic phosphoprotein 89.0 0.83 1.8E-05 49.0 6.1 67 317-389 204-271 (350)
123 PF08675 RNA_bind: RNA binding 88.6 1.5 3.2E-05 39.1 6.4 56 310-371 8-63 (87)
124 KOG1039 Predicted E3 ubiquitin 87.8 0.19 4.1E-06 54.8 0.6 24 193-217 9-32 (344)
125 KOG1190 Polypyrimidine tract-b 87.4 1.3 2.8E-05 49.3 6.5 75 311-386 414-489 (492)
126 KOG4676 Splicing factor, argin 86.6 1.1 2.3E-05 49.6 5.4 75 313-389 9-90 (479)
127 PF04847 Calcipressin: Calcipr 86.0 2.2 4.7E-05 42.9 6.8 61 325-387 8-70 (184)
128 PF03880 DbpA: DbpA RNA bindin 85.5 2.4 5.1E-05 36.0 5.9 68 313-385 2-74 (74)
129 KOG4849 mRNA cleavage factor I 85.4 0.87 1.9E-05 49.6 3.9 73 313-386 82-160 (498)
130 KOG2068 MOT2 transcription fac 84.4 0.38 8.2E-06 52.0 0.7 80 310-389 76-164 (327)
131 KOG4307 RNA binding protein RB 82.3 3.7 8E-05 48.4 7.4 67 318-384 873-943 (944)
132 PF15023 DUF4523: Protein of u 82.2 4.3 9.4E-05 39.6 6.8 73 309-385 84-159 (166)
133 KOG0112 Large RNA-binding prot 82.0 1.5 3.2E-05 52.7 4.3 82 309-393 453-536 (975)
134 KOG1365 RNA-binding protein Fu 79.1 3.3 7.2E-05 45.8 5.4 69 311-380 159-235 (508)
135 PF10309 DUF2414: Protein of u 78.9 9.3 0.0002 32.1 6.9 54 312-370 6-62 (62)
136 KOG2416 Acinus (induces apopto 77.8 2 4.3E-05 49.7 3.5 77 308-387 441-521 (718)
137 KOG2891 Surface glycoprotein [ 75.1 2.6 5.6E-05 44.9 3.2 23 324-346 173-195 (445)
138 KOG0128 RNA-binding protein SA 74.4 0.51 1.1E-05 56.2 -2.3 64 312-376 668-735 (881)
139 KOG2193 IGF-II mRNA-binding pr 72.8 3.5 7.5E-05 46.2 3.6 77 313-396 3-84 (584)
140 KOG0115 RNA-binding protein p5 72.2 3.4 7.3E-05 43.6 3.2 73 312-385 32-111 (275)
141 KOG1040 Polyadenylation factor 70.2 2.9 6.3E-05 45.5 2.4 26 189-214 74-99 (325)
142 KOG0128 RNA-binding protein SA 68.9 2.5 5.3E-05 50.7 1.5 73 312-385 737-812 (881)
143 KOG2494 C3H1-type Zn-finger pr 68.4 1.6 3.5E-05 47.2 -0.1 21 193-213 38-59 (331)
144 COG5084 YTH1 Cleavage and poly 68.1 2.9 6.3E-05 44.7 1.8 22 194-215 136-158 (285)
145 KOG2591 c-Mpl binding protein, 67.9 7.2 0.00016 45.1 4.8 70 310-382 173-246 (684)
146 KOG1595 CCCH-type Zn-finger pr 67.6 2.6 5.6E-05 48.2 1.3 23 192-214 236-258 (528)
147 KOG0112 Large RNA-binding prot 66.3 1.3 2.7E-05 53.3 -1.5 75 309-384 370-447 (975)
148 KOG0105 Alternative splicing f 66.1 28 0.0006 35.6 8.0 69 313-385 117-187 (241)
149 KOG1763 Uncharacterized conser 60.9 3 6.4E-05 44.7 0.2 21 194-214 94-114 (343)
150 KOG1040 Polyadenylation factor 59.0 3.6 7.7E-05 44.8 0.4 24 191-214 133-156 (325)
151 KOG1492 C3H1-type Zn-finger pr 55.7 5.3 0.00011 41.4 1.0 21 194-214 208-229 (377)
152 PF10650 zf-C3H1: Putative zin 54.7 6.6 0.00014 27.0 1.0 19 194-213 2-21 (23)
153 KOG1365 RNA-binding protein Fu 47.0 21 0.00045 39.9 3.9 75 311-386 280-360 (508)
154 PF07576 BRAP2: BRCA1-associat 45.0 92 0.002 28.9 7.2 65 313-377 14-81 (110)
155 KOG1677 CCCH-type Zn-finger pr 41.3 13 0.00029 39.6 1.3 25 190-214 130-156 (332)
156 COG5063 CTH1 CCCH-type Zn-fing 40.6 13 0.00029 40.2 1.2 26 190-215 272-298 (351)
157 KOG4574 RNA-binding protein (c 40.2 17 0.00036 44.1 2.0 72 313-387 300-373 (1007)
158 KOG4210 Nuclear localization s 38.3 18 0.00039 38.7 1.8 78 310-388 87-168 (285)
159 PF15513 DUF4651: Domain of un 36.3 48 0.001 28.1 3.6 19 326-344 8-26 (62)
160 PF03467 Smg4_UPF3: Smg-4/UPF3 33.9 50 0.0011 32.8 3.9 66 310-376 6-81 (176)
161 COG5084 YTH1 Cleavage and poly 30.7 25 0.00053 37.9 1.3 22 193-214 105-126 (285)
162 PF11767 SET_assoc: Histone ly 29.6 3.5E+02 0.0075 23.1 7.7 55 323-382 11-65 (66)
163 COG5152 Uncharacterized conser 27.4 24 0.00052 36.3 0.5 18 197-214 147-164 (259)
164 KOG2494 C3H1-type Zn-finger pr 27.3 31 0.00067 37.7 1.3 23 191-214 70-92 (331)
165 KOG4454 RNA binding protein (R 26.6 13 0.00029 38.7 -1.5 55 321-375 93-150 (267)
166 KOG2253 U1 snRNP complex, subu 23.5 38 0.00082 40.1 1.2 66 313-384 42-107 (668)
167 PF03468 XS: XS domain; Inter 22.6 60 0.0013 30.3 2.1 44 324-368 29-75 (116)
168 PF12186 AcylCoA_dehyd_C: Acyl 22.0 32 0.00069 32.4 0.2 15 23-37 64-78 (114)
169 KOG1492 C3H1-type Zn-finger pr 21.0 32 0.00068 35.9 -0.1 24 194-218 263-286 (377)
170 COG5252 Uncharacterized conser 20.7 33 0.00071 36.1 -0.0 21 194-214 87-107 (299)
No 1
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.57 E-value=1.6e-15 Score=162.08 Aligned_cols=132 Identities=23% Similarity=0.269 Sum_probs=97.9
Q ss_pred HhcchhHHHHHHHHHhhhccCCCCcccccCCCCHHHHHHHHhhhhhcccccCCCC----------CCccccccCCCCCCC
Q 041390 242 LLRSKASVQQRKLAAASQFMGSFPYNKCMNFLNDTQRSAALMMGDELHNKFGTCS----------RPERNDFFGSMNPSA 311 (639)
Q Consensus 242 lLrsk~~~qq~~l~~~~~~~~~lp~~K~~~~lte~qr~aa~~L~~~~~~kf~~~~----------R~eR~df~G~~~~~s 311 (639)
++|||.+++ .|+|+|++...|..|..+...+||++..++ -.||.. ....
T Consensus 66 l~kDk~t~~----------------s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er-----~~~e 124 (510)
T KOG0144|consen 66 LIKDKSTGQ----------------SKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERER-----IVEE 124 (510)
T ss_pred eecccccCc----------------ccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhc-----cccc
Confidence 689988654 588999988888877777666776443331 111111 1234
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeE-E--cCeEEEEEec
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHF-V--CDSRVLVKPY 385 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~-L--~GR~I~Vk~a 385 (639)
+.+||+-+.. ..||.+|+++|++||.|++|+|++| .+||||||+|.++|.|..||+.||+.. + |..+|.|++|
T Consensus 125 ~KLFvg~lsK-~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFA 203 (510)
T KOG0144|consen 125 RKLFVGMLSK-QCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFA 203 (510)
T ss_pred hhhhhhhccc-cccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEec
Confidence 5555553333 8999999999999999999999996 999999999999999999999999754 4 5578999999
Q ss_pred ccCC-cchHHH
Q 041390 386 KEKG-KVQEKK 395 (639)
Q Consensus 386 ~~K~-k~~~k~ 395 (639)
..++ |..+++
T Consensus 204 Dtqkdk~~~~l 214 (510)
T KOG0144|consen 204 DTQKDKDGKRL 214 (510)
T ss_pred ccCCCchHHHH
Confidence 6544 444444
No 2
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.55 E-value=3.6e-14 Score=134.34 Aligned_cols=85 Identities=16% Similarity=0.312 Sum_probs=76.0
Q ss_pred CCCCCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEE
Q 041390 305 GSMNPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRV 380 (639)
Q Consensus 305 G~~~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I 380 (639)
+.....+++|||++++ +++||++|+++|++||+|++|+|+.| ++||||||+|++.++|++|++.||++.|+|++|
T Consensus 28 ~~~~~~~~~lfVgnL~-~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l 106 (144)
T PLN03134 28 GSLRLMSTKLFIGGLS-WGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHI 106 (144)
T ss_pred ccccCCCCEEEEeCCC-CCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence 4444567899999665 58999999999999999999999875 789999999999999999999999999999999
Q ss_pred EEEecccCCc
Q 041390 381 LVKPYKEKGK 390 (639)
Q Consensus 381 ~Vk~a~~K~k 390 (639)
+|+++.++..
T Consensus 107 ~V~~a~~~~~ 116 (144)
T PLN03134 107 RVNPANDRPS 116 (144)
T ss_pred EEEeCCcCCC
Confidence 9999977654
No 3
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.48 E-value=9.2e-14 Score=145.77 Aligned_cols=76 Identities=25% Similarity=0.350 Sum_probs=69.7
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhC-CCeEEcCeEEEEEeccc
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKG-NPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~m-ng~~L~GR~I~Vk~a~~ 387 (639)
...+++||+...+ .++|.+|+++|.+||+|+.|+|.. .++||||+|.++++|+.|.++. |...|+|++|.|.|..+
T Consensus 226 ~~I~tLyIg~l~d-~v~e~dIrdhFyqyGeirsi~~~~--~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 226 TSIKTLYIGGLND-EVLEQDIRDHFYQYGEIRSIRILP--RKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred cceeEEEeccccc-chhHHHHHHHHhhcCCeeeEEeec--ccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 4678999998777 899999999999999999999988 7889999999999999988776 77888999999999877
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.44 E-value=4.1e-13 Score=140.83 Aligned_cols=81 Identities=17% Similarity=0.194 Sum_probs=74.3
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
...++|||++++. +++|++|+++|++||.|++|+|++| ++||||||+|.+.++|.+|++.||+..|+||+|.|.+
T Consensus 267 ~~~~~lfV~NL~~-~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~ 345 (352)
T TIGR01661 267 GAGYCIFVYNLSP-DTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSF 345 (352)
T ss_pred CCCcEEEEeCCCC-CCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence 3456799997764 8999999999999999999999986 6999999999999999999999999999999999999
Q ss_pred cccCCc
Q 041390 385 YKEKGK 390 (639)
Q Consensus 385 a~~K~k 390 (639)
...|.+
T Consensus 346 ~~~~~~ 351 (352)
T TIGR01661 346 KTNKAY 351 (352)
T ss_pred ccCCCC
Confidence 988765
No 5
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.38 E-value=9.8e-13 Score=137.33 Aligned_cols=79 Identities=23% Similarity=0.348 Sum_probs=73.1
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc--CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ--QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D--ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
.-+.|||.++ .|++.|-||+.+|.+||+|.||.|+.. -|||||||||++.++|++|-+++|+..|.||+|.|..+..
T Consensus 95 ~pkRLhVSNI-PFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATa 173 (376)
T KOG0125|consen 95 TPKRLHVSNI-PFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATA 173 (376)
T ss_pred CCceeEeecC-CccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccch
Confidence 4567999954 579999999999999999999999985 7999999999999999999999999999999999999987
Q ss_pred CC
Q 041390 388 KG 389 (639)
Q Consensus 388 K~ 389 (639)
|-
T Consensus 174 rV 175 (376)
T KOG0125|consen 174 RV 175 (376)
T ss_pred hh
Confidence 74
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.37 E-value=2.2e-12 Score=135.36 Aligned_cols=78 Identities=17% Similarity=0.330 Sum_probs=72.1
Q ss_pred CceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 311 ARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 311 sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
.++|||++++. +++|++|+++|++||+|.+|+|++| ++||||||+|.+.++|++||+.||+..|.|++|.|++++
T Consensus 3 ~~~l~V~nLp~-~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~ 81 (352)
T TIGR01661 3 KTNLIVNYLPQ-TMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR 81 (352)
T ss_pred CcEEEEeCCCC-CCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence 57899997755 8999999999999999999999875 689999999999999999999999999999999999987
Q ss_pred cCC
Q 041390 387 EKG 389 (639)
Q Consensus 387 ~K~ 389 (639)
++.
T Consensus 82 ~~~ 84 (352)
T TIGR01661 82 PSS 84 (352)
T ss_pred ccc
Confidence 654
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=99.34 E-value=4.3e-12 Score=101.94 Aligned_cols=67 Identities=18% Similarity=0.392 Sum_probs=62.2
Q ss_pred EEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEE
Q 041390 314 IYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVL 381 (639)
Q Consensus 314 IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~ 381 (639)
|||++++. ++|+++|+++|++||+|..|.|+.+ +++|||||+|.+.++|++|++.|++..+.|+.|+
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 LYVGNLPP-DVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETT-TSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCC-cCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 78986665 8999999999999999999999873 8899999999999999999999999999999885
No 8
>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=99.30 E-value=7.3e-12 Score=134.16 Aligned_cols=80 Identities=18% Similarity=0.256 Sum_probs=72.9
Q ss_pred CCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEE
Q 041390 308 NPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVK 383 (639)
Q Consensus 308 ~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk 383 (639)
....++|||+.++. ++||++|+++|++||+|++|+|+.| ++||||||+|.++++|++|++.||+..|.+++|+|.
T Consensus 104 ~~~~~~LfVgnLp~-~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~ 182 (346)
T TIGR01659 104 NNSGTNLIVNYLPQ-DMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS 182 (346)
T ss_pred CCCCcEEEEeCCCC-CCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence 35678999996654 8999999999999999999999876 789999999999999999999999999999999999
Q ss_pred ecccC
Q 041390 384 PYKEK 388 (639)
Q Consensus 384 ~a~~K 388 (639)
++++.
T Consensus 183 ~a~p~ 187 (346)
T TIGR01659 183 YARPG 187 (346)
T ss_pred ccccc
Confidence 88653
No 9
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.28 E-value=4e-12 Score=128.07 Aligned_cols=76 Identities=14% Similarity=0.230 Sum_probs=69.5
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
...++|||+.+ .|.++.++||+||++||+|+++.|+.| ++||||||||.+.++|.+|++. ....|+||+..|+.
T Consensus 10 T~~TKifVggL-~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNcnl 87 (247)
T KOG0149|consen 10 TTFTKIFVGGL-AWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANCNL 87 (247)
T ss_pred ceEEEEEEcCc-ccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccccccch
Confidence 46788999955 589999999999999999999999987 9999999999999999999999 67789999999988
Q ss_pred cc
Q 041390 385 YK 386 (639)
Q Consensus 385 a~ 386 (639)
|-
T Consensus 88 A~ 89 (247)
T KOG0149|consen 88 AS 89 (247)
T ss_pred hh
Confidence 73
No 10
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.28 E-value=1.3e-11 Score=126.96 Aligned_cols=76 Identities=20% Similarity=0.344 Sum_probs=69.4
Q ss_pred CceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc-CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccC
Q 041390 311 ARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ-QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEK 388 (639)
Q Consensus 311 sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D-ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K 388 (639)
.++|||+++.. ++||++|+++|+.||+|++|+|+.| .++|||||+|.++++|+.|+. ||+..|.|+.|.|.++..-
T Consensus 4 ~rtVfVgNLs~-~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~~ 80 (260)
T PLN03120 4 VRTVKVSNVSL-KATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAEDY 80 (260)
T ss_pred CCEEEEeCCCC-CCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccCC
Confidence 57999996664 8999999999999999999999987 478999999999999999996 7999999999999998543
No 11
>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=99.27 E-value=1.7e-11 Score=137.62 Aligned_cols=89 Identities=21% Similarity=0.342 Sum_probs=79.7
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
...++|||+++.. ++|+++|+++|++||+|++|+|+.| ++||||||+|.+.++|++|++.||+..|.|++|.|.++
T Consensus 283 ~~~~~l~V~nl~~-~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a 361 (562)
T TIGR01628 283 AQGVNLYVKNLDD-TVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALA 361 (562)
T ss_pred cCCCEEEEeCCCC-ccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEec
Confidence 3567899996655 8999999999999999999999876 78999999999999999999999999999999999999
Q ss_pred ccCCcchHHHHHH
Q 041390 386 KEKGKVQEKKQQQ 398 (639)
Q Consensus 386 ~~K~k~~~k~~~~ 398 (639)
..|..+...++.+
T Consensus 362 ~~k~~~~~~~~~~ 374 (562)
T TIGR01628 362 QRKEQRRAHLQDQ 374 (562)
T ss_pred cCcHHHHHHHHHH
Confidence 9887776665554
No 12
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=5.7e-12 Score=125.94 Aligned_cols=79 Identities=25% Similarity=0.380 Sum_probs=74.7
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
...|+|||+.+.+ .+||.-|...|-.||.|.+|.||.| ++||||||+|+..|+|.+||..||..+|+||.|+|..
T Consensus 8 ~~KrtlYVGGlad-eVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~ 86 (298)
T KOG0111|consen 8 NQKRTLYVGGLAD-EVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNL 86 (298)
T ss_pred ccceeEEeccchH-HHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEee
Confidence 3578999998888 8999999999999999999999986 9999999999999999999999999999999999999
Q ss_pred cccC
Q 041390 385 YKEK 388 (639)
Q Consensus 385 a~~K 388 (639)
+++.
T Consensus 87 AkP~ 90 (298)
T KOG0111|consen 87 AKPE 90 (298)
T ss_pred cCCc
Confidence 9764
No 13
>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=99.20 E-value=5.1e-11 Score=127.74 Aligned_cols=81 Identities=21% Similarity=0.290 Sum_probs=72.2
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcC--eEEEEE
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCD--SRVLVK 383 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~G--R~I~Vk 383 (639)
..++|||++++. ++||++|+++|++||+|++|+|+.| ++||||||+|++.++|++||+.||++.+.| ++|.|+
T Consensus 192 ~~~~lfV~nLp~-~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~ 270 (346)
T TIGR01659 192 KDTNLYVTNLPR-TITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVR 270 (346)
T ss_pred ccceeEEeCCCC-cccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEE
Confidence 467899996654 8999999999999999999999876 678999999999999999999999999976 789999
Q ss_pred ecccCCcc
Q 041390 384 PYKEKGKV 391 (639)
Q Consensus 384 ~a~~K~k~ 391 (639)
+++++.+.
T Consensus 271 ~a~~~~~~ 278 (346)
T TIGR01659 271 LAEEHGKA 278 (346)
T ss_pred ECCccccc
Confidence 99876544
No 14
>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=99.16 E-value=1e-10 Score=132.93 Aligned_cols=78 Identities=14% Similarity=0.240 Sum_probs=72.1
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
..++|||+++.. ++++++|+++|++||+|++|+|++| ++||||||+|.+.++|.+|++.||+..|+|+.|+|.++
T Consensus 203 ~~~rLfVgnLp~-~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kA 281 (612)
T TIGR01645 203 KFNRIYVASVHP-DLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKC 281 (612)
T ss_pred ccceEEeecCCC-CCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEec
Confidence 457899997665 8999999999999999999999986 68999999999999999999999999999999999998
Q ss_pred ccC
Q 041390 386 KEK 388 (639)
Q Consensus 386 ~~K 388 (639)
..+
T Consensus 282 i~p 284 (612)
T TIGR01645 282 VTP 284 (612)
T ss_pred CCC
Confidence 754
No 15
>smart00362 RRM_2 RNA recognition motif.
Probab=99.14 E-value=2.9e-10 Score=89.33 Aligned_cols=70 Identities=24% Similarity=0.416 Sum_probs=63.1
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc--CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEE
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ--QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVK 383 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D--ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk 383 (639)
+|||++++. .+++++|+++|.+||+|..|++..+ .++|+|||+|.+.++|++|++.+++..+.|++|.|+
T Consensus 1 ~v~i~~l~~-~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPP-DVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCC-cCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 488886754 7899999999999999999999874 467999999999999999999999999999999874
No 16
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.13 E-value=1.4e-10 Score=117.57 Aligned_cols=78 Identities=22% Similarity=0.272 Sum_probs=73.3
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
...+|-|+++.+ +++|++|+++|.+||.|.+|.|.+| .+||||||+|.++++|.+||+.||++-+++-.|.|+|+
T Consensus 188 D~~tvRvtNLse-d~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws 266 (270)
T KOG0122|consen 188 DEATVRVTNLSE-DMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS 266 (270)
T ss_pred ccceeEEecCcc-ccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence 456899998877 8999999999999999999999886 89999999999999999999999999999999999999
Q ss_pred ccC
Q 041390 386 KEK 388 (639)
Q Consensus 386 ~~K 388 (639)
+++
T Consensus 267 kP~ 269 (270)
T KOG0122|consen 267 KPS 269 (270)
T ss_pred CCC
Confidence 876
No 17
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.13 E-value=1.5e-10 Score=118.73 Aligned_cols=81 Identities=22% Similarity=0.294 Sum_probs=74.5
Q ss_pred CCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 308 NPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 308 ~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
.+.+++|||+++.. -+||++||+.|++||+|.+|||-+ -+||+||.|++.|+|..||..||+.+|.|..|++.|-++
T Consensus 161 sp~NtsVY~G~I~~-~lte~~mr~~Fs~fG~I~EVRvFk--~qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe 237 (321)
T KOG0148|consen 161 SPDNTSVYVGNIAS-GLTEDLMRQTFSPFGPIQEVRVFK--DQGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKE 237 (321)
T ss_pred CCCCceEEeCCcCc-cccHHHHHHhcccCCcceEEEEec--ccceEEEEecchhhHHHHHHHhcCceeCceEEEEecccc
Confidence 46889999998876 699999999999999999999988 789999999999999999999999999999999999876
Q ss_pred CCcc
Q 041390 388 KGKV 391 (639)
Q Consensus 388 K~k~ 391 (639)
....
T Consensus 238 ~~~~ 241 (321)
T KOG0148|consen 238 GDDG 241 (321)
T ss_pred CCCC
Confidence 5543
No 18
>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=99.13 E-value=2.5e-10 Score=93.20 Aligned_cols=67 Identities=33% Similarity=0.478 Sum_probs=59.5
Q ss_pred EEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEE
Q 041390 314 IYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVL 381 (639)
Q Consensus 314 IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~ 381 (639)
|||++++. .+++++|+++|+.||.|..|++.++ +.+|+|||+|.+.++|++|++..++..++|+.|+
T Consensus 1 v~i~nlp~-~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPP-STTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTT-T--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCC-CCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 78987765 7999999999999999999999885 4689999999999999999999888999999885
No 19
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.11 E-value=2.8e-10 Score=115.91 Aligned_cols=77 Identities=21% Similarity=0.272 Sum_probs=69.2
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc-CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ-QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D-ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
+...+|||+++.. ++||++|+++|+.||+|++|+|++| +.+|||||+|.++++|+.|+. |++..|.+++|.|.++..
T Consensus 3 ~~g~TV~V~NLS~-~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~~~ 80 (243)
T PLN03121 3 PGGYTAEVTNLSP-KATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRWGQ 80 (243)
T ss_pred CCceEEEEecCCC-CCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeCcc
Confidence 3457999996654 9999999999999999999999987 678899999999999999995 599999999999998754
No 20
>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=99.11 E-value=1.9e-10 Score=130.71 Aligned_cols=76 Identities=20% Similarity=0.433 Sum_probs=69.7
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
..++|||+++ +++++|++|+++|++||+|.+|+|++| ++||||||+|.+.++|++|++.||+..|+||+|+|.+.
T Consensus 106 ~~~rLfVGnL-p~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp 184 (612)
T TIGR01645 106 IMCRVYVGSI-SFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 184 (612)
T ss_pred CCCEEEEcCC-CCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence 4568999965 569999999999999999999999876 79999999999999999999999999999999999865
Q ss_pred c
Q 041390 386 K 386 (639)
Q Consensus 386 ~ 386 (639)
.
T Consensus 185 ~ 185 (612)
T TIGR01645 185 S 185 (612)
T ss_pred c
Confidence 4
No 21
>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=99.11 E-value=2.8e-10 Score=89.98 Aligned_cols=56 Identities=23% Similarity=0.301 Sum_probs=51.2
Q ss_pred HHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 329 VSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 329 Lre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
|+++|++||+|++|.+...+ +++|||+|.+.++|+.|++.||+..++|++|+|.++
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 68999999999999998833 599999999999999999999999999999999875
No 22
>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=99.10 E-value=3.4e-10 Score=125.72 Aligned_cols=79 Identities=18% Similarity=0.236 Sum_probs=72.1
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccC
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEK 388 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K 388 (639)
+.+++|||+++....+|+++|+++|++||+|.+|+|+++ +||||||+|.+.++|+.|++.||++.|.|++|+|.+++.+
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~-~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~ 351 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKN-KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQ 351 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeC-CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccc
Confidence 467899999887657999999999999999999999985 5799999999999999999999999999999999987554
No 23
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.09 E-value=1.2e-10 Score=115.75 Aligned_cols=74 Identities=23% Similarity=0.272 Sum_probs=67.4
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
.|-|- |+.+.++-++|+..|++||.|-+|.||.| .+||||||.|.+..+|+.|++.|++.+|+|+.|.|..|+-
T Consensus 15 SLkVd-NLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ary 92 (256)
T KOG4207|consen 15 SLKVD-NLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARY 92 (256)
T ss_pred eEEec-ceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhc
Confidence 45554 55679999999999999999999999998 8999999999999999999999999999999999988754
No 24
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.08 E-value=2.7e-10 Score=110.88 Aligned_cols=78 Identities=21% Similarity=0.356 Sum_probs=71.6
Q ss_pred CceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccCCc
Q 041390 311 ARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEKGK 390 (639)
Q Consensus 311 sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K~k 390 (639)
.++|||+++.. ++++.||+..|+.||+|.+|-|-. ...|||||+|+++.+|+.|+..|++..|||.+|.|+....+.+
T Consensus 10 ~~kVYVGnL~~-~a~k~eLE~~F~~yG~lrsvWvAr-nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~r 87 (195)
T KOG0107|consen 10 NTKVYVGNLGS-RATKRELERAFSKYGPLRSVWVAR-NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRPR 87 (195)
T ss_pred CceEEeccCCC-CcchHHHHHHHHhcCcceeEEEee-cCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCcc
Confidence 67899997765 899999999999999999999977 6889999999999999999999999999999999999866543
No 25
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.07 E-value=1.7e-10 Score=118.33 Aligned_cols=76 Identities=16% Similarity=0.302 Sum_probs=70.4
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccC
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEK 388 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K 388 (639)
-+||+++.. .++-++||+.|.+||+|.+++|++| ++||||||.|-+.++|+.||..||+..|.+|.|+-.|+..|
T Consensus 64 hvfvgdls~-eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRK 142 (321)
T KOG0148|consen 64 HVFVGDLSP-EIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRK 142 (321)
T ss_pred eEEehhcch-hcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccC
Confidence 467775554 7899999999999999999999998 99999999999999999999999999999999999999877
Q ss_pred C
Q 041390 389 G 389 (639)
Q Consensus 389 ~ 389 (639)
.
T Consensus 143 p 143 (321)
T KOG0148|consen 143 P 143 (321)
T ss_pred c
Confidence 6
No 26
>PLN03213 repressor of silencing 3; Provisional
Probab=99.07 E-value=3.1e-10 Score=123.57 Aligned_cols=78 Identities=17% Similarity=0.240 Sum_probs=70.6
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCH--HHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYP--ETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~--E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
....|||+++. |.++++||+..|++||.|.+|.|++...||||||+|... .++.+||+.||+..+.||.|+|..|++
T Consensus 9 ~gMRIYVGNLS-ydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP 87 (759)
T PLN03213 9 GGVRLHVGGLG-ESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE 87 (759)
T ss_pred cceEEEEeCCC-CCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence 34679999655 599999999999999999999999877799999999987 789999999999999999999999865
Q ss_pred C
Q 041390 388 K 388 (639)
Q Consensus 388 K 388 (639)
.
T Consensus 88 ~ 88 (759)
T PLN03213 88 H 88 (759)
T ss_pred H
Confidence 4
No 27
>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=99.07 E-value=4.2e-10 Score=126.49 Aligned_cols=74 Identities=19% Similarity=0.290 Sum_probs=68.5
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
.|||++++. ++||++|+++|++||+|++|+|++| +++|||||+|.+.++|++|++.+|+..|.|+.|+|.|+..
T Consensus 2 sl~VgnLp~-~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~ 79 (562)
T TIGR01628 2 SLYVGDLDP-DVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQR 79 (562)
T ss_pred eEEEeCCCC-CCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccc
Confidence 699996665 8999999999999999999999886 6889999999999999999999999999999999998753
No 28
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.06 E-value=2.7e-10 Score=120.49 Aligned_cols=207 Identities=18% Similarity=0.282 Sum_probs=131.9
Q ss_pred hhh-HHHHHhcchhHHHHHHHHHhhhccCCCCcccccCCCCHHHHHHHHhhhhhcccccCCCCCCccccccCCCCCCCce
Q 041390 235 FEL-SQELLLRSKASVQQRKLAAASQFMGSFPYNKCMNFLNDTQRSAALMMGDELHNKFGTCSRPERNDFFGSMNPSARQ 313 (639)
Q Consensus 235 ~Eq-i~EllLrsk~~~qq~~l~~~~~~~~~lp~~K~~~~lte~qr~aa~~L~~~~~~kf~~~~R~eR~df~G~~~~~sr~ 313 (639)
+|| |..++||..-..|||.+...-+ ..||..|+.+.++
T Consensus 77 MeqSIK~vL~kQtiahqQQQl~~qr~---------------q~qrqqALaiMcR-------------------------- 115 (544)
T KOG0124|consen 77 MEQSIKQVLLKQTIAHQQQQLNQQRQ---------------QMQRQQALAIMCR-------------------------- 115 (544)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHhHh--------------------------
Confidence 466 6666788777777776665321 2344444444332
Q ss_pred EEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccCC
Q 041390 314 IYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEKG 389 (639)
Q Consensus 314 IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K~ 389 (639)
|||+ ...|.+.|+.||..|..||+|.+|.+.+| ++||||||+|+-+|.|+.|++.||+..+.||.|+|.+-..-.
T Consensus 116 vYVG-SIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsNmp 194 (544)
T KOG0124|consen 116 VYVG-SISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMP 194 (544)
T ss_pred eeee-eeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCCCc
Confidence 4554 22357889999999999999999999886 999999999999999999999999999999999998653332
Q ss_pred cch---HHHHHHHHhhhhccCcCCCCCCCCCCCccCcccccccchHHHHHHHHHHHHH-HHHHH--HHHHHHHhcccccc
Q 041390 390 KVQ---EKKQQQHQQQMERGEYSSACSSPSGPFDFHFGGRMLYNNQEMLRRKLEEQAD-LQQAI--EMQGRRLMNLQLHL 463 (639)
Q Consensus 390 k~~---~k~~~~~qq~~erg~f~~~~~sP~g~~d~~lg~Rm~y~~~emLRrKlEEqee-lqqAi--E~qrRrL~~Lq~~~ 463 (639)
... +..+.+ .+.+.|--+. ..-|+ + .++-+|.-||.=-+ ++..+ .--.+...++.+.+
T Consensus 195 QAQpiID~vqee-Ak~fnRiYVa--SvHpD----L---------Se~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiE 258 (544)
T KOG0124|consen 195 QAQPIIDMVQEE-AKKFNRIYVA--SVHPD----L---------SETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIE 258 (544)
T ss_pred ccchHHHHHHHH-HHhhheEEee--ecCCC----c---------cHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEE
Confidence 221 222222 2222221111 00000 0 11222222221110 00111 11245667788888
Q ss_pred CCCccccccccCCCCCCCCCCCCccCCCCCCCcccCCCCC
Q 041390 464 KNNHLNHQFHHGLSNGSPIPSPTLSHSPNNRTRIFPFEGS 503 (639)
Q Consensus 464 ~~~~~~~~~~~~~s~~~p~~~~~~~~~~~~~~~~~~~~~~ 503 (639)
+.|.+.+...++.++=+.++.+.... +-++.|++.-
T Consensus 259 y~n~qs~~eAiasMNlFDLGGQyLRV----Gk~vTPP~aL 294 (544)
T KOG0124|consen 259 YNNLQSQSEAIASMNLFDLGGQYLRV----GKCVTPPDAL 294 (544)
T ss_pred eccccchHHHhhhcchhhcccceEec----ccccCCCchh
Confidence 88888888888888888999888877 6777776654
No 29
>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=99.06 E-value=5.9e-10 Score=121.56 Aligned_cols=79 Identities=20% Similarity=0.328 Sum_probs=72.3
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
+..++|||++++. .+||++|+++|++||+|..|+|+.+ +++|||||+|.+.++|.+|++.||+..|.|++|.|.+
T Consensus 184 p~~~~l~v~nl~~-~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~ 262 (457)
T TIGR01622 184 PNFLKLYVGNLHF-NITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGY 262 (457)
T ss_pred CCCCEEEEcCCCC-CCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEE
Confidence 4478999997765 8999999999999999999999875 6799999999999999999999999999999999999
Q ss_pred cccC
Q 041390 385 YKEK 388 (639)
Q Consensus 385 a~~K 388 (639)
+...
T Consensus 263 a~~~ 266 (457)
T TIGR01622 263 AQDS 266 (457)
T ss_pred ccCC
Confidence 8743
No 30
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.05 E-value=5.1e-10 Score=116.12 Aligned_cols=86 Identities=13% Similarity=0.249 Sum_probs=76.4
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
...+||||.-+ .+.++|.+|+..|+.||+|..|+|++| ++||||||+|+++.+...|.+..++..|+|++|+|..
T Consensus 99 DPy~TLFv~RL-nydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDv 177 (335)
T KOG0113|consen 99 DPYKTLFVARL-NYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDV 177 (335)
T ss_pred Cccceeeeeec-cccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEe
Confidence 46789999733 358999999999999999999999986 9999999999999999999999999999999999999
Q ss_pred cccCCcchHHH
Q 041390 385 YKEKGKVQEKK 395 (639)
Q Consensus 385 a~~K~k~~~k~ 395 (639)
...+....|.-
T Consensus 178 ERgRTvkgW~P 188 (335)
T KOG0113|consen 178 ERGRTVKGWLP 188 (335)
T ss_pred ccccccccccc
Confidence 87776665543
No 31
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.04 E-value=8.4e-10 Score=121.78 Aligned_cols=78 Identities=14% Similarity=0.231 Sum_probs=71.4
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
..++|||++++ +.+|+++|+++|++||.|..|.|+++ +++|||||+|.+.++|+.|++.||+..|.|+.|.|+++
T Consensus 294 ~~~~l~v~nlp-~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 294 SKDRIYIGNLP-LYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred CCCEEEEeCCC-CCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 45799999765 58999999999999999999999875 68999999999999999999999999999999999998
Q ss_pred ccC
Q 041390 386 KEK 388 (639)
Q Consensus 386 ~~K 388 (639)
...
T Consensus 373 ~~~ 375 (509)
T TIGR01642 373 CVG 375 (509)
T ss_pred ccC
Confidence 643
No 32
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.04 E-value=9.3e-10 Score=105.87 Aligned_cols=76 Identities=22% Similarity=0.343 Sum_probs=70.9
Q ss_pred CceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 311 ARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 311 sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
.++|||+++. +.+|+++|+++|.+||.|..|+|+.| ++||||||+|.+.++|..|++.+++..|.|++|.|.++.
T Consensus 115 ~~~l~v~nL~-~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 115 NNTLFVGNLP-YDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred CceEEEeCCC-CCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 5899999666 59999999999999999999999875 899999999999999999999999999999999999975
Q ss_pred c
Q 041390 387 E 387 (639)
Q Consensus 387 ~ 387 (639)
.
T Consensus 194 ~ 194 (306)
T COG0724 194 P 194 (306)
T ss_pred c
Confidence 3
No 33
>smart00360 RRM RNA recognition motif.
Probab=99.03 E-value=1.1e-09 Score=85.61 Aligned_cols=63 Identities=25% Similarity=0.359 Sum_probs=57.6
Q ss_pred CCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEE
Q 041390 321 DSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVK 383 (639)
Q Consensus 321 d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk 383 (639)
++.+++++|+++|++||.|..|.|..+ +++|||||+|.+.++|.+|++.+++..+.|++|.|.
T Consensus 5 ~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 5 PPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 347899999999999999999999875 458999999999999999999999999999999873
No 34
>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=99.01 E-value=1e-09 Score=121.87 Aligned_cols=75 Identities=15% Similarity=0.166 Sum_probs=68.6
Q ss_pred CceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHh--CCCeEEcCeEEEEEecccC
Q 041390 311 ARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAK--GNPHFVCDSRVLVKPYKEK 388 (639)
Q Consensus 311 sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~--mng~~L~GR~I~Vk~a~~K 388 (639)
+++|||++++. +++|++|+++|++||+|.+|+|+. +||||||+|.+.++|++|++. +++..|.|+.|+|.++..+
T Consensus 2 s~vv~V~nLp~-~~te~~L~~~f~~fG~V~~v~i~~--~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~ 78 (481)
T TIGR01649 2 SPVVHVRNLPQ-DVVEADLVEALIPFGPVSYVMMLP--GKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQ 78 (481)
T ss_pred ccEEEEcCCCC-CCCHHHHHHHHHhcCCeeEEEEEC--CCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCc
Confidence 68999996654 899999999999999999999998 789999999999999999986 4789999999999998654
No 35
>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=99.01 E-value=1.1e-09 Score=124.12 Aligned_cols=76 Identities=24% Similarity=0.228 Sum_probs=69.3
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcC--CCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIY--GPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqF--G~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
..++|||+++. +.+||++|+++|++| |+|++|++++ +||||+|++.++|++|++.||+.+|+|+.|.|.++++
T Consensus 232 ~~k~LfVgNL~-~~~tee~L~~~F~~f~~G~I~rV~~~r----gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp 306 (578)
T TIGR01648 232 KVKILYVRNLM-TTTTEEIIEKSFSEFKPGKVERVKKIR----DYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKP 306 (578)
T ss_pred cccEEEEeCCC-CCCCHHHHHHHHHhcCCCceEEEEeec----CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence 46789999665 589999999999999 9999998875 7999999999999999999999999999999999987
Q ss_pred CCc
Q 041390 388 KGK 390 (639)
Q Consensus 388 K~k 390 (639)
+.+
T Consensus 307 ~~~ 309 (578)
T TIGR01648 307 VDK 309 (578)
T ss_pred CCc
Confidence 654
No 36
>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=99.00 E-value=1e-09 Score=124.55 Aligned_cols=78 Identities=19% Similarity=0.209 Sum_probs=68.9
Q ss_pred CCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEc-CeEEEEE
Q 041390 308 NPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVC-DSRVLVK 383 (639)
Q Consensus 308 ~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~-GR~I~Vk 383 (639)
....++|||++++. +++|++|+++|++||+|.+|+|+.| ++||||||+|.+.++|++||+.||+..|. |+.|.|+
T Consensus 55 p~~~~~lFVgnLp~-~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~ 133 (578)
T TIGR01648 55 PGRGCEVFVGKIPR-DLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVC 133 (578)
T ss_pred CCCCCEEEeCCCCC-CCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccc
Confidence 34568999996665 8999999999999999999999986 89999999999999999999999998885 7777776
Q ss_pred ecc
Q 041390 384 PYK 386 (639)
Q Consensus 384 ~a~ 386 (639)
++.
T Consensus 134 ~S~ 136 (578)
T TIGR01648 134 ISV 136 (578)
T ss_pred ccc
Confidence 654
No 37
>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=1.4e-09 Score=118.54 Aligned_cols=77 Identities=23% Similarity=0.323 Sum_probs=69.7
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
...++|||++++ +++++++|+++|++||+|.+|+|+.| ++||||||+|.+.++|++||. |++..|.|+.|.|..
T Consensus 87 ~~~~~l~V~nlp-~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~ 164 (457)
T TIGR01622 87 RDDRTVFVLQLA-LKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQS 164 (457)
T ss_pred cCCcEEEEeCCC-CCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEee
Confidence 457899999665 48999999999999999999999986 789999999999999999997 599999999999988
Q ss_pred ccc
Q 041390 385 YKE 387 (639)
Q Consensus 385 a~~ 387 (639)
...
T Consensus 165 ~~~ 167 (457)
T TIGR01622 165 SQA 167 (457)
T ss_pred cch
Confidence 654
No 38
>smart00361 RRM_1 RNA recognition motif.
Probab=98.97 E-value=1.7e-09 Score=89.92 Aligned_cols=57 Identities=25% Similarity=0.318 Sum_probs=51.4
Q ss_pred HHHHHHHhh----cCCCeeEEE-eec------cCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEE
Q 041390 326 EEDVSNYFS----IYGPVHDVR-IPY------QQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLV 382 (639)
Q Consensus 326 EedLre~Fs----qFG~V~dVr-Ip~------DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~V 382 (639)
+++|+++|+ +||+|.+|. |+. +++||||||+|.+.++|.+|++.||+..+.||.|.|
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 688999999 999999995 443 357999999999999999999999999999999986
No 39
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.97 E-value=5.6e-10 Score=109.22 Aligned_cols=76 Identities=20% Similarity=0.277 Sum_probs=71.6
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
+..+|||+++.+ .++|+.|+++|-+.|+|.+|.||+| .++|||||+|.++|+|+-|++.||...|.||+|+|..+
T Consensus 8 qd~tiyvgnld~-kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka 86 (203)
T KOG0131|consen 8 QDATLYVGNLDE-KVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA 86 (203)
T ss_pred CCceEEEecCCH-HHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence 456899997766 8999999999999999999999997 79999999999999999999999999999999999998
Q ss_pred c
Q 041390 386 K 386 (639)
Q Consensus 386 ~ 386 (639)
.
T Consensus 87 s 87 (203)
T KOG0131|consen 87 S 87 (203)
T ss_pred c
Confidence 6
No 40
>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=98.96 E-value=5.4e-09 Score=82.52 Aligned_cols=71 Identities=25% Similarity=0.324 Sum_probs=63.7
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
+|||++++. .+++++|+++|..||+|..+.+..+ +.+|+|||+|.+.++|..|++.+++..+.|++|.|.+
T Consensus 1 ~i~i~~l~~-~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPP-DVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCC-ccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 478886655 6999999999999999999999875 3589999999999999999999999999999999864
No 41
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.88 E-value=1.8e-09 Score=111.77 Aligned_cols=79 Identities=18% Similarity=0.249 Sum_probs=71.8
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccCCcch
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEKGKVQ 392 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K~k~~ 392 (639)
.+||+++++ ..++.+||.+|.+||+|.+|.|++ .||||..++...++.||..||+..|+|..|.|+.++.|.+..
T Consensus 4 KLFIGNLp~-~~~~~elr~lFe~ygkVlECDIvK----NYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKsk~s 78 (346)
T KOG0109|consen 4 KLFIGNLPR-EATEQELRSLFEQYGKVLECDIVK----NYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKSKAS 78 (346)
T ss_pred chhccCCCc-ccchHHHHHHHHhhCceEeeeeec----ccceEEeecccccHHHHhhcccceecceEEEEEeccccCCCc
Confidence 478887766 899999999999999999999998 899999999999999999999999999999999999887665
Q ss_pred HHHH
Q 041390 393 EKKQ 396 (639)
Q Consensus 393 ~k~~ 396 (639)
.++.
T Consensus 79 tkl~ 82 (346)
T KOG0109|consen 79 TKLH 82 (346)
T ss_pred cccc
Confidence 5543
No 42
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.86 E-value=6.3e-09 Score=112.72 Aligned_cols=82 Identities=17% Similarity=0.227 Sum_probs=72.6
Q ss_pred CCCCCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEE-cCeE
Q 041390 305 GSMNPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFV-CDSR 379 (639)
Q Consensus 305 G~~~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L-~GR~ 379 (639)
|...+..+.|||+.++. ++.|++|..+|++-|+|-++|||.| .+||||||+|.+.++|+.|++.+|+++| .|+.
T Consensus 77 g~~p~~G~EVfvGkIPr-D~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~ 155 (506)
T KOG0117|consen 77 GPPPPRGCEVFVGKIPR-DVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKL 155 (506)
T ss_pred CCCCCCCceEEecCCCc-cccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCE
Confidence 34456778999986665 7999999999999999999999986 8999999999999999999999999998 6899
Q ss_pred EEEEeccc
Q 041390 380 VLVKPYKE 387 (639)
Q Consensus 380 I~Vk~a~~ 387 (639)
|.|+....
T Consensus 156 igvc~Sva 163 (506)
T KOG0117|consen 156 LGVCVSVA 163 (506)
T ss_pred eEEEEeee
Confidence 98877643
No 43
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.83 E-value=1.1e-09 Score=107.16 Aligned_cols=75 Identities=19% Similarity=0.258 Sum_probs=68.9
Q ss_pred CceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 311 ARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 311 sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
+--|||+++ ++.+||.||-..|++||+|++|.+++| +++||||..|++..+--.|+..||+..|.||.|+|....
T Consensus 35 sA~Iyiggl-~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~ 113 (219)
T KOG0126|consen 35 SAYIYIGGL-PYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS 113 (219)
T ss_pred ceEEEECCC-cccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence 456999844 579999999999999999999999997 999999999999999999999999999999999998753
No 44
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.79 E-value=1.3e-08 Score=111.92 Aligned_cols=79 Identities=22% Similarity=0.276 Sum_probs=72.7
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
+.|||+++ .|+++|++|.++|++.|.|.++++++| +.|||||++|.+.++++.|++.+|+.++.||+|+|.++..
T Consensus 19 ~~v~vgni-p~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~ 97 (435)
T KOG0108|consen 19 SSVFVGNI-PYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN 97 (435)
T ss_pred cceEecCC-CCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence 89999944 579999999999999999999999986 9999999999999999999999999999999999999865
Q ss_pred CCcc
Q 041390 388 KGKV 391 (639)
Q Consensus 388 K~k~ 391 (639)
+..+
T Consensus 98 ~~~~ 101 (435)
T KOG0108|consen 98 RKNA 101 (435)
T ss_pred cchh
Confidence 5433
No 45
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.79 E-value=8.6e-09 Score=111.70 Aligned_cols=78 Identities=22% Similarity=0.313 Sum_probs=71.1
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccCC
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEKG 389 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K~ 389 (639)
...-|||+++.. ++|||.|++.|++||.|++|+.++| ||||.|.++++|-+|++.||+.+|+|..|.|..|++-.
T Consensus 258 ~VKvLYVRNL~~-~tTeE~lk~~F~~~G~veRVkk~rD----YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~ 332 (506)
T KOG0117|consen 258 KVKVLYVRNLME-STTEETLKKLFNEFGKVERVKKPRD----YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVD 332 (506)
T ss_pred heeeeeeeccch-hhhHHHHHHHHHhccceEEeecccc----eeEEeecchHHHHHHHHHhcCceecCceEEEEecCChh
Confidence 556799998877 8999999999999999999998874 99999999999999999999999999999999998765
Q ss_pred cch
Q 041390 390 KVQ 392 (639)
Q Consensus 390 k~~ 392 (639)
+..
T Consensus 333 k~k 335 (506)
T KOG0117|consen 333 KKK 335 (506)
T ss_pred hhc
Confidence 543
No 46
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=98.79 E-value=8.9e-09 Score=96.18 Aligned_cols=77 Identities=14% Similarity=0.118 Sum_probs=68.9
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
..+.||||+++ .+-++||+|.++|+++|+|..|-|-.| ..-||+||+|-+.++|+.|++-+++..|+.|.|.|.|
T Consensus 34 r~S~tvyVgNl-SfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~ 112 (153)
T KOG0121|consen 34 RKSCTVYVGNL-SFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDW 112 (153)
T ss_pred hhcceEEEeee-eeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeec
Confidence 57889999954 568999999999999999999977555 4569999999999999999999999999999999998
Q ss_pred cc
Q 041390 385 YK 386 (639)
Q Consensus 385 a~ 386 (639)
-.
T Consensus 113 D~ 114 (153)
T KOG0121|consen 113 DA 114 (153)
T ss_pred cc
Confidence 53
No 47
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.76 E-value=2.5e-08 Score=102.28 Aligned_cols=78 Identities=21% Similarity=0.229 Sum_probs=70.6
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
..-.|||-++.. +.+|.-|+++|++||-|+.|+|++| ++||||||++.+.++|..|+..+|+..+.+|.|.|.+.
T Consensus 277 ~g~ciFvYNLsp-d~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFK 355 (360)
T KOG0145|consen 277 GGWCIFVYNLSP-DADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFK 355 (360)
T ss_pred CeeEEEEEecCC-CchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEe
Confidence 345788876655 8899999999999999999999997 99999999999999999999999999999999999886
Q ss_pred ccC
Q 041390 386 KEK 388 (639)
Q Consensus 386 ~~K 388 (639)
..|
T Consensus 356 tnk 358 (360)
T KOG0145|consen 356 TNK 358 (360)
T ss_pred cCC
Confidence 544
No 48
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.74 E-value=1.7e-08 Score=103.67 Aligned_cols=87 Identities=21% Similarity=0.294 Sum_probs=69.9
Q ss_pred CccccccCCCCCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeE
Q 041390 298 PERNDFFGSMNPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHF 374 (639)
Q Consensus 298 ~eR~df~G~~~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~ 374 (639)
.||+.|+||.++ .-.|||||.+|..||+|++|.|.++ .+||||||.|.+..+|+.||..+++..
T Consensus 18 ~drklfvgml~k-------------qq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSq 84 (371)
T KOG0146|consen 18 DDRKLFVGMLNK-------------QQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQ 84 (371)
T ss_pred cchhhhhhhhcc-------------cccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccc
Confidence 467777787766 5689999999999999999999874 899999999999999999999998754
Q ss_pred -Ec--CeEEEEEeccc-CCcchHHHHH
Q 041390 375 -VC--DSRVLVKPYKE-KGKVQEKKQQ 397 (639)
Q Consensus 375 -L~--GR~I~Vk~a~~-K~k~~~k~~~ 397 (639)
+- ...|.||.+.. |++..+++++
T Consensus 85 TmpGASSSLVVK~ADTdkER~lRRMQQ 111 (371)
T KOG0146|consen 85 TMPGASSSLVVKFADTDKERTLRRMQQ 111 (371)
T ss_pred cCCCCccceEEEeccchHHHHHHHHHH
Confidence 33 35688999854 4443444443
No 49
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.74 E-value=2.1e-08 Score=110.73 Aligned_cols=79 Identities=22% Similarity=0.247 Sum_probs=70.7
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccCC
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEKG 389 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K~ 389 (639)
.+.|+ +.+|.+.+.+|+.+|+.||.|.+|.||+. +-.|||||.|.+..+|..|++.+|+++|+||+|-|.||..|.
T Consensus 119 rLIIR-NLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd 197 (678)
T KOG0127|consen 119 RLIIR-NLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKD 197 (678)
T ss_pred eEEee-cCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccc
Confidence 45566 66789999999999999999999999972 566999999999999999999999999999999999998886
Q ss_pred cch
Q 041390 390 KVQ 392 (639)
Q Consensus 390 k~~ 392 (639)
...
T Consensus 198 ~ye 200 (678)
T KOG0127|consen 198 TYE 200 (678)
T ss_pred ccc
Confidence 543
No 50
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.74 E-value=5.7e-09 Score=110.53 Aligned_cols=82 Identities=27% Similarity=0.393 Sum_probs=73.3
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
...+|+|+. ..|.++|+.|++||++||+|.+|.|++| ++|||+||+|++.+.+.+++.. ..|.|+||.|.++.+
T Consensus 5 ~~~KlfiGg-isw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~-~~h~~dgr~ve~k~a 82 (311)
T KOG4205|consen 5 ESGKLFIGG-LSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNA-RTHKLDGRSVEPKRA 82 (311)
T ss_pred CCcceeecC-cCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecc-cccccCCccccceec
Confidence 467788884 4679999999999999999999999997 9999999999999999999887 889999999999999
Q ss_pred ccCCcchH
Q 041390 386 KEKGKVQE 393 (639)
Q Consensus 386 ~~K~k~~~ 393 (639)
.++.....
T Consensus 83 v~r~~~~~ 90 (311)
T KOG4205|consen 83 VSREDQTK 90 (311)
T ss_pred cCcccccc
Confidence 88775443
No 51
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.74 E-value=5e-08 Score=88.36 Aligned_cols=80 Identities=19% Similarity=0.233 Sum_probs=71.3
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc-CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ-QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D-ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
...|.+||.+ .++++|.+++-++|++||.|..|||-.. .-||-|||.|++..+|++|++.|++..++++-+.|-.++.
T Consensus 16 evnriLyirN-Lp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~ 94 (124)
T KOG0114|consen 16 EVNRILYIRN-LPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQP 94 (124)
T ss_pred hhheeEEEec-CCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCH
Confidence 3567889984 4579999999999999999999999654 7899999999999999999999999999999999998865
Q ss_pred CC
Q 041390 388 KG 389 (639)
Q Consensus 388 K~ 389 (639)
..
T Consensus 95 ~~ 96 (124)
T KOG0114|consen 95 ED 96 (124)
T ss_pred HH
Confidence 43
No 52
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.73 E-value=1.7e-08 Score=115.02 Aligned_cols=81 Identities=19% Similarity=0.251 Sum_probs=75.9
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccC
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEK 388 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K 388 (639)
-.+|||||+.+.. +++|.||+++|+.||+|++|.++- .||||||++..+.+|++|+.+|+.+.+.++.|+|.|+..+
T Consensus 419 V~SrTLwvG~i~k-~v~e~dL~~~feefGeiqSi~li~--~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~ 495 (894)
T KOG0132|consen 419 VCSRTLWVGGIPK-NVTEQDLANLFEEFGEIQSIILIP--PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGK 495 (894)
T ss_pred Eeeeeeeeccccc-hhhHHHHHHHHHhcccceeEeecc--CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccC
Confidence 4689999997766 899999999999999999999988 9999999999999999999999999999999999999988
Q ss_pred Ccch
Q 041390 389 GKVQ 392 (639)
Q Consensus 389 ~k~~ 392 (639)
+-+.
T Consensus 496 G~ks 499 (894)
T KOG0132|consen 496 GPKS 499 (894)
T ss_pred Ccch
Confidence 7665
No 53
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.71 E-value=3.3e-08 Score=101.33 Aligned_cols=79 Identities=14% Similarity=0.307 Sum_probs=71.2
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
..+++.|.+++. .+|+++||.+|+..|+|++|++++| ++-|||||.|.++++|++|+..+|+..|..+.|+|..+
T Consensus 40 skTNLIvNYLPQ-~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyA 118 (360)
T KOG0145|consen 40 SKTNLIVNYLPQ-NMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYA 118 (360)
T ss_pred ccceeeeeeccc-ccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEec
Confidence 445666666665 8999999999999999999999997 78899999999999999999999999999999999999
Q ss_pred ccCC
Q 041390 386 KEKG 389 (639)
Q Consensus 386 ~~K~ 389 (639)
++..
T Consensus 119 RPSs 122 (360)
T KOG0145|consen 119 RPSS 122 (360)
T ss_pred cCCh
Confidence 7654
No 54
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.71 E-value=2.4e-08 Score=98.30 Aligned_cols=79 Identities=19% Similarity=0.309 Sum_probs=69.9
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc-CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ-QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D-ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
..++.|||++++. ++.|.+|+++|.+||.|.+|.+..- ....||||+|++..+|+.||..-++..++|.+|.|+.+..
T Consensus 4 r~~~~iyvGNLP~-diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprg 82 (241)
T KOG0105|consen 4 RNSRRIYVGNLPG-DIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRG 82 (241)
T ss_pred cccceEEecCCCc-chhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccC
Confidence 4578999997776 8999999999999999999988542 3457999999999999999999999999999999999865
Q ss_pred C
Q 041390 388 K 388 (639)
Q Consensus 388 K 388 (639)
-
T Consensus 83 g 83 (241)
T KOG0105|consen 83 G 83 (241)
T ss_pred C
Confidence 4
No 55
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.70 E-value=1.8e-08 Score=111.56 Aligned_cols=79 Identities=22% Similarity=0.364 Sum_probs=72.4
Q ss_pred EEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccCC
Q 041390 314 IYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEKG 389 (639)
Q Consensus 314 IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K~ 389 (639)
+||+++ +++++|++|+.+|+.||+|+.|.++.| +++|||||+|.+.++|++|++.||+-+|.||.|+|....++.
T Consensus 281 l~vgnL-HfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~ 359 (549)
T KOG0147|consen 281 LYVGNL-HFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERV 359 (549)
T ss_pred hhhccc-ccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeec
Confidence 899944 569999999999999999999999886 899999999999999999999999999999999999988776
Q ss_pred cchH
Q 041390 390 KVQE 393 (639)
Q Consensus 390 k~~~ 393 (639)
+...
T Consensus 360 ~~~~ 363 (549)
T KOG0147|consen 360 DTKE 363 (549)
T ss_pred cccc
Confidence 5543
No 56
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.69 E-value=2.4e-08 Score=107.92 Aligned_cols=81 Identities=19% Similarity=0.206 Sum_probs=68.2
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeE-Ec--CeEEEE
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHF-VC--DSRVLV 382 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~-L~--GR~I~V 382 (639)
..-.+||+-++. .++|.|||++|++||.|.+|.|++| .+|||+||+|.++++|.+|+.+++..+ |- ...|.|
T Consensus 33 ~~vKlfVgqIpr-t~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqv 111 (510)
T KOG0144|consen 33 SAVKLFVGQIPR-TASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQV 111 (510)
T ss_pred hhhhheeccCCc-cccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceee
Confidence 455689985554 8999999999999999999999998 899999999999999999999996654 43 467899
Q ss_pred EecccCCcc
Q 041390 383 KPYKEKGKV 391 (639)
Q Consensus 383 k~a~~K~k~ 391 (639)
+++....++
T Consensus 112 k~Ad~E~er 120 (510)
T KOG0144|consen 112 KYADGERER 120 (510)
T ss_pred cccchhhhc
Confidence 998654444
No 57
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.69 E-value=3.9e-08 Score=106.59 Aligned_cols=77 Identities=16% Similarity=0.346 Sum_probs=71.3
Q ss_pred EEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc--CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccCCcc
Q 041390 314 IYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ--QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEKGKV 391 (639)
Q Consensus 314 IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D--ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K~k~ 391 (639)
|||.++.+ .++..+|.+.|+.||+|.+|+|..+ .++|| ||.|+++++|++|++.||+..+.|+.|+|..+..+.++
T Consensus 79 ~~i~nl~~-~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er 156 (369)
T KOG0123|consen 79 VFIKNLDE-SIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEER 156 (369)
T ss_pred eeecCCCc-ccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhh
Confidence 99997766 8999999999999999999999986 79999 99999999999999999999999999999998776655
Q ss_pred h
Q 041390 392 Q 392 (639)
Q Consensus 392 ~ 392 (639)
.
T Consensus 157 ~ 157 (369)
T KOG0123|consen 157 E 157 (369)
T ss_pred c
Confidence 4
No 58
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.62 E-value=3.7e-08 Score=104.46 Aligned_cols=82 Identities=32% Similarity=0.434 Sum_probs=74.1
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
..+.|||+.+.. +++|+++++||.+||.|.++.|++| +.||||||+|.+++.+++++.. ..|.|+|+.|.|+.|
T Consensus 96 ~tkkiFvGG~~~-~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~-~f~~~~gk~vevkrA 173 (311)
T KOG4205|consen 96 RTKKIFVGGLPP-DTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQ-KFHDFNGKKVEVKRA 173 (311)
T ss_pred ceeEEEecCcCC-CCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceeccc-ceeeecCceeeEeec
Confidence 466899985554 8999999999999999999999997 8999999999999999999988 999999999999999
Q ss_pred ccCCcchH
Q 041390 386 KEKGKVQE 393 (639)
Q Consensus 386 ~~K~k~~~ 393 (639)
.+|.....
T Consensus 174 ~pk~~~~~ 181 (311)
T KOG4205|consen 174 IPKEVMQS 181 (311)
T ss_pred cchhhccc
Confidence 98875543
No 59
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.60 E-value=1.2e-07 Score=104.90 Aligned_cols=75 Identities=21% Similarity=0.312 Sum_probs=63.9
Q ss_pred CCCCceEEEeCCCCCCCCHHHHHHHhhcC------------CCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEE
Q 041390 308 NPSARQIYLTFPADSTFREEDVSNYFSIY------------GPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFV 375 (639)
Q Consensus 308 ~~~sr~IYV~~~~d~~~TEedLre~FsqF------------G~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L 375 (639)
....|+|||++++ +.+|+++|+++|.+| +.|..|.+.. .+|||||+|.+.++|..||+ ||+..|
T Consensus 172 ~~~~r~lyVgnLp-~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~--~kg~afVeF~~~e~A~~Al~-l~g~~~ 247 (509)
T TIGR01642 172 TRQARRLYVGGIP-PEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINK--EKNFAFLEFRTVEEATFAMA-LDSIIY 247 (509)
T ss_pred CccccEEEEeCCC-CCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECC--CCCEEEEEeCCHHHHhhhhc-CCCeEe
Confidence 4577899999776 489999999999975 4566666655 89999999999999999995 899999
Q ss_pred cCeEEEEEecc
Q 041390 376 CDSRVLVKPYK 386 (639)
Q Consensus 376 ~GR~I~Vk~a~ 386 (639)
.|+.|.|.+..
T Consensus 248 ~g~~l~v~r~~ 258 (509)
T TIGR01642 248 SNVFLKIRRPH 258 (509)
T ss_pred eCceeEecCcc
Confidence 99999997654
No 60
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.55 E-value=9.5e-08 Score=90.10 Aligned_cols=77 Identities=18% Similarity=0.238 Sum_probs=69.3
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
=.|||+...+ ..||++|.+.|..||+|..|.+-.| ..||||.|+|++.++|++|++.||+..|.|..|.|.|+--
T Consensus 73 wIi~VtgvHe-EatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv 151 (170)
T KOG0130|consen 73 WIIFVTGVHE-EATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFV 151 (170)
T ss_pred EEEEEeccCc-chhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEe
Confidence 3688888877 8999999999999999999988665 6889999999999999999999999999999999999844
Q ss_pred CC
Q 041390 388 KG 389 (639)
Q Consensus 388 K~ 389 (639)
++
T Consensus 152 ~g 153 (170)
T KOG0130|consen 152 KG 153 (170)
T ss_pred cC
Confidence 33
No 61
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.52 E-value=2.2e-07 Score=93.67 Aligned_cols=83 Identities=14% Similarity=0.223 Sum_probs=74.1
Q ss_pred CCceEEEeCCCCCCCCHHHHHH----HhhcCCCeeEEEeecc-CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 310 SARQIYLTFPADSTFREEDVSN----YFSIYGPVHDVRIPYQ-QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre----~FsqFG~V~dVrIp~D-ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
.+.||||.++.+ .+..++|+. +|++||+|.+|...+- +.||=|||.|.+.+.|-.|++.|+|..+.|+.+++.+
T Consensus 8 pn~TlYInnLne-kI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqy 86 (221)
T KOG4206|consen 8 PNGTLYINNLNE-KIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQY 86 (221)
T ss_pred CCceEeehhccc-cccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheec
Confidence 344999998877 889999999 9999999999988654 8999999999999999999999999999999999999
Q ss_pred cccCCcchH
Q 041390 385 YKEKGKVQE 393 (639)
Q Consensus 385 a~~K~k~~~ 393 (639)
|+.+.....
T Consensus 87 A~s~sdii~ 95 (221)
T KOG4206|consen 87 AKSDSDIIA 95 (221)
T ss_pred ccCccchhh
Confidence 988765443
No 62
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.51 E-value=2.9e-07 Score=99.77 Aligned_cols=79 Identities=24% Similarity=0.311 Sum_probs=70.8
Q ss_pred CCCCceEEEeCCCCCCCCHHHHHHHhh-cCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEE
Q 041390 308 NPSARQIYLTFPADSTFREEDVSNYFS-IYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVK 383 (639)
Q Consensus 308 ~~~sr~IYV~~~~d~~~TEedLre~Fs-qFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk 383 (639)
.+..|.+||+++ .|++...+|+++|. +-|+|+-|.+..| +.||||.|+|+++|.+++|++.||.+.+.||+|.||
T Consensus 41 ~~r~R~vfItNI-pyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vK 119 (608)
T KOG4212|consen 41 AARDRSVFITNI-PYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVK 119 (608)
T ss_pred ccccceEEEecC-cchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEe
Confidence 345677999955 46899999999997 6999999999987 999999999999999999999999999999999998
Q ss_pred eccc
Q 041390 384 PYKE 387 (639)
Q Consensus 384 ~a~~ 387 (639)
.-..
T Consensus 120 Ed~d 123 (608)
T KOG4212|consen 120 EDHD 123 (608)
T ss_pred ccCc
Confidence 7643
No 63
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.48 E-value=1.9e-07 Score=103.43 Aligned_cols=79 Identities=25% Similarity=0.410 Sum_probs=71.7
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
.||||+.++ ++++.++|.++|+.+|+|..|.++.+ .+||||||+|.-.|++++|++..+...+.||.|.|..++.
T Consensus 6 ~TlfV~~lp-~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~ 84 (678)
T KOG0127|consen 6 ATLFVSRLP-FSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKK 84 (678)
T ss_pred ceEEEecCC-CccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccc
Confidence 689998555 58999999999999999999999874 8999999999999999999999999999999999999976
Q ss_pred CCcc
Q 041390 388 KGKV 391 (639)
Q Consensus 388 K~k~ 391 (639)
|...
T Consensus 85 R~r~ 88 (678)
T KOG0127|consen 85 RARS 88 (678)
T ss_pred cccc
Confidence 6543
No 64
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.39 E-value=4.1e-07 Score=89.44 Aligned_cols=81 Identities=16% Similarity=0.288 Sum_probs=70.7
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEE-Eeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDV-RIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dV-rIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
...+|||+++.. .++|.-|.+.|+.||.+.+. .|++| .++|||||.|++.|.+.+|++.||++.++.|+|.|..
T Consensus 95 vganlfvgNLd~-~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~y 173 (203)
T KOG0131|consen 95 VGANLFVGNLDP-EVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSY 173 (203)
T ss_pred ccccccccccCc-chhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEE
Confidence 446899997776 99999999999999998774 45543 8999999999999999999999999999999999999
Q ss_pred cccCCcc
Q 041390 385 YKEKGKV 391 (639)
Q Consensus 385 a~~K~k~ 391 (639)
+..+...
T Consensus 174 a~k~~~k 180 (203)
T KOG0131|consen 174 AFKKDTK 180 (203)
T ss_pred EEecCCC
Confidence 8766544
No 65
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.39 E-value=1.5e-06 Score=86.96 Aligned_cols=76 Identities=20% Similarity=0.347 Sum_probs=65.2
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcC-CCeeEEEeec----cCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIY-GPVHDVRIPY----QQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqF-G~V~dVrIp~----DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
.-+||..+.. -+.|.++..||.+| |.|..+|+.+ +.|||||||+|++.+.|+-|.+.||+..|.|+.|.|..-.
T Consensus 50 g~~~~~~~p~-g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmp 128 (214)
T KOG4208|consen 50 GVVYVDHIPH-GFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMP 128 (214)
T ss_pred cceeeccccc-chhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeC
Confidence 3467765554 68899999999999 8888888866 4999999999999999999999999999999999887765
Q ss_pred cC
Q 041390 387 EK 388 (639)
Q Consensus 387 ~K 388 (639)
+.
T Consensus 129 pe 130 (214)
T KOG4208|consen 129 PE 130 (214)
T ss_pred ch
Confidence 44
No 66
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=7e-07 Score=94.92 Aligned_cols=80 Identities=19% Similarity=0.333 Sum_probs=68.3
Q ss_pred CCCceEEE-eCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCC----CceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEE
Q 041390 309 PSARQIYL-TFPADSTFREEDVSNYFSIYGPVHDVRIPYQQK----RMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVK 383 (639)
Q Consensus 309 ~~sr~IYV-~~~~d~~~TEedLre~FsqFG~V~dVrIp~Dks----RGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk 383 (639)
+..+-+|| ++++ -+|++||.-+|+.||+|.+|.|++|+. --||||+|++.+++++|.=+|++..|+.|+|.|.
T Consensus 237 PPeNVLFVCKLNP--VTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVD 314 (479)
T KOG0415|consen 237 PPENVLFVCKLNP--VTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVD 314 (479)
T ss_pred CCcceEEEEecCC--cccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEee
Confidence 44556777 4444 478999999999999999999999844 4499999999999999999999999999999998
Q ss_pred ecccCCc
Q 041390 384 PYKEKGK 390 (639)
Q Consensus 384 ~a~~K~k 390 (639)
+.+.-.+
T Consensus 315 FSQSVsk 321 (479)
T KOG0415|consen 315 FSQSVSK 321 (479)
T ss_pred hhhhhhh
Confidence 8765544
No 67
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.32 E-value=4.8e-07 Score=93.28 Aligned_cols=82 Identities=18% Similarity=0.371 Sum_probs=73.2
Q ss_pred CCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEE
Q 041390 308 NPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVK 383 (639)
Q Consensus 308 ~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk 383 (639)
.+...+|||-.++. .+.+.+|-.+|-.||.|++.+|-.| ++|.||||.|++..+++.||..||+..|.-++|+|.
T Consensus 282 GPeGCNlFIYHLPQ-EFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQ 360 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQ-EFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQ 360 (371)
T ss_pred CCCcceEEEEeCch-hhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhh
Confidence 36778899976655 7899999999999999999999766 899999999999999999999999999999999998
Q ss_pred ecccCCc
Q 041390 384 PYKEKGK 390 (639)
Q Consensus 384 ~a~~K~k 390 (639)
..++|..
T Consensus 361 LKRPkda 367 (371)
T KOG0146|consen 361 LKRPKDA 367 (371)
T ss_pred hcCcccc
Confidence 8776653
No 68
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.32 E-value=5.7e-07 Score=97.62 Aligned_cols=84 Identities=20% Similarity=0.389 Sum_probs=74.5
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
....++||.+... .++++.|+++|+.||+|..++|+.+ +++|||||.|.+.++|.+|+..||+..+.++.|.|.++
T Consensus 268 ~~~~nl~vknld~-~~~~e~L~~~f~~~GeI~s~kv~~~~~g~skG~gfV~fs~~eeA~~A~~~~n~~~i~~k~l~vav~ 346 (369)
T KOG0123|consen 268 LQGANLYVKNLDE-TLSDEKLRKIFSSFGEITSAKVMVDENGKSKGFGFVEFSSPEEAKKAMTEMNGRLIGGKPLYVAVA 346 (369)
T ss_pred ccccccccccCcc-ccchhHHHHHHhcccceeeEEEEeccCCCccceEEEEcCCHHHHHHHHHhhChhhhcCCchhhhHH
Confidence 4667899987554 8999999999999999999999884 99999999999999999999999999999999999998
Q ss_pred ccCCcchH
Q 041390 386 KEKGKVQE 393 (639)
Q Consensus 386 ~~K~k~~~ 393 (639)
+.+..+..
T Consensus 347 qr~~~r~~ 354 (369)
T KOG0123|consen 347 QRKEDRRA 354 (369)
T ss_pred hhhccchh
Confidence 85544433
No 69
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.27 E-value=8.8e-07 Score=92.29 Aligned_cols=80 Identities=16% Similarity=0.203 Sum_probs=72.3
Q ss_pred CCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 308 NPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 308 ~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
++.+++|.|+++.+ +++..+||..|.+||+|.+|.|++ +|+||.|+..++|..|++.||+.++.|+++.|.....
T Consensus 75 sk~stkl~vgNis~-tctn~ElRa~fe~ygpviecdivk----dy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~sts 149 (346)
T KOG0109|consen 75 SKASTKLHVGNISP-TCTNQELRAKFEKYGPVIECDIVK----DYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTS 149 (346)
T ss_pred CCCccccccCCCCc-cccCHHHhhhhcccCCceeeeeec----ceeEEEEeeccchHHHHhcccccccccceeeeeeecc
Confidence 45788999997665 899999999999999999999988 8999999999999999999999999999999998877
Q ss_pred CCcch
Q 041390 388 KGKVQ 392 (639)
Q Consensus 388 K~k~~ 392 (639)
|-+..
T Consensus 150 rlrta 154 (346)
T KOG0109|consen 150 RLRTA 154 (346)
T ss_pred ccccC
Confidence 65443
No 70
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.22 E-value=1.7e-06 Score=92.29 Aligned_cols=77 Identities=14% Similarity=0.244 Sum_probs=69.9
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
+....|||.-... +++|+||+..|+.||+|..|.+-++ .+|||||++|.+......|+..||-..|.|.-|+|..
T Consensus 208 k~fnRiYVaSvHp-DLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk 286 (544)
T KOG0124|consen 208 KKFNRIYVASVHP-DLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGK 286 (544)
T ss_pred HhhheEEeeecCC-CccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccc
Confidence 4567799986666 8999999999999999999999775 8999999999999999999999999999999999977
Q ss_pred cc
Q 041390 385 YK 386 (639)
Q Consensus 385 a~ 386 (639)
+.
T Consensus 287 ~v 288 (544)
T KOG0124|consen 287 CV 288 (544)
T ss_pred cc
Confidence 64
No 71
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.20 E-value=1.9e-06 Score=95.77 Aligned_cols=77 Identities=22% Similarity=0.315 Sum_probs=68.5
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
..|++||..+.. .+.-.||+++|++||+|+-.+|+.. --|.|||||+.+.++|.++|+.|+.++|.||.|.|..+
T Consensus 404 ~gRNlWVSGLSs-tTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEka 482 (940)
T KOG4661|consen 404 LGRNLWVSGLSS-TTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKA 482 (940)
T ss_pred cccceeeecccc-chhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeec
Confidence 468999986654 6778999999999999999999875 45679999999999999999999999999999999887
Q ss_pred cc
Q 041390 386 KE 387 (639)
Q Consensus 386 ~~ 387 (639)
+.
T Consensus 483 KN 484 (940)
T KOG4661|consen 483 KN 484 (940)
T ss_pred cc
Confidence 53
No 72
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.16 E-value=2.2e-06 Score=97.51 Aligned_cols=80 Identities=21% Similarity=0.370 Sum_probs=72.0
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeec----cCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPY----QQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~----DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
.-+.|.|+++ .|..+-.+|+++|..||.|.+||||. +.+||||||+|.++.+|.+|++.+..+-|.||+|.+.|+
T Consensus 612 ~~tKIlVRNi-pFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA 690 (725)
T KOG0110|consen 612 KGTKILVRNI-PFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWA 690 (725)
T ss_pred ccceeeeecc-chHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehh
Confidence 3468999855 46889999999999999999999997 268999999999999999999999999999999999999
Q ss_pred ccCCc
Q 041390 386 KEKGK 390 (639)
Q Consensus 386 ~~K~k 390 (639)
.....
T Consensus 691 ~~d~~ 695 (725)
T KOG0110|consen 691 KSDNT 695 (725)
T ss_pred ccchH
Confidence 87765
No 73
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.14 E-value=4.2e-06 Score=95.30 Aligned_cols=72 Identities=22% Similarity=0.325 Sum_probs=66.0
Q ss_pred EEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc-------CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 314 IYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ-------QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 314 IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D-------ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
|||+ +..|++|.++|...|...|.|.+|.|..- .|.|||||+|.+.++|+.|++.|+++.|+|+.|.|+.+.
T Consensus 518 lfvk-Nlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 518 LFVK-NLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE 596 (725)
T ss_pred hhhh-cCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence 8998 55679999999999999999999999762 345999999999999999999999999999999999987
No 74
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.01 E-value=9.6e-06 Score=92.37 Aligned_cols=80 Identities=20% Similarity=0.312 Sum_probs=73.4
Q ss_pred CCCCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeec-------cCCCceEEEEECCHHHHHHHHHhCCCeEEcCe
Q 041390 306 SMNPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPY-------QQKRMFGFVTFVYPETVKLILAKGNPHFVCDS 378 (639)
Q Consensus 306 ~~~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~-------DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR 378 (639)
.+.+..+++||+++.+ .++|+.|-..|+.||+|..|+|++ ++-|.||||.|-++.+|++|++.|++.++.++
T Consensus 169 dgDP~TTNlyv~Nlnp-sv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~ 247 (877)
T KOG0151|consen 169 DGDPQTTNLYVGNLNP-SVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEY 247 (877)
T ss_pred CCCCcccceeeecCCc-cccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeee
Confidence 3467889999997777 899999999999999999999987 27788999999999999999999999999999
Q ss_pred EEEEEecc
Q 041390 379 RVLVKPYK 386 (639)
Q Consensus 379 ~I~Vk~a~ 386 (639)
.++..|.+
T Consensus 248 e~K~gWgk 255 (877)
T KOG0151|consen 248 EMKLGWGK 255 (877)
T ss_pred eeeecccc
Confidence 99999984
No 75
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.94 E-value=1.3e-05 Score=87.21 Aligned_cols=73 Identities=21% Similarity=0.095 Sum_probs=65.8
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeec-cCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPY-QQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~-DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
+..+||+|+++ ++++|.+.||+-|..||.|..+.|+. +++|| .|.|.++++|++|+..||+..|+||.|.|..
T Consensus 534 rKa~qIiirNl-P~dfTWqmlrDKfre~G~v~yadime~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y 607 (608)
T KOG4212|consen 534 RKACQIIIRNL-PFDFTWQMLRDKFREIGHVLYADIMENGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTY 607 (608)
T ss_pred ccccEEEEecC-CccccHHHHHHHHHhccceehhhhhccCCccc--eEEecCHHHHHHHHHHhccCcccCceeeeee
Confidence 56788999955 46999999999999999999999975 37776 9999999999999999999999999999975
No 76
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=97.94 E-value=1.6e-05 Score=87.72 Aligned_cols=74 Identities=18% Similarity=0.333 Sum_probs=65.0
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeec----cCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPY----QQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~----DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
.+|||++++. ++++.+|++.|.+||+|+..+|.. ++...||||+|.+.++++.|+.+ +...|+++++.|+.-+.
T Consensus 289 ~~i~V~nlP~-da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek~~ 366 (419)
T KOG0116|consen 289 LGIFVKNLPP-DATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEKRP 366 (419)
T ss_pred cceEeecCCC-CCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEeccc
Confidence 3499996665 899999999999999999999965 34558999999999999999999 89999999999987654
No 77
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.78 E-value=8.8e-06 Score=82.24 Aligned_cols=79 Identities=22% Similarity=0.208 Sum_probs=69.8
Q ss_pred CCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 308 NPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 308 ~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
....|||||.+... .++|+-|.++|-+-|+|.+|.|+.+ +.| ||||.|.++-.+..|++.||+..+.++.+.|+.
T Consensus 6 ae~drtl~v~n~~~-~v~eelL~ElfiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~ 83 (267)
T KOG4454|consen 6 AEMDRTLLVQNMYS-GVSEELLSELFIQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTL 83 (267)
T ss_pred cchhhHHHHHhhhh-hhhHHHHHHHhhccCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccchhccchhhccc
Confidence 35678999985554 8999999999999999999999885 445 999999999999999999999999999999988
Q ss_pred cccC
Q 041390 385 YKEK 388 (639)
Q Consensus 385 a~~K 388 (639)
....
T Consensus 84 r~G~ 87 (267)
T KOG4454|consen 84 RCGN 87 (267)
T ss_pred ccCC
Confidence 7544
No 78
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.76 E-value=2.3e-05 Score=79.56 Aligned_cols=70 Identities=26% Similarity=0.459 Sum_probs=63.5
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEeccc
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKE 387 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~ 387 (639)
.+||+... +...+.||..+|..||+|.+|.+.. |||||.|.+..+|..|+..+|+.+|+|.++.|.++..
T Consensus 3 rv~vg~~~-~~~~~~d~E~~f~~yg~~~d~~mk~----gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~ 72 (216)
T KOG0106|consen 3 RVYIGRLP-YRARERDVERFFKGYGKIPDADMKN----GFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARG 72 (216)
T ss_pred ceeecccC-CccchhHHHHHHhhccccccceeec----ccceeccCchhhhhcccchhcCceecceeeeeecccc
Confidence 57888444 5899999999999999999998876 9999999999999999999999999999988888874
No 79
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=97.67 E-value=0.00011 Score=75.99 Aligned_cols=77 Identities=12% Similarity=0.148 Sum_probs=68.8
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
.....|||.+++ +.++++||+++|.+||++..|-|-+| ++.|.|=|+|...++|.+|++.+|+.-++|+++.+...
T Consensus 81 ~~~~~v~v~NL~-~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i 159 (243)
T KOG0533|consen 81 TRSTKVNVSNLP-YGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEII 159 (243)
T ss_pred CCcceeeeecCC-cCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEe
Confidence 345789999554 59999999999999999999999886 78899999999999999999999999999999888765
Q ss_pred c
Q 041390 386 K 386 (639)
Q Consensus 386 ~ 386 (639)
.
T Consensus 160 ~ 160 (243)
T KOG0533|consen 160 S 160 (243)
T ss_pred c
Confidence 4
No 80
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=97.55 E-value=7.2e-05 Score=77.12 Aligned_cols=77 Identities=13% Similarity=0.273 Sum_probs=65.7
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccC
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEK 388 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K 388 (639)
.||.+.... .++++-|...|.+|-.-...++++| +++|||||.|.+.+++.+|+++||+..++.|.|.......|
T Consensus 192 RIfcgdlgN-evnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~wk 270 (290)
T KOG0226|consen 192 RIFCGDLGN-EVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSEWK 270 (290)
T ss_pred eeecccccc-cccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhhHH
Confidence 466553332 5899999999999999999999986 99999999999999999999999999999999988766544
Q ss_pred Cc
Q 041390 389 GK 390 (639)
Q Consensus 389 ~k 390 (639)
.+
T Consensus 271 eR 272 (290)
T KOG0226|consen 271 ER 272 (290)
T ss_pred hh
Confidence 43
No 81
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.55 E-value=0.00011 Score=75.48 Aligned_cols=77 Identities=16% Similarity=0.185 Sum_probs=67.2
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
..+.+||++. ++..|-+++..+|+.||.|..|.|++| ..|||+||.|.+.+.++.++. ||+..|.|+.+.|.+.
T Consensus 100 d~~sv~v~nv-d~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~ 177 (231)
T KOG4209|consen 100 DAPSVWVGNV-DFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLK 177 (231)
T ss_pred CCceEEEecc-ccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeee
Confidence 4577999854 456666669999999999999999987 578999999999999999999 7999999999999887
Q ss_pred ccC
Q 041390 386 KEK 388 (639)
Q Consensus 386 ~~K 388 (639)
+.+
T Consensus 178 r~~ 180 (231)
T KOG4209|consen 178 RTN 180 (231)
T ss_pred eee
Confidence 554
No 82
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=97.35 E-value=0.0002 Score=78.94 Aligned_cols=63 Identities=13% Similarity=0.184 Sum_probs=55.0
Q ss_pred CCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccCC
Q 041390 324 FREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEKG 389 (639)
Q Consensus 324 ~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K~ 389 (639)
-|-++|..+|.+||+|+.|.|-+ +---|.|||.+..+|-.|... ++..|++|.|+|.|..+-.
T Consensus 385 nt~a~ln~hfA~fG~i~n~qv~~--~~~~a~vTF~t~aeag~a~~s-~~avlnnr~iKl~whnps~ 447 (526)
T KOG2135|consen 385 NTIADLNPHFAQFGEIENIQVDY--SSLHAVVTFKTRAEAGEAYAS-HGAVLNNRFIKLFWHNPSP 447 (526)
T ss_pred chHhhhhhhhhhcCccccccccC--chhhheeeeeccccccchhcc-ccceecCceeEEEEecCCc
Confidence 46799999999999999999877 444699999999999888777 9999999999999987643
No 83
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.33 E-value=0.00017 Score=80.89 Aligned_cols=74 Identities=16% Similarity=0.220 Sum_probs=65.6
Q ss_pred CCCCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEE
Q 041390 306 SMNPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVL 381 (639)
Q Consensus 306 ~~~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~ 381 (639)
..+...++|+|.+.+. ++++++|+.+|+.||+|..|+.-. .++|-.||+|-|..+|++|++++|+..|.|++|+
T Consensus 70 ~~~~~~~~L~v~nl~~-~Vsn~~L~~~f~~yGeir~ir~t~-~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 70 EKDMNQGTLVVFNLPR-SVSNDTLLRIFGAYGEIREIRETP-NKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cccCccceEEEEecCC-cCCHHHHHHHHHhhcchhhhhccc-ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 3356778899986655 899999999999999999988743 4899999999999999999999999999999998
No 84
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=97.22 E-value=6.7e-05 Score=52.29 Aligned_cols=23 Identities=39% Similarity=0.891 Sum_probs=18.0
Q ss_pred Cceeeeccc-ccCCCCCCCCCCCC
Q 041390 192 WKHCLYFAK-GFCKNGTACKFHHI 214 (639)
Q Consensus 192 ~kpC~YFar-G~Ck~G~sCrF~Hg 214 (639)
-++|.+|.+ |.|++|.+|+|.|+
T Consensus 3 ~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 3 TKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp SSB-HHHHHTS--TTGGGSSSBSS
T ss_pred cccChhhccCCccCCCCCcCccCC
Confidence 468999987 99999999999995
No 85
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.06 E-value=0.0014 Score=52.66 Aligned_cols=51 Identities=22% Similarity=0.427 Sum_probs=41.2
Q ss_pred ceEEE-eCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHH
Q 041390 312 RQIYL-TFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLIL 367 (639)
Q Consensus 312 r~IYV-~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al 367 (639)
+.|-| +++.+ ..+.|..+|.+||+|+++.+.. .+.+.+|+|.++.+|++||
T Consensus 2 ~wI~V~Gf~~~---~~~~vl~~F~~fGeI~~~~~~~--~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPD---LAEEVLEHFASFGEIVDIYVPE--STNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECch---HHHHHHHHHHhcCCEEEEEcCC--CCcEEEEEECCHHHHHhhC
Confidence 34555 35543 3577888999999999999985 6789999999999999985
No 86
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=96.98 E-value=0.0007 Score=75.94 Aligned_cols=73 Identities=26% Similarity=0.368 Sum_probs=63.0
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
|++|+-... -+.++.||.++|+.+|+|.+|+|+.| +++|.|+|+|.+.+.+..||.. .|+-+.|.+|.|....
T Consensus 180 Rtvf~~qla-~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaL-sGqrllg~pv~vq~sE 256 (549)
T KOG0147|consen 180 RTVFCMQLA-RRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIAL-SGQRLLGVPVIVQLSE 256 (549)
T ss_pred HHHHHHHHh-hcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhhh-cCCcccCceeEecccH
Confidence 445544333 36789999999999999999999987 8999999999999999999965 9999999999998864
No 87
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=96.96 E-value=0.0023 Score=69.85 Aligned_cols=75 Identities=16% Similarity=0.264 Sum_probs=67.3
Q ss_pred CceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 311 ARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 311 sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
+..|-|.++.+..+|.+-|-.+|+-||.|.+|+|.+. ++--|.|.|.+...|+-|++.++++.|.|++|+|...+
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~n-kkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYN-KKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeec-CCcceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 4567777777779999999999999999999999984 33689999999999999999999999999999998764
No 88
>smart00356 ZnF_C3H1 zinc finger.
Probab=96.77 E-value=0.00071 Score=46.05 Aligned_cols=22 Identities=41% Similarity=1.129 Sum_probs=20.5
Q ss_pred ceeeecccccCCCCCCCCCCCC
Q 041390 193 KHCLYFAKGFCKNGTACKFHHI 214 (639)
Q Consensus 193 kpC~YFarG~Ck~G~sCrF~Hg 214 (639)
.+|.+|.+|.|+.|.+|+|.|.
T Consensus 5 ~~C~~~~~g~C~~g~~C~~~H~ 26 (27)
T smart00356 5 ELCKFFKRGYCPYGDRCKFAHP 26 (27)
T ss_pred CcCcCccCCCCCCCCCcCCCCc
Confidence 3899999999999999999995
No 89
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=96.75 E-value=0.0045 Score=63.31 Aligned_cols=83 Identities=13% Similarity=0.176 Sum_probs=68.5
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeec-c----CCCceEEEEECCHHHHHHHHHhCCCeEE---cCeEEE
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPY-Q----QKRMFGFVTFVYPETVKLILAKGNPHFV---CDSRVL 381 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~-D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L---~GR~I~ 381 (639)
..||+||..++. ++--.+|..+|..|---+.+-|.+ + -.+-+|||+|.+...|.+|+..+||..+ .+..|.
T Consensus 33 ~VRTLFVSGLP~-DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLh 111 (284)
T KOG1457|consen 33 AVRTLFVSGLPN-DVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLH 111 (284)
T ss_pred ccceeeeccCCc-ccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeE
Confidence 568999976665 688999999999998777776644 2 3457999999999999999999999998 588899
Q ss_pred EEecccCCcchH
Q 041390 382 VKPYKEKGKVQE 393 (639)
Q Consensus 382 Vk~a~~K~k~~~ 393 (639)
++.++...|+.+
T Consensus 112 iElAKSNtK~kr 123 (284)
T KOG1457|consen 112 IELAKSNTKRKR 123 (284)
T ss_pred eeehhcCccccc
Confidence 999987766544
No 90
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.64 E-value=0.0048 Score=66.26 Aligned_cols=78 Identities=10% Similarity=0.113 Sum_probs=66.5
Q ss_pred CCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEE--------Eeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEc
Q 041390 308 NPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDV--------RIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVC 376 (639)
Q Consensus 308 ~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dV--------rIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~ 376 (639)
...++.|||.+++. ++|.+++.++|++||-|..= ++-++ +-+|=|.++|-..|+|+.|+..|+...|.
T Consensus 131 ~~~Nt~VYVsgLP~-DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~r 209 (382)
T KOG1548|consen 131 PKVNTSVYVSGLPL-DITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELR 209 (382)
T ss_pred cccCceEEecCCCC-cccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCccccc
Confidence 34567799987776 79999999999999987643 33332 78899999999999999999999999999
Q ss_pred CeEEEEEecc
Q 041390 377 DSRVLVKPYK 386 (639)
Q Consensus 377 GR~I~Vk~a~ 386 (639)
|+.|+|..|+
T Consensus 210 g~~~rVerAk 219 (382)
T KOG1548|consen 210 GKKLRVERAK 219 (382)
T ss_pred CcEEEEehhh
Confidence 9999998874
No 91
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.63 E-value=0.0056 Score=68.21 Aligned_cols=69 Identities=17% Similarity=0.207 Sum_probs=61.4
Q ss_pred CCCCCCCHHHHHHHhhcCCCeeEEEeecc--CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccCC
Q 041390 319 PADSTFREEDVSNYFSIYGPVHDVRIPYQ--QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEKG 389 (639)
Q Consensus 319 ~~d~~~TEedLre~FsqFG~V~dVrIp~D--ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K~ 389 (639)
-++|+.|++||.++|+.+ .|+++.+++. +..|=|||+|.++|++++|+++ +...+..|=|.|-.+..++
T Consensus 17 GLPwsat~~ei~~Ff~~~-~I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Alkk-dR~~mg~RYIEVf~~~~~e 87 (510)
T KOG4211|consen 17 GLPWSATEKEILDFFSNC-GIENLEIPRRNGRPSGEAYVEFTSEEDVEKALKK-DRESMGHRYIEVFTAGGAE 87 (510)
T ss_pred CCCccccHHHHHHHHhcC-ceeEEEEeccCCCcCcceEEEeechHHHHHHHHh-hHHHhCCceEEEEccCCcc
Confidence 456999999999999999 6888888874 8999999999999999999999 9999999999998775443
No 92
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=96.60 E-value=0.0013 Score=67.02 Aligned_cols=69 Identities=23% Similarity=0.235 Sum_probs=57.2
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
..+.|..+ ...+.+.+|+++|++||+++.+.+ .++++||.|...+++++|++.+++..+.|+.|.|..+
T Consensus 100 ~r~~~~~~-~~r~~~qdl~d~~~~~g~~~~~~~----~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~~ 168 (216)
T KOG0106|consen 100 FRLIVRNL-SLRVSWQDLKDHFRPAGEVTYVDA----RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEKN 168 (216)
T ss_pred ceeeeccc-hhhhhHHHHhhhhcccCCCchhhh----hccccceeehhhhhhhhcchhccchhhcCceeeeccc
Confidence 34455533 336788999999999999966655 4699999999999999999999999999999999433
No 93
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.56 E-value=0.0093 Score=64.14 Aligned_cols=82 Identities=15% Similarity=0.136 Sum_probs=64.9
Q ss_pred CCCCceEEEeCCC---CCCCC-------HHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcC
Q 041390 308 NPSARQIYLTFPA---DSTFR-------EEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCD 377 (639)
Q Consensus 308 ~~~sr~IYV~~~~---d~~~T-------EedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~G 377 (639)
.+..++|.+.+.. ++..+ .+||++--++||.|.+|.|-.-...|.+-|.|.+.++|..+|+.|+|..++|
T Consensus 262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdg 341 (382)
T KOG1548|consen 262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDG 341 (382)
T ss_pred ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecc
Confidence 3456677776332 23344 4667777899999999976543678999999999999999999999999999
Q ss_pred eEEEEEecccCC
Q 041390 378 SRVLVKPYKEKG 389 (639)
Q Consensus 378 R~I~Vk~a~~K~ 389 (639)
|.|....+..+.
T Consensus 342 Rql~A~i~DG~t 353 (382)
T KOG1548|consen 342 RQLTASIWDGKT 353 (382)
T ss_pred eEEEEEEeCCcc
Confidence 999988876554
No 94
>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=96.55 E-value=0.01 Score=53.82 Aligned_cols=64 Identities=28% Similarity=0.377 Sum_probs=48.7
Q ss_pred eCCCCCCCCHHHHHHHhhcCCCeeEEE-------------eeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeE-EEE
Q 041390 317 TFPADSTFREEDVSNYFSIYGPVHDVR-------------IPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSR-VLV 382 (639)
Q Consensus 317 ~~~~d~~~TEedLre~FsqFG~V~dVr-------------Ip~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~-I~V 382 (639)
+|++. .-..|-++|++||+|.+.. ++. ...+--|+|+++.+|.+||.+ |+..|.|.- |-|
T Consensus 13 Gfp~~---~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~--~~NWi~I~Y~~~~~A~rAL~~-NG~i~~g~~mvGV 86 (100)
T PF05172_consen 13 GFPPS---ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPS--GGNWIHITYDNPLSAQRALQK-NGTIFSGSLMVGV 86 (100)
T ss_dssp ---GG---GHHHHHHHHHCCS-EECEEGGG----------E-C--CTTEEEEEESSHHHHHHHHTT-TTEEETTCEEEEE
T ss_pred ccCHH---HHHHHHHHHHhcceEEEeecccccccccccccCCC--CCCEEEEECCCHHHHHHHHHh-CCeEEcCcEEEEE
Confidence 67764 5788999999999999986 343 677999999999999999999 999999864 446
Q ss_pred Eecc
Q 041390 383 KPYK 386 (639)
Q Consensus 383 k~a~ 386 (639)
++.+
T Consensus 87 ~~~~ 90 (100)
T PF05172_consen 87 KPCD 90 (100)
T ss_dssp EE-H
T ss_pred EEcH
Confidence 6653
No 95
>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=96.46 E-value=0.014 Score=52.72 Aligned_cols=74 Identities=11% Similarity=0.101 Sum_probs=60.0
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhc--CCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEc----CeEEE
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSI--YGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVC----DSRVL 381 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~Fsq--FG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~----GR~I~ 381 (639)
+||.|++++. ++|.++|.+++.. .|...=+.+|.| -+.|||||.|.+.+.|.+-.+.++++.+. .+...
T Consensus 2 TTvMirNIPn-~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~ 80 (97)
T PF04059_consen 2 TTVMIRNIPN-KYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCE 80 (97)
T ss_pred eeEEEecCCC-CCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEE
Confidence 6788887776 8899998888765 577777888877 67899999999999999999999888874 44556
Q ss_pred EEecc
Q 041390 382 VKPYK 386 (639)
Q Consensus 382 Vk~a~ 386 (639)
|.+|+
T Consensus 81 i~yAr 85 (97)
T PF04059_consen 81 ISYAR 85 (97)
T ss_pred EehhH
Confidence 66664
No 96
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=96.34 E-value=0.0023 Score=67.75 Aligned_cols=82 Identities=18% Similarity=0.320 Sum_probs=71.6
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
....+||.....++.+++++|+.+|..+|.|..|+++.+ ..+|||+|.|.+......++.. ..+.+.++.+.+..
T Consensus 182 ~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 260 (285)
T KOG4210|consen 182 GPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEE 260 (285)
T ss_pred CccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCccccccc
Confidence 356678855577789999999999999999999999874 8999999999999999999887 89999999999998
Q ss_pred cccCCcc
Q 041390 385 YKEKGKV 391 (639)
Q Consensus 385 a~~K~k~ 391 (639)
..++.+.
T Consensus 261 ~~~~~~~ 267 (285)
T KOG4210|consen 261 DEPRPKS 267 (285)
T ss_pred CCCCccc
Confidence 8776544
No 97
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.31 E-value=0.009 Score=64.10 Aligned_cols=79 Identities=13% Similarity=0.140 Sum_probs=58.4
Q ss_pred CCCCceEEEeCCCCCCCCHH---H--HHHHhhcCCCeeEEEeecc-----CCCc-e-EEEEECCHHHHHHHHHhCCCeEE
Q 041390 308 NPSARQIYLTFPADSTFREE---D--VSNYFSIYGPVHDVRIPYQ-----QKRM-F-GFVTFVYPETVKLILAKGNPHFV 375 (639)
Q Consensus 308 ~~~sr~IYV~~~~d~~~TEe---d--Lre~FsqFG~V~dVrIp~D-----ksRG-F-GFVtF~~~E~Ae~Al~~mng~~L 375 (639)
.-+..-+||..+..--..|+ - =.+||+|||+|.+|.|-+. ---+ + -+|+|.+.|+|.++|.+.++..+
T Consensus 111 VvQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~ 190 (480)
T COG5175 111 VVQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLL 190 (480)
T ss_pred eeecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccc
Confidence 34566789965554233444 2 3589999999999988552 1111 2 39999999999999999999999
Q ss_pred cCeEEEEEecc
Q 041390 376 CDSRVLVKPYK 386 (639)
Q Consensus 376 ~GR~I~Vk~a~ 386 (639)
+||-|+.....
T Consensus 191 DGr~lkatYGT 201 (480)
T COG5175 191 DGRVLKATYGT 201 (480)
T ss_pred cCceEeeecCc
Confidence 99998876543
No 98
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=96.16 E-value=0.026 Score=61.39 Aligned_cols=79 Identities=15% Similarity=0.107 Sum_probs=69.1
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecccC
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYKEK 388 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~~K 388 (639)
....-+.|-.+...+++-+.|-++|..||.|++|+.++ .+.|-|.|++.+..++++|+..+|+..+.|.+|.|+..+..
T Consensus 285 ~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmk-Tk~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~ 363 (494)
T KOG1456|consen 285 APGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMK-TKPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQN 363 (494)
T ss_pred CCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEee-cccceeEEEcCcHHHHHHHHHHhccCccccceEEEeecccc
Confidence 34555666667777899999999999999999999987 46789999999999999999999999999999999997543
No 99
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=96.08 E-value=0.014 Score=65.98 Aligned_cols=60 Identities=23% Similarity=0.282 Sum_probs=53.0
Q ss_pred HHHHHHhhcCCCeeEEEeecc-------CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 327 EDVSNYFSIYGPVHDVRIPYQ-------QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 327 edLre~FsqFG~V~dVrIp~D-------ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
|+||.-+++||.|.+|.|+.+ -.-|.-||+|++.+++++|.+.|+|.++.||.|....+-
T Consensus 424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyd 490 (500)
T KOG0120|consen 424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYD 490 (500)
T ss_pred HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecC
Confidence 567777899999999999874 455678999999999999999999999999999888774
No 100
>PF00658 PABP: Poly-adenylate binding protein, unique domain; InterPro: IPR002004 The polyadenylate-binding protein (PABP) has a conserved C-terminal domain (PABC), which is also found in the hyperplastic discs protein (HYD) family of ubiquitin ligases that contain HECT domains (IPR000569 from INTERPRO) []. PABP recognises the 3' mRNA poly(A) tail and plays an essential role in eukaryotic translation initiation and mRNA stabilisation/degradation. PABC domains of PABP are peptide-binding domains that mediate PABP homo-oligomerisation and protein-protein interactions. In mammals, the PABC domain of PABP functions to recruit several different translation factors to the mRNA poly(A) tail [].; GO: 0003723 RNA binding; PDB: 3KUR_E 1JH4_A 2RQH_B 3KUI_A 3KUS_A 3KUJ_A 3KTR_A 2X04_A 3PTH_A 1JGN_A ....
Probab=95.84 E-value=0.0073 Score=51.70 Aligned_cols=50 Identities=32% Similarity=0.473 Sum_probs=40.5
Q ss_pred HHHHHhhhccCCCchhhhhhhhhcccCChHHHHHHhcCchHHHHHHHHHHHHh
Q 041390 8 KLVFSRIKAIDPENASKIMGYLLIQDNGDKEMIRLAFGPETLLHNLIFKAKTH 60 (639)
Q Consensus 8 ~~vf~riq~~~pe~askI~g~ll~qd~~e~emirlA~gpd~ll~~~i~~ak~~ 60 (639)
..+|.+|++++|++|.||-|+|| |.+..|++.|=-.| .+|+..|..|-.-
T Consensus 22 e~Ly~~V~~~~p~~A~KITGMLL--e~~~~ell~ll~~~-~~L~~kv~eA~~v 71 (72)
T PF00658_consen 22 ERLYPLVQAIYPELAGKITGMLL--EMDNSELLHLLEDP-ELLREKVQEAIEV 71 (72)
T ss_dssp HHHHHHHHHHTHHHHHHHHHHHT--TSCHHHHHHHHHTH-HHHHHHHHHHHHH
T ss_pred ccccHHHHHhCcchhHHHHHHHh--cCCHHHHHHHhCCH-HHHHHHHHHHHHh
Confidence 45799999999999999999998 46678898887765 5667777777543
No 101
>smart00517 PolyA C-terminal domain of Poly(A)-binding protein. Present also in Drosophila hyperplastics discs protein. Involved in homodimerisation (either directly or indirectly)
Probab=95.74 E-value=0.011 Score=49.66 Aligned_cols=51 Identities=29% Similarity=0.472 Sum_probs=38.2
Q ss_pred HHHHHhhhccCCCchhhhhhhhhcccCChHHHHHHhcCchHHHHHHHHHHHHhh
Q 041390 8 KLVFSRIKAIDPENASKIMGYLLIQDNGDKEMIRLAFGPETLLHNLIFKAKTHL 61 (639)
Q Consensus 8 ~~vf~riq~~~pe~askI~g~ll~qd~~e~emirlA~gpd~ll~~~i~~ak~~L 61 (639)
.-+|.+|++++|+.|.||-|+||= .+..|++.|= ..+.+|.+-|..|-.-|
T Consensus 11 E~Lyp~V~~~~p~~A~KITGMLLE--md~~ell~ll-e~~~~L~~kv~EA~~vl 61 (64)
T smart00517 11 ERLYPKVQALEPELAGKITGMLLE--MDNSELLHLL-ESPELLRSKVDEALEVL 61 (64)
T ss_pred HHHhHHHHhhCcccCCcCeeeeeC--CCHHHHHHHh-cCHHHHHHHHHHHHHHH
Confidence 347999999999999999999984 5557888875 44555666666665443
No 102
>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=95.73 E-value=0.035 Score=49.25 Aligned_cols=70 Identities=11% Similarity=0.062 Sum_probs=46.9
Q ss_pred ceEEEeCCCCCCCC----HHHHHHHhhcCC-CeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 312 RQIYLTFPADSTFR----EEDVSNYFSIYG-PVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 312 r~IYV~~~~d~~~T----EedLre~FsqFG-~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
..+||.+++. +.+ ...|+.++.-+| +|.+| ..+-|+|.|.+.+.|++|.+.|++..+.|++|.|....
T Consensus 3 s~L~V~NLP~-~~d~~~I~~RL~qLsdNCGGkVl~v------~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~ 75 (90)
T PF11608_consen 3 SLLYVSNLPT-NKDPSSIKNRLRQLSDNCGGKVLSV------SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSP 75 (90)
T ss_dssp EEEEEES--T-TS-HHHHHHHHHHHHHTTT--EEE--------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS-
T ss_pred cEEEEecCCC-CCCHHHHHHHHHHHhhccCCEEEEE------eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcC
Confidence 4578886665 344 355677777776 88887 46899999999999999999999999999999999874
Q ss_pred cC
Q 041390 387 EK 388 (639)
Q Consensus 387 ~K 388 (639)
..
T Consensus 76 ~~ 77 (90)
T PF11608_consen 76 KN 77 (90)
T ss_dssp -S
T ss_pred Cc
Confidence 33
No 103
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=95.54 E-value=0.0067 Score=39.25 Aligned_cols=18 Identities=39% Similarity=1.012 Sum_probs=16.5
Q ss_pred eeeecccccCCCCCCCCCCC
Q 041390 194 HCLYFAKGFCKNGTACKFHH 213 (639)
Q Consensus 194 pC~YFarG~Ck~G~sCrF~H 213 (639)
+|+||.. |++|++|.|.|
T Consensus 1 ~Ck~~~~--C~~~~~C~f~H 18 (19)
T PF14608_consen 1 PCKFGPN--CTNGDNCPFSH 18 (19)
T ss_pred CCcCcCC--CCCCCcCccCC
Confidence 6998877 99999999999
No 104
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=95.03 E-value=0.027 Score=63.93 Aligned_cols=59 Identities=15% Similarity=0.236 Sum_probs=50.4
Q ss_pred HHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEc-CeEEEEEec
Q 041390 327 EDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVC-DSRVLVKPY 385 (639)
Q Consensus 327 edLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~-GR~I~Vk~a 385 (639)
.-|.++|+++|+|+.+.+|.+ ..+||.|++|++...|+.|++.+||+.|+ ..+..|...
T Consensus 79 ~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~~f 141 (698)
T KOG2314|consen 79 KVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVRLF 141 (698)
T ss_pred HHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEEeehh
Confidence 456788999999999999964 89999999999999999999999998885 455666444
No 105
>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=95.01 E-value=0.056 Score=49.20 Aligned_cols=54 Identities=26% Similarity=0.340 Sum_probs=34.2
Q ss_pred EEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhC
Q 041390 314 IYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKG 370 (639)
Q Consensus 314 IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~m 370 (639)
|.|....+ .++-++|++.|++||+|.-|.+.. .---|+|.|.+.+.|+.|++.+
T Consensus 4 l~~~g~~~-~~~re~iK~~f~~~g~V~yVD~~~--G~~~g~VRf~~~~~A~~a~~~~ 57 (105)
T PF08777_consen 4 LKFSGLGE-PTSREDIKEAFSQFGEVAYVDFSR--GDTEGYVRFKTPEAAQKALEKL 57 (105)
T ss_dssp EEEEE--S-S--HHHHHHHT-SS--EEEEE--T--T-SEEEEEESS---HHHHHHHH
T ss_pred EEEecCCC-CcCHHHHHHHHHhcCCcceEEecC--CCCEEEEEECCcchHHHHHHHH
Confidence 45543333 677999999999999999998876 4447999999999999999885
No 106
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=94.85 E-value=0.04 Score=61.65 Aligned_cols=72 Identities=19% Similarity=0.254 Sum_probs=57.7
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeE-EEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHD-VRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~d-VrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
.|-++ -++|.+||+||.++|+--=-|.+ |.++.| ++-|=|||.|++.|.|++|+.. |...|..|=|.|-.+.
T Consensus 105 vVRLR-GLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~Ss 180 (510)
T KOG4211|consen 105 VVRLR-GLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVFRSS 180 (510)
T ss_pred eEEec-CCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEeehhH
Confidence 44444 34589999999999998755555 334444 7888999999999999999999 9999999999887763
No 107
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=94.69 E-value=0.025 Score=63.97 Aligned_cols=79 Identities=18% Similarity=0.296 Sum_probs=70.6
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
....|||++++. .+++..++++...||++...++..| .++||||.+|.+......|++.+|+..+.++++.|..+
T Consensus 288 ~~~ki~v~~lp~-~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A 366 (500)
T KOG0120|consen 288 SPNKIFVGGLPL-YLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRA 366 (500)
T ss_pred ccchhhhccCcC-ccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehh
Confidence 445789987776 7999999999999999999998875 89999999999999999999999999999999999888
Q ss_pred ccCC
Q 041390 386 KEKG 389 (639)
Q Consensus 386 ~~K~ 389 (639)
....
T Consensus 367 ~~g~ 370 (500)
T KOG0120|consen 367 IVGA 370 (500)
T ss_pred hccc
Confidence 5443
No 108
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=94.55 E-value=0.013 Score=64.17 Aligned_cols=25 Identities=36% Similarity=0.857 Sum_probs=23.7
Q ss_pred CCceeeecccccCCCCCCCCCCCCC
Q 041390 191 GWKHCLYFAKGFCKNGTACKFHHIH 215 (639)
Q Consensus 191 g~kpC~YFarG~Ck~G~sCrF~Hg~ 215 (639)
..|||.||-.|-|+.|.+|||.||.
T Consensus 139 sMkpC~ffLeg~CRF~enCRfSHG~ 163 (486)
T KOG2185|consen 139 SMKPCKFFLEGRCRFGENCRFSHGL 163 (486)
T ss_pred hhccchHhhccccccCcccccccCc
Confidence 5899999999999999999999994
No 109
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=94.52 E-value=0.023 Score=62.62 Aligned_cols=65 Identities=20% Similarity=0.204 Sum_probs=53.2
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeec------c-----------CCCceEEEEECCHHHHHHHHHhCC
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPY------Q-----------QKRMFGFVTFVYPETVKLILAKGN 371 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~------D-----------ksRGFGFVtF~~~E~Ae~Al~~mn 371 (639)
-.+|+|.+.++++ +-.-+.|.++|+.+|.|..|||.. + ..+-||+|+|+..+.|.+|.+.||
T Consensus 229 l~srtivaenLP~-Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~ 307 (484)
T KOG1855|consen 229 LPSRTIVAENLPL-DHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLN 307 (484)
T ss_pred cccceEEEecCCc-chHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhc
Confidence 4789999987766 344599999999999999999954 1 236789999999999999999975
Q ss_pred CeE
Q 041390 372 PHF 374 (639)
Q Consensus 372 g~~ 374 (639)
...
T Consensus 308 ~e~ 310 (484)
T KOG1855|consen 308 PEQ 310 (484)
T ss_pred hhh
Confidence 443
No 110
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=94.38 E-value=0.15 Score=49.33 Aligned_cols=77 Identities=21% Similarity=0.257 Sum_probs=53.9
Q ss_pred CCCCCCCceEEEeCCC-----CCCCCH---HHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEc
Q 041390 305 GSMNPSARQIYLTFPA-----DSTFRE---EDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVC 376 (639)
Q Consensus 305 G~~~~~sr~IYV~~~~-----d~~~TE---edLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~ 376 (639)
+...+..-||.|.... ...+.+ .+|-+.|.+||+|.=||+.. +-=+|||.+-+.|-+|+.. ++..++
T Consensus 21 ~~~GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~----~~mwVTF~dg~sALaals~-dg~~v~ 95 (146)
T PF08952_consen 21 SSQGPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVG----DTMWVTFRDGQSALAALSL-DGIQVN 95 (146)
T ss_dssp -----TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEET----TCEEEEESSCHHHHHHHHG-CCSEET
T ss_pred HhcCCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeC----CeEEEEECccHHHHHHHcc-CCcEEC
Confidence 3444556677775333 123443 36777899999999999887 6789999999999999998 999999
Q ss_pred CeEEEEEecc
Q 041390 377 DSRVLVKPYK 386 (639)
Q Consensus 377 GR~I~Vk~a~ 386 (639)
|+.|.|+.-.
T Consensus 96 g~~l~i~LKt 105 (146)
T PF08952_consen 96 GRTLKIRLKT 105 (146)
T ss_dssp TEEEEEEE--
T ss_pred CEEEEEEeCC
Confidence 9999998754
No 111
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=94.06 E-value=0.053 Score=58.66 Aligned_cols=82 Identities=16% Similarity=0.182 Sum_probs=69.0
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEE--------Eeecc----CCCceEEEEECCHHHHHHHHHhCCCeEEc
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDV--------RIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFVC 376 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dV--------rIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~ 376 (639)
...-+|||-...+ .+++++|.++|.++|.|..= .|-+| +.||=|-|+|+++-.|+.|+.-.++..++
T Consensus 64 s~~~ti~v~g~~d-~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~ 142 (351)
T KOG1995|consen 64 SDNETIFVWGCPD-SVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC 142 (351)
T ss_pred cccccceeeccCc-cchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence 4566899987777 89999999999999987532 22222 88999999999999999999999999999
Q ss_pred CeEEEEEecccCCcc
Q 041390 377 DSRVLVKPYKEKGKV 391 (639)
Q Consensus 377 GR~I~Vk~a~~K~k~ 391 (639)
|..|+|..+..+..+
T Consensus 143 gn~ikvs~a~~r~~v 157 (351)
T KOG1995|consen 143 GNTIKVSLAERRTGV 157 (351)
T ss_pred CCCchhhhhhhccCc
Confidence 999999998877653
No 112
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=93.99 E-value=0.069 Score=61.97 Aligned_cols=80 Identities=15% Similarity=0.138 Sum_probs=66.5
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeE-EEe---eccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHD-VRI---PYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~d-VrI---p~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
....|||..++ +.+++.++-++|..--.|++ |.| +.++-++-|||.|..++++..|+.-.+.+.+..|.|+|...
T Consensus 433 ag~~lyv~~lP-~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si 511 (944)
T KOG4307|consen 433 AGGALYVFQLP-VMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSI 511 (944)
T ss_pred ccceEEeccCC-ccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeech
Confidence 45689997554 47889999999998888888 666 44699999999999998888888877899999999999887
Q ss_pred ccCCc
Q 041390 386 KEKGK 390 (639)
Q Consensus 386 ~~K~k 390 (639)
.++..
T Consensus 512 ~~~~m 516 (944)
T KOG4307|consen 512 ADYAM 516 (944)
T ss_pred hhHHH
Confidence 66554
No 113
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=93.93 E-value=0.032 Score=58.17 Aligned_cols=67 Identities=21% Similarity=0.222 Sum_probs=56.2
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeec-c--------CCCc-------eEEEEECCHHHHHHHHHhCCCeEE
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPY-Q--------QKRM-------FGFVTFVYPETVKLILAKGNPHFV 375 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~-D--------ksRG-------FGFVtF~~~E~Ae~Al~~mng~~L 375 (639)
--||+..++. .++-..||++|++||+|-.|.+-. + +.+| =|+|+|.+...|+++.+.||+..|
T Consensus 75 GVvylS~IPp-~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~I 153 (278)
T KOG3152|consen 75 GVVYLSNIPP-YMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPI 153 (278)
T ss_pred eEEEeccCCC-ccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCcc
Confidence 3599987777 689999999999999999999853 2 1111 289999999999999999999999
Q ss_pred cCeE
Q 041390 376 CDSR 379 (639)
Q Consensus 376 ~GR~ 379 (639)
.|++
T Consensus 154 ggkk 157 (278)
T KOG3152|consen 154 GGKK 157 (278)
T ss_pred CCCC
Confidence 9975
No 114
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=93.58 E-value=0.03 Score=59.55 Aligned_cols=25 Identities=44% Similarity=0.849 Sum_probs=23.4
Q ss_pred CCCceeeeccc-ccCCCCCCCCCCCC
Q 041390 190 LGWKHCLYFAK-GFCKNGTACKFHHI 214 (639)
Q Consensus 190 ~g~kpC~YFar-G~Ck~G~sCrF~Hg 214 (639)
++=|+|.+|.+ |+||.|..|+|.|+
T Consensus 175 ~kt~lC~~f~~tG~C~yG~rC~F~H~ 200 (332)
T KOG1677|consen 175 YKTKLCPKFQKTGLCKYGSRCRFIHG 200 (332)
T ss_pred CCCcCCCccccCCCCCCCCcCeecCC
Confidence 56789999998 99999999999998
No 115
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=92.96 E-value=0.34 Score=53.11 Aligned_cols=74 Identities=12% Similarity=0.058 Sum_probs=61.5
Q ss_pred EEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcC--eEEEEEecccC
Q 041390 314 IYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCD--SRVLVKPYKEK 388 (639)
Q Consensus 314 IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~G--R~I~Vk~a~~K 388 (639)
++.-.++.+.+|-+-|..+-...|+|.+|.|.+ +.---|.|+|++.+.|++|.+.||+..|.. -+|+|+.|++.
T Consensus 124 l~TIlNp~YpItvDVly~Icnp~GkVlRIvIfk-kngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~ 199 (494)
T KOG1456|consen 124 LFTILNPQYPITVDVLYTICNPQGKVLRIVIFK-KNGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPT 199 (494)
T ss_pred EEEeecCccccchhhhhhhcCCCCceEEEEEEe-ccceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcc
Confidence 333477888999999999999999999999987 333469999999999999999999988843 56777777653
No 116
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=92.88 E-value=0.37 Score=49.51 Aligned_cols=76 Identities=14% Similarity=0.196 Sum_probs=61.6
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEc-CeEEEEEecc
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVC-DSRVLVKPYK 386 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~-GR~I~Vk~a~ 386 (639)
+....++++++++ .++.+.+..+|.+|.--.+||++. ..++.|||+|.+...+..|...+.+-.|. ...+.|..++
T Consensus 144 ppn~ilf~~niP~-es~~e~l~~lf~qf~g~keir~i~-~~~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a~ 220 (221)
T KOG4206|consen 144 PPNNILFLTNIPS-ESESEMLSDLFEQFPGFKEIRLIP-PRSGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFAK 220 (221)
T ss_pred CCceEEEEecCCc-chhHHHHHHHHhhCcccceeEecc-CCCceeEEecchhhhhHHHhhhhccceeccCceEEecccC
Confidence 4567788887766 789999999999999999999876 35689999999999989998887776664 6667776653
No 117
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=92.06 E-value=0.066 Score=55.82 Aligned_cols=59 Identities=17% Similarity=0.171 Sum_probs=49.8
Q ss_pred HHHHHHhh-cCCCeeEEEeec---cCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 327 EDVSNYFS-IYGPVHDVRIPY---QQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 327 edLre~Fs-qFG~V~dVrIp~---DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
+||-..|+ +||+|+++.|-. +.-+|=.+|.|...|+|++|++.+|+..+.|++|.....
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~ 145 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS 145 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence 34444445 899999998765 367788999999999999999999999999999988775
No 118
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=91.79 E-value=0.17 Score=52.07 Aligned_cols=70 Identities=14% Similarity=0.197 Sum_probs=52.2
Q ss_pred CCCCCCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEE
Q 041390 305 GSMNPSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFV 375 (639)
Q Consensus 305 G~~~~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L 375 (639)
|.....-.|+||.++.. ++||++||.+|+.|--...++|-....--.|||.|++.+.|..|+..+.+..|
T Consensus 204 ~~~~~acstlfianl~~-~~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 204 GSGARACSTLFIANLGP-NCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred cccchhhhhHhhhccCC-CCCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHHHHHHHHHHHHhhccee
Confidence 34445667899986666 89999999999999877777765411223788888888888888877666554
No 119
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=91.58 E-value=0.42 Score=50.99 Aligned_cols=61 Identities=21% Similarity=0.176 Sum_probs=51.5
Q ss_pred HHHHHHHhhcCCCeeEEEeecc-----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 326 EEDVSNYFSIYGPVHDVRIPYQ-----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 326 EedLre~FsqFG~V~dVrIp~D-----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
|+++++-.++||+|..|-|-.+ .-----||+|...+.|-+|+-.||+.++.||.|..+++.
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 6788888999999999977442 112247999999999999999999999999999988874
No 120
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=91.05 E-value=0.68 Score=52.52 Aligned_cols=76 Identities=21% Similarity=0.274 Sum_probs=62.7
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhh-cCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCCeEE----cCeE
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFS-IYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNPHFV----CDSR 379 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~Fs-qFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L----~GR~ 379 (639)
...|||||+..+- -++-++|..+|. -||-|.-|-|=.| ..||-|=|+|.+..+--+||++ .-..| -.++
T Consensus 368 DprrTVFVGgvpr-pl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa-rFvql~h~d~~KR 445 (520)
T KOG0129|consen 368 DPRRTVFVGGLPR-PLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA-RFVQLDHTDIDKR 445 (520)
T ss_pred CccceEEecCCCC-cchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh-heEEEecccccee
Confidence 4678999997765 789999999999 7999999998665 6889999999999999999987 44444 3457
Q ss_pred EEEEecc
Q 041390 380 VLVKPYK 386 (639)
Q Consensus 380 I~Vk~a~ 386 (639)
|.|+++.
T Consensus 446 VEIkPYv 452 (520)
T KOG0129|consen 446 VEIKPYV 452 (520)
T ss_pred eeeccee
Confidence 7777775
No 121
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=89.17 E-value=0.84 Score=51.80 Aligned_cols=72 Identities=17% Similarity=0.260 Sum_probs=52.5
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeec-------cCCCc---eEEEEECCHHHHHHHHHhCCCeEEcCe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPY-------QQKRM---FGFVTFVYPETVKLILAKGNPHFVCDS 378 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~-------DksRG---FGFVtF~~~E~Ae~Al~~mng~~L~GR 378 (639)
.-++.|||++++. +++|+.|...|.+||.|. |.=+. -..+| |.|..|+++..+++-+..... +..
T Consensus 257 ~~S~KVFvGGlp~-dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~---~~~ 331 (520)
T KOG0129|consen 257 RYSRKVFVGGLPW-DITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSE---GEG 331 (520)
T ss_pred ccccceeecCCCc-cccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhh---ccc
Confidence 4678999997764 999999999999999863 22231 15667 999999999999988776322 444
Q ss_pred EEEEEec
Q 041390 379 RVLVKPY 385 (639)
Q Consensus 379 ~I~Vk~a 385 (639)
..+.+..
T Consensus 332 ~~yf~vs 338 (520)
T KOG0129|consen 332 NYYFKVS 338 (520)
T ss_pred ceEEEEe
Confidence 4444443
No 122
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=89.00 E-value=0.83 Score=48.98 Aligned_cols=67 Identities=24% Similarity=0.295 Sum_probs=54.4
Q ss_pred eCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeE-EEEEecccCC
Q 041390 317 TFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSR-VLVKPYKEKG 389 (639)
Q Consensus 317 ~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~-I~Vk~a~~K~ 389 (639)
+|++- .-.-|-.+|++||+|+++.... .-.+=.|.|.++-+|++||.+ |+.+|+|.. |-|++..+|.
T Consensus 204 GFppg---~~s~vL~~F~~cG~Vvkhv~~~--ngNwMhirYssr~~A~KALsk-ng~ii~g~vmiGVkpCtDks 271 (350)
T KOG4285|consen 204 GFPPG---QVSIVLNLFSRCGEVVKHVTPS--NGNWMHIRYSSRTHAQKALSK-NGTIIDGDVMIGVKPCTDKS 271 (350)
T ss_pred ccCcc---chhHHHHHHHhhCeeeeeecCC--CCceEEEEecchhHHHHhhhh-cCeeeccceEEeeeecCCHH
Confidence 45554 4677889999999999997764 777999999999999999999 999998854 4577765553
No 123
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=88.59 E-value=1.5 Score=39.14 Aligned_cols=56 Identities=21% Similarity=0.352 Sum_probs=42.1
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCC
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGN 371 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mn 371 (639)
...-.||+||..| -..||.++|+.||.|.---|- -.-|||...+++.|..|+..+.
T Consensus 8 RdHVFhltFPkeW--K~~DI~qlFspfG~I~VsWi~----dTSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 8 RDHVFHLTFPKEW--KTSDIYQLFSPFGQIYVSWIN----DTSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp GCCEEEEE--TT----HHHHHHHCCCCCCEEEEEEC----TTEEEEEECCCHHHHHHHHHHT
T ss_pred cceEEEEeCchHh--hhhhHHHHhccCCcEEEEEEc----CCcEEEEeecHHHHHHHHHHhc
Confidence 3456889999976 568999999999998644443 3679999999999999888754
No 124
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.83 E-value=0.19 Score=54.80 Aligned_cols=24 Identities=42% Similarity=0.963 Sum_probs=22.2
Q ss_pred ceeeecccccCCCCCCCCCCCCCCC
Q 041390 193 KHCLYFAKGFCKNGTACKFHHIHSP 217 (639)
Q Consensus 193 kpC~YFarG~Ck~G~sCrF~Hg~~p 217 (639)
.+|+||++|+|+.|..|||.|- .|
T Consensus 9 tic~~~~~g~c~~g~~cr~~h~-~~ 32 (344)
T KOG1039|consen 9 TICKYYQKGNCKFGDLCRLSHS-LP 32 (344)
T ss_pred hhhhhcccccccccceeeeecc-Cc
Confidence 7999999999999999999996 44
No 125
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=87.41 E-value=1.3 Score=49.27 Aligned_cols=75 Identities=19% Similarity=0.180 Sum_probs=61.8
Q ss_pred CceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCe-EEEEEecc
Q 041390 311 ARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDS-RVLVKPYK 386 (639)
Q Consensus 311 sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR-~I~Vk~a~ 386 (639)
+.++-+.+++. +++||+|++.|.+-|-+.+...-.++.|-++.+.+.+.|+|-.|+-.|+.|.+.+. -++|.+.+
T Consensus 414 satlHlsnip~-svsee~lk~~f~~~g~~vkafkff~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFSk 489 (492)
T KOG1190|consen 414 SATLHLSNIPP-SVSEEDLKNLFQEPGGQVKAFKFFQKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFSK 489 (492)
T ss_pred hhheeeccCCc-ccchhHHHHhhhcCCceEEeeeecCCCcceeecccCChhHhhhhccccccccCCCCceEEEEeec
Confidence 33444444444 79999999999999998888777767888999999999999999999999999765 78888764
No 126
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=86.61 E-value=1.1 Score=49.58 Aligned_cols=75 Identities=15% Similarity=0.272 Sum_probs=59.3
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeec---c----CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPY---Q----QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~---D----ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
-|-|+++.. ..|.+++..+|+-.|+|.+++|.- | ...-.+||.|.+...+..|-.. .+..+-++-|.|-+|
T Consensus 9 vIqvanisp-sat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhL-tntvfvdraliv~p~ 86 (479)
T KOG4676|consen 9 VIQVANISP-SATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHL-TNTVFVDRALIVRPY 86 (479)
T ss_pred eeeecccCc-hhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhh-ccceeeeeeEEEEec
Confidence 677887766 899999999999999999999854 2 3334899999999999988666 566666777888777
Q ss_pred ccCC
Q 041390 386 KEKG 389 (639)
Q Consensus 386 ~~K~ 389 (639)
-...
T Consensus 87 ~~~~ 90 (479)
T KOG4676|consen 87 GDEV 90 (479)
T ss_pred CCCC
Confidence 5443
No 127
>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=85.99 E-value=2.2 Score=42.87 Aligned_cols=61 Identities=16% Similarity=0.026 Sum_probs=47.3
Q ss_pred CHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCC--CeEEcCeEEEEEeccc
Q 041390 325 REEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGN--PHFVCDSRVLVKPYKE 387 (639)
Q Consensus 325 TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mn--g~~L~GR~I~Vk~a~~ 387 (639)
..+.|+++|..|+.+....+.+ +-+=..|.|.+.++|.+|...++ +..+.|..++|..++.
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~--sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~ 70 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLK--SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQP 70 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEET--TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----
T ss_pred hHHHHHHHHHhcCCceEEEEcC--CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccc
Confidence 4689999999999999998877 55568999999999999999999 8999999999988843
No 128
>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=85.48 E-value=2.4 Score=36.00 Aligned_cols=68 Identities=15% Similarity=0.177 Sum_probs=40.0
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCC-----CeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYG-----PVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG-----~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
++||..-....++..+|-.++..-+ .|-+|+|.. .|.||+-.. +.|+.+++.|++..+.|++|.|+.|
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~----~~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFD----NFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-S----S-EEEEE-T-T-HHHHHHHHTT--SSS----EEE-
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEee----eEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence 3444322233678888988888765 455666654 799999766 5799999999999999999999875
No 129
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=85.44 E-value=0.87 Score=49.64 Aligned_cols=73 Identities=12% Similarity=0.093 Sum_probs=55.2
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCC--CeeEEEeec----cCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEecc
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYG--PVHDVRIPY----QQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPYK 386 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG--~V~dVrIp~----DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a~ 386 (639)
.+||+++. |-+|++||-+....-| .+.+++.-. +++||||.|...+..++++.++.+...+|.|..-.|-.+.
T Consensus 82 ~~YvGNL~-W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~N 160 (498)
T KOG4849|consen 82 CCYVGNLL-WYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSYN 160 (498)
T ss_pred EEEeccee-EEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeeccc
Confidence 68999665 5566667766666555 334443322 4999999999999999999999999999999877776653
No 130
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=84.40 E-value=0.38 Score=51.97 Aligned_cols=80 Identities=11% Similarity=0.085 Sum_probs=57.2
Q ss_pred CCceEEEeCCCCCCCCHHHHH--HHhhcCCCeeEEEeeccC----CC---ceEEEEECCHHHHHHHHHhCCCeEEcCeEE
Q 041390 310 SARQIYLTFPADSTFREEDVS--NYFSIYGPVHDVRIPYQQ----KR---MFGFVTFVYPETVKLILAKGNPHFVCDSRV 380 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLr--e~FsqFG~V~dVrIp~Dk----sR---GFGFVtF~~~E~Ae~Al~~mng~~L~GR~I 380 (639)
..+-+||..+..---+|..|+ +||++||.|.+|.+-.+. +- --++|||...|+|..+|...++..++|+.+
T Consensus 76 qknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~l 155 (327)
T KOG2068|consen 76 QKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRAL 155 (327)
T ss_pred hhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhh
Confidence 344566643333234455554 689999999999986642 11 128999999999999999999999999986
Q ss_pred EEEecccCC
Q 041390 381 LVKPYKEKG 389 (639)
Q Consensus 381 ~Vk~a~~K~ 389 (639)
+......+-
T Consensus 156 ka~~gttky 164 (327)
T KOG2068|consen 156 KASLGTTKY 164 (327)
T ss_pred HHhhCCCcc
Confidence 666555443
No 131
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=82.27 E-value=3.7 Score=48.42 Aligned_cols=67 Identities=16% Similarity=0.125 Sum_probs=56.3
Q ss_pred CCCCCCCCHHHHHHHhhcCCCee-EEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 318 FPADSTFREEDVSNYFSIYGPVH-DVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 318 ~~~d~~~TEedLre~FsqFG~V~-dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
.+-.++++-+||-++|+.|-.+- +|+|-+. .--|=+-|.|++.++|.+|...++++.|..|.|++..
T Consensus 873 ~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 873 NNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred cCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 46668999999999999997554 4555442 7778999999999999999999999999999998753
No 132
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=82.24 E-value=4.3 Score=39.64 Aligned_cols=73 Identities=15% Similarity=0.173 Sum_probs=53.1
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHH---hhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 309 PSARQIYLTFPADSTFREEDVSNY---FSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~---FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
+.-.||.|+....---..+|++.. .+.||+|.+|.+. .|--|.|+|++..+|=.|+.+... ..-|..+.+.|-
T Consensus 84 pPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c---GrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsWq 159 (166)
T PF15023_consen 84 PPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC---GRQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSWQ 159 (166)
T ss_pred CCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec---CCceEEEEehhhHHHHHHHHhhcC-CCCCceEEeecc
Confidence 455688888543322234555554 6789999999865 367899999999999999998544 556777777764
No 133
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=81.95 E-value=1.5 Score=52.74 Aligned_cols=82 Identities=9% Similarity=0.111 Sum_probs=68.3
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcC--eEEEEEecc
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCD--SRVLVKPYK 386 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~G--R~I~Vk~a~ 386 (639)
...+.++++.+..| ..-..|...|..||.|..|.+-. ..-|++|.|++...++.|++.|.+..|.| +++.|..+.
T Consensus 453 t~ttr~~sgglg~w-~p~~~l~r~fd~fGpir~Idy~h--gq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~ 529 (975)
T KOG0112|consen 453 TPTTRLQSGGLGPW-SPVSRLNREFDRFGPIRIIDYRH--GQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLAS 529 (975)
T ss_pred ccceeeccCCCCCC-ChHHHHHHHhhccCcceeeeccc--CCcceeeecccCccchhhHHHHhcCcCCCCCccccccccc
Confidence 35678899888876 56788999999999999987644 66799999999999999999999998876 779999987
Q ss_pred cCCcchH
Q 041390 387 EKGKVQE 393 (639)
Q Consensus 387 ~K~k~~~ 393 (639)
+-...+.
T Consensus 530 ~~~~~Pq 536 (975)
T KOG0112|consen 530 PPGATPQ 536 (975)
T ss_pred CCCCChh
Confidence 7665543
No 134
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=79.08 E-value=3.3 Score=45.83 Aligned_cols=69 Identities=17% Similarity=0.167 Sum_probs=49.8
Q ss_pred CceEEEe-CCCCCCCCHHHHHHHhhc----CCCeeEEEee-c--cCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEE
Q 041390 311 ARQIYLT-FPADSTFREEDVSNYFSI----YGPVHDVRIP-Y--QQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRV 380 (639)
Q Consensus 311 sr~IYV~-~~~d~~~TEedLre~Fsq----FG~V~dVrIp-~--DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I 380 (639)
..++-|+ .-..|+.++.||.++|.+ -|-+++|-.+ + ++--|=|||.|..+++|++|+.+ |...|.-|=|
T Consensus 159 ~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYI 235 (508)
T KOG1365|consen 159 ENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYI 235 (508)
T ss_pred ccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHH
Confidence 4456664 345679999999999973 2233444333 2 48889999999999999999998 7766655533
No 135
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=78.90 E-value=9.3 Score=32.13 Aligned_cols=54 Identities=19% Similarity=0.142 Sum_probs=40.2
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcC---CCeeEEEeeccCCCceEEEEECCHHHHHHHHHhC
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIY---GPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKG 370 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqF---G~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~m 370 (639)
..|+|.+.. +++.+||+.||..| .....|.-+.|. -+=|.|.+.+.|.+||.+|
T Consensus 6 eavhirGvd--~lsT~dI~~y~~~y~~~~~~~~IEWIdDt---ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVD--ELSTDDIKAYFSEYFDEEGPFRIEWIDDT---SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCC--CCCHHHHHHHHHHhcccCCCceEEEecCC---cEEEEECCHHHHHHHHHcC
Confidence 357777654 68999999999999 123456556543 3568899999999999864
No 136
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=77.83 E-value=2 Score=49.69 Aligned_cols=77 Identities=6% Similarity=0.067 Sum_probs=61.8
Q ss_pred CCCCceEEEeCCCCCCCCHHHHHHHhh-cCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEE---cCeEEEEE
Q 041390 308 NPSARQIYLTFPADSTFREEDVSNYFS-IYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFV---CDSRVLVK 383 (639)
Q Consensus 308 ~~~sr~IYV~~~~d~~~TEedLre~Fs-qFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L---~GR~I~Vk 383 (639)
+..++.|||.++.- -||.-+|+.+.. ..|.|++.-| |+=|--|||+|.+.++|-....+||+... +++.|.+.
T Consensus 441 ~~~SnvlhI~nLvR-PFTlgQLkelL~rtgg~Vee~Wm--DkIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~ad 517 (718)
T KOG2416|consen 441 KEPSNVLHIDNLVR-PFTLGQLKELLGRTGGNVEEFWM--DKIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIAD 517 (718)
T ss_pred CCccceEeeecccc-cchHHHHHHHHhhccCchHHHHH--HHhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEee
Confidence 35677899985554 689999999999 6778888733 44556799999999999999999999876 67888887
Q ss_pred eccc
Q 041390 384 PYKE 387 (639)
Q Consensus 384 ~a~~ 387 (639)
+...
T Consensus 518 f~~~ 521 (718)
T KOG2416|consen 518 FVRA 521 (718)
T ss_pred ecch
Confidence 7643
No 137
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=75.07 E-value=2.6 Score=44.93 Aligned_cols=23 Identities=26% Similarity=0.576 Sum_probs=20.7
Q ss_pred CCHHHHHHHhhcCCCeeEEEeec
Q 041390 324 FREEDVSNYFSIYGPVHDVRIPY 346 (639)
Q Consensus 324 ~TEedLre~FsqFG~V~dVrIp~ 346 (639)
-+|+.|+..|..||+|..|.||.
T Consensus 173 pse~rlr~a~eafg~ir~vdipi 195 (445)
T KOG2891|consen 173 PSEDRLRKAFEAFGEIRNVDIPI 195 (445)
T ss_pred ChHHHHHHHHHHhccceecCCcc
Confidence 46899999999999999999964
No 138
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=74.36 E-value=0.51 Score=56.15 Aligned_cols=64 Identities=27% Similarity=0.349 Sum_probs=52.2
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEee----ccCCCceEEEEECCHHHHHHHHHhCCCeEEc
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIP----YQQKRMFGFVTFVYPETVKLILAKGNPHFVC 376 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp----~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~ 376 (639)
.++||.+... .+.++||+..|+.+|.|..|+|. .++-||+|+|.|..++.+.+|+.....+.+.
T Consensus 668 ~~~fvsnl~~-~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 668 IKIFVSNLSP-KMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHhhcch-hhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 3577774443 88999999999999999999885 2489999999999999999999984444444
No 139
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=72.76 E-value=3.5 Score=46.17 Aligned_cols=77 Identities=17% Similarity=0.126 Sum_probs=60.1
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc----CCCceEEEEECCHHHHHHHHHhCCC-eEEcCeEEEEEeccc
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ----QKRMFGFVTFVYPETVKLILAKGNP-HFVCDSRVLVKPYKE 387 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D----ksRGFGFVtF~~~E~Ae~Al~~mng-~~L~GR~I~Vk~a~~ 387 (639)
.+|++|+.+ ..+-.||+.+|..- .++.. ..-||+||..-+..-|.+|++.+++ .++.|+++.|....+
T Consensus 3 klyignL~p-~~~psdl~svfg~a------k~~~~g~fl~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~ 75 (584)
T KOG2193|consen 3 KLYIGNLSP-QVTPSDLESVFGDA------KIPGSGQFLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVP 75 (584)
T ss_pred cccccccCC-CCChHHHHHHhccc------cCCCCcceeeecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhh
Confidence 578988777 78999999999854 22221 3568999999999999999999875 568999999998877
Q ss_pred CCcchHHHH
Q 041390 388 KGKVQEKKQ 396 (639)
Q Consensus 388 K~k~~~k~~ 396 (639)
+..+..+.+
T Consensus 76 kkqrsrk~Q 84 (584)
T KOG2193|consen 76 KKQRSRKIQ 84 (584)
T ss_pred HHHHhhhhh
Confidence 665554443
No 140
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=72.21 E-value=3.4 Score=43.58 Aligned_cols=73 Identities=14% Similarity=0.187 Sum_probs=59.1
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCC----CeEEcCeEEEEEe
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGN----PHFVCDSRVLVKP 384 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mn----g~~L~GR~I~Vk~ 384 (639)
..|||++... -++-+.|+.-|++||+|+...+..| +.-+=++|.|...-.+.+|+...+ +....++.+.|.+
T Consensus 32 a~l~V~nl~~-~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP 110 (275)
T KOG0115|consen 32 AELYVVNLMQ-GASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEP 110 (275)
T ss_pred ceEEEEecch-hhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCCh
Confidence 5799996665 6888999999999999999877654 677789999999999999998863 3445778887766
Q ss_pred c
Q 041390 385 Y 385 (639)
Q Consensus 385 a 385 (639)
.
T Consensus 111 ~ 111 (275)
T KOG0115|consen 111 M 111 (275)
T ss_pred h
Confidence 5
No 141
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=70.23 E-value=2.9 Score=45.46 Aligned_cols=26 Identities=35% Similarity=0.788 Sum_probs=23.7
Q ss_pred CCCCceeeecccccCCCCCCCCCCCC
Q 041390 189 GLGWKHCLYFAKGFCKNGTACKFHHI 214 (639)
Q Consensus 189 ~~g~kpC~YFarG~Ck~G~sCrF~Hg 214 (639)
+.+-..|+||.+|.|+.|..|-|+|.
T Consensus 74 ~~~~~vcK~~l~glC~kgD~C~Flhe 99 (325)
T KOG1040|consen 74 SRGKVVCKHWLRGLCKKGDQCEFLHE 99 (325)
T ss_pred cCCceeehhhhhhhhhccCcCcchhh
Confidence 45778999999999999999999994
No 142
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=68.87 E-value=2.5 Score=50.68 Aligned_cols=73 Identities=12% Similarity=0.007 Sum_probs=60.3
Q ss_pred ceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeec---cCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 312 RQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPY---QQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 312 r~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~---DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
..++|.++ ++.-|.+.|+.+|+.+|.|++++++. ++.+|.+||.|.++.++.+++..+....+.-+.+.|...
T Consensus 737 ~~v~i~g~-pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vs 812 (881)
T KOG0128|consen 737 ISVAISGP-PFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVS 812 (881)
T ss_pred hhhheeCC-CCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCcccccc
Confidence 34566644 46899999999999999999999875 388999999999999999999988877776666666554
No 143
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=68.38 E-value=1.6 Score=47.24 Aligned_cols=21 Identities=38% Similarity=0.909 Sum_probs=20.1
Q ss_pred ceeeecccccCCCCCC-CCCCC
Q 041390 193 KHCLYFAKGFCKNGTA-CKFHH 213 (639)
Q Consensus 193 kpC~YFarG~Ck~G~s-CrF~H 213 (639)
-+|.=|.||.|+||.. |+|.|
T Consensus 38 eVCReF~rn~C~R~d~~CkfaH 59 (331)
T KOG2494|consen 38 EVCREFLRNTCSRGDRECKFAH 59 (331)
T ss_pred HHHHHHHhccccCCCccccccC
Confidence 4799999999999999 99999
No 144
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=68.11 E-value=2.9 Score=44.72 Aligned_cols=22 Identities=41% Similarity=0.985 Sum_probs=19.4
Q ss_pred eeeec-ccccCCCCCCCCCCCCC
Q 041390 194 HCLYF-AKGFCKNGTACKFHHIH 215 (639)
Q Consensus 194 pC~YF-arG~Ck~G~sCrF~Hg~ 215 (639)
+|.|| .+|.|.+|..|.|.|.+
T Consensus 136 ~c~~Fs~~G~cs~g~~c~~~h~d 158 (285)
T COG5084 136 PCRSFSLKGSCSSGPSCGYSHID 158 (285)
T ss_pred CcccccccceeccCCCCCccccC
Confidence 79999 79999999999999973
No 145
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=67.91 E-value=7.2 Score=45.07 Aligned_cols=70 Identities=13% Similarity=0.010 Sum_probs=52.0
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhc--CCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCC--CeEEcCeEEEE
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSI--YGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGN--PHFVCDSRVLV 382 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~Fsq--FG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mn--g~~L~GR~I~V 382 (639)
..|+|.|-.-..-++-+|+|+.+|.. +-++.+|..-. .- =.||||++..+|+.|.+.+. -.+|-|+.|..
T Consensus 173 ~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~--N~-nWyITfesd~DAQqAykylreevk~fqgKpImA 246 (684)
T KOG2591|consen 173 HKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAH--ND-NWYITFESDTDAQQAYKYLREEVKTFQGKPIMA 246 (684)
T ss_pred cceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeee--cC-ceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence 45777774333337889999999985 88999998765 33 37999999999999987762 45566766643
No 146
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=67.56 E-value=2.6 Score=48.25 Aligned_cols=23 Identities=35% Similarity=0.794 Sum_probs=21.4
Q ss_pred CceeeecccccCCCCCCCCCCCC
Q 041390 192 WKHCLYFAKGFCKNGTACKFHHI 214 (639)
Q Consensus 192 ~kpC~YFarG~Ck~G~sCrF~Hg 214 (639)
.-||-=|.||-|++|.+|.|.||
T Consensus 236 ~tpCPefrkG~C~rGD~CEyaHg 258 (528)
T KOG1595|consen 236 STPCPEFRKGSCERGDSCEYAHG 258 (528)
T ss_pred CccCcccccCCCCCCCccccccc
Confidence 34999999999999999999998
No 147
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=66.30 E-value=1.3 Score=53.31 Aligned_cols=75 Identities=15% Similarity=0.246 Sum_probs=58.2
Q ss_pred CCCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 309 PSARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 309 ~~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
..++++++++.. .++++.+|+..|..+|.|++|.|-.- .---||||.|.+...+-.|+-.+-+..|..-.+++..
T Consensus 370 ~atrTLf~Gnl~-~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~gl 447 (975)
T KOG0112|consen 370 RATRTLFLGNLD-SKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGL 447 (975)
T ss_pred hhhhhhhhcCcc-cchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCcccccc
Confidence 567899998554 49999999999999999999998442 2334999999999999999888776666443444433
No 148
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=66.10 E-value=28 Score=35.58 Aligned_cols=69 Identities=12% Similarity=0.085 Sum_probs=53.5
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEE--cCeEEEEEec
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFV--CDSRVLVKPY 385 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L--~GR~I~Vk~a 385 (639)
.|.|..++. +-+.+||+++..+-|.|--..|-+ -|+|.|.|...|+.+-|+.+++.+.+ .|.+.++...
T Consensus 117 RVvVsGLp~-SgSWQDLKDHmReaGdvCfadv~r---Dg~GvV~~~r~eDMkYAvr~ld~~~~~seGe~~yirv~ 187 (241)
T KOG0105|consen 117 RVVVSGLPP-SGSWQDLKDHMREAGDVCFADVQR---DGVGVVEYLRKEDMKYAVRKLDDQKFRSEGETAYIRVR 187 (241)
T ss_pred eEEEecCCC-CCchHHHHHHHHhhCCeeeeeeec---ccceeeeeeehhhHHHHHHhhccccccCcCcEeeEEec
Confidence 455554444 578999999999999987776655 47999999999999999999877665 4555555544
No 149
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=60.86 E-value=3 Score=44.73 Aligned_cols=21 Identities=43% Similarity=1.081 Sum_probs=20.2
Q ss_pred eeeecccccCCCCCCCCCCCC
Q 041390 194 HCLYFAKGFCKNGTACKFHHI 214 (639)
Q Consensus 194 pC~YFarG~Ck~G~sCrF~Hg 214 (639)
.|-||-.|.|..|..|.|.|+
T Consensus 94 vCafFk~g~C~KG~kCKFsHd 114 (343)
T KOG1763|consen 94 VCAFFKQGTCTKGDKCKFSHD 114 (343)
T ss_pred HHHHHhccCCCCCCcccccch
Confidence 699999999999999999997
No 150
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=58.95 E-value=3.6 Score=44.82 Aligned_cols=24 Identities=38% Similarity=1.016 Sum_probs=22.5
Q ss_pred CCceeeecccccCCCCCCCCCCCC
Q 041390 191 GWKHCLYFAKGFCKNGTACKFHHI 214 (639)
Q Consensus 191 g~kpC~YFarG~Ck~G~sCrF~Hg 214 (639)
.-|.|.+|.+|||.+|.+|++.|.
T Consensus 133 ~~k~c~~~~~g~c~~g~~c~~~h~ 156 (325)
T KOG1040|consen 133 AIKKCKWYKEGFCRGGPSCKKRHE 156 (325)
T ss_pred hhhccchhhhccCCCcchhhhhhh
Confidence 468999999999999999999996
No 151
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=55.73 E-value=5.3 Score=41.36 Aligned_cols=21 Identities=48% Similarity=1.175 Sum_probs=19.0
Q ss_pred eeeec-ccccCCCCCCCCCCCC
Q 041390 194 HCLYF-AKGFCKNGTACKFHHI 214 (639)
Q Consensus 194 pC~YF-arG~Ck~G~sCrF~Hg 214 (639)
-|.|| +.|.|-.|..|||+|.
T Consensus 208 ycryynangicgkgaacrfvhe 229 (377)
T KOG1492|consen 208 YCRYYNANGICGKGAACRFVHE 229 (377)
T ss_pred EEEEecCCCcccCCceeeeecc
Confidence 58887 5999999999999995
No 152
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger.
Probab=54.69 E-value=6.6 Score=26.99 Aligned_cols=19 Identities=37% Similarity=1.016 Sum_probs=15.8
Q ss_pred eeeecccc-cCCCCCCCCCCC
Q 041390 194 HCLYFAKG-FCKNGTACKFHH 213 (639)
Q Consensus 194 pC~YFarG-~Ck~G~sCrF~H 213 (639)
.|.|..+| .|.. .+|.|.|
T Consensus 2 lC~yEl~Gg~Cnd-~~C~~QH 21 (23)
T PF10650_consen 2 LCPYELTGGVCND-PDCEFQH 21 (23)
T ss_pred CCccccCCCeeCC-CCCCccc
Confidence 59999998 8854 6799999
No 153
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=47.00 E-value=21 Score=39.86 Aligned_cols=75 Identities=12% Similarity=0.096 Sum_probs=57.7
Q ss_pred CceEEEeCCCCCCCCHHHHHHHhhcCCCeeE---EEeec---cCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 311 ARQIYLTFPADSTFREEDVSNYFSIYGPVHD---VRIPY---QQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 311 sr~IYV~~~~d~~~TEedLre~FsqFG~V~d---VrIp~---DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
...|.++.+ .|..+.|||-.+|..|-.-++ |-|+. ++.-|=|||.|.+.|.|..|..+.+++...+|-|.|-.
T Consensus 280 kdcvRLRGL-Py~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp 358 (508)
T KOG1365|consen 280 KDCVRLRGL-PYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFP 358 (508)
T ss_pred CCeeEecCC-ChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEee
Confidence 345666643 468899999999999875333 34443 37789999999999999999998888888888888876
Q ss_pred cc
Q 041390 385 YK 386 (639)
Q Consensus 385 a~ 386 (639)
+.
T Consensus 359 ~S 360 (508)
T KOG1365|consen 359 CS 360 (508)
T ss_pred cc
Confidence 63
No 154
>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=45.04 E-value=92 Score=28.94 Aligned_cols=65 Identities=9% Similarity=0.037 Sum_probs=48.8
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCC-CeeEEEeecc--CCCceEEEEECCHHHHHHHHHhCCCeEEcC
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYG-PVHDVRIPYQ--QKRMFGFVTFVYPETVKLILAKGNPHFVCD 377 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG-~V~dVrIp~D--ksRGFGFVtF~~~E~Ae~Al~~mng~~L~G 377 (639)
++-|-..+.+-++-++|..+.+.+- .|..+||++| .+|=...++|.+.+.|+.-.+..||..++.
T Consensus 14 ~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 14 TLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred eEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 3444445555677788876666654 6778899887 566678999999999999999989887754
No 155
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=41.30 E-value=13 Score=39.60 Aligned_cols=25 Identities=36% Similarity=0.703 Sum_probs=21.6
Q ss_pred CCCceeeecc-cccCCC-CCCCCCCCC
Q 041390 190 LGWKHCLYFA-KGFCKN-GTACKFHHI 214 (639)
Q Consensus 190 ~g~kpC~YFa-rG~Ck~-G~sCrF~Hg 214 (639)
+.-..|.+|. .|.|+. |.+|+|.|+
T Consensus 130 ~kt~lc~~~~~~g~c~y~ge~crfah~ 156 (332)
T KOG1677|consen 130 YKTPLCRSFRKSGTCKYRGEQCRFAHG 156 (332)
T ss_pred ccCCcceeeecCccccccCchhhhcCC
Confidence 5566899875 899999 999999997
No 156
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=40.59 E-value=13 Score=40.20 Aligned_cols=26 Identities=27% Similarity=0.747 Sum_probs=22.5
Q ss_pred CCCceeeecc-cccCCCCCCCCCCCCC
Q 041390 190 LGWKHCLYFA-KGFCKNGTACKFHHIH 215 (639)
Q Consensus 190 ~g~kpC~YFa-rG~Ck~G~sCrF~Hg~ 215 (639)
|--+||.-+. -|||.-|..|.|.||+
T Consensus 272 frTePcinwe~sGyc~yg~Rc~F~hgd 298 (351)
T COG5063 272 FRTEPCINWEKSGYCPYGLRCCFKHGD 298 (351)
T ss_pred cccCCccchhhcccCccccccccccCC
Confidence 4458999987 5999999999999984
No 157
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=40.23 E-value=17 Score=44.11 Aligned_cols=72 Identities=19% Similarity=0.104 Sum_probs=57.3
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEE--cCeEEEEEeccc
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFV--CDSRVLVKPYKE 387 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L--~GR~I~Vk~a~~ 387 (639)
+.|+.+++- ..+..-|..+|++||+|.+++..+ .-..|.|.|...+.|-.|++++.|..+ .|.+.+|..++.
T Consensus 300 ~~~~~nn~v-~~tSssL~~l~s~yg~v~s~wtlr--~~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~ 373 (1007)
T KOG4574|consen 300 KQSLENNAV-NLTSSSLATLCSDYGSVASAWTLR--DLNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKT 373 (1007)
T ss_pred hhhhhcccc-cchHHHHHHHHHhhcchhhheecc--cccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccc
Confidence 344444443 678899999999999999999877 345699999999999999999877665 677788877754
No 158
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=38.35 E-value=18 Score=38.67 Aligned_cols=78 Identities=13% Similarity=0.037 Sum_probs=58.6
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeec----cCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEec
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPY----QQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKPY 385 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~----DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~a 385 (639)
...++|++.. .+.+.+.+...+|..+|.+..+.+.. +.++|++.|.|+..+.+..++...-...+.++.+.....
T Consensus 87 ~~~~~f~g~~-s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~ 165 (285)
T KOG4210|consen 87 SSSTFFVGEL-SENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLN 165 (285)
T ss_pred cccccccccc-ccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccc
Confidence 3556777633 34666777889999999998888765 289999999999999999999985445667766655544
Q ss_pred ccC
Q 041390 386 KEK 388 (639)
Q Consensus 386 ~~K 388 (639)
..+
T Consensus 166 ~~~ 168 (285)
T KOG4210|consen 166 TRR 168 (285)
T ss_pred ccc
Confidence 433
No 159
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=36.29 E-value=48 Score=28.07 Aligned_cols=19 Identities=16% Similarity=0.478 Sum_probs=17.1
Q ss_pred HHHHHHHhhcCCCeeEEEe
Q 041390 326 EEDVSNYFSIYGPVHDVRI 344 (639)
Q Consensus 326 EedLre~FsqFG~V~dVrI 344 (639)
-.+||++|++.|+|.-+.|
T Consensus 8 ~~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 8 TAEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHHhcCcEEEEEE
Confidence 3689999999999998887
No 160
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=33.85 E-value=50 Score=32.82 Aligned_cols=66 Identities=12% Similarity=0.109 Sum_probs=43.8
Q ss_pred CCceEEEeCCCCCCCCHHHHHHHhhc-CCCe---eEEEeecc------CCCceEEEEECCHHHHHHHHHhCCCeEEc
Q 041390 310 SARQIYLTFPADSTFREEDVSNYFSI-YGPV---HDVRIPYQ------QKRMFGFVTFVYPETVKLILAKGNPHFVC 376 (639)
Q Consensus 310 ~sr~IYV~~~~d~~~TEedLre~Fsq-FG~V---~dVrIp~D------ksRGFGFVtF~~~E~Ae~Al~~mng~~L~ 376 (639)
....|.|+.++. ++||+++.+..+. +|.. ..+.-..+ ..-.-|+|.|.+.+++..-...++++.+.
T Consensus 6 ~~~KvVIR~LPP-~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~ 81 (176)
T PF03467_consen 6 EGTKVVIRRLPP-NLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFV 81 (176)
T ss_dssp ---EEEEEEE-T-TS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE
T ss_pred cCceEEEeCCCC-CCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEE
Confidence 345788987776 8999999998887 7766 33321111 12234999999999999999999998773
No 161
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=30.70 E-value=25 Score=37.87 Aligned_cols=22 Identities=41% Similarity=1.061 Sum_probs=20.9
Q ss_pred ceeeecccccCCCCCCCCCCCC
Q 041390 193 KHCLYFAKGFCKNGTACKFHHI 214 (639)
Q Consensus 193 kpC~YFarG~Ck~G~sCrF~Hg 214 (639)
-+|++|-+|-|+.|..|.|+|+
T Consensus 105 V~c~~~~~g~c~s~~~c~~lh~ 126 (285)
T COG5084 105 VVCKFFLRGLCKSGFSCEFLHE 126 (285)
T ss_pred cccchhccccCcCCCccccccC
Confidence 3899999999999999999997
No 162
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=29.57 E-value=3.5e+02 Score=23.05 Aligned_cols=55 Identities=13% Similarity=0.191 Sum_probs=44.5
Q ss_pred CCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEE
Q 041390 323 TFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLV 382 (639)
Q Consensus 323 ~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~V 382 (639)
.++-++++.-+..|+- .+|+.- ..|| ||.|.+.++|+++....++..+.+.++.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~I~~d---~tGf-YIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DRIRDD---RTGF-YIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-ceEEec---CCEE-EEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 6789999999999965 344321 3454 89999999999999999999998888765
No 163
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=27.39 E-value=24 Score=36.26 Aligned_cols=18 Identities=44% Similarity=1.018 Sum_probs=15.7
Q ss_pred ecccccCCCCCCCCCCCC
Q 041390 197 YFAKGFCKNGTACKFHHI 214 (639)
Q Consensus 197 YFarG~Ck~G~sCrF~Hg 214 (639)
|-.-|||--|.+|+|+|.
T Consensus 147 yk~TGYCGYGDsCKflH~ 164 (259)
T COG5152 147 YKETGYCGYGDSCKFLHD 164 (259)
T ss_pred hhhcccccCCchhhhhhh
Confidence 345899999999999995
No 164
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=27.27 E-value=31 Score=37.71 Aligned_cols=23 Identities=30% Similarity=0.590 Sum_probs=19.6
Q ss_pred CCceeeecccccCCCCCCCCCCCC
Q 041390 191 GWKHCLYFAKGFCKNGTACKFHHI 214 (639)
Q Consensus 191 g~kpC~YFarG~Ck~G~sCrF~Hg 214 (639)
-+--|+=|+||-|.|-+ |||+|.
T Consensus 70 ~v~aC~Ds~kgrCsR~n-CkylHp 92 (331)
T KOG2494|consen 70 RVIACFDSQKGRCSREN-CKYLHP 92 (331)
T ss_pred eEEEEeccccCccCccc-ceecCC
Confidence 34569999999999876 999995
No 165
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=26.56 E-value=13 Score=38.65 Aligned_cols=55 Identities=35% Similarity=0.452 Sum_probs=46.1
Q ss_pred CCCCCHHHHHHHhhcCCCeeEEEeecc---CCCceEEEEECCHHHHHHHHHhCCCeEE
Q 041390 321 DSTFREEDVSNYFSIYGPVHDVRIPYQ---QKRMFGFVTFVYPETVKLILAKGNPHFV 375 (639)
Q Consensus 321 d~~~TEedLre~FsqFG~V~dVrIp~D---ksRGFGFVtF~~~E~Ae~Al~~mng~~L 375 (639)
+-+++++.+...|++-|+|+.+|++.+ +.|.++||++.-...+-.++....+..+
T Consensus 93 d~r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnrn~~~~~~qr~~~~P~~~~~y~~l~~ 150 (267)
T KOG4454|consen 93 DERVTEEILYEVFSQAGPIEGVRIPTDNDGRNRNFGFVTYQRLCAVPFALDLYQGLEL 150 (267)
T ss_pred hhhcchhhheeeecccCCCCCccccccccCCccCccchhhhhhhcCcHHhhhhcccCc
Confidence 347899999999999999999999875 7899999999988888888776544333
No 166
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=23.54 E-value=38 Score=40.10 Aligned_cols=66 Identities=12% Similarity=0.045 Sum_probs=55.0
Q ss_pred eEEEeCCCCCCCCHHHHHHHhhcCCCeeEEEeeccCCCceEEEEECCHHHHHHHHHhCCCeEEcCeEEEEEe
Q 041390 313 QIYLTFPADSTFREEDVSNYFSIYGPVHDVRIPYQQKRMFGFVTFVYPETVKLILAKGNPHFVCDSRVLVKP 384 (639)
Q Consensus 313 ~IYV~~~~d~~~TEedLre~FsqFG~V~dVrIp~DksRGFGFVtF~~~E~Ae~Al~~mng~~L~GR~I~Vk~ 384 (639)
++||+... +.+..+-++.+...+|-|-++.... |||..|.......+|+..++...++|..+.++.
T Consensus 42 ~vfv~~~~-~~~s~~~~~~il~~~g~v~s~kr~~-----fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~ 107 (668)
T KOG2253|consen 42 TVFVGNIS-YLVSQEFWKSILAKSGFVPSWKRDK-----FGFCEFLKHIGDLRASRLLTELNIDDQKLIENV 107 (668)
T ss_pred eeEecchh-hhhhHHHHHHHHhhCCcchhhhhhh-----hcccchhhHHHHHHHHHHhcccCCCcchhhccc
Confidence 45555343 3677888899999999999887766 999999999999999999988889998887765
No 167
>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT. SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.
Probab=22.65 E-value=60 Score=30.31 Aligned_cols=44 Identities=18% Similarity=0.325 Sum_probs=27.2
Q ss_pred CCHHHHHHHhhcCCCeeEEEeecc--CCCceEEEEECCH-HHHHHHHH
Q 041390 324 FREEDVSNYFSIYGPVHDVRIPYQ--QKRMFGFVTFVYP-ETVKLILA 368 (639)
Q Consensus 324 ~TEedLre~FsqFG~V~dVrIp~D--ksRGFGFVtF~~~-E~Ae~Al~ 368 (639)
.+.+.|++.|+.|..+ +|+..++ -++|++.|.|... .--..|++
T Consensus 29 ~~~~~l~~~l~~f~p~-kv~~l~~~~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 29 MSNEELLDKLAEFNPL-KVKPLYGKQGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp --SHHHHHHHHH---S-EEEEEEETTEEEEEEEEE--SSHHHHHHHHH
T ss_pred cCHHHHHHHHHhcCCc-eeEECcCCCCCcEEEEEEECCChHHHHHHHH
Confidence 4568999999999987 5777765 6789999999874 33344443
No 168
>PF12186 AcylCoA_dehyd_C: Acyl-CoA dehydrogenase C terminal; InterPro: IPR020964 This entry represents the C-terminal alpha helical domain of some bacterial Acyl-CoA dehydrogenases. It is found in association with PF02770 from PFAM, PF00441 from PFAM, PF02771 from PFAM. There is a conserved ARRL sequence motif. ; PDB: 2OKU_A.
Probab=21.97 E-value=32 Score=32.35 Aligned_cols=15 Identities=40% Similarity=0.698 Sum_probs=11.9
Q ss_pred hhhhhhhhcccCChH
Q 041390 23 SKIMGYLLIQDNGDK 37 (639)
Q Consensus 23 skI~g~ll~qd~~e~ 37 (639)
-=|||||||||-++.
T Consensus 64 ~iims~LLl~dA~k~ 78 (114)
T PF12186_consen 64 HIIMSYLLLRDASKA 78 (114)
T ss_dssp HHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHh
Confidence 348999999998775
No 169
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=21.03 E-value=32 Score=35.86 Aligned_cols=24 Identities=46% Similarity=1.011 Sum_probs=19.3
Q ss_pred eeeecccccCCCCCCCCCCCCCCCc
Q 041390 194 HCLYFAKGFCKNGTACKFHHIHSPE 218 (639)
Q Consensus 194 pC~YFarG~Ck~G~sCrF~Hg~~pd 218 (639)
-|.||--|-|.|- +|||+|-.+.+
T Consensus 263 acryfllgkcnnp-ncryvhihyse 286 (377)
T KOG1492|consen 263 ACRYFLLGKCNNP-NCRYVHIHYSE 286 (377)
T ss_pred hhhhhhhccCCCC-CceEEEEeecC
Confidence 4999999999774 69999965543
No 170
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=20.65 E-value=33 Score=36.12 Aligned_cols=21 Identities=43% Similarity=0.871 Sum_probs=20.3
Q ss_pred eeeecccccCCCCCCCCCCCC
Q 041390 194 HCLYFAKGFCKNGTACKFHHI 214 (639)
Q Consensus 194 pC~YFarG~Ck~G~sCrF~Hg 214 (639)
.|-.|..|.|..|..|.|.||
T Consensus 87 vcalF~~~~c~kg~~ckF~h~ 107 (299)
T COG5252 87 VCALFLNKTCAKGDACKFAHG 107 (299)
T ss_pred HHHHhccCccccCchhhhhcc
Confidence 699999999999999999998
Done!