Query 003964
Match_columns 783
No_of_seqs 526 out of 2008
Neff 4.9
Searched_HMMs 46136
Date Thu Mar 28 15:07:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003964.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003964hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4660 Protein Mei2, essentia 100.0 8.8E-72 1.9E-76 615.1 25.7 495 133-760 2-521 (549)
2 PF04059 RRM_2: RNA recognitio 100.0 4.8E-45 1E-49 330.7 11.0 97 623-719 1-97 (97)
3 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 1.4E-16 3.1E-21 171.3 22.7 101 194-294 3-116 (352)
4 TIGR01628 PABP-1234 polyadenyl 99.6 2E-15 4.3E-20 173.5 14.3 179 101-292 5-203 (562)
5 KOG0109 RNA-binding protein LA 99.5 7.1E-15 1.5E-19 154.2 3.4 144 99-265 4-150 (346)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.4 7.9E-13 1.7E-17 142.4 9.2 75 194-268 269-352 (352)
7 TIGR01659 sex-lethal sex-letha 99.4 1.5E-12 3.2E-17 142.8 11.4 105 190-294 103-220 (346)
8 TIGR01659 sex-lethal sex-letha 99.4 8.5E-13 1.8E-17 144.7 8.5 156 97-267 107-277 (346)
9 PLN03134 glycine-rich RNA-bind 99.4 5E-12 1.1E-16 122.7 11.6 75 192-266 32-115 (144)
10 KOG0144 RNA-binding protein CU 99.3 9.4E-11 2E-15 128.7 16.1 163 95-269 32-210 (510)
11 TIGR01645 half-pint poly-U bin 99.2 1.2E-11 2.5E-16 143.7 8.8 161 101-265 112-284 (612)
12 TIGR01628 PABP-1234 polyadenyl 99.2 3.7E-11 8E-16 138.5 9.3 186 101-294 93-312 (562)
13 KOG0148 Apoptosis-promoting RN 99.2 5.5E-11 1.2E-15 124.4 9.0 150 101-292 11-189 (321)
14 TIGR01645 half-pint poly-U bin 99.2 9E-11 2E-15 136.5 10.1 102 193-294 106-231 (612)
15 TIGR01622 SF-CC1 splicing fact 99.1 8.3E-11 1.8E-15 131.6 8.8 157 101-263 94-264 (457)
16 PF00076 RRM_1: RNA recognitio 99.1 2.3E-10 4.9E-15 94.4 7.5 62 197-258 1-70 (70)
17 TIGR01648 hnRNP-R-Q heterogene 99.1 3.5E-10 7.6E-15 131.2 11.5 99 193-293 57-164 (578)
18 KOG0107 Alternative splicing f 99.1 1.4E-10 3.1E-15 115.1 6.8 74 193-266 9-86 (195)
19 KOG0109 RNA-binding protein LA 99.1 1.3E-10 2.7E-15 122.7 6.4 98 195-293 3-104 (346)
20 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.1 6E-10 1.3E-14 126.9 11.1 102 193-294 1-123 (481)
21 KOG0121 Nuclear cap-binding pr 99.1 2.4E-10 5.2E-15 108.7 6.5 96 192-287 34-138 (153)
22 KOG0148 Apoptosis-promoting RN 99.1 3.3E-10 7.3E-15 118.6 8.1 164 101-267 67-240 (321)
23 KOG0145 RNA-binding protein EL 99.0 9E-10 2E-14 114.8 11.0 102 194-295 41-155 (360)
24 TIGR01648 hnRNP-R-Q heterogene 99.0 3.8E-10 8.3E-15 130.8 9.2 74 193-267 232-309 (578)
25 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.0 8.8E-10 1.9E-14 125.6 11.6 74 191-264 272-350 (481)
26 TIGR01642 U2AF_lg U2 snRNP aux 99.0 8.6E-10 1.9E-14 125.0 10.9 73 193-265 294-375 (509)
27 KOG0117 Heterogeneous nuclear 99.0 1E-09 2.2E-14 121.2 10.7 101 192-294 81-191 (506)
28 TIGR01622 SF-CC1 splicing fact 99.0 1.6E-09 3.4E-14 121.4 11.3 104 190-294 85-213 (457)
29 KOG4212 RNA-binding protein hn 98.9 4.2E-07 9.2E-12 100.5 26.8 71 194-264 44-123 (608)
30 KOG0125 Ataxin 2-binding prote 98.9 3.3E-09 7.1E-14 113.7 9.3 76 190-265 92-174 (376)
31 PLN03120 nucleic acid binding 98.9 5.3E-09 1.2E-13 110.4 9.2 70 194-264 4-79 (260)
32 PLN03213 repressor of silencin 98.9 4.5E-09 9.9E-14 116.9 8.6 73 193-265 9-88 (759)
33 KOG0149 Predicted RNA-binding 98.8 3.5E-09 7.5E-14 109.4 5.8 75 191-266 9-92 (247)
34 KOG0144 RNA-binding protein CU 98.8 6.7E-09 1.4E-13 114.4 7.8 103 192-294 32-151 (510)
35 KOG0117 Heterogeneous nuclear 98.8 1.3E-08 2.9E-13 112.5 9.8 74 195-269 260-335 (506)
36 KOG0122 Translation initiation 98.8 1.2E-08 2.6E-13 106.0 8.8 77 189-265 184-269 (270)
37 KOG4207 Predicted splicing fac 98.8 5.3E-09 1.2E-13 106.3 6.0 72 194-265 13-93 (256)
38 COG0724 RNA-binding proteins ( 98.8 1.4E-08 3E-13 100.6 8.8 71 194-264 115-194 (306)
39 PF14259 RRM_6: RNA recognitio 98.8 1.6E-08 3.5E-13 84.6 7.5 62 197-258 1-70 (70)
40 smart00362 RRM_2 RNA recogniti 98.8 2.2E-08 4.7E-13 80.8 7.8 65 196-260 1-72 (72)
41 KOG4205 RNA-binding protein mu 98.8 1.4E-08 3.1E-13 110.1 8.2 160 96-267 5-178 (311)
42 KOG0145 RNA-binding protein EL 98.8 1.5E-08 3.2E-13 105.9 7.4 82 620-707 38-119 (360)
43 PLN03134 glycine-rich RNA-bind 98.7 4E-08 8.7E-13 95.6 9.7 83 619-707 30-112 (144)
44 TIGR01642 U2AF_lg U2 snRNP aux 98.7 2.3E-08 5.1E-13 113.4 9.1 102 189-292 170-320 (509)
45 KOG0105 Alternative splicing f 98.7 1.2E-08 2.7E-13 102.3 5.6 74 193-266 5-84 (241)
46 KOG0131 Splicing factor 3b, su 98.7 3.4E-08 7.4E-13 98.9 8.5 107 194-300 9-129 (203)
47 KOG0127 Nucleolar protein fibr 98.7 4E-08 8.6E-13 110.8 9.3 165 101-267 10-198 (678)
48 KOG0111 Cyclophilin-type pepti 98.7 8.8E-09 1.9E-13 105.5 3.0 75 194-268 10-93 (298)
49 KOG0114 Predicted RNA-binding 98.7 2.7E-08 5.9E-13 91.9 5.9 77 193-269 17-99 (124)
50 KOG0113 U1 small nuclear ribon 98.7 5.3E-08 1.1E-12 103.5 8.5 77 192-268 99-184 (335)
51 PLN03121 nucleic acid binding 98.6 8.8E-08 1.9E-12 100.2 9.0 70 194-264 5-80 (243)
52 KOG0126 Predicted RNA-binding 98.6 4E-09 8.7E-14 105.5 -1.5 72 193-264 34-114 (219)
53 smart00360 RRM RNA recognition 98.6 1E-07 2.2E-12 76.4 6.7 62 199-260 1-71 (71)
54 cd00590 RRM RRM (RNA recogniti 98.6 2.3E-07 4.9E-12 75.2 8.3 66 196-261 1-74 (74)
55 KOG0122 Translation initiation 98.6 1.3E-07 2.9E-12 98.4 8.4 83 621-709 187-269 (270)
56 KOG4206 Spliceosomal protein s 98.5 1.3E-07 2.9E-12 97.4 7.3 76 191-266 6-91 (221)
57 KOG0108 mRNA cleavage and poly 98.5 1.1E-07 2.3E-12 107.4 7.0 74 195-268 19-101 (435)
58 KOG0127 Nucleolar protein fibr 98.5 2.9E-07 6.4E-12 104.0 9.3 79 190-268 288-381 (678)
59 PF13893 RRM_5: RNA recognitio 98.5 3.2E-07 6.8E-12 74.4 6.6 52 211-262 1-56 (56)
60 KOG0132 RNA polymerase II C-te 98.4 2.5E-07 5.4E-12 107.9 6.8 76 194-269 421-499 (894)
61 KOG0131 Splicing factor 3b, su 98.4 1.2E-07 2.6E-12 95.1 3.2 157 101-268 14-180 (203)
62 KOG0130 RNA-binding protein RB 98.4 2.5E-07 5.3E-12 89.1 5.0 72 194-265 72-152 (170)
63 KOG0146 RNA-binding protein ET 98.4 2.4E-07 5.2E-12 97.4 4.6 79 191-269 282-369 (371)
64 PF00076 RRM_1: RNA recognitio 98.4 1.3E-06 2.9E-11 71.9 7.9 65 626-693 1-65 (70)
65 KOG4205 RNA-binding protein mu 98.4 3.2E-07 7E-12 99.7 5.2 99 193-292 5-122 (311)
66 KOG0124 Polypyrimidine tract-b 98.4 3.3E-07 7.2E-12 99.4 4.8 102 194-295 113-238 (544)
67 KOG4212 RNA-binding protein hn 98.4 6.2E-07 1.3E-11 99.2 6.9 72 191-262 533-608 (608)
68 KOG0153 Predicted RNA-binding 98.3 1.1E-06 2.5E-11 95.1 8.3 79 186-264 220-302 (377)
69 smart00362 RRM_2 RNA recogniti 98.3 3.9E-06 8.5E-11 67.5 8.2 65 625-693 1-65 (72)
70 KOG0123 Polyadenylate-binding 98.3 2.3E-06 4.9E-11 95.3 8.5 97 195-292 77-192 (369)
71 KOG0123 Polyadenylate-binding 98.2 2.2E-06 4.7E-11 95.4 7.7 95 196-295 3-104 (369)
72 KOG4661 Hsp27-ERE-TATA-binding 98.2 4E-06 8.6E-11 95.2 9.6 73 192-264 403-484 (940)
73 PF14259 RRM_6: RNA recognitio 98.2 3.8E-06 8.3E-11 70.3 7.3 65 626-693 1-65 (70)
74 cd00590 RRM RRM (RNA recogniti 98.2 9.3E-06 2E-10 65.7 8.9 74 625-705 1-74 (74)
75 smart00360 RRM RNA recognition 98.2 6.2E-06 1.3E-10 66.0 7.3 64 628-693 1-64 (71)
76 KOG0147 Transcriptional coacti 98.2 1.8E-06 4E-11 98.0 5.3 73 193-265 277-358 (549)
77 smart00361 RRM_1 RNA recogniti 98.1 5.2E-06 1.1E-10 70.8 6.2 53 208-260 2-70 (70)
78 KOG0110 RNA-binding protein (R 98.1 2.9E-06 6.2E-11 98.7 5.5 160 101-266 520-694 (725)
79 KOG0151 Predicted splicing reg 98.1 7.2E-06 1.6E-10 95.3 7.4 82 183-264 163-256 (877)
80 PF03467 Smg4_UPF3: Smg-4/UPF3 98.0 5.4E-06 1.2E-10 83.6 5.0 90 621-710 5-99 (176)
81 COG0724 RNA-binding proteins ( 98.0 2.1E-05 4.5E-10 78.0 8.6 84 623-712 115-200 (306)
82 KOG0110 RNA-binding protein (R 98.0 1.2E-05 2.7E-10 93.6 7.9 103 195-297 516-643 (725)
83 KOG0533 RRM motif-containing p 97.9 2.5E-05 5.4E-10 82.5 8.0 76 191-266 80-163 (243)
84 KOG0146 RNA-binding protein ET 97.8 1.8E-05 4E-10 83.5 5.1 76 193-268 18-104 (371)
85 KOG1457 RNA binding protein (c 97.8 3.8E-05 8.3E-10 79.5 7.2 74 194-267 34-120 (284)
86 KOG0106 Alternative splicing f 97.6 5E-05 1.1E-09 78.9 4.9 69 195-264 2-72 (216)
87 KOG0415 Predicted peptidyl pro 97.6 6.7E-05 1.5E-09 81.8 5.9 76 191-266 236-320 (479)
88 KOG4207 Predicted splicing fac 97.6 0.00011 2.3E-09 75.6 6.4 82 621-708 11-92 (256)
89 KOG0124 Polypyrimidine tract-b 97.6 3.8E-05 8.2E-10 83.9 3.0 159 101-263 118-288 (544)
90 PLN03120 nucleic acid binding 97.5 0.00029 6.3E-09 75.1 9.0 75 623-707 4-78 (260)
91 KOG1548 Transcription elongati 97.4 0.00022 4.7E-09 77.9 5.9 74 191-264 131-220 (382)
92 KOG1190 Polypyrimidine tract-b 97.3 0.0011 2.3E-08 73.9 10.0 73 194-266 297-374 (492)
93 smart00361 RRM_1 RNA recogniti 97.2 0.0011 2.4E-08 56.6 6.6 57 637-693 2-63 (70)
94 KOG0116 RasGAP SH3 binding pro 97.2 0.00059 1.3E-08 77.3 6.3 73 193-266 287-368 (419)
95 KOG0106 Alternative splicing f 97.0 0.001 2.3E-08 69.3 6.3 70 192-262 97-168 (216)
96 KOG4209 Splicing factor RNPS1, 96.9 0.00091 2E-08 70.5 4.6 74 191-265 98-180 (231)
97 KOG4208 Nucleolar RNA-binding 96.8 0.0031 6.6E-08 65.1 7.0 72 194-265 49-130 (214)
98 KOG1457 RNA binding protein (c 96.7 0.0013 2.7E-08 68.6 3.6 63 190-252 206-273 (284)
99 PLN03213 repressor of silencin 96.6 0.0066 1.4E-07 69.1 8.8 76 622-707 9-86 (759)
100 KOG4210 Nuclear localization s 96.6 0.0041 8.8E-08 67.5 6.9 73 194-267 184-266 (285)
101 KOG0125 Ataxin 2-binding prote 96.4 0.0077 1.7E-07 65.8 7.6 79 621-707 94-172 (376)
102 KOG4454 RNA binding protein (R 96.3 0.0014 3E-08 68.1 1.2 72 194-265 9-87 (267)
103 KOG1295 Nonsense-mediated deca 96.3 0.0025 5.3E-08 70.8 2.9 72 621-693 5-78 (376)
104 KOG0108 mRNA cleavage and poly 96.2 0.02 4.3E-07 65.6 9.7 92 624-721 19-110 (435)
105 PLN03121 nucleic acid binding 96.2 0.021 4.6E-07 60.5 9.0 64 624-693 6-69 (243)
106 PF08777 RRM_3: RNA binding mo 96.2 0.0076 1.6E-07 56.2 5.1 69 195-263 2-78 (105)
107 PF11608 Limkain-b1: Limkain b 96.2 0.017 3.7E-07 52.3 7.0 66 195-263 3-75 (90)
108 KOG0226 RNA-binding proteins [ 96.1 0.0051 1.1E-07 65.2 3.9 74 192-265 188-270 (290)
109 COG5175 MOT2 Transcriptional r 96.0 0.0099 2.1E-07 65.1 5.6 71 195-265 115-203 (480)
110 PF13893 RRM_5: RNA recognitio 96.0 0.026 5.7E-07 45.6 6.8 56 640-706 1-56 (56)
111 KOG4660 Protein Mei2, essentia 95.9 0.0031 6.7E-08 72.6 1.2 81 609-709 347-437 (549)
112 KOG1995 Conserved Zn-finger pr 95.8 0.008 1.7E-07 66.3 3.8 77 191-267 63-156 (351)
113 KOG1190 Polypyrimidine tract-b 95.7 0.015 3.2E-07 65.2 5.5 73 196-268 152-231 (492)
114 KOG0113 U1 small nuclear ribon 95.6 0.046 1E-06 59.3 8.7 81 621-707 99-179 (335)
115 PF07576 BRAP2: BRCA1-associat 95.5 0.091 2E-06 49.7 9.4 85 622-709 11-96 (110)
116 KOG0120 Splicing factor U2AF, 95.5 0.0091 2E-07 69.0 3.0 76 194-269 289-373 (500)
117 KOG0105 Alternative splicing f 95.4 0.077 1.7E-06 54.4 9.1 63 191-253 112-176 (241)
118 KOG0147 Transcriptional coacti 95.4 0.017 3.7E-07 66.6 4.9 81 626-709 281-361 (549)
119 KOG0132 RNA polymerase II C-te 95.4 0.036 7.7E-07 66.2 7.5 78 624-713 422-499 (894)
120 KOG1456 Heterogeneous nuclear 95.3 0.11 2.4E-06 57.9 10.3 81 624-709 407-491 (494)
121 KOG0107 Alternative splicing f 95.2 0.046 1E-06 55.5 6.6 66 621-693 8-73 (195)
122 KOG0112 Large RNA-binding prot 95.1 0.064 1.4E-06 65.1 8.5 77 192-268 453-534 (975)
123 KOG4208 Nucleolar RNA-binding 94.9 0.073 1.6E-06 55.3 7.3 81 620-705 46-126 (214)
124 KOG3152 TBP-binding protein, a 94.9 0.037 8.1E-07 58.9 5.3 64 193-256 73-157 (278)
125 KOG0804 Cytoplasmic Zn-finger 94.3 0.14 3E-06 58.3 8.3 81 623-707 74-154 (493)
126 KOG4206 Spliceosomal protein s 94.2 0.11 2.4E-06 54.4 6.8 73 191-263 143-220 (221)
127 KOG0149 Predicted RNA-binding 93.8 0.14 3E-06 54.2 6.5 68 619-688 8-75 (247)
128 PF05172 Nup35_RRM: Nup53/35/4 93.5 0.12 2.6E-06 48.1 5.1 69 194-264 6-91 (100)
129 KOG4211 Splicing factor hnRNP- 93.5 0.24 5.1E-06 57.0 8.1 95 195-291 11-127 (510)
130 PF14605 Nup35_RRM_2: Nup53/35 93.3 0.13 2.9E-06 42.3 4.4 49 195-244 2-53 (53)
131 KOG4849 mRNA cleavage factor I 93.2 0.18 3.9E-06 55.8 6.5 67 194-260 80-157 (498)
132 PF04059 RRM_2: RNA recognitio 92.9 0.45 9.7E-06 44.2 7.7 72 195-266 2-88 (97)
133 KOG1548 Transcription elongati 92.8 0.21 4.7E-06 55.3 6.4 75 192-266 263-353 (382)
134 KOG0129 Predicted RNA-binding 92.8 0.32 6.9E-06 56.3 7.9 101 193-293 258-397 (520)
135 KOG1855 Predicted RNA-binding 92.6 0.17 3.6E-06 57.4 5.3 63 187-249 224-308 (484)
136 KOG0112 Large RNA-binding prot 92.4 0.063 1.4E-06 65.1 1.9 101 192-292 370-480 (975)
137 KOG4307 RNA binding protein RB 91.8 1.4 3E-05 52.9 11.6 67 195-261 868-943 (944)
138 KOG2202 U2 snRNP splicing fact 91.7 0.13 2.8E-06 54.9 3.0 53 210-263 84-146 (260)
139 KOG0533 RRM motif-containing p 91.1 0.65 1.4E-05 49.7 7.5 72 620-695 79-152 (243)
140 KOG0121 Nuclear cap-binding pr 91.1 0.74 1.6E-05 45.1 7.1 78 622-705 35-112 (153)
141 KOG2193 IGF-II mRNA-binding pr 90.9 0.23 5E-06 56.2 4.0 74 195-269 2-80 (584)
142 PF08952 DUF1866: Domain of un 90.8 0.6 1.3E-05 46.4 6.4 72 192-265 25-107 (146)
143 KOG0111 Cyclophilin-type pepti 90.6 0.25 5.3E-06 52.0 3.7 80 622-707 9-88 (298)
144 KOG0128 RNA-binding protein SA 90.4 0.2 4.3E-06 60.7 3.2 72 194-265 736-815 (881)
145 KOG0114 Predicted RNA-binding 90.0 1.6 3.6E-05 41.4 8.2 75 621-705 16-91 (124)
146 KOG0129 Predicted RNA-binding 89.3 0.71 1.5E-05 53.5 6.4 56 191-246 367-432 (520)
147 KOG1456 Heterogeneous nuclear 89.3 1.3 2.7E-05 49.9 8.0 76 189-264 282-362 (494)
148 KOG2314 Translation initiation 88.2 0.59 1.3E-05 54.7 4.8 67 195-261 59-140 (698)
149 KOG1996 mRNA splicing factor [ 85.6 1.2 2.7E-05 48.6 5.2 55 209-263 301-365 (378)
150 KOG0120 Splicing factor U2AF, 85.1 0.74 1.6E-05 53.8 3.5 88 622-716 288-376 (500)
151 PF15023 DUF4523: Protein of u 84.1 2.8 6E-05 41.9 6.4 72 191-263 83-160 (166)
152 PF04847 Calcipressin: Calcipr 82.8 1.8 3.9E-05 44.6 4.8 59 207-265 8-71 (184)
153 KOG2068 MOT2 transcription fac 81.8 0.57 1.2E-05 51.8 0.9 72 195-266 78-164 (327)
154 KOG2314 Translation initiation 81.2 3.5 7.7E-05 48.6 6.9 70 624-694 59-132 (698)
155 KOG2416 Acinus (induces apopto 80.3 2.1 4.7E-05 50.5 4.8 75 190-264 440-521 (718)
156 PF10309 DUF2414: Protein of u 78.1 6.1 0.00013 34.1 5.7 51 195-247 6-62 (62)
157 KOG0226 RNA-binding proteins [ 76.6 3.2 6.9E-05 44.8 4.3 62 630-693 197-258 (290)
158 KOG0130 RNA-binding protein RB 75.2 8.9 0.00019 38.1 6.6 82 625-712 74-155 (170)
159 KOG2416 Acinus (induces apopto 72.9 7.9 0.00017 46.1 6.6 76 624-707 445-520 (718)
160 KOG2591 c-Mpl binding protein, 72.4 4 8.6E-05 48.1 4.1 77 184-260 165-247 (684)
161 PF03880 DbpA: DbpA RNA bindin 72.1 3.3 7.1E-05 36.1 2.7 65 196-262 2-74 (74)
162 KOG0116 RasGAP SH3 binding pro 66.1 9.9 0.00022 43.9 5.6 62 624-687 289-350 (419)
163 PF03467 Smg4_UPF3: Smg-4/UPF3 65.6 4.9 0.00011 41.0 2.7 71 193-263 6-96 (176)
164 KOG4574 RNA-binding protein (c 63.9 5.5 0.00012 49.0 3.1 67 196-265 300-374 (1007)
165 KOG4211 Splicing factor hnRNP- 63.3 13 0.00028 43.4 5.8 70 193-263 102-180 (510)
166 KOG0415 Predicted peptidyl pro 63.3 9.4 0.0002 43.0 4.5 69 623-693 239-307 (479)
167 KOG3152 TBP-binding protein, a 63.2 8.2 0.00018 41.8 3.9 70 623-694 74-155 (278)
168 KOG0128 RNA-binding protein SA 62.0 1.5 3.3E-05 53.5 -1.9 59 195-254 668-735 (881)
169 KOG4285 Mitotic phosphoprotein 61.3 10 0.00023 41.9 4.4 68 194-265 197-270 (350)
170 KOG0126 Predicted RNA-binding 61.0 1.1 2.3E-05 46.3 -2.9 68 624-693 36-103 (219)
171 KOG1365 RNA-binding protein Fu 60.5 15 0.00032 41.9 5.4 74 190-263 276-360 (508)
172 KOG0115 RNA-binding protein p5 60.3 11 0.00023 40.9 4.2 58 195-252 32-97 (275)
173 KOG0153 Predicted RNA-binding 59.4 22 0.00048 40.1 6.5 86 622-718 227-316 (377)
174 KOG4210 Nuclear localization s 54.5 11 0.00024 41.3 3.3 101 193-293 87-211 (285)
175 KOG4676 Splicing factor, argin 54.0 15 0.00033 41.9 4.2 67 195-262 8-86 (479)
176 PF11608 Limkain-b1: Limkain b 51.7 52 0.0011 30.5 6.4 73 623-709 2-77 (90)
177 PF11767 SET_assoc: Histone ly 49.3 34 0.00073 29.9 4.8 52 205-259 11-65 (66)
178 KOG2253 U1 snRNP complex, subu 49.0 23 0.0005 42.8 4.9 70 190-261 36-107 (668)
179 KOG0151 Predicted splicing reg 48.2 29 0.00064 42.3 5.5 86 618-707 169-255 (877)
180 PF08777 RRM_3: RNA binding mo 46.4 45 0.00098 31.3 5.5 78 624-713 2-82 (105)
181 KOG2135 Proteins containing th 40.4 19 0.00041 42.0 2.4 73 193-266 371-447 (526)
182 KOG4454 RNA binding protein (R 36.7 28 0.0006 37.3 2.7 129 101-257 14-155 (267)
183 KOG4209 Splicing factor RNPS1, 34.7 79 0.0017 33.8 5.8 77 624-709 102-180 (231)
184 KOG4307 RNA binding protein RB 33.4 31 0.00066 42.1 2.7 71 193-263 433-512 (944)
185 KOG2891 Surface glycoprotein [ 30.6 54 0.0012 36.1 3.8 20 206-225 173-192 (445)
186 KOG4483 Uncharacterized conser 26.8 80 0.0017 36.5 4.4 51 194-245 391-445 (528)
187 KOG1365 RNA-binding protein Fu 24.6 92 0.002 35.8 4.4 82 623-710 280-363 (508)
188 PF08675 RNA_bind: RNA binding 24.3 1.6E+02 0.0036 27.2 5.1 51 196-248 11-63 (87)
189 KOG4676 Splicing factor, argin 23.8 20 0.00043 41.0 -0.9 71 194-265 151-226 (479)
190 COG5105 MIH1 Mitotic inducer, 23.7 2E+02 0.0042 32.8 6.5 97 634-738 243-344 (427)
191 KOG2193 IGF-II mRNA-binding pr 23.6 15 0.00032 42.3 -1.9 71 192-262 78-154 (584)
192 KOG0115 RNA-binding protein p5 23.2 84 0.0018 34.4 3.6 53 237-292 4-56 (275)
No 1
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=8.8e-72 Score=615.11 Aligned_cols=495 Identities=46% Similarity=0.656 Sum_probs=350.9
Q ss_pred cc-ccccCCCCcccccCCccccccccccccccCCCCCC-CcccCCCCCC-C-----------CCcCCCCCC-CCCCCCEE
Q 003964 133 ED-DLFDSGGGMELEFEPHESLSIGVSKLNISDGIAGT-GIAHYPISNG-V-----------GTVAGEHPY-GEHPSRTL 197 (783)
Q Consensus 133 eD-DiF~sgGGmeLe~d~~esls~~~~~~s~~dg~~~n-G~~~yg~~n~-~-----------g~~~ge~~~-~e~psrtL 197 (783)
|| |+|+.+||||++++..+.+.. +++..++.+.- +...++.+-. . .....+.+. .+.+.++|
T Consensus 2 ~d~~lf~~~G~~el~~~~~~~~~~---~~~~~n~~~~~~~~~P~~~s~~~~~~l~a~f~~~~~p~~~~np~~~~~~~~~L 78 (549)
T KOG4660|consen 2 EDCDLFSSGGGMELDADSFDNLSV---RNSDRNSAGFVFPEHPPGESRTFVSELSALFEPFNKPLRPDNPSEKDMNQGTL 78 (549)
T ss_pred CccccccCCCCCCcccccccchhh---cccccCCCccccCCCCCCCCCCChhhHHhhhhccCCCCCcCCCCcccCccceE
Confidence 56 999999999999997766444 22222221100 1111111000 0 000112222 24678999
Q ss_pred EEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCcccccccc
Q 003964 198 FVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRPGGARRNLMQ 273 (783)
Q Consensus 198 FVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~~rr~~vq 273 (783)
+|-|||..|++++|+.+|+.||+|++|+.+...+|. |+|+++|++|+++|++.+|.|++|+ ++++.++..+-
T Consensus 79 ~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k----~~~~~~~~~~~ 154 (549)
T KOG4660|consen 79 VVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK----RPGGARRAMGL 154 (549)
T ss_pred EEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc----CCCcccccchh
Confidence 999999999999999999999999999876666665 9999999999999999999999998 88877775443
Q ss_pred ccccccCHHHHhhhhccCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCCCCCCCCccccccccCCCCCCCcccC
Q 003964 274 QLNQELEQDEARGFRHQVGSPVTNSPPGTWAQFGSPVERNPLHAFSKSPGLGTLSPINSNPLHAFSKSTGLATPTPVNSN 353 (783)
Q Consensus 274 qlsq~~~qde~~~~fsq~Gsp~~~SPPg~~~~~~sP~~~npl~~~s~sp~~g~~~p~~g~~l~~~~~~~~~~~~~~~~~~ 353 (783)
+.. ..+..++++++++++||+|. +++.++.++|.-.+
T Consensus 155 ~~~--------~~~~~~~~~p~a~s~pgg~~---------------~~~~~g~l~P~~s~-------------------- 191 (549)
T KOG4660|consen 155 QSG--------TSFLNHFGSPLANSPPGGWP---------------RGQLFGMLSPTRSS-------------------- 191 (549)
T ss_pred ccc--------chhhhhccchhhcCCCCCCc---------------CCcceeeeccchhh--------------------
Confidence 333 44556899999999999997 34444445554211
Q ss_pred CCCCCcccCCCCCCCCCcccccccccccccccccccccccccccccccCCCCchhcccCCCCCCCCCCCCCCCCCCCCCC
Q 003964 354 HLPGLASILPPHLSNTGKIAPIGKDQGRANQTNHMFSNSASLQGAAYQHSQSFPEQKLSASPGPKSPFGESNSNSSGVGT 433 (783)
Q Consensus 354 ~~~g~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~e~~~~~~~g~~~~~g~~~~~~~g~~~ 433 (783)
++..++.+.-.-.+. ...+.-.| |.|.+ +.+. -+|.++|... |...++..++.+
T Consensus 192 -------~~~~~~~~~~~~~~~-~~~~~~~h--q~~~~--~~~~----~s~a~~~~~~----------G~~~s~~~~v~t 245 (549)
T KOG4660|consen 192 -------ILLEHISSVDGSSPG-RETPLLNH--QRFVE--FADN----RSYAFSEPRG----------GFLISNSSGVIT 245 (549)
T ss_pred -------hhhhcchhccCcccc-ccccchhh--hhhhh--hccc----cchhhcccCC----------ceecCCCCceEE
Confidence 111121111111111 23333333 33322 1122 3446666622 677777778889
Q ss_pred CCCCccccCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCCCCCCcccccCCCCCCCC
Q 003964 434 LSGPQFLWGSPPPYSERSSSSAWPTSSVGHPFSSSGQGQGFPYGSRHGSFIGSHHQHHVGSAPSGVSLDRNFGFFPESPE 513 (783)
Q Consensus 434 ~~g~~~~w~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~hvgsap~~~~~~~~~~~~~~s~~ 513 (783)
++|+-- +| |++.+. ..+......++|||||+||+..+
T Consensus 246 ~S~~~g---------------~~------n~~~~~---------r~~~~~~~~~~~~hi~~~Ps~~~------------- 282 (549)
T KOG4660|consen 246 FSGPGG---------------VW------NPFPSR---------RQRQNSSSSHYEHHIGSAPSMHH------------- 282 (549)
T ss_pred ecCCCc---------------cc------CCcccc---------ccccccCcccccCccCCCccccc-------------
Confidence 888844 44 222111 12223344577999999999221
Q ss_pred CCCCCCcCCCCCCCCCCCCCcccccC--Ccccc-CCCCCcCCCCCCCccccCCCCCCCcccCCCCCCCCCCCCcccc---
Q 003964 514 TSFTNPVPLGGMGLSRNNAGYMMNVG--GRVGV-GLPLNVTDNGSPSLRMMSFPRHGPLFFGNGSYSGLGTTSNEAF--- 587 (783)
Q Consensus 514 ~~~~~~~~~~~~g~~~~~g~~~~~~~--~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--- 587 (783)
+.....+++....|++.++.. +.+|+ ..+++.++..++++++.+.++... .|.... .....++..
T Consensus 283 -----l~~~~~~~f~~~s~~~~~~~~~~~n~g~~~~t~~~~e~~s~n~~~e~~~rv~~-~f~~~~---~~~~~~~~~~~~ 353 (549)
T KOG4660|consen 283 -----LLSRISVGFNGGSGALEMNSNGQANQGFLTKTGNVTEFNSKNVGMESSPRVPK-NFEGRR---SYTSQNDYPVEL 353 (549)
T ss_pred -----ccccCccccCCCCCCccccccccCCCCccccCcccccccCCCccccccCCCCc-cccccc---cccccccccccc
Confidence 112223344444444333222 23443 466788889999999999998887 774211 112223333
Q ss_pred ccccccccccCCCCCCCCCCccccCchhhhcCCCCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccce
Q 003964 588 TERGRTRRVENCGSQVDSKKQYQLDLDKIISGEDTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNV 667 (783)
Q Consensus 588 ~~r~r~~r~~~~~~~~~~~~~~~~d~~~I~~g~D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~ 667 (783)
.++.|.||.+....+.. ++++.+|+.+|.+|+|.|||+||||||||||++||++. ||.++|.|||+||||||+|+|||
T Consensus 354 ~~~~~~~Rtt~~i~ni~-n~~~~~dl~~Ildge~~rtt~~iknipNK~T~~ml~~~-d~~~~gtYDFlYLPiDF~nkcNv 431 (549)
T KOG4660|consen 354 ILNYRDRRTTVMIKNIP-NKYGQLDLLRILDGECPRTTLMIKNIPNKYTSKMLLAA-DEKNKGTYDFLYLPIDFKNKCNV 431 (549)
T ss_pred ccccccchhhhhhhccc-cchhHHHHHHHHhCcCchhhhHhhccCchhhHHhhhhh-hccccCccceEEecccccccccc
Confidence 34777777776555554 89999999999999999999999999999999999999 99999999999999999999999
Q ss_pred eEEEEeccChhHHHHHHHHHcCccccCCCCccEEEEEeeecccHHHHHHHhccCcccCCCCCccceEEecCCCCCCCccc
Q 003964 668 GYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVASLAYARIQGQAALVTHFQNSSLMNEDKRCRPIVFHSEGQETSDQEA 747 (783)
Q Consensus 668 GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~v~yAriQGk~ali~hf~nssvm~~~~~~rP~~F~~~g~~~g~~e~ 747 (783)
|||||||++|++|++|+++|||++|++|+|+|||+|+|||||||++|++|||||++|||++.|+|++|++ |+.|.+|+
T Consensus 432 GYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArIQGk~~Li~hFqnS~lm~E~e~y~Pvvf~p--p~dg~~~~ 509 (549)
T KOG4660|consen 432 GYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARIQGKEALIEHFQNSSLMCEDEAYRPVVFSP--PEDGREEP 509 (549)
T ss_pred ceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhhhchHHHHHHhhcccccccchhcCceEecC--cccccccC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999998 89999999
Q ss_pred cCCCCCcccccCC
Q 003964 748 LLSSNLNIFIRQP 760 (783)
Q Consensus 748 fp~~~~~~~~~~~ 760 (783)
+|... +++.+..
T Consensus 510 ~p~~~-~~~a~~~ 521 (549)
T KOG4660|consen 510 EPVKL-NQDAGAG 521 (549)
T ss_pred ccccc-cccCCCC
Confidence 99988 7664443
No 2
>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=100.00 E-value=4.8e-45 Score=330.75 Aligned_cols=97 Identities=66% Similarity=1.209 Sum_probs=96.3
Q ss_pred ceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEEE
Q 003964 623 RTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVAS 702 (783)
Q Consensus 623 RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~ 702 (783)
|||||||||||||||+||+++||+.++|+||||||||||+++||+|||||||+++++|.+|+++|+|++|+.++|+|+|+
T Consensus 1 RTTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~ 80 (97)
T PF04059_consen 1 RTTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCE 80 (97)
T ss_pred CeeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEE
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeecccHHHHHHHhc
Q 003964 703 LAYARIQGQAALVTHFQ 719 (783)
Q Consensus 703 v~yAriQGk~ali~hf~ 719 (783)
|+||||||++|||+|||
T Consensus 81 i~yAriQG~~alv~~f~ 97 (97)
T PF04059_consen 81 ISYARIQGKDALVEHFR 97 (97)
T ss_pred EehhHhhCHHHHHHhhC
Confidence 99999999999999997
No 3
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.74 E-value=1.4e-16 Score=171.29 Aligned_cols=101 Identities=24% Similarity=0.373 Sum_probs=90.5
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
.++|||+|||.+++|++|+++|++||+|.+|+ .+++++|| |.+.++|++||+.|||..|.|++|+|+++++
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~~ 82 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARP 82 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecc
Confidence 57999999999999999999999999999987 35778887 9999999999999999999999999999987
Q ss_pred Cc----cccccccccccccCHHHHhhhhccCCCC
Q 003964 265 GG----ARRNLMQQLNQELEQDEARGFRHQVGSP 294 (783)
Q Consensus 265 r~----~rr~~vqqlsq~~~qde~~~~fsq~Gsp 294 (783)
.. ..+.++.+++....+++++.+|.++|..
T Consensus 83 ~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i 116 (352)
T TIGR01661 83 SSDSIKGANLYVSGLPKTMTQHELESIFSPFGQI 116 (352)
T ss_pred cccccccceEEECCccccCCHHHHHHHHhccCCE
Confidence 64 2345888999999999999999988843
No 4
>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=99.63 E-value=2e-15 Score=173.51 Aligned_cols=179 Identities=18% Similarity=0.232 Sum_probs=117.0
Q ss_pred cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcccccCCccccccccccccccCCCCCCCc---ccCCCC
Q 003964 101 IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGMELEFEPHESLSIGVSKLNISDGIAGTGI---AHYPIS 177 (783)
Q Consensus 101 IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGmeLe~d~~esls~~~~~~s~~dg~~~nG~---~~yg~~ 177 (783)
||||.++.+++.|..+|..+|.+......-|.....-.-++.+++... +.+..+...+ ++...+|. ..+...
T Consensus 5 VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~--~~A~~Al~~l---n~~~i~gk~i~i~~s~~ 79 (562)
T TIGR01628 5 VGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNP--ADAERALETM---NFKRLGGKPIRIMWSQR 79 (562)
T ss_pred EeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCH--HHHHHHHHHh---CCCEECCeeEEeecccc
Confidence 899999999999999999998654332222211111111233444322 2222222111 11111111 111000
Q ss_pred CCCCCcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc----ccCHHHHHHHHHHhCC
Q 003964 178 NGVGTVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHRGF----FYDVRAAEAALRALNR 249 (783)
Q Consensus 178 n~~g~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF----F~d~edAekAI~aLNG 249 (783)
. ........++|||+||+.++++++|+++|++||.|..|+ .+++++|| |.+.++|++||+.|||
T Consensus 80 ~--------~~~~~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~lng 151 (562)
T TIGR01628 80 D--------PSLRRSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQKVNG 151 (562)
T ss_pred c--------ccccccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHHHHhcc
Confidence 0 011112346899999999999999999999999999987 45677877 9999999999999999
Q ss_pred CeeCCcEeEEEecCCCcccc---------ccccccccccCHHHHhhhhccCC
Q 003964 250 SDINGKRIKLEPSRPGGARR---------NLMQQLNQELEQDEARGFRHQVG 292 (783)
Q Consensus 250 ~~I~Gr~IkVe~A~pr~~rr---------~~vqqlsq~~~qde~~~~fsq~G 292 (783)
..+.|+.|.|....++..+. .++.+++...++++++.+|..+|
T Consensus 152 ~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~V~nl~~~~tee~L~~~F~~fG 203 (562)
T TIGR01628 152 MLLNDKEVYVGRFIKKHEREAAPLKKFTNLYVKNLDPSVNEDKLRELFAKFG 203 (562)
T ss_pred cEecCceEEEeccccccccccccccCCCeEEEeCCCCcCCHHHHHHHHHhcC
Confidence 99999999998776554432 36677777778888888877776
No 5
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.50 E-value=7.1e-15 Score=154.20 Aligned_cols=144 Identities=24% Similarity=0.281 Sum_probs=117.1
Q ss_pred hh-cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcccccCCccccccccccccccCCCCCCCcccCCCC
Q 003964 99 ET-IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGMELEFEPHESLSIGVSKLNISDGIAGTGIAHYPIS 177 (783)
Q Consensus 99 e~-IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGmeLe~d~~esls~~~~~~s~~dg~~~nG~~~yg~~ 177 (783)
++ ||||..+.+...|..+|+.|+++-+| ||.+++|++++|.+..+..++.+...-.++|-..|....-
T Consensus 4 KLFIGNLp~~~~~~elr~lFe~ygkVlEC--------DIvKNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSk--- 72 (346)
T KOG0109|consen 4 KLFIGNLPREATEQELRSLFEQYGKVLEC--------DIVKNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASK--- 72 (346)
T ss_pred chhccCCCcccchHHHHHHHHhhCceEee--------eeecccceEEeecccccHHHHhhcccceecceEEEEEecc---
Confidence 45 99999999999999999999999888 9999999999997755544444333334444333333110
Q ss_pred CCCCCcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc--ccCHHHHHHHHHHhCCCeeCCc
Q 003964 178 NGVGTVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF--FYDVRAAEAALRALNRSDINGK 255 (783)
Q Consensus 178 n~~g~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr 255 (783)
.....++||+||||.+.++.+||++.|++||+|.+|. +-|..+| |+..++|..||+.||++++.|+
T Consensus 73 -----------sKsk~stkl~vgNis~tctn~ElRa~fe~ygpviecd-ivkdy~fvh~d~~eda~~air~l~~~~~~gk 140 (346)
T KOG0109|consen 73 -----------SKSKASTKLHVGNISPTCTNQELRAKFEKYGPVIECD-IVKDYAFVHFDRAEDAVEAIRGLDNTEFQGK 140 (346)
T ss_pred -----------ccCCCccccccCCCCccccCHHHhhhhcccCCceeee-eecceeEEEEeeccchHHHHhcccccccccc
Confidence 0134678999999999999999999999999999996 4567788 9999999999999999999999
Q ss_pred EeEEEecCCC
Q 003964 256 RIKLEPSRPG 265 (783)
Q Consensus 256 ~IkVe~A~pr 265 (783)
+++|+++..+
T Consensus 141 ~m~vq~stsr 150 (346)
T KOG0109|consen 141 RMHVQLSTSR 150 (346)
T ss_pred eeeeeeeccc
Confidence 9999999765
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.38 E-value=7.9e-13 Score=142.39 Aligned_cols=75 Identities=19% Similarity=0.381 Sum_probs=69.2
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
+++|||+|||+++++++|+++|++||.|++|+ .++++||| |.+.++|.+||++|||..|.||+|+|.|+..
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~ 348 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTN 348 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccC
Confidence 45799999999999999999999999999998 37888887 9999999999999999999999999999988
Q ss_pred Cccc
Q 003964 265 GGAR 268 (783)
Q Consensus 265 r~~r 268 (783)
+.+|
T Consensus 349 ~~~~ 352 (352)
T TIGR01661 349 KAYR 352 (352)
T ss_pred CCCC
Confidence 7643
No 7
>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=99.38 E-value=1.5e-12 Score=142.82 Aligned_cols=105 Identities=24% Similarity=0.383 Sum_probs=93.3
Q ss_pred CCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEE
Q 003964 190 GEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLE 260 (783)
Q Consensus 190 ~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe 260 (783)
.....++|||+|||+++||++|+++|++||+|++|+ .+++++|| |.+.++|++||+.|||.+|.+++|+|.
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~ 182 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS 182 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence 345678999999999999999999999999999987 46778877 999999999999999999999999999
Q ss_pred ecCCCc----cccccccccccccCHHHHhhhhccCCCC
Q 003964 261 PSRPGG----ARRNLMQQLNQELEQDEARGFRHQVGSP 294 (783)
Q Consensus 261 ~A~pr~----~rr~~vqqlsq~~~qde~~~~fsq~Gsp 294 (783)
++++.. ..+.++..++..+++++++.+|.++|..
T Consensus 183 ~a~p~~~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V 220 (346)
T TIGR01659 183 YARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGQI 220 (346)
T ss_pred cccccccccccceeEEeCCCCcccHHHHHHHHHhcCCE
Confidence 998743 2345889999999999999999999954
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=99.37 E-value=8.5e-13 Score=144.74 Aligned_cols=156 Identities=19% Similarity=0.226 Sum_probs=105.2
Q ss_pred chhh-cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcccccCCccccccccccccccCCCCCCCc---c
Q 003964 97 GVET-IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGMELEFEPHESLSIGVSKLNISDGIAGTGI---A 172 (783)
Q Consensus 97 e~e~-IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGmeLe~d~~esls~~~~~~s~~dg~~~nG~---~ 172 (783)
+... |+||.+|.+++.|..+|..++.+..+....|.....-.-.+.++++.. +.+..+... +++....+. +
T Consensus 107 ~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~--e~A~~Ai~~---LnG~~l~gr~i~V 181 (346)
T TIGR01659 107 GTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSE--ADSQRAIKN---LNGITVRNKRLKV 181 (346)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccH--HHHHHHHHH---cCCCccCCceeee
Confidence 3344 999999999999999999998775553333332221122355566433 222222222 222111111 1
Q ss_pred cCCCCCCCCCcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHH
Q 003964 173 HYPISNGVGTVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAA 243 (783)
Q Consensus 173 ~yg~~n~~g~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekA 243 (783)
.+.. . .......++|||+||+.+++|++|+++|++||+|+.|+ .++++||| |.+.++|++|
T Consensus 182 ~~a~-------p---~~~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~A 251 (346)
T TIGR01659 182 SYAR-------P---GGESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEA 251 (346)
T ss_pred eccc-------c---cccccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHH
Confidence 1100 0 01123457899999999999999999999999999887 36777776 9999999999
Q ss_pred HHHhCCCeeCC--cEeEEEecCCCcc
Q 003964 244 LRALNRSDING--KRIKLEPSRPGGA 267 (783)
Q Consensus 244 I~aLNG~~I~G--r~IkVe~A~pr~~ 267 (783)
|+.||+..+.+ ++|+|.+++.+..
T Consensus 252 i~~lng~~~~g~~~~l~V~~a~~~~~ 277 (346)
T TIGR01659 252 ISALNNVIPEGGSQPLTVRLAEEHGK 277 (346)
T ss_pred HHHhCCCccCCCceeEEEEECCcccc
Confidence 99999999876 6899999987643
No 9
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.35 E-value=5e-12 Score=122.74 Aligned_cols=75 Identities=29% Similarity=0.561 Sum_probs=68.9
Q ss_pred CCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 192 HPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 192 ~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
..+++|||+||+++++|++|+++|++||+|++|+ .+++++|| |.+.++|++||+.||+.+|.|++|+|+++
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a 111 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA 111 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence 3468999999999999999999999999999987 46788888 99999999999999999999999999999
Q ss_pred CCCc
Q 003964 263 RPGG 266 (783)
Q Consensus 263 ~pr~ 266 (783)
+++.
T Consensus 112 ~~~~ 115 (144)
T PLN03134 112 NDRP 115 (144)
T ss_pred CcCC
Confidence 8654
No 10
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.26 E-value=9.4e-11 Score=128.65 Aligned_cols=163 Identities=18% Similarity=0.285 Sum_probs=106.7
Q ss_pred ccchhh-cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcc-cccCCccc---cccccccccccCCCCCC
Q 003964 95 LAGVET-IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGME-LEFEPHES---LSIGVSKLNISDGIAGT 169 (783)
Q Consensus 95 ~ee~e~-IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGme-Le~d~~es---ls~~~~~~s~~dg~~~n 169 (783)
.+-++. +|-+.-.-.++.+..+|+.|+.|-+++...|.-.. ...|-- +....++. +-.+.-.+..+.|....
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~---~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~p 108 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTG---QSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHP 108 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccC---cccceEEEEeccHHHHHHHHHHhhcccccCCCCcc
Confidence 455666 99998877888899999999999888776664431 111110 11111111 11111222222232222
Q ss_pred CcccCCCCCCCCCcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc----ccCHHHHH
Q 003964 170 GIAHYPISNGVGTVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHRGF----FYDVRAAE 241 (783)
Q Consensus 170 G~~~yg~~n~~g~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF----F~d~edAe 241 (783)
..+.|. .+|... -...+|||||-|+..++|.|++++|++||.|++|+ ..+.+||+ |.+.+.|.
T Consensus 109 vqvk~A--------d~E~er-~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~ 179 (510)
T KOG0144|consen 109 VQVKYA--------DGERER-IVEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAV 179 (510)
T ss_pred eeeccc--------chhhhc-cccchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHH
Confidence 222221 112111 13368999999999999999999999999999998 34555555 99999999
Q ss_pred HHHHHhCCCe-eCC--cEeEEEecCCCcccc
Q 003964 242 AALRALNRSD-ING--KRIKLEPSRPGGARR 269 (783)
Q Consensus 242 kAI~aLNG~~-I~G--r~IkVe~A~pr~~rr 269 (783)
.||++|||.. +.| .+|.|+||.+++.|.
T Consensus 180 ~Aika~ng~~tmeGcs~PLVVkFADtqkdk~ 210 (510)
T KOG0144|consen 180 AAIKALNGTQTMEGCSQPLVVKFADTQKDKD 210 (510)
T ss_pred HHHHhhccceeeccCCCceEEEecccCCCch
Confidence 9999999975 555 579999998876553
No 11
>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=99.25 E-value=1.2e-11 Score=143.74 Aligned_cols=161 Identities=15% Similarity=0.250 Sum_probs=105.5
Q ss_pred cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcccccCCcccccccccccc--ccCCCCCCCcccCCCCC
Q 003964 101 IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGMELEFEPHESLSIGVSKLN--ISDGIAGTGIAHYPISN 178 (783)
Q Consensus 101 IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGmeLe~d~~esls~~~~~~s--~~dg~~~nG~~~yg~~n 178 (783)
||||.++.+++.|..+|..||.+..+...-|.....-.-++.++++..+ ....+...++ ..+|... .+......
T Consensus 112 VGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e--~A~~Ai~~lnG~~i~GR~I--kV~rp~~~ 187 (612)
T TIGR01645 112 VGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPE--AAQLALEQMNGQMLGGRNI--KVGRPSNM 187 (612)
T ss_pred EcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHH--HHHHHHHhcCCeEEeccee--eecccccc
Confidence 8999999999999999999988765544333333323334555665332 2222222111 1111110 00000000
Q ss_pred CCC-CcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhC
Q 003964 179 GVG-TVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALN 248 (783)
Q Consensus 179 ~~g-~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLN 248 (783)
... .............++|||+||+.++++++|+++|++||+|+.|+ .++++||| |.+.++|.+||+.||
T Consensus 188 p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amN 267 (612)
T TIGR01645 188 PQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMN 267 (612)
T ss_pred cccccccccccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhC
Confidence 000 00011111123457999999999999999999999999999987 35678877 999999999999999
Q ss_pred CCeeCCcEeEEEecCCC
Q 003964 249 RSDINGKRIKLEPSRPG 265 (783)
Q Consensus 249 G~~I~Gr~IkVe~A~pr 265 (783)
+.+|+|+.|+|.++.++
T Consensus 268 g~elgGr~LrV~kAi~p 284 (612)
T TIGR01645 268 LFDLGGQYLRVGKCVTP 284 (612)
T ss_pred CCeeCCeEEEEEecCCC
Confidence 99999999999988754
No 12
>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=99.19 E-value=3.7e-11 Score=138.45 Aligned_cols=186 Identities=20% Similarity=0.262 Sum_probs=125.6
Q ss_pred cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcccccCCccccccccccccccCCCCCCCcccCCCCCCC
Q 003964 101 IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGMELEFEPHESLSIGVSKLNISDGIAGTGIAHYPISNGV 180 (783)
Q Consensus 101 IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGmeLe~d~~esls~~~~~~s~~dg~~~nG~~~yg~~n~~ 180 (783)
|+||.++.+++.|..+|..+|.+..+....|. +......|.++.+.. ++...+... .++...++..-+.....
T Consensus 93 V~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~-~g~skg~afV~F~~~--e~A~~Ai~~---lng~~~~~~~i~v~~~~- 165 (562)
T TIGR01628 93 VKNLDKSVDNKALFDTFSKFGNILSCKVATDE-NGKSRGYGFVHFEKE--ESAKAAIQK---VNGMLLNDKEVYVGRFI- 165 (562)
T ss_pred EcCCCccCCHHHHHHHHHhcCCcceeEeeecC-CCCcccEEEEEECCH--HHHHHHHHH---hcccEecCceEEEeccc-
Confidence 99999999999999999999887655333331 111222344555433 222222222 12211111110000000
Q ss_pred CCcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc----ccCHHHHHHHHHHhCCCee
Q 003964 181 GTVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHRGF----FYDVRAAEAALRALNRSDI 252 (783)
Q Consensus 181 g~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF----F~d~edAekAI~aLNG~~I 252 (783)
.....+ .......++|||+||+.++++++|+++|++||+|..+. .+++++|| |.+.++|.+|++.|+|..|
T Consensus 166 ~~~~~~-~~~~~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i 244 (562)
T TIGR01628 166 KKHERE-AAPLKKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKI 244 (562)
T ss_pred cccccc-cccccCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEe
Confidence 000000 11234457899999999999999999999999999987 35667666 9999999999999999999
Q ss_pred C----CcEeEEEecCCCccc----------------------cccccccccccCHHHHhhhhccCCCC
Q 003964 253 N----GKRIKLEPSRPGGAR----------------------RNLMQQLNQELEQDEARGFRHQVGSP 294 (783)
Q Consensus 253 ~----Gr~IkVe~A~pr~~r----------------------r~~vqqlsq~~~qde~~~~fsq~Gsp 294 (783)
. |+.|.|.+++.+..+ ..+++++....++++++.+|.++|..
T Consensus 245 ~~~~~g~~l~v~~a~~k~er~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i 312 (562)
T TIGR01628 245 GLAKEGKKLYVGRAQKRAEREAELRRKFEELQQERKMKAQGVNLYVKNLDDTVTDEKLRELFSECGEI 312 (562)
T ss_pred cccccceeeEeecccChhhhHHHHHhhHHhhhhhhhcccCCCEEEEeCCCCccCHHHHHHHHHhcCCe
Confidence 9 999999988765433 13677888889999999999999954
No 13
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.18 E-value=5.5e-11 Score=124.37 Aligned_cols=150 Identities=17% Similarity=0.266 Sum_probs=109.6
Q ss_pred cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcccccCCccccccccccccccCCCCCCCcccCCCCCCC
Q 003964 101 IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGMELEFEPHESLSIGVSKLNISDGIAGTGIAHYPISNGV 180 (783)
Q Consensus 101 IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGmeLe~d~~esls~~~~~~s~~dg~~~nG~~~yg~~n~~ 180 (783)
+|||..+..+|+|+-||...+.+..|-...| ||...-.. .. +. .+
T Consensus 11 vgnld~~vte~~i~~lf~qig~v~~~k~i~~------------e~~v~wa~------------------~p---~n-Qs- 55 (321)
T KOG0148|consen 11 VGNLDSTVTEDFIATLFNQIGSVTKTKVIFD------------ELKVNWAT------------------AP---GN-QS- 55 (321)
T ss_pred eeccChhhHHHHHHHHHHhccccccceeehh------------hhcccccc------------------Cc---cc-CC-
Confidence 9999999999999999999998877633332 22111000 00 00 00
Q ss_pred CCcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCe
Q 003964 181 GTVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSD 251 (783)
Q Consensus 181 g~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~ 251 (783)
+. .....--+||+-|..+++.++||+.|.+||+|.+++ .|+|+||| |.+.++|+.||..|||..
T Consensus 56 -k~------t~~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqW 128 (321)
T KOG0148|consen 56 -KP------TSNQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQW 128 (321)
T ss_pred -CC------ccccceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCee
Confidence 00 001134599999999999999999999999999988 57899988 999999999999999999
Q ss_pred eCCcEeEEEecCCCcccc--------------------ccccccccccCHHHHhhhhccCC
Q 003964 252 INGKRIKLEPSRPGGARR--------------------NLMQQLNQELEQDEARGFRHQVG 292 (783)
Q Consensus 252 I~Gr~IkVe~A~pr~~rr--------------------~~vqqlsq~~~qde~~~~fsq~G 292 (783)
|.+|.||-.||..|.... .++.++...+.+++++..|+.||
T Consensus 129 lG~R~IRTNWATRKp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG 189 (321)
T KOG0148|consen 129 LGRRTIRTNWATRKPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFG 189 (321)
T ss_pred eccceeeccccccCccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCC
Confidence 999999999997554221 14444555566677777777666
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=99.15 E-value=9e-11 Score=136.45 Aligned_cols=102 Identities=21% Similarity=0.378 Sum_probs=89.9
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
..++||||||++++++++|+++|++||+|++|+ .+++++|| |.+.++|++||+.|||..|.||.|+|.+..
T Consensus 106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~ 185 (612)
T TIGR01645 106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS 185 (612)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccc
Confidence 358999999999999999999999999999998 46888888 999999999999999999999999998654
Q ss_pred CC---------------ccccccccccccccCHHHHhhhhccCCCC
Q 003964 264 PG---------------GARRNLMQQLNQELEQDEARGFRHQVGSP 294 (783)
Q Consensus 264 pr---------------~~rr~~vqqlsq~~~qde~~~~fsq~Gsp 294 (783)
.. ..++.|+.+++..+++++++.+|..||..
T Consensus 186 ~~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I 231 (612)
T TIGR01645 186 NMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEI 231 (612)
T ss_pred cccccccccccccccccccceEEeecCCCCCCHHHHHHHHhhcCCe
Confidence 21 11345889999999999999999999964
No 15
>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=99.14 E-value=8.3e-11 Score=131.60 Aligned_cols=157 Identities=20% Similarity=0.240 Sum_probs=97.7
Q ss_pred cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcccccCCccccccccccccccCCCCCCCc---ccCCCC
Q 003964 101 IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGMELEFEPHESLSIGVSKLNISDGIAGTGI---AHYPIS 177 (783)
Q Consensus 101 IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGmeLe~d~~esls~~~~~~s~~dg~~~nG~---~~yg~~ 177 (783)
||||.++.+++.|..+|..+|.+......-|.....-.-.+.+++...+.+ ..+.. .++....|. ..+...
T Consensus 94 V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A--~~Al~----l~g~~~~g~~i~v~~~~~ 167 (457)
T TIGR01622 94 VLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESV--IKALA----LTGQMLLGRPIIVQSSQA 167 (457)
T ss_pred EeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHH--HHHHH----hCCCEECCeeeEEeecch
Confidence 999999989999999999988654332222211111112234444322111 11110 111111110 000000
Q ss_pred --CCCCCcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHH
Q 003964 178 --NGVGTVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRA 246 (783)
Q Consensus 178 --n~~g~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~a 246 (783)
+.............+..++|||+||+..+++++|+++|++||.|..|. .+++++|| |.+.++|++|++.
T Consensus 168 ~~~~~~~~~~~~~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~ 247 (457)
T TIGR01622 168 EKNRAAKAATHQPGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEV 247 (457)
T ss_pred hhhhhhhcccccCCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHh
Confidence 000000000111123368999999999999999999999999999987 34567776 9999999999999
Q ss_pred hCCCeeCCcEeEEEecC
Q 003964 247 LNRSDINGKRIKLEPSR 263 (783)
Q Consensus 247 LNG~~I~Gr~IkVe~A~ 263 (783)
|||..|.|+.|+|.++.
T Consensus 248 l~g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 248 MNGFELAGRPIKVGYAQ 264 (457)
T ss_pred cCCcEECCEEEEEEEcc
Confidence 99999999999999997
No 16
>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=99.10 E-value=2.3e-10 Score=94.39 Aligned_cols=62 Identities=39% Similarity=0.719 Sum_probs=56.8
Q ss_pred EEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeE
Q 003964 197 LFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIK 258 (783)
Q Consensus 197 LFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~Ik 258 (783)
|||+|||.++++++|+++|++||.|..+. ..++.+|| |.+.++|++|++.|+|..+.|+.|+
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 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 79999999999999999999999999887 24556666 9999999999999999999999986
No 17
>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=99.10 E-value=3.5e-10 Score=131.19 Aligned_cols=99 Identities=24% Similarity=0.323 Sum_probs=88.0
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc----ccCHHHHHHHHHHhCCCeeC-CcEeEEEecC
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHRGF----FYDVRAAEAALRALNRSDIN-GKRIKLEPSR 263 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF----F~d~edAekAI~aLNG~~I~-Gr~IkVe~A~ 263 (783)
..++|||+|||.+++|++|+++|++||.|.+|+ .++++||| |.+.++|++||+.||+.+|. |+.|.|.++.
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~ 136 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISV 136 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccccc
Confidence 358999999999999999999999999999988 46889988 99999999999999999985 8888888775
Q ss_pred CCccccccccccccccCHHHHhhhhccCCC
Q 003964 264 PGGARRNLMQQLNQELEQDEARGFRHQVGS 293 (783)
Q Consensus 264 pr~~rr~~vqqlsq~~~qde~~~~fsq~Gs 293 (783)
. .++.++.+++...+++++...|..++.
T Consensus 137 ~--~~rLFVgNLP~~~TeeeL~eeFskv~e 164 (578)
T TIGR01648 137 D--NCRLFVGGIPKNKKREEILEEFSKVTE 164 (578)
T ss_pred c--CceeEeecCCcchhhHHHHHHhhcccC
Confidence 4 356789999999999999999888764
No 18
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.09 E-value=1.4e-10 Score=115.11 Aligned_cols=74 Identities=36% Similarity=0.577 Sum_probs=69.2
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCc
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRPGG 266 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~ 266 (783)
-.++||||||+.++++.||+.+|.+||+|..|.....+.|| |++..+|++|+.+|||+.|.|.+|+|++++.+.
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~ 86 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRP 86 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCc
Confidence 36899999999999999999999999999999987888898 999999999999999999999999999997543
No 19
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.08 E-value=1.3e-10 Score=122.69 Aligned_cols=98 Identities=31% Similarity=0.460 Sum_probs=88.2
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCc--cccc
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSRPGG--ARRN 270 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~--~rr~ 270 (783)
-+|||||||.++++.+|+.+|++||+|.+|. .-|+.|| .++...|++||+.|+|.+|+|..|.|+-++.|. ..+.
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECD-IvKNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKsk~stkl 81 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECD-IVKNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKSKASTKL 81 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeee-eecccceEEeecccccHHHHhhcccceecceEEEEEeccccCCCcccc
Confidence 4899999999999999999999999999996 3578999 999999999999999999999999999998874 3444
Q ss_pred cccccccccCHHHHhhhhccCCC
Q 003964 271 LMQQLNQELEQDEARGFRHQVGS 293 (783)
Q Consensus 271 ~vqqlsq~~~qde~~~~fsq~Gs 293 (783)
.+.++...-..++++..|+.+|.
T Consensus 82 ~vgNis~tctn~ElRa~fe~ygp 104 (346)
T KOG0109|consen 82 HVGNISPTCTNQELRAKFEKYGP 104 (346)
T ss_pred ccCCCCccccCHHHhhhhcccCC
Confidence 77888888889999999999984
No 20
>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=99.06 E-value=6e-10 Score=126.94 Aligned_cols=102 Identities=19% Similarity=0.236 Sum_probs=85.3
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-cCCCcccc--ccCHHHHHHHHHHh--CCCeeCCcEeEEEecCCCcc
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-TACKHRGF--FYDVRAAEAALRAL--NRSDINGKRIKLEPSRPGGA 267 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-~tgKsrGF--F~d~edAekAI~aL--NG~~I~Gr~IkVe~A~pr~~ 267 (783)
|+++|||+|||+++++++|+++|++||+|..|. ...|..|| |++.++|++||+.| ++..|.|++|+|+++..+..
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~~ 80 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPGKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEI 80 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCccc
Confidence 578999999999999999999999999999997 44455666 99999999999974 78899999999999864321
Q ss_pred c----------------cccccccccccCHHHHhhhhccCCCC
Q 003964 268 R----------------RNLMQQLNQELEQDEARGFRHQVGSP 294 (783)
Q Consensus 268 r----------------r~~vqqlsq~~~qde~~~~fsq~Gsp 294 (783)
. ..++.++...++.++++.+|..+|..
T Consensus 81 ~~~~~~~~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V 123 (481)
T TIGR01649 81 KRDGNSDFDSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKV 123 (481)
T ss_pred ccCCCCcccCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCE
Confidence 1 12556677788999999999999964
No 21
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.06 E-value=2.4e-10 Score=108.66 Aligned_cols=96 Identities=24% Similarity=0.320 Sum_probs=81.9
Q ss_pred CCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 192 HPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 192 ~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
..++|||||||++-++|+.|.+||+++|+|+.|. .+..+||| |+..++|+.|++.++|+.++.+.|+|.|.
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence 4579999999999999999999999999999987 56778999 99999999999999999999999999998
Q ss_pred CCCccccccccccccccCHHHHhhh
Q 003964 263 RPGGARRNLMQQLNQELEQDEARGF 287 (783)
Q Consensus 263 ~pr~~rr~~vqqlsq~~~qde~~~~ 287 (783)
..-...+++-.+.+..+-.++.+..
T Consensus 114 ~GF~eGRQyGRG~sGGqVrde~r~d 138 (153)
T KOG0121|consen 114 AGFVEGRQYGRGKSGGQVRDEYRTD 138 (153)
T ss_pred ccchhhhhhcCCCCCCeechhhhhh
Confidence 7665555566666666666665543
No 22
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.05 E-value=3.3e-10 Score=118.61 Aligned_cols=164 Identities=20% Similarity=0.294 Sum_probs=112.4
Q ss_pred cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcccccCCcccccccccccc---ccCCCCCCCcccCCCC
Q 003964 101 IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGMELEFEPHESLSIGVSKLN---ISDGIAGTGIAHYPIS 177 (783)
Q Consensus 101 IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGmeLe~d~~esls~~~~~~s---~~dg~~~nG~~~yg~~ 177 (783)
+|+|.++-+-|.|..-|..|+-+..+....|.....=+-+|.+..--... +..+.+.|. +.....+..|......
T Consensus 67 vgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~d--AEnAI~~MnGqWlG~R~IRTNWATRKp~ 144 (321)
T KOG0148|consen 67 VGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKED--AENAIQQMNGQWLGRRTIRTNWATRKPS 144 (321)
T ss_pred ehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHH--HHHHHHHhCCeeeccceeeccccccCcc
Confidence 89999999999999999999999998888887764334455555432211 112222222 1111122222211110
Q ss_pred --CCCC-CcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc----ccCHHHHHHHHHHhCCC
Q 003964 178 --NGVG-TVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF----FYDVRAAEAALRALNRS 250 (783)
Q Consensus 178 --n~~g-~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF----F~d~edAekAI~aLNG~ 250 (783)
+... +...-.-...+.+++||||||+.-++|++||+.|++||.|.+|+. -|-+|| |++.|+|.+||..+|++
T Consensus 145 e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRv-Fk~qGYaFVrF~tkEaAahAIv~mNnt 223 (321)
T KOG0148|consen 145 EMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRV-FKDQGYAFVRFETKEAAAHAIVQMNNT 223 (321)
T ss_pred ccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEE-ecccceEEEEecchhhHHHHHHHhcCc
Confidence 0000 000000123467899999999999999999999999999999982 344555 99999999999999999
Q ss_pred eeCCcEeEEEecCCCcc
Q 003964 251 DINGKRIKLEPSRPGGA 267 (783)
Q Consensus 251 ~I~Gr~IkVe~A~pr~~ 267 (783)
+|.|..+|+.|.+....
T Consensus 224 ei~G~~VkCsWGKe~~~ 240 (321)
T KOG0148|consen 224 EIGGQLVRCSWGKEGDD 240 (321)
T ss_pred eeCceEEEEeccccCCC
Confidence 99999999999987653
No 23
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.05 E-value=9e-10 Score=114.79 Aligned_cols=102 Identities=25% Similarity=0.388 Sum_probs=92.1
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
.++|.|..||.++|++|||.+|+..|+|+.|+ .+|.+-|| |.+.+||++||..|||-.+..|.|+|.+|+|
T Consensus 41 kTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARP 120 (360)
T KOG0145|consen 41 KTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARP 120 (360)
T ss_pred cceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccC
Confidence 46799999999999999999999999999998 57888777 9999999999999999999999999999999
Q ss_pred Cccc----cccccccccccCHHHHhhhhccCCCCC
Q 003964 265 GGAR----RNLMQQLNQELEQDEARGFRHQVGSPV 295 (783)
Q Consensus 265 r~~r----r~~vqqlsq~~~qde~~~~fsq~Gsp~ 295 (783)
.... ..++.++++.+.+.++..+|++||..+
T Consensus 121 Ss~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrII 155 (360)
T KOG0145|consen 121 SSDSIKDANLYVSGLPKTMTQKELEQIFSPFGRII 155 (360)
T ss_pred ChhhhcccceEEecCCccchHHHHHHHHHHhhhhh
Confidence 7543 237889999999999999999999554
No 24
>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=99.05 E-value=3.8e-10 Score=130.84 Aligned_cols=74 Identities=22% Similarity=0.449 Sum_probs=66.7
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcC--CCEEEEecCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCcc
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQY--GDIRTLYTACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSRPGGA 267 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqf--G~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~~ 267 (783)
..++|||+||++++++++|+++|++| |+|+.|+.. +..|| |.+.++|++||++|||++|.|+.|+|++|+|+..
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~-rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~~ 309 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI-RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVDK 309 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee-cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCCc
Confidence 35789999999999999999999999 999998642 34666 9999999999999999999999999999998654
No 25
>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=99.04 E-value=8.8e-10 Score=125.58 Aligned_cols=74 Identities=27% Similarity=0.388 Sum_probs=65.2
Q ss_pred CCCCCEEEEecCCC-CCCHHHHHHHhhcCCCEEEEec--CCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 191 EHPSRTLFVRNINS-NVEDLELRSLFEQYGDIRTLYT--ACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 191 e~psrtLFVGNLp~-dvTEeeLrelFsqfG~I~~v~~--tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
.+++++|||+||++ .+++++|+++|++||.|..|+. ..+..|| |.+.++|++||+.|||..|.|++|+|.+++.
T Consensus 272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~ 350 (481)
T TIGR01649 272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQ 350 (481)
T ss_pred CCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccc
Confidence 45788999999998 6999999999999999999983 2333455 9999999999999999999999999998854
No 26
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.03 E-value=8.6e-10 Score=124.99 Aligned_cols=73 Identities=18% Similarity=0.478 Sum_probs=66.7
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
..++|||+|||..+++++|+++|++||.|..+. .+++++|| |.+.++|.+||+.|||..|.|+.|+|+++.
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~ 373 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRAC 373 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECc
Confidence 457999999999999999999999999999876 36778887 999999999999999999999999999996
Q ss_pred CC
Q 003964 264 PG 265 (783)
Q Consensus 264 pr 265 (783)
..
T Consensus 374 ~~ 375 (509)
T TIGR01642 374 VG 375 (509)
T ss_pred cC
Confidence 43
No 27
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.02 E-value=1e-09 Score=121.15 Aligned_cols=101 Identities=26% Similarity=0.346 Sum_probs=91.4
Q ss_pred CCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeC-CcEeEEEe
Q 003964 192 HPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDIN-GKRIKLEP 261 (783)
Q Consensus 192 ~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~-Gr~IkVe~ 261 (783)
+.++.||||.||.++.|+||+.+|++.|+|-+++ .+|.+||| |.+.++|++||+.||+++|. ||.|.|..
T Consensus 81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~ 160 (506)
T KOG0117|consen 81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCV 160 (506)
T ss_pred CCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEE
Confidence 5579999999999999999999999999999999 57999998 99999999999999999996 99999998
Q ss_pred cCCCccccccccccccccCHHHHhhhhccCCCC
Q 003964 262 SRPGGARRNLMQQLNQELEQDEARGFRHQVGSP 294 (783)
Q Consensus 262 A~pr~~rr~~vqqlsq~~~qde~~~~fsq~Gsp 294 (783)
+..+. |.|+..+++...++++..-+.+.+-.
T Consensus 161 Svan~--RLFiG~IPK~k~keeIlee~~kVteG 191 (506)
T KOG0117|consen 161 SVANC--RLFIGNIPKTKKKEEILEEMKKVTEG 191 (506)
T ss_pred eeecc--eeEeccCCccccHHHHHHHHHhhCCC
Confidence 87654 56999999999999998888877644
No 28
>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=1.6e-09 Score=121.42 Aligned_cols=104 Identities=23% Similarity=0.397 Sum_probs=89.0
Q ss_pred CCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEE
Q 003964 190 GEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLE 260 (783)
Q Consensus 190 ~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe 260 (783)
.+.+.++|||+|||.++++++|+++|++||+|.+|+ .+++++|| |.+.++|++||. |+|..+.|++|.|+
T Consensus 85 ~~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~ 163 (457)
T TIGR01622 85 AERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQ 163 (457)
T ss_pred cccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEe
Confidence 345678999999999999999999999999999988 35777887 999999999997 99999999999998
Q ss_pred ecCCCc----------------cccccccccccccCHHHHhhhhccCCCC
Q 003964 261 PSRPGG----------------ARRNLMQQLNQELEQDEARGFRHQVGSP 294 (783)
Q Consensus 261 ~A~pr~----------------~rr~~vqqlsq~~~qde~~~~fsq~Gsp 294 (783)
++.... .++.++.+++..+++++++.+|.++|..
T Consensus 164 ~~~~~~~~~~~~~~~~~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i 213 (457)
T TIGR01622 164 SSQAEKNRAAKAATHQPGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDI 213 (457)
T ss_pred ecchhhhhhhhcccccCCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCe
Confidence 864321 1345788899899999999999988843
No 29
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.94 E-value=4.2e-07 Score=100.49 Aligned_cols=71 Identities=25% Similarity=0.482 Sum_probs=64.9
Q ss_pred CCEEEEecCCCCCCHHHHHHHhh-cCCCEEEEe----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFE-QYGDIRTLY----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFs-qfG~I~~v~----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
.|.+||.|||+++.+++||+||. +-|+|+.|. ..+|+||+ |+++|.++||++.||.+++.||.|+|+-...
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d 123 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD 123 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence 46799999999999999999996 579999987 68999999 9999999999999999999999999986543
No 30
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=98.92 E-value=3.3e-09 Score=113.68 Aligned_cols=76 Identities=22% Similarity=0.443 Sum_probs=67.7
Q ss_pred CCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe---cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 190 GEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY---TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 190 ~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~---~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
.....++|+|.|||+...|-||+.+|++||+|.+|. ..+-+||| |++.+||++|-++|+|+.+.||+|+|..|
T Consensus 92 s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~A 171 (376)
T KOG0125|consen 92 SKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNA 171 (376)
T ss_pred CCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEecc
Confidence 334468999999999999999999999999999998 23446777 99999999999999999999999999999
Q ss_pred CCC
Q 003964 263 RPG 265 (783)
Q Consensus 263 ~pr 265 (783)
..+
T Consensus 172 Tar 174 (376)
T KOG0125|consen 172 TAR 174 (376)
T ss_pred chh
Confidence 876
No 31
>PLN03120 nucleic acid binding protein; Provisional
Probab=98.88 E-value=5.3e-09 Score=110.41 Aligned_cols=70 Identities=24% Similarity=0.397 Sum_probs=62.3
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEec--CCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLYT--ACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~--tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
.++|||+||++++++++|+++|+.||+|++|+. .+..+|| |.+.++|++||. |+|..|.|+.|+|.++..
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~ 79 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAED 79 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccC
Confidence 579999999999999999999999999999982 2234555 999999999996 999999999999999864
No 32
>PLN03213 repressor of silencing 3; Provisional
Probab=98.87 E-value=4.5e-09 Score=116.87 Aligned_cols=73 Identities=18% Similarity=0.285 Sum_probs=63.5
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe---cCCCcccc--ccCH--HHHHHHHHHhCCCeeCCcEeEEEecCCC
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY---TACKHRGF--FYDV--RAAEAALRALNRSDINGKRIKLEPSRPG 265 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~---~tgKsrGF--F~d~--edAekAI~aLNG~~I~Gr~IkVe~A~pr 265 (783)
...+||||||++++++++|+++|++||.|..|. .+||..|| |... .++.+||.+|||.+++|+.|+|+.|++.
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP~ 88 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKEH 88 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccHH
Confidence 457999999999999999999999999999988 56643334 6654 6899999999999999999999999874
No 33
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=98.83 E-value=3.5e-09 Score=109.42 Aligned_cols=75 Identities=27% Similarity=0.468 Sum_probs=63.3
Q ss_pred CCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEe
Q 003964 191 EHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEP 261 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~ 261 (783)
+..-+|||||+|+|++.+++|+++|++||+|+++. .++|+||| |.|.++|++|++..| -.|+||+-.|++
T Consensus 9 DT~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~-piIdGR~aNcnl 87 (247)
T KOG0149|consen 9 DTTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN-PIIDGRKANCNL 87 (247)
T ss_pred CceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC-Ccccccccccch
Confidence 44558999999999999999999999999999987 67999998 777777777777544 468999999999
Q ss_pred cCCCc
Q 003964 262 SRPGG 266 (783)
Q Consensus 262 A~pr~ 266 (783)
|.-++
T Consensus 88 A~lg~ 92 (247)
T KOG0149|consen 88 ASLGG 92 (247)
T ss_pred hhhcC
Confidence 87644
No 34
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.82 E-value=6.7e-09 Score=114.40 Aligned_cols=103 Identities=22% Similarity=0.465 Sum_probs=88.4
Q ss_pred CCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCe-eCC--cEeEE
Q 003964 192 HPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSD-ING--KRIKL 259 (783)
Q Consensus 192 ~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~-I~G--r~IkV 259 (783)
...-|||||.||..++|+|||++|++||.|.+|. .++.++|+ |++.++|.+|+.+|+... |-| .+|.|
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqv 111 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQV 111 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceee
Confidence 4467899999999999999999999999999987 56777776 999999999999998765 444 68999
Q ss_pred EecCCCcc-----ccccccccccccCHHHHhhhhccCCCC
Q 003964 260 EPSRPGGA-----RRNLMQQLNQELEQDEARGFRHQVGSP 294 (783)
Q Consensus 260 e~A~pr~~-----rr~~vqqlsq~~~qde~~~~fsq~Gsp 294 (783)
++|...+. ++.|+..++++..+.+++.+|.+||..
T Consensus 112 k~Ad~E~er~~~e~KLFvg~lsK~~te~evr~iFs~fG~I 151 (510)
T KOG0144|consen 112 KYADGERERIVEERKLFVGMLSKQCTENEVREIFSRFGHI 151 (510)
T ss_pred cccchhhhccccchhhhhhhccccccHHHHHHHHHhhCcc
Confidence 99976543 455889999999999999999999953
No 35
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.81 E-value=1.3e-08 Score=112.47 Aligned_cols=74 Identities=22% Similarity=0.525 Sum_probs=68.0
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCcccc
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSRPGGARR 269 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~~rr 269 (783)
+-|||+||+.+|||+.|+++|++||.|..|++. |..+| |.+.++|.+|++.+||++|+|..|.|.+|+|..+++
T Consensus 260 KvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~-rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~k~k 335 (506)
T KOG0117|consen 260 KVLYVRNLMESTTEETLKKLFNEFGKVERVKKP-RDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVDKKK 335 (506)
T ss_pred eeeeeeccchhhhHHHHHHHHHhccceEEeecc-cceeEEeecchHHHHHHHHHhcCceecCceEEEEecCChhhhc
Confidence 569999999999999999999999999999743 56888 999999999999999999999999999999977654
No 36
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=98.81 E-value=1.2e-08 Score=105.97 Aligned_cols=77 Identities=25% Similarity=0.420 Sum_probs=71.7
Q ss_pred CCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEE
Q 003964 189 YGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKL 259 (783)
Q Consensus 189 ~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkV 259 (783)
.......+|=|.||+.+++|++|++||.+||.|..|+ .||.+||| |++.++|++||+.|||+-++.-.|+|
T Consensus 184 R~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrv 263 (270)
T KOG0122|consen 184 RERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRV 263 (270)
T ss_pred ccCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEE
Confidence 3445678899999999999999999999999999998 78999999 99999999999999999999999999
Q ss_pred EecCCC
Q 003964 260 EPSRPG 265 (783)
Q Consensus 260 e~A~pr 265 (783)
+|++|+
T Consensus 264 EwskP~ 269 (270)
T KOG0122|consen 264 EWSKPS 269 (270)
T ss_pred EecCCC
Confidence 999986
No 37
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=98.81 E-value=5.3e-09 Score=106.32 Aligned_cols=72 Identities=33% Similarity=0.606 Sum_probs=67.5
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
-.+|-|-||.+.++.++|+.+|++||.|.+|+ .|+.++|| |.+..+|++|+++|+|.+|+|+.|+|++|+=
T Consensus 13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ary 92 (256)
T KOG4207|consen 13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARY 92 (256)
T ss_pred ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhc
Confidence 56899999999999999999999999999998 67889999 9999999999999999999999999999974
Q ss_pred C
Q 003964 265 G 265 (783)
Q Consensus 265 r 265 (783)
.
T Consensus 93 g 93 (256)
T KOG4207|consen 93 G 93 (256)
T ss_pred C
Confidence 3
No 38
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.80 E-value=1.4e-08 Score=100.63 Aligned_cols=71 Identities=32% Similarity=0.676 Sum_probs=66.3
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
.++|||+||+.++++++|+++|.+||.|..+. .+++++|| |.+.++|..|++.++|..|.|++|+|.++.+
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~ 194 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP 194 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence 68999999999999999999999999998776 46788888 9999999999999999999999999999765
No 39
>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=98.79 E-value=1.6e-08 Score=84.61 Aligned_cols=62 Identities=26% Similarity=0.631 Sum_probs=53.8
Q ss_pred EEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeE
Q 003964 197 LFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIK 258 (783)
Q Consensus 197 LFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~Ik 258 (783)
|||+|||+++++++|+++|++||.|..++ ..++.+|+ |.+.++|++|++.+++..++|+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 79999999999999999999999999988 22445666 9999999999999999999999985
No 40
>smart00362 RRM_2 RNA recognition motif.
Probab=98.78 E-value=2.2e-08 Score=80.82 Aligned_cols=65 Identities=35% Similarity=0.675 Sum_probs=57.1
Q ss_pred EEEEecCCCCCCHHHHHHHhhcCCCEEEEec---CCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEE
Q 003964 196 TLFVRNINSNVEDLELRSLFEQYGDIRTLYT---ACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLE 260 (783)
Q Consensus 196 tLFVGNLp~dvTEeeLrelFsqfG~I~~v~~---tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe 260 (783)
+|||+|||..+++++|+++|++||+|..+.. .++++|+ |.+.++|++|++.+++..+.|++|+|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 5899999999999999999999999999872 1334455 999999999999999999999999874
No 41
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.77 E-value=1.4e-08 Score=110.07 Aligned_cols=160 Identities=18% Similarity=0.244 Sum_probs=113.5
Q ss_pred cchhh-cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcccccCCcccccc-ccccccccCCCCCCCccc
Q 003964 96 AGVET-IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGMELEFEPHESLSI-GVSKLNISDGIAGTGIAH 173 (783)
Q Consensus 96 ee~e~-IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGmeLe~d~~esls~-~~~~~s~~dg~~~nG~~~ 173 (783)
|..+. ||.|.|++++|.|...+..++.+..|....|..----...|++.++.+ +.... .....+.+|+....-..
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~--~~v~~vl~~~~h~~dgr~ve~k~- 81 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATP--EGVDAVLNARTHKLDGRSVEPKR- 81 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCC--cchheeecccccccCCcccccee-
Confidence 66677 999999999999999999999988887777655511112345555533 22222 33445556664332221
Q ss_pred CCCCCCCCCcCCCCC---CCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHH
Q 003964 174 YPISNGVGTVAGEHP---YGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAE 241 (783)
Q Consensus 174 yg~~n~~g~~~ge~~---~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAe 241 (783)
+++.+.. ......++||||.|+.++++++|+++|++||.|.++. .+.+++|| |++.++++
T Consensus 82 --------av~r~~~~~~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVd 153 (311)
T KOG4205|consen 82 --------AVSREDQTKVGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVD 153 (311)
T ss_pred --------ccCcccccccccccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccc
Confidence 1111111 1112467999999999999999999999999888776 56788888 88887777
Q ss_pred HHHHHhCCCeeCCcEeEEEecCCCcc
Q 003964 242 AALRALNRSDINGKRIKLEPSRPGGA 267 (783)
Q Consensus 242 kAI~aLNG~~I~Gr~IkVe~A~pr~~ 267 (783)
+++. ..-++|.|+.+.|..|.|+..
T Consensus 154 kv~~-~~f~~~~gk~vevkrA~pk~~ 178 (311)
T KOG4205|consen 154 KVTL-QKFHDFNGKKVEVKRAIPKEV 178 (311)
T ss_pred eecc-cceeeecCceeeEeeccchhh
Confidence 7766 677899999999999999863
No 42
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.75 E-value=1.5e-08 Score=105.89 Aligned_cols=82 Identities=24% Similarity=0.431 Sum_probs=78.3
Q ss_pred CCCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCcc
Q 003964 620 EDTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEK 699 (783)
Q Consensus 620 ~D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~K 699 (783)
.|.||.|.|..+|..+||++|+.++-.. |++.-+-|--|..++..+||+|||+++|++|++.++.+||.++. .|
T Consensus 38 ~~skTNLIvNYLPQ~MTqdE~rSLF~Si--GeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ----~K 111 (360)
T KOG0145|consen 38 DESKTNLIVNYLPQNMTQDELRSLFGSI--GEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQ----NK 111 (360)
T ss_pred CcccceeeeeecccccCHHHHHHHhhcc--cceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeec----cc
Confidence 4789999999999999999999999665 99999999999999999999999999999999999999999998 79
Q ss_pred EEEEEeee
Q 003964 700 VASLAYAR 707 (783)
Q Consensus 700 v~~v~yAr 707 (783)
.+.|+|||
T Consensus 112 TIKVSyAR 119 (360)
T KOG0145|consen 112 TIKVSYAR 119 (360)
T ss_pred eEEEEecc
Confidence 99999999
No 43
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=98.74 E-value=4e-08 Score=95.64 Aligned_cols=83 Identities=16% Similarity=0.134 Sum_probs=76.3
Q ss_pred CCCCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCc
Q 003964 619 GEDTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSE 698 (783)
Q Consensus 619 g~D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~ 698 (783)
+.+..|+|.|+|||..+|+++|++++..+ |+..-+.++.|..+..+.|||||.|.++++|...++.++|+... .
T Consensus 30 ~~~~~~~lfVgnL~~~~te~~L~~~F~~~--G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~----G 103 (144)
T PLN03134 30 LRLMSTKLFIGGLSWGTDDASLRDAFAHF--GDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELN----G 103 (144)
T ss_pred ccCCCCEEEEeCCCCCCCHHHHHHHHhcC--CCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEEC----C
Confidence 35677999999999999999999999876 78899999999999999999999999999999999999999776 5
Q ss_pred cEEEEEeee
Q 003964 699 KVASLAYAR 707 (783)
Q Consensus 699 Kv~~v~yAr 707 (783)
+.+.|.||+
T Consensus 104 r~l~V~~a~ 112 (144)
T PLN03134 104 RHIRVNPAN 112 (144)
T ss_pred EEEEEEeCC
Confidence 788999986
No 44
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.74 E-value=2.3e-08 Score=113.41 Aligned_cols=102 Identities=19% Similarity=0.279 Sum_probs=78.0
Q ss_pred CCCCCCCEEEEecCCCCCCHHHHHHHhhcC------------CCEEEEecCCCcccc----ccCHHHHHHHHHHhCCCee
Q 003964 189 YGEHPSRTLFVRNINSNVEDLELRSLFEQY------------GDIRTLYTACKHRGF----FYDVRAAEAALRALNRSDI 252 (783)
Q Consensus 189 ~~e~psrtLFVGNLp~dvTEeeLrelFsqf------------G~I~~v~~tgKsrGF----F~d~edAekAI~aLNG~~I 252 (783)
......++|||||||+++|+++|+++|.+| +.|..+. .++.+|| |.+.++|.+|| +|||..|
T Consensus 170 ~~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~-~~~~kg~afVeF~~~e~A~~Al-~l~g~~~ 247 (509)
T TIGR01642 170 QATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVN-INKEKNFAFLEFRTVEEATFAM-ALDSIIY 247 (509)
T ss_pred cCCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEE-ECCCCCEEEEEeCCHHHHhhhh-cCCCeEe
Confidence 345667999999999999999999999985 3444443 3455555 99999999999 4999999
Q ss_pred CCcEeEEEecCCC---------------------------------ccccccccccccccCHHHHhhhhccCC
Q 003964 253 NGKRIKLEPSRPG---------------------------------GARRNLMQQLNQELEQDEARGFRHQVG 292 (783)
Q Consensus 253 ~Gr~IkVe~A~pr---------------------------------~~rr~~vqqlsq~~~qde~~~~fsq~G 292 (783)
.|+.|+|...... ..++.++.+++..++.++++.+|..+|
T Consensus 248 ~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G 320 (509)
T TIGR01642 248 SNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFG 320 (509)
T ss_pred eCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC
Confidence 9999999643211 113446777777788888888888776
No 45
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.73 E-value=1.2e-08 Score=102.27 Aligned_cols=74 Identities=32% Similarity=0.541 Sum_probs=65.2
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCC----cccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCc
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACK----HRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSRPGG 266 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgK----srGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~ 266 (783)
..++|||||||.++.+.||++||.+||.|++|....+ +..| |++.++|++||..-+|..++|.+|+|++++...
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr 84 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGR 84 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCC
Confidence 3689999999999999999999999999999983322 2234 999999999999999999999999999998654
No 46
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.72 E-value=3.4e-08 Score=98.93 Aligned_cols=107 Identities=22% Similarity=0.346 Sum_probs=90.4
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
..|||||||+..++++-|.++|-|.|+|+.++ .+.+++|| |.+.++|+-||+.||...+.||+|+|..+..
T Consensus 9 d~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas~ 88 (203)
T KOG0131|consen 9 DATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKASA 88 (203)
T ss_pred CceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEeccc
Confidence 57999999999999999999999999999998 56677777 9999999999999999999999999998873
Q ss_pred Ccc-----ccccccccccccCHHHHhhhhccCCCCCCCCCC
Q 003964 265 GGA-----RRNLMQQLNQELEQDEARGFRHQVGSPVTNSPP 300 (783)
Q Consensus 265 r~~-----rr~~vqqlsq~~~qde~~~~fsq~Gsp~~~SPP 300 (783)
... .+.+++.+..++++.-+...|+.+|.-+..+-+
T Consensus 89 ~~~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i 129 (203)
T KOG0131|consen 89 HQKNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKI 129 (203)
T ss_pred ccccccccccccccccCcchhHHHHHHHHHhccccccCCcc
Confidence 221 233788888888888899999999965544333
No 47
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.70 E-value=4e-08 Score=110.83 Aligned_cols=165 Identities=16% Similarity=0.218 Sum_probs=107.4
Q ss_pred cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCc--ccccCCccccccccccccccCCCCCCCcccCCCCC
Q 003964 101 IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGM--ELEFEPHESLSIGVSKLNISDGIAGTGIAHYPISN 178 (783)
Q Consensus 101 IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGm--eLe~d~~esls~~~~~~s~~dg~~~nG~~~yg~~n 178 (783)
+++|.++...+.|+.+|.+++.+..|...-+-..+.--.+|.+ .|+.|-+.. ......+.+.|...+....-....
T Consensus 10 V~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA--~~e~~~~kf~Gr~l~v~~A~~R~r 87 (678)
T KOG0127|consen 10 VSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRA--LAETEQSKFEGRILNVDPAKKRAR 87 (678)
T ss_pred EecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHH--HHHhhcCcccceeccccccccccc
Confidence 8899999999999999999999998866554333211112222 233232221 122222223332222111000000
Q ss_pred CC----C-CcCCCCCCC---------CCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc----ccC
Q 003964 179 GV----G-TVAGEHPYG---------EHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHRGF----FYD 236 (783)
Q Consensus 179 ~~----g-~~~ge~~~~---------e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF----F~d 236 (783)
.. + ..+.+.+.. +-+--+|.|+|||+.+.+.+|+.+|++||.|.+|. ..++-||| |.+
T Consensus 88 ~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~ 167 (678)
T KOG0127|consen 88 SEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKE 167 (678)
T ss_pred chhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEee
Confidence 00 0 011111111 12245799999999999999999999999999998 45677888 999
Q ss_pred HHHHHHHHHHhCCCeeCCcEeEEEecCCCcc
Q 003964 237 VRAAEAALRALNRSDINGKRIKLEPSRPGGA 267 (783)
Q Consensus 237 ~edAekAI~aLNG~~I~Gr~IkVe~A~pr~~ 267 (783)
..+|++|++.+|+.+|.||+|-|.||.++..
T Consensus 168 ~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ 198 (678)
T KOG0127|consen 168 KKDAEKALEFFNGNKIDGRPVAVDWAVDKDT 198 (678)
T ss_pred HHHHHHHHHhccCceecCceeEEeeeccccc
Confidence 9999999999999999999999999988763
No 48
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=8.8e-09 Score=105.49 Aligned_cols=75 Identities=32% Similarity=0.622 Sum_probs=70.3
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
.++||||+|..+|+|.-|...|-.||.|++|. .+.|+||| |+..++|.+||..||+.+|.||.|+|.+|+|
T Consensus 10 KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP 89 (298)
T KOG0111|consen 10 KRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKP 89 (298)
T ss_pred ceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCC
Confidence 58999999999999999999999999999998 67899998 9999999999999999999999999999999
Q ss_pred Cccc
Q 003964 265 GGAR 268 (783)
Q Consensus 265 r~~r 268 (783)
.+.+
T Consensus 90 ~kik 93 (298)
T KOG0111|consen 90 EKIK 93 (298)
T ss_pred cccc
Confidence 7644
No 49
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.68 E-value=2.7e-08 Score=91.91 Aligned_cols=77 Identities=23% Similarity=0.426 Sum_probs=67.2
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe--cCC--Ccccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCc
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY--TAC--KHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSRPGG 266 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~--~tg--KsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~ 266 (783)
-++-|||.|||+++|.+++.++|.+||.|+.|+ .+. +..+| |+++.+|.+|++.|+|..+.++-+.|-+-.+..
T Consensus 17 vnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~~ 96 (124)
T KOG0114|consen 17 VNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPED 96 (124)
T ss_pred hheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHHH
Confidence 368899999999999999999999999999999 222 33345 999999999999999999999999999988866
Q ss_pred ccc
Q 003964 267 ARR 269 (783)
Q Consensus 267 ~rr 269 (783)
+.+
T Consensus 97 ~~~ 99 (124)
T KOG0114|consen 97 AFK 99 (124)
T ss_pred HHH
Confidence 443
No 50
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.67 E-value=5.3e-08 Score=103.53 Aligned_cols=77 Identities=30% Similarity=0.563 Sum_probs=70.8
Q ss_pred CCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 192 HPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 192 ~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
.|-+||||+-|+.+++|.+|+..|++||+|+.|+ .|+|++|| |++..+...|.+..+|..|+|+.|.|.+-
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE 178 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE 178 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence 4568999999999999999999999999999987 78999999 99999999999999999999999999998
Q ss_pred CCCccc
Q 003964 263 RPGGAR 268 (783)
Q Consensus 263 ~pr~~r 268 (783)
+.+..+
T Consensus 179 RgRTvk 184 (335)
T KOG0113|consen 179 RGRTVK 184 (335)
T ss_pred cccccc
Confidence 765533
No 51
>PLN03121 nucleic acid binding protein; Provisional
Probab=98.64 E-value=8.8e-08 Score=100.15 Aligned_cols=70 Identities=20% Similarity=0.287 Sum_probs=61.3
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe--cCCCcc--cc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY--TACKHR--GF--FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~--~tgKsr--GF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
+.+|||+||++.+|+++|+++|+.||+|.+|+ ..++.+ || |.+.++|+.|+. |+|..|.+++|.|..+..
T Consensus 5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~~~ 80 (243)
T PLN03121 5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRWGQ 80 (243)
T ss_pred ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeCcc
Confidence 57999999999999999999999999999998 333444 44 999999999995 999999999999987653
No 52
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.62 E-value=4e-09 Score=105.48 Aligned_cols=72 Identities=24% Similarity=0.460 Sum_probs=67.0
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
.+.-|||||||++.||.||-.+|++||+|++|. .|||++|| |++.+.-.-|+..|||..|.||.|+|....
T Consensus 34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~ 113 (219)
T KOG0126|consen 34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS 113 (219)
T ss_pred cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence 467899999999999999999999999999987 79999999 999999999999999999999999999664
Q ss_pred C
Q 003964 264 P 264 (783)
Q Consensus 264 p 264 (783)
.
T Consensus 114 ~ 114 (219)
T KOG0126|consen 114 N 114 (219)
T ss_pred c
Confidence 3
No 53
>smart00360 RRM RNA recognition motif.
Probab=98.60 E-value=1e-07 Score=76.42 Aligned_cols=62 Identities=37% Similarity=0.672 Sum_probs=54.9
Q ss_pred EecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEE
Q 003964 199 VRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLE 260 (783)
Q Consensus 199 VGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe 260 (783)
|+|||..+++++|+++|++||.|..+. .+++++|| |.+.++|.+|++.|++..+.|++|+|+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 679999999999999999999999987 23455666 999999999999999999999999874
No 54
>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=98.59 E-value=2.3e-07 Score=75.20 Aligned_cols=66 Identities=38% Similarity=0.695 Sum_probs=57.7
Q ss_pred EEEEecCCCCCCHHHHHHHhhcCCCEEEEecC----CCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEe
Q 003964 196 TLFVRNINSNVEDLELRSLFEQYGDIRTLYTA----CKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEP 261 (783)
Q Consensus 196 tLFVGNLp~dvTEeeLrelFsqfG~I~~v~~t----gKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~ 261 (783)
+|+|+|||..+++++|+++|++||.|..+... .+.+|+ |.+.++|..|++.+++..+.|+.|+|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 48999999999999999999999999998721 123454 9999999999999999999999999874
No 55
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=98.58 E-value=1.3e-07 Score=98.35 Aligned_cols=83 Identities=17% Similarity=0.297 Sum_probs=76.5
Q ss_pred CCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccE
Q 003964 621 DTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKV 700 (783)
Q Consensus 621 D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv 700 (783)
|.-.||.|-|+|..++..+|.+++-.+ |.+--+||-+|-+|+...|||||+|.+.++|.+.++.+||+.|. ..|
T Consensus 187 ~D~~tvRvtNLsed~~E~dL~eLf~~f--g~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd----~LI 260 (270)
T KOG0122|consen 187 DDEATVRVTNLSEDMREDDLEELFRPF--GPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYD----NLI 260 (270)
T ss_pred CccceeEEecCccccChhHHHHHhhcc--CccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccc----eEE
Confidence 445799999999999999998888666 89999999999999999999999999999999999999999999 679
Q ss_pred EEEEeeecc
Q 003964 701 ASLAYARIQ 709 (783)
Q Consensus 701 ~~v~yAriQ 709 (783)
+.|.||+=|
T Consensus 261 LrvEwskP~ 269 (270)
T KOG0122|consen 261 LRVEWSKPS 269 (270)
T ss_pred EEEEecCCC
Confidence 999999744
No 56
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.55 E-value=1.3e-07 Score=97.38 Aligned_cols=76 Identities=34% Similarity=0.571 Sum_probs=69.2
Q ss_pred CCCCCEEEEecCCCCCCHHHHHH----HhhcCCCEEEEe--cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEE
Q 003964 191 EHPSRTLFVRNINSNVEDLELRS----LFEQYGDIRTLY--TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLE 260 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLre----lFsqfG~I~~v~--~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe 260 (783)
..++.||||.||+..+..++|+. +|++||+|.+|. .+.|.||- |.+.+.|..|+++|+|..+.||.++|+
T Consensus 6 ~~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriq 85 (221)
T KOG4206|consen 6 VNPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQ 85 (221)
T ss_pred cCCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhhee
Confidence 34556999999999999999998 999999999998 67788886 999999999999999999999999999
Q ss_pred ecCCCc
Q 003964 261 PSRPGG 266 (783)
Q Consensus 261 ~A~pr~ 266 (783)
+|+.+.
T Consensus 86 yA~s~s 91 (221)
T KOG4206|consen 86 YAKSDS 91 (221)
T ss_pred cccCcc
Confidence 998764
No 57
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.54 E-value=1.1e-07 Score=107.36 Aligned_cols=74 Identities=28% Similarity=0.486 Sum_probs=69.4
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCC
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRPG 265 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr 265 (783)
+.+||||||++++|++|.++|++.|.|..++ .+|+.+|| |.+.++|++|++.|||.++.||+|+|.|+...
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 8999999999999999999999999999988 78999998 99999999999999999999999999999765
Q ss_pred ccc
Q 003964 266 GAR 268 (783)
Q Consensus 266 ~~r 268 (783)
..+
T Consensus 99 ~~~ 101 (435)
T KOG0108|consen 99 KNA 101 (435)
T ss_pred chh
Confidence 543
No 58
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.51 E-value=2.9e-07 Score=104.01 Aligned_cols=79 Identities=20% Similarity=0.366 Sum_probs=67.7
Q ss_pred CCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHh-----CC-CeeCC
Q 003964 190 GEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRAL-----NR-SDING 254 (783)
Q Consensus 190 ~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aL-----NG-~~I~G 254 (783)
......+|||+|||+++||++|+++|++||+|..+. .|+.++|. |.+..+|.+||.+. .| ..|+|
T Consensus 288 n~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~G 367 (678)
T KOG0127|consen 288 NITEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDG 367 (678)
T ss_pred cccccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEec
Confidence 344568999999999999999999999999999876 57777664 99999999999977 34 67899
Q ss_pred cEeEEEecCCCccc
Q 003964 255 KRIKLEPSRPGGAR 268 (783)
Q Consensus 255 r~IkVe~A~pr~~r 268 (783)
|.|+|..|.++...
T Consensus 368 R~Lkv~~Av~RkeA 381 (678)
T KOG0127|consen 368 RLLKVTLAVTRKEA 381 (678)
T ss_pred cEEeeeeccchHHH
Confidence 99999999887643
No 59
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=98.49 E-value=3.2e-07 Score=74.44 Aligned_cols=52 Identities=29% Similarity=0.520 Sum_probs=44.6
Q ss_pred HHHHhhcCCCEEEEecC-CC-cccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 211 LRSLFEQYGDIRTLYTA-CK-HRGF--FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 211 LrelFsqfG~I~~v~~t-gK-srGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
|+++|++||+|+.+... .+ ..+| |.+.++|++|++.|||..+.|++|+|+||
T Consensus 1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 78999999999999832 22 4555 99999999999999999999999999986
No 60
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.44 E-value=2.5e-07 Score=107.88 Aligned_cols=76 Identities=32% Similarity=0.506 Sum_probs=70.1
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-cCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCcccc
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-TACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSRPGGARR 269 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~~rr 269 (783)
++|||||.|+.+++|.||+.+|+.||+|..|. ...+.|+| ++..++|++|+.+|+...+.++.|+|.||..++-+.
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~ks 499 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGPKS 499 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCcch
Confidence 58999999999999999999999999999998 45567888 999999999999999999999999999999887654
No 61
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.43 E-value=1.2e-07 Score=95.06 Aligned_cols=157 Identities=18% Similarity=0.206 Sum_probs=106.2
Q ss_pred cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcccccCCccccccccccccccCCCCCCCcccCCCCCCC
Q 003964 101 IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGMELEFEPHESLSIGVSKLNISDGIAGTGIAHYPISNGV 180 (783)
Q Consensus 101 IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGmeLe~d~~esls~~~~~~s~~dg~~~nG~~~yg~~n~~ 180 (783)
||||-+--.+++|-.+|-..+.+-.-.--.|...+.-.-+|+.|...++.+.-++..-++..+ ||.+-..
T Consensus 14 vgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkL----------YgrpIrv 83 (203)
T KOG0131|consen 14 VGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKL----------YGRPIRV 83 (203)
T ss_pred EecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHh----------cCceeEE
Confidence 899988777888888888887654333334433354555667777655444333332222222 2211110
Q ss_pred CCcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe------cCCCcccc----ccCHHHHHHHHHHhCCC
Q 003964 181 GTVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY------TACKHRGF----FYDVRAAEAALRALNRS 250 (783)
Q Consensus 181 g~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~------~tgKsrGF----F~d~edAekAI~aLNG~ 250 (783)
.+ ++.+...-.-+-+|||+||.+.++|.-|.++|+.||.|...- .+++++|| |.+.+.+.+||..|||.
T Consensus 84 ~k-as~~~~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq 162 (203)
T KOG0131|consen 84 NK-ASAHQKNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQ 162 (203)
T ss_pred Ee-cccccccccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccc
Confidence 00 111111223347899999999999999999999999987632 46777776 99999999999999999
Q ss_pred eeCCcEeEEEecCCCccc
Q 003964 251 DINGKRIKLEPSRPGGAR 268 (783)
Q Consensus 251 ~I~Gr~IkVe~A~pr~~r 268 (783)
.+..++|.|.++..+..+
T Consensus 163 ~l~nr~itv~ya~k~~~k 180 (203)
T KOG0131|consen 163 YLCNRPITVSYAFKKDTK 180 (203)
T ss_pred hhcCCceEEEEEEecCCC
Confidence 999999999999766533
No 62
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.42 E-value=2.5e-07 Score=89.14 Aligned_cols=72 Identities=19% Similarity=0.460 Sum_probs=66.2
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
+-.|||.++..+++|+++.+.|..||+|+.+. .+|-.+|| |++.++|++||.+|||.+|.|..|.|.|+--
T Consensus 72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv 151 (170)
T KOG0130|consen 72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFV 151 (170)
T ss_pred eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEe
Confidence 56799999999999999999999999999987 56777788 9999999999999999999999999999954
Q ss_pred C
Q 003964 265 G 265 (783)
Q Consensus 265 r 265 (783)
+
T Consensus 152 ~ 152 (170)
T KOG0130|consen 152 K 152 (170)
T ss_pred c
Confidence 3
No 63
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.40 E-value=2.4e-07 Score=97.36 Aligned_cols=79 Identities=30% Similarity=0.492 Sum_probs=70.8
Q ss_pred CCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcc--cc--ccCHHHHHHHHHHhCCCeeCCcEeEEEe
Q 003964 191 EHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHR--GF--FYDVRAAEAALRALNRSDINGKRIKLEP 261 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsr--GF--F~d~edAekAI~aLNG~~I~Gr~IkVe~ 261 (783)
.+++|+|||-.||.+..+.||..+|-.||.|++.+ .|..+| || |++...|+.||.+|||..|.-|+|||++
T Consensus 282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQL 361 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQL 361 (371)
T ss_pred CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhh
Confidence 35689999999999999999999999999999877 455555 45 9999999999999999999999999999
Q ss_pred cCCCcccc
Q 003964 262 SRPGGARR 269 (783)
Q Consensus 262 A~pr~~rr 269 (783)
.+||...|
T Consensus 362 KRPkdanR 369 (371)
T KOG0146|consen 362 KRPKDANR 369 (371)
T ss_pred cCccccCC
Confidence 99998655
No 64
>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=98.38 E-value=1.3e-06 Score=71.87 Aligned_cols=65 Identities=25% Similarity=0.347 Sum_probs=61.1
Q ss_pred EEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCcccc
Q 003964 626 LMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWE 693 (783)
Q Consensus 626 vMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~ 693 (783)
|.|+|||..+|.++|++++.+. |.+..+.+..+ .++...|||||-|.+.++|..+++.++|+.|.
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~--g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~ 65 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQF--GKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKIN 65 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTT--STEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEET
T ss_pred cEEcCCCCcCCHHHHHHHHHHh--hhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEEC
Confidence 6899999999999999999985 88888888888 88899999999999999999999999999887
No 65
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.37 E-value=3.2e-07 Score=99.67 Aligned_cols=99 Identities=18% Similarity=0.419 Sum_probs=83.8
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
..++||||+|+++++++.|+++|++||+|.+|. .++++||| |.+.+...+++. ..-+.|.||.|.++.|.
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~av 83 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKRAV 83 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccceecc
Confidence 468999999999999999999999999999998 56888998 776666666655 33467899999999998
Q ss_pred CCcc----------ccccccccccccCHHHHhhhhccCC
Q 003964 264 PGGA----------RRNLMQQLNQELEQDEARGFRHQVG 292 (783)
Q Consensus 264 pr~~----------rr~~vqqlsq~~~qde~~~~fsq~G 292 (783)
++.. ++.++..++......+++.+|.++|
T Consensus 84 ~r~~~~~~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g 122 (311)
T KOG4205|consen 84 SREDQTKVGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFG 122 (311)
T ss_pred CcccccccccccceeEEEecCcCCCCchHHHhhhhhccc
Confidence 8762 2457888999999999999999999
No 66
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.36 E-value=3.3e-07 Score=99.42 Aligned_cols=102 Identities=22% Similarity=0.396 Sum_probs=87.0
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
-|+||||.|.+++.|+.||..|..||+|+++. .|+|+||| |+-.+.|+-|++.|||..+.||.|+|..-..
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsN 192 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSN 192 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCC
Confidence 37899999999999999999999999999998 68999999 9999999999999999999999999974321
Q ss_pred Cc---------------cccccccccccccCHHHHhhhhccCCCCC
Q 003964 265 GG---------------ARRNLMQQLNQELEQDEARGFRHQVGSPV 295 (783)
Q Consensus 265 r~---------------~rr~~vqqlsq~~~qde~~~~fsq~Gsp~ 295 (783)
-. -.|.++.-..+++.+++++..|..+|..+
T Consensus 193 mpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~ 238 (544)
T KOG0124|consen 193 MPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIV 238 (544)
T ss_pred CcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhccee
Confidence 11 12346666778889999999999998654
No 67
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.36 E-value=6.2e-07 Score=99.22 Aligned_cols=72 Identities=24% Similarity=0.348 Sum_probs=66.7
Q ss_pred CCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe--cCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 191 EHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY--TACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~--~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
.+..++|||+|||+++|++.||+-|..||.|..+. ..++++|. |.++++|+.|+..|+|..+.||.|+|.+.
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~GkskGVVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~ 608 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMENGKSKGVVRFFSPEDAERACALMNGSRLDGRNIKVTYF 608 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhccceehhhhhccCCccceEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence 34578899999999999999999999999999887 58999998 99999999999999999999999999874
No 68
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.34 E-value=1.1e-06 Score=95.13 Aligned_cols=79 Identities=34% Similarity=0.534 Sum_probs=69.7
Q ss_pred CCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-cCCCcccc--ccCHHHHHHHHHH-hCCCeeCCcEeEEEe
Q 003964 186 EHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-TACKHRGF--FYDVRAAEAALRA-LNRSDINGKRIKLEP 261 (783)
Q Consensus 186 e~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-~tgKsrGF--F~d~edAekAI~a-LNG~~I~Gr~IkVe~ 261 (783)
..+..+...++|||++|...++|.+|+++|.+||+|+.+. ..++.|+| |.+..+|+.|... +|...|+|++|+|.|
T Consensus 220 lepPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~W 299 (377)
T KOG0153|consen 220 LEPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKW 299 (377)
T ss_pred cCCCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecccccceeeehhhHHHHHHHHhhcceeeecceEEEEEe
Confidence 5555567789999999999999999999999999999998 66778999 9999999998765 566678999999999
Q ss_pred cCC
Q 003964 262 SRP 264 (783)
Q Consensus 262 A~p 264 (783)
+++
T Consensus 300 g~~ 302 (377)
T KOG0153|consen 300 GRP 302 (377)
T ss_pred CCC
Confidence 998
No 69
>smart00362 RRM_2 RNA recognition motif.
Probab=98.27 E-value=3.9e-06 Score=67.55 Aligned_cols=65 Identities=28% Similarity=0.394 Sum_probs=56.4
Q ss_pred eEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCcccc
Q 003964 625 TLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWE 693 (783)
Q Consensus 625 TvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~ 693 (783)
||.|+|||..+++++|++++.+. |....+.+..+. +.+.|||||.|.+++.+..+++.++|..|.
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~--g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~ 65 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKF--GPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLG 65 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhc--CCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEEC
Confidence 68999999999999999999865 555566666554 778999999999999999999999998875
No 70
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.25 E-value=2.3e-06 Score=95.33 Aligned_cols=97 Identities=21% Similarity=0.420 Sum_probs=76.5
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc---ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCcc
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHRGF---FYDVRAAEAALRALNRSDINGKRIKLEPSRPGGA 267 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF---F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~~ 267 (783)
..|||.||+++++.++|.++|+.||+|..|+ ..| ++|| |++.++|.+||+.|||..+.+++|.|.....+..
T Consensus 77 ~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g-~kg~FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~e 155 (369)
T KOG0123|consen 77 SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENG-SKGYFVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEE 155 (369)
T ss_pred ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCC-ceeeEEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhh
Confidence 3499999999999999999999999999999 233 6776 9999999999999999999999999998876654
Q ss_pred ccc------------cccccccccCHHHHhhhhccCC
Q 003964 268 RRN------------LMQQLNQELEQDEARGFRHQVG 292 (783)
Q Consensus 268 rr~------------~vqqlsq~~~qde~~~~fsq~G 292 (783)
|.. +++.......++.+..+|.++|
T Consensus 156 r~~~~~~~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g 192 (369)
T KOG0123|consen 156 REAPLGEYKKRFTNVYVKNLEEDSTDEELKDLFSAYG 192 (369)
T ss_pred hcccccchhhhhhhhheeccccccchHHHHHhhcccC
Confidence 321 2233333444556666666665
No 71
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.23 E-value=2.2e-06 Score=95.42 Aligned_cols=95 Identities=21% Similarity=0.332 Sum_probs=85.0
Q ss_pred EEEEecCCCCCCHHHHHHHhhcCCCEEEEe---cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCccc
Q 003964 196 TLFVRNINSNVEDLELRSLFEQYGDIRTLY---TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRPGGAR 268 (783)
Q Consensus 196 tLFVGNLp~dvTEeeLrelFsqfG~I~~v~---~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~~r 268 (783)
.|||| ++|||..|.++|+++|+|..++ ... +.|| |.+.++|++||++||...+.|++|+|-|+......
T Consensus 3 sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~t-slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~~~ 78 (369)
T KOG0123|consen 3 SLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDAT-SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDPSL 78 (369)
T ss_pred ceecC---CcCChHHHHHHhcccCCceeEEEeecCC-ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCCce
Confidence 58999 9999999999999999999987 224 7777 99999999999999999999999999999766544
Q ss_pred cccccccccccCHHHHhhhhccCCCCC
Q 003964 269 RNLMQQLNQELEQDEARGFRHQVGSPV 295 (783)
Q Consensus 269 r~~vqqlsq~~~qde~~~~fsq~Gsp~ 295 (783)
.+++.++..++...+...|+.+|..+
T Consensus 79 -~~i~nl~~~~~~~~~~d~f~~~g~il 104 (369)
T KOG0123|consen 79 -VFIKNLDESIDNKSLYDTFSEFGNIL 104 (369)
T ss_pred -eeecCCCcccCcHHHHHHHHhhcCee
Confidence 68999999999999999999999654
No 72
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.22 E-value=4e-06 Score=95.15 Aligned_cols=73 Identities=25% Similarity=0.508 Sum_probs=64.0
Q ss_pred CCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe--c-----CCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 192 HPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY--T-----ACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 192 ~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~--~-----tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
.-+++|||.+|...+...+|+.||++||+|+.++ + -.+.+|| +.+.++|.+||..|+.++|+||.|.|+.+
T Consensus 403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEka 482 (940)
T KOG4661|consen 403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKA 482 (940)
T ss_pred ccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeec
Confidence 3468999999999999999999999999999876 1 1245677 88999999999999999999999999998
Q ss_pred CC
Q 003964 263 RP 264 (783)
Q Consensus 263 ~p 264 (783)
+.
T Consensus 483 KN 484 (940)
T KOG4661|consen 483 KN 484 (940)
T ss_pred cc
Confidence 64
No 73
>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=98.22 E-value=3.8e-06 Score=70.26 Aligned_cols=65 Identities=23% Similarity=0.298 Sum_probs=57.3
Q ss_pred EEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCcccc
Q 003964 626 LMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWE 693 (783)
Q Consensus 626 vMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~ 693 (783)
|+|+|||...|.++|++++... |....+.+..+.. +...|||||.|.++++|.++++..+|..|.
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~--g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~ 65 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRF--GPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEID 65 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTS--SBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEET
T ss_pred CEEeCCCCCCCHHHHHHHHHhc--CCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEEC
Confidence 7899999999999999999886 6788888888866 889999999999999999999999988876
No 74
>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=98.20 E-value=9.3e-06 Score=65.71 Aligned_cols=74 Identities=22% Similarity=0.332 Sum_probs=64.4
Q ss_pred eEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEEEEE
Q 003964 625 TLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVASLA 704 (783)
Q Consensus 625 TvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~v~ 704 (783)
+|+|+|||...+.++|++++... |....++++.+..+ ...|||||.|.+++++..+++.+++..+. .+.+.|.
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~--g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~----~~~~~v~ 73 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKF--GKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELG----GRPLRVE 73 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhc--CCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeEC----CeEEEEe
Confidence 68999999999999999999886 88888999887766 56899999999999999999999999755 4566665
Q ss_pred e
Q 003964 705 Y 705 (783)
Q Consensus 705 y 705 (783)
|
T Consensus 74 ~ 74 (74)
T cd00590 74 F 74 (74)
T ss_pred C
Confidence 4
No 75
>smart00360 RRM RNA recognition motif.
Probab=98.17 E-value=6.2e-06 Score=66.03 Aligned_cols=64 Identities=25% Similarity=0.347 Sum_probs=58.4
Q ss_pred eecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCcccc
Q 003964 628 IKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWE 693 (783)
Q Consensus 628 IRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~ 693 (783)
|+|||..++.++|++++... |....+.++.+..++.+.|||||.|.+++.+..+++.+++..+.
T Consensus 1 i~~l~~~~~~~~l~~~f~~~--g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~ 64 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKF--GKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELD 64 (71)
T ss_pred CCCCCcccCHHHHHHHHHhh--CCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeC
Confidence 68999999999999999765 77888888888888999999999999999999999999988775
No 76
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.16 E-value=1.8e-06 Score=97.95 Aligned_cols=73 Identities=32% Similarity=0.567 Sum_probs=65.9
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
|-..||||||.+++++++|+.+|+.||.|..|. .+|+++|| |.+.++|.+|+..|||.+|.|+.|+|..-.
T Consensus 277 p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~ 356 (549)
T KOG0147|consen 277 PMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVT 356 (549)
T ss_pred chhhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEee
Confidence 344599999999999999999999999999887 48888888 999999999999999999999999998765
Q ss_pred CC
Q 003964 264 PG 265 (783)
Q Consensus 264 pr 265 (783)
.+
T Consensus 357 ~r 358 (549)
T KOG0147|consen 357 ER 358 (549)
T ss_pred ee
Confidence 43
No 77
>smart00361 RRM_1 RNA recognition motif.
Probab=98.12 E-value=5.2e-06 Score=70.81 Aligned_cols=53 Identities=25% Similarity=0.430 Sum_probs=46.5
Q ss_pred HHHHHHHhh----cCCCEEEEe------cC--CCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEE
Q 003964 208 DLELRSLFE----QYGDIRTLY------TA--CKHRGF----FYDVRAAEAALRALNRSDINGKRIKLE 260 (783)
Q Consensus 208 EeeLrelFs----qfG~I~~v~------~t--gKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe 260 (783)
+++|+++|+ +||.|.+|. .+ ++++|| |.+.++|.+|++.|||+.+.||.|++.
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence 678999998 999999873 23 778887 999999999999999999999999863
No 78
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.10 E-value=2.9e-06 Score=98.69 Aligned_cols=160 Identities=23% Similarity=0.297 Sum_probs=101.1
Q ss_pred cCCCCCCCchhhhhccccCCCCCCCCCCC--Ccccccccc--CCCCcccccCCcccccccccccc--ccCCCCCCCcccC
Q 003964 101 IGSLLPDDENDLLAGLVDDFDLRGLPSQL--EDLEDDLFD--SGGGMELEFEPHESLSIGVSKLN--ISDGIAGTGIAHY 174 (783)
Q Consensus 101 IGnLlpDddddllagv~d~~~~~~~~~~~--dD~eDDiF~--sgGGmeLe~d~~esls~~~~~~s--~~dg~~~nG~~~y 174 (783)
|-||-.|+..+-+..+|.-.|.+-.+... .|.. ..+- -.|.+|+. ..++...+.+.|. .+|| ..-...+
T Consensus 520 vkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~-~k~lSmGfgFVEF~--~~e~A~~a~k~lqgtvldG--H~l~lk~ 594 (725)
T KOG0110|consen 520 VKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPA-NKYLSMGFGFVEFA--KPESAQAALKALQGTVLDG--HKLELKI 594 (725)
T ss_pred hhcCCcccchhHHHHHHHhcCeEEEEEEecccccc-ccccccceeEEEec--CHHHHHHHHHHhcCceecC--ceEEEEe
Confidence 77888888888888877776665432111 1111 1111 12444553 2233233333322 2222 1222222
Q ss_pred CCCCCCCCcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEec-----CCCcccc----ccCHHHHHHHHH
Q 003964 175 PISNGVGTVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYT-----ACKHRGF----FYDVRAAEAALR 245 (783)
Q Consensus 175 g~~n~~g~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~-----tgKsrGF----F~d~edAekAI~ 245 (783)
....++++.. .........++|+|.|||+..+..+++.+|..||.|++|+. .+.+||| |.+.++|.+|++
T Consensus 595 S~~k~~~~~g-K~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~ 673 (725)
T KOG0110|consen 595 SENKPASTVG-KKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFD 673 (725)
T ss_pred ccCccccccc-cccccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHH
Confidence 2211212222 22223344689999999999999999999999999999982 2345777 999999999999
Q ss_pred HhCCCeeCCcEeEEEecCCCc
Q 003964 246 ALNRSDINGKRIKLEPSRPGG 266 (783)
Q Consensus 246 aLNG~~I~Gr~IkVe~A~pr~ 266 (783)
+|..+.+.||+|.++||+...
T Consensus 674 al~STHlyGRrLVLEwA~~d~ 694 (725)
T KOG0110|consen 674 ALGSTHLYGRRLVLEWAKSDN 694 (725)
T ss_pred hhcccceechhhheehhccch
Confidence 999999999999999998754
No 79
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.06 E-value=7.2e-06 Score=95.27 Aligned_cols=82 Identities=24% Similarity=0.386 Sum_probs=74.3
Q ss_pred cCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----------cCCCcccc--ccCHHHHHHHHHHhCCC
Q 003964 183 VAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY----------TACKHRGF--FYDVRAAEAALRALNRS 250 (783)
Q Consensus 183 ~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----------~tgKsrGF--F~d~edAekAI~aLNG~ 250 (783)
.+|.+..+++.+++|||+||+..++++.|-..|..||+|..++ ...+.||| |-+..+|++|++.|+|.
T Consensus 163 ~~gsfDdgDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~ 242 (877)
T KOG0151|consen 163 RPGSFDDGDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGI 242 (877)
T ss_pred CCCcCCCCCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcce
Confidence 3466667788899999999999999999999999999999987 34678999 99999999999999999
Q ss_pred eeCCcEeEEEecCC
Q 003964 251 DINGKRIKLEPSRP 264 (783)
Q Consensus 251 ~I~Gr~IkVe~A~p 264 (783)
.+.+..+++-|+++
T Consensus 243 iv~~~e~K~gWgk~ 256 (877)
T KOG0151|consen 243 IVMEYEMKLGWGKA 256 (877)
T ss_pred eeeeeeeeeccccc
Confidence 99999999999965
No 80
>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=98.02 E-value=5.4e-06 Score=83.57 Aligned_cols=90 Identities=20% Similarity=0.360 Sum_probs=59.9
Q ss_pred CCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEec--cc--cccccceeEEEEeccChhHHHHHHHHHcCccccCCC
Q 003964 621 DTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLP--ID--FKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFN 696 (783)
Q Consensus 621 D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLP--iD--f~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~ 696 (783)
..++.|.||+||+.+|++.+++.|+......++|-|.. .+ --..+-...|||||.+.+++..|.+.|+|+.|..-.
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~k 84 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSK 84 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TT
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCC
Confidence 46789999999999999999998887555664444444 22 223345788999999999999999999999998654
Q ss_pred C-ccEEEEEeeeccc
Q 003964 697 S-EKVASLAYARIQG 710 (783)
Q Consensus 697 s-~Kv~~v~yAriQG 710 (783)
. .-++.|.||-.|-
T Consensus 85 g~~~~~~VE~Apyqk 99 (176)
T PF03467_consen 85 GNEYPAVVEFAPYQK 99 (176)
T ss_dssp S-EEEEEEEE-SS--
T ss_pred CCCcceeEEEcchhc
Confidence 3 4889999998764
No 81
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.00 E-value=2.1e-05 Score=78.02 Aligned_cols=84 Identities=24% Similarity=0.289 Sum_probs=76.0
Q ss_pred ceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEEE
Q 003964 623 RTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVAS 702 (783)
Q Consensus 623 RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~ 702 (783)
..||.|+|||.++|.++|.+++.+. |....+.++.|-.++...|||||.|.+++++...++.++|..|. .+.|.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~--g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~----~~~~~ 188 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKF--GPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELE----GRPLR 188 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhc--CceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeEC----CceeE
Confidence 5999999999999999999999888 77789999999989999999999999999999999999999988 77888
Q ss_pred EEeee--cccHH
Q 003964 703 LAYAR--IQGQA 712 (783)
Q Consensus 703 v~yAr--iQGk~ 712 (783)
|.+++ .+.+.
T Consensus 189 v~~~~~~~~~~~ 200 (306)
T COG0724 189 VQKAQPASQPRS 200 (306)
T ss_pred eecccccccccc
Confidence 88876 44443
No 82
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.99 E-value=1.2e-05 Score=93.58 Aligned_cols=103 Identities=25% Similarity=0.404 Sum_probs=81.6
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEecC--CC------cccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLYTA--CK------HRGF----FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~t--gK------srGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
++|||.||+++++.++|+.+|.++|.|..+... .+ +.|| |.+.++|+.|+++|+|+.|+|+.|.|+++
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S 595 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKIS 595 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEec
Confidence 449999999999999999999999999999721 11 2266 99999999999999999999999999999
Q ss_pred CC--------Cc---cc--cccccccccccCHHHHhhhhccCCCCCCC
Q 003964 263 RP--------GG---AR--RNLMQQLNQELEQDEARGFRHQVGSPVTN 297 (783)
Q Consensus 263 ~p--------r~---~r--r~~vqqlsq~~~qde~~~~fsq~Gsp~~~ 297 (783)
.. +. .. +..+++++-+-...+++.+|..||.-...
T Consensus 596 ~~k~~~~~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksv 643 (725)
T KOG0110|consen 596 ENKPASTVGKKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSV 643 (725)
T ss_pred cCccccccccccccccccceeeeeccchHHHHHHHHHHHhcccceeee
Confidence 71 11 11 22455666666778899999999864433
No 83
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=97.92 E-value=2.5e-05 Score=82.46 Aligned_cols=76 Identities=26% Similarity=0.429 Sum_probs=66.9
Q ss_pred CCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 191 EHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
+....+|+|.||++.|+++||+++|.+||.++.+- ..+++.|. |...++|++|++.++|..++|+.|++...
T Consensus 80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i 159 (243)
T KOG0533|consen 80 ETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEII 159 (243)
T ss_pred CCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEe
Confidence 44457899999999999999999999999888775 67888887 99999999999999999999999999987
Q ss_pred CCCc
Q 003964 263 RPGG 266 (783)
Q Consensus 263 ~pr~ 266 (783)
.+..
T Consensus 160 ~~~~ 163 (243)
T KOG0533|consen 160 SSPS 163 (243)
T ss_pred cCcc
Confidence 6543
No 84
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=97.83 E-value=1.8e-05 Score=83.51 Aligned_cols=76 Identities=26% Similarity=0.433 Sum_probs=64.3
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc----ccCHHHHHHHHHHhCCCee-CC--cEeEEEe
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHRGF----FYDVRAAEAALRALNRSDI-NG--KRIKLEP 261 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF----F~d~edAekAI~aLNG~~I-~G--r~IkVe~ 261 (783)
..+|||||-|...-.|+|++.+|..||.|.+|. ..+.+||+ |.+..+|..||.+|+|..- -| ..|.|++
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ 97 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKF 97 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEe
Confidence 468999999999999999999999999999997 34555555 9999999999999999864 34 5689999
Q ss_pred cCCCccc
Q 003964 262 SRPGGAR 268 (783)
Q Consensus 262 A~pr~~r 268 (783)
+...++|
T Consensus 98 ADTdkER 104 (371)
T KOG0146|consen 98 ADTDKER 104 (371)
T ss_pred ccchHHH
Confidence 9766554
No 85
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.82 E-value=3.8e-05 Score=79.55 Aligned_cols=74 Identities=28% Similarity=0.469 Sum_probs=63.1
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe--------cCCCcccc--ccCHHHHHHHHHHhCCCeeC---CcEeEEE
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY--------TACKHRGF--FYDVRAAEAALRALNRSDIN---GKRIKLE 260 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~--------~tgKsrGF--F~d~edAekAI~aLNG~~I~---Gr~IkVe 260 (783)
-|||||.+||.++...||..||..|-..+.+. ..++.-|| |.+.++|++|+.+|||..|+ +..|+|+
T Consensus 34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiE 113 (284)
T KOG1457|consen 34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIE 113 (284)
T ss_pred cceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEee
Confidence 48999999999999999999999986555543 23456788 99999999999999999987 7899999
Q ss_pred ecCCCcc
Q 003964 261 PSRPGGA 267 (783)
Q Consensus 261 ~A~pr~~ 267 (783)
+|+...+
T Consensus 114 lAKSNtK 120 (284)
T KOG1457|consen 114 LAKSNTK 120 (284)
T ss_pred ehhcCcc
Confidence 9987553
No 86
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.65 E-value=5e-05 Score=78.92 Aligned_cols=69 Identities=23% Similarity=0.475 Sum_probs=61.5
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
.++|||+|++.+.+.+|+.+|..||.|.+|... ...|| |++..+|.+||..||+++|.|.++.|++++.
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk-~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~ 72 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK-NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARG 72 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee-cccceeccCchhhhhcccchhcCceecceeeeeecccc
Confidence 479999999999999999999999999998732 22345 9999999999999999999998899999985
No 87
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=6.7e-05 Score=81.83 Aligned_cols=76 Identities=24% Similarity=0.389 Sum_probs=67.4
Q ss_pred CCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCccc--c--ccCHHHHHHHHHHhCCCeeCCcEeEEEe
Q 003964 191 EHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRG--F--FYDVRAAEAALRALNRSDINGKRIKLEP 261 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrG--F--F~d~edAekAI~aLNG~~I~Gr~IkVe~ 261 (783)
.+|-.-|||..|++-+++++|.-+|+.||.|+.|. .||.+-- | |++.+++++|.-.|++..|+.++|+|.|
T Consensus 236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDF 315 (479)
T KOG0415|consen 236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDF 315 (479)
T ss_pred CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeeh
Confidence 35678899999999999999999999999999987 5665544 4 9999999999999999999999999999
Q ss_pred cCCCc
Q 003964 262 SRPGG 266 (783)
Q Consensus 262 A~pr~ 266 (783)
+..-.
T Consensus 316 SQSVs 320 (479)
T KOG0415|consen 316 SQSVS 320 (479)
T ss_pred hhhhh
Confidence 97654
No 88
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=97.60 E-value=0.00011 Score=75.58 Aligned_cols=82 Identities=18% Similarity=0.321 Sum_probs=73.9
Q ss_pred CCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccE
Q 003964 621 DTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKV 700 (783)
Q Consensus 621 D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv 700 (783)
|.-|+|.|-||-+..|..+|..++.+. |+.-=||+|-|-.|+...|||||-|-+..+|++..++++|.... .+.
T Consensus 11 ~gm~SLkVdNLTyRTspd~LrrvFekY--G~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ld----gRe 84 (256)
T KOG4207|consen 11 EGMTSLKVDNLTYRTSPDDLRRVFEKY--GRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLD----GRE 84 (256)
T ss_pred ccceeEEecceeccCCHHHHHHHHHHh--CcccceecccccccccccceeEEEeeecchHHHHHHhhcceeec----cce
Confidence 566999999999999999999999988 77778999999999999999999999999999999999999877 566
Q ss_pred EEEEeeec
Q 003964 701 ASLAYARI 708 (783)
Q Consensus 701 ~~v~yAri 708 (783)
+.|..|+.
T Consensus 85 lrVq~ary 92 (256)
T KOG4207|consen 85 LRVQMARY 92 (256)
T ss_pred eeehhhhc
Confidence 66666653
No 89
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=97.58 E-value=3.8e-05 Score=83.87 Aligned_cols=159 Identities=14% Similarity=0.232 Sum_probs=102.8
Q ss_pred cCCCCCCCchhhhhccccCCCCCCCCCCCCccccccccCCCCcccccCCccccccccccccccCCCCCCCcccCCCCCCC
Q 003964 101 IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLEDDLFDSGGGMELEFEPHESLSIGVSKLNISDGIAGTGIAHYPISNGV 180 (783)
Q Consensus 101 IGnLlpDddddllagv~d~~~~~~~~~~~dD~eDDiF~sgGGmeLe~d~~esls~~~~~~s~~dg~~~nG~~~yg~~n~~ 180 (783)
+|.+..+--+|.++--|+.||....-+-.=|.-...-+.+.++|.|.-+.+.+.....+-....| .|-.+ +.+.-.
T Consensus 118 VGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGG--RNiKV--grPsNm 193 (544)
T KOG0124|consen 118 VGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGG--RNIKV--GRPSNM 193 (544)
T ss_pred eeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccC--ccccc--cCCCCC
Confidence 58877777778999999999988655444443333334445566665533333322111112211 22111 111111
Q ss_pred C---CcCCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhC
Q 003964 181 G---TVAGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALN 248 (783)
Q Consensus 181 g---~~~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLN 248 (783)
+ .+..+.......-.+|||..+..+.+|+||+..|+.||+|+.|. ..+++||| |.+.....+||..||
T Consensus 194 pQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMN 273 (544)
T KOG0124|consen 194 PQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMN 273 (544)
T ss_pred cccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcc
Confidence 1 01111111123357899999999999999999999999999998 45667777 999999999999999
Q ss_pred CCeeCCcEeEEEecC
Q 003964 249 RSDINGKRIKLEPSR 263 (783)
Q Consensus 249 G~~I~Gr~IkVe~A~ 263 (783)
-.++.|.-|+|-.+.
T Consensus 274 lFDLGGQyLRVGk~v 288 (544)
T KOG0124|consen 274 LFDLGGQYLRVGKCV 288 (544)
T ss_pred hhhcccceEeccccc
Confidence 999999999987653
No 90
>PLN03120 nucleic acid binding protein; Provisional
Probab=97.55 E-value=0.00029 Score=75.09 Aligned_cols=75 Identities=12% Similarity=0.200 Sum_probs=66.1
Q ss_pred ceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEEE
Q 003964 623 RTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVAS 702 (783)
Q Consensus 623 RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~ 702 (783)
-+||.|.|||.+.|+++|++++... |++.-+.|+.|-. ..|||||.|.+++.+...+. ++|..+. .+.|.
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~--G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~----gr~V~ 73 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFS--GDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIV----DQSVT 73 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhc--CCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeC----CceEE
Confidence 4699999999999999999999665 8999999998854 35899999999999999995 9999776 78889
Q ss_pred EEeee
Q 003964 703 LAYAR 707 (783)
Q Consensus 703 v~yAr 707 (783)
|.+|+
T Consensus 74 Vt~a~ 78 (260)
T PLN03120 74 ITPAE 78 (260)
T ss_pred EEecc
Confidence 98865
No 91
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.40 E-value=0.00022 Score=77.89 Aligned_cols=74 Identities=16% Similarity=0.319 Sum_probs=62.2
Q ss_pred CCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe------------cCCCcccc----ccCHHHHHHHHHHhCCCeeCC
Q 003964 191 EHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY------------TACKHRGF----FYDVRAAEAALRALNRSDING 254 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~------------~tgKsrGF----F~d~edAekAI~aLNG~~I~G 254 (783)
..-++.|||.|||.++|.+|+.++|++||-|..-- ..|+-+|= |...++.+-||+.|++..|.|
T Consensus 131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg 210 (382)
T KOG1548|consen 131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRG 210 (382)
T ss_pred cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccC
Confidence 34567799999999999999999999999887632 22333432 999999999999999999999
Q ss_pred cEeEEEecCC
Q 003964 255 KRIKLEPSRP 264 (783)
Q Consensus 255 r~IkVe~A~p 264 (783)
+.|+|+.|+-
T Consensus 211 ~~~rVerAkf 220 (382)
T KOG1548|consen 211 KKLRVERAKF 220 (382)
T ss_pred cEEEEehhhh
Confidence 9999999964
No 92
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.31 E-value=0.0011 Score=73.94 Aligned_cols=73 Identities=26% Similarity=0.403 Sum_probs=62.7
Q ss_pred CCEEEEecCCCC-CCHHHHHHHhhcCCCEEEEe--cCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCc
Q 003964 194 SRTLFVRNINSN-VEDLELRSLFEQYGDIRTLY--TACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSRPGG 266 (783)
Q Consensus 194 srtLFVGNLp~d-vTEeeLrelFsqfG~I~~v~--~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~ 266 (783)
+..|.|.||..+ +|.+.|..+|+-||+|..|+ ..++-... |.|...|+-|+..|+|..+.||+|+|.+++-..
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~ 374 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTN 374 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCcceeeeecchhHHHHHHHHhhcceecCceEEEeeccCcc
Confidence 578999999765 99999999999999999998 23333333 999999999999999999999999999997543
No 93
>smart00361 RRM_1 RNA recognition motif.
Probab=97.17 E-value=0.0011 Score=56.57 Aligned_cols=57 Identities=14% Similarity=0.201 Sum_probs=48.5
Q ss_pred HHHHHHHHhhhC--CCccceEE-ecccccc--ccceeEEEEeccChhHHHHHHHHHcCcccc
Q 003964 637 SKMLLAAIDENH--RGTYDFLY-LPIDFKN--KCNVGYAFINMVSPSHIISFYEAFNGKKWE 693 (783)
Q Consensus 637 q~~L~~~ide~~--~g~YDFlY-LPiDf~~--~~N~GYAFINf~~~~~~~~f~~~fng~~w~ 693 (783)
+++|.+.+.+.| .|++--++ +.+|..+ +...|||||.|.+.++|..+++.+||+.+.
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~ 63 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFD 63 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEEC
Confidence 568888888544 48888776 7787766 888999999999999999999999999876
No 94
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=97.17 E-value=0.00059 Score=77.30 Aligned_cols=73 Identities=30% Similarity=0.522 Sum_probs=60.1
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe---cC--CC--cccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY---TA--CK--HRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~---~t--gK--srGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
...+|||+|||.++++++|+++|.+||+|++.. .. ++ ..|| |++.++++.||.+- -..|+++++.|+-.+
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig~~kl~Veek~ 365 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-PLEIGGRKLNVEEKR 365 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-ccccCCeeEEEEecc
Confidence 345699999999999999999999999999876 12 33 4455 99999999999864 667889999999877
Q ss_pred CCc
Q 003964 264 PGG 266 (783)
Q Consensus 264 pr~ 266 (783)
+..
T Consensus 366 ~~~ 368 (419)
T KOG0116|consen 366 PGF 368 (419)
T ss_pred ccc
Confidence 653
No 95
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.05 E-value=0.001 Score=69.25 Aligned_cols=70 Identities=29% Similarity=0.469 Sum_probs=59.6
Q ss_pred CCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 192 HPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 192 ~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
...+.|+|-|++..+.+.+|++.|.++|.+... ......+| |...++|.+|+..|++.++.++.|++...
T Consensus 97 ~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~-~~~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~~ 168 (216)
T KOG0106|consen 97 RTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYV-DARRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEKN 168 (216)
T ss_pred cccceeeeccchhhhhHHHHhhhhcccCCCchh-hhhccccceeehhhhhhhhcchhccchhhcCceeeeccc
Confidence 345779999999999999999999999999544 33555666 99999999999999999999999999433
No 96
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=96.92 E-value=0.00091 Score=70.46 Aligned_cols=74 Identities=26% Similarity=0.385 Sum_probs=64.4
Q ss_pred CCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEe
Q 003964 191 EHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEP 261 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~ 261 (783)
+.+.+.+||+|+.+.++.++++..|+-||.|..+. ..+.++|| |.+.+.++.|++ |||..|.|+.|+|.+
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~ 176 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTL 176 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeee
Confidence 45678999999999999999999999999996433 45567888 999999999999 999999999999998
Q ss_pred cCCC
Q 003964 262 SRPG 265 (783)
Q Consensus 262 A~pr 265 (783)
.+-+
T Consensus 177 ~r~~ 180 (231)
T KOG4209|consen 177 KRTN 180 (231)
T ss_pred eeee
Confidence 7643
No 97
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=96.78 E-value=0.0031 Score=65.10 Aligned_cols=72 Identities=17% Similarity=0.315 Sum_probs=65.3
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcC-CCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQY-GDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqf-G~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
..-+||..++.-+.+.++..+|.+| |.|+.++ .||.++|| |++.+.|+-|.+.||++.|.++.|.|.+-.
T Consensus 49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmp 128 (214)
T KOG4208|consen 49 EGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMP 128 (214)
T ss_pred ccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeC
Confidence 4569999999999999999999999 6777666 68999988 999999999999999999999999999887
Q ss_pred CC
Q 003964 264 PG 265 (783)
Q Consensus 264 pr 265 (783)
|.
T Consensus 129 pe 130 (214)
T KOG4208|consen 129 PE 130 (214)
T ss_pred ch
Confidence 76
No 98
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=96.71 E-value=0.0013 Score=68.61 Aligned_cols=63 Identities=25% Similarity=0.437 Sum_probs=49.6
Q ss_pred CCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe---cCCCcccc--ccCHHHHHHHHHHhCCCee
Q 003964 190 GEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY---TACKHRGF--FYDVRAAEAALRALNRSDI 252 (783)
Q Consensus 190 ~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~---~tgKsrGF--F~d~edAekAI~aLNG~~I 252 (783)
+...+.||||.||..+++|++||.+|+.|-....++ ..|..-.| |++.+.|.+|+..|+|..|
T Consensus 206 ~~~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 206 GARACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred cchhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHHHHHHHHHHHHhhccee
Confidence 344567999999999999999999999997655444 34445566 8888888888888888765
No 99
>PLN03213 repressor of silencing 3; Provisional
Probab=96.63 E-value=0.0066 Score=69.07 Aligned_cols=76 Identities=17% Similarity=0.307 Sum_probs=66.2
Q ss_pred CceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccCh--hHHHHHHHHHcCccccCCCCcc
Q 003964 622 TRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSP--SHIISFYEAFNGKKWEKFNSEK 699 (783)
Q Consensus 622 ~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~--~~~~~f~~~fng~~w~~~~s~K 699 (783)
..++|-|.||+...|+++|.++|.++ |+.--+++| -.++ .|||||+|.+. ..+.+.+..+||.+|. .-
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeF--GsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWK----GR 78 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPM--GTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWK----GG 78 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhc--CCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeec----Cc
Confidence 45889999999999999999999888 889999998 2344 99999999998 7899999999999998 45
Q ss_pred EEEEEeee
Q 003964 700 VASLAYAR 707 (783)
Q Consensus 700 v~~v~yAr 707 (783)
.+.|.=||
T Consensus 79 ~LKVNKAK 86 (759)
T PLN03213 79 RLRLEKAK 86 (759)
T ss_pred eeEEeecc
Confidence 66777776
No 100
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=96.61 E-value=0.0041 Score=67.50 Aligned_cols=73 Identities=25% Similarity=0.457 Sum_probs=61.0
Q ss_pred CCEEE-EecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 194 SRTLF-VRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 194 srtLF-VGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
..++| |++|++++++++|+.+|..+|.|..++ .++..+|| |.....+..|+.. +...+.++.++|....
T Consensus 184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 262 (285)
T KOG4210|consen 184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDE 262 (285)
T ss_pred cccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCC
Confidence 34555 999999999999999999999999988 56777888 6666777777766 6888999999999998
Q ss_pred CCcc
Q 003964 264 PGGA 267 (783)
Q Consensus 264 pr~~ 267 (783)
++..
T Consensus 263 ~~~~ 266 (285)
T KOG4210|consen 263 PRPK 266 (285)
T ss_pred CCcc
Confidence 8754
No 101
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=96.45 E-value=0.0077 Score=65.84 Aligned_cols=79 Identities=24% Similarity=0.380 Sum_probs=65.6
Q ss_pred CCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccE
Q 003964 621 DTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKV 700 (783)
Q Consensus 621 D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv 700 (783)
|.---|.|.|||=+|.+-||.+++.++ |+ -|=+=|=|..+.+.||+||.|.+++++.+..+++||...+ ..+
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kf--G~--VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VE----GRk 165 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKF--GK--VLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVE----GRK 165 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhh--Cc--eeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceee----ceE
Confidence 344457888999999999999999776 33 3557788999999999999999999999999999999887 455
Q ss_pred EEEEeee
Q 003964 701 ASLAYAR 707 (783)
Q Consensus 701 ~~v~yAr 707 (783)
++|.-|.
T Consensus 166 IEVn~AT 172 (376)
T KOG0125|consen 166 IEVNNAT 172 (376)
T ss_pred EEEeccc
Confidence 6776654
No 102
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=96.33 E-value=0.0014 Score=68.13 Aligned_cols=72 Identities=22% Similarity=0.265 Sum_probs=62.9
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcc-cc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHR-GF--FYDVRAAEAALRALNRSDINGKRIKLEPSRPG 265 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsr-GF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr 265 (783)
.+||||+|+-..|+|+-|.++|-+-|+|..|. ..++.+ .| |.+.-...-|++.+||..+.++.|+|++-+..
T Consensus 9 drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~ 87 (267)
T KOG4454|consen 9 DRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGN 87 (267)
T ss_pred hhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchhhcccccCC
Confidence 58999999999999999999999999999987 334555 33 99999999999999999999999999876543
No 103
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=96.29 E-value=0.0025 Score=70.82 Aligned_cols=72 Identities=19% Similarity=0.422 Sum_probs=60.5
Q ss_pred CCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEec-cccccccc-eeEEEEeccChhHHHHHHHHHcCcccc
Q 003964 621 DTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLP-IDFKNKCN-VGYAFINMVSPSHIISFYEAFNGKKWE 693 (783)
Q Consensus 621 D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLP-iDf~~~~N-~GYAFINf~~~~~~~~f~~~fng~~w~ 693 (783)
+....|.||++|+++|+..|++.||. +...+.|.|.- -|+....+ .+.|||||..+.++..|...|+|+.+=
T Consensus 5 ~~~~Kvv~rrlpp~l~~~~~~eqi~p-~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifl 78 (376)
T KOG1295|consen 5 EAKVKVVVRRLPPKLTEEQLLEQINP-FPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFL 78 (376)
T ss_pred ccceeeeeecCCCcccHHHHhhhcCC-CccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEe
Confidence 34567999999999999999999999 67788887665 66554444 677999999999999999999998764
No 104
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=96.22 E-value=0.02 Score=65.55 Aligned_cols=92 Identities=17% Similarity=0.241 Sum_probs=73.9
Q ss_pred eeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEEEE
Q 003964 624 TTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVASL 703 (783)
Q Consensus 624 TTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~v 703 (783)
-+|-|+|||-..+++.|..++.+. |..==+-+-.|..|+.-.||||+.|.+.+++.+.++-+||.... ...+.|
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~--g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~----gr~l~v 92 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGV--GPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFN----GRKLRV 92 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhcc--CccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccC----CceEEe
Confidence 689999999999999999999876 44444556678889999999999999999999999999999765 667889
Q ss_pred EeeecccHHHHHHHhccC
Q 003964 704 AYARIQGQAALVTHFQNS 721 (783)
Q Consensus 704 ~yAriQGk~ali~hf~ns 721 (783)
.||.-==.++...-+++.
T Consensus 93 ~~~~~~~~~~~~~~~~~~ 110 (435)
T KOG0108|consen 93 NYASNRKNAERSLASHNA 110 (435)
T ss_pred ecccccchhHHHHhhccc
Confidence 998744333344444444
No 105
>PLN03121 nucleic acid binding protein; Provisional
Probab=96.19 E-value=0.021 Score=60.53 Aligned_cols=64 Identities=13% Similarity=0.097 Sum_probs=56.8
Q ss_pred eeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCcccc
Q 003964 624 TTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWE 693 (783)
Q Consensus 624 TTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~ 693 (783)
.||-|.||+.+.|.++|.+++... |++.-++|+.|-+++ |+|||-|.+++.+...+ .++|....
T Consensus 6 ~TV~V~NLS~~tTE~dLrefFS~~--G~I~~V~I~~D~et~---gfAfVtF~d~~aaetAl-lLnGa~l~ 69 (243)
T PLN03121 6 YTAEVTNLSPKATEKDVYDFFSHC--GAIEHVEIIRSGEYA---CTAYVTFKDAYALETAV-LLSGATIV 69 (243)
T ss_pred eEEEEecCCCCCCHHHHHHHHHhc--CCeEEEEEecCCCcc---eEEEEEECCHHHHHHHH-hcCCCeeC
Confidence 799999999999999999999775 999999999995444 79999999999997766 78998775
No 106
>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=96.18 E-value=0.0076 Score=56.22 Aligned_cols=69 Identities=23% Similarity=0.413 Sum_probs=43.0
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-cCCCcccc--ccCHHHHHHHHHHhCCC-----eeCCcEeEEEecC
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLY-TACKHRGF--FYDVRAAEAALRALNRS-----DINGKRIKLEPSR 263 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-~tgKsrGF--F~d~edAekAI~aLNG~-----~I~Gr~IkVe~A~ 263 (783)
+.|+|.+++..++-++|+++|++||+|..|. ..|...|| |.+.++|++|+..+.-. .|.+..+.++.-.
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vLe 78 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVLE 78 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE---
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEECC
Confidence 4688999999999999999999999999998 66778899 99999999999877543 4556665555433
No 107
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=96.16 E-value=0.017 Score=52.33 Aligned_cols=66 Identities=24% Similarity=0.370 Sum_probs=45.6
Q ss_pred CEEEEecCCCCCCHH----HHHHHhhcCC-CEEEEecCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 195 RTLFVRNINSNVEDL----ELRSLFEQYG-DIRTLYTACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 195 rtLFVGNLp~dvTEe----eLrelFsqfG-~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
..|||.|||.+.+.. -|+.|+.-|| .|..|. + ..+. |.+.+.|++|.+-|+|..+.|.+|.|.+..
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~--~-~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~ 75 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS--G-GTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSP 75 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE----T-T-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS-
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe--C-CEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcC
Confidence 469999999998875 4567888886 777763 2 3445 999999999999999999999999999874
No 108
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=96.09 E-value=0.0051 Score=65.23 Aligned_cols=74 Identities=22% Similarity=0.340 Sum_probs=63.6
Q ss_pred CCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 192 HPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 192 ~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
...-+||+|.|..+++++-|-..|.+|-.....+ .|+|++|| |.+..++..|+++|||+.++.|+|++.-+
T Consensus 188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS 267 (290)
T KOG0226|consen 188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKS 267 (290)
T ss_pred cccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhh
Confidence 3457899999999999999999999997654433 68999998 99999999999999999999999988765
Q ss_pred CCC
Q 003964 263 RPG 265 (783)
Q Consensus 263 ~pr 265 (783)
.-+
T Consensus 268 ~wk 270 (290)
T KOG0226|consen 268 EWK 270 (290)
T ss_pred hHH
Confidence 443
No 109
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.00 E-value=0.0099 Score=65.08 Aligned_cols=71 Identities=24% Similarity=0.410 Sum_probs=58.7
Q ss_pred CEEEEecCCCCCCHHH----H--HHHhhcCCCEEEEecCC---------Ccccc---ccCHHHHHHHHHHhCCCeeCCcE
Q 003964 195 RTLFVRNINSNVEDLE----L--RSLFEQYGDIRTLYTAC---------KHRGF---FYDVRAAEAALRALNRSDINGKR 256 (783)
Q Consensus 195 rtLFVGNLp~dvTEee----L--relFsqfG~I~~v~~tg---------KsrGF---F~d~edAekAI~aLNG~~I~Gr~ 256 (783)
.-+||-+|+..+-.++ | .++|.|||.|..+.... .+.|. |.+.++|.+||.+.+|..++||.
T Consensus 115 NLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~ 194 (480)
T COG5175 115 NLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRV 194 (480)
T ss_pred ceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCce
Confidence 5689999999988777 3 48999999999987221 22443 99999999999999999999999
Q ss_pred eEEEecCCC
Q 003964 257 IKLEPSRPG 265 (783)
Q Consensus 257 IkVe~A~pr 265 (783)
|+..+...+
T Consensus 195 lkatYGTTK 203 (480)
T COG5175 195 LKATYGTTK 203 (480)
T ss_pred EeeecCchH
Confidence 999987643
No 110
>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=95.98 E-value=0.026 Score=45.61 Aligned_cols=56 Identities=20% Similarity=0.336 Sum_probs=42.2
Q ss_pred HHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEEEEEee
Q 003964 640 LLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVASLAYA 706 (783)
Q Consensus 640 L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~v~yA 706 (783)
|.+++.++ |+..-+.+.-+- .|+|||-|.++++|...++.+||..|. .+.+.|.||
T Consensus 1 L~~~f~~f--G~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~----g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKF--GEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFN----GRPLKVSYA 56 (56)
T ss_dssp HHHHHTTT--S-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEET----TEEEEEEEE
T ss_pred ChHHhCCc--ccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEEC----CcEEEEEEC
Confidence 34455444 666544442221 599999999999999999999999996 678999997
No 111
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=95.88 E-value=0.0031 Score=72.61 Aligned_cols=81 Identities=33% Similarity=0.479 Sum_probs=55.9
Q ss_pred cccCchhhhcCCCCceeEEeecCCCccCHHHHHHHHhhhC----------CCccceEEeccccccccceeEEEEeccChh
Q 003964 609 YQLDLDKIISGEDTRTTLMIKNIPNKYTSKMLLAAIDENH----------RGTYDFLYLPIDFKNKCNVGYAFINMVSPS 678 (783)
Q Consensus 609 ~~~d~~~I~~g~D~RTTvMIRNIPNk~tq~~L~~~ide~~----------~g~YDFlYLPiDf~~~~N~GYAFINf~~~~ 678 (783)
+..-...|.+..|.|||+||+||||||++.+|++|+|..| ..+|....|--. ..++---|=|+=+.
T Consensus 347 ~~~~~~~~~~~~~~Rtt~~i~ni~n~~~~~dl~~Ildge~~rtt~~iknipNK~T~~ml~~~-d~~~~gtYDFlYLP--- 422 (549)
T KOG4660|consen 347 NDYPVELILNYRDRRTTVMIKNIPNKYGQLDLLRILDGECPRTTLMIKNIPNKYTSKMLLAA-DEKNKGTYDFLYLP--- 422 (549)
T ss_pred cccccccccccccchhhhhhhccccchhHHHHHHHHhCcCchhhhHhhccCchhhHHhhhhh-hccccCccceEEec---
Confidence 3344566778899999999999999999999999999876 356665444333 33444456665443
Q ss_pred HHHHHHHHHcCccccCCCCccEEEEEeeecc
Q 003964 679 HIISFYEAFNGKKWEKFNSEKVASLAYARIQ 709 (783)
Q Consensus 679 ~~~~f~~~fng~~w~~~~s~Kv~~v~yAriQ 709 (783)
++| .++|.|-||-|-
T Consensus 423 --iDF--------------~nkcNvGYAFIN 437 (549)
T KOG4660|consen 423 --IDF--------------KNKCNVGYAFIN 437 (549)
T ss_pred --ccc--------------ccccccceeEEe
Confidence 222 356788888754
No 112
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=95.77 E-value=0.008 Score=66.27 Aligned_cols=77 Identities=23% Similarity=0.277 Sum_probs=64.9
Q ss_pred CCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEecC-------------CCcccc----ccCHHHHHHHHHHhCCCeeC
Q 003964 191 EHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYTA-------------CKHRGF----FYDVRAAEAALRALNRSDIN 253 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~t-------------gKsrGF----F~d~edAekAI~aLNG~~I~ 253 (783)
....-+|||-+|+..+++++|.++|.++|.|+.-+.| ++.||= |++...|+.||..++++.+.
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~ 142 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC 142 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence 3456789999999999999999999999999875533 333332 99999999999999999999
Q ss_pred CcEeEEEecCCCcc
Q 003964 254 GKRIKLEPSRPGGA 267 (783)
Q Consensus 254 Gr~IkVe~A~pr~~ 267 (783)
+..|+|.+|..+..
T Consensus 143 gn~ikvs~a~~r~~ 156 (351)
T KOG1995|consen 143 GNTIKVSLAERRTG 156 (351)
T ss_pred CCCchhhhhhhccC
Confidence 99999999976553
No 113
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=95.70 E-value=0.015 Score=65.15 Aligned_cols=73 Identities=23% Similarity=0.311 Sum_probs=63.8
Q ss_pred EEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc-----ccCHHHHHHHHHHhCCCeeC--CcEeEEEecCCCccc
Q 003964 196 TLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF-----FYDVRAAEAALRALNRSDIN--GKRIKLEPSRPGGAR 268 (783)
Q Consensus 196 tLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF-----F~d~edAekAI~aLNG~~I~--Gr~IkVe~A~pr~~r 268 (783)
.++|+|+-+.|+-+-|..+|++||.|.++.+-.|.-|| |.+...|..|..+|+|..|. -+.|+|++++-....
T Consensus 152 r~iie~m~ypVslDVLHqvFS~fG~VlKIiTF~Knn~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~Sklt~Ln 231 (492)
T KOG1190|consen 152 RTIIENMFYPVSLDVLHQVFSKFGFVLKIITFTKNNGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFSKLTDLN 231 (492)
T ss_pred EEEeccceeeeEHHHHHHHHhhcceeEEEEEEecccchhhhhhccchhhHHHHHHhccCCcccCceeEEEeehhhcccce
Confidence 57899999999999999999999999999866788899 99999999999999999886 367888888765433
No 114
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=95.63 E-value=0.046 Score=59.34 Aligned_cols=81 Identities=20% Similarity=0.259 Sum_probs=75.4
Q ss_pred CCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccE
Q 003964 621 DTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKV 700 (783)
Q Consensus 621 D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv 700 (783)
|.-.||-|-.|+...+...|..++... |.+--|=|--|-.|+...|||||-|.+..++...|+.-+|.+.. .+.
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~Y--G~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Id----grr 172 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKY--GPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKID----GRR 172 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhc--CcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceec----CcE
Confidence 888999999999999999999999877 88888999999999999999999999999999999999999988 788
Q ss_pred EEEEeee
Q 003964 701 ASLAYAR 707 (783)
Q Consensus 701 ~~v~yAr 707 (783)
|.|.|-|
T Consensus 173 i~VDvER 179 (335)
T KOG0113|consen 173 ILVDVER 179 (335)
T ss_pred EEEEecc
Confidence 8888855
No 115
>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=95.54 E-value=0.091 Score=49.72 Aligned_cols=85 Identities=20% Similarity=0.308 Sum_probs=64.6
Q ss_pred CceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEE
Q 003964 622 TRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVA 701 (783)
Q Consensus 622 ~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~ 701 (783)
.+|+|-|=-+|+.++..+++-.+-+.+.....-+.+..|. .-|.-=+-|.|.+.++|..||+.|||++++.+-. -+|
T Consensus 11 ~~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~FnslEp-E~C 87 (110)
T PF07576_consen 11 RRSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFNSLEP-ETC 87 (110)
T ss_pred CCceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccCCCCC-cee
Confidence 3456666688888887766656656666666666666654 4577779999999999999999999999987755 559
Q ss_pred EEEe-eecc
Q 003964 702 SLAY-ARIQ 709 (783)
Q Consensus 702 ~v~y-AriQ 709 (783)
.|.| .+||
T Consensus 88 hvvfV~~Ve 96 (110)
T PF07576_consen 88 HVVFVKSVE 96 (110)
T ss_pred EEEEEEEEE
Confidence 9999 4555
No 116
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=95.45 E-value=0.0091 Score=68.99 Aligned_cols=76 Identities=16% Similarity=0.442 Sum_probs=67.3
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRP 264 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~p 264 (783)
..++||++||..+++++++++...||.++... .++.++|| |.+..-...|+..|||..+.+++|.|+.|..
T Consensus 289 ~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~ 368 (500)
T KOG0120|consen 289 PNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIV 368 (500)
T ss_pred cchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhc
Confidence 46899999999999999999999999998766 45778887 8899999999999999999999999999987
Q ss_pred Ccccc
Q 003964 265 GGARR 269 (783)
Q Consensus 265 r~~rr 269 (783)
...+.
T Consensus 369 g~~~~ 373 (500)
T KOG0120|consen 369 GASNA 373 (500)
T ss_pred cchhc
Confidence 76443
No 117
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=95.44 E-value=0.077 Score=54.38 Aligned_cols=63 Identities=13% Similarity=0.178 Sum_probs=52.0
Q ss_pred CCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc--ccCHHHHHHHHHHhCCCeeC
Q 003964 191 EHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF--FYDVRAAEAALRALNRSDIN 253 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~~I~ 253 (783)
......|.|..||...+++|||++..+-|+|.-........|. |...++.+-||+.|+...+.
T Consensus 112 rrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rDg~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 112 RRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRDGVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred cccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecccceeeeeeehhhHHHHHHhhcccccc
Confidence 3445679999999999999999999999998765544445666 99999999999999877654
No 118
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=95.40 E-value=0.017 Score=66.60 Aligned_cols=81 Identities=21% Similarity=0.219 Sum_probs=71.3
Q ss_pred EEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEEEEEe
Q 003964 626 LMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVASLAY 705 (783)
Q Consensus 626 vMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~v~y 705 (783)
|.+.||=-.+|..||+.++..+ |+++++=|++|-.|+.+.||+||-|.+++++..|....||.....+ .-|||.|.+
T Consensus 281 l~vgnLHfNite~~lr~ifepf--g~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr-~ikV~~v~~ 357 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLRGIFEPF--GKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGR-LIKVSVVTE 357 (549)
T ss_pred hhhcccccCchHHHHhhhccCc--ccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCc-eEEEEEeee
Confidence 6778999999999999999887 9999999999999999999999999999999999999999655543 347888888
Q ss_pred eecc
Q 003964 706 ARIQ 709 (783)
Q Consensus 706 AriQ 709 (783)
---|
T Consensus 358 r~~~ 361 (549)
T KOG0147|consen 358 RVDT 361 (549)
T ss_pred eccc
Confidence 5444
No 119
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=95.38 E-value=0.036 Score=66.24 Aligned_cols=78 Identities=26% Similarity=0.312 Sum_probs=68.3
Q ss_pred eeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEEEE
Q 003964 624 TTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVASL 703 (783)
Q Consensus 624 TTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~v 703 (783)
|||.|.-||.++++.+|.++|.++ |..--+-| --|.|-|||-|...++|.+..++|+..+.. .|.+.|
T Consensus 422 rTLwvG~i~k~v~e~dL~~~feef--GeiqSi~l------i~~R~cAfI~M~~RqdA~kalqkl~n~kv~----~k~Iki 489 (894)
T KOG0132|consen 422 RTLWVGGIPKNVTEQDLANLFEEF--GEIQSIIL------IPPRGCAFIKMVRRQDAEKALQKLSNVKVA----DKTIKI 489 (894)
T ss_pred eeeeeccccchhhHHHHHHHHHhc--ccceeEee------ccCCceeEEEEeehhHHHHHHHHHhccccc----ceeeEE
Confidence 999999999999999999999998 66655543 346899999999999999999999988776 799999
Q ss_pred EeeecccHHH
Q 003964 704 AYARIQGQAA 713 (783)
Q Consensus 704 ~yAriQGk~a 713 (783)
+||.-=|-++
T Consensus 490 ~Wa~g~G~ks 499 (894)
T KOG0132|consen 490 AWAVGKGPKS 499 (894)
T ss_pred eeeccCCcch
Confidence 9999888665
No 120
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=95.25 E-value=0.11 Score=57.90 Aligned_cols=81 Identities=15% Similarity=0.177 Sum_probs=58.1
Q ss_pred eeEEeecCCCccCHHHHHHHHhhhC--CCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCc--c
Q 003964 624 TTLMIKNIPNKYTSKMLLAAIDENH--RGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSE--K 699 (783)
Q Consensus 624 TTvMIRNIPNk~tq~~L~~~ide~~--~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~--K 699 (783)
.+|..=|.|..+|++.|+.|.++.- .-+|+-|=+. ..+ -.=+-+-|.+..+|+...-+.|....+.-+.. -
T Consensus 407 ~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvFp~k---ser--SssGllEfe~~s~Aveal~~~NH~pi~~p~gs~Pf 481 (494)
T KOG1456|consen 407 NVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVFPLK---SER--SSSGLLEFENKSDAVEALMKLNHYPIEGPNGSFPF 481 (494)
T ss_pred ceeEEecCCCccCHHHHHHHhhhcCCCcceEEeeccc---ccc--cccceeeeehHHHHHHHHHHhccccccCCCCCCCe
Confidence 5788889999999999999999863 3455544333 122 23356789999999999999998877754332 5
Q ss_pred EEEEEeeecc
Q 003964 700 VASLAYARIQ 709 (783)
Q Consensus 700 v~~v~yAriQ 709 (783)
++.+||+.-|
T Consensus 482 ilKlcfsts~ 491 (494)
T KOG1456|consen 482 ILKLCFSTSK 491 (494)
T ss_pred eeeeeecccc
Confidence 6777777543
No 121
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=95.19 E-value=0.046 Score=55.55 Aligned_cols=66 Identities=18% Similarity=0.270 Sum_probs=53.1
Q ss_pred CCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCcccc
Q 003964 621 DTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWE 693 (783)
Q Consensus 621 D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~ 693 (783)
+.-|.|.|-||+++.|..+|..++.... . |.--|.-..--|||||-|.++.+|.+.+..++|+.+.
T Consensus 8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG--~-----lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~c 73 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRATKRELERAFSKYG--P-----LRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDIC 73 (195)
T ss_pred CCCceEEeccCCCCcchHHHHHHHHhcC--c-----ceeEEEeecCCCceEEeccCcccHHHHHhhcCCcccc
Confidence 3459999999999999999998887653 2 2222333445799999999999999999999999765
No 122
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=95.12 E-value=0.064 Score=65.07 Aligned_cols=77 Identities=21% Similarity=0.384 Sum_probs=67.7
Q ss_pred CCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-cCCCcccc--ccCHHHHHHHHHHhCCCeeCC--cEeEEEecCCCc
Q 003964 192 HPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-TACKHRGF--FYDVRAAEAALRALNRSDING--KRIKLEPSRPGG 266 (783)
Q Consensus 192 ~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-~tgKsrGF--F~d~edAekAI~aLNG~~I~G--r~IkVe~A~pr~ 266 (783)
.+++.+||+.|...+....|...|..||.|+.|. ..+.+..| |++...|+.|++.|-|..|.+ ++|+|.++.+..
T Consensus 453 t~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~~ 532 (975)
T KOG0112|consen 453 TPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPPG 532 (975)
T ss_pred ccceeeccCCCCCCChHHHHHHHhhccCcceeeecccCCcceeeecccCccchhhHHHHhcCcCCCCCcccccccccCCC
Confidence 4578999999999999999999999999999987 55667777 999999999999999999985 779999998765
Q ss_pred cc
Q 003964 267 AR 268 (783)
Q Consensus 267 ~r 268 (783)
..
T Consensus 533 ~~ 534 (975)
T KOG0112|consen 533 AT 534 (975)
T ss_pred CC
Confidence 43
No 123
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=94.94 E-value=0.073 Score=55.26 Aligned_cols=81 Identities=17% Similarity=0.219 Sum_probs=67.2
Q ss_pred CCCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCcc
Q 003964 620 EDTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEK 699 (783)
Q Consensus 620 ~D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~K 699 (783)
...++-+.++.||.-+.+..++..+-++. |.---+=|--.-+|+.+.|||||-|.+++.|.-.++.+|++-+- ++
T Consensus 46 ~~~~g~~~~~~~p~g~~e~~~~~~~~q~~-g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~----e~ 120 (214)
T KOG4208|consen 46 QEIEGVVYVDHIPHGFFETEILNYFRQFG-GTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLM----EH 120 (214)
T ss_pred cCCccceeecccccchhHHHHhhhhhhcC-CeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhh----hh
Confidence 45668899999999999999998886664 66666677678899999999999999999999999999998654 55
Q ss_pred EEEEEe
Q 003964 700 VASLAY 705 (783)
Q Consensus 700 v~~v~y 705 (783)
.+++.|
T Consensus 121 lL~c~v 126 (214)
T KOG4208|consen 121 LLECHV 126 (214)
T ss_pred eeeeEE
Confidence 555555
No 124
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=94.91 E-value=0.037 Score=58.94 Aligned_cols=64 Identities=25% Similarity=0.485 Sum_probs=53.7
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEec-----C--------CCcccc--------ccCHHHHHHHHHHhCCCe
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYT-----A--------CKHRGF--------FYDVRAAEAALRALNRSD 251 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~-----t--------gKsrGF--------F~d~edAekAI~aLNG~~ 251 (783)
...-||+++||+.+.-..||++|++||+|-.|+. + ++++.. |.+...|......||+..
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~ 152 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP 152 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence 3457999999999999999999999999999981 1 122221 999999999999999999
Q ss_pred eCCcE
Q 003964 252 INGKR 256 (783)
Q Consensus 252 I~Gr~ 256 (783)
|.|++
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 99875
No 125
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=94.32 E-value=0.14 Score=58.30 Aligned_cols=81 Identities=27% Similarity=0.345 Sum_probs=70.3
Q ss_pred ceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEEE
Q 003964 623 RTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVAS 702 (783)
Q Consensus 623 RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~ 702 (783)
-|+|-|=-+|+.+|..+|+..+..+.+-=-|+-.++ ..--|.--+-|-|.+..+|..||+.|||+.++..-.+ +|.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivR---d~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~le~e-~Ch 149 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVR---DGMPNRYMVLIKFRDQADADTFYEEFNGKQFNSLEPE-VCH 149 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEee---cCCCceEEEEEEeccchhHHHHHHHcCCCcCCCCCcc-cee
Confidence 488888999999999999999998877777888888 3455666799999999999999999999999877666 999
Q ss_pred EEeee
Q 003964 703 LAYAR 707 (783)
Q Consensus 703 v~yAr 707 (783)
|-|+.
T Consensus 150 ll~V~ 154 (493)
T KOG0804|consen 150 LLYVD 154 (493)
T ss_pred EEEEE
Confidence 99964
No 126
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=94.22 E-value=0.11 Score=54.44 Aligned_cols=73 Identities=29% Similarity=0.409 Sum_probs=61.3
Q ss_pred CCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEec-C-CCcccc--ccCHHHHHHHHHHhCCCeeC-CcEeEEEecC
Q 003964 191 EHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYT-A-CKHRGF--FYDVRAAEAALRALNRSDIN-GKRIKLEPSR 263 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~-t-gKsrGF--F~d~edAekAI~aLNG~~I~-Gr~IkVe~A~ 263 (783)
-+++..||+-|||.+++.+.|..+|.+|...++++. . .+.-.| |.+...|..|..+++|..|- ...++|.+++
T Consensus 143 ~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 143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRSGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFAK 220 (221)
T ss_pred CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCCCceeEEecchhhhhHHHhhhhccceeccCceEEecccC
Confidence 467889999999999999999999999999888882 2 233345 88888899999999999887 7788888774
No 127
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=93.77 E-value=0.14 Score=54.23 Aligned_cols=68 Identities=15% Similarity=0.170 Sum_probs=60.8
Q ss_pred CCCCceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHc
Q 003964 619 GEDTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFN 688 (783)
Q Consensus 619 g~D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fn 688 (783)
|+-+.|.|-+-+||=.-+.+.|++.++.+ |++--.-+-.|-.++...||+||.|.|.+.|.+..+.-|
T Consensus 8 ~DT~~TKifVggL~w~T~~~~l~~yFeqf--GeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~ 75 (247)
T KOG0149|consen 8 GDTTFTKIFVGGLAWETHKETLRRYFEQF--GEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN 75 (247)
T ss_pred CCceEEEEEEcCcccccchHHHHHHHHHh--CceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC
Confidence 34567999999999999999999999988 788778888999999999999999999999999987644
No 128
>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=93.55 E-value=0.12 Score=48.11 Aligned_cols=69 Identities=17% Similarity=0.296 Sum_probs=46.6
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-cCCCcccc---------------ccCHHHHHHHHHHhCCCeeCCc-E
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-TACKHRGF---------------FYDVRAAEAALRALNRSDINGK-R 256 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-~tgKsrGF---------------F~d~edAekAI~aLNG~~I~Gr-~ 256 (783)
.+.|.|-+.|.. ....+-+.|++||+|.+.. ..+...|+ |.+..+|++||+ -||..|.|. .
T Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~m 83 (100)
T PF05172_consen 6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLM 83 (100)
T ss_dssp CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEE
T ss_pred CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEE
Confidence 467888888887 4567889999999999876 11111211 999999999998 799999885 4
Q ss_pred eEEEecCC
Q 003964 257 IKLEPSRP 264 (783)
Q Consensus 257 IkVe~A~p 264 (783)
+-|.+.++
T Consensus 84 vGV~~~~~ 91 (100)
T PF05172_consen 84 VGVKPCDP 91 (100)
T ss_dssp EEEEE-HH
T ss_pred EEEEEcHH
Confidence 55777643
No 129
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=93.45 E-value=0.24 Score=57.03 Aligned_cols=95 Identities=17% Similarity=0.250 Sum_probs=70.4
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEe---cCCCccc--c--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCcc
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLY---TACKHRG--F--FYDVRAAEAALRALNRSDINGKRIKLEPSRPGGA 267 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~---~tgKsrG--F--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~~ 267 (783)
.-|=++.|||++|++||.++|+.++ |+.+. .++|..| | |.+.+++++|++ .+...+..|-|.|-.+.+...
T Consensus 11 ~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~~~e~ 88 (510)
T KOG4211|consen 11 FEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAGGAEA 88 (510)
T ss_pred eEEEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccCCccc
Confidence 4566889999999999999999997 55554 5577776 4 999999999998 677777788888876643321
Q ss_pred c---------------cccccccccccCHHHHhhhhccC
Q 003964 268 R---------------RNLMQQLNQELEQDEARGFRHQV 291 (783)
Q Consensus 268 r---------------r~~vqqlsq~~~qde~~~~fsq~ 291 (783)
. ...+..++-..+++++..+|+-+
T Consensus 89 d~~~~~~g~~s~~~d~vVRLRGLPfscte~dI~~FFaGL 127 (510)
T KOG4211|consen 89 DWVMRPGGPNSSANDGVVRLRGLPFSCTEEDIVEFFAGL 127 (510)
T ss_pred cccccCCCCCCCCCCceEEecCCCccCcHHHHHHHhcCC
Confidence 1 11234566667788888887643
No 130
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=93.30 E-value=0.13 Score=42.33 Aligned_cols=49 Identities=20% Similarity=0.375 Sum_probs=38.6
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEecC-CCcccc--ccCHHHHHHHH
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLYTA-CKHRGF--FYDVRAAEAAL 244 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~t-gKsrGF--F~d~edAekAI 244 (783)
+.|-|.+.+.+.. +++...|.+||+|.++..+ ..+..| |.+..+|++|+
T Consensus 2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVPESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcCCCCcEEEEEECCHHHHHhhC
Confidence 5677888887765 4556699999999999854 455666 99999999985
No 131
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=93.23 E-value=0.18 Score=55.83 Aligned_cols=67 Identities=16% Similarity=0.264 Sum_probs=51.6
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCC--CEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEE
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYG--DIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLE 260 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG--~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe 260 (783)
.-.+|||||-|.+|++||.+....-| .|.+++ ..|.+||| ..+..+.++-++.|-.++|+|..-.|-
T Consensus 80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~ 157 (498)
T KOG4849|consen 80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVL 157 (498)
T ss_pred eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeee
Confidence 45699999999999999988777655 233333 67899999 556666677888899999999875554
No 132
>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=92.89 E-value=0.45 Score=44.21 Aligned_cols=72 Identities=22% Similarity=0.305 Sum_probs=57.4
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcC--CCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeC----CcEeEE
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQY--GDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDIN----GKRIKL 259 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqf--G~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~----Gr~IkV 259 (783)
+||-|+|||...+.++|.+++... |...-++ .++.+.|| |.+.+.|.+-.+.++|+... .|.+.|
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i 81 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI 81 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence 689999999999999999988764 4433333 45667787 99999999999999999875 577888
Q ss_pred EecCCCc
Q 003964 260 EPSRPGG 266 (783)
Q Consensus 260 e~A~pr~ 266 (783)
.+|+-.+
T Consensus 82 ~yAriQG 88 (97)
T PF04059_consen 82 SYARIQG 88 (97)
T ss_pred ehhHhhC
Confidence 8887544
No 133
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=92.82 E-value=0.21 Score=55.26 Aligned_cols=75 Identities=15% Similarity=0.311 Sum_probs=60.2
Q ss_pred CCCCEEEEecCCC----CCC-------HHHHHHHhhcCCCEEEEe-cCCCcccc----ccCHHHHHHHHHHhCCCeeCCc
Q 003964 192 HPSRTLFVRNINS----NVE-------DLELRSLFEQYGDIRTLY-TACKHRGF----FYDVRAAEAALRALNRSDINGK 255 (783)
Q Consensus 192 ~psrtLFVGNLp~----dvT-------EeeLrelFsqfG~I~~v~-~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr 255 (783)
...++|.+.|+=. ..+ +++|++-.++||.|+.|. -...+.|- |.+.++|..||+.|+|+.+.||
T Consensus 263 r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgR 342 (382)
T KOG1548|consen 263 RADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDGR 342 (382)
T ss_pred cCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecce
Confidence 4468899999832 233 356777899999999988 34556777 9999999999999999999999
Q ss_pred EeEEEecCCCc
Q 003964 256 RIKLEPSRPGG 266 (783)
Q Consensus 256 ~IkVe~A~pr~ 266 (783)
+|..++...+.
T Consensus 343 ql~A~i~DG~t 353 (382)
T KOG1548|consen 343 QLTASIWDGKT 353 (382)
T ss_pred EEEEEEeCCcc
Confidence 99988776543
No 134
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=92.76 E-value=0.32 Score=56.27 Aligned_cols=101 Identities=21% Similarity=0.398 Sum_probs=64.7
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-------cCCCccc---c----ccCHHHHHHHHHHhCCC----ee--
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-------TACKHRG---F----FYDVRAAEAALRALNRS----DI-- 252 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-------~tgKsrG---F----F~d~edAekAI~aLNG~----~I-- 252 (783)
-+++||||.||++++|++|...|.+||.+.--. ...-++| | |++.....+-|.++.-. .|
T Consensus 258 ~S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~~~~~~yf~v 337 (520)
T KOG0129|consen 258 YSRKVFVGGLPWDITEAQINASFGQFGSVKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSEGEGNYYFKV 337 (520)
T ss_pred cccceeecCCCccccHHHHHhhcccccceEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhhcccceEEEE
Confidence 368999999999999999999999999886322 1122355 5 99988877766655321 11
Q ss_pred -----CCcEeEEEecC------------C-CccccccccccccccCHHHHhhhhc-cCCC
Q 003964 253 -----NGKRIKLEPSR------------P-GGARRNLMQQLNQELEQDEARGFRH-QVGS 293 (783)
Q Consensus 253 -----~Gr~IkVe~A~------------p-r~~rr~~vqqlsq~~~qde~~~~fs-q~Gs 293 (783)
..+.+.|..-. + ...|..|+..+++-+...++..++. -||.
T Consensus 338 ss~~~k~k~VQIrPW~laDs~fv~d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGg 397 (520)
T KOG0129|consen 338 SSPTIKDKEVQIRPWVLADSDFVLDHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGG 397 (520)
T ss_pred ecCcccccceeEEeeEeccchhhhccCcccCccceEEecCCCCcchHHHHHHHHHHhcCc
Confidence 11212222111 0 0123447788888888888877776 4554
No 135
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=92.60 E-value=0.17 Score=57.38 Aligned_cols=63 Identities=25% Similarity=0.342 Sum_probs=49.9
Q ss_pred CCCCCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEec----------CCCcccc------------ccCHHHHHHHH
Q 003964 187 HPYGEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYT----------ACKHRGF------------FYDVRAAEAAL 244 (783)
Q Consensus 187 ~~~~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~----------tgKsrGF------------F~d~edAekAI 244 (783)
....+-++++|.+-|||.+-.-+.|.+||+.+|.|+.|++ .+..++| |+..+.|.+|.
T Consensus 224 ~~~eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~ 303 (484)
T KOG1855|consen 224 FDEEELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKAR 303 (484)
T ss_pred ccccccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHH
Confidence 3344457899999999999888999999999999999972 1222222 99999999999
Q ss_pred HHhCC
Q 003964 245 RALNR 249 (783)
Q Consensus 245 ~aLNG 249 (783)
+.|+.
T Consensus 304 e~~~~ 308 (484)
T KOG1855|consen 304 ELLNP 308 (484)
T ss_pred Hhhch
Confidence 87753
No 136
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=92.43 E-value=0.063 Score=65.10 Aligned_cols=101 Identities=17% Similarity=0.221 Sum_probs=74.5
Q ss_pred CCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe------cCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 192 HPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY------TACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 192 ~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~------~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
..++|||+|||+..+++.+|+..|..+|.|.+|. .++-.++| |.+.+.+-.|..++.+..|.--.+++.+..
T Consensus 370 ~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~ 449 (975)
T KOG0112|consen 370 RATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQ 449 (975)
T ss_pred hhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCcccccccc
Confidence 4478999999999999999999999999999997 23344566 888889999998899888875566666664
Q ss_pred C--CccccccccccccccCHHHHhhhhccCC
Q 003964 264 P--GGARRNLMQQLNQELEQDEARGFRHQVG 292 (783)
Q Consensus 264 p--r~~rr~~vqqlsq~~~qde~~~~fsq~G 292 (783)
+ .-.++..++++........+...|..+|
T Consensus 450 ~kst~ttr~~sgglg~w~p~~~l~r~fd~fG 480 (975)
T KOG0112|consen 450 PKSTPTTRLQSGGLGPWSPVSRLNREFDRFG 480 (975)
T ss_pred cccccceeeccCCCCCCChHHHHHHHhhccC
Confidence 3 2334445666655555555555555544
No 137
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=91.85 E-value=1.4 Score=52.85 Aligned_cols=67 Identities=19% Similarity=0.208 Sum_probs=54.8
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEE-Ee----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEe
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRT-LY----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEP 261 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~-v~----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~ 261 (783)
+-|-|.|+|++++-+|+.++|..|-.+.. |+ ..|+..|= |++.++|.+|...|+++.|..|.|+|.+
T Consensus 868 ~V~~~~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 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 46789999999999999999999954322 11 44555553 9999999999999999999999998865
No 138
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=91.70 E-value=0.13 Score=54.95 Aligned_cols=53 Identities=38% Similarity=0.525 Sum_probs=42.6
Q ss_pred HHHHHhh-cCCCEEEEecCCCcccc---------ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 210 ELRSLFE-QYGDIRTLYTACKHRGF---------FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 210 eLrelFs-qfG~I~~v~~tgKsrGF---------F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
+|...|+ +||+|++++ .+++.|. |...++|++|+..||+..+.|++|..++.-
T Consensus 84 d~f~E~~~kygEiee~~-Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~p 146 (260)
T KOG2202|consen 84 DVFTELEDKYGEIEELN-VCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSP 146 (260)
T ss_pred HHHHHHHHHhhhhhhhh-hhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecC
Confidence 3444444 899999974 3444554 999999999999999999999999998873
No 139
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=91.14 E-value=0.65 Score=49.70 Aligned_cols=72 Identities=15% Similarity=0.223 Sum_probs=57.8
Q ss_pred CCCc-eeEEeecCCCccCHHHHHHHHhhhCCCccceEEecccc-ccccceeEEEEeccChhHHHHHHHHHcCccccCC
Q 003964 620 EDTR-TTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDF-KNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKF 695 (783)
Q Consensus 620 ~D~R-TTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf-~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~ 695 (783)
.++| |+|+|.|+|..+++++|++++.++. ..--..+.| .++..+|-|=|-|...++|+..++.|||.....+
T Consensus 79 ~~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~----~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~ 152 (243)
T KOG0533|consen 79 NETRSTKVNVSNLPYGVIDADLKELFAEFG----ELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGR 152 (243)
T ss_pred cCCCcceeeeecCCcCcchHHHHHHHHHhc----cceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCc
Confidence 5677 9999999999999999999998873 111122222 2677789999999999999999999999776644
No 140
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=91.08 E-value=0.74 Score=45.07 Aligned_cols=78 Identities=13% Similarity=0.256 Sum_probs=69.4
Q ss_pred CceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEE
Q 003964 622 TRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVA 701 (783)
Q Consensus 622 ~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~ 701 (783)
.-+||-|-||.-..|.+.+-+++..- |.+--+-+=+|-.++.--|||||-|-+.++|+..++..+|.+.+ ++++
T Consensus 35 ~S~tvyVgNlSfyttEEqiyELFs~c--G~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLd----dr~i 108 (153)
T KOG0121|consen 35 KSCTVYVGNLSFYTTEEQIYELFSKC--GDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLD----DRPI 108 (153)
T ss_pred hcceEEEeeeeeeecHHHHHHHHHhc--cchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCccc----ccce
Confidence 34899999999999999998888665 77778888889888888999999999999999999999999988 7888
Q ss_pred EEEe
Q 003964 702 SLAY 705 (783)
Q Consensus 702 ~v~y 705 (783)
.|.|
T Consensus 109 r~D~ 112 (153)
T KOG0121|consen 109 RIDW 112 (153)
T ss_pred eeec
Confidence 8877
No 141
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=90.87 E-value=0.23 Score=56.19 Aligned_cols=74 Identities=24% Similarity=0.359 Sum_probs=55.4
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcC--CCEEEEecCCCcccc--ccCHHHHHHHHHHhCCC-eeCCcEeEEEecCCCcccc
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQY--GDIRTLYTACKHRGF--FYDVRAAEAALRALNRS-DINGKRIKLEPSRPGGARR 269 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqf--G~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~-~I~Gr~IkVe~A~pr~~rr 269 (783)
.+||++||.+.++.++|+.+|... +--..+ .......| +.+...|.+|++.++|+ ++.|+++.|+.+-++..|.
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~f-l~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkqrs 80 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQF-LVKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQRS 80 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcce-eeecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHHHHh
Confidence 479999999999999999999754 111111 11111223 78889999999999997 5889999999998876553
No 142
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=90.77 E-value=0.6 Score=46.39 Aligned_cols=72 Identities=29% Similarity=0.393 Sum_probs=48.3
Q ss_pred CCCCEEEEecCCC-----CCCH----HHHHHHhhcCCCEEEEecCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEE
Q 003964 192 HPSRTLFVRNINS-----NVED----LELRSLFEQYGDIRTLYTACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLE 260 (783)
Q Consensus 192 ~psrtLFVGNLp~-----dvTE----eeLrelFsqfG~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe 260 (783)
+|..||.|.=+.. ..-+ .+|-+.|.+||+|.-++..+. +=+ |.+-+.|.+|+. ++|.++.|+.|+|+
T Consensus 25 PpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~-~mwVTF~dg~sALaals-~dg~~v~g~~l~i~ 102 (146)
T PF08952_consen 25 PPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD-TMWVTFRDGQSALAALS-LDGIQVNGRTLKIR 102 (146)
T ss_dssp -TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT-CEEEEESSCHHHHHHHH-GCCSEETTEEEEEE
T ss_pred CCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC-eEEEEECccHHHHHHHc-cCCcEECCEEEEEE
Confidence 4456888876661 1223 377789999999988873221 112 999999999998 99999999999999
Q ss_pred ecCCC
Q 003964 261 PSRPG 265 (783)
Q Consensus 261 ~A~pr 265 (783)
...|.
T Consensus 103 LKtpd 107 (146)
T PF08952_consen 103 LKTPD 107 (146)
T ss_dssp E----
T ss_pred eCCcc
Confidence 87764
No 143
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=90.62 E-value=0.25 Score=51.97 Aligned_cols=80 Identities=18% Similarity=0.344 Sum_probs=68.1
Q ss_pred CceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEE
Q 003964 622 TRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVA 701 (783)
Q Consensus 622 ~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~ 701 (783)
.+.||.+--+-...|.+-|.+.+-.+ |.+-=+-+|+|+.+...+|||||-|.-.++|...++-+|+..+- .+++
T Consensus 9 ~KrtlYVGGladeVtekvLhaAFIPF--GDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~----Grti 82 (298)
T KOG0111|consen 9 QKRTLYVGGLADEVTEKVLHAAFIPF--GDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELF----GRTI 82 (298)
T ss_pred cceeEEeccchHHHHHHHHHhccccc--cchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhc----ceeE
Confidence 45678888888888888777766444 77778899999999999999999999999999999999988554 6899
Q ss_pred EEEeee
Q 003964 702 SLAYAR 707 (783)
Q Consensus 702 ~v~yAr 707 (783)
.|.||+
T Consensus 83 rVN~Ak 88 (298)
T KOG0111|consen 83 RVNLAK 88 (298)
T ss_pred EEeecC
Confidence 999987
No 144
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=90.39 E-value=0.2 Score=60.72 Aligned_cols=72 Identities=17% Similarity=0.199 Sum_probs=62.9
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSRPG 265 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr 265 (783)
..+|||.|+|+..|+++|+.+|+++|.+++++ ..||++|- |.+..+|.+++..++...+..+.+.|..+.|.
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp~ 815 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNPE 815 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCCc
Confidence 45799999999999999999999999999987 55777776 99999999999888888888888888887653
No 145
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=90.01 E-value=1.6 Score=41.39 Aligned_cols=75 Identities=21% Similarity=0.290 Sum_probs=57.3
Q ss_pred CCceeEEeecCCCccCHHHHHHHHhhhCCCccce-EEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCcc
Q 003964 621 DTRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDF-LYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEK 699 (783)
Q Consensus 621 D~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDF-lYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~K 699 (783)
++.--|-|||+|-|+|.+++-+++ |+|-= .-++|.- ++.-.|-|||=+.+..+|.+.++.++|.-.. ..
T Consensus 16 evnriLyirNLp~~ITseemydlF-----Gkyg~IrQIRiG~-~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~----~r 85 (124)
T KOG0114|consen 16 EVNRILYIRNLPFKITSEEMYDLF-----GKYGTIRQIRIGN-TKETRGTAFVVYEDIFDAKKACDHLSGYNVD----NR 85 (124)
T ss_pred hhheeEEEecCCccccHHHHHHHh-----hcccceEEEEecC-ccCcCceEEEEehHhhhHHHHHHHhcccccC----Cc
Confidence 444668999999999999999998 55542 3455553 5666899999999999999999999998554 33
Q ss_pred EEEEEe
Q 003964 700 VASLAY 705 (783)
Q Consensus 700 v~~v~y 705 (783)
-+.|-|
T Consensus 86 yl~vly 91 (124)
T KOG0114|consen 86 YLVVLY 91 (124)
T ss_pred eEEEEe
Confidence 444444
No 146
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=89.35 E-value=0.71 Score=53.53 Aligned_cols=56 Identities=25% Similarity=0.342 Sum_probs=46.0
Q ss_pred CCCCCEEEEecCCCCCCHHHHHHHhh-cCCCEEEEe-cC----CCcccc----ccCHHHHHHHHHH
Q 003964 191 EHPSRTLFVRNINSNVEDLELRSLFE-QYGDIRTLY-TA----CKHRGF----FYDVRAAEAALRA 246 (783)
Q Consensus 191 e~psrtLFVGNLp~dvTEeeLrelFs-qfG~I~~v~-~t----gKsrGF----F~d~edAekAI~a 246 (783)
-.+.+|||||.||.-++.+||-.+|+ -||.|..+- .| +-++|- |.+.++-.+||.+
T Consensus 367 lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 367 IDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred cCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 35689999999999999999999999 699998876 22 234444 9999999999874
No 147
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=89.33 E-value=1.3 Score=49.88 Aligned_cols=76 Identities=21% Similarity=0.298 Sum_probs=63.5
Q ss_pred CCCCCCCEEEEecCCCC-CCHHHHHHHhhcCCCEEEEe--cCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 189 YGEHPSRTLFVRNINSN-VEDLELRSLFEQYGDIRTLY--TACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 189 ~~e~psrtLFVGNLp~d-vTEeeLrelFsqfG~I~~v~--~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
.+..+++-+.|.+|... +.-+.|..+|-.||.|..|+ +|....+. +-|..+.++|+.-||+..+-|.+|.|.+++
T Consensus 282 ~g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~Sk 361 (494)
T KOG1456|consen 282 GGGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSK 361 (494)
T ss_pred CCCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecccceeEEEcCcHHHHHHHHHHhccCccccceEEEeecc
Confidence 34456788999999865 67789999999999999998 34433444 899999999999999999999999999886
Q ss_pred C
Q 003964 264 P 264 (783)
Q Consensus 264 p 264 (783)
-
T Consensus 362 Q 362 (494)
T KOG1456|consen 362 Q 362 (494)
T ss_pred c
Confidence 4
No 148
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=88.19 E-value=0.59 Score=54.69 Aligned_cols=67 Identities=18% Similarity=0.334 Sum_probs=50.7
Q ss_pred CEEEEecCCCCCC------HHHHHHHhhcCCCEEEEe----cCCCcccc----ccCHHHHHHHHHHhCCCeeC-CcEeEE
Q 003964 195 RTLFVRNINSNVE------DLELRSLFEQYGDIRTLY----TACKHRGF----FYDVRAAEAALRALNRSDIN-GKRIKL 259 (783)
Q Consensus 195 rtLFVGNLp~dvT------EeeLrelFsqfG~I~~v~----~tgKsrGF----F~d~edAekAI~aLNG~~I~-Gr~IkV 259 (783)
..|+|-|+|---. ..-|..+|+++|+|+.++ ..++.+|| |.+.++|+.|++.|||+.|+ .++..|
T Consensus 59 ~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v 138 (698)
T KOG2314|consen 59 SVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFV 138 (698)
T ss_pred eEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEEe
Confidence 3566666653211 234568999999999987 55778998 99999999999999999986 566666
Q ss_pred Ee
Q 003964 260 EP 261 (783)
Q Consensus 260 e~ 261 (783)
..
T Consensus 139 ~~ 140 (698)
T KOG2314|consen 139 RL 140 (698)
T ss_pred eh
Confidence 53
No 149
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=85.63 E-value=1.2 Score=48.59 Aligned_cols=55 Identities=24% Similarity=0.234 Sum_probs=44.1
Q ss_pred HHHHHHhhcCCCEEEEe---c-----CCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 209 LELRSLFEQYGDIRTLY---T-----ACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 209 eeLrelFsqfG~I~~v~---~-----tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
+++++-.++||.|..|. . ...-|=| |...++|.+|+-.|||..|.||.++..|-.
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 57788999999999886 1 1122334 999999999999999999999998877653
No 150
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=85.07 E-value=0.74 Score=53.77 Aligned_cols=88 Identities=17% Similarity=0.235 Sum_probs=68.8
Q ss_pred CceeEEeecCCCccCHHHHHHHHhhhCC-CccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccE
Q 003964 622 TRTTLMIKNIPNKYTSKMLLAAIDENHR-GTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKV 700 (783)
Q Consensus 622 ~RTTvMIRNIPNk~tq~~L~~~ide~~~-g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv 700 (783)
.--.+-|-+||+.+++..++++|++++. ..|.++ +|-.++-|.||||-+|+++......+...||.+.. .|.
T Consensus 288 ~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv---~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lg----d~~ 360 (500)
T KOG0120|consen 288 SPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLV---KDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLG----DKK 360 (500)
T ss_pred ccchhhhccCcCccCHHHHHHHHHhcccchhheee---cccccccccceeeeeeeCCcchhhhhcccchhhhc----Cce
Confidence 3344456699999999999999999842 445544 56666889999999999999999999999999887 677
Q ss_pred EEEEeeecccHHHHHH
Q 003964 701 ASLAYARIQGQAALVT 716 (783)
Q Consensus 701 ~~v~yAriQGk~ali~ 716 (783)
+.|..|-.+.+.+.+.
T Consensus 361 lvvq~A~~g~~~~~~~ 376 (500)
T KOG0120|consen 361 LVVQRAIVGASNANVN 376 (500)
T ss_pred eEeehhhccchhcccc
Confidence 7777776666554443
No 151
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=84.13 E-value=2.8 Score=41.86 Aligned_cols=72 Identities=21% Similarity=0.355 Sum_probs=57.6
Q ss_pred CCCCCEEEEecCCCCCC-HHHHH---HHhhcCCCEEEEecCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 191 EHPSRTLFVRNINSNVE-DLELR---SLFEQYGDIRTLYTACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 191 e~psrtLFVGNLp~dvT-EeeLr---elFsqfG~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
++|-.||.|+-|..++. .+||+ .-.+.||+|..|...|+.-.. |.|..+|-+|+.+++. ..-|..+.+.|-.
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsWqq 160 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGRQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSWQQ 160 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecCCceEEEEehhhHHHHHHHHhhcC-CCCCceEEeeccc
Confidence 56778999999887764 34555 456789999999877777666 9999999999999975 4568888888764
No 152
>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=82.84 E-value=1.8 Score=44.57 Aligned_cols=59 Identities=25% Similarity=0.311 Sum_probs=39.9
Q ss_pred CHHHHHHHhhcCCCEEEEecCCC-cccc--ccCHHHHHHHHHHhC--CCeeCCcEeEEEecCCC
Q 003964 207 EDLELRSLFEQYGDIRTLYTACK-HRGF--FYDVRAAEAALRALN--RSDINGKRIKLEPSRPG 265 (783)
Q Consensus 207 TEeeLrelFsqfG~I~~v~~tgK-srGF--F~d~edAekAI~aLN--G~~I~Gr~IkVe~A~pr 265 (783)
..+.|+++|..|+.+.....-.+ .|-. |.+.++|.+|...|+ +..+.|+.|+|-++.+.
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~ 71 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT 71 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred hHHHHHHHHHhcCCceEEEEcCCCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence 35889999999999888752111 1111 999999999999999 99999999999999654
No 153
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=81.80 E-value=0.57 Score=51.80 Aligned_cols=72 Identities=15% Similarity=0.274 Sum_probs=56.0
Q ss_pred CEEEEecCCCCCCHHHH---HHHhhcCCCEEEEecCCC------cccc------ccCHHHHHHHHHHhCCCeeCCcEeEE
Q 003964 195 RTLFVRNINSNVEDLEL---RSLFEQYGDIRTLYTACK------HRGF------FYDVRAAEAALRALNRSDINGKRIKL 259 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeL---relFsqfG~I~~v~~tgK------srGF------F~d~edAekAI~aLNG~~I~Gr~IkV 259 (783)
..+||-.|+..+.++++ .+.|.+||.|..|...+. ..++ |...++|..||...+|..++|+.++.
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka 157 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKA 157 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHH
Confidence 56888888877655544 379999999999983221 1222 99999999999999999999999888
Q ss_pred EecCCCc
Q 003964 260 EPSRPGG 266 (783)
Q Consensus 260 e~A~pr~ 266 (783)
.+...+-
T Consensus 158 ~~gttky 164 (327)
T KOG2068|consen 158 SLGTTKY 164 (327)
T ss_pred hhCCCcc
Confidence 8886653
No 154
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=81.23 E-value=3.5 Score=48.56 Aligned_cols=70 Identities=21% Similarity=0.354 Sum_probs=59.2
Q ss_pred eeEEeecCCCcc--CHHHHHHHHhhhC--CCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccC
Q 003964 624 TTLMIKNIPNKY--TSKMLLAAIDENH--RGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEK 694 (783)
Q Consensus 624 TTvMIRNIPNk~--tq~~L~~~ide~~--~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~ 694 (783)
+-|.|-|||--= -+.-|+.+|.+.+ .|+.-=||.|+|=+++ -+||+|+-+.++.+|...++.+||++..+
T Consensus 59 ~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldk 132 (698)
T KOG2314|consen 59 SVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDK 132 (698)
T ss_pred eEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccceecc
Confidence 789999999643 2556777776643 4788899999999998 68999999999999999999999999885
No 155
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=80.34 E-value=2.1 Score=50.53 Aligned_cols=75 Identities=21% Similarity=0.324 Sum_probs=60.8
Q ss_pred CCCCCCEEEEecCCCCCCHHHHHHHhhc-CCCEEEEe-cCCCcccc--ccCHHHHHHHHHHhCCCee---CCcEeEEEec
Q 003964 190 GEHPSRTLFVRNINSNVEDLELRSLFEQ-YGDIRTLY-TACKHRGF--FYDVRAAEAALRALNRSDI---NGKRIKLEPS 262 (783)
Q Consensus 190 ~e~psrtLFVGNLp~dvTEeeLrelFsq-fG~I~~v~-~tgKsrGF--F~d~edAekAI~aLNG~~I---~Gr~IkVe~A 262 (783)
....+.-|||.||-.-.|.-.|++++.+ .|.|++.. ..-|+..| |.+.++|.+.+.+|+|... +.|.|.|.|+
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDkIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~ 519 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDKIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFV 519 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHHHHHHhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeec
Confidence 3456788999999999999999999995 55566555 33467778 9999999999999999864 4788888887
Q ss_pred CC
Q 003964 263 RP 264 (783)
Q Consensus 263 ~p 264 (783)
.-
T Consensus 520 ~~ 521 (718)
T KOG2416|consen 520 RA 521 (718)
T ss_pred ch
Confidence 64
No 156
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=78.11 E-value=6.1 Score=34.08 Aligned_cols=51 Identities=22% Similarity=0.415 Sum_probs=38.8
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcC----CCEEEEe-cCCCcccc-ccCHHHHHHHHHHh
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQY----GDIRTLY-TACKHRGF-FYDVRAAEAALRAL 247 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqf----G~I~~v~-~tgKsrGF-F~d~edAekAI~aL 247 (783)
.+|+|.++. +++.++++.+|..| ++. .|. ..-.++-. |.+.+.|.+|+.+|
T Consensus 6 eavhirGvd-~lsT~dI~~y~~~y~~~~~~~-~IEWIdDtScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEGPF-RIEWIDDTSCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCC-CCCHHHHHHHHHHhcccCCCc-eEEEecCCcEEEEECCHHHHHHHHHcC
Confidence 589999995 68889999999999 532 233 33344444 99999999999875
No 157
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=76.55 E-value=3.2 Score=44.82 Aligned_cols=62 Identities=18% Similarity=0.300 Sum_probs=49.1
Q ss_pred cCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCcccc
Q 003964 630 NIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWE 693 (783)
Q Consensus 630 NIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~ 693 (783)
-+=|..+.+.|-..+..+ -.|.=--+--|-+|....||.||.|.++.++++....++|+--.
T Consensus 197 dlgNevnd~vl~raf~Kf--psf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVg 258 (290)
T KOG0226|consen 197 DLGNEVNDDVLARAFKKF--PSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVG 258 (290)
T ss_pred cccccccHHHHHHHHHhc--cchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccc
Confidence 467778888887777665 22223345678889999999999999999999999999998554
No 158
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=75.16 E-value=8.9 Score=38.12 Aligned_cols=82 Identities=15% Similarity=0.272 Sum_probs=71.5
Q ss_pred eEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEEEEE
Q 003964 625 TLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVASLA 704 (783)
Q Consensus 625 TvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~v~ 704 (783)
-|.+.+|-..-|.+++-+.+-++ |.+-=+-|-+|-+|+--.|||.|-+.+.+.|...+++.||..+= ...++|.
T Consensus 74 Ii~VtgvHeEatEedi~d~F~dy--GeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll----~q~v~VD 147 (170)
T KOG0130|consen 74 IIFVTGVHEEATEEDIHDKFADY--GEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELL----GQNVSVD 147 (170)
T ss_pred EEEEeccCcchhHHHHHHHHhhc--ccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhh----CCceeEE
Confidence 47788999999999988888776 78888999999999999999999999999999999999998554 4567899
Q ss_pred eeecccHH
Q 003964 705 YARIQGQA 712 (783)
Q Consensus 705 yAriQGk~ 712 (783)
||=+-|+.
T Consensus 148 w~Fv~gp~ 155 (170)
T KOG0130|consen 148 WCFVKGPE 155 (170)
T ss_pred EEEecCCc
Confidence 99888863
No 159
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=72.93 E-value=7.9 Score=46.07 Aligned_cols=76 Identities=18% Similarity=0.234 Sum_probs=63.1
Q ss_pred eeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEEEE
Q 003964 624 TTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVASL 703 (783)
Q Consensus 624 TTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~~v 703 (783)
..|.|+|+=.-||...|+.+|-..+..--+| =||.. ...|||-+.+.+.|..-..++||.+|...| -|.+.+
T Consensus 445 nvlhI~nLvRPFTlgQLkelL~rtgg~Vee~---WmDkI----KShCyV~yss~eEA~atr~AlhnV~WP~sN-PK~L~a 516 (718)
T KOG2416|consen 445 NVLHIDNLVRPFTLGQLKELLGRTGGNVEEF---WMDKI----KSHCYVSYSSVEEAAATREALHNVQWPPSN-PKHLIA 516 (718)
T ss_pred ceEeeecccccchHHHHHHHHhhccCchHHH---HHHHh----hcceeEecccHHHHHHHHHHHhccccCCCC-CceeEe
Confidence 4688899999999999999999887766666 34532 356899999999999999999999999554 588899
Q ss_pred Eeee
Q 003964 704 AYAR 707 (783)
Q Consensus 704 ~yAr 707 (783)
.|++
T Consensus 517 df~~ 520 (718)
T KOG2416|consen 517 DFVR 520 (718)
T ss_pred eecc
Confidence 9977
No 160
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=72.40 E-value=4 Score=48.09 Aligned_cols=77 Identities=19% Similarity=0.234 Sum_probs=56.1
Q ss_pred CCCCCCCCCCCCEEEEecCCCCCCHHHHHHHhhc--CCCEEEEecCCCcccc--ccCHHHHHHHHHHhCC--CeeCCcEe
Q 003964 184 AGEHPYGEHPSRTLFVRNINSNVEDLELRSLFEQ--YGDIRTLYTACKHRGF--FYDVRAAEAALRALNR--SDINGKRI 257 (783)
Q Consensus 184 ~ge~~~~e~psrtLFVGNLp~dvTEeeLrelFsq--fG~I~~v~~tgKsrGF--F~d~edAekAI~aLNG--~~I~Gr~I 257 (783)
.+|.....+..|.|.++-|+..+-.++++.||.- +-++.+|......--| |++..||+.|.+.|.. ++|.||+|
T Consensus 165 kgekVrp~~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~nWyITfesd~DAQqAykylreevk~fqgKpI 244 (684)
T KOG2591|consen 165 KGEKVRPNHKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDNWYITFESDTDAQQAYKYLREEVKTFQGKPI 244 (684)
T ss_pred CccccccCcceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCceEEEeecchhHHHHHHHHHHHHHhhcCcch
Confidence 3444445555677889999999999999999975 7788887632222233 9999999999988753 35777776
Q ss_pred EEE
Q 003964 258 KLE 260 (783)
Q Consensus 258 kVe 260 (783)
...
T Consensus 245 mAR 247 (684)
T KOG2591|consen 245 MAR 247 (684)
T ss_pred hhh
Confidence 543
No 161
>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=72.14 E-value=3.3 Score=36.08 Aligned_cols=65 Identities=23% Similarity=0.356 Sum_probs=34.7
Q ss_pred EEEEecCC--CCCCHHHHHHHhhcCCCEE-----EEecCCCcccc-ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 196 TLFVRNIN--SNVEDLELRSLFEQYGDIR-----TLYTACKHRGF-FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 196 tLFVGNLp--~dvTEeeLrelFsqfG~I~-----~v~~tgKsrGF-F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
+||| |+. ..++..+|..++..-+.|. .+.. .....| -...+.|+++++.|++..+.|++++|+.|
T Consensus 2 rl~i-n~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I-~~~~S~vev~~~~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 2 RLFI-NVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDI-FDNFSFVEVPEEVAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp EEEE-S-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE--SS-EEEEE-TT-HHHHHHHHTT--SSS----EEE-
T ss_pred EEEE-EcccccCCCHHHHHHHHHhccCCCHHhEEEEEE-eeeEEEEEECHHHHHHHHHHhcCCCCCCeeEEEEEC
Confidence 4555 343 3578888988888775544 3322 233344 44556799999999999999999999875
No 162
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=66.08 E-value=9.9 Score=43.89 Aligned_cols=62 Identities=15% Similarity=0.103 Sum_probs=44.9
Q ss_pred eeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHH
Q 003964 624 TTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAF 687 (783)
Q Consensus 624 TTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~f 687 (783)
+||-+||||-..|..+|.+++-.+..=+=+-+-++- .. ..+..||||-|.+...+...+++-
T Consensus 289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~-~~-~~~~~fgFV~f~~~~~~~~~i~As 350 (419)
T KOG0116|consen 289 LGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRS-PG-GKNPCFGFVEFENAAAVQNAIEAS 350 (419)
T ss_pred cceEeecCCCCCCHHHHHHHHhhcccccccceEEec-cC-CCcCceEEEEEeecchhhhhhhcC
Confidence 559999999999999999888777543333333332 12 333389999999998888877664
No 163
>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=65.60 E-value=4.9 Score=40.95 Aligned_cols=71 Identities=10% Similarity=0.083 Sum_probs=46.5
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhc-CCCE---EEEe---------cCCCcccc--ccCHHHHHHHHHHhCCCeeCC---
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQ-YGDI---RTLY---------TACKHRGF--FYDVRAAEAALRALNRSDING--- 254 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsq-fG~I---~~v~---------~tgKsrGF--F~d~edAekAI~aLNG~~I~G--- 254 (783)
...+|.|++||+.+||+++.+..+. ++.- ..+. ...-+|.| |.+.+++..-+..++|+.+..
T Consensus 6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg 85 (176)
T PF03467_consen 6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSKG 85 (176)
T ss_dssp ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TTS
T ss_pred cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCCC
Confidence 4579999999999999999997776 6655 2322 12234566 999999999999999987642
Q ss_pred --cEeEEEecC
Q 003964 255 --KRIKLEPSR 263 (783)
Q Consensus 255 --r~IkVe~A~ 263 (783)
.+-.|++|-
T Consensus 86 ~~~~~~VE~Ap 96 (176)
T PF03467_consen 86 NEYPAVVEFAP 96 (176)
T ss_dssp -EEEEEEEE-S
T ss_pred CCcceeEEEcc
Confidence 245677774
No 164
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=63.95 E-value=5.5 Score=48.97 Aligned_cols=67 Identities=24% Similarity=0.360 Sum_probs=55.7
Q ss_pred EEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc------ccCHHHHHHHHHHhCCCeeC--CcEeEEEecCCC
Q 003964 196 TLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF------FYDVRAAEAALRALNRSDIN--GKRIKLEPSRPG 265 (783)
Q Consensus 196 tLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF------F~d~edAekAI~aLNG~~I~--Gr~IkVe~A~pr 265 (783)
+.++-|..-..+..-|..+|++||.|.+++. -|++ |...+.|..|+++|+|+++- |-+.+|.+|+.-
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wt---lr~~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~ 374 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDYGSVASAWT---LRDLNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTL 374 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhhee---cccccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecccc
Confidence 5566777777888999999999999998762 1445 99999999999999999864 888999999754
No 165
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=63.34 E-value=13 Score=43.41 Aligned_cols=70 Identities=19% Similarity=0.278 Sum_probs=51.1
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEE-Ee----cCCCccc--c--ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRT-LY----TACKHRG--F--FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~-v~----~tgKsrG--F--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
+...|=++.||+.||++||.++|+---.|.. +. ..++++| | |++.+.|++|+. -+...|..|=|.|-.+.
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF~Ss 180 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVFRSS 180 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEeehhH
Confidence 3456888999999999999999997643333 11 3344444 4 999999999987 45566777778776654
No 166
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=63.32 E-value=9.4 Score=43.00 Aligned_cols=69 Identities=16% Similarity=0.104 Sum_probs=59.2
Q ss_pred ceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCcccc
Q 003964 623 RTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWE 693 (783)
Q Consensus 623 RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~ 693 (783)
-..|-+-.+-+-.|.++|--|+..+ |++--+=+--|++|+-.+-||||-|.+.+.+++.|-++.+.-..
T Consensus 239 eNVLFVCKLNPVTtDeDLeiIFSrF--G~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLID 307 (479)
T KOG0415|consen 239 ENVLFVCKLNPVTTDEDLEIIFSRF--GKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLID 307 (479)
T ss_pred cceEEEEecCCcccccchhhHHhhc--ccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeec
Confidence 3567777777778888888887666 88888888999999999999999999999999999999987665
No 167
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=63.16 E-value=8.2 Score=41.77 Aligned_cols=70 Identities=16% Similarity=0.185 Sum_probs=56.5
Q ss_pred ceeEEeecCCCccCHHHHHHHHhhhCCCccceEEecccccc--------ccceeE----EEEeccChhHHHHHHHHHcCc
Q 003964 623 RTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKN--------KCNVGY----AFINMVSPSHIISFYEAFNGK 690 (783)
Q Consensus 623 RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~--------~~N~GY----AFINf~~~~~~~~f~~~fng~ 690 (783)
.--|.|-|||++|+...|.+||..+ |..+.+||--.-.. +.|..+ +.|=|++...|...+..+||.
T Consensus 74 ~GVvylS~IPp~m~~~rlReil~~y--GeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~ 151 (278)
T KOG3152|consen 74 TGVVYLSNIPPYMDPVRLREILSQY--GEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNT 151 (278)
T ss_pred ceEEEeccCCCccCHHHHHHHHHhc--cccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCC
Confidence 3468899999999999999999854 99999999764322 444444 679999999999999999987
Q ss_pred cccC
Q 003964 691 KWEK 694 (783)
Q Consensus 691 ~w~~ 694 (783)
....
T Consensus 152 ~Igg 155 (278)
T KOG3152|consen 152 PIGG 155 (278)
T ss_pred ccCC
Confidence 6654
No 168
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=61.99 E-value=1.5 Score=53.52 Aligned_cols=59 Identities=24% Similarity=0.369 Sum_probs=48.6
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCC
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDING 254 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~G 254 (783)
.++||.||+..+.+.+|...|..+|.|..+. ..++-||+ |...+.|.+||...++. +.|
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~-~~g 735 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSC-FFG 735 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhh-hhh
Confidence 5799999999999999999999999888776 34666665 99999999999855544 445
No 169
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=61.28 E-value=10 Score=41.86 Aligned_cols=68 Identities=21% Similarity=0.217 Sum_probs=49.4
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc-----ccCHHHHHHHHHHhCCCeeCCcE-eEEEecCCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF-----FYDVRAAEAALRALNRSDINGKR-IKLEPSRPG 265 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF-----F~d~edAekAI~aLNG~~I~Gr~-IkVe~A~pr 265 (783)
...|-|-+.+..- -.-|-.+|++||+|++... . +.|- |..+-+|.+||. -||+.|+|-. |-|+.+..+
T Consensus 197 D~WVTVfGFppg~-~s~vL~~F~~cG~Vvkhv~-~-~ngNwMhirYssr~~A~KALs-kng~ii~g~vmiGVkpCtDk 270 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQ-VSIVLNLFSRCGEVVKHVT-P-SNGNWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKPCTDK 270 (350)
T ss_pred cceEEEeccCccc-hhHHHHHHHhhCeeeeeec-C-CCCceEEEEecchhHHHHhhh-hcCeeeccceEEeeeecCCH
Confidence 3456666776553 3567789999999998763 3 4553 999999999998 6899998754 455555443
No 170
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=61.04 E-value=1.1 Score=46.28 Aligned_cols=68 Identities=22% Similarity=0.251 Sum_probs=61.4
Q ss_pred eeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCcccc
Q 003964 624 TTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWE 693 (783)
Q Consensus 624 TTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~ 693 (783)
.=|.|-|||-.+|.-+|+.++.+. |..==+.|--|-+|+.+.||||.-+.+....+-.+.-|||-+.-
T Consensus 36 A~Iyiggl~~~LtEgDil~VFSqy--Ge~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~ 103 (219)
T KOG0126|consen 36 AYIYIGGLPYELTEGDILCVFSQY--GEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKIL 103 (219)
T ss_pred eEEEECCCcccccCCcEEEEeecc--CceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceec
Confidence 568899999999999999999777 77777889999999999999999999999999999999998765
No 171
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=60.48 E-value=15 Score=41.94 Aligned_cols=74 Identities=11% Similarity=0.186 Sum_probs=54.9
Q ss_pred CCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEE---Ee----cCCCccc--c--ccCHHHHHHHHHHhCCCeeCCcEeE
Q 003964 190 GEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRT---LY----TACKHRG--F--FYDVRAAEAALRALNRSDINGKRIK 258 (783)
Q Consensus 190 ~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~---v~----~tgKsrG--F--F~d~edAekAI~aLNG~~I~Gr~Ik 258 (783)
.......|=+++||+..+.+++-++|..|-.-.. |. ..|++-| | |.+.++|..|....+.+..+.|-|.
T Consensus 276 ~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiE 355 (508)
T KOG1365|consen 276 PTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIE 355 (508)
T ss_pred CCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEE
Confidence 3444567889999999999999999998864222 22 3455544 4 8888888888888887777788888
Q ss_pred EEecC
Q 003964 259 LEPSR 263 (783)
Q Consensus 259 Ve~A~ 263 (783)
|-.+.
T Consensus 356 vfp~S 360 (508)
T KOG1365|consen 356 VFPCS 360 (508)
T ss_pred Eeecc
Confidence 76654
No 172
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=60.29 E-value=11 Score=40.92 Aligned_cols=58 Identities=22% Similarity=0.312 Sum_probs=45.6
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEe----cCCCc--ccc--ccCHHHHHHHHHHhCCCee
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLY----TACKH--RGF--FYDVRAAEAALRALNRSDI 252 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~----~tgKs--rGF--F~d~edAekAI~aLNG~~I 252 (783)
..|||.||..-++.+.|.+-|++||+|.... ..++. .|+ |...-.|.+|++.+.-.-+
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~ 97 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGF 97 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCcc
Confidence 6799999999999999999999999987654 22332 344 8888899999988754333
No 173
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=59.41 E-value=22 Score=40.07 Aligned_cols=86 Identities=14% Similarity=0.095 Sum_probs=59.2
Q ss_pred CceeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEE
Q 003964 622 TRTTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVA 701 (783)
Q Consensus 622 ~RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~ 701 (783)
.-|||-|+++=+.++..+|.+.+-.+ |..-++=+=. ..|-|||+|++...|+..+.+--. |- +--...+
T Consensus 227 ~I~tLyIg~l~d~v~e~dIrdhFyqy--Geirsi~~~~------~~~CAFv~ftTR~aAE~Aae~~~n--~l-vI~G~Rl 295 (377)
T KOG0153|consen 227 SIKTLYIGGLNDEVLEQDIRDHFYQY--GEIRSIRILP------RKGCAFVTFTTREAAEKAAEKSFN--KL-VINGFRL 295 (377)
T ss_pred ceeEEEecccccchhHHHHHHHHhhc--CCeeeEEeec------ccccceeeehhhHHHHHHHHhhcc--ee-eecceEE
Confidence 45999999998899999888888766 6666653211 135799999999999998876544 22 1124566
Q ss_pred EEEeeec----ccHHHHHHHh
Q 003964 702 SLAYARI----QGQAALVTHF 718 (783)
Q Consensus 702 ~v~yAri----QGk~ali~hf 718 (783)
.|.|++- ||++.-++..
T Consensus 296 ~i~Wg~~~~~a~~g~n~~~~l 316 (377)
T KOG0153|consen 296 KIKWGRPKQAAQGGENEVEKL 316 (377)
T ss_pred EEEeCCCcccccCCccccccc
Confidence 7789874 4444444433
No 174
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=54.52 E-value=11 Score=41.27 Aligned_cols=101 Identities=20% Similarity=0.231 Sum_probs=69.5
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEe-----cCCCcccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRTLY-----TACKHRGF----FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~-----~tgKsrGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
..+++|||++.+++.+.+...+|.++|.+..+. ....++|+ |...+.+..|+.....+.+.++.+...+..
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~ 166 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNT 166 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCcccc
Confidence 367999999999999999999999999888776 33455665 999999999998554456666665555443
Q ss_pred CCccc--------------cc-cccccccccCHHHHhhhhccCCC
Q 003964 264 PGGAR--------------RN-LMQQLNQELEQDEARGFRHQVGS 293 (783)
Q Consensus 264 pr~~r--------------r~-~vqqlsq~~~qde~~~~fsq~Gs 293 (783)
.++.+ .. ++..+.-..+++++...|...+.
T Consensus 167 ~~~~~~~n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~ 211 (285)
T KOG4210|consen 167 RRGLRPKNKLSRLSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGE 211 (285)
T ss_pred cccccccchhcccccCccccceeecccccccchHHHhhhccCcCc
Confidence 33211 11 24455556677777755555553
No 175
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=53.98 E-value=15 Score=41.92 Aligned_cols=67 Identities=19% Similarity=0.319 Sum_probs=49.9
Q ss_pred CEEEEecCCCCCCHHHHHHHhhcCCCEEEEecC---C-------Ccccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 195 RTLFVRNINSNVEDLELRSLFEQYGDIRTLYTA---C-------KHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 195 rtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~t---g-------KsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
..|-|.||.+.++.++++.||.-.|+|.++..- . ..-.| |.|.+.+..|.. |-.+.+-++.|.|-..
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdraliv~p~ 86 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALIVRPY 86 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEEEEec
Confidence 378999999999999999999999999998711 1 11233 889888888876 5556666666655443
No 176
>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=51.69 E-value=52 Score=30.50 Aligned_cols=73 Identities=14% Similarity=0.227 Sum_probs=46.6
Q ss_pred ceeEEeecCCCccCHHHHHHHH---hhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCcc
Q 003964 623 RTTLMIKNIPNKYTSKMLLAAI---DENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEK 699 (783)
Q Consensus 623 RTTvMIRNIPNk~tq~~L~~~i---de~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~K 699 (783)
-|.|+|.|+|-..+...+..-| -+.|.|+.=.+- -|-|.|-|.+++.|.+..+.++|.-- | .-
T Consensus 2 ~s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~----------~~tAilrF~~~~~A~RA~KRmegEdV--f--G~ 67 (90)
T PF11608_consen 2 HSLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS----------GGTAILRFPNQEFAERAQKRMEGEDV--F--GN 67 (90)
T ss_dssp SEEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--S--S--SS
T ss_pred ccEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe----------CCEEEEEeCCHHHHHHHHHhhccccc--c--cc
Confidence 3789999999999998887655 467888875541 27899999999999999999998622 2 23
Q ss_pred EEEEEeeecc
Q 003964 700 VASLAYARIQ 709 (783)
Q Consensus 700 v~~v~yAriQ 709 (783)
.+.|.|...+
T Consensus 68 kI~v~~~~~~ 77 (90)
T PF11608_consen 68 KISVSFSPKN 77 (90)
T ss_dssp --EEESS--S
T ss_pred eEEEEEcCCc
Confidence 3467776544
No 177
>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=49.25 E-value=34 Score=29.87 Aligned_cols=52 Identities=21% Similarity=0.298 Sum_probs=41.5
Q ss_pred CCCHHHHHHHhhcCCCEEEEecCCCcccc---ccCHHHHHHHHHHhCCCeeCCcEeEE
Q 003964 205 NVEDLELRSLFEQYGDIRTLYTACKHRGF---FYDVRAAEAALRALNRSDINGKRIKL 259 (783)
Q Consensus 205 dvTEeeLrelFsqfG~I~~v~~tgKsrGF---F~d~edAekAI~aLNG~~I~Gr~IkV 259 (783)
.++-++++..+.+|+-. .|. ....|| |.+.++|+++.++.+|+.+.+-+|.+
T Consensus 11 ~~~v~d~K~~Lr~y~~~-~I~--~d~tGfYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRWD-RIR--DDRTGFYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCcc-eEE--ecCCEEEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 46678999999999843 333 234688 99999999999999999988777654
No 178
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=49.04 E-value=23 Score=42.76 Aligned_cols=70 Identities=23% Similarity=0.264 Sum_probs=58.7
Q ss_pred CCCCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEe
Q 003964 190 GEHPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF--FYDVRAAEAALRALNRSDINGKRIKLEP 261 (783)
Q Consensus 190 ~e~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~ 261 (783)
..++..++||+|+...+..+-++.+...+|-|..+... ..|| |.....+..|+..|.-..++|+.+.+..
T Consensus 36 ~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~--~fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~ 107 (668)
T KOG2253|consen 36 PLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD--KFGFCEFLKHIGDLRASRLLTELNIDDQKLIENV 107 (668)
T ss_pred CCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh--hhcccchhhHHHHHHHHHHhcccCCCcchhhccc
Confidence 34667899999999999999999999999999887622 2777 8888888999998888888888876655
No 179
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=48.17 E-value=29 Score=42.34 Aligned_cols=86 Identities=12% Similarity=0.216 Sum_probs=64.6
Q ss_pred cCCCCceeEEeecCCCccCHHHHHHHHhhhCC-CccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCC
Q 003964 618 SGEDTRTTLMIKNIPNKYTSKMLLAAIDENHR-GTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFN 696 (783)
Q Consensus 618 ~g~D~RTTvMIRNIPNk~tq~~L~~~ide~~~-g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~ 696 (783)
.|...-|.|.+-||+.+++.++|+..+-.+.. -..-.||-+.+-....-.=-+||-|-+..++.+|.+.++|.-..
T Consensus 169 dgDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~--- 245 (877)
T KOG0151|consen 169 DGDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVM--- 245 (877)
T ss_pred CCCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeee---
Confidence 34556788999999999999999998844421 23345666766665555566899999999999999999998766
Q ss_pred CccEEEEEeee
Q 003964 697 SEKVASLAYAR 707 (783)
Q Consensus 697 s~Kv~~v~yAr 707 (783)
+-...+.|++
T Consensus 246 -~~e~K~gWgk 255 (877)
T KOG0151|consen 246 -EYEMKLGWGK 255 (877)
T ss_pred -eeeeeecccc
Confidence 3345667764
No 180
>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=46.41 E-value=45 Score=31.26 Aligned_cols=78 Identities=12% Similarity=0.244 Sum_probs=41.0
Q ss_pred eeEEeecCCCccCHHHHHHHHhhhCCCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCc---cccCCCCccE
Q 003964 624 TTLMIKNIPNKYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGK---KWEKFNSEKV 700 (783)
Q Consensus 624 TTvMIRNIPNk~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~---~w~~~~s~Kv 700 (783)
+.|-|.+++...+.++|+++|.++ +.+.| |||..+.. -|||=|.+++.|..+++++.-. +.. .. -
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~--g~V~y----VD~~~G~~--~g~VRf~~~~~A~~a~~~~~~~~~~~~~-i~---~ 69 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQF--GEVAY----VDFSRGDT--EGYVRFKTPEAAQKALEKLKEANDGKLK-IK---G 69 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS----EEE----EE--TT-S--EEEEEESS---HHHHHHHHHHTTTS-B--TT---S
T ss_pred eEEEEecCCCCcCHHHHHHHHHhc--CCcce----EEecCCCC--EEEEEECCcchHHHHHHHHHhccCCceE-Ec---C
Confidence 357788999999999999999886 45555 46665554 5679999999998888876544 211 11 1
Q ss_pred EEEEeeecccHHH
Q 003964 701 ASLAYARIQGQAA 713 (783)
Q Consensus 701 ~~v~yAriQGk~a 713 (783)
..|.+--+.|.++
T Consensus 70 ~~~~~~vLeGeeE 82 (105)
T PF08777_consen 70 KEVTLEVLEGEEE 82 (105)
T ss_dssp SSEEEE---HHHH
T ss_pred ceEEEEECCCHHH
Confidence 1356666667654
No 181
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=40.36 E-value=19 Score=42.02 Aligned_cols=73 Identities=19% Similarity=0.215 Sum_probs=53.8
Q ss_pred CCCEEEEecCCCCC-CHHHHHHHhhcCCCEEEEecCCC-cccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCCc
Q 003964 193 PSRTLFVRNINSNV-EDLELRSLFEQYGDIRTLYTACK-HRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSRPGG 266 (783)
Q Consensus 193 psrtLFVGNLp~dv-TEeeLrelFsqfG~I~~v~~tgK-srGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr~ 266 (783)
..+.|-+.-.++.. +-.+|...|.+||+|..|...-. -.+. |.+..+|-+|.. ..+..|++|.|+|-|-.+..
T Consensus 371 dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnps~ 447 (526)
T KOG2135|consen 371 DHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSSLHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNPSP 447 (526)
T ss_pred ccchhhhhccCCCCchHhhhhhhhhhcCccccccccCchhhheeeeeccccccchhc-cccceecCceeEEEEecCCc
Confidence 34556566566554 45799999999999999873211 2343 888888866654 68889999999999998854
No 182
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=36.73 E-value=28 Score=37.26 Aligned_cols=129 Identities=18% Similarity=0.198 Sum_probs=74.6
Q ss_pred cCCCCCCCchhhhhccccCCCCCCCCCCCCcccc-ccccCCCCcccccCCccccccccccccccCCCCCCCcccCCCCCC
Q 003964 101 IGSLLPDDENDLLAGLVDDFDLRGLPSQLEDLED-DLFDSGGGMELEFEPHESLSIGVSKLNISDGIAGTGIAHYPISNG 179 (783)
Q Consensus 101 IGnLlpDddddllagv~d~~~~~~~~~~~dD~eD-DiF~sgGGmeLe~d~~esls~~~~~~s~~dg~~~nG~~~yg~~n~ 179 (783)
++|+.-..++|||..+|=+.|.|-..-.-++-|- ..|. -++++.+ ++. .-.+.+.+ |
T Consensus 14 v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa---~v~f~~E----~sv-~~a~~L~n-----g--------- 71 (267)
T KOG4454|consen 14 VQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFA---YVFFPNE----NSV-QLAGQLEN-----G--------- 71 (267)
T ss_pred HHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCcee---eeecccc----cch-hhhhhhcc-----c---------
Confidence 8999999999999999988876543322222222 2222 2333211 000 00011111 1
Q ss_pred CCCcCCCCCCCCCCCCEEEEec----CCCCCCHHHHHHHhhcCCCEEEEe----cCCCcccc----ccCHHHHHHHHHHh
Q 003964 180 VGTVAGEHPYGEHPSRTLFVRN----INSNVEDLELRSLFEQYGDIRTLY----TACKHRGF----FYDVRAAEAALRAL 247 (783)
Q Consensus 180 ~g~~~ge~~~~e~psrtLFVGN----Lp~dvTEeeLrelFsqfG~I~~v~----~tgKsrGF----F~d~edAekAI~aL 247 (783)
..-+.+...++++.|+ |...++++.+.+.|++-|.|..++ ..++++-| +....+.-.|+...
T Consensus 72 ------~~l~~~e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnrn~~~~~~qr~~~~P~~~~~y 145 (267)
T KOG4454|consen 72 ------DDLEEDEEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDNDGRNRNFGFVTYQRLCAVPFALDLY 145 (267)
T ss_pred ------chhccchhhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccccCCccCccchhhhhhhcCcHHhhhh
Confidence 1122334467899999 999999999999999999999988 33445544 33333333455555
Q ss_pred CCCeeCCcEe
Q 003964 248 NRSDINGKRI 257 (783)
Q Consensus 248 NG~~I~Gr~I 257 (783)
++....-+++
T Consensus 146 ~~l~~~~~~~ 155 (267)
T KOG4454|consen 146 QGLELFQKKV 155 (267)
T ss_pred cccCcCCCCc
Confidence 5555444443
No 183
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=34.67 E-value=79 Score=33.83 Aligned_cols=77 Identities=16% Similarity=0.235 Sum_probs=57.0
Q ss_pred eeEEeecCCCccCHHHHHHHHhhhC--CCccceEEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccEE
Q 003964 624 TTLMIKNIPNKYTSKMLLAAIDENH--RGTYDFLYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKVA 701 (783)
Q Consensus 624 TTvMIRNIPNk~tq~~L~~~ide~~--~g~YDFlYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv~ 701 (783)
+.|.|.|+=--.|-+. +++++ -|...-+=+|.|.-++...|||||-|.+...++.-|+ ++|.... ....
T Consensus 102 ~sv~v~nvd~~~t~~~----~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~----~~~i 172 (231)
T KOG4209|consen 102 PSVWVGNVDFLVTLTK----IELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIP----GPAI 172 (231)
T ss_pred ceEEEeccccccccch----hhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccc----cccc
Confidence 6677777755555444 33333 2566666788887777789999999999999999999 9988766 5566
Q ss_pred EEEeeecc
Q 003964 702 SLAYARIQ 709 (783)
Q Consensus 702 ~v~yAriQ 709 (783)
.|+|.|+.
T Consensus 173 ~vt~~r~~ 180 (231)
T KOG4209|consen 173 EVTLKRTN 180 (231)
T ss_pred eeeeeeee
Confidence 77887766
No 184
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=33.38 E-value=31 Score=42.11 Aligned_cols=71 Identities=11% Similarity=0.091 Sum_probs=55.3
Q ss_pred CCCEEEEecCCCCCCHHHHHHHhhcCCCEEE-Ee----cCC--Ccccc--ccCHHHHHHHHHHhCCCeeCCcEeEEEecC
Q 003964 193 PSRTLFVRNINSNVEDLELRSLFEQYGDIRT-LY----TAC--KHRGF--FYDVRAAEAALRALNRSDINGKRIKLEPSR 263 (783)
Q Consensus 193 psrtLFVGNLp~dvTEeeLrelFsqfG~I~~-v~----~tg--KsrGF--F~d~edAekAI~aLNG~~I~Gr~IkVe~A~ 263 (783)
-+..|||-.||..+++.++.+.|..--.|++ |. .++ ++.+| |...+++.+|...-....+.-|.|+|.-..
T Consensus 433 ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si~ 512 (944)
T KOG4307|consen 433 AGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSIA 512 (944)
T ss_pred ccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeechh
Confidence 4678999999999999999999998877777 54 223 34456 988888888887666666777889997543
No 185
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=30.62 E-value=54 Score=36.09 Aligned_cols=20 Identities=35% Similarity=0.635 Sum_probs=17.7
Q ss_pred CCHHHHHHHhhcCCCEEEEe
Q 003964 206 VEDLELRSLFEQYGDIRTLY 225 (783)
Q Consensus 206 vTEeeLrelFsqfG~I~~v~ 225 (783)
-+++-|+..|+.||+|+.|.
T Consensus 173 pse~rlr~a~eafg~ir~vd 192 (445)
T KOG2891|consen 173 PSEDRLRKAFEAFGEIRNVD 192 (445)
T ss_pred ChHHHHHHHHHHhccceecC
Confidence 46789999999999999876
No 186
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.83 E-value=80 Score=36.45 Aligned_cols=51 Identities=22% Similarity=0.294 Sum_probs=38.0
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCC----EEEEecCCCccccccCHHHHHHHHH
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGD----IRTLYTACKHRGFFYDVRAAEAALR 245 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~----I~~v~~tgKsrGFF~d~edAekAI~ 245 (783)
..-|=|.++|.....+||-..|+.|+. |+-|.. ..-.|.|....-|..|+-
T Consensus 391 pHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDd-thalaVFss~~~AaeaLt 445 (528)
T KOG4483|consen 391 PHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDD-THALAVFSSVNRAAEALT 445 (528)
T ss_pred cceeEeccCchhhccHHHHHHHHHhhcCCceeEEeec-ceeEEeecchHHHHHHhh
Confidence 356789999999999999999999973 444432 122344999999999986
No 187
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=24.64 E-value=92 Score=35.84 Aligned_cols=82 Identities=12% Similarity=0.177 Sum_probs=60.5
Q ss_pred ceeEEeecCCCccCHHHHHHHHhhhCCCccce--EEeccccccccceeEEEEeccChhHHHHHHHHHcCccccCCCCccE
Q 003964 623 RTTLMIKNIPNKYTSKMLLAAIDENHRGTYDF--LYLPIDFKNKCNVGYAFINMVSPSHIISFYEAFNGKKWEKFNSEKV 700 (783)
Q Consensus 623 RTTvMIRNIPNk~tq~~L~~~ide~~~g~YDF--lYLPiDf~~~~N~GYAFINf~~~~~~~~f~~~fng~~w~~~~s~Kv 700 (783)
|--|.||-+|-.-|.+++++.|.++.. ..+| +-+-++- .+.--|=|||-|++.+++...+++.+.+.-+ ...
T Consensus 280 kdcvRLRGLPy~AtvEdIL~FlgdFa~-~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk----~RY 353 (508)
T KOG1365|consen 280 KDCVRLRGLPYEATVEDILDFLGDFAT-DIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMK----SRY 353 (508)
T ss_pred CCeeEecCCChhhhHHHHHHHHHHHhh-hcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcc----cce
Confidence 457889999999999999999988632 3445 4444432 4556799999999999999998888877542 456
Q ss_pred EEEEeeeccc
Q 003964 701 ASLAYARIQG 710 (783)
Q Consensus 701 ~~v~yAriQG 710 (783)
|+|--+..--
T Consensus 354 iEvfp~S~ee 363 (508)
T KOG1365|consen 354 IEVFPCSVEE 363 (508)
T ss_pred EEEeeccHHH
Confidence 6766555433
No 188
>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=24.27 E-value=1.6e+02 Score=27.22 Aligned_cols=51 Identities=14% Similarity=0.312 Sum_probs=34.4
Q ss_pred EEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCcccc--ccCHHHHHHHHHHhC
Q 003964 196 TLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKHRGF--FYDVRAAEAALRALN 248 (783)
Q Consensus 196 tLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKsrGF--F~d~edAekAI~aLN 248 (783)
-.||. .|.+....||.++|+.||.|.--.... --+| ..+.+.|..|+..+.
T Consensus 11 VFhlt-FPkeWK~~DI~qlFspfG~I~VsWi~d-TSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 11 VFHLT-FPKEWKTSDIYQLFSPFGQIYVSWIND-TSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp EEEEE---TT--HHHHHHHCCCCCCEEEEEECT-TEEEEEECCCHHHHHHHHHHT
T ss_pred EEEEe-CchHhhhhhHHHHhccCCcEEEEEEcC-CcEEEEeecHHHHHHHHHHhc
Confidence 34555 999999999999999999986433222 2345 777788888888875
No 189
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=23.82 E-value=20 Score=41.04 Aligned_cols=71 Identities=23% Similarity=0.200 Sum_probs=50.6
Q ss_pred CCEEEEecCCCCCCHHHHHHHhhcCCCEEEEecCCCc----ccc-ccCHHHHHHHHHHhCCCeeCCcEeEEEecCCC
Q 003964 194 SRTLFVRNINSNVEDLELRSLFEQYGDIRTLYTACKH----RGF-FYDVRAAEAALRALNRSDINGKRIKLEPSRPG 265 (783)
Q Consensus 194 srtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~tgKs----rGF-F~d~edAekAI~aLNG~~I~Gr~IkVe~A~pr 265 (783)
.++++|++|...+...++-++|..+|+|....+.-+. |.. |........|++ ++|.++.-....+..-+|.
T Consensus 151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask~~s~~c~~sf~~qts~~halr-~~gre~k~qhsr~ai~kP~ 226 (479)
T KOG4676|consen 151 RRTREVQSLISAAILPESGESFERKGEVSYAHTASKSRSSSCSHSFRKQTSSKHALR-SHGRERKRQHSRRAIIKPH 226 (479)
T ss_pred HhhhhhhcchhhhcchhhhhhhhhcchhhhhhhhccCCCcchhhhHhhhhhHHHHHH-hcchhhhhhhhhhhhcCcc
Confidence 3889999999999999999999999999887632222 222 777777777877 5677766433334433443
No 190
>COG5105 MIH1 Mitotic inducer, protein phosphatase [Cell division and chromosome partitioning]
Probab=23.70 E-value=2e+02 Score=32.75 Aligned_cols=97 Identities=18% Similarity=0.256 Sum_probs=52.0
Q ss_pred ccCHHHHHHHHhhhCCCccceEEeccccccccceeEEE-----EeccChhHHHHHHHHHcCccccCCCCccEEEEEeeec
Q 003964 634 KYTSKMLLAAIDENHRGTYDFLYLPIDFKNKCNVGYAF-----INMVSPSHIISFYEAFNGKKWEKFNSEKVASLAYARI 708 (783)
Q Consensus 634 k~tq~~L~~~ide~~~g~YDFlYLPiDf~~~~N~GYAF-----INf~~~~~~~~f~~~fng~~w~~~~s~Kv~~v~yAri 708 (783)
+++++.|+.+|+-...-.|+= ..-|| |..-|-| ||=++...-.++...|-.+... ..--.|..+.+..+
T Consensus 243 RIs~etlk~vl~g~~~~~f~k-CiIID----CRFeYEY~GGHIinaVNi~s~~~l~~~F~hkplT-hp~aLifHCEfSsh 316 (427)
T COG5105 243 RISVETLKQVLEGMYNIDFLK-CIIID----CRFEYEYRGGHIINAVNISSTKKLGLLFRHKPLT-HPRALIFHCEFSSH 316 (427)
T ss_pred hcCHHHHHHHHhchhhhhhhc-eeEEe----ecceeeecCceeeeeeecchHHHHHHHHHhcccc-CceeEEEEeecccc
Confidence 578999999998654333331 22333 4444433 3333333333333344433322 12234556677777
Q ss_pred ccHHHHHHHhccCcccCCCCCccceEEecC
Q 003964 709 QGQAALVTHFQNSSLMNEDKRCRPIVFHSE 738 (783)
Q Consensus 709 QGk~ali~hf~nssvm~~~~~~rP~~F~~~ 738 (783)
.|.. |-.||||.--|.-...| |+||+++
T Consensus 317 RaP~-LA~HlRN~DR~~N~dhY-P~L~yPe 344 (427)
T COG5105 317 RAPR-LAQHLRNMDRMKNPDHY-PLLTYPE 344 (427)
T ss_pred cchh-HHHHHhhhhhhcCcccC-cccccce
Confidence 7765 89999998755433333 5555554
No 191
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=23.63 E-value=15 Score=42.31 Aligned_cols=71 Identities=21% Similarity=0.330 Sum_probs=59.3
Q ss_pred CCCCEEEEecCCCCCCHHHHHHHhhcCCCEEEEecC-CCc-ccc----ccCHHHHHHHHHHhCCCeeCCcEeEEEec
Q 003964 192 HPSRTLFVRNINSNVEDLELRSLFEQYGDIRTLYTA-CKH-RGF----FYDVRAAEAALRALNRSDINGKRIKLEPS 262 (783)
Q Consensus 192 ~psrtLFVGNLp~dvTEeeLrelFsqfG~I~~v~~t-gKs-rGF----F~d~edAekAI~aLNG~~I~Gr~IkVe~A 262 (783)
..++++-|.|++.-..++-|..|..+||.+..|..+ ..+ ... |...+.+..||..|+|..+....++|.|-
T Consensus 78 qrsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~Yi 154 (584)
T KOG2193|consen 78 QRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYI 154 (584)
T ss_pred HHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccC
Confidence 457889999999999999999999999999988621 111 122 99999999999999999999988888875
No 192
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=23.16 E-value=84 Score=34.36 Aligned_cols=53 Identities=19% Similarity=0.135 Sum_probs=44.4
Q ss_pred HHHHHHHHHHhCCCeeCCcEeEEEecCCCccccccccccccccCHHHHhhhhccCC
Q 003964 237 VRAAEAALRALNRSDINGKRIKLEPSRPGGARRNLMQQLNQELEQDEARGFRHQVG 292 (783)
Q Consensus 237 ~edAekAI~aLNG~~I~Gr~IkVe~A~pr~~rr~~vqqlsq~~~qde~~~~fsq~G 292 (783)
..-|+.|..+|++....|+.++|.||.- ...++..+.+....+.+...|..+|
T Consensus 4 rt~ae~ak~eLd~~~~~~~~lr~rfa~~---a~l~V~nl~~~~sndll~~~f~~fg 56 (275)
T KOG0115|consen 4 RTLAEIAKRELDGRFPKGRSLRVRFAMH---AELYVVNLMQGASNDLLEQAFRRFG 56 (275)
T ss_pred ccHHHHHHHhcCCCCCCCCceEEEeecc---ceEEEEecchhhhhHHHHHhhhhcC
Confidence 3468889999999999999999999986 2346788888888888888888877
Done!