Query 030227
Match_columns 181
No_of_seqs 160 out of 1979
Neff 9.0
Searched_HMMs 46136
Date Fri Mar 29 10:30:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030227.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030227hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01659 sex-lethal sex-letha 99.9 2.7E-26 5.9E-31 185.9 12.6 143 6-165 105-262 (346)
2 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.9 6.1E-25 1.3E-29 179.0 13.4 142 7-165 2-158 (352)
3 TIGR01645 half-pint poly-U bin 99.9 2E-24 4.2E-29 184.2 12.4 152 7-164 106-272 (612)
4 TIGR01628 PABP-1234 polyadenyl 99.9 1.7E-23 3.8E-28 180.2 13.0 141 10-165 2-156 (562)
5 TIGR01622 SF-CC1 splicing fact 99.9 2.1E-22 4.5E-27 169.4 13.8 153 6-164 87-254 (457)
6 KOG0145 RNA-binding protein EL 99.9 1.2E-22 2.6E-27 154.1 9.7 142 6-164 39-195 (360)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.9 1.3E-21 2.9E-26 159.3 14.4 158 7-165 88-338 (352)
8 KOG0131 Splicing factor 3b, su 99.9 7.8E-22 1.7E-26 142.3 9.3 148 4-167 5-168 (203)
9 KOG0144 RNA-binding protein CU 99.9 2.7E-22 5.8E-27 161.0 7.3 154 6-167 32-194 (510)
10 KOG0148 Apoptosis-promoting RN 99.9 1.1E-21 2.4E-26 149.3 8.6 150 8-164 62-226 (321)
11 TIGR01642 U2AF_lg U2 snRNP aux 99.8 3.9E-20 8.5E-25 157.5 15.7 159 6-165 293-491 (509)
12 PLN03134 glycine-rich RNA-bind 99.8 7.9E-20 1.7E-24 131.3 12.6 86 5-91 31-116 (144)
13 TIGR01628 PABP-1234 polyadenyl 99.8 1.8E-20 3.8E-25 161.6 10.0 158 6-165 176-353 (562)
14 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.8 8.9E-19 1.9E-23 148.4 15.2 155 6-167 273-465 (481)
15 TIGR01642 U2AF_lg U2 snRNP aux 99.8 7.2E-19 1.6E-23 149.8 12.0 152 6-165 173-364 (509)
16 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.8 1.5E-18 3.3E-23 147.0 13.3 145 7-166 1-162 (481)
17 TIGR01648 hnRNP-R-Q heterogene 99.8 1.9E-18 4.2E-23 147.4 12.3 131 6-160 56-204 (578)
18 KOG0123 Polyadenylate-binding 99.8 6.7E-19 1.5E-23 143.8 8.3 128 9-166 2-143 (369)
19 KOG0145 RNA-binding protein EL 99.8 9.6E-19 2.1E-23 132.9 8.5 158 7-165 126-347 (360)
20 TIGR01622 SF-CC1 splicing fact 99.8 1E-17 2.2E-22 141.1 15.5 79 8-87 186-264 (457)
21 KOG0124 Polypyrimidine tract-b 99.8 3.4E-19 7.3E-24 141.0 5.1 150 9-159 114-273 (544)
22 KOG0127 Nucleolar protein fibr 99.8 4E-18 8.7E-23 140.6 10.3 158 8-166 5-186 (678)
23 KOG0117 Heterogeneous nuclear 99.8 9E-18 2E-22 135.6 11.1 136 6-164 81-234 (506)
24 KOG0105 Alternative splicing f 99.8 6.3E-18 1.4E-22 122.6 9.2 155 7-165 5-177 (241)
25 KOG0109 RNA-binding protein LA 99.7 2.2E-17 4.7E-22 127.2 10.0 133 9-164 3-138 (346)
26 PF00076 RRM_1: RNA recognitio 99.7 4.2E-17 9E-22 102.5 9.6 70 11-82 1-70 (70)
27 KOG0149 Predicted RNA-binding 99.7 1.2E-17 2.5E-22 125.2 7.5 79 8-88 12-90 (247)
28 KOG0122 Translation initiation 99.7 3.6E-17 7.8E-22 123.2 10.1 85 4-89 185-269 (270)
29 KOG0121 Nuclear cap-binding pr 99.7 7.1E-17 1.5E-21 110.6 7.5 80 7-87 35-114 (153)
30 KOG4205 RNA-binding protein mu 99.7 8.5E-17 1.8E-21 127.8 6.9 146 7-164 5-169 (311)
31 TIGR01659 sex-lethal sex-letha 99.7 5.8E-16 1.2E-20 125.8 11.9 85 7-92 192-278 (346)
32 KOG0117 Heterogeneous nuclear 99.7 2.8E-16 6.1E-21 127.1 9.7 143 6-166 162-321 (506)
33 KOG0123 Polyadenylate-binding 99.7 4E-16 8.6E-21 127.5 10.8 150 11-164 79-234 (369)
34 TIGR01648 hnRNP-R-Q heterogene 99.7 4.4E-16 9.6E-21 133.0 11.2 141 6-164 136-295 (578)
35 PF14259 RRM_6: RNA recognitio 99.7 1.1E-15 2.5E-20 96.3 9.2 70 11-82 1-70 (70)
36 KOG0127 Nucleolar protein fibr 99.7 9.9E-16 2.2E-20 126.6 11.1 147 7-155 116-349 (678)
37 TIGR01645 half-pint poly-U bin 99.7 1.9E-15 4.2E-20 129.5 13.0 83 7-90 203-285 (612)
38 KOG0107 Alternative splicing f 99.6 6.9E-16 1.5E-20 111.0 8.3 80 6-91 8-87 (195)
39 PLN03120 nucleic acid binding 99.6 2.9E-15 6.2E-20 115.5 10.9 76 8-88 4-79 (260)
40 KOG0110 RNA-binding protein (R 99.6 1.7E-15 3.8E-20 128.3 10.5 138 10-155 517-671 (725)
41 KOG0111 Cyclophilin-type pepti 99.6 7.4E-16 1.6E-20 114.7 5.5 88 5-93 7-94 (298)
42 KOG0113 U1 small nuclear ribon 99.6 8E-15 1.7E-19 113.4 9.8 81 6-87 99-179 (335)
43 KOG0144 RNA-binding protein CU 99.6 2.5E-15 5.5E-20 121.2 6.2 86 7-93 123-210 (510)
44 PLN03213 repressor of silencin 99.6 1.2E-14 2.7E-19 119.2 9.7 79 6-89 8-88 (759)
45 smart00362 RRM_2 RNA recogniti 99.6 4E-14 8.7E-19 88.3 10.0 72 10-84 1-72 (72)
46 KOG0148 Apoptosis-promoting RN 99.6 2E-14 4.4E-19 109.9 9.6 79 4-89 160-238 (321)
47 KOG0125 Ataxin 2-binding prote 99.6 1.4E-14 3.1E-19 113.3 8.9 82 5-89 93-174 (376)
48 PLN03121 nucleic acid binding 99.6 4.5E-14 9.7E-19 107.4 11.1 78 6-88 3-80 (243)
49 KOG4207 Predicted splicing fac 99.5 1.4E-14 2.9E-19 107.0 7.0 83 8-91 13-95 (256)
50 KOG0108 mRNA cleavage and poly 99.5 2.5E-14 5.4E-19 118.3 9.2 83 9-92 19-101 (435)
51 KOG0147 Transcriptional coacti 99.5 1.9E-15 4.2E-20 124.9 2.5 154 6-164 177-346 (549)
52 KOG0146 RNA-binding protein ET 99.5 8.9E-15 1.9E-19 111.8 4.9 85 7-92 18-104 (371)
53 smart00360 RRM RNA recognition 99.5 1E-13 2.3E-18 86.0 9.0 71 13-84 1-71 (71)
54 COG0724 RNA-binding proteins ( 99.5 9.2E-14 2E-18 107.7 10.7 79 8-87 115-193 (306)
55 KOG0130 RNA-binding protein RB 99.5 3.1E-14 6.8E-19 98.5 6.0 82 7-89 71-152 (170)
56 cd00590 RRM RRM (RNA recogniti 99.5 6E-13 1.3E-17 83.3 10.5 74 10-85 1-74 (74)
57 KOG0126 Predicted RNA-binding 99.5 7.4E-15 1.6E-19 106.4 0.8 82 6-88 33-114 (219)
58 KOG0114 Predicted RNA-binding 99.5 7E-13 1.5E-17 87.8 9.0 81 6-90 16-96 (124)
59 KOG0146 RNA-binding protein ET 99.4 2.4E-13 5.1E-18 104.1 5.4 86 5-91 282-367 (371)
60 KOG4206 Spliceosomal protein s 99.4 7.7E-12 1.7E-16 93.7 10.9 81 6-90 7-91 (221)
61 smart00361 RRM_1 RNA recogniti 99.4 6E-12 1.3E-16 79.4 8.6 61 22-83 2-69 (70)
62 PF13893 RRM_5: RNA recognitio 99.4 8.7E-12 1.9E-16 75.2 8.5 56 25-86 1-56 (56)
63 KOG0131 Splicing factor 3b, su 99.4 2.6E-12 5.7E-17 93.2 7.0 88 4-92 92-180 (203)
64 KOG4212 RNA-binding protein hn 99.3 2.7E-11 5.9E-16 98.4 12.3 140 8-150 44-187 (608)
65 KOG0415 Predicted peptidyl pro 99.3 3.8E-12 8.2E-17 100.9 6.9 85 4-89 235-319 (479)
66 KOG0147 Transcriptional coacti 99.3 7.3E-12 1.6E-16 104.0 6.2 79 8-87 278-356 (549)
67 KOG4211 Splicing factor hnRNP- 99.3 7.4E-11 1.6E-15 97.0 11.7 136 8-153 10-158 (510)
68 KOG0109 RNA-binding protein LA 99.2 1.5E-11 3.2E-16 95.3 5.9 79 5-92 75-153 (346)
69 KOG0153 Predicted RNA-binding 99.2 2.2E-10 4.9E-15 90.6 10.0 75 8-88 228-302 (377)
70 KOG0120 Splicing factor U2AF, 99.1 1.5E-10 3.2E-15 96.9 8.0 160 6-166 287-482 (500)
71 KOG0124 Polypyrimidine tract-b 99.1 2.1E-10 4.5E-15 91.5 7.7 80 8-88 210-289 (544)
72 KOG0132 RNA polymerase II C-te 99.1 2.3E-10 5.1E-15 98.4 7.8 75 8-89 421-495 (894)
73 KOG4208 Nucleolar RNA-binding 99.1 6E-10 1.3E-14 82.5 8.4 83 6-89 47-130 (214)
74 KOG0151 Predicted splicing reg 99.1 7.1E-10 1.5E-14 94.7 9.4 82 6-88 172-256 (877)
75 KOG4661 Hsp27-ERE-TATA-binding 99.0 8.9E-10 1.9E-14 92.4 8.6 85 6-91 403-487 (940)
76 KOG4212 RNA-binding protein hn 99.0 7.1E-10 1.5E-14 90.3 7.4 74 6-85 534-607 (608)
77 KOG0110 RNA-binding protein (R 99.0 3.7E-10 8.1E-15 96.4 5.4 85 6-91 611-695 (725)
78 KOG0106 Alternative splicing f 99.0 1.1E-09 2.4E-14 82.7 6.9 71 9-88 2-72 (216)
79 KOG4205 RNA-binding protein mu 99.0 1.5E-09 3.2E-14 86.7 6.7 85 7-93 96-180 (311)
80 KOG4454 RNA binding protein (R 99.0 8.2E-10 1.8E-14 82.6 4.5 121 6-145 7-129 (267)
81 KOG0226 RNA-binding proteins [ 98.9 9.4E-10 2E-14 83.9 4.2 87 3-90 185-271 (290)
82 KOG0533 RRM motif-containing p 98.9 8E-09 1.7E-13 79.6 9.3 82 8-91 83-164 (243)
83 KOG1548 Transcription elongati 98.9 6.1E-09 1.3E-13 82.6 8.0 83 7-91 133-223 (382)
84 KOG1457 RNA binding protein (c 98.9 3.2E-08 7E-13 74.4 10.8 88 5-93 31-122 (284)
85 KOG4209 Splicing factor RNPS1, 98.8 5.6E-09 1.2E-13 80.4 5.6 82 6-89 99-180 (231)
86 KOG0116 RasGAP SH3 binding pro 98.7 3.7E-08 8.1E-13 81.6 7.7 80 7-88 287-366 (419)
87 KOG4660 Protein Mei2, essentia 98.7 2.2E-08 4.7E-13 83.8 4.1 71 6-82 73-143 (549)
88 PF04059 RRM_2: RNA recognitio 98.6 5.3E-07 1.2E-11 60.1 9.4 79 9-88 2-86 (97)
89 PF11608 Limkain-b1: Limkain b 98.4 1.8E-06 3.9E-11 55.4 7.6 69 9-88 3-76 (90)
90 KOG0120 Splicing factor U2AF, 98.4 8.4E-07 1.8E-11 74.7 6.6 150 7-164 174-357 (500)
91 KOG0129 Predicted RNA-binding 98.4 3.8E-06 8.3E-11 70.1 10.3 139 6-151 257-424 (520)
92 KOG1995 Conserved Zn-finger pr 98.4 5.8E-07 1.3E-11 71.8 4.8 84 7-91 65-156 (351)
93 KOG1190 Polypyrimidine tract-b 98.3 6.3E-06 1.4E-10 67.1 8.9 78 8-91 297-375 (492)
94 KOG0125 Ataxin 2-binding prote 98.1 1.2E-06 2.7E-11 69.3 1.8 58 107-165 92-163 (376)
95 KOG4207 Predicted splicing fac 98.1 2.3E-06 4.9E-11 63.9 2.3 47 121-167 34-84 (256)
96 KOG4210 Nuclear localization s 98.1 3.3E-06 7.1E-11 67.2 3.3 84 6-91 182-266 (285)
97 KOG4849 mRNA cleavage factor I 98.0 4.9E-06 1.1E-10 66.5 3.9 71 9-80 81-153 (498)
98 KOG4211 Splicing factor hnRNP- 98.0 1.8E-05 3.9E-10 65.8 7.2 78 7-87 102-180 (510)
99 KOG4206 Spliceosomal protein s 98.0 3.9E-05 8.5E-10 58.0 8.3 77 5-87 143-220 (221)
100 KOG1457 RNA binding protein (c 98.0 7.6E-06 1.6E-10 61.8 4.2 63 7-73 209-271 (284)
101 KOG0128 RNA-binding protein SA 97.9 1.5E-06 3.3E-11 76.1 -0.7 115 8-151 667-788 (881)
102 KOG0126 Predicted RNA-binding 97.8 6.1E-06 1.3E-10 60.4 1.4 44 121-164 56-103 (219)
103 PLN03134 glycine-rich RNA-bind 97.8 6.4E-06 1.4E-10 59.1 1.0 53 112-164 35-102 (144)
104 PF08777 RRM_3: RNA binding mo 97.8 8.1E-05 1.8E-09 50.5 6.1 58 8-71 1-58 (105)
105 KOG1365 RNA-binding protein Fu 97.8 5E-06 1.1E-10 67.2 -0.1 143 10-155 163-339 (508)
106 KOG4210 Nuclear localization s 97.7 9.4E-05 2E-09 58.9 5.8 140 7-152 87-239 (285)
107 KOG1190 Polypyrimidine tract-b 97.7 0.00014 3.1E-09 59.4 6.7 78 6-88 412-490 (492)
108 COG5175 MOT2 Transcriptional r 97.7 0.00015 3.4E-09 57.9 6.8 80 8-88 114-202 (480)
109 KOG0129 Predicted RNA-binding 97.7 0.00018 3.8E-09 60.4 7.3 64 6-69 368-432 (520)
110 KOG1456 Heterogeneous nuclear 97.6 0.00047 1E-08 55.9 8.9 81 5-91 284-365 (494)
111 KOG0149 Predicted RNA-binding 97.6 1.1E-05 2.5E-10 61.2 -0.3 40 112-151 13-65 (247)
112 KOG4307 RNA binding protein RB 97.6 0.00027 5.9E-09 61.3 7.4 78 6-85 864-943 (944)
113 KOG1456 Heterogeneous nuclear 97.6 0.00047 1E-08 55.9 8.2 82 5-91 117-201 (494)
114 KOG1365 RNA-binding protein Fu 97.6 0.00016 3.4E-09 58.8 5.6 78 8-87 280-360 (508)
115 PF14605 Nup35_RRM_2: Nup53/35 97.5 0.00039 8.5E-09 41.1 5.7 52 9-67 2-53 (53)
116 KOG0106 Alternative splicing f 97.5 7.9E-05 1.7E-09 56.6 3.1 71 7-86 98-168 (216)
117 PF08952 DUF1866: Domain of un 97.5 0.0013 2.7E-08 47.0 8.8 80 4-93 23-111 (146)
118 KOG2193 IGF-II mRNA-binding pr 97.5 6.1E-05 1.3E-09 61.8 2.1 78 9-93 2-80 (584)
119 KOG0105 Alternative splicing f 97.5 0.00063 1.4E-08 50.2 7.0 60 7-73 114-173 (241)
120 KOG1855 Predicted RNA-binding 97.4 0.00013 2.7E-09 60.0 3.2 68 6-73 229-309 (484)
121 KOG2314 Translation initiation 97.4 0.001 2.2E-08 56.6 8.6 76 8-85 58-140 (698)
122 KOG0112 Large RNA-binding prot 97.3 0.00013 2.8E-09 64.8 2.7 148 6-167 370-520 (975)
123 KOG0108 mRNA cleavage and poly 97.3 0.00011 2.5E-09 61.4 2.3 52 113-164 20-86 (435)
124 KOG0122 Translation initiation 97.3 6.6E-05 1.4E-09 57.5 0.5 53 112-164 190-257 (270)
125 KOG0111 Cyclophilin-type pepti 97.3 0.00027 5.8E-09 53.5 3.2 44 121-164 31-78 (298)
126 KOG3152 TBP-binding protein, a 97.2 0.00039 8.4E-09 53.6 3.7 72 8-80 74-157 (278)
127 KOG1548 Transcription elongati 97.2 0.0024 5.3E-08 51.3 8.2 78 7-89 264-352 (382)
128 KOG0112 Large RNA-binding prot 97.1 0.0011 2.3E-08 59.2 5.9 83 5-94 452-536 (975)
129 PF05172 Nup35_RRM: Nup53/35/4 97.1 0.0052 1.1E-07 41.2 7.6 77 7-86 5-89 (100)
130 PF00076 RRM_1: RNA recognitio 97.0 4.8E-05 1E-09 46.9 -2.2 45 121-165 19-66 (70)
131 KOG0113 U1 small nuclear ribon 97.0 0.00035 7.6E-09 55.0 1.5 45 121-165 122-170 (335)
132 KOG4676 Splicing factor, argin 96.9 0.0025 5.4E-08 52.1 5.8 74 9-84 8-84 (479)
133 smart00361 RRM_1 RNA recogniti 96.7 0.00033 7.1E-09 43.8 -0.2 44 122-165 14-64 (70)
134 KOG0128 RNA-binding protein SA 96.7 0.00067 1.5E-08 60.1 1.5 79 8-88 736-814 (881)
135 PF08675 RNA_bind: RNA binding 96.6 0.0082 1.8E-07 38.7 5.6 59 6-72 6-64 (87)
136 PF10309 DUF2414: Protein of u 96.6 0.022 4.8E-07 34.7 6.9 54 9-70 6-62 (62)
137 KOG0226 RNA-binding proteins [ 96.5 0.0012 2.7E-08 50.9 1.7 144 10-166 98-260 (290)
138 KOG0115 RNA-binding protein p5 96.5 0.0039 8.5E-08 48.2 4.0 64 9-73 32-95 (275)
139 PLN03213 repressor of silencin 96.4 0.00084 1.8E-08 56.4 0.2 42 121-165 31-77 (759)
140 KOG4208 Nucleolar RNA-binding 96.4 0.0013 2.7E-08 49.3 1.0 44 121-164 70-118 (214)
141 KOG2202 U2 snRNP splicing fact 96.4 0.0022 4.8E-08 49.5 2.3 55 31-87 92-146 (260)
142 PF03467 Smg4_UPF3: Smg-4/UPF3 96.3 0.012 2.6E-07 43.7 5.8 83 6-88 5-97 (176)
143 KOG1996 mRNA splicing factor [ 96.3 0.022 4.8E-07 45.1 7.2 64 23-87 301-365 (378)
144 PLN03121 nucleic acid binding 96.2 0.0017 3.7E-08 50.1 0.9 52 112-165 6-70 (243)
145 smart00360 RRM RNA recognition 96.1 0.0027 6E-08 38.2 1.2 44 121-164 17-64 (71)
146 KOG4307 RNA binding protein RB 96.0 0.0054 1.2E-07 53.6 3.1 81 5-87 431-512 (944)
147 PLN03120 nucleic acid binding 96.0 0.0026 5.7E-08 49.7 0.8 52 113-166 6-70 (260)
148 smart00362 RRM_2 RNA recogniti 95.9 0.004 8.7E-08 37.6 1.3 44 121-165 20-66 (72)
149 KOG2416 Acinus (induces apopto 95.8 0.01 2.2E-07 51.0 3.7 76 6-88 442-521 (718)
150 PF14259 RRM_6: RNA recognitio 95.7 0.0023 5E-08 39.5 -0.3 45 121-165 19-66 (70)
151 COG0724 RNA-binding proteins ( 95.2 0.0092 2E-07 45.7 1.3 54 112-165 116-184 (306)
152 KOG2068 MOT2 transcription fac 95.0 0.0086 1.9E-07 48.0 0.7 80 9-89 78-163 (327)
153 PF15023 DUF4523: Protein of u 95.0 0.23 5E-06 35.4 7.7 74 6-88 84-161 (166)
154 KOG2591 c-Mpl binding protein, 94.7 0.05 1.1E-06 46.6 4.4 73 6-85 173-248 (684)
155 PF13893 RRM_5: RNA recognitio 94.6 0.011 2.4E-07 34.9 0.4 41 121-165 5-48 (56)
156 cd00590 RRM RRM (RNA recogniti 94.5 0.016 3.5E-07 35.0 0.9 45 121-165 20-67 (74)
157 KOG0121 Nuclear cap-binding pr 94.2 0.019 4.2E-07 40.1 0.9 44 121-164 57-104 (153)
158 PF03880 DbpA: DbpA RNA bindin 94.2 0.52 1.1E-05 29.6 7.4 67 10-86 2-74 (74)
159 KOG0107 Alternative splicing f 93.8 0.032 6.9E-07 41.0 1.4 49 112-164 11-73 (195)
160 PF04847 Calcipressin: Calcipr 93.2 0.47 1E-05 35.4 6.8 61 22-89 9-71 (184)
161 PF07576 BRAP2: BRCA1-associat 92.7 1.6 3.5E-05 29.8 8.4 69 7-78 11-81 (110)
162 KOG0130 RNA-binding protein RB 92.3 0.038 8.3E-07 38.9 -0.1 44 121-164 93-140 (170)
163 KOG2253 U1 snRNP complex, subu 92.3 0.11 2.3E-06 45.4 2.6 71 5-85 37-107 (668)
164 KOG2135 Proteins containing th 92.0 0.12 2.7E-06 43.4 2.5 59 22-88 387-445 (526)
165 KOG4574 RNA-binding protein (c 91.6 0.19 4.1E-06 45.3 3.4 74 9-88 299-373 (1007)
166 KOG4209 Splicing factor RNPS1, 90.9 0.12 2.6E-06 40.0 1.4 48 120-167 121-171 (231)
167 KOG4285 Mitotic phosphoprotein 90.9 0.73 1.6E-05 36.9 5.6 65 14-87 203-268 (350)
168 KOG4660 Protein Mei2, essentia 90.3 0.57 1.2E-05 40.3 4.9 85 6-91 386-475 (549)
169 KOG0533 RRM motif-containing p 90.3 0.18 3.8E-06 39.3 1.8 53 112-164 84-150 (243)
170 KOG0804 Cytoplasmic Zn-finger 88.6 2.3 5.1E-05 35.9 7.1 69 7-78 73-142 (493)
171 KOG2314 Translation initiation 87.8 0.23 5E-06 42.8 0.9 44 121-164 85-131 (698)
172 KOG0114 Predicted RNA-binding 86.1 0.66 1.4E-05 31.3 2.2 54 112-167 19-86 (124)
173 KOG4483 Uncharacterized conser 84.3 3.2 7E-05 34.6 5.8 54 8-68 391-445 (528)
174 PF11767 SET_assoc: Histone ly 80.5 11 0.00024 23.2 6.9 55 19-83 11-65 (66)
175 KOG4676 Splicing factor, argin 80.3 0.23 4.9E-06 41.0 -2.1 60 9-73 152-211 (479)
176 KOG0415 Predicted peptidyl pro 77.3 0.95 2.1E-05 37.1 0.6 44 121-164 260-307 (479)
177 PF04059 RRM_2: RNA recognitio 77.2 1.3 2.8E-05 29.5 1.1 44 124-167 27-74 (97)
178 PF07530 PRE_C2HC: Associated 76.7 9.3 0.0002 23.6 4.8 62 23-88 2-64 (68)
179 smart00596 PRE_C2HC PRE_C2HC d 72.0 11 0.00024 23.4 4.2 62 23-88 2-64 (69)
180 KOG2318 Uncharacterized conser 69.6 39 0.00084 29.8 8.3 81 6-87 172-306 (650)
181 KOG4410 5-formyltetrahydrofola 68.8 7.7 0.00017 31.0 3.7 48 8-61 330-378 (396)
182 PF15513 DUF4651: Domain of un 64.1 23 0.0005 21.5 4.4 18 23-40 9-26 (62)
183 PF03468 XS: XS domain; Inter 59.6 28 0.00062 23.9 4.8 56 10-68 10-75 (116)
184 KOG0115 RNA-binding protein p5 56.9 8.1 0.00018 30.3 1.9 78 60-152 4-84 (275)
185 KOG4019 Calcineurin-mediated s 56.7 27 0.00058 26.1 4.5 76 9-91 11-92 (193)
186 PF02714 DUF221: Domain of unk 54.7 18 0.00039 29.1 3.7 33 53-88 1-33 (325)
187 KOG4454 RNA binding protein (R 54.7 14 0.0003 28.5 2.8 43 121-164 30-75 (267)
188 KOG0116 RasGAP SH3 binding pro 49.4 8.4 0.00018 32.6 1.1 44 112-155 289-346 (419)
189 KOG4008 rRNA processing protei 46.9 21 0.00045 27.8 2.7 34 5-38 37-70 (261)
190 PF10567 Nab6_mRNP_bdg: RNA-re 46.2 47 0.001 26.7 4.7 81 7-87 14-106 (309)
191 KOG2193 IGF-II mRNA-binding pr 45.3 0.85 1.8E-05 38.2 -5.2 76 8-88 80-156 (584)
192 PF03439 Spt5-NGN: Early trans 42.9 55 0.0012 20.8 4.0 35 34-73 33-67 (84)
193 PF15407 Spo7_2_N: Sporulation 42.0 11 0.00023 23.4 0.4 26 6-31 25-50 (67)
194 PF07292 NID: Nmi/IFP 35 domai 41.4 50 0.0011 21.5 3.5 34 53-86 1-34 (88)
195 KOG4661 Hsp27-ERE-TATA-binding 41.2 23 0.00049 31.3 2.4 44 121-164 426-473 (940)
196 KOG0153 Predicted RNA-binding 39.4 14 0.0003 30.3 0.8 48 112-164 229-290 (377)
197 KOG2891 Surface glycoprotein [ 31.6 87 0.0019 25.2 4.1 34 8-41 149-194 (445)
198 KOG0132 RNA polymerase II C-te 31.4 22 0.00047 32.4 0.8 39 121-164 442-483 (894)
199 PF11411 DNA_ligase_IV: DNA li 29.3 47 0.001 17.8 1.6 16 18-33 19-34 (36)
200 PF10281 Ish1: Putative stress 28.7 59 0.0013 17.3 2.0 16 19-34 3-18 (38)
201 PF14893 PNMA: PNMA 28.3 46 0.00099 27.4 2.1 26 6-31 16-41 (331)
202 KOG1295 Nonsense-mediated deca 28.0 94 0.002 25.9 3.9 73 8-80 7-82 (376)
203 KOG0156 Cytochrome P450 CYP2 s 27.2 1.5E+02 0.0031 25.8 5.1 64 7-81 31-97 (489)
204 KOG2295 C2H2 Zn-finger protein 25.7 7.1 0.00015 34.0 -3.0 68 6-73 229-296 (648)
205 PRK11558 putative ssRNA endonu 25.1 1.9E+02 0.004 19.3 4.2 49 7-59 26-75 (97)
206 COG0030 KsgA Dimethyladenosine 24.6 1.2E+02 0.0026 24.0 3.8 33 9-41 96-128 (259)
207 PHA01632 hypothetical protein 23.7 99 0.0021 18.3 2.4 21 11-31 19-39 (64)
208 PF00398 RrnaAD: Ribosomal RNA 23.3 90 0.0019 24.4 2.9 23 8-30 97-119 (262)
No 1
>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=99.94 E-value=2.7e-26 Score=185.92 Aligned_cols=143 Identities=22% Similarity=0.314 Sum_probs=123.7
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
...++|||+|||+++++++|+++|+.||+|++|+|++|+.+++++|||||+|.++++|+.||+.||+. .+.+++|+|.+
T Consensus 105 ~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~-~l~gr~i~V~~ 183 (346)
T TIGR01659 105 NSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGI-TVRNKRLKVSY 183 (346)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCC-ccCCceeeeec
Confidence 46789999999999999999999999999999999999999999999999999999999999999998 99999999999
Q ss_pred cCCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCCC-
Q 030227 86 SGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVTN- 151 (181)
Q Consensus 86 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~- 151 (181)
+.+..... ....+++.+|| |+++|+|..+.++.+ .++.++|||| +|.+.+
T Consensus 184 a~p~~~~~----------------~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~ 247 (346)
T TIGR01659 184 ARPGGESI----------------KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREE 247 (346)
T ss_pred cccccccc----------------ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHH
Confidence 86532211 11256667776 899999999999999 7999999999 887754
Q ss_pred chhh-hcccCccccc
Q 030227 152 YDYS-RRVFGATLDS 165 (181)
Q Consensus 152 ~~~a-~~~~g~~~~~ 165 (181)
++.| ++|||..+..
T Consensus 248 A~~Ai~~lng~~~~g 262 (346)
T TIGR01659 248 AQEAISALNNVIPEG 262 (346)
T ss_pred HHHHHHHhCCCccCC
Confidence 4555 8899998753
No 2
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.93 E-value=6.1e-25 Score=178.98 Aligned_cols=142 Identities=20% Similarity=0.316 Sum_probs=122.3
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
+.++|||+|||.++++++|+++|+.||+|.+|+|++++.+|+++|||||+|.+.++|+.||..||+. .+.|+.|+|.++
T Consensus 2 ~~~~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 80 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGL-RLQNKTIKVSYA 80 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccE-EECCeeEEEEee
Confidence 4789999999999999999999999999999999999999999999999999999999999999997 999999999998
Q ss_pred CCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCCCch
Q 030227 87 GQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVTNYD 153 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~~ 153 (181)
.+...... ...+.+.++| |.++|.+..+.++.+ .++.++|||| .|.+.+.+
T Consensus 81 ~~~~~~~~----------------~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A 144 (352)
T TIGR01661 81 RPSSDSIK----------------GANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEA 144 (352)
T ss_pred cccccccc----------------cceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHH
Confidence 65332111 1246666766 799999999999998 6889999999 88766544
Q ss_pred hh--hcccCccccc
Q 030227 154 YS--RRVFGATLDS 165 (181)
Q Consensus 154 ~a--~~~~g~~~~~ 165 (181)
.. ..|||..+..
T Consensus 145 ~~ai~~l~g~~~~g 158 (352)
T TIGR01661 145 DRAIKTLNGTTPSG 158 (352)
T ss_pred HHHHHHhCCCccCC
Confidence 44 8899988764
No 3
>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=99.92 E-value=2e-24 Score=184.25 Aligned_cols=152 Identities=20% Similarity=0.247 Sum_probs=122.9
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
..++|||||||+++++++|+++|..||.|.+|++++|+.+++++|||||+|.+.++|+.||+.|||. .++|+.|+|.++
T Consensus 106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~-~i~GR~IkV~rp 184 (612)
T TIGR01645 106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQ-MLGGRNIKVGRP 184 (612)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCe-EEecceeeeccc
Confidence 4679999999999999999999999999999999999999999999999999999999999999998 999999999865
Q ss_pred CCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCCC-c
Q 030227 87 GQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVTN-Y 152 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~-~ 152 (181)
............ ... .......+++.+|+ |+.||+|..++++.| .++.+||||| .|.+.+ +
T Consensus 185 ~~~p~a~~~~~~---~~~--~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A 259 (612)
T TIGR01645 185 SNMPQAQPIIDM---VQE--EAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQ 259 (612)
T ss_pred cccccccccccc---ccc--cccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHH
Confidence 432211110000 000 00111467888887 899999999999999 7889999999 776654 4
Q ss_pred hhh-hcccCcccc
Q 030227 153 DYS-RRVFGATLD 164 (181)
Q Consensus 153 ~~a-~~~~g~~~~ 164 (181)
..| ..+||..|+
T Consensus 260 ~kAI~amNg~elg 272 (612)
T TIGR01645 260 SEAIASMNLFDLG 272 (612)
T ss_pred HHHHHHhCCCeeC
Confidence 555 888888877
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=99.90 E-value=1.7e-23 Score=180.17 Aligned_cols=141 Identities=23% Similarity=0.383 Sum_probs=120.5
Q ss_pred eEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecCCC
Q 030227 10 NVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQD 89 (181)
Q Consensus 10 ~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~~~ 89 (181)
+|||||||.++||++|+++|++||.|.+|+|++|+.+++++|||||+|.+.++|+.||..||+. .+.|+.|+|.|+..+
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~-~i~gk~i~i~~s~~~ 80 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFK-RLGGKPIRIMWSQRD 80 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCC-EECCeeEEeeccccc
Confidence 7999999999999999999999999999999999989999999999999999999999999997 899999999998643
Q ss_pred CCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-eecCCC-chhh-
Q 030227 90 KNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HLNVTN-YDYS- 155 (181)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~-~~~a- 155 (181)
..... .....+++.+|+ |+.+|+|.+|+++.+.++.++|||| +|.+.+ ++.|
T Consensus 81 ~~~~~--------------~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai 146 (562)
T TIGR01628 81 PSLRR--------------SGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAI 146 (562)
T ss_pred ccccc--------------cCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHH
Confidence 22211 011256677777 8999999999999999999999999 886664 4445
Q ss_pred hcccCccccc
Q 030227 156 RRVFGATLDS 165 (181)
Q Consensus 156 ~~~~g~~~~~ 165 (181)
.++||..++.
T Consensus 147 ~~lng~~~~~ 156 (562)
T TIGR01628 147 QKVNGMLLND 156 (562)
T ss_pred HHhcccEecC
Confidence 8899988773
No 5
>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=99.89 E-value=2.1e-22 Score=169.43 Aligned_cols=153 Identities=20% Similarity=0.261 Sum_probs=123.8
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
.+.++|||+|||..+++++|+++|+.||.|..|.++.++.+++++|||||+|.+.++|+.||. |++. .+.|++|.|.+
T Consensus 87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~-~~~g~~i~v~~ 164 (457)
T TIGR01622 87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQ-MLLGRPIIVQS 164 (457)
T ss_pred cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCC-EECCeeeEEee
Confidence 457899999999999999999999999999999999999999999999999999999999998 8998 99999999998
Q ss_pred cCCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCCCc
Q 030227 86 SGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVTNY 152 (181)
Q Consensus 86 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~ 152 (181)
+............ ......+....+++.+|| |.++|.|..+.++.+ .++.++|||| .|.+.+.
T Consensus 165 ~~~~~~~~~~~~~----~~~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~ 240 (457)
T TIGR01622 165 SQAEKNRAAKAAT----HQPGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEE 240 (457)
T ss_pred cchhhhhhhhccc----ccCCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHH
Confidence 7543332211000 000011223578888888 799999999999999 7889999999 7766544
Q ss_pred -hhh-hcccCcccc
Q 030227 153 -DYS-RRVFGATLD 164 (181)
Q Consensus 153 -~~a-~~~~g~~~~ 164 (181)
..| ..|+|..|.
T Consensus 241 A~~A~~~l~g~~i~ 254 (457)
T TIGR01622 241 AKEALEVMNGFELA 254 (457)
T ss_pred HHHHHHhcCCcEEC
Confidence 444 789998876
No 6
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.88 E-value=1.2e-22 Score=154.06 Aligned_cols=142 Identities=20% Similarity=0.300 Sum_probs=123.1
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
...++|.|.-||...|+++|+.+|...|+|++|++++|+.+|.+.||+||.|-.+++|++|+..|||. .+..+.|+|++
T Consensus 39 ~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGL-rLQ~KTIKVSy 117 (360)
T KOG0145|consen 39 ESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGL-RLQNKTIKVSY 117 (360)
T ss_pred cccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcce-eeccceEEEEe
Confidence 34568999999999999999999999999999999999999999999999999999999999999996 99999999999
Q ss_pred cCCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCC-C
Q 030227 86 SGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVT-N 151 (181)
Q Consensus 86 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~-~ 151 (181)
+++...... ...+.+++|| |++||.|+..++-+| .+|.+||.|| .|+.+ +
T Consensus 118 ARPSs~~Ik----------------~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~E 181 (360)
T KOG0145|consen 118 ARPSSDSIK----------------DANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIE 181 (360)
T ss_pred ccCChhhhc----------------ccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhH
Confidence 977433321 1145666666 999999999999999 8999999999 88776 4
Q ss_pred chhh-hcccCcccc
Q 030227 152 YDYS-RRVFGATLD 164 (181)
Q Consensus 152 ~~~a-~~~~g~~~~ 164 (181)
+++| ..|||..--
T Consensus 182 Ae~AIk~lNG~~P~ 195 (360)
T KOG0145|consen 182 AEEAIKGLNGQKPS 195 (360)
T ss_pred HHHHHHhccCCCCC
Confidence 6667 888887543
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.88 E-value=1.3e-21 Score=159.33 Aligned_cols=158 Identities=19% Similarity=0.290 Sum_probs=122.3
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC--eEEEEE
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN--RTLRFA 84 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g--~~i~v~ 84 (181)
..++|||+|||..+++++|+++|+.||.|..+.++.+..++.++|||||+|.+.++|+.||+.||+. .+.| .+|.|.
T Consensus 88 ~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~-~~~g~~~~i~v~ 166 (352)
T TIGR01661 88 KGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGT-TPSGCTEPITVK 166 (352)
T ss_pred ccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCC-ccCCCceeEEEE
Confidence 4678999999999999999999999999999999998888899999999999999999999999998 7777 578888
Q ss_pred ecCCCCCCCCC----------C-CccC-C----------------------------------------------CCCCC
Q 030227 85 LSGQDKNTQNS----------S-MTTT-P----------------------------------------------LSSRK 106 (181)
Q Consensus 85 ~a~~~~~~~~~----------~-~~~~-~----------------------------------------------~~~~~ 106 (181)
++......... . .... + .....
T Consensus 167 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 246 (352)
T TIGR01661 167 FANNPSSSNSKGLLSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHAAQRASP 246 (352)
T ss_pred ECCCCCcCCchhcCchhhcccCcccCCCCccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccccccccCCC
Confidence 88643311000 0 0000 0 00000
Q ss_pred --------------CCCC-C---CccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCCC-chh
Q 030227 107 --------------SRSD-P---VPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVTN-YDY 154 (181)
Q Consensus 107 --------------~~~~-~---~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~-~~~ 154 (181)
..+. . ..+++.+|| |++||.|.++++++| .++.+||||| .|.+.+ +..
T Consensus 247 ~~~~~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~ 326 (352)
T TIGR01661 247 PATDGQTAGLAAGAQIAASDGAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAM 326 (352)
T ss_pred ccccccccccccCCCCCCCCCCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHH
Confidence 0000 0 248888888 799999999999999 6999999999 887754 555
Q ss_pred h-hcccCccccc
Q 030227 155 S-RRVFGATLDS 165 (181)
Q Consensus 155 a-~~~~g~~~~~ 165 (181)
| ..|||..|++
T Consensus 327 Ai~~lnG~~~~g 338 (352)
T TIGR01661 327 AILSLNGYTLGN 338 (352)
T ss_pred HHHHhCCCEECC
Confidence 5 8899999974
No 8
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.87 E-value=7.8e-22 Score=142.33 Aligned_cols=148 Identities=33% Similarity=0.527 Sum_probs=122.0
Q ss_pred CCCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEE
Q 030227 4 NSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 4 ~~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v 83 (181)
+.+...+||||||+..++++.|+++|-+.|+|..+++++|+.++...||||++|.++++|+-|++.||. +.+.|++|+|
T Consensus 5 ~rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~-VkLYgrpIrv 83 (203)
T KOG0131|consen 5 ERNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNM-VKLYGRPIRV 83 (203)
T ss_pred ccCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHH-HHhcCceeEE
Confidence 456789999999999999999999999999999999999999999999999999999999999999996 5999999999
Q ss_pred EecCCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCccee-cCCCCC-CCCCCCccee-eecC
Q 030227 84 ALSGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRIS-EPPPPG-VTHESNGYET-HLNV 149 (181)
Q Consensus 84 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~-~~~~~~-~~~~~kG~gf-~f~~ 149 (181)
..+..... +..+. ..+++.+|. |+.+|.+.. -.+.++ +||.++|||| .|.+
T Consensus 84 ~kas~~~~----nl~vg-----------anlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~s 148 (203)
T KOG0131|consen 84 NKASAHQK----NLDVG-----------ANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYAS 148 (203)
T ss_pred Eecccccc----ccccc-----------ccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechh
Confidence 99862111 11111 134444444 899999866 345566 8899999999 8888
Q ss_pred CCchhh--hcccCcccccCC
Q 030227 150 TNYDYS--RRVFGATLDSIS 167 (181)
Q Consensus 150 ~~~~~a--~~~~g~~~~~~~ 167 (181)
.++.+| ..+||..+.|.-
T Consensus 149 feasd~ai~s~ngq~l~nr~ 168 (203)
T KOG0131|consen 149 FEASDAAIGSMNGQYLCNRP 168 (203)
T ss_pred HHHHHHHHHHhccchhcCCc
Confidence 887777 888988887543
No 9
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.87 E-value=2.7e-22 Score=160.98 Aligned_cols=154 Identities=18% Similarity=0.239 Sum_probs=126.2
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC--eEEEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN--RTLRF 83 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g--~~i~v 83 (181)
.+.-++|||-+|..|+|.||+++|++||.|.+|-|++|+.++.++|||||.|.++++|.+|+..|+...++.| .+|.|
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 3455899999999999999999999999999999999999999999999999999999999999999878887 48999
Q ss_pred EecCCCCCCC--CCCCccCCCCCCCCCCCCCccccCCcc--CCCCCcceecCCCCCCCCCCCccee-eecCCCchhh--h
Q 030227 84 ALSGQDKNTQ--NSSMTTTPLSSRKSRSDPVPVPVNGME--ISHHSMRISEPPPPGVTHESNGYET-HLNVTNYDYS--R 156 (181)
Q Consensus 84 ~~a~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~--f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~~~~a--~ 156 (181)
.+++.++... ....++...+. ...-..+. |++||.|+.|+|.+|..+.+||+|| .|+..+++.+ .
T Consensus 112 k~Ad~E~er~~~e~KLFvg~lsK--------~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aik 183 (510)
T KOG0144|consen 112 KYADGERERIVEERKLFVGMLSK--------QCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIK 183 (510)
T ss_pred cccchhhhccccchhhhhhhccc--------cccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHH
Confidence 9998766654 21222222211 11111111 9999999999999999999999999 9999999988 9
Q ss_pred cccCcccccCC
Q 030227 157 RVFGATLDSIS 167 (181)
Q Consensus 157 ~~~g~~~~~~~ 167 (181)
.+||+.--..+
T Consensus 184 a~ng~~tmeGc 194 (510)
T KOG0144|consen 184 ALNGTQTMEGC 194 (510)
T ss_pred hhccceeeccC
Confidence 99997654443
No 10
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.86 E-value=1.1e-21 Score=149.31 Aligned_cols=150 Identities=22% Similarity=0.299 Sum_probs=119.5
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
...||||.|...++.++|++.|.+||+|.+++|++|..|++++||+||.|-+.++|+.||..|||. -|++|.||..||.
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGq-WlG~R~IRTNWAT 140 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQ-WLGRRTIRTNWAT 140 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCe-eeccceeeccccc
Confidence 346999999999999999999999999999999999999999999999999999999999999998 9999999999998
Q ss_pred CCCCCCCCCCccCC-CCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-eecCC-Cch
Q 030227 88 QDKNTQNSSMTTTP-LSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HLNVT-NYD 153 (181)
Q Consensus 88 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~-~~~ 153 (181)
.++....+....-. .-| ...|....+.+.+++ |+.||.|..+|+=.+ +||+| .|+.. .++
T Consensus 141 RKp~e~n~~~ltfdeV~N-Qssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~-----qGYaFVrF~tkEaAa 214 (321)
T KOG0148|consen 141 RKPSEMNGKPLTFDEVYN-QSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD-----QGYAFVRFETKEAAA 214 (321)
T ss_pred cCccccCCCCccHHHHhc-cCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc-----cceEEEEecchhhHH
Confidence 86633321110000 000 012222455555544 999999999998877 99999 66655 466
Q ss_pred hh-hcccCcccc
Q 030227 154 YS-RRVFGATLD 164 (181)
Q Consensus 154 ~a-~~~~g~~~~ 164 (181)
.| ..+||++++
T Consensus 215 hAIv~mNntei~ 226 (321)
T KOG0148|consen 215 HAIVQMNNTEIG 226 (321)
T ss_pred HHHHHhcCceeC
Confidence 77 999999888
No 11
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.85 E-value=3.9e-20 Score=157.52 Aligned_cols=159 Identities=21% Similarity=0.249 Sum_probs=117.3
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
...++|||+|||+.+++++|+++|+.||.|..+.+++++.+|.++|||||+|.+.+.|..||..|||. .+.|+.|.|.+
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~-~~~~~~l~v~~ 371 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGK-DTGDNKLHVQR 371 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCC-EECCeEEEEEE
Confidence 34679999999999999999999999999999999999889999999999999999999999999998 99999999999
Q ss_pred cCCCCCCCCCC--C---ccC---C-CCCCCCC--CCC-CccccCCcc---------------------CCCCCcceecCC
Q 030227 86 SGQDKNTQNSS--M---TTT---P-LSSRKSR--SDP-VPVPVNGME---------------------ISHHSMRISEPP 132 (181)
Q Consensus 86 a~~~~~~~~~~--~---~~~---~-~~~~~~~--~~~-~~~~~~~~~---------------------f~~~g~i~~~~~ 132 (181)
+.......... . ... . ....... ..+ ..+.+.++. |.+||.|..+.|
T Consensus 372 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i 451 (509)
T TIGR01642 372 ACVGANQATIDTSNGMAPVTLLAKALSQSILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVI 451 (509)
T ss_pred CccCCCCCCccccccccccccccccchhhhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEe
Confidence 86543322100 0 000 0 0000000 001 112222221 789999999999
Q ss_pred CCC----CCCCCCccee-eecCCCchh-h-hcccCccccc
Q 030227 133 PPG----VTHESNGYET-HLNVTNYDY-S-RRVFGATLDS 165 (181)
Q Consensus 133 ~~~----~~~~~kG~gf-~f~~~~~~~-a-~~~~g~~~~~ 165 (181)
|.+ .++.+.|++| .|.+.+.+. | ..|||..|+.
T Consensus 452 ~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~g 491 (509)
T TIGR01642 452 PRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFND 491 (509)
T ss_pred eccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECC
Confidence 875 3345678889 777765444 4 8999998874
No 12
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.83 E-value=7.9e-20 Score=131.27 Aligned_cols=86 Identities=28% Similarity=0.437 Sum_probs=80.3
Q ss_pred CCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
...+++|||+|||+++++++|+++|++||.|.++.++.++.+++++|||||+|.+.++|+.||+.||+. .|+|+.|+|.
T Consensus 31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~-~i~Gr~l~V~ 109 (144)
T PLN03134 31 RLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGK-ELNGRHIRVN 109 (144)
T ss_pred cCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCC-EECCEEEEEE
Confidence 355789999999999999999999999999999999999999999999999999999999999999998 9999999999
Q ss_pred ecCCCCC
Q 030227 85 LSGQDKN 91 (181)
Q Consensus 85 ~a~~~~~ 91 (181)
++.....
T Consensus 110 ~a~~~~~ 116 (144)
T PLN03134 110 PANDRPS 116 (144)
T ss_pred eCCcCCC
Confidence 9876433
No 13
>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=99.83 E-value=1.8e-20 Score=161.57 Aligned_cols=158 Identities=20% Similarity=0.287 Sum_probs=122.9
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeC----CeEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLY----NRTL 81 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~----g~~i 81 (181)
...++|||+|||.++++++|+++|+.||.|.++.++.+. ++.++|||||+|.+.++|..|++.|++. .+. |+.+
T Consensus 176 ~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~-~g~~~G~afV~F~~~e~A~~Av~~l~g~-~i~~~~~g~~l 253 (562)
T TIGR01628 176 KKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDG-SGRSRGFAFVNFEKHEDAAKAVEEMNGK-KIGLAKEGKKL 253 (562)
T ss_pred cCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECC-CCCcccEEEEEECCHHHHHHHHHHhCCc-Eecccccceee
Confidence 345789999999999999999999999999999999984 7899999999999999999999999998 998 9999
Q ss_pred EEEecCCCCCCCCC--CCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-ee
Q 030227 82 RFALSGQDKNTQNS--SMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HL 147 (181)
Q Consensus 82 ~v~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f 147 (181)
.|.++......... ..................+++.+++ |++||+|..+++..+.++.++|||| .|
T Consensus 254 ~v~~a~~k~er~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f 333 (562)
T TIGR01628 254 YVGRAQKRAEREAELRRKFEELQQERKMKAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCF 333 (562)
T ss_pred EeecccChhhhHHHHHhhHHhhhhhhhcccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEe
Confidence 99988654333100 0000000000001112456777777 8999999999999999999999999 88
Q ss_pred cCCC-chhh-hcccCccccc
Q 030227 148 NVTN-YDYS-RRVFGATLDS 165 (181)
Q Consensus 148 ~~~~-~~~a-~~~~g~~~~~ 165 (181)
.+.+ +..| .++||..++.
T Consensus 334 ~~~~~A~~A~~~~~g~~~~g 353 (562)
T TIGR01628 334 SNPEEANRAVTEMHGRMLGG 353 (562)
T ss_pred CCHHHHHHHHHHhcCCeeCC
Confidence 7754 4444 8899888873
No 14
>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=99.81 E-value=8.9e-19 Score=148.42 Aligned_cols=155 Identities=14% Similarity=0.175 Sum_probs=115.2
Q ss_pred CCCCeEEEcCCCC-cCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 6 NSGCNVYIGNLDE-KVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 6 ~~~~~l~V~nLp~-~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
+++++|||+||++ .+++++|+++|+.||.|..|+++++ .+|+|||+|.+.++|+.||..||+. .|.|+.|+|.
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~-----~~g~afV~f~~~~~A~~Ai~~lng~-~l~g~~l~v~ 346 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKN-----KKETALIEMADPYQAQLALTHLNGV-KLFGKPLRVC 346 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeC-----CCCEEEEEECCHHHHHHHHHHhCCC-EECCceEEEE
Confidence 4678999999998 6999999999999999999999886 3599999999999999999999998 9999999999
Q ss_pred ecCCCCCCCCCC-----------CccCCCCCCCCC----------CCCCccccCCcc-----------CCCCCc--ceec
Q 030227 85 LSGQDKNTQNSS-----------MTTTPLSSRKSR----------SDPVPVPVNGME-----------ISHHSM--RISE 130 (181)
Q Consensus 85 ~a~~~~~~~~~~-----------~~~~~~~~~~~~----------~~~~~~~~~~~~-----------f~~~g~--i~~~ 130 (181)
+++......... .+.......... +....+++.+|| |.++|. +..+
T Consensus 347 ~s~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~i 426 (481)
T TIGR01649 347 PSKQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQPPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKF 426 (481)
T ss_pred EcccccccCCCCCcCcCCCcccccccCCccccCCCcccccccccCCCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEE
Confidence 986542211100 000000000000 111467888988 788998 6667
Q ss_pred CCCCCCCCCCCccee-eecCC-Cchhh-hcccCcccccCC
Q 030227 131 PPPPGVTHESNGYET-HLNVT-NYDYS-RRVFGATLDSIS 167 (181)
Q Consensus 131 ~~~~~~~~~~kG~gf-~f~~~-~~~~a-~~~~g~~~~~~~ 167 (181)
++....++ .+|+|| +|.+. ++..| ..+||..|+...
T Consensus 427 k~~~~~~~-~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~~ 465 (481)
T TIGR01649 427 KFFPKDNE-RSKMGLLEWESVEDAVEALIALNHHQLNEPN 465 (481)
T ss_pred EEecCCCC-cceeEEEEcCCHHHHHHHHHHhcCCccCCCC
Confidence 66444333 689999 88774 55666 999999998654
No 15
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.79 E-value=7.2e-19 Score=149.80 Aligned_cols=152 Identities=16% Similarity=0.227 Sum_probs=110.2
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhc------------CCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCC
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQA------------GRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~------------G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~ 73 (181)
...++|||||||+.+|+++|+++|..+ +.|..+.+ ++.+|||||+|.+.++|..||. |||.
T Consensus 173 ~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~~~kg~afVeF~~~e~A~~Al~-l~g~ 245 (509)
T TIGR01642 173 RQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------NKEKNFAFLEFRTVEEATFAMA-LDSI 245 (509)
T ss_pred ccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------CCCCCEEEEEeCCHHHHhhhhc-CCCe
Confidence 457899999999999999999999975 23344443 3457999999999999999996 9997
Q ss_pred eeeCCeEEEEEecCCCCCCCCCC---CccCC------C---CCCC-CCCCCCccccCCcc-----------CCCCCccee
Q 030227 74 VTLYNRTLRFALSGQDKNTQNSS---MTTTP------L---SSRK-SRSDPVPVPVNGME-----------ISHHSMRIS 129 (181)
Q Consensus 74 ~~i~g~~i~v~~a~~~~~~~~~~---~~~~~------~---~~~~-~~~~~~~~~~~~~~-----------f~~~g~i~~ 129 (181)
.+.|+.|+|............. ....+ . .... .......+++.+|| |.+||.|..
T Consensus 246 -~~~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~ 324 (509)
T TIGR01642 246 -IYSNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLKA 324 (509)
T ss_pred -EeeCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeE
Confidence 9999999998654432111000 00000 0 0000 01112578889998 789999999
Q ss_pred cCCCCC-CCCCCCccee-eecCCCc-hhh-hcccCccccc
Q 030227 130 EPPPPG-VTHESNGYET-HLNVTNY-DYS-RRVFGATLDS 165 (181)
Q Consensus 130 ~~~~~~-~~~~~kG~gf-~f~~~~~-~~a-~~~~g~~~~~ 165 (181)
+.+..+ .+|.++|||| +|.+.+. +.| ..|+|..|..
T Consensus 325 ~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~ 364 (509)
T TIGR01642 325 FNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGD 364 (509)
T ss_pred EEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECC
Confidence 999998 8999999999 8876544 445 7899998873
No 16
>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=99.79 E-value=1.5e-18 Score=147.02 Aligned_cols=145 Identities=18% Similarity=0.122 Sum_probs=109.4
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHh--CCCeeeCCeEEEEE
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLF--SGIVTLYNRTLRFA 84 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l--~g~~~i~g~~i~v~ 84 (181)
|+++|||+|||+++++++|+++|++||.|.+|.++++ ++||||+|.+.++|+.|++.+ ++. .+.|+.|+|.
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~-~l~g~~l~v~ 73 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPI-YIRGQPAFFN 73 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCc-eEcCeEEEEE
Confidence 5789999999999999999999999999999999864 479999999999999999865 665 9999999999
Q ss_pred ecCCCCCCCCCCCccCCCCCCCCCCCC-CccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-eecCCC
Q 030227 85 LSGQDKNTQNSSMTTTPLSSRKSRSDP-VPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HLNVTN 151 (181)
Q Consensus 85 ~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~ 151 (181)
|+.........+.. .....+.. ..+.+.+|+ |+.||+|.++.+..+. .+|+|| +|.+.+
T Consensus 74 ~s~~~~~~~~~~~~-----~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~---~~~~afVef~~~~ 145 (481)
T TIGR01649 74 YSTSQEIKRDGNSD-----FDSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKN---NVFQALVEFESVN 145 (481)
T ss_pred ecCCcccccCCCCc-----ccCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecC---CceEEEEEECCHH
Confidence 99764322211100 00001111 345666665 8999999999886652 247899 887755
Q ss_pred c-hhh-hcccCcccccC
Q 030227 152 Y-DYS-RRVFGATLDSI 166 (181)
Q Consensus 152 ~-~~a-~~~~g~~~~~~ 166 (181)
. +.| ..|||..+.+.
T Consensus 146 ~A~~A~~~Lng~~i~~~ 162 (481)
T TIGR01649 146 SAQHAKAALNGADIYNG 162 (481)
T ss_pred HHHHHHHHhcCCcccCC
Confidence 4 445 88999998643
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=99.78 E-value=1.9e-18 Score=147.37 Aligned_cols=131 Identities=21% Similarity=0.369 Sum_probs=100.0
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeee-CCeEEEEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTL-YNRTLRFA 84 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i-~g~~i~v~ 84 (181)
..+++|||+|||++++|++|+++|++||.|.+++|++| .+++++|||||+|.+.++|+.||+.||+. .+ .++.|.|.
T Consensus 56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~-~i~~Gr~l~V~ 133 (578)
T TIGR01648 56 GRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNY-EIRPGRLLGVC 133 (578)
T ss_pred CCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCC-eecCCcccccc
Confidence 34689999999999999999999999999999999999 78999999999999999999999999997 66 47777776
Q ss_pred ecCCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCc-ce-ecCCCCC-CCCCCCccee-eecC
Q 030227 85 LSGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSM-RI-SEPPPPG-VTHESNGYET-HLNV 149 (181)
Q Consensus 85 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~-i~-~~~~~~~-~~~~~kG~gf-~f~~ 149 (181)
++... ..+++.+|| |+++++ +. .+..+.. +.++++|||| .|.+
T Consensus 134 ~S~~~----------------------~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s 191 (578)
T TIGR01648 134 ISVDN----------------------CRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYES 191 (578)
T ss_pred ccccC----------------------ceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCC
Confidence 65321 134555554 555543 22 2333333 5677999999 8876
Q ss_pred CCc-hhh-hcccC
Q 030227 150 TNY-DYS-RRVFG 160 (181)
Q Consensus 150 ~~~-~~a-~~~~g 160 (181)
++. +.| ++++.
T Consensus 192 ~edAa~AirkL~~ 204 (578)
T TIGR01648 192 HRAAAMARRKLMP 204 (578)
T ss_pred HHHHHHHHHHhhc
Confidence 643 444 55543
No 18
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.77 E-value=6.7e-19 Score=143.75 Aligned_cols=128 Identities=23% Similarity=0.377 Sum_probs=112.7
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecCC
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~~ 88 (181)
..|||| +++|+..|.++|+.+|++.++++++|. + +.|||||.|.++++|++||..||.. .+.|++|++.|+..
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~-~~~~~~~rim~s~r 74 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFD-VLKGKPIRIMWSQR 74 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCc-ccCCcEEEeehhcc
Confidence 468999 899999999999999999999999996 5 9999999999999999999999998 99999999999865
Q ss_pred CCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-eecCCCchhh-
Q 030227 89 DKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HLNVTNYDYS- 155 (181)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~~~~a- 155 (181)
+... +.+.+|+ |+.+|+|.+|++.++..| +||| | +|.+++.+..
T Consensus 75 d~~~---------------------~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g-~kg~-FV~f~~e~~a~~a 131 (369)
T KOG0123|consen 75 DPSL---------------------VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENG-SKGY-FVQFESEESAKKA 131 (369)
T ss_pred CCce---------------------eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCC-ceee-EEEeCCHHHHHHH
Confidence 4433 3444444 899999999999999777 9999 9 9988877666
Q ss_pred -hcccCcccccC
Q 030227 156 -RRVFGATLDSI 166 (181)
Q Consensus 156 -~~~~g~~~~~~ 166 (181)
..+||..+...
T Consensus 132 i~~~ng~ll~~k 143 (369)
T KOG0123|consen 132 IEKLNGMLLNGK 143 (369)
T ss_pred HHHhcCcccCCC
Confidence 99999988843
No 19
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.77 E-value=9.6e-19 Score=132.93 Aligned_cols=158 Identities=16% Similarity=0.231 Sum_probs=119.3
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCe--EEEEE
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR--TLRFA 84 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~--~i~v~ 84 (181)
...+|||++||...|..+|+.+|++||.|..-+|+.|..+|.++|.+||.|+...+|+.||+.|||. .-.|+ +|.|.
T Consensus 126 k~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~-~P~g~tepItVK 204 (360)
T KOG0145|consen 126 KDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQ-KPSGCTEPITVK 204 (360)
T ss_pred cccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCC-CCCCCCCCeEEE
Confidence 4678999999999999999999999999999999999999999999999999999999999999998 66665 79999
Q ss_pred ecCCCCCCCC-----------CCCccCCCCC-------------------C----------------CCCCCC-CccccC
Q 030227 85 LSGQDKNTQN-----------SSMTTTPLSS-------------------R----------------KSRSDP-VPVPVN 117 (181)
Q Consensus 85 ~a~~~~~~~~-----------~~~~~~~~~~-------------------~----------------~~~~~~-~~~~~~ 117 (181)
++........ ...+..+... . ...+.. +.+++-
T Consensus 205 FannPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~ciFvY 284 (360)
T KOG0145|consen 205 FANNPSQKTNQALLSQLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWCIFVY 284 (360)
T ss_pred ecCCcccccchhhhHHhhcCccccCCCcccchhhhhccccccchhhhhccCCCccccccceeeeeccCCCCCCeeEEEEE
Confidence 9875433220 0000000000 0 000000 333443
Q ss_pred Ccc-----------CCCCCcceecCCCCC-CCCCCCccee-ee-cCCCchhh-hcccCccccc
Q 030227 118 GME-----------ISHHSMRISEPPPPG-VTHESNGYET-HL-NVTNYDYS-RRVFGATLDS 165 (181)
Q Consensus 118 ~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f-~~~~~~~a-~~~~g~~~~~ 165 (181)
+|. |.+||-|..+++.+| .++++||||| .. +.++++-| +.|||..|..
T Consensus 285 NLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~ 347 (360)
T KOG0145|consen 285 NLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGD 347 (360)
T ss_pred ecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccc
Confidence 443 899999999999999 7899999999 44 44555666 9999998874
No 20
>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=99.77 E-value=1e-17 Score=141.09 Aligned_cols=79 Identities=29% Similarity=0.549 Sum_probs=76.1
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
.++|||+|||..+++++|+++|+.||.|..|.++.++.+|.++|||||+|.+.++|..|+..|||. .|.|+.|+|.++.
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~-~i~g~~i~v~~a~ 264 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGF-ELAGRPIKVGYAQ 264 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCc-EECCEEEEEEEcc
Confidence 689999999999999999999999999999999999888999999999999999999999999997 9999999999965
No 21
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.77 E-value=3.4e-19 Score=140.98 Aligned_cols=150 Identities=19% Similarity=0.254 Sum_probs=109.5
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecCC
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~~ 88 (181)
++||||.+.+...|+.|+..|..||+|+++.+.+|+.|++.+|||||+|+-++.|+-|++.||+. .++||.|+|.....
T Consensus 114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~-mlGGRNiKVgrPsN 192 (544)
T KOG0124|consen 114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQ-MLGGRNIKVGRPSN 192 (544)
T ss_pred HheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccc-cccCccccccCCCC
Confidence 68999999999999999999999999999999999999999999999999999999999999998 99999999986543
Q ss_pred CCCCCCCCCcc---CCCCCCCCCCCC-CccccCCcc--CCCCCcceecCCCCCC-CCCCCccee-eecCC-Cchhh-hcc
Q 030227 89 DKNTQNSSMTT---TPLSSRKSRSDP-VPVPVNGME--ISHHSMRISEPPPPGV-THESNGYET-HLNVT-NYDYS-RRV 158 (181)
Q Consensus 89 ~~~~~~~~~~~---~~~~~~~~~~~~-~~~~~~~~~--f~~~g~i~~~~~~~~~-~~~~kG~gf-~f~~~-~~~~a-~~~ 158 (181)
-.+..+-...+ ....++.-..+. ..++-.++. |..||+|..|.+.++. ++.+||||| +|+.. ++.+| ..+
T Consensus 193 mpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasM 272 (544)
T KOG0124|consen 193 MPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASM 272 (544)
T ss_pred CcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhc
Confidence 22221100000 000010000000 011111122 8999999999999994 556999999 77554 55566 444
Q ss_pred c
Q 030227 159 F 159 (181)
Q Consensus 159 ~ 159 (181)
|
T Consensus 273 N 273 (544)
T KOG0124|consen 273 N 273 (544)
T ss_pred c
Confidence 4
No 22
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.76 E-value=4e-18 Score=140.59 Aligned_cols=158 Identities=13% Similarity=0.205 Sum_probs=123.5
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
+.+|||++||++++.++|.++|+.+|+|..+.++.++.++.++||+||.|+-.++++.|++..++. .+.|+.|+|..+.
T Consensus 5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~-kf~Gr~l~v~~A~ 83 (678)
T KOG0127|consen 5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQS-KFEGRILNVDPAK 83 (678)
T ss_pred CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcC-cccceeccccccc
Confidence 589999999999999999999999999999999999999999999999999999999999999998 9999999999987
Q ss_pred CCCCCC----CCCCcc--CCCCCCCC---CCCC-CccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-
Q 030227 88 QDKNTQ----NSSMTT--TPLSSRKS---RSDP-VPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET- 145 (181)
Q Consensus 88 ~~~~~~----~~~~~~--~~~~~~~~---~~~~-~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf- 145 (181)
...... ..+..+ ....+... ...+ +.+.+.+|| |+++|.+..+.||....+.-.||||
T Consensus 84 ~R~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV 163 (678)
T KOG0127|consen 84 KRARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFV 163 (678)
T ss_pred ccccchhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEE
Confidence 644332 111111 00110000 0111 566788888 7999999999999885554449999
Q ss_pred eecC-CCchhh-hcccCcccccC
Q 030227 146 HLNV-TNYDYS-RRVFGATLDSI 166 (181)
Q Consensus 146 ~f~~-~~~~~a-~~~~g~~~~~~ 166 (181)
+|.. .+++.| ..+||..++.+
T Consensus 164 ~fk~~~dA~~Al~~~N~~~i~gR 186 (678)
T KOG0127|consen 164 QFKEKKDAEKALEFFNGNKIDGR 186 (678)
T ss_pred EEeeHHHHHHHHHhccCceecCc
Confidence 6654 466667 88999888743
No 23
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.75 E-value=9e-18 Score=135.61 Aligned_cols=136 Identities=18% Similarity=0.319 Sum_probs=106.3
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeee-CCeEEEEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTL-YNRTLRFA 84 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i-~g~~i~v~ 84 (181)
+.++.||||.||.++.|++|.-+|++.|+|-++++++|+.+|.+||||||.|++.+.|+.||+.||+. .| .|+.|.|+
T Consensus 81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~-Eir~GK~igvc 159 (506)
T KOG0117|consen 81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNY-EIRPGKLLGVC 159 (506)
T ss_pred CCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCc-cccCCCEeEEE
Confidence 45889999999999999999999999999999999999999999999999999999999999999997 65 67899998
Q ss_pred ecCCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcc-eecCCCCC--CCCCCCccee--eec
Q 030227 85 LSGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMR-ISEPPPPG--VTHESNGYET--HLN 148 (181)
Q Consensus 85 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i-~~~~~~~~--~~~~~kG~gf--~f~ 148 (181)
.+..+. .+++.++| +.+.++= ..+.+... +..+.+||+| +++
T Consensus 160 ~Svan~----------------------RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~ 217 (506)
T KOG0117|consen 160 VSVANC----------------------RLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYES 217 (506)
T ss_pred Eeeecc----------------------eeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeec
Confidence 875432 23444444 2222221 23333322 5777999999 555
Q ss_pred CCCchhh-hcccCcccc
Q 030227 149 VTNYDYS-RRVFGATLD 164 (181)
Q Consensus 149 ~~~~~~a-~~~~g~~~~ 164 (181)
...++.| |+|--..+.
T Consensus 218 H~~Aa~aRrKl~~g~~k 234 (506)
T KOG0117|consen 218 HRAAAMARRKLMPGKIK 234 (506)
T ss_pred chhHHHHHhhccCCcee
Confidence 5566777 888777666
No 24
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.75 E-value=6.3e-18 Score=122.61 Aligned_cols=155 Identities=21% Similarity=0.297 Sum_probs=116.4
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
..++|||||||.++-+.+|+++|.+||.|..|.+.. ......||||+|++..+|+.||..-+|. .++|+.|+|+++
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~---r~g~ppfafVeFEd~RDAeDAiygRdGY-dydg~rLRVEfp 80 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKN---RPGPPPFAFVEFEDPRDAEDAIYGRDGY-DYDGCRLRVEFP 80 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEecc---CCCCCCeeEEEecCccchhhhhhccccc-ccCcceEEEEec
Confidence 388999999999999999999999999999998743 3456789999999999999999999998 999999999999
Q ss_pred CCCCCCCCCCC--------ccCCCCCCCCCC--CCCccccCCcc---CCCCCcc-eecCCCCCCCC-CCCccee--eecC
Q 030227 87 GQDKNTQNSSM--------TTTPLSSRKSRS--DPVPVPVNGME---ISHHSMR-ISEPPPPGVTH-ESNGYET--HLNV 149 (181)
Q Consensus 87 ~~~~~~~~~~~--------~~~~~~~~~~~~--~~~~~~~~~~~---f~~~g~i-~~~~~~~~~~~-~~kG~gf--~f~~ 149 (181)
........... .-.......++. +.+.+.+++|| -||.++. +.....++.+. ...|+|. +...
T Consensus 81 rggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rDg~GvV~~~r~ 160 (241)
T KOG0105|consen 81 RGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRDGVGVVEYLRK 160 (241)
T ss_pred cCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecccceeeeeeeh
Confidence 87654331110 000111111112 22788999999 4666665 55555555332 3567887 7778
Q ss_pred CCchhh-hcccCccccc
Q 030227 150 TNYDYS-RRVFGATLDS 165 (181)
Q Consensus 150 ~~~~~a-~~~~g~~~~~ 165 (181)
++|++| ++|..+.+.+
T Consensus 161 eDMkYAvr~ld~~~~~s 177 (241)
T KOG0105|consen 161 EDMKYAVRKLDDQKFRS 177 (241)
T ss_pred hhHHHHHHhhccccccC
Confidence 899999 9999988875
No 25
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.73 E-value=2.2e-17 Score=127.18 Aligned_cols=133 Identities=19% Similarity=0.272 Sum_probs=102.2
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecCC
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~~ 88 (181)
-+|||||||..+++.+|+.+|++||+|.+|.|+++ ||||..++...++.||+.|++. .|+|..|+|+.++.
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgY-tLhg~nInVeaSks 73 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGY-TLHGVNINVEASKS 73 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccc-eecceEEEEEeccc
Confidence 47999999999999999999999999999999987 9999999999999999999998 99999999999877
Q ss_pred CCCCCCCCCccCCCCCCCCCCCCCccccCCccCCCCCcceecCCCCCCCCCCCccee-eecCC-Cchhh-hcccCcccc
Q 030227 89 DKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEISHHSMRISEPPPPGVTHESNGYET-HLNVT-NYDYS-RRVFGATLD 164 (181)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~-~~~~a-~~~~g~~~~ 164 (181)
+.+... ...+..... . -....--.+|..+|.+..|.+. |+|+| +|.-. ++-.| +.|+|.++.
T Consensus 74 Ksk~st-kl~vgNis~---t---ctn~ElRa~fe~ygpviecdiv-------kdy~fvh~d~~eda~~air~l~~~~~~ 138 (346)
T KOG0109|consen 74 KSKAST-KLHVGNISP---T---CTNQELRAKFEKYGPVIECDIV-------KDYAFVHFDRAEDAVEAIRGLDNTEFQ 138 (346)
T ss_pred cCCCcc-ccccCCCCc---c---ccCHHHhhhhcccCCceeeeee-------cceeEEEEeeccchHHHHhcccccccc
Confidence 522221 111100000 0 0001111228999999999888 88999 88654 34455 889999888
No 26
>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=99.73 E-value=4.2e-17 Score=102.48 Aligned_cols=70 Identities=39% Similarity=0.669 Sum_probs=67.0
Q ss_pred EEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEE
Q 030227 11 VYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (181)
Q Consensus 11 l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~ 82 (181)
|||+|||+++++++|+++|++||.+..+.+..+ .++..+++|||+|.+.++|+.|++.|++. .++|+.|+
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 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGK-KINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTE-EETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCC-EECccCcC
Confidence 799999999999999999999999999999987 67899999999999999999999999997 99999886
No 27
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.72 E-value=1.2e-17 Score=125.25 Aligned_cols=79 Identities=24% Similarity=0.350 Sum_probs=73.0
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
-++||||||+|.+..++|+++|++||+|++..|+.|+.+|+++|||||+|.+.+.|.+|++..|- .|+||+..+.+|.
T Consensus 12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~p--iIdGR~aNcnlA~ 89 (247)
T KOG0149|consen 12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNP--IIDGRKANCNLAS 89 (247)
T ss_pred EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCC--cccccccccchhh
Confidence 45899999999999999999999999999999999999999999999999999999999996553 8999998888765
Q ss_pred C
Q 030227 88 Q 88 (181)
Q Consensus 88 ~ 88 (181)
-
T Consensus 90 l 90 (247)
T KOG0149|consen 90 L 90 (247)
T ss_pred h
Confidence 3
No 28
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.72 E-value=3.6e-17 Score=123.20 Aligned_cols=85 Identities=34% Similarity=0.475 Sum_probs=80.9
Q ss_pred CCCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEE
Q 030227 4 NSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 4 ~~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v 83 (181)
..++.++|-|.||+.+++|++|+++|..||.|..+.+.+|+.||.++|||||.|.++++|++||..|||. -+++-.|+|
T Consensus 185 ~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~-gyd~LILrv 263 (270)
T KOG0122|consen 185 ERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGY-GYDNLILRV 263 (270)
T ss_pred cCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCc-ccceEEEEE
Confidence 4567889999999999999999999999999999999999999999999999999999999999999997 888899999
Q ss_pred EecCCC
Q 030227 84 ALSGQD 89 (181)
Q Consensus 84 ~~a~~~ 89 (181)
+|+++.
T Consensus 264 EwskP~ 269 (270)
T KOG0122|consen 264 EWSKPS 269 (270)
T ss_pred EecCCC
Confidence 999874
No 29
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.69 E-value=7.1e-17 Score=110.57 Aligned_cols=80 Identities=31% Similarity=0.607 Sum_probs=76.5
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
.+++||||||.+.++|++|+++|+.+|+|..|-+=.|+.+.++-|||||+|.+.++|..|++.++++ .++.++|++.|-
T Consensus 35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~Alryisgt-rLddr~ir~D~D 113 (153)
T KOG0121|consen 35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGT-RLDDRPIRIDWD 113 (153)
T ss_pred hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccC-cccccceeeecc
Confidence 4789999999999999999999999999999999899999999999999999999999999999999 999999999986
Q ss_pred C
Q 030227 87 G 87 (181)
Q Consensus 87 ~ 87 (181)
.
T Consensus 114 ~ 114 (153)
T KOG0121|consen 114 A 114 (153)
T ss_pred c
Confidence 4
No 30
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.67 E-value=8.5e-17 Score=127.80 Aligned_cols=146 Identities=17% Similarity=0.244 Sum_probs=116.4
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
..++||||+|+|+++++.|++.|.+||++..|.+++|+.+++++||+||+|.+.+...++|..... .|+|+.|.+..+
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h--~~dgr~ve~k~a 82 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTH--KLDGRSVEPKRA 82 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeeccccc--ccCCccccceec
Confidence 688999999999999999999999999999999999999999999999999999999999875443 799999998887
Q ss_pred CCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCCCch
Q 030227 87 GQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVTNYD 153 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~~ 153 (181)
.+........... ....+++.+++ |.++|.|..+.++.| .+..++|||| .|.+++.-
T Consensus 83 v~r~~~~~~~~~~----------~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sV 152 (311)
T KOG4205|consen 83 VSREDQTKVGRHL----------RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSV 152 (311)
T ss_pred cCccccccccccc----------ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEecccccc
Confidence 6643332111000 11355566666 899999999999999 8889999999 77666543
Q ss_pred -hh-----hcccCcccc
Q 030227 154 -YS-----RRVFGATLD 164 (181)
Q Consensus 154 -~a-----~~~~g~~~~ 164 (181)
.+ ..++|..+.
T Consensus 153 dkv~~~~f~~~~gk~ve 169 (311)
T KOG4205|consen 153 DKVTLQKFHDFNGKKVE 169 (311)
T ss_pred ceecccceeeecCceee
Confidence 33 566666665
No 31
>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=99.67 E-value=5.8e-16 Score=125.82 Aligned_cols=85 Identities=28% Similarity=0.443 Sum_probs=77.5
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC--eEEEEE
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN--RTLRFA 84 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g--~~i~v~ 84 (181)
..++|||+|||+++++++|+++|++||.|..++|+.++.+++++|||||+|.+.++|++||+.||+. .+.+ ++|+|.
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~-~~~g~~~~l~V~ 270 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNV-IPEGGSQPLTVR 270 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCC-ccCCCceeEEEE
Confidence 4678999999999999999999999999999999999889999999999999999999999999997 7765 689999
Q ss_pred ecCCCCCC
Q 030227 85 LSGQDKNT 92 (181)
Q Consensus 85 ~a~~~~~~ 92 (181)
++......
T Consensus 271 ~a~~~~~~ 278 (346)
T TIGR01659 271 LAEEHGKA 278 (346)
T ss_pred ECCccccc
Confidence 98764443
No 32
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.67 E-value=2.8e-16 Score=127.06 Aligned_cols=143 Identities=22% Similarity=0.376 Sum_probs=110.1
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCC-eEEEEEecCC-CCCCcceEEEEEeCCHHHHHHHH-HHhCCCeeeCCeEEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGR-VVDLYIPRDK-ETDKPKGFAFVEYESEEIADYAI-KLFSGIVTLYNRTLR 82 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~-i~~~~i~~~~-~~~~~~g~afV~f~~~~~a~~al-~~l~g~~~i~g~~i~ 82 (181)
-.+++|||||+|.++++++|.+.+++.++ |+.|-+...+ +..++||||||+|.++..|..|- +.+++.+.+.|..+.
T Consensus 162 van~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~t 241 (506)
T KOG0117|consen 162 VANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAIT 241 (506)
T ss_pred eecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcce
Confidence 45889999999999999999999999884 4555555543 34689999999999999999987 556777899999999
Q ss_pred EEecCCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-eecCC
Q 030227 83 FALSGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HLNVT 150 (181)
Q Consensus 83 v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~ 150 (181)
|.||.+........ ..+...+.+.+|+ |.++|.+.++..++| ||| +|..+
T Consensus 242 VdWAep~~e~ded~-----------ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD-------YaFVHf~eR 303 (506)
T KOG0117|consen 242 VDWAEPEEEPDEDT-----------MSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD-------YAFVHFAER 303 (506)
T ss_pred eeccCcccCCChhh-----------hhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc-------eeEEeecch
Confidence 99998855444311 1111255677777 899999999998844 999 77766
Q ss_pred Cch-hh-hcccCcccccC
Q 030227 151 NYD-YS-RRVFGATLDSI 166 (181)
Q Consensus 151 ~~~-~a-~~~~g~~~~~~ 166 (181)
+.+ .| ..+||..|+..
T Consensus 304 ~davkAm~~~ngkeldG~ 321 (506)
T KOG0117|consen 304 EDAVKAMKETNGKELDGS 321 (506)
T ss_pred HHHHHHHHHhcCceecCc
Confidence 544 44 88888888743
No 33
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.67 E-value=4e-16 Score=127.54 Aligned_cols=150 Identities=20% Similarity=0.302 Sum_probs=113.0
Q ss_pred EEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecCCCC
Q 030227 11 VYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQDK 90 (181)
Q Consensus 11 l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~~~~ 90 (181)
|||.||+++++..+|.++|+.||.|++|++..+. .| ++|| ||+|.++++|++||..+||. .+.++.|.|.......
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~-ll~~kki~vg~~~~~~ 154 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGM-LLNGKKIYVGLFERKE 154 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCc-ccCCCeeEEeeccchh
Confidence 9999999999999999999999999999999985 45 9999 99999999999999999998 9999999998776544
Q ss_pred CCCCCCC-ccCCCCCCCCCCCCCccccCCc--cCCCCCcceecCCCCCCCCCCCccee-eecC-CCchhh-hcccCcccc
Q 030227 91 NTQNSSM-TTTPLSSRKSRSDPVPVPVNGM--EISHHSMRISEPPPPGVTHESNGYET-HLNV-TNYDYS-RRVFGATLD 164 (181)
Q Consensus 91 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~--~f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~-~~~~~a-~~~~g~~~~ 164 (181)
....... ......+...........-..+ .|.++|.+.++.++.+..+.++|||| .|.. +++..| ..++|..++
T Consensus 155 er~~~~~~~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~av~~l~~~~~~ 234 (369)
T KOG0123|consen 155 EREAPLGEYKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIGKSKGFGFVNFENPEDAKKAVETLNGKIFG 234 (369)
T ss_pred hhcccccchhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCCCCCCCccceeecChhHHHHHHHhccCCcCC
Confidence 3321110 1111111100111000000011 18999999999999998888999999 7776 555666 999999886
No 34
>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=99.67 E-value=4.4e-16 Score=133.02 Aligned_cols=141 Identities=17% Similarity=0.299 Sum_probs=105.3
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCC-eEEEEE-ecCCCCCCcceEEEEEeCCHHHHHHHHHHhCC-CeeeCCeEEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGR-VVDLYI-PRDKETDKPKGFAFVEYESEEIADYAIKLFSG-IVTLYNRTLR 82 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~-i~~~~i-~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g-~~~i~g~~i~ 82 (181)
...++|||+|||+++++++|.+.|++++. +..+.+ ......++++|||||+|.++++|..|++.|+. .+.+.|+.|.
T Consensus 136 ~~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~ 215 (578)
T TIGR01648 136 VDNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIA 215 (578)
T ss_pred ccCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEE
Confidence 34789999999999999999999999864 444333 33334568899999999999999999988753 3478999999
Q ss_pred EEecCCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCC--CcceecCCCCCCCCCCCccee-eec
Q 030227 83 FALSGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHH--SMRISEPPPPGVTHESNGYET-HLN 148 (181)
Q Consensus 83 v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~--g~i~~~~~~~~~~~~~kG~gf-~f~ 148 (181)
|.|+.+........ ......+++.+|+ |.++ |+|..+.++ +|||| +|.
T Consensus 216 VdwA~p~~~~d~~~-----------~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~-------rgfAFVeF~ 277 (578)
T TIGR01648 216 VDWAEPEEEVDEDV-----------MAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI-------RDYAFVHFE 277 (578)
T ss_pred EEeecccccccccc-----------cccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee-------cCeEEEEeC
Confidence 99997654332110 0111356777777 8889 999888765 67999 887
Q ss_pred CC-Cchhh-hcccCcccc
Q 030227 149 VT-NYDYS-RRVFGATLD 164 (181)
Q Consensus 149 ~~-~~~~a-~~~~g~~~~ 164 (181)
+. +++.| .++||..|+
T Consensus 278 s~e~A~kAi~~lnG~~i~ 295 (578)
T TIGR01648 278 DREDAVKAMDELNGKELE 295 (578)
T ss_pred CHHHHHHHHHHhCCCEEC
Confidence 75 45555 789998887
No 35
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.66 E-value=1.1e-15 Score=96.31 Aligned_cols=70 Identities=37% Similarity=0.604 Sum_probs=64.5
Q ss_pred EEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEE
Q 030227 11 VYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (181)
Q Consensus 11 l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~ 82 (181)
|||+|||+++++++|+++|+.+|.|..+.+..++. +..+++|||+|.+.++|..|+..+++. .++|+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~-~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGK-EIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTE-EETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCc-EECCEEcC
Confidence 79999999999999999999999999999999976 999999999999999999999999887 99999875
No 36
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.65 E-value=9.9e-16 Score=126.60 Aligned_cols=147 Identities=20% Similarity=0.272 Sum_probs=114.5
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
+..+|+|.||||.+...+|+.+|+.||.+..|.|++.+. |+..|||||+|....+|..||+.+|+. .|+|++|-|.||
T Consensus 116 ~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d-gklcGFaFV~fk~~~dA~~Al~~~N~~-~i~gR~VAVDWA 193 (678)
T KOG0127|consen 116 PKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD-GKLCGFAFVQFKEKKDAEKALEFFNGN-KIDGRPVAVDWA 193 (678)
T ss_pred ccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC-CCccceEEEEEeeHHHHHHHHHhccCc-eecCceeEEeee
Confidence 467899999999999999999999999999999998765 555599999999999999999999998 999999999999
Q ss_pred CCCCCCCC-------------------------CC-------------Cc-cC--------------------CC---CC
Q 030227 87 GQDKNTQN-------------------------SS-------------MT-TT--------------------PL---SS 104 (181)
Q Consensus 87 ~~~~~~~~-------------------------~~-------------~~-~~--------------------~~---~~ 104 (181)
-++..... +. .- .. .. ..
T Consensus 194 V~Kd~ye~ta~~~~~s~Kk~~~eEed~e~~~d~~~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~ 273 (678)
T KOG0127|consen 194 VDKDTYEDTAHEEKQSLKKAVKEEEDKEADEDDGKDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGK 273 (678)
T ss_pred cccccccccchhhhhhhhhccchhhhcccccccccccchhcccccccccccccccchhhhcccccccccccccccccccc
Confidence 75432210 00 00 00 00 00
Q ss_pred CC------CC--CCC----CccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCCCchhh
Q 030227 105 RK------SR--SDP----VPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVTNYDYS 155 (181)
Q Consensus 105 ~~------~~--~~~----~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~~~a 155 (181)
.. .. +.. ..+++.+|| |++||++....+..+ .|+.++|.|| .|.+...+.+
T Consensus 274 ~~~~k~~q~k~~~en~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ 349 (678)
T KOG0127|consen 274 KESDKKAQNKTTRENITEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQN 349 (678)
T ss_pred CcccchhccccccccccccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHH
Confidence 00 00 111 456788888 799999999999999 9999999999 9988765554
No 37
>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=99.65 E-value=1.9e-15 Score=129.49 Aligned_cols=83 Identities=19% Similarity=0.281 Sum_probs=78.3
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
..++|||+|||+++++++|+++|+.||.|.++++++++.+++++|||||+|.+.++|..||..||+. .++|+.|+|.++
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~-elgGr~LrV~kA 281 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLF-DLGGQYLRVGKC 281 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCC-eeCCeEEEEEec
Confidence 3579999999999999999999999999999999999989999999999999999999999999998 999999999998
Q ss_pred CCCC
Q 030227 87 GQDK 90 (181)
Q Consensus 87 ~~~~ 90 (181)
....
T Consensus 282 i~pP 285 (612)
T TIGR01645 282 VTPP 285 (612)
T ss_pred CCCc
Confidence 7543
No 38
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.65 E-value=6.9e-16 Score=111.03 Aligned_cols=80 Identities=30% Similarity=0.573 Sum_probs=73.5
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
+-.++||||||+..+++.||+..|..||.+..|+|-.+ +.|||||+|+++-+|+.|+..|+|. .|.|..|+|+.
T Consensus 8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn-----PPGfAFVEFed~RDA~DAvr~LDG~-~~cG~r~rVE~ 81 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN-----PPGFAFVEFEDPRDAEDAVRYLDGK-DICGSRIRVEL 81 (195)
T ss_pred CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec-----CCCceEEeccCcccHHHHHhhcCCc-cccCceEEEEe
Confidence 34789999999999999999999999999999999664 6799999999999999999999999 99999999999
Q ss_pred cCCCCC
Q 030227 86 SGQDKN 91 (181)
Q Consensus 86 a~~~~~ 91 (181)
++....
T Consensus 82 S~G~~r 87 (195)
T KOG0107|consen 82 STGRPR 87 (195)
T ss_pred ecCCcc
Confidence 876444
No 39
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.63 E-value=2.9e-15 Score=115.53 Aligned_cols=76 Identities=17% Similarity=0.301 Sum_probs=70.9
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
.++|||+|||+.+++++|+++|+.||.|.+|.|+.++ ..+|||||+|.++++|+.||. |||. .|.|+.|+|.++.
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~---~~~GfAFVtF~d~eaAe~All-LnG~-~l~gr~V~Vt~a~ 78 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSEN---ERSQIAYVTFKDPQGAETALL-LSGA-TIVDQSVTITPAE 78 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecC---CCCCEEEEEeCcHHHHHHHHH-hcCC-eeCCceEEEEecc
Confidence 6899999999999999999999999999999999875 357999999999999999996 9998 9999999999986
Q ss_pred C
Q 030227 88 Q 88 (181)
Q Consensus 88 ~ 88 (181)
.
T Consensus 79 ~ 79 (260)
T PLN03120 79 D 79 (260)
T ss_pred C
Confidence 4
No 40
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.63 E-value=1.7e-15 Score=128.32 Aligned_cols=138 Identities=18% Similarity=0.296 Sum_probs=108.7
Q ss_pred eEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCC---CcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 10 NVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETD---KPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 10 ~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~---~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
+|||.||+++++.++|...|...|.|.++.|.+-+... .+.|||||+|.+.++|+.|++.|+|+ .|+|+.|.|.++
T Consensus 517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgt-vldGH~l~lk~S 595 (725)
T KOG0110|consen 517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGT-VLDGHKLELKIS 595 (725)
T ss_pred hhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCc-eecCceEEEEec
Confidence 39999999999999999999999999999887654221 36699999999999999999999998 999999999999
Q ss_pred CCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecC-CCc
Q 030227 87 GQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNV-TNY 152 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~-~~~ 152 (181)
........+ ...........+.+.++| |..||.+.+++||.- ..+.++|||| .|.+ +++
T Consensus 596 ~~k~~~~~g-------K~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea 668 (725)
T KOG0110|consen 596 ENKPASTVG-------KKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREA 668 (725)
T ss_pred cCccccccc-------cccccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHH
Confidence 722222111 000001112578888988 799999999999998 6777899999 6655 455
Q ss_pred hhh
Q 030227 153 DYS 155 (181)
Q Consensus 153 ~~a 155 (181)
..|
T Consensus 669 ~nA 671 (725)
T KOG0110|consen 669 KNA 671 (725)
T ss_pred HHH
Confidence 666
No 41
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.61 E-value=7.4e-16 Score=114.70 Aligned_cols=88 Identities=36% Similarity=0.598 Sum_probs=82.7
Q ss_pred CCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
+...++||||+|..+++|..|...|-+||.|..|.++.|-.+++.||||||+|...++|.+||..||+. .+.|+.|+|.
T Consensus 7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnes-EL~GrtirVN 85 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNES-ELFGRTIRVN 85 (298)
T ss_pred cccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchh-hhcceeEEEe
Confidence 456889999999999999999999999999999999999999999999999999999999999999998 9999999999
Q ss_pred ecCCCCCCC
Q 030227 85 LSGQDKNTQ 93 (181)
Q Consensus 85 ~a~~~~~~~ 93 (181)
++.|.+...
T Consensus 86 ~AkP~kike 94 (298)
T KOG0111|consen 86 LAKPEKIKE 94 (298)
T ss_pred ecCCccccC
Confidence 999865543
No 42
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.59 E-value=8e-15 Score=113.39 Aligned_cols=81 Identities=28% Similarity=0.391 Sum_probs=77.2
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
+|-+||||+-|+.+++|..|+..|+.||+|+.|+|+.|+.||+++|||||+|..+.+..+|.+..+|. .|+|+.|-|..
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~-~Idgrri~VDv 177 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGI-KIDGRRILVDV 177 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCc-eecCcEEEEEe
Confidence 67899999999999999999999999999999999999999999999999999999999999999997 99999988886
Q ss_pred cC
Q 030227 86 SG 87 (181)
Q Consensus 86 a~ 87 (181)
-.
T Consensus 178 ER 179 (335)
T KOG0113|consen 178 ER 179 (335)
T ss_pred cc
Confidence 53
No 43
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.58 E-value=2.5e-15 Score=121.18 Aligned_cols=86 Identities=27% Similarity=0.467 Sum_probs=80.5
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCe--EEEEE
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR--TLRFA 84 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~--~i~v~ 84 (181)
..++||||.|+..+||.+++++|++||.|++|.|++|. .+.+||||||.|.+.+.|..||+.||+..++.|+ +|.|.
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVk 201 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVK 201 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEE
Confidence 47899999999999999999999999999999999994 7999999999999999999999999999899997 89999
Q ss_pred ecCCCCCCC
Q 030227 85 LSGQDKNTQ 93 (181)
Q Consensus 85 ~a~~~~~~~ 93 (181)
|+++++...
T Consensus 202 FADtqkdk~ 210 (510)
T KOG0144|consen 202 FADTQKDKD 210 (510)
T ss_pred ecccCCCch
Confidence 999877654
No 44
>PLN03213 repressor of silencing 3; Provisional
Probab=99.57 E-value=1.2e-14 Score=119.20 Aligned_cols=79 Identities=19% Similarity=0.364 Sum_probs=72.4
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCH--HHHHHHHHHhCCCeeeCCeEEEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESE--EIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~--~~a~~al~~l~g~~~i~g~~i~v 83 (181)
..+.+||||||++.+++++|+..|..||.|..|.|++ .+| ||||||+|.+. .++.+||..|||. .+.|+.|+|
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpR--ETG--RGFAFVEMssdddaEeeKAISaLNGA-EWKGR~LKV 82 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVR--TKG--RSFAYIDFSPSSTNSLTKLFSTYNGC-VWKGGRLRL 82 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEec--ccC--CceEEEEecCCcHHHHHHHHHHhcCC-eecCceeEE
Confidence 3467999999999999999999999999999999994 466 89999999987 7899999999998 999999999
Q ss_pred EecCCC
Q 030227 84 ALSGQD 89 (181)
Q Consensus 84 ~~a~~~ 89 (181)
..|++.
T Consensus 83 NKAKP~ 88 (759)
T PLN03213 83 EKAKEH 88 (759)
T ss_pred eeccHH
Confidence 999764
No 45
>smart00362 RRM_2 RNA recognition motif.
Probab=99.57 E-value=4e-14 Score=88.25 Aligned_cols=72 Identities=42% Similarity=0.680 Sum_probs=66.9
Q ss_pred eEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 10 NVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 10 ~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
+|||+|||..+++++|+++|..+|.+..+.+..++ +.++++|||+|.+.++|+.|+..+++. .+.|+.|+|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~-~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGT-KLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCc-EECCEEEeeC
Confidence 58999999999999999999999999999998875 788999999999999999999999997 9999998763
No 46
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.56 E-value=2e-14 Score=109.90 Aligned_cols=79 Identities=23% Similarity=0.450 Sum_probs=74.1
Q ss_pred CCCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEE
Q 030227 4 NSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 4 ~~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v 83 (181)
.++.+++|||||++.-++|++|++.|+.||+|.+|++.+++ ||+||.|.+.+.|..||..+|++ .|.|..+++
T Consensus 160 ssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q------GYaFVrF~tkEaAahAIv~mNnt-ei~G~~VkC 232 (321)
T KOG0148|consen 160 SSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ------GYAFVRFETKEAAAHAIVQMNNT-EIGGQLVRC 232 (321)
T ss_pred CCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc------ceEEEEecchhhHHHHHHHhcCc-eeCceEEEE
Confidence 45779999999999999999999999999999999998875 89999999999999999999999 999999999
Q ss_pred EecCCC
Q 030227 84 ALSGQD 89 (181)
Q Consensus 84 ~~a~~~ 89 (181)
.|.+..
T Consensus 233 sWGKe~ 238 (321)
T KOG0148|consen 233 SWGKEG 238 (321)
T ss_pred eccccC
Confidence 998764
No 47
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.56 E-value=1.4e-14 Score=113.30 Aligned_cols=82 Identities=21% Similarity=0.278 Sum_probs=75.2
Q ss_pred CCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
...-++|+|+|+|+..-|-||+.+|.+||.|.+|.|+.+ ..-+||||||+|++.++|++|-++|||+ .+.||+|.|.
T Consensus 93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfN--ERGSKGFGFVTmen~~dadRARa~LHgt-~VEGRkIEVn 169 (376)
T KOG0125|consen 93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFN--ERGSKGFGFVTMENPADADRARAELHGT-VVEGRKIEVN 169 (376)
T ss_pred CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEec--cCCCCccceEEecChhhHHHHHHHhhcc-eeeceEEEEe
Confidence 344678999999999999999999999999999999987 3458999999999999999999999999 9999999999
Q ss_pred ecCCC
Q 030227 85 LSGQD 89 (181)
Q Consensus 85 ~a~~~ 89 (181)
.+...
T Consensus 170 ~ATar 174 (376)
T KOG0125|consen 170 NATAR 174 (376)
T ss_pred ccchh
Confidence 88753
No 48
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.56 E-value=4.5e-14 Score=107.45 Aligned_cols=78 Identities=23% Similarity=0.366 Sum_probs=71.1
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
..+.+|||+||++.+|+++|+++|+.||+|.+|+|+++ ++.+++|||+|.++++++.|+. |+|. .|.+++|.|..
T Consensus 3 ~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D---~et~gfAfVtF~d~~aaetAll-LnGa-~l~d~~I~It~ 77 (243)
T PLN03121 3 PGGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRS---GEYACTAYVTFKDAYALETAVL-LSGA-TIVDQRVCITR 77 (243)
T ss_pred CCceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecC---CCcceEEEEEECCHHHHHHHHh-cCCC-eeCCceEEEEe
Confidence 35789999999999999999999999999999999987 4566899999999999999996 9998 99999999987
Q ss_pred cCC
Q 030227 86 SGQ 88 (181)
Q Consensus 86 a~~ 88 (181)
...
T Consensus 78 ~~~ 80 (243)
T PLN03121 78 WGQ 80 (243)
T ss_pred Ccc
Confidence 653
No 49
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.55 E-value=1.4e-14 Score=107.01 Aligned_cols=83 Identities=31% Similarity=0.508 Sum_probs=78.6
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
-..|-|-||...++.++|+.+|++||.|-+|.|++|+-|+.++|||||-|....+|+.|++.|+|. +|+|+.|+|+.|.
T Consensus 13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~-~ldgRelrVq~ar 91 (256)
T KOG4207|consen 13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGA-VLDGRELRVQMAR 91 (256)
T ss_pred ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcce-eeccceeeehhhh
Confidence 457999999999999999999999999999999999999999999999999999999999999998 9999999999987
Q ss_pred CCCC
Q 030227 88 QDKN 91 (181)
Q Consensus 88 ~~~~ 91 (181)
....
T Consensus 92 ygr~ 95 (256)
T KOG4207|consen 92 YGRP 95 (256)
T ss_pred cCCC
Confidence 6555
No 50
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.54 E-value=2.5e-14 Score=118.35 Aligned_cols=83 Identities=36% Similarity=0.602 Sum_probs=79.6
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecCC
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~~ 88 (181)
+.|||||+|+++++++|.++|+..|.|.+++++.|+.+|+++||||++|.+.+.|..|++.||+. .+.|++|+|.|+..
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~-~~~gr~l~v~~~~~ 97 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGA-EFNGRKLRVNYASN 97 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCc-ccCCceEEeecccc
Confidence 89999999999999999999999999999999999999999999999999999999999999998 99999999999976
Q ss_pred CCCC
Q 030227 89 DKNT 92 (181)
Q Consensus 89 ~~~~ 92 (181)
.+..
T Consensus 98 ~~~~ 101 (435)
T KOG0108|consen 98 RKNA 101 (435)
T ss_pred cchh
Confidence 5553
No 51
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.54 E-value=1.9e-15 Score=124.95 Aligned_cols=154 Identities=20% Similarity=0.228 Sum_probs=117.9
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
.+.++||+--|+-..+..+|.++|+.+|.|..|.++.|+.+++++|.+||+|.+.+....||. |.|. -+.|.+|.|..
T Consensus 177 Rd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGq-rllg~pv~vq~ 254 (549)
T KOG0147|consen 177 RDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQ-RLLGVPVIVQL 254 (549)
T ss_pred HhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCC-cccCceeEecc
Confidence 446788888899999999999999999999999999999999999999999999999999997 8998 89999999998
Q ss_pred cCCCCCCCC-CCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCC-
Q 030227 86 SGQDKNTQN-SSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVT- 150 (181)
Q Consensus 86 a~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~- 150 (181)
+.-.+.... ......+... ..|.. .+.+.+|- |..||.|+.+-++.| .+|++||||| +|...
T Consensus 255 sEaeknr~a~~s~a~~~k~~--~~p~~-rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~ 331 (549)
T KOG0147|consen 255 SEAEKNRAANASPALQGKGF--TGPMR-RLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKE 331 (549)
T ss_pred cHHHHHHHHhcccccccccc--ccchh-hhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHH
Confidence 765444421 0111111111 11111 13333333 899999999999999 7999999999 66544
Q ss_pred Cchhh-hcccCcccc
Q 030227 151 NYDYS-RRVFGATLD 164 (181)
Q Consensus 151 ~~~~a-~~~~g~~~~ 164 (181)
++..| ..|||.+|.
T Consensus 332 ~ar~a~e~lngfelA 346 (549)
T KOG0147|consen 332 DARKALEQLNGFELA 346 (549)
T ss_pred HHHHHHHHhccceec
Confidence 44444 899997665
No 52
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.53 E-value=8.9e-15 Score=111.84 Aligned_cols=85 Identities=24% Similarity=0.373 Sum_probs=77.7
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCe--EEEEE
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR--TLRFA 84 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~--~i~v~ 84 (181)
+.++||||.|...-.|+|++.+|..||.|.+|.+++.+ .|.++||+||.|.+..+|++||..|+|..++.|- .|.|.
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK 96 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVK 96 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEE
Confidence 57899999999999999999999999999999999985 6999999999999999999999999998778774 78999
Q ss_pred ecCCCCCC
Q 030227 85 LSGQDKNT 92 (181)
Q Consensus 85 ~a~~~~~~ 92 (181)
+++.++++
T Consensus 97 ~ADTdkER 104 (371)
T KOG0146|consen 97 FADTDKER 104 (371)
T ss_pred eccchHHH
Confidence 99876654
No 53
>smart00360 RRM RNA recognition motif.
Probab=99.53 E-value=1e-13 Score=86.00 Aligned_cols=71 Identities=41% Similarity=0.659 Sum_probs=66.1
Q ss_pred EcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 13 IGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 13 V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
|+|||..+++++|+++|..||.+..+.+..++.++.++|+|||+|.+.++|..|+..+++. .+.|+.|+|.
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~-~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGK-ELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCC-eeCCcEEEeC
Confidence 6899999999999999999999999999988777899999999999999999999999987 8899988763
No 54
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.53 E-value=9.2e-14 Score=107.72 Aligned_cols=79 Identities=39% Similarity=0.594 Sum_probs=76.2
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
.++|||+|||..+++++|+++|..||.+..+.+..++.++.++|+|||+|.+.++|..|+..+++. .+.|++|+|.++.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~-~~~~~~~~v~~~~ 193 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGK-ELEGRPLRVQKAQ 193 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCC-eECCceeEeeccc
Confidence 589999999999999999999999999999999999889999999999999999999999999997 9999999999965
No 55
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.51 E-value=3.1e-14 Score=98.53 Aligned_cols=82 Identities=23% Similarity=0.388 Sum_probs=77.7
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
.+..|||.++...++|++|.+.|..||+|+.+.+-.|+-+|..+|||+|+|.+.++|++|+..+|+. .|.|+.|.|.|+
T Consensus 71 EGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~-~ll~q~v~VDw~ 149 (170)
T KOG0130|consen 71 EGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGA-ELLGQNVSVDWC 149 (170)
T ss_pred eeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccch-hhhCCceeEEEE
Confidence 3678999999999999999999999999999999999999999999999999999999999999998 999999999998
Q ss_pred CCC
Q 030227 87 GQD 89 (181)
Q Consensus 87 ~~~ 89 (181)
-..
T Consensus 150 Fv~ 152 (170)
T KOG0130|consen 150 FVK 152 (170)
T ss_pred Eec
Confidence 543
No 56
>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=99.49 E-value=6e-13 Score=83.29 Aligned_cols=74 Identities=41% Similarity=0.662 Sum_probs=67.8
Q ss_pred eEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 10 NVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 10 ~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
+|+|+|||..+++++|+++|..+|.+..+.+..++. +..+++|||+|.+.++|..|+..+++. .++|+.+.|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~-~~~~~~~~v~f~s~~~a~~a~~~~~~~-~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKD-TKSKGFAFVEFEDEEDAEKALEALNGK-ELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCC-CCcceEEEEEECCHHHHHHHHHHhCCC-eECCeEEEEeC
Confidence 489999999999999999999999999999988754 377899999999999999999999998 89999998864
No 57
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.48 E-value=7.4e-15 Score=106.39 Aligned_cols=82 Identities=33% Similarity=0.558 Sum_probs=76.8
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
.++.-|||||||++.||.+|.-+|++||+|+.|-+++|+.||+++||||+-|++..+.--|+..|||. .|.||.|+|..
T Consensus 33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGi-ki~gRtirVDH 111 (219)
T KOG0126|consen 33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGI-KILGRTIRVDH 111 (219)
T ss_pred ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCc-eecceeEEeee
Confidence 34678999999999999999999999999999999999999999999999999999999999999997 99999999986
Q ss_pred cCC
Q 030227 86 SGQ 88 (181)
Q Consensus 86 a~~ 88 (181)
...
T Consensus 112 v~~ 114 (219)
T KOG0126|consen 112 VSN 114 (219)
T ss_pred ccc
Confidence 543
No 58
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.46 E-value=7e-13 Score=87.84 Aligned_cols=81 Identities=27% Similarity=0.346 Sum_probs=72.7
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
..++.|||.|||+.+|.++..++|.+||.|..|+|--+ ...+|.|||.|++..+|..|+..|+|. -+.++.+.|-+
T Consensus 16 evnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~---k~TrGTAFVVYedi~dAk~A~dhlsg~-n~~~ryl~vly 91 (124)
T KOG0114|consen 16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNT---KETRGTAFVVYEDIFDAKKACDHLSGY-NVDNRYLVVLY 91 (124)
T ss_pred hhheeEEEecCCccccHHHHHHHhhcccceEEEEecCc---cCcCceEEEEehHhhhHHHHHHHhccc-ccCCceEEEEe
Confidence 45778999999999999999999999999999998544 467899999999999999999999998 99999999998
Q ss_pred cCCCC
Q 030227 86 SGQDK 90 (181)
Q Consensus 86 a~~~~ 90 (181)
..+..
T Consensus 92 yq~~~ 96 (124)
T KOG0114|consen 92 YQPED 96 (124)
T ss_pred cCHHH
Confidence 76543
No 59
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.42 E-value=2.4e-13 Score=104.13 Aligned_cols=86 Identities=23% Similarity=0.469 Sum_probs=80.8
Q ss_pred CCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
.+++++|||-.||.+..+.||..+|-.||.|.+.++..|+.|..++.|+||.|++..+++.||..|||. .|+-++|+|.
T Consensus 282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGF-QIGMKRLKVQ 360 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGF-QIGMKRLKVQ 360 (371)
T ss_pred CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcch-hhhhhhhhhh
Confidence 367999999999999999999999999999999999999999999999999999999999999999997 9999999999
Q ss_pred ecCCCCC
Q 030227 85 LSGQDKN 91 (181)
Q Consensus 85 ~a~~~~~ 91 (181)
..+++..
T Consensus 361 LKRPkda 367 (371)
T KOG0146|consen 361 LKRPKDA 367 (371)
T ss_pred hcCcccc
Confidence 8776543
No 60
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.37 E-value=7.7e-12 Score=93.72 Aligned_cols=81 Identities=30% Similarity=0.544 Sum_probs=73.0
Q ss_pred CCCCeEEEcCCCCcCcHHHHHH----HHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYD----ILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTL 81 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~----~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i 81 (181)
++..+|||.||+..+..++|+. +|++||.|..|...+ +.+.+|-|||.|.+.+.|..|++.|+|. .+.|+++
T Consensus 7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gf-pFygK~m 82 (221)
T KOG4206|consen 7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGF-PFYGKPM 82 (221)
T ss_pred CCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCC-cccCchh
Confidence 4455999999999999998877 999999999998865 5789999999999999999999999997 9999999
Q ss_pred EEEecCCCC
Q 030227 82 RFALSGQDK 90 (181)
Q Consensus 82 ~v~~a~~~~ 90 (181)
++.+|+.+.
T Consensus 83 riqyA~s~s 91 (221)
T KOG4206|consen 83 RIQYAKSDS 91 (221)
T ss_pred heecccCcc
Confidence 999998643
No 61
>smart00361 RRM_1 RNA recognition motif.
Probab=99.37 E-value=6e-12 Score=79.44 Aligned_cols=61 Identities=21% Similarity=0.237 Sum_probs=54.6
Q ss_pred HHHHHHHHH----hcCCeEEEE-EecCCCC--CCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEE
Q 030227 22 ERVLYDILI----QAGRVVDLY-IPRDKET--DKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 22 e~~l~~~f~----~~G~i~~~~-i~~~~~~--~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v 83 (181)
+++|+++|+ .||.+.++. ++.++.+ +.++|++||.|.+.++|+.|++.|||. .+.|+.|++
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~-~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGR-YFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCC-EECCEEEEe
Confidence 577888888 999999985 6666656 899999999999999999999999998 999999876
No 62
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=99.35 E-value=8.7e-12 Score=75.16 Aligned_cols=56 Identities=36% Similarity=0.584 Sum_probs=50.7
Q ss_pred HHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 25 LYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 25 l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
|+++|++||.|..+.+..+. +++|||+|.+.++|+.|++.||+. .+.|++|+|.||
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~-~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGR-QFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTS-EETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCC-EECCcEEEEEEC
Confidence 67899999999999997653 689999999999999999999998 999999999986
No 63
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.35 E-value=2.6e-12 Score=93.22 Aligned_cols=88 Identities=36% Similarity=0.618 Sum_probs=79.4
Q ss_pred CCCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEE-EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEE
Q 030227 4 NSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVD-LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (181)
Q Consensus 4 ~~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~-~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~ 82 (181)
+...+.++||+||.+.++|..|+..|+.||.+.. ..++++..+|.++|+|||.|.+.+.+.+|+..||++ .+.++++.
T Consensus 92 nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq-~l~nr~it 170 (203)
T KOG0131|consen 92 NLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQ-YLCNRPIT 170 (203)
T ss_pred cccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccc-hhcCCceE
Confidence 3456789999999999999999999999998877 589999999999999999999999999999999998 99999999
Q ss_pred EEecCCCCCC
Q 030227 83 FALSGQDKNT 92 (181)
Q Consensus 83 v~~a~~~~~~ 92 (181)
|.++..+...
T Consensus 171 v~ya~k~~~k 180 (203)
T KOG0131|consen 171 VSYAFKKDTK 180 (203)
T ss_pred EEEEEecCCC
Confidence 9988664443
No 64
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.33 E-value=2.7e-11 Score=98.40 Aligned_cols=140 Identities=17% Similarity=0.125 Sum_probs=99.4
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHH-hcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 8 GCNVYIGNLDEKVSERVLYDILI-QAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~-~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
.+.+||.|+|+++.+.+|++++. +.|+|..|.++.| .+|+++|||.|+|++++.+++|++.||.. .+.|++|.|.--
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D-~~GK~rGcavVEFk~~E~~qKa~E~lnk~-~~~GR~l~vKEd 121 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFD-ESGKARGCAVVEFKDPENVQKALEKLNKY-EVNGRELVVKED 121 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecc-cCCCcCCceEEEeeCHHHHHHHHHHhhhc-cccCceEEEecc
Confidence 45699999999999999999996 5899999999999 58999999999999999999999999997 999999999865
Q ss_pred CCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc--CCCCCcceecCCCCCCCCCCCccee-eecCC
Q 030227 87 GQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME--ISHHSMRISEPPPPGVTHESNGYET-HLNVT 150 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~ 150 (181)
......... ......+........+..-...|- ++--|...+-.++.|+.+.+++-++ .|+.+
T Consensus 122 ~d~q~~~~~-~~~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~ 187 (608)
T KOG4212|consen 122 HDEQRDQYG-RIVRDGGGGFGGGGGVQGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSND 187 (608)
T ss_pred Cchhhhhhh-heeeccCcccccCcceecccccccccCCCCccccCCCCcccccccccccCccccccc
Confidence 432222111 011111111001111112222222 4556666677777888888999888 66543
No 65
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.32 E-value=3.8e-12 Score=100.89 Aligned_cols=85 Identities=19% Similarity=0.318 Sum_probs=80.3
Q ss_pred CCCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEE
Q 030227 4 NSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 4 ~~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v 83 (181)
-.+|.+.|||.-|.+-+++++|.-+|+.||.|.+|.+++|..+|.+..||||+|.+.+++++|.-.|++. .|++++|.|
T Consensus 235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNv-LIDDrRIHV 313 (479)
T KOG0415|consen 235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNV-LIDDRRIHV 313 (479)
T ss_pred cCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcce-eeccceEEe
Confidence 3578999999999999999999999999999999999999999999999999999999999999999996 999999999
Q ss_pred EecCCC
Q 030227 84 ALSGQD 89 (181)
Q Consensus 84 ~~a~~~ 89 (181)
.++.+.
T Consensus 314 DFSQSV 319 (479)
T KOG0415|consen 314 DFSQSV 319 (479)
T ss_pred ehhhhh
Confidence 998753
No 66
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.27 E-value=7.3e-12 Score=103.97 Aligned_cols=79 Identities=27% Similarity=0.523 Sum_probs=73.8
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
-..||||||.+++++++|+..|+.||.|..|.+.+|..+|.++||+||+|.+.+.|..|+..|||. .|-|+.|+|..-.
T Consensus 278 ~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngf-elAGr~ikV~~v~ 356 (549)
T KOG0147|consen 278 MRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGF-ELAGRLIKVSVVT 356 (549)
T ss_pred hhhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccc-eecCceEEEEEee
Confidence 344899999999999999999999999999999999889999999999999999999999999995 9999999997544
No 67
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=99.26 E-value=7.4e-11 Score=97.02 Aligned_cols=136 Identities=18% Similarity=0.253 Sum_probs=99.4
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
...|-+.+|||++|+++|.++|+.|+ |..+.+.+ .+|+..|-|||+|.++++++.|++ .+.. .+..+.|.|-.+.
T Consensus 10 ~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r--~~Gr~sGeA~Ve~~seedv~~Alk-kdR~-~mg~RYIEVf~~~ 84 (510)
T KOG4211|consen 10 AFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPR--RNGRPSGEAYVEFTSEEDVEKALK-KDRE-SMGHRYIEVFTAG 84 (510)
T ss_pred ceEEEecCCCccccHHHHHHHHhcCc-eeEEEEec--cCCCcCcceEEEeechHHHHHHHH-hhHH-HhCCceEEEEccC
Confidence 44577889999999999999999996 77766655 479999999999999999999999 5666 8899999999875
Q ss_pred CCCCCCCCCCccCCCCCCCCCCCCCccccCCcc----------CCCCCcceec--CCCCCCCCCCCccee-eecCCCch
Q 030227 88 QDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME----------ISHHSMRISE--PPPPGVTHESNGYET-HLNVTNYD 153 (181)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------f~~~g~i~~~--~~~~~~~~~~kG~gf-~f~~~~~~ 153 (181)
...... ......+++. .....|.+.+|| |..-++|... -++.+..+++.|-+| +|.+.+.+
T Consensus 85 ~~e~d~---~~~~~g~~s~--~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~a 158 (510)
T KOG4211|consen 85 GAEADW---VMRPGGPNSS--ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESA 158 (510)
T ss_pred Cccccc---cccCCCCCCC--CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHH
Confidence 533221 1111112211 122567778888 4566666443 356777888999999 88776543
No 68
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.23 E-value=1.5e-11 Score=95.26 Aligned_cols=79 Identities=23% Similarity=0.352 Sum_probs=72.9
Q ss_pred CCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
+..+++|+||||.+.++.++|++.|.+||++.+|.|++| |+||.|.-.++|..|++.||++ .+.|++++|+
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~-~~~gk~m~vq 145 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNT-EFQGKRMHVQ 145 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhccccc-ccccceeeee
Confidence 356889999999999999999999999999999999876 9999999999999999999999 9999999999
Q ss_pred ecCCCCCC
Q 030227 85 LSGQDKNT 92 (181)
Q Consensus 85 ~a~~~~~~ 92 (181)
.+.+....
T Consensus 146 ~stsrlrt 153 (346)
T KOG0109|consen 146 LSTSRLRT 153 (346)
T ss_pred eecccccc
Confidence 98774433
No 69
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.17 E-value=2.2e-10 Score=90.61 Aligned_cols=75 Identities=25% Similarity=0.342 Sum_probs=67.3
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
-++|||++|...++|.+|+++|.+||+|.++.++..+ ++|||+|.+.+.|+.|....-..+.|+|++|+|.|+.
T Consensus 228 I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~ 301 (377)
T KOG0153|consen 228 IKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGR 301 (377)
T ss_pred eeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCC
Confidence 5689999999999999999999999999999887653 5999999999999998865555569999999999998
Q ss_pred C
Q 030227 88 Q 88 (181)
Q Consensus 88 ~ 88 (181)
+
T Consensus 302 ~ 302 (377)
T KOG0153|consen 302 P 302 (377)
T ss_pred C
Confidence 8
No 70
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=99.14 E-value=1.5e-10 Score=96.92 Aligned_cols=160 Identities=18% Similarity=0.233 Sum_probs=117.0
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
...+++||++||...++++++++...||.+....++.+..+|.++||||.+|.+..-...|+..|||. .++++.|.|..
T Consensus 287 ~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm-~lgd~~lvvq~ 365 (500)
T KOG0120|consen 287 DSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGM-QLGDKKLVVQR 365 (500)
T ss_pred cccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchh-hhcCceeEeeh
Confidence 34678999999999999999999999999999999999999999999999999999999999999998 99999999998
Q ss_pred cCCCCCCCCCCCc-----cCCCCCCC-CCCCC-C-------ccccCCcc---------------CCCCCcceecCCCCC-
Q 030227 86 SGQDKNTQNSSMT-----TTPLSSRK-SRSDP-V-------PVPVNGME---------------ISHHSMRISEPPPPG- 135 (181)
Q Consensus 86 a~~~~~~~~~~~~-----~~~~~~~~-~~~~~-~-------~~~~~~~~---------------f~~~g~i~~~~~~~~- 135 (181)
+-........+.. +...+... +.... + -+..+.|- ++.||.|.+|.+|++
T Consensus 366 A~~g~~~~~~~~~~~~~~~~~i~~~~~q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~ 445 (500)
T KOG0120|consen 366 AIVGASNANVNFNISQSQVPGIPLLMTQMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPY 445 (500)
T ss_pred hhccchhccccCCccccccccchhhhcccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCC
Confidence 8765554422211 11111100 00110 0 01111111 699999999999998
Q ss_pred CCCC-CCcce--e-eecCC-Cchhh-hcccCcccccC
Q 030227 136 VTHE-SNGYE--T-HLNVT-NYDYS-RRVFGATLDSI 166 (181)
Q Consensus 136 ~~~~-~kG~g--f-~f~~~-~~~~a-~~~~g~~~~~~ 166 (181)
.... --|.| | +|.+. +.+.| .+|.|..+++.
T Consensus 446 ~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nR 482 (500)
T KOG0120|consen 446 PDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANR 482 (500)
T ss_pred CCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCc
Confidence 4433 35555 7 66554 56666 88999888754
No 71
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.12 E-value=2.1e-10 Score=91.53 Aligned_cols=80 Identities=20% Similarity=0.297 Sum_probs=75.5
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
-.+|||..+.++.+|++|+.+|+.||+|..|.+-+++..+..+||+|++|.+.++...||..||-. .++|..|+|..+-
T Consensus 210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlF-DLGGQyLRVGk~v 288 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLF-DLGGQYLRVGKCV 288 (544)
T ss_pred hheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchh-hcccceEeccccc
Confidence 468999999999999999999999999999999999988899999999999999999999999987 9999999998775
Q ss_pred C
Q 030227 88 Q 88 (181)
Q Consensus 88 ~ 88 (181)
.
T Consensus 289 T 289 (544)
T KOG0124|consen 289 T 289 (544)
T ss_pred C
Confidence 4
No 72
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.11 E-value=2.3e-10 Score=98.45 Aligned_cols=75 Identities=19% Similarity=0.426 Sum_probs=69.6
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
++|||||+|+..++|.+|.++|+.||+|.+|.++. +++||||.+....+|.+|+..|+.. .+.++.|+|.|+.
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~------~R~cAfI~M~~RqdA~kalqkl~n~-kv~~k~Iki~Wa~ 493 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP------PRGCAFIKMVRRQDAEKALQKLSNV-KVADKTIKIAWAV 493 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeecc------CCceeEEEEeehhHHHHHHHHHhcc-cccceeeEEeeec
Confidence 68999999999999999999999999999998765 4589999999999999999999986 9999999999996
Q ss_pred CC
Q 030227 88 QD 89 (181)
Q Consensus 88 ~~ 89 (181)
..
T Consensus 494 g~ 495 (894)
T KOG0132|consen 494 GK 495 (894)
T ss_pred cC
Confidence 53
No 73
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.09 E-value=6e-10 Score=82.52 Aligned_cols=83 Identities=28% Similarity=0.429 Sum_probs=74.4
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhc-CCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQA-GRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~-G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
....-+||..+|..+.+.++..+|.++ |.+..+++.+++.||.++|||||+|.+.+-|.-|-+.||+. .+.++.|.+.
T Consensus 47 ~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNY-Ll~e~lL~c~ 125 (214)
T KOG4208|consen 47 EIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNY-LLMEHLLECH 125 (214)
T ss_pred CCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhh-hhhhheeeeE
Confidence 345568999999999999999999998 67788899899999999999999999999999999999998 8888988888
Q ss_pred ecCCC
Q 030227 85 LSGQD 89 (181)
Q Consensus 85 ~a~~~ 89 (181)
+-.+.
T Consensus 126 vmppe 130 (214)
T KOG4208|consen 126 VMPPE 130 (214)
T ss_pred EeCch
Confidence 76654
No 74
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=99.07 E-value=7.1e-10 Score=94.74 Aligned_cols=82 Identities=22% Similarity=0.389 Sum_probs=74.2
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCC---CCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDK---ETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~---~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~ 82 (181)
+.+++|||+||++.++++.|...|..||++.+++|++.+ ...+.+.|+||.|-+..+|++|++.|+|. .+.+..++
T Consensus 172 P~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~-iv~~~e~K 250 (877)
T KOG0151|consen 172 PQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGI-IVMEYEMK 250 (877)
T ss_pred CcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcce-eeeeeeee
Confidence 457899999999999999999999999999999998764 33467789999999999999999999997 99999999
Q ss_pred EEecCC
Q 030227 83 FALSGQ 88 (181)
Q Consensus 83 v~~a~~ 88 (181)
+.|++.
T Consensus 251 ~gWgk~ 256 (877)
T KOG0151|consen 251 LGWGKA 256 (877)
T ss_pred eccccc
Confidence 999854
No 75
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.04 E-value=8.9e-10 Score=92.38 Aligned_cols=85 Identities=15% Similarity=0.278 Sum_probs=77.8
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
.-+++|||.+|...+-..+|+.+|++||.|+-.+++.+.-+.-.++|+||++.+.++|..+|..|+.+ .|.|+.|.|..
T Consensus 403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrT-ELHGrmISVEk 481 (940)
T KOG4661|consen 403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRT-ELHGRMISVEK 481 (940)
T ss_pred ccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhh-hhcceeeeeee
Confidence 45789999999999999999999999999999999988767778899999999999999999999998 99999999999
Q ss_pred cCCCCC
Q 030227 86 SGQDKN 91 (181)
Q Consensus 86 a~~~~~ 91 (181)
++....
T Consensus 482 aKNEp~ 487 (940)
T KOG4661|consen 482 AKNEPG 487 (940)
T ss_pred cccCcc
Confidence 876443
No 76
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.03 E-value=7.1e-10 Score=90.30 Aligned_cols=74 Identities=28% Similarity=0.381 Sum_probs=68.0
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
...++|||.|||+++|+..|++.|.+||.+..+.|+. .|+++| .|.|.++++|+.|+..|++. .++|+.|+|.+
T Consensus 534 rKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime---~GkskG--VVrF~s~edAEra~a~Mngs-~l~Gr~I~V~y 607 (608)
T KOG4212|consen 534 RKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME---NGKSKG--VVRFFSPEDAERACALMNGS-RLDGRNIKVTY 607 (608)
T ss_pred ccccEEEEecCCccccHHHHHHHHHhccceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhccC-cccCceeeeee
Confidence 4578899999999999999999999999999998853 577887 89999999999999999998 99999999976
No 77
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.02 E-value=3.7e-10 Score=96.39 Aligned_cols=85 Identities=19% Similarity=0.414 Sum_probs=77.6
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
..+++|+|.|||+..+-.+++.+|..||++.+|+|++-...+..+|||||+|-++.+|..|+..|..+ -+.||+|.+.|
T Consensus 611 k~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~ST-HlyGRrLVLEw 689 (725)
T KOG0110|consen 611 KKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGST-HLYGRRLVLEW 689 (725)
T ss_pred cccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhccc-ceechhhheeh
Confidence 34679999999999999999999999999999999987556678999999999999999999999987 89999999999
Q ss_pred cCCCCC
Q 030227 86 SGQDKN 91 (181)
Q Consensus 86 a~~~~~ 91 (181)
+.....
T Consensus 690 A~~d~~ 695 (725)
T KOG0110|consen 690 AKSDNT 695 (725)
T ss_pred hccchH
Confidence 987655
No 78
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.00 E-value=1.1e-09 Score=82.71 Aligned_cols=71 Identities=30% Similarity=0.414 Sum_probs=64.6
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecCC
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~~ 88 (181)
..||||+||+.+.+.+|..+|..||.+..+.+.. ||+||+|.+..+|..|+..+|+. .+.+..+.|.++..
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 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKN--------GFGFVEFEDPRDADDAVHDLDGK-ELCGERLVVEHARG 72 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceeec--------ccceeccCchhhhhcccchhcCc-eecceeeeeecccc
Confidence 4799999999999999999999999999987643 68899999999999999999998 88888899998875
No 79
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.97 E-value=1.5e-09 Score=86.65 Aligned_cols=85 Identities=25% Similarity=0.381 Sum_probs=76.2
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
...+||||+||.++++.++++.|.+||.|..+.++.|..+.+.+||+||.|.+++.+..++. .... .+.++.+.|..|
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~-~~~gk~vevkrA 173 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFH-DFNGKKVEVKRA 173 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-ccee-eecCceeeEeec
Confidence 35689999999999999999999999999999999999999999999999999999999987 3444 899999999999
Q ss_pred CCCCCCC
Q 030227 87 GQDKNTQ 93 (181)
Q Consensus 87 ~~~~~~~ 93 (181)
.++....
T Consensus 174 ~pk~~~~ 180 (311)
T KOG4205|consen 174 IPKEVMQ 180 (311)
T ss_pred cchhhcc
Confidence 8755544
No 80
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.95 E-value=8.2e-10 Score=82.59 Aligned_cols=121 Identities=21% Similarity=0.221 Sum_probs=90.1
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
...++|||+|+...++|+.|.++|-+.|+|..+.|..++ .++.+ ||||.|.++.+..-|+..+||. .+.+.++.+.+
T Consensus 7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~-~l~~~e~q~~~ 83 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGD-DLEEDEEQRTL 83 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccc-hhccchhhccc
Confidence 446899999999999999999999999999999999885 56777 9999999999999999999996 99999888775
Q ss_pred cCCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc--CCCCCcceecCCCCCCCCCCCccee
Q 030227 86 SGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME--ISHHSMRISEPPPPGVTHESNGYET 145 (181)
Q Consensus 86 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--f~~~g~i~~~~~~~~~~~~~kG~gf 145 (181)
-......+. ...+....+. |++.+.+...+++++..++.+-+++
T Consensus 84 r~G~shapl----------------d~r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnrn~~~ 129 (267)
T KOG4454|consen 84 RCGNSHAPL----------------DERVTEEILYEVFSQAGPIEGVRIPTDNDGRNRNFGF 129 (267)
T ss_pred ccCCCcchh----------------hhhcchhhheeeecccCCCCCccccccccCCccCccc
Confidence 432111110 0001111111 6777777777777775566665554
No 81
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.93 E-value=9.4e-10 Score=83.89 Aligned_cols=87 Identities=21% Similarity=0.316 Sum_probs=78.9
Q ss_pred CCCCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEE
Q 030227 3 GNSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (181)
Q Consensus 3 ~~~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~ 82 (181)
++...-.+||+|.|..+++++.|-..|.+|-.....++++++-+|+++||+||.|.+..++..|++.|+|. .++.++|+
T Consensus 185 ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gk-yVgsrpik 263 (290)
T KOG0226|consen 185 EWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGK-YVGSRPIK 263 (290)
T ss_pred cCccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhccc-ccccchhH
Confidence 34555679999999999999999999999988888899999999999999999999999999999999998 99999999
Q ss_pred EEecCCCC
Q 030227 83 FALSGQDK 90 (181)
Q Consensus 83 v~~a~~~~ 90 (181)
+..+.++.
T Consensus 264 lRkS~wke 271 (290)
T KOG0226|consen 264 LRKSEWKE 271 (290)
T ss_pred hhhhhHHh
Confidence 98776643
No 82
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.93 E-value=8e-09 Score=79.61 Aligned_cols=82 Identities=20% Similarity=0.350 Sum_probs=74.6
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
..+|+|.|||..+++++|+++|.+||.+..+.+.+++ .|.+.|.|-|.|...++|.+|++.+++. .++|+.+++....
T Consensus 83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv-~ldG~~mk~~~i~ 160 (243)
T KOG0533|consen 83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGV-ALDGRPMKIEIIS 160 (243)
T ss_pred cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCc-ccCCceeeeEEec
Confidence 4789999999999999999999999999999888885 7999999999999999999999999994 9999999998776
Q ss_pred CCCC
Q 030227 88 QDKN 91 (181)
Q Consensus 88 ~~~~ 91 (181)
+...
T Consensus 161 ~~~~ 164 (243)
T KOG0533|consen 161 SPSQ 164 (243)
T ss_pred Cccc
Confidence 5333
No 83
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.90 E-value=6.1e-09 Score=82.56 Aligned_cols=83 Identities=22% Similarity=0.327 Sum_probs=74.3
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEE--------EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVD--------LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN 78 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~--------~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g 78 (181)
.++.|||.|||.++|.+++.++|+.||-|.. |++.++. .|..+|-|.+.|-..+++.-|++.|++. .+.|
T Consensus 133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~-~~rg 210 (382)
T KOG1548|consen 133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDED-ELRG 210 (382)
T ss_pred cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcc-cccC
Confidence 3567999999999999999999999997755 7888885 5999999999999999999999999998 9999
Q ss_pred eEEEEEecCCCCC
Q 030227 79 RTLRFALSGQDKN 91 (181)
Q Consensus 79 ~~i~v~~a~~~~~ 91 (181)
+.|+|+.|+-+..
T Consensus 211 ~~~rVerAkfq~K 223 (382)
T KOG1548|consen 211 KKLRVERAKFQMK 223 (382)
T ss_pred cEEEEehhhhhhc
Confidence 9999998875433
No 84
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.88 E-value=3.2e-08 Score=74.39 Aligned_cols=88 Identities=17% Similarity=0.281 Sum_probs=69.2
Q ss_pred CCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEec-CCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC---eE
Q 030227 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPR-DKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN---RT 80 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~-~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g---~~ 80 (181)
.+.-++|||.+||.++...+|+.+|..|-.-+.+.+.. ++.....+-+||+.|.+.++|++|+..|||. .++- ..
T Consensus 31 ~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGv-rFDpE~~st 109 (284)
T KOG1457|consen 31 PGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGV-RFDPETGST 109 (284)
T ss_pred ccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCe-eeccccCce
Confidence 34578999999999999999999999986555554433 2333346689999999999999999999996 6653 57
Q ss_pred EEEEecCCCCCCC
Q 030227 81 LRFALSGQDKNTQ 93 (181)
Q Consensus 81 i~v~~a~~~~~~~ 93 (181)
|++.+++...+..
T Consensus 110 LhiElAKSNtK~k 122 (284)
T KOG1457|consen 110 LHIELAKSNTKRK 122 (284)
T ss_pred eEeeehhcCcccc
Confidence 8998887755443
No 85
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.84 E-value=5.6e-09 Score=80.37 Aligned_cols=82 Identities=27% Similarity=0.438 Sum_probs=76.0
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
-+...+||||+.+.++.+++...|+.||.+..+.++.++..+.++||+||+|.+.+.++.|++ ||+. .+.++.+.|.+
T Consensus 99 ~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs-~i~~~~i~vt~ 176 (231)
T KOG4209|consen 99 VDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGS-EIPGPAIEVTL 176 (231)
T ss_pred cCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCc-ccccccceeee
Confidence 356789999999999999999999999999999999999999999999999999999999999 9998 99999999988
Q ss_pred cCCC
Q 030227 86 SGQD 89 (181)
Q Consensus 86 a~~~ 89 (181)
....
T Consensus 177 ~r~~ 180 (231)
T KOG4209|consen 177 KRTN 180 (231)
T ss_pred eeee
Confidence 6553
No 86
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.74 E-value=3.7e-08 Score=81.55 Aligned_cols=80 Identities=23% Similarity=0.308 Sum_probs=65.5
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
....|||.|||+++++++|+++|+.||.|+...|..-.-.++...||||+|.+.++++.||.+ +- +.+++++|.|+-.
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp-~~ig~~kl~Veek 364 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SP-LEIGGRKLNVEEK 364 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-Cc-cccCCeeEEEEec
Confidence 455699999999999999999999999999976644211234449999999999999999986 43 5899999999865
Q ss_pred CC
Q 030227 87 GQ 88 (181)
Q Consensus 87 ~~ 88 (181)
..
T Consensus 365 ~~ 366 (419)
T KOG0116|consen 365 RP 366 (419)
T ss_pred cc
Confidence 44
No 87
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.66 E-value=2.2e-08 Score=83.78 Aligned_cols=71 Identities=21% Similarity=0.299 Sum_probs=65.0
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~ 82 (181)
.+..+|+|-|||.++++++|+.+|+.||+|..++. +-..+|..||+|.+.-+|+.|++.|++. .+.|++|+
T Consensus 73 ~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~-----t~~~~~~~~v~FyDvR~A~~Alk~l~~~-~~~~~~~k 143 (549)
T KOG4660|consen 73 MNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRE-----TPNKRGIVFVEFYDVRDAERALKALNRR-EIAGKRIK 143 (549)
T ss_pred CccceEEEEecCCcCCHHHHHHHHHhhcchhhhhc-----ccccCceEEEEEeehHhHHHHHHHHHHH-Hhhhhhhc
Confidence 45789999999999999999999999999999764 4456799999999999999999999998 99999888
No 88
>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=98.63 E-value=5.3e-07 Score=60.11 Aligned_cols=79 Identities=25% Similarity=0.365 Sum_probs=66.9
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhc--CCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeC----CeEEE
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQA--GRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLY----NRTLR 82 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~--G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~----g~~i~ 82 (181)
++|.|.|+|...|.++|.+.+... |..-.+.++.|..++.+.|||||.|.+++.|..-.+.++|. .+. .+.+.
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~-~w~~~~s~Kvc~ 80 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGK-KWPNFNSKKVCE 80 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCC-ccccCCCCcEEE
Confidence 689999999999999999888753 56666888888888899999999999999999999999997 654 35677
Q ss_pred EEecCC
Q 030227 83 FALSGQ 88 (181)
Q Consensus 83 v~~a~~ 88 (181)
|.+|+-
T Consensus 81 i~yAri 86 (97)
T PF04059_consen 81 ISYARI 86 (97)
T ss_pred EehhHh
Confidence 777754
No 89
>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=98.43 E-value=1.8e-06 Score=55.42 Aligned_cols=69 Identities=19% Similarity=0.372 Sum_probs=47.2
Q ss_pred CeEEEcCCCCcCcHHHH----HHHHHhcC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEE
Q 030227 9 CNVYIGNLDEKVSERVL----YDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l----~~~f~~~G-~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v 83 (181)
..|||.|||.+.+...| +.++..|| .+.+|. .+.|+|-|.+.+.|..|.+.|+|. .+.|.+|.|
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~----------~~tAilrF~~~~~A~RA~KRmegE-dVfG~kI~v 71 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS----------GGTAILRFPNQEFAERAQKRMEGE-DVFGNKISV 71 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT---SSSS--EE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe----------CCEEEEEeCCHHHHHHHHHhhccc-ccccceEEE
Confidence 35899999998888654 56666776 555552 257999999999999999999998 999999999
Q ss_pred EecCC
Q 030227 84 ALSGQ 88 (181)
Q Consensus 84 ~~a~~ 88 (181)
++...
T Consensus 72 ~~~~~ 76 (90)
T PF11608_consen 72 SFSPK 76 (90)
T ss_dssp ESS--
T ss_pred EEcCC
Confidence 99754
No 90
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.38 E-value=8.4e-07 Score=74.70 Aligned_cols=150 Identities=19% Similarity=0.255 Sum_probs=105.9
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhc-----------C-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCe
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQA-----------G-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIV 74 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~-----------G-~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~ 74 (181)
..+.+||+++|+.++++.+..+|..- | .+..+.+- ..+.++|++|.+.++|..++. +++.
T Consensus 174 q~~r~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~~s~~~n------~~~nfa~ie~~s~~~at~~~~-~~~~- 245 (500)
T KOG0120|consen 174 QARRLYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSFVSVQLN------LEKNFAFIEFRSISEATEAMA-LDGI- 245 (500)
T ss_pred hhhhhcccccCCccCcHhhhhhhhhhhhhcccccCCCCCceeeeeec------ccccceeEEecCCCchhhhhc-ccch-
Confidence 46789999999999999998888753 2 34555553 345799999999999999988 7776
Q ss_pred eeCCeEEEEEecCCCCCCCCCCCcc------CCCCCCCCCCCC-CccccCCcc-----------CCCCCcceecCCCCC-
Q 030227 75 TLYNRTLRFALSGQDKNTQNSSMTT------TPLSSRKSRSDP-VPVPVNGME-----------ISHHSMRISEPPPPG- 135 (181)
Q Consensus 75 ~i~g~~i~v~~a~~~~~~~~~~~~~------~~~~~~~~~~~~-~~~~~~~~~-----------f~~~g~i~~~~~~~~- 135 (181)
.+.|..+++................ .........+-. -.+.++++| ...+|.+....+..+
T Consensus 246 ~f~g~~~~~~r~~d~~~~p~~~~~~~~~~~~~~~~~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~ 325 (500)
T KOG0120|consen 246 IFEGRPLKIRRPHDYQPVPGITLSPSQLGKVGLLPASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDS 325 (500)
T ss_pred hhCCCCceecccccccCCccchhhhccccccCCcccccCcccccchhhhccCcCccCHHHHHHHHHhcccchhheeeccc
Confidence 8899988887665544433221111 111111111111 456777777 478888888999999
Q ss_pred CCCCCCccee-eecCC-Cchhh-hcccCcccc
Q 030227 136 VTHESNGYET-HLNVT-NYDYS-RRVFGATLD 164 (181)
Q Consensus 136 ~~~~~kG~gf-~f~~~-~~~~a-~~~~g~~~~ 164 (181)
.++-++||+| +|-+- ..+.| ..+||+.+.
T Consensus 326 ~~g~skg~af~ey~dpsvtd~A~agLnGm~lg 357 (500)
T KOG0120|consen 326 ATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLG 357 (500)
T ss_pred ccccccceeeeeeeCCcchhhhhcccchhhhc
Confidence 7899999999 55544 45566 999999887
No 91
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=98.38 E-value=3.8e-06 Score=70.07 Aligned_cols=139 Identities=17% Similarity=0.179 Sum_probs=92.7
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCC---CCCCcce---EEEEEeCCHHHHHHHHHHhCCCeeeCCe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDK---ETDKPKG---FAFVEYESEEIADYAIKLFSGIVTLYNR 79 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~---~~~~~~g---~afV~f~~~~~a~~al~~l~g~~~i~g~ 79 (181)
.-.++||||+||++++|++|...|..||.+ .+.|.... ...-++| |+|+.|+++...+.-|..... .-.+-
T Consensus 257 ~~S~KVFvGGlp~dise~~i~~~F~~FGs~-~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~--~~~~~ 333 (520)
T KOG0129|consen 257 RYSRKVFVGGLPWDITEAQINASFGQFGSV-KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSE--GEGNY 333 (520)
T ss_pred ccccceeecCCCccccHHHHHhhcccccce-EeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhh--cccce
Confidence 347899999999999999999999999974 44554211 1123566 999999999999888876543 22223
Q ss_pred EEEEEecCCCCC-CC------CCCCccCCCCCCCCCCC-C-CccccCCcc-----------C-CCCCcceecCCCCC-CC
Q 030227 80 TLRFALSGQDKN-TQ------NSSMTTTPLSSRKSRSD-P-VPVPVNGME-----------I-SHHSMRISEPPPPG-VT 137 (181)
Q Consensus 80 ~i~v~~a~~~~~-~~------~~~~~~~~~~~~~~~~~-~-~~~~~~~~~-----------f-~~~g~i~~~~~~~~-~~ 137 (181)
-++|+-...+.. .. ....++.. ...+- + .++++.++| + --||.|..+-|.+| +-
T Consensus 334 yf~vss~~~k~k~VQIrPW~laDs~fv~d----~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~ 409 (520)
T KOG0129|consen 334 YFKVSSPTIKDKEVQIRPWVLADSDFVLD----HNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKL 409 (520)
T ss_pred EEEEecCcccccceeEEeeEeccchhhhc----cCcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCccc
Confidence 344443322111 11 11122222 11222 2 688999999 2 47899999999999 88
Q ss_pred CCCCccee-eecCCC
Q 030227 138 HESNGYET-HLNVTN 151 (181)
Q Consensus 138 ~~~kG~gf-~f~~~~ 151 (181)
+.+||=|- .|+...
T Consensus 410 KYPkGaGRVtFsnqq 424 (520)
T KOG0129|consen 410 KYPKGAGRVTFSNQQ 424 (520)
T ss_pred CCCCCcceeeecccH
Confidence 88999998 776654
No 92
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.35 E-value=5.8e-07 Score=71.84 Aligned_cols=84 Identities=29% Similarity=0.420 Sum_probs=75.7
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEE--------EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVD--------LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN 78 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~--------~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g 78 (181)
...+|||.+||..+++++|.++|.+||.|.. ++|-+++.|++.++-|.|.|.+...|++|+..+++. .+.+
T Consensus 65 ~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agk-df~g 143 (351)
T KOG1995|consen 65 DNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGK-DFCG 143 (351)
T ss_pred ccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccc-cccC
Confidence 4668999999999999999999999997754 678889999999999999999999999999999998 8999
Q ss_pred eEEEEEecCCCCC
Q 030227 79 RTLRFALSGQDKN 91 (181)
Q Consensus 79 ~~i~v~~a~~~~~ 91 (181)
..|+|..+.....
T Consensus 144 n~ikvs~a~~r~~ 156 (351)
T KOG1995|consen 144 NTIKVSLAERRTG 156 (351)
T ss_pred CCchhhhhhhccC
Confidence 9999998876443
No 93
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.27 E-value=6.3e-06 Score=67.11 Aligned_cols=78 Identities=26% Similarity=0.399 Sum_probs=69.2
Q ss_pred CCeEEEcCCC-CcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 8 GCNVYIGNLD-EKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 8 ~~~l~V~nLp-~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
+..|.|.||. ..+|.+.|..+|..||.|..|+|+.++. --|+|++.+...|+.|+..|+|. .+.|++|+|.++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~-~l~gk~lrvt~S 370 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMSDGQQAQLAMEHLEGH-KLYGKKLRVTLS 370 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeecchhHHHHHHHHhhcc-eecCceEEEeec
Confidence 4678888886 6889999999999999999999998752 57999999999999999999998 999999999999
Q ss_pred CCCCC
Q 030227 87 GQDKN 91 (181)
Q Consensus 87 ~~~~~ 91 (181)
+...-
T Consensus 371 KH~~v 375 (492)
T KOG1190|consen 371 KHTNV 375 (492)
T ss_pred cCccc
Confidence 86443
No 94
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=98.11 E-value=1.2e-06 Score=69.29 Aligned_cols=58 Identities=14% Similarity=0.192 Sum_probs=48.5
Q ss_pred CCCCCCccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee--eecCCCchhh-hcccCccccc
Q 030227 107 SRSDPVPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET--HLNVTNYDYS-RRVFGATLDS 165 (181)
Q Consensus 107 ~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf--~f~~~~~~~a-~~~~g~~~~~ 165 (181)
....+..++|+++| |++||.|..+.|...+.| +||||| .-+.+|+|+| .+|+|+.+..
T Consensus 92 s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERG-SKGFGFVTmen~~dadRARa~LHgt~VEG 163 (376)
T KOG0125|consen 92 SKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERG-SKGFGFVTMENPADADRARAELHGTVVEG 163 (376)
T ss_pred CCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCC-CCccceEEecChhhHHHHHHHhhcceeec
Confidence 33344688999999 699999999999988777 899999 5566788899 9999999983
No 95
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=98.06 E-value=2.3e-06 Score=63.87 Aligned_cols=47 Identities=17% Similarity=0.134 Sum_probs=42.8
Q ss_pred CCCCCcceecCCCCC-CCCCCCccee--eecCCCchhh-hcccCcccccCC
Q 030227 121 ISHHSMRISEPPPPG-VTHESNGYET--HLNVTNYDYS-RRVFGATLDSIS 167 (181)
Q Consensus 121 f~~~g~i~~~~~~~~-~~~~~kG~gf--~f~~~~~~~a-~~~~g~~~~~~~ 167 (181)
|..||.|-.+.||.| .|.+++|||| ++..+++++| .+|+|.+|+..+
T Consensus 34 FekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRe 84 (256)
T KOG4207|consen 34 FEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRE 84 (256)
T ss_pred HHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccce
Confidence 899999999999999 9999999999 8888899999 999999988443
No 96
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.06 E-value=3.3e-06 Score=67.19 Aligned_cols=84 Identities=20% Similarity=0.442 Sum_probs=74.4
Q ss_pred CCCCeEE-EcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 6 NSGCNVY-IGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 6 ~~~~~l~-V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
.+..++| |++|++++++++|+..|..+|.|..+++..++.++.++|+|||.|.....+..++.. +.. .+.++.+.+.
T Consensus 182 ~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~-~~~~~~~~~~ 259 (285)
T KOG4210|consen 182 GPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTR-SIGGRPLRLE 259 (285)
T ss_pred CccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccC-cccCcccccc
Confidence 4456666 999999999999999999999999999999999999999999999999999999886 665 8999999999
Q ss_pred ecCCCCC
Q 030227 85 LSGQDKN 91 (181)
Q Consensus 85 ~a~~~~~ 91 (181)
...+...
T Consensus 260 ~~~~~~~ 266 (285)
T KOG4210|consen 260 EDEPRPK 266 (285)
T ss_pred cCCCCcc
Confidence 8766433
No 97
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.03 E-value=4.9e-06 Score=66.53 Aligned_cols=71 Identities=18% Similarity=0.351 Sum_probs=63.8
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcC--CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeE
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAG--RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRT 80 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G--~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~ 80 (181)
-.+|||||-|.+|+++|.+.+...| ++.++++..++..|.++|||+|...+....+..++.|... +|.|+.
T Consensus 81 ~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k-~iHGQ~ 153 (498)
T KOG4849|consen 81 YCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTK-TIHGQS 153 (498)
T ss_pred EEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccc-eecCCC
Confidence 3579999999999999999998877 6777888999999999999999999999999999988887 888873
No 98
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.03 E-value=1.8e-05 Score=65.83 Aligned_cols=78 Identities=24% Similarity=0.330 Sum_probs=62.5
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEE-EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVD-LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~-~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
....|-+.+||+.||+++|.++|+..--+.. +.++.++ .+++.|-|||.|++.+.|+.||.. |.. .|+.+-|.|..
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~r-hre-~iGhRYIEvF~ 178 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGR-HRE-NIGHRYIEVFR 178 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHH-HHH-hhccceEEeeh
Confidence 3457888999999999999999987643333 5666664 678999999999999999999985 443 68888888876
Q ss_pred cC
Q 030227 86 SG 87 (181)
Q Consensus 86 a~ 87 (181)
+.
T Consensus 179 Ss 180 (510)
T KOG4211|consen 179 SS 180 (510)
T ss_pred hH
Confidence 54
No 99
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.02 E-value=3.9e-05 Score=57.96 Aligned_cols=77 Identities=18% Similarity=0.321 Sum_probs=66.1
Q ss_pred CCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeC-CeEEEE
Q 030227 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLY-NRTLRF 83 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~-g~~i~v 83 (181)
.++...+|+.|||..++.+.+..+|.+|.....++++.. .++.|||+|.+...|..|...+++. .+- ...++|
T Consensus 143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~-----~~~iAfve~~~d~~a~~a~~~lq~~-~it~~~~m~i 216 (221)
T KOG4206|consen 143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPP-----RSGIAFVEFLSDRQASAAQQALQGF-KITKKNTMQI 216 (221)
T ss_pred CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccC-----CCceeEEecchhhhhHHHhhhhccc-eeccCceEEe
Confidence 567889999999999999999999999999999998765 3579999999999999999999986 555 667777
Q ss_pred EecC
Q 030227 84 ALSG 87 (181)
Q Consensus 84 ~~a~ 87 (181)
.+++
T Consensus 217 ~~a~ 220 (221)
T KOG4206|consen 217 TFAK 220 (221)
T ss_pred cccC
Confidence 6653
No 100
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.00 E-value=7.6e-06 Score=61.81 Aligned_cols=63 Identities=24% Similarity=0.261 Sum_probs=52.3
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCC
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~ 73 (181)
.+.+|||.||..+++|++|+.+|+.|.....++|-. ......||++|++.+.|..|+..|+|.
T Consensus 209 acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~----~~g~~vaf~~~~~~~~at~am~~lqg~ 271 (284)
T KOG1457|consen 209 ACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRA----RGGMPVAFADFEEIEQATDAMNHLQGN 271 (284)
T ss_pred hhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEec----CCCcceEeecHHHHHHHHHHHHHhhcc
Confidence 366899999999999999999999997666666532 123358999999999999999989886
No 101
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.93 E-value=1.5e-06 Score=76.11 Aligned_cols=115 Identities=21% Similarity=0.247 Sum_probs=88.0
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
..++||.||+..+.+.+|...|..+|.+..+++......++.+|+||++|..++.+.+||...+. .+.|+. .|...
T Consensus 667 ~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~--~~~gK~-~v~i~- 742 (881)
T KOG0128|consen 667 LIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDS--CFFGKI-SVAIS- 742 (881)
T ss_pred HHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhh--hhhhhh-hhhee-
Confidence 45789999999999999999999999888877665557889999999999999999999996555 333311 11111
Q ss_pred CCCCCCCCCCccCCCCCCCCCCCCCccccCCc------cCCCCCcceecCCCCCCCCCCCccee-eecCCC
Q 030227 88 QDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGM------EISHHSMRISEPPPPGVTHESNGYET-HLNVTN 151 (181)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~ 151 (181)
.+++.+. -++.+|.+.+.+++....|+++|.+| .|+...
T Consensus 743 -------------------------g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea 788 (881)
T KOG0128|consen 743 -------------------------GPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEA 788 (881)
T ss_pred -------------------------CCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcc
Confidence 0111221 16788999999988889999999999 887764
No 102
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.85 E-value=6.1e-06 Score=60.45 Aligned_cols=44 Identities=11% Similarity=0.009 Sum_probs=38.1
Q ss_pred CCCCCcceecCCCCC-CCCCCCccee--eecCCCchhh-hcccCcccc
Q 030227 121 ISHHSMRISEPPPPG-VTHESNGYET--HLNVTNYDYS-RRVFGATLD 164 (181)
Q Consensus 121 f~~~g~i~~~~~~~~-~~~~~kG~gf--~f~~~~~~~a-~~~~g~~~~ 164 (181)
|+|||++..+.+.+| .||+++||+| +-+.++.=.| ..|||..+.
T Consensus 56 FSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~ 103 (219)
T KOG0126|consen 56 FSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKIL 103 (219)
T ss_pred eeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceec
Confidence 899999999999999 9999999999 5555666667 888888776
No 103
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=97.81 E-value=6.4e-06 Score=59.14 Aligned_cols=53 Identities=15% Similarity=0.205 Sum_probs=44.2
Q ss_pred CccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCCCchhh--hcccCcccc
Q 030227 112 VPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVTNYDYS--RRVFGATLD 164 (181)
Q Consensus 112 ~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~~~a--~~~~g~~~~ 164 (181)
..++|.+|+ |.++|.|..+.++.| .+++++|||| .|.+.+.+.+ ..+||..|+
T Consensus 35 ~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~ 102 (144)
T PLN03134 35 TKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELN 102 (144)
T ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence 467788888 899999999999999 8999999999 8876654444 778888877
No 104
>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=97.80 E-value=8.1e-05 Score=50.53 Aligned_cols=58 Identities=22% Similarity=0.362 Sum_probs=37.7
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFS 71 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~ 71 (181)
+..|.|.+++..++.++|++.|+.+|.|..|.+.+.. ..|||-|.+.+.|+.|+..+.
T Consensus 1 G~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~~ 58 (105)
T PF08777_consen 1 GCILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKLK 58 (105)
T ss_dssp --EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHH
T ss_pred CeEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHHH
Confidence 4578899999999999999999999999999886542 379999999999999987654
No 105
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.77 E-value=5e-06 Score=67.23 Aligned_cols=143 Identities=15% Similarity=0.107 Sum_probs=88.9
Q ss_pred eEEEcCCCCcCcHHHHHHHHHh---c-CCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 10 NVYIGNLDEKVSERVLYDILIQ---A-GRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 10 ~l~V~nLp~~~te~~l~~~f~~---~-G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
.|-..+||+++++.++.++|.. . |....+.++..+ .|+..|-|||.|..+++|+.||.. |.. .|+.|.|.+..
T Consensus 163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~k-hrq-~iGqRYIElFR 239 (508)
T KOG1365|consen 163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRK-HRQ-NIGQRYIELFR 239 (508)
T ss_pred EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHHH-HHH-HHhHHHHHHHH
Confidence 4566799999999999999963 2 244556555543 689999999999999999999985 444 66666666655
Q ss_pred cCCCCCCC-----------CC--CCccCCCCCCCCCCCC--CccccCCccCC-----------CCCccee---cCCCCCC
Q 030227 86 SGQDKNTQ-----------NS--SMTTTPLSSRKSRSDP--VPVPVNGMEIS-----------HHSMRIS---EPPPPGV 136 (181)
Q Consensus 86 a~~~~~~~-----------~~--~~~~~~~~~~~~~~~~--~~~~~~~~~f~-----------~~g~i~~---~~~~~~~ 136 (181)
++...-.. .. .......+....++.. -.+...+||++ .|-..+. +.+....
T Consensus 240 STaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~ 319 (508)
T KOG1365|consen 240 STAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG 319 (508)
T ss_pred HhHHHHHHHHHhhccccccCCCCCCCCCCCccccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC
Confidence 54211110 00 0000000111111111 34567888842 2222222 4455668
Q ss_pred CCCCCccee-eecCCCchhh
Q 030227 137 THESNGYET-HLNVTNYDYS 155 (181)
Q Consensus 137 ~~~~kG~gf-~f~~~~~~~a 155 (181)
.|++.|-+| +|..++.+.|
T Consensus 320 qGrPSGeAFIqm~nae~a~a 339 (508)
T KOG1365|consen 320 QGRPSGEAFIQMRNAERARA 339 (508)
T ss_pred CCCcChhhhhhhhhhHHHHH
Confidence 889999999 9988877776
No 106
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.68 E-value=9.4e-05 Score=58.91 Aligned_cols=140 Identities=17% Similarity=0.126 Sum_probs=94.3
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
...++|++++.+.+.+.+...++...|......+........+++++++.|...+.+..+|. +.+...+.++.+.....
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~-~s~~~~~~~~~~~~dl~ 165 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALE-ESGSKVLDGNKGEKDLN 165 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHH-hhhccccccccccCccc
Confidence 36789999999999999888999999988887777766778899999999999999999998 44432455555444433
Q ss_pred CCCCCCCCCCCccCCCCCCCCCCCCCccccCCc-----------cCCCCCcceecCCCCC-CCCCCCccee-eecCCCc
Q 030227 87 GQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGM-----------EISHHSMRISEPPPPG-VTHESNGYET-HLNVTNY 152 (181)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~ 152 (181)
....... .+.......+ +......+.++ .|..+++|..+++|.+ .++.++|||| .|....-
T Consensus 166 ~~~~~~~-~n~~~~~~~~----~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~ 239 (285)
T KOG4210|consen 166 TRRGLRP-KNKLSRLSSG----PSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNS 239 (285)
T ss_pred ccccccc-cchhcccccC----ccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchh
Confidence 3211110 0000000000 00011112222 2788999999999999 8999999999 7765543
No 107
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.67 E-value=0.00014 Score=59.42 Aligned_cols=78 Identities=23% Similarity=0.226 Sum_probs=63.5
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCe-EEEEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR-TLRFA 84 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~-~i~v~ 84 (181)
+|+.++...|+|++++|++|++.|.+-|....... .-++.+.++++.+.+.++|..|+..++.. .++.. .++|+
T Consensus 412 PpsatlHlsnip~svsee~lk~~f~~~g~~vkafk----ff~kd~kmal~q~~sveeA~~ali~~hnh-~lgen~hlRvS 486 (492)
T KOG1190|consen 412 PPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFK----FFQKDRKMALPQLESVEEAIQALIDLHNH-YLGENHHLRVS 486 (492)
T ss_pred CchhheeeccCCcccchhHHHHhhhcCCceEEeee----ecCCCcceeecccCChhHhhhhccccccc-cCCCCceEEEE
Confidence 56889999999999999999999998886544322 12445679999999999999999888886 66554 89999
Q ss_pred ecCC
Q 030227 85 LSGQ 88 (181)
Q Consensus 85 ~a~~ 88 (181)
+++.
T Consensus 487 FSks 490 (492)
T KOG1190|consen 487 FSKS 490 (492)
T ss_pred eecc
Confidence 9864
No 108
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.67 E-value=0.00015 Score=57.93 Aligned_cols=80 Identities=19% Similarity=0.286 Sum_probs=61.9
Q ss_pred CCeEEEcCCCCcCcHHH----H--HHHHHhcCCeEEEEEecCC---CCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC
Q 030227 8 GCNVYIGNLDEKVSERV----L--YDILIQAGRVVDLYIPRDK---ETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN 78 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~----l--~~~f~~~G~i~~~~i~~~~---~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g 78 (181)
..-+||-+||+.+-.++ | .++|.+||.|..|.+-+-. .+....-..||.|.+.++|..+|...+|. .++|
T Consensus 114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs-~~DG 192 (480)
T COG5175 114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGS-LLDG 192 (480)
T ss_pred cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccc-cccC
Confidence 34579999998777665 3 5889999999998775432 11112223499999999999999999998 9999
Q ss_pred eEEEEEecCC
Q 030227 79 RTLRFALSGQ 88 (181)
Q Consensus 79 ~~i~v~~a~~ 88 (181)
+.|+..+...
T Consensus 193 r~lkatYGTT 202 (480)
T COG5175 193 RVLKATYGTT 202 (480)
T ss_pred ceEeeecCch
Confidence 9999987654
No 109
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.66 E-value=0.00018 Score=60.38 Aligned_cols=64 Identities=23% Similarity=0.290 Sum_probs=60.3
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHH-hcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHH
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILI-QAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKL 69 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~-~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~ 69 (181)
++.+|||||+||.-++.++|-.+|. .||.|..+-|-.|++-+.++|-|=|.|.+..+--+||..
T Consensus 368 DprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 368 DPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred CccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 7899999999999999999999998 799999999999988899999999999999999999874
No 110
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.62 E-value=0.00047 Score=55.92 Aligned_cols=81 Identities=22% Similarity=0.350 Sum_probs=70.0
Q ss_pred CCCCCeEEEcCCCCc-CcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEE
Q 030227 5 SNSGCNVYIGNLDEK-VSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~-~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v 83 (181)
..+++.+.|-+|... .+.+.|.++|..||.|..|++++.+ .|.|.|++.+....+.|+..||+. .+-|.+|.|
T Consensus 284 ~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~-~lfG~kl~v 357 (494)
T KOG1456|consen 284 GAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNI-PLFGGKLNV 357 (494)
T ss_pred CCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccC-ccccceEEE
Confidence 356889999999964 5557799999999999999999874 378999999999999999999997 889999999
Q ss_pred EecCCCCC
Q 030227 84 ALSGQDKN 91 (181)
Q Consensus 84 ~~a~~~~~ 91 (181)
..++...-
T Consensus 358 ~~SkQ~~v 365 (494)
T KOG1456|consen 358 CVSKQNFV 365 (494)
T ss_pred eecccccc
Confidence 98876443
No 111
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=97.61 E-value=1.1e-05 Score=61.20 Aligned_cols=40 Identities=15% Similarity=0.184 Sum_probs=35.4
Q ss_pred CccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCCC
Q 030227 112 VPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVTN 151 (181)
Q Consensus 112 ~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~ 151 (181)
+++++.+|+ |++||+|+...+.+| .++++||||| .|.+.+
T Consensus 13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~ 65 (247)
T KOG0149|consen 13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAE 65 (247)
T ss_pred EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHH
Confidence 678889998 899999999999999 9999999999 775543
No 112
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.57 E-value=0.00027 Score=61.34 Aligned_cols=78 Identities=21% Similarity=0.257 Sum_probs=66.4
Q ss_pred CCCC-eEEEcCCCCcCcHHHHHHHHHhcCCe-EEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEE
Q 030227 6 NSGC-NVYIGNLDEKVSERVLYDILIQAGRV-VDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 6 ~~~~-~l~V~nLp~~~te~~l~~~f~~~G~i-~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v 83 (181)
.+++ .|-|.|+|++++-+||.++|..|-.+ -+|.+-++ +.|...|-|-|.|++.++|..|...|++. .|..+.+.+
T Consensus 864 ~pGp~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~n-d~G~pTGe~mvAfes~~eAr~A~~dl~~~-~i~nr~V~l 941 (944)
T KOG4307|consen 864 SPGPRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRN-DDGVPTGECMVAFESQEEARRASMDLDGQ-KIRNRVVSL 941 (944)
T ss_pred CCCCeEEEecCCCccccHHHHHHHhcccccCCCceeEeec-CCCCcccceeEeecCHHHHHhhhhccccC-cccceeEEE
Confidence 3455 67889999999999999999999755 34555555 67999999999999999999999999998 999998887
Q ss_pred Ee
Q 030227 84 AL 85 (181)
Q Consensus 84 ~~ 85 (181)
.+
T Consensus 942 ~i 943 (944)
T KOG4307|consen 942 RI 943 (944)
T ss_pred Ee
Confidence 64
No 113
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.57 E-value=0.00047 Score=55.90 Aligned_cols=82 Identities=22% Similarity=0.261 Sum_probs=64.7
Q ss_pred CCCCCeEEEc--CCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC-eEE
Q 030227 5 SNSGCNVYIG--NLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN-RTL 81 (181)
Q Consensus 5 ~~~~~~l~V~--nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g-~~i 81 (181)
..+++.|.+. |--..+|.+-|+.+....|+|..|.|.+- .--.|.|+|++.+.|++|...|||.....| +.|
T Consensus 117 ~~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk-----ngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTL 191 (494)
T KOG1456|consen 117 ATPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK-----NGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTL 191 (494)
T ss_pred CCCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec-----cceeeEEeechhHHHHHHHhhcccccccccceeE
Confidence 3455555555 43467888999999999999999988763 234799999999999999999999845555 489
Q ss_pred EEEecCCCCC
Q 030227 82 RFALSGQDKN 91 (181)
Q Consensus 82 ~v~~a~~~~~ 91 (181)
+|++|++.+-
T Consensus 192 KIeyAkP~rl 201 (494)
T KOG1456|consen 192 KIEYAKPTRL 201 (494)
T ss_pred EEEecCccee
Confidence 9999987543
No 114
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.57 E-value=0.00016 Score=58.76 Aligned_cols=78 Identities=15% Similarity=0.123 Sum_probs=66.8
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcC-CeEE--EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAG-RVVD--LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G-~i~~--~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
...|-..+||+..+.++|..+|..|- .|.. |+++.+ ..|++.|-|||+|.+.+.|.+|....+.. .+..+.|.|.
T Consensus 280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N-~qGrPSGeAFIqm~nae~a~aaaqk~hk~-~mk~RYiEvf 357 (508)
T KOG1365|consen 280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLN-GQGRPSGEAFIQMRNAERARAAAQKCHKK-LMKSRYIEVF 357 (508)
T ss_pred CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEc-CCCCcChhhhhhhhhhHHHHHHHHHHHHh-hcccceEEEe
Confidence 55788999999999999999999987 3333 788877 57999999999999999999999888886 6678889887
Q ss_pred ecC
Q 030227 85 LSG 87 (181)
Q Consensus 85 ~a~ 87 (181)
.+.
T Consensus 358 p~S 360 (508)
T KOG1365|consen 358 PCS 360 (508)
T ss_pred ecc
Confidence 765
No 115
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.54 E-value=0.00039 Score=41.14 Aligned_cols=52 Identities=17% Similarity=0.481 Sum_probs=41.4
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHH
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAI 67 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al 67 (181)
+.|-|.|.+.+.. +.+...|.+||+|..+.+. ....+.+|.|.++.+|++||
T Consensus 2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~------~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVP------ESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcC------CCCcEEEEEECCHHHHHhhC
Confidence 4577888887665 4466699999999998875 23458999999999999985
No 116
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.52 E-value=7.9e-05 Score=56.59 Aligned_cols=71 Identities=28% Similarity=0.363 Sum_probs=61.2
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
..+.+.|.+++-.+.+.+|.+.|..+|++....+ ..+++||+|...++|..|+..|++. .+.++.|.+...
T Consensus 98 s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~-~~~~~~l~~~~~ 168 (216)
T KOG0106|consen 98 THFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGK-KLNGRRISVEKN 168 (216)
T ss_pred ccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccch-hhcCceeeeccc
Confidence 3567889999999999999999999999844433 3468999999999999999999998 999999999543
No 117
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.50 E-value=0.0013 Score=46.97 Aligned_cols=80 Identities=21% Similarity=0.249 Sum_probs=52.8
Q ss_pred CCCCCCeEEEcCCC------CcCcH---HHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCe
Q 030227 4 NSNSGCNVYIGNLD------EKVSE---RVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIV 74 (181)
Q Consensus 4 ~~~~~~~l~V~nLp------~~~te---~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~ 74 (181)
..++-.+|.|.-+. ....+ .+|.+.|..||.+.-++++.+ .-+|+|.+.+.|.+|+. ++|.
T Consensus 23 ~GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals-~dg~- 92 (146)
T PF08952_consen 23 QGPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALS-LDGI- 92 (146)
T ss_dssp ---TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHH-GCCS-
T ss_pred cCCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHc-cCCc-
Confidence 34556677666554 12222 357778889999998888765 47899999999999999 8997
Q ss_pred eeCCeEEEEEecCCCCCCC
Q 030227 75 TLYNRTLRFALSGQDKNTQ 93 (181)
Q Consensus 75 ~i~g~~i~v~~a~~~~~~~ 93 (181)
.+.|+.|+|....++....
T Consensus 93 ~v~g~~l~i~LKtpdW~~~ 111 (146)
T PF08952_consen 93 QVNGRTLKIRLKTPDWLKG 111 (146)
T ss_dssp EETTEEEEEEE--------
T ss_pred EECCEEEEEEeCCccHHHH
Confidence 9999999999877755543
No 118
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.47 E-value=6.1e-05 Score=61.83 Aligned_cols=78 Identities=27% Similarity=0.368 Sum_probs=62.6
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEE-EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVD-LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~-~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
.++|+|||.+.++..+|+.+|...--..+ -.++ ..||+||.+.+...|..|++.+++.+.+.|+++.+..+-
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~-------k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv 74 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV-------KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSV 74 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceee-------ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchh
Confidence 46899999999999999999976421111 1222 348999999999999999999999989999999999887
Q ss_pred CCCCCC
Q 030227 88 QDKNTQ 93 (181)
Q Consensus 88 ~~~~~~ 93 (181)
+++...
T Consensus 75 ~kkqrs 80 (584)
T KOG2193|consen 75 PKKQRS 80 (584)
T ss_pred hHHHHh
Confidence 755544
No 119
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=97.46 E-value=0.00063 Score=50.24 Aligned_cols=60 Identities=30% Similarity=0.337 Sum_probs=55.2
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCC
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~ 73 (181)
....|.|.+||.+.++++|+++..+-|.++...+.+| |++.|+|...++.+-|+..|+.+
T Consensus 114 Se~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~ 173 (241)
T KOG0105|consen 114 SEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQ 173 (241)
T ss_pred cceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhccc
Confidence 3568999999999999999999999999999998877 58999999999999999988876
No 120
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.41 E-value=0.00013 Score=59.99 Aligned_cols=68 Identities=26% Similarity=0.196 Sum_probs=57.5
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecC---CCCC--C--------cceEEEEEeCCHHHHHHHHHHhCC
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRD---KETD--K--------PKGFAFVEYESEEIADYAIKLFSG 72 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~---~~~~--~--------~~g~afV~f~~~~~a~~al~~l~g 72 (181)
-++++|.+.|||.+-.-+.|.++|..+|.|+.|+|+.. +... . .+-+|+|+|...+.|.+|.+.|+.
T Consensus 229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~ 308 (484)
T KOG1855|consen 229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP 308 (484)
T ss_pred cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence 47899999999999988999999999999999999876 3222 1 256899999999999999997754
Q ss_pred C
Q 030227 73 I 73 (181)
Q Consensus 73 ~ 73 (181)
.
T Consensus 309 e 309 (484)
T KOG1855|consen 309 E 309 (484)
T ss_pred h
Confidence 3
No 121
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.40 E-value=0.001 Score=56.56 Aligned_cols=76 Identities=32% Similarity=0.472 Sum_probs=59.8
Q ss_pred CCeEEEcCCCCcCcH------HHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC-eE
Q 030227 8 GCNVYIGNLDEKVSE------RVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN-RT 80 (181)
Q Consensus 8 ~~~l~V~nLp~~~te------~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g-~~ 80 (181)
-..|+|.|+|.--.. .-|..+|+++|++....++.+.. |..+||.|++|.+..+|+.|++.|||. .++- ++
T Consensus 58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~-ggtkG~lf~E~~~~~~A~~aVK~l~G~-~ldknHt 135 (698)
T KOG2314|consen 58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE-GGTKGYLFVEYASMRDAKKAVKSLNGK-RLDKNHT 135 (698)
T ss_pred ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc-CCeeeEEEEEecChhhHHHHHHhcccc-eecccce
Confidence 457889999843222 23567899999999999998865 559999999999999999999999998 5554 46
Q ss_pred EEEEe
Q 030227 81 LRFAL 85 (181)
Q Consensus 81 i~v~~ 85 (181)
..|..
T Consensus 136 f~v~~ 140 (698)
T KOG2314|consen 136 FFVRL 140 (698)
T ss_pred EEeeh
Confidence 66653
No 122
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.34 E-value=0.00013 Score=64.79 Aligned_cols=148 Identities=20% Similarity=0.211 Sum_probs=98.1
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~ 85 (181)
-.+++||+|||+..+++.+|+..|..+|.+..|.|-..+ .+.-.-|+||.|.+...+..|+..+.+. .|..-.+++.+
T Consensus 370 ~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~-~I~~g~~r~gl 447 (975)
T KOG0112|consen 370 RATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGP-LIGNGTHRIGL 447 (975)
T ss_pred hhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhcCC-ccccCcccccc
Confidence 347899999999999999999999999999999886543 4555679999999999999999989887 55544555554
Q ss_pred cCCCCCCCCCCCccCCCCCCCCCCCCCccccCCccCCCCCcceecCCCCCCCCCCCccee-eecCCCchhh--hcccCcc
Q 030227 86 SGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEISHHSMRISEPPPPGVTHESNGYET-HLNVTNYDYS--RRVFGAT 162 (181)
Q Consensus 86 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~~~~a--~~~~g~~ 162 (181)
... .......+.+.+... ..++..-+-.|..||.|..+-+-- .--|+| .|....+..| +.+-|..
T Consensus 448 G~~-kst~ttr~~sgglg~------w~p~~~l~r~fd~fGpir~Idy~h-----gq~yayi~yes~~~aq~a~~~~rgap 515 (975)
T KOG0112|consen 448 GQP-KSTPTTRLQSGGLGP------WSPVSRLNREFDRFGPIRIIDYRH-----GQPYAYIQYESPPAAQAATHDMRGAP 515 (975)
T ss_pred ccc-ccccceeeccCCCCC------CChHHHHHHHhhccCcceeeeccc-----CCcceeeecccCccchhhHHHHhcCc
Confidence 432 111111111111100 012222222277788776533321 134888 8888887777 8888888
Q ss_pred cccCC
Q 030227 163 LDSIS 167 (181)
Q Consensus 163 ~~~~~ 167 (181)
|+..-
T Consensus 516 ~G~P~ 520 (975)
T KOG0112|consen 516 LGGPP 520 (975)
T ss_pred CCCCC
Confidence 87544
No 123
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=97.34 E-value=0.00011 Score=61.45 Aligned_cols=52 Identities=17% Similarity=0.146 Sum_probs=44.4
Q ss_pred ccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecC-CCchhh-hcccCcccc
Q 030227 113 PVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNV-TNYDYS-RRVFGATLD 164 (181)
Q Consensus 113 ~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~-~~~~~a-~~~~g~~~~ 164 (181)
.+++.++| |+..|.|+++++..| ++|+++|||| +|.+ ++++.| +.|||.++.
T Consensus 20 ~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~ 86 (435)
T KOG0108|consen 20 SVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFN 86 (435)
T ss_pred ceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccC
Confidence 45566666 799999999999999 9999999999 7776 778888 888888877
No 124
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=97.31 E-value=6.6e-05 Score=57.47 Aligned_cols=53 Identities=13% Similarity=0.077 Sum_probs=43.8
Q ss_pred CccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecC-CCchhh-hcccCcccc
Q 030227 112 VPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNV-TNYDYS-RRVFGATLD 164 (181)
Q Consensus 112 ~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~-~~~~~a-~~~~g~~~~ 164 (181)
..+.+.+|+ |..+|.|.++.+..| .||.+||||| .|.+ ++++.| ..|||.-.+
T Consensus 190 ~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd 257 (270)
T KOG0122|consen 190 ATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYD 257 (270)
T ss_pred ceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccc
Confidence 456777777 899999999999999 9999999999 5555 456666 999998766
No 125
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=0.00027 Score=53.49 Aligned_cols=44 Identities=7% Similarity=-0.005 Sum_probs=34.2
Q ss_pred CCCCCcceecCCCCC-CCCCCCccee-eecCCCc-hhh-hcccCcccc
Q 030227 121 ISHHSMRISEPPPPG-VTHESNGYET-HLNVTNY-DYS-RRVFGATLD 164 (181)
Q Consensus 121 f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~-~~a-~~~~g~~~~ 164 (181)
|=.||+|..+.+|.| .+++++|||| +|...+- +.| ..+|+++|=
T Consensus 31 FIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~ 78 (298)
T KOG0111|consen 31 FIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELF 78 (298)
T ss_pred cccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhc
Confidence 888999999999999 8999999999 7765543 333 555555543
No 126
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.21 E-value=0.00039 Score=53.64 Aligned_cols=72 Identities=21% Similarity=0.316 Sum_probs=59.7
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCC--------CCcce----EEEEEeCCHHHHHHHHHHhCCCee
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKET--------DKPKG----FAFVEYESEEIADYAIKLFSGIVT 75 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~--------~~~~g----~afV~f~~~~~a~~al~~l~g~~~ 75 (181)
.-.||++++|+.....-|+++|+.||.|-.|.+-....+ |..+. -|.|+|.+...|......||+. .
T Consensus 74 ~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~-~ 152 (278)
T KOG3152|consen 74 TGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNT-P 152 (278)
T ss_pred ceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCC-c
Confidence 357999999999999999999999999999988665433 22222 4669999999999999999998 8
Q ss_pred eCCeE
Q 030227 76 LYNRT 80 (181)
Q Consensus 76 i~g~~ 80 (181)
|+|+.
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 88864
No 127
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.19 E-value=0.0024 Score=51.30 Aligned_cols=78 Identities=19% Similarity=0.226 Sum_probs=61.8
Q ss_pred CCCeEEEcCCC----CcCc-------HHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCee
Q 030227 7 SGCNVYIGNLD----EKVS-------ERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVT 75 (181)
Q Consensus 7 ~~~~l~V~nLp----~~~t-------e~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~ 75 (181)
..++|.+.|+= ...+ +++|.+-..+||.+..|.+.- ..+.|.+-|.|.+.+.|+.+|+.|+|. .
T Consensus 264 ~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d----~hPdGvvtV~f~n~eeA~~ciq~m~GR-~ 338 (382)
T KOG1548|consen 264 ADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYD----RHPDGVVTVSFRNNEEADQCIQTMDGR-W 338 (382)
T ss_pred CCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEec----cCCCceeEEEeCChHHHHHHHHHhcCe-e
Confidence 35688888873 2333 245666688899999987753 346789999999999999999999998 9
Q ss_pred eCCeEEEEEecCCC
Q 030227 76 LYNRTLRFALSGQD 89 (181)
Q Consensus 76 i~g~~i~v~~a~~~ 89 (181)
++||.|..+.....
T Consensus 339 fdgRql~A~i~DG~ 352 (382)
T KOG1548|consen 339 FDGRQLTASIWDGK 352 (382)
T ss_pred ecceEEEEEEeCCc
Confidence 99999999877553
No 128
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.11 E-value=0.0011 Score=59.22 Aligned_cols=83 Identities=22% Similarity=0.231 Sum_probs=70.4
Q ss_pred CCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC--eEEE
Q 030227 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN--RTLR 82 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g--~~i~ 82 (181)
..+++.+||++|+..+....|...|..||.|..|.+-.. -.|+||.+.+...+++|+..|.+. .+++ ++++
T Consensus 452 st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg------q~yayi~yes~~~aq~a~~~~rga-p~G~P~~r~r 524 (975)
T KOG0112|consen 452 STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG------QPYAYIQYESPPAAQAATHDMRGA-PLGGPPRRLR 524 (975)
T ss_pred cccceeeccCCCCCCChHHHHHHHhhccCcceeeecccC------CcceeeecccCccchhhHHHHhcC-cCCCCCcccc
Confidence 356789999999999999999999999999999876332 259999999999999999999997 8777 5899
Q ss_pred EEecCCCCCCCC
Q 030227 83 FALSGQDKNTQN 94 (181)
Q Consensus 83 v~~a~~~~~~~~ 94 (181)
|.++...-..+.
T Consensus 525 vdla~~~~~~Pq 536 (975)
T KOG0112|consen 525 VDLASPPGATPQ 536 (975)
T ss_pred cccccCCCCChh
Confidence 999987555543
No 129
>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=97.05 E-value=0.0052 Score=41.24 Aligned_cols=77 Identities=10% Similarity=0.158 Sum_probs=50.9
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEE-EecCC------CCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCe
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLY-IPRDK------ETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR 79 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~-i~~~~------~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~ 79 (181)
..+-|.|=+.|+. ....+.+.|++||.|.+.. +.++. -......+-.|.|+++.+|++||. -||. .+.|.
T Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~-i~~g~ 81 (100)
T PF05172_consen 5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGT-IFSGS 81 (100)
T ss_dssp GCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTE-EETTC
T ss_pred CCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCe-EEcCc
Confidence 3556778899987 4567888999999998864 11110 011344689999999999999999 6998 88875
Q ss_pred -EEEEEec
Q 030227 80 -TLRFALS 86 (181)
Q Consensus 80 -~i~v~~a 86 (181)
.+-|.+.
T Consensus 82 ~mvGV~~~ 89 (100)
T PF05172_consen 82 LMVGVKPC 89 (100)
T ss_dssp EEEEEEE-
T ss_pred EEEEEEEc
Confidence 5556665
No 130
>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=97.04 E-value=4.8e-05 Score=46.87 Aligned_cols=45 Identities=13% Similarity=0.136 Sum_probs=37.0
Q ss_pred CCCCCcceecCCCCCCCCCCCccee-eecCCCch-hh-hcccCccccc
Q 030227 121 ISHHSMRISEPPPPGVTHESNGYET-HLNVTNYD-YS-RRVFGATLDS 165 (181)
Q Consensus 121 f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~~~-~a-~~~~g~~~~~ 165 (181)
|+++|.+..+.+..+.++.++|+|| .|.+.+.+ .| ..++|..+++
T Consensus 19 f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~ 66 (70)
T PF00076_consen 19 FSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKING 66 (70)
T ss_dssp HHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred HHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECc
Confidence 7999999999998888888999999 77766544 44 7799988875
No 131
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=96.97 E-value=0.00035 Score=54.99 Aligned_cols=45 Identities=16% Similarity=0.132 Sum_probs=39.4
Q ss_pred CCCCCcceecCCCCC-CCCCCCccee-eecC-CCchhh-hcccCccccc
Q 030227 121 ISHHSMRISEPPPPG-VTHESNGYET-HLNV-TNYDYS-RRVFGATLDS 165 (181)
Q Consensus 121 f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~-~~~~~a-~~~~g~~~~~ 165 (181)
|+.||.|..++|+.| .||+++|||| .|.. .+|..| ...+|..|+.
T Consensus 122 F~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idg 170 (335)
T KOG0113|consen 122 FEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDG 170 (335)
T ss_pred HHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecC
Confidence 899999999999999 9999999999 6654 577778 8888888884
No 132
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=96.89 E-value=0.0025 Score=52.10 Aligned_cols=74 Identities=9% Similarity=0.194 Sum_probs=58.6
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCC---CCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDK---ETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~---~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
..|-|.||.++++.++++.+|...|.|..+.++.+. ........|||.|.+...+..|-. |-.+ .+-++.|-|.
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltnt-vfvdraliv~ 84 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNT-VFVDRALIVR 84 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccc-eeeeeeEEEE
Confidence 389999999999999999999999999999887642 223466799999999999998877 5555 4445544444
No 133
>smart00361 RRM_1 RNA recognition motif.
Probab=96.75 E-value=0.00033 Score=43.79 Aligned_cols=44 Identities=9% Similarity=-0.064 Sum_probs=31.8
Q ss_pred CCCCcceecC-CCCC-CC--CCCCccee-eecCCC-chhh-hcccCccccc
Q 030227 122 SHHSMRISEP-PPPG-VT--HESNGYET-HLNVTN-YDYS-RRVFGATLDS 165 (181)
Q Consensus 122 ~~~g~i~~~~-~~~~-~~--~~~kG~gf-~f~~~~-~~~a-~~~~g~~~~~ 165 (181)
..+|.+.++. +..+ .+ +.++|||| .|.+.+ +..| ..|||..++.
T Consensus 14 ~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~g 64 (70)
T smart00361 14 EYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDG 64 (70)
T ss_pred HhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECC
Confidence 3788888774 5554 44 88999999 666654 4455 8899988764
No 134
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.73 E-value=0.00067 Score=60.07 Aligned_cols=79 Identities=20% Similarity=0.183 Sum_probs=69.0
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
...|+|.|+|+..|.++++.+++.+|.+.++.++..+ .|+++|.++|.|.++.++..++..++.. .+....+.|..+.
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~vsn 813 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVA-GKRENNGEVQVSN 813 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhh-hhhhcCccccccC
Confidence 3578999999999999999999999999999888775 6999999999999999999998877775 6666677777766
Q ss_pred C
Q 030227 88 Q 88 (181)
Q Consensus 88 ~ 88 (181)
+
T Consensus 814 p 814 (881)
T KOG0128|consen 814 P 814 (881)
T ss_pred C
Confidence 5
No 135
>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=96.63 E-value=0.0082 Score=38.69 Aligned_cols=59 Identities=15% Similarity=0.205 Sum_probs=42.1
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCC
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSG 72 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g 72 (181)
+....||--..|..|...||.++|+.||.| .|.++.| .-|||...+.+.|..++..+..
T Consensus 6 P~RdHVFhltFPkeWK~~DI~qlFspfG~I-~VsWi~d-------TSAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 6 PSRDHVFHLTFPKEWKTSDIYQLFSPFGQI-YVSWIND-------TSAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp -SGCCEEEEE--TT--HHHHHHHCCCCCCE-EEEEECT-------TEEEEEECCCHHHHHHHHHHTT
T ss_pred CCcceEEEEeCchHhhhhhHHHHhccCCcE-EEEEEcC-------CcEEEEeecHHHHHHHHHHhcc
Confidence 333344444499999999999999999985 5666655 3799999999999999887753
No 136
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.56 E-value=0.022 Score=34.68 Aligned_cols=54 Identities=19% Similarity=0.123 Sum_probs=44.2
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhc---CCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHh
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQA---GRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLF 70 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~---G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l 70 (181)
..|+|.|+. +.+.++|+.+|..| .....|.|+-|. -|=|.|.+.+.|.+||..|
T Consensus 6 eavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 578999997 57778899999988 245788998883 4779999999999999764
No 137
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=96.55 E-value=0.0012 Score=50.90 Aligned_cols=144 Identities=14% Similarity=0.096 Sum_probs=86.9
Q ss_pred eEEEcCCCCcCcHHH-H--HHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 10 NVYIGNLDEKVSERV-L--YDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 10 ~l~V~nLp~~~te~~-l--~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
..+++++-..+..+- | ...|+.+-.+....+++++ -+..++++|+.|........+-..-++. .+.-..+++.-.
T Consensus 98 ~p~~~~~g~~v~pep~lp~~~~f~~~p~L~ktk~v~~~-p~~~~~~~~~~~k~s~a~~k~~~~~~~K-ki~~~~VR~a~g 175 (290)
T KOG0226|consen 98 RPFQSNAGATVNPEPPLPLPVVFSEYPSLVKTKLVRDR-PQPIRPEAFESFKASDALLKAETEKEKK-KIGKPPVRLAAG 175 (290)
T ss_pred cccccccccccCCCCCCcchhhhccchhhhhhhhhhcC-CCccCcccccCcchhhhhhhhccccccc-cccCcceeeccc
Confidence 455666655555543 2 6677777777777777774 5788899999998766666665444443 444444554433
Q ss_pred CCC-CCCCCCCCccCCCCCCCCCCCCCccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee--eecCCC
Q 030227 87 GQD-KNTQNSSMTTTPLSSRKSRSDPVPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET--HLNVTN 151 (181)
Q Consensus 87 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf--~f~~~~ 151 (181)
..- ...-..+ ...++.++...|- |..|-.....++.+| .|++++|||| +-+..+
T Consensus 176 tswedPsl~ew-----------~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad 244 (290)
T KOG0226|consen 176 TSWEDPSLAEW-----------DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPAD 244 (290)
T ss_pred cccCCcccccC-----------ccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHH
Confidence 210 0000000 0001223222222 666666677788889 8999999999 555556
Q ss_pred chhh-hcccCcccccC
Q 030227 152 YDYS-RRVFGATLDSI 166 (181)
Q Consensus 152 ~~~a-~~~~g~~~~~~ 166 (181)
+-.| ++++|.-+++.
T Consensus 245 ~~rAmrem~gkyVgsr 260 (290)
T KOG0226|consen 245 YVRAMREMNGKYVGSR 260 (290)
T ss_pred HHHHHHhhcccccccc
Confidence 6667 99999888753
No 138
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.47 E-value=0.0039 Score=48.22 Aligned_cols=64 Identities=20% Similarity=0.224 Sum_probs=56.2
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCC
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~ 73 (181)
..|||.||...+..+.+.+.|+.||+|....++-| ..++..+-++|.|.+.-.|..|+..++..
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD-~r~k~t~eg~v~~~~k~~a~~a~rr~~~~ 95 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVD-DRGKPTREGIVEFAKKPNARKAARRCREG 95 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeec-ccccccccchhhhhcchhHHHHHHHhccC
Confidence 67999999999999999999999999988666666 46889999999999999999999877443
No 139
>PLN03213 repressor of silencing 3; Provisional
Probab=96.42 E-value=0.00084 Score=56.39 Aligned_cols=42 Identities=5% Similarity=-0.062 Sum_probs=34.5
Q ss_pred CCCCCcceecCCCCCCCCCCCccee-eecCC---Cchhh-hcccCccccc
Q 030227 121 ISHHSMRISEPPPPGVTHESNGYET-HLNVT---NYDYS-RRVFGATLDS 165 (181)
Q Consensus 121 f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~---~~~~a-~~~~g~~~~~ 165 (181)
|.+||+|..+.|| ..+| ||||| .|... +...| ..|||..+..
T Consensus 31 FSeFGsVkdVEIp-RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKG 77 (759)
T PLN03213 31 FSPMGTVDAVEFV-RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKG 77 (759)
T ss_pred HHhcCCeeEEEEe-cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecC
Confidence 8999999999999 4455 99999 88876 45556 8899998863
No 140
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=96.40 E-value=0.0013 Score=49.33 Aligned_cols=44 Identities=11% Similarity=0.012 Sum_probs=36.1
Q ss_pred CCCC-CcceecCCCCC-CCCCCCccee-eecCCCchhh--hcccCcccc
Q 030227 121 ISHH-SMRISEPPPPG-VTHESNGYET-HLNVTNYDYS--RRVFGATLD 164 (181)
Q Consensus 121 f~~~-g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~~~a--~~~~g~~~~ 164 (181)
|.++ |.+..+++.+. .||.|||||| +|.+.+.+.. ..||+..|-
T Consensus 70 ~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~ 118 (214)
T KOG4208|consen 70 FRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLM 118 (214)
T ss_pred hhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhh
Confidence 5666 77788999999 9999999999 9988876655 888887664
No 141
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=96.39 E-value=0.0022 Score=49.54 Aligned_cols=55 Identities=24% Similarity=0.301 Sum_probs=47.8
Q ss_pred hcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 31 QAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 31 ~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
+||+|..+.+..+. .-...|=.||.|...++|++|+..||+. .+.|++|...++.
T Consensus 92 kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnR-w~~G~pi~ae~~p 146 (260)
T KOG2202|consen 92 KYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNR-WYNGRPIHAELSP 146 (260)
T ss_pred Hhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCc-cccCCcceeeecC
Confidence 78999998777662 3457788999999999999999999998 9999999998874
No 142
>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=96.31 E-value=0.012 Score=43.67 Aligned_cols=83 Identities=12% Similarity=0.118 Sum_probs=50.6
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHh-cCCe---EEEE--EecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCe
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQ-AGRV---VDLY--IPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR 79 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~-~G~i---~~~~--i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~ 79 (181)
....+|.|++||+..|++++++.+.. ++.. ..+. ............-|||.|.+.+++......++|...++.+
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 34679999999999999999987766 5655 3333 1111111223456999999999999999999996344432
Q ss_pred ----EEEEEecCC
Q 030227 80 ----TLRFALSGQ 88 (181)
Q Consensus 80 ----~i~v~~a~~ 88 (181)
...|.+|.-
T Consensus 85 g~~~~~~VE~Apy 97 (176)
T PF03467_consen 85 GNEYPAVVEFAPY 97 (176)
T ss_dssp S-EEEEEEEE-SS
T ss_pred CCCcceeEEEcch
Confidence 566666644
No 143
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=96.27 E-value=0.022 Score=45.08 Aligned_cols=64 Identities=19% Similarity=0.104 Sum_probs=50.5
Q ss_pred HHHHHHHHhcCCeEEEEEecCCCCCCcc-eEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecC
Q 030227 23 RVLYDILIQAGRVVDLYIPRDKETDKPK-GFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (181)
Q Consensus 23 ~~l~~~f~~~G~i~~~~i~~~~~~~~~~-g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~ 87 (181)
+++.+-+.+||.|..|.|...+...... ---||+|...++|.+|+..|||. .++|+.++..+-.
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGR-yFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGR-YFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCc-eecceeeeheecc
Confidence 5677888999999998776654222221 24699999999999999999998 9999998887753
No 144
>PLN03121 nucleic acid binding protein; Provisional
Probab=96.24 E-value=0.0017 Score=50.08 Aligned_cols=52 Identities=13% Similarity=-0.001 Sum_probs=40.2
Q ss_pred CccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-eecCCCc-hhhhcccCccccc
Q 030227 112 VPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HLNVTNY-DYSRRVFGATLDS 165 (181)
Q Consensus 112 ~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~~-~~a~~~~g~~~~~ 165 (181)
+.+.+.+|+ |+.+|+|..+.++.| +..+|||| .|.+.+. +.|..|+|..|..
T Consensus 6 ~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D--~et~gfAfVtF~d~~aaetAllLnGa~l~d 70 (243)
T PLN03121 6 YTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRS--GEYACTAYVTFKDAYALETAVLLSGATIVD 70 (243)
T ss_pred eEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecC--CCcceEEEEEECCHHHHHHHHhcCCCeeCC
Confidence 355666666 899999999999988 44568999 8877554 4449999998873
No 145
>smart00360 RRM RNA recognition motif.
Probab=96.09 E-value=0.0027 Score=38.16 Aligned_cols=44 Identities=18% Similarity=0.114 Sum_probs=33.7
Q ss_pred CCCCCcceecCCCCC-CCCCCCccee-eecCCCchhh--hcccCcccc
Q 030227 121 ISHHSMRISEPPPPG-VTHESNGYET-HLNVTNYDYS--RRVFGATLD 164 (181)
Q Consensus 121 f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~~~a--~~~~g~~~~ 164 (181)
|.++|.+..+.+..+ .++.++|+|| .|.+.+.+.. ..++|..++
T Consensus 17 f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~ 64 (71)
T smart00360 17 FSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELD 64 (71)
T ss_pred HHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeC
Confidence 678999988888887 5788999999 8866654444 677777664
No 146
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.04 E-value=0.0054 Score=53.59 Aligned_cols=81 Identities=19% Similarity=0.131 Sum_probs=64.9
Q ss_pred CCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEE-EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEE
Q 030227 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVD-LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~-~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v 83 (181)
...+..|||-.||..+++.++.++|+..-.|+. |.|.+.+ +++.++.|||.|..++++..|+..-... .++.+.|+|
T Consensus 431 ~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~-y~G~r~irv 508 (944)
T KOG4307|consen 431 GGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKF-YPGHRIIRV 508 (944)
T ss_pred CCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhccccc-ccCceEEEe
Confidence 355788999999999999999999988666655 7776665 5788899999999988888887744443 777788999
Q ss_pred EecC
Q 030227 84 ALSG 87 (181)
Q Consensus 84 ~~a~ 87 (181)
.-..
T Consensus 509 ~si~ 512 (944)
T KOG4307|consen 509 DSIA 512 (944)
T ss_pred echh
Confidence 7443
No 147
>PLN03120 nucleic acid binding protein; Provisional
Probab=95.96 E-value=0.0026 Score=49.68 Aligned_cols=52 Identities=12% Similarity=-0.020 Sum_probs=39.6
Q ss_pred ccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-eecCC-CchhhhcccCcccccC
Q 030227 113 PVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HLNVT-NYDYSRRVFGATLDSI 166 (181)
Q Consensus 113 ~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~-~~~~a~~~~g~~~~~~ 166 (181)
.+++.+|+ |+.+|+|..+.++.+.. ++|||| .|.+. +++.|..|+|..|...
T Consensus 6 tVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~--~~GfAFVtF~d~eaAe~AllLnG~~l~gr 70 (260)
T PLN03120 6 TVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE--RSQIAYVTFKDPQGAETALLLSGATIVDQ 70 (260)
T ss_pred EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC--CCCEEEEEeCcHHHHHHHHHhcCCeeCCc
Confidence 56667776 89999999999998842 579999 77655 4455577999988833
No 148
>smart00362 RRM_2 RNA recognition motif.
Probab=95.90 E-value=0.004 Score=37.57 Aligned_cols=44 Identities=16% Similarity=0.167 Sum_probs=33.2
Q ss_pred CCCCCcceecCCCCCCCCCCCccee-eecCCCchh-h-hcccCccccc
Q 030227 121 ISHHSMRISEPPPPGVTHESNGYET-HLNVTNYDY-S-RRVFGATLDS 165 (181)
Q Consensus 121 f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~~~~-a-~~~~g~~~~~ 165 (181)
|.++|.+..+.+..+. +.++|+|| .|.+.+.+. | ..++|..+++
T Consensus 20 ~~~~g~v~~~~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~ 66 (72)
T smart00362 20 FSKFGPIESVKIPKDT-GKSKGFAFVEFESEEDAEKAIEALNGTKLGG 66 (72)
T ss_pred HHhcCCEEEEEEecCC-CCCCceEEEEeCCHHHHHHHHHHhCCcEECC
Confidence 6888999888877776 77899999 887765444 3 7778777653
No 149
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=95.81 E-value=0.01 Score=51.02 Aligned_cols=76 Identities=20% Similarity=0.234 Sum_probs=61.4
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHH-hcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeee---CCeEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILI-QAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTL---YNRTL 81 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~-~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i---~g~~i 81 (181)
.+++.|||.||-.-+|.-+|++++. .+|.|...+|- +-+..|||.|.+.++|.+.+.+||+. .+ +.+.|
T Consensus 442 ~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmD------kIKShCyV~yss~eEA~atr~AlhnV-~WP~sNPK~L 514 (718)
T KOG2416|consen 442 EPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMD------KIKSHCYVSYSSVEEAAATREALHNV-QWPPSNPKHL 514 (718)
T ss_pred CccceEeeecccccchHHHHHHHHhhccCchHHHHHH------HhhcceeEecccHHHHHHHHHHHhcc-ccCCCCCcee
Confidence 5678899999999999999999998 56677776432 34578999999999999999999996 44 34678
Q ss_pred EEEecCC
Q 030227 82 RFALSGQ 88 (181)
Q Consensus 82 ~v~~a~~ 88 (181)
-+.|...
T Consensus 515 ~adf~~~ 521 (718)
T KOG2416|consen 515 IADFVRA 521 (718)
T ss_pred Eeeecch
Confidence 8777654
No 150
>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=95.72 E-value=0.0023 Score=39.48 Aligned_cols=45 Identities=11% Similarity=0.065 Sum_probs=33.7
Q ss_pred CCCCCcceecCCCCCCCCCCCccee-eecCCCchhh--hcccCccccc
Q 030227 121 ISHHSMRISEPPPPGVTHESNGYET-HLNVTNYDYS--RRVFGATLDS 165 (181)
Q Consensus 121 f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~~~~a--~~~~g~~~~~ 165 (181)
|..+|.|..+.+..+..+.++|+|| .|.+.+.+.. +..+|..+++
T Consensus 19 f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g 66 (70)
T PF14259_consen 19 FSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDG 66 (70)
T ss_dssp CTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred HHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECC
Confidence 7889999999999884488999999 8876654444 5555566653
No 151
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=95.16 E-value=0.0092 Score=45.72 Aligned_cols=54 Identities=11% Similarity=0.111 Sum_probs=44.8
Q ss_pred CccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee-eecCC-Cchhh-hcccCccccc
Q 030227 112 VPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET-HLNVT-NYDYS-RRVFGATLDS 165 (181)
Q Consensus 112 ~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~-~~~~a-~~~~g~~~~~ 165 (181)
..+++.+|+ |.++|.+..+.++.+ .++.++|||| .|... ++..| ..++|..|..
T Consensus 116 ~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~ 184 (306)
T COG0724 116 NTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEG 184 (306)
T ss_pred ceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECC
Confidence 577888888 899999999999999 7999999999 77666 45555 8888787773
No 152
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=95.00 E-value=0.0086 Score=48.05 Aligned_cols=80 Identities=21% Similarity=0.291 Sum_probs=60.3
Q ss_pred CeEEEcCCCCcCcHHHH---HHHHHhcCCeEEEEEecCCC--CC-CcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEE
Q 030227 9 CNVYIGNLDEKVSERVL---YDILIQAGRVVDLYIPRDKE--TD-KPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l---~~~f~~~G~i~~~~i~~~~~--~~-~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~ 82 (181)
+-+||-+|+...-++.+ .+.|.+||.|..+.+-+++. .+ ....-++|.|...++|..||...+|. .++|+.++
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~-~~dg~~lk 156 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGF-VDDGRALK 156 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhH-HhhhhhhH
Confidence 45788899876655544 36788999999998877651 11 12234899999999999999999997 88998877
Q ss_pred EEecCCC
Q 030227 83 FALSGQD 89 (181)
Q Consensus 83 v~~a~~~ 89 (181)
..+...+
T Consensus 157 a~~gttk 163 (327)
T KOG2068|consen 157 ASLGTTK 163 (327)
T ss_pred HhhCCCc
Confidence 7766543
No 153
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=94.97 E-value=0.23 Score=35.40 Aligned_cols=74 Identities=11% Similarity=0.116 Sum_probs=54.1
Q ss_pred CCCCeEEEcCCCCcCcH----HHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEE
Q 030227 6 NSGCNVYIGNLDEKVSE----RVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTL 81 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te----~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i 81 (181)
++-.+|.|.=|..+... ..+-..++.||+|.+|..+ | +.-|.|.|.+..+|-.|+.+++. ...|..+
T Consensus 84 pPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-----G--rqsavVvF~d~~SAC~Av~Af~s--~~pgtm~ 154 (166)
T PF15023_consen 84 PPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-----G--RQSAVVVFKDITSACKAVSAFQS--RAPGTMF 154 (166)
T ss_pred CCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-----C--CceEEEEehhhHHHHHHHHhhcC--CCCCceE
Confidence 44567778755544433 3455567889999998764 2 34799999999999999998876 5677888
Q ss_pred EEEecCC
Q 030227 82 RFALSGQ 88 (181)
Q Consensus 82 ~v~~a~~ 88 (181)
...|...
T Consensus 155 qCsWqqr 161 (166)
T PF15023_consen 155 QCSWQQR 161 (166)
T ss_pred Eeecccc
Confidence 8888543
No 154
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=94.70 E-value=0.05 Score=46.64 Aligned_cols=73 Identities=16% Similarity=0.267 Sum_probs=58.5
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHh--cCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCe-eeCCeEEE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQ--AGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIV-TLYNRTLR 82 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~--~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~-~i~g~~i~ 82 (181)
...+.|.+.-||..+-.++++.+|+. |-.+.+|.+-.+. -=||+|++..+|+.|.+.|...+ ++.|++|.
T Consensus 173 ~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKpIm 245 (684)
T KOG2591|consen 173 HKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKPIM 245 (684)
T ss_pred cceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcchh
Confidence 34567889999999999999999975 7788888876552 24899999999999998887653 67888766
Q ss_pred EEe
Q 030227 83 FAL 85 (181)
Q Consensus 83 v~~ 85 (181)
.++
T Consensus 246 ARI 248 (684)
T KOG2591|consen 246 ARI 248 (684)
T ss_pred hhh
Confidence 554
No 155
>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=94.63 E-value=0.011 Score=34.86 Aligned_cols=41 Identities=7% Similarity=0.044 Sum_probs=29.8
Q ss_pred CCCCCcceecCCCCCCCCCCCccee-eecCCCc-hhh-hcccCccccc
Q 030227 121 ISHHSMRISEPPPPGVTHESNGYET-HLNVTNY-DYS-RRVFGATLDS 165 (181)
Q Consensus 121 f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~~-~~a-~~~~g~~~~~ 165 (181)
|++||+|..+.+.... +|++| +|.+.+. ..| +.+||..++.
T Consensus 5 f~~fG~V~~i~~~~~~----~~~a~V~f~~~~~A~~a~~~l~~~~~~g 48 (56)
T PF13893_consen 5 FSKFGEVKKIKIFKKK----RGFAFVEFASVEDAQKAIEQLNGRQFNG 48 (56)
T ss_dssp HTTTS-EEEEEEETTS----TTEEEEEESSHHHHHHHHHHHTTSEETT
T ss_pred hCCcccEEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECC
Confidence 6889999888887654 69999 8865544 444 8899988753
No 156
>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=94.50 E-value=0.016 Score=35.03 Aligned_cols=45 Identities=13% Similarity=0.065 Sum_probs=33.6
Q ss_pred CCCCCcceecCCCCCCCCCCCccee-eecCCCchhh--hcccCccccc
Q 030227 121 ISHHSMRISEPPPPGVTHESNGYET-HLNVTNYDYS--RRVFGATLDS 165 (181)
Q Consensus 121 f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~~~~a--~~~~g~~~~~ 165 (181)
|..+|.+..+.+..+..+.++|+|| .|.+.+.+.. +.++|..+++
T Consensus 20 ~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~ 67 (74)
T cd00590 20 FSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGG 67 (74)
T ss_pred HHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECC
Confidence 6777999888888875558899999 8876655444 7787776553
No 157
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=94.24 E-value=0.019 Score=40.06 Aligned_cols=44 Identities=14% Similarity=0.046 Sum_probs=39.6
Q ss_pred CCCCCcceecCCCCC-CCCCCCccee--eecCCCchhh-hcccCcccc
Q 030227 121 ISHHSMRISEPPPPG-VTHESNGYET--HLNVTNYDYS-RRVFGATLD 164 (181)
Q Consensus 121 f~~~g~i~~~~~~~~-~~~~~kG~gf--~f~~~~~~~a-~~~~g~~~~ 164 (181)
|+.+|+|..+.+-.| .+..+=||.| +|..++++.| +-++|+.|+
T Consensus 57 Fs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLd 104 (153)
T KOG0121|consen 57 FSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLD 104 (153)
T ss_pred HHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCccc
Confidence 799999999999999 7888999999 8888888888 888998887
No 158
>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=94.18 E-value=0.52 Score=29.57 Aligned_cols=67 Identities=16% Similarity=0.359 Sum_probs=38.9
Q ss_pred eEEEc-CCCCcCcHHHHHHHHHhcC-----CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEE
Q 030227 10 NVYIG-NLDEKVSERVLYDILIQAG-----RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 10 ~l~V~-nLp~~~te~~l~~~f~~~G-----~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v 83 (181)
++||. +--..++..+|..++...+ .|-.+.+..+ |+||+-.. +.|..++..|++. .+.|++++|
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~--------~S~vev~~-~~a~~v~~~l~~~-~~~gk~v~v 71 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFDN--------FSFVEVPE-EVAEKVLEALNGK-KIKGKKVRV 71 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-SS---------EEEEE-T-T-HHHHHHHHTT---SSS----E
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEeee--------EEEEEECH-HHHHHHHHHhcCC-CCCCeeEEE
Confidence 34443 3335677888888887764 5556777543 89998865 4788899999998 999999999
Q ss_pred Eec
Q 030227 84 ALS 86 (181)
Q Consensus 84 ~~a 86 (181)
+.|
T Consensus 72 e~A 74 (74)
T PF03880_consen 72 ERA 74 (74)
T ss_dssp EE-
T ss_pred EEC
Confidence 864
No 159
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=93.81 E-value=0.032 Score=40.99 Aligned_cols=49 Identities=14% Similarity=0.076 Sum_probs=36.9
Q ss_pred CccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-eecC-CCchhh-hcccCcccc
Q 030227 112 VPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HLNV-TNYDYS-RRVFGATLD 164 (181)
Q Consensus 112 ~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~-~~~~~a-~~~~g~~~~ 164 (181)
..|.|.+|+ |..||.+.++=+.. .+.|||| +|.+ .|+++| +.|+|..|-
T Consensus 11 ~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvAr----nPPGfAFVEFed~RDA~DAvr~LDG~~~c 73 (195)
T KOG0107|consen 11 TKVYVGNLGSRATKRELERAFSKYGPLRSVWVAR----NPPGFAFVEFEDPRDAEDAVRYLDGKDIC 73 (195)
T ss_pred ceEEeccCCCCcchHHHHHHHHhcCcceeEEEee----cCCCceEEeccCcccHHHHHhhcCCcccc
Confidence 456666666 88899886666655 3789999 6655 578888 999998876
No 160
>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=93.24 E-value=0.47 Score=35.44 Aligned_cols=61 Identities=20% Similarity=0.163 Sum_probs=44.6
Q ss_pred HHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhC--CCeeeCCeEEEEEecCCC
Q 030227 22 ERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFS--GIVTLYNRTLRFALSGQD 89 (181)
Q Consensus 22 e~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~--g~~~i~g~~i~v~~a~~~ 89 (181)
.+.|+++|..++.+....+++. -+=..|.|.+.+.|..|...|+ +. .+.|..+++.++...
T Consensus 9 ~~~l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~~-~~~g~~l~~yf~~~~ 71 (184)
T PF04847_consen 9 LAELEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDGT-SFNGKRLRVYFGQPT 71 (184)
T ss_dssp HHHHHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--TS-EETTEE-EEE----S
T ss_pred HHHHHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhccccc-ccCCCceEEEEcccc
Confidence 4778999999998888776653 2347799999999999999999 87 999999999988543
No 161
>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=92.73 E-value=1.6 Score=29.76 Aligned_cols=69 Identities=13% Similarity=0.138 Sum_probs=47.8
Q ss_pred CCCeEEEcCCCCcCcH-HHHHHHHHhcC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC
Q 030227 7 SGCNVYIGNLDEKVSE-RVLYDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN 78 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te-~~l~~~f~~~G-~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g 78 (181)
.+..+.|=..|+..+. ++|..+...+- .|..++|+++. ..++-.+++.|.+.+.|.+-...+||. .++.
T Consensus 11 ~~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk-~Fns 81 (110)
T PF07576_consen 11 RRSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGK-PFNS 81 (110)
T ss_pred CCceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCC-ccCC
Confidence 3445555555555554 55665555554 56678999873 346667889999999999999999997 5443
No 162
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=92.29 E-value=0.038 Score=38.93 Aligned_cols=44 Identities=14% Similarity=-0.004 Sum_probs=37.9
Q ss_pred CCCCCcceecCCCCC-CCCCCCccee-eecCCCchhh--hcccCcccc
Q 030227 121 ISHHSMRISEPPPPG-VTHESNGYET-HLNVTNYDYS--RRVFGATLD 164 (181)
Q Consensus 121 f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~~~a--~~~~g~~~~ 164 (181)
|..||+|..+.+-.| .||-.|||+. +|.....+.+ ..+||..|=
T Consensus 93 F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll 140 (170)
T KOG0130|consen 93 FADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELL 140 (170)
T ss_pred HhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhh
Confidence 999999999999999 8999999999 8877665555 888887764
No 163
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=92.29 E-value=0.11 Score=45.42 Aligned_cols=71 Identities=21% Similarity=0.263 Sum_probs=59.9
Q ss_pred CCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEE
Q 030227 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~ 84 (181)
.++.-+|||+|+-..+.++-+..++..||.|.++..+. |||.+|..+.....|+..+... .++|..+.+.
T Consensus 37 ~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~-~~~~~kl~~~ 106 (668)
T KOG2253|consen 37 LPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTEL-NIDDQKLIEN 106 (668)
T ss_pred CCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhccc-CCCcchhhcc
Confidence 35677999999999999999999999999988875432 8999999999999999988876 8888766554
Q ss_pred e
Q 030227 85 L 85 (181)
Q Consensus 85 ~ 85 (181)
.
T Consensus 107 ~ 107 (668)
T KOG2253|consen 107 V 107 (668)
T ss_pred c
Confidence 3
No 164
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=91.98 E-value=0.12 Score=43.43 Aligned_cols=59 Identities=19% Similarity=0.182 Sum_probs=49.3
Q ss_pred HHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecCC
Q 030227 22 ERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (181)
Q Consensus 22 e~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~~ 88 (181)
-++|...|.+||.|..|.+-.. .-.|.|+|.+..+|-.|-. ..+. .|+++.|+|.|-.+
T Consensus 387 ~a~ln~hfA~fG~i~n~qv~~~------~~~a~vTF~t~aeag~a~~-s~~a-vlnnr~iKl~whnp 445 (526)
T KOG2135|consen 387 IADLNPHFAQFGEIENIQVDYS------SLHAVVTFKTRAEAGEAYA-SHGA-VLNNRFIKLFWHNP 445 (526)
T ss_pred HhhhhhhhhhcCccccccccCc------hhhheeeeeccccccchhc-cccc-eecCceeEEEEecC
Confidence 3678999999999999987543 3468999999999977766 5777 99999999999765
No 165
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=91.61 E-value=0.19 Score=45.26 Aligned_cols=74 Identities=20% Similarity=0.242 Sum_probs=60.7
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCC-eeeCCeEEEEEecC
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI-VTLYNRTLRFALSG 87 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~-~~i~g~~i~v~~a~ 87 (181)
.+.++.|.+-..+-..|-.+++.||.+.+.+.+++- ..|.|+|.+.+.|-.|+..++|. +.+-|-+.+|.+|+
T Consensus 299 p~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak 372 (1007)
T KOG4574|consen 299 PKQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL------NMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAK 372 (1007)
T ss_pred chhhhhcccccchHHHHHHHHHhhcchhhheecccc------cchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecc
Confidence 344555666677778899999999999999887763 47999999999999999999997 45677789999887
Q ss_pred C
Q 030227 88 Q 88 (181)
Q Consensus 88 ~ 88 (181)
.
T Consensus 373 ~ 373 (1007)
T KOG4574|consen 373 T 373 (1007)
T ss_pred c
Confidence 5
No 166
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=90.89 E-value=0.12 Score=39.99 Aligned_cols=48 Identities=6% Similarity=0.066 Sum_probs=38.1
Q ss_pred cCCCCCcceecCCCCC-CCCCCCccee-eecCC-CchhhhcccCcccccCC
Q 030227 120 EISHHSMRISEPPPPG-VTHESNGYET-HLNVT-NYDYSRRVFGATLDSIS 167 (181)
Q Consensus 120 ~f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~-~~~~a~~~~g~~~~~~~ 167 (181)
.|..+|.+..+.+++| ..+.+|||+| .|.+- ..+.|.+|+|+.|+...
T Consensus 121 hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~ 171 (231)
T KOG4209|consen 121 HFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPA 171 (231)
T ss_pred eeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCCccccccc
Confidence 3899999999999999 6778999999 66554 45556779999998443
No 167
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=90.88 E-value=0.73 Score=36.86 Aligned_cols=65 Identities=14% Similarity=0.217 Sum_probs=47.9
Q ss_pred cCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCe-EEEEEecC
Q 030227 14 GNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR-TLRFALSG 87 (181)
Q Consensus 14 ~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~-~i~v~~a~ 87 (181)
-++|+.- ...|...|..||.|+..... ..-.+-+|-|.+..+|++||. .||+ .|+|. .|-|..+.
T Consensus 203 fGFppg~-~s~vL~~F~~cG~Vvkhv~~------~ngNwMhirYssr~~A~KALs-kng~-ii~g~vmiGVkpCt 268 (350)
T KOG4285|consen 203 FGFPPGQ-VSIVLNLFSRCGEVVKHVTP------SNGNWMHIRYSSRTHAQKALS-KNGT-IIDGDVMIGVKPCT 268 (350)
T ss_pred eccCccc-hhHHHHHHHhhCeeeeeecC------CCCceEEEEecchhHHHHhhh-hcCe-eeccceEEeeeecC
Confidence 3555433 25678899999999887543 334599999999999999999 5887 77775 46666543
No 168
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=90.29 E-value=0.57 Score=40.27 Aligned_cols=85 Identities=20% Similarity=0.250 Sum_probs=57.8
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHH-hcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeee----CCeE
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILI-QAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTL----YNRT 80 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~-~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i----~g~~ 80 (181)
.+.+++-|.|+|...|-..|...-. ..|.-..+.++.|-......|||||.|.+.+.+..+.++.||+ .+ ..+.
T Consensus 386 ~~rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk-~W~~FnS~Ki 464 (549)
T KOG4660|consen 386 CPRTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGK-KWEKFNSEKI 464 (549)
T ss_pred CchhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCC-chhhhcceee
Confidence 3445566666666555555444422 2455555667766556678999999999999999999999997 32 2346
Q ss_pred EEEEecCCCCC
Q 030227 81 LRFALSGQDKN 91 (181)
Q Consensus 81 i~v~~a~~~~~ 91 (181)
+.+.||..+..
T Consensus 465 a~itYArIQGk 475 (549)
T KOG4660|consen 465 ASITYARIQGK 475 (549)
T ss_pred eeeehhhhhch
Confidence 77778766544
No 169
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=90.26 E-value=0.18 Score=39.33 Aligned_cols=53 Identities=15% Similarity=0.139 Sum_probs=46.2
Q ss_pred CccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-eecCC-Cchhh-hcccCcccc
Q 030227 112 VPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HLNVT-NYDYS-RRVFGATLD 164 (181)
Q Consensus 112 ~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~-~~~~a-~~~~g~~~~ 164 (181)
..+.+++|+ |.+++++..+.+-++..|.+.|.|- .|+.. +++.| ++++|..|+
T Consensus 84 ~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ld 150 (243)
T KOG0533|consen 84 TKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALD 150 (243)
T ss_pred ceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccC
Confidence 577888888 7899988999999999999999998 88888 77777 999998887
No 170
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=88.59 E-value=2.3 Score=35.87 Aligned_cols=69 Identities=16% Similarity=0.184 Sum_probs=56.9
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCC
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN 78 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G-~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g 78 (181)
+++.|.|-.+|-.++-.||..+...+- .|..+++++|.. ..+=..+|.|.+.++|......+||. .++.
T Consensus 73 ~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~--pnrymvLIkFr~q~da~~Fy~efNGk-~Fn~ 142 (493)
T KOG0804|consen 73 SSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGM--PNRYMVLIKFRDQADADTFYEEFNGK-QFNS 142 (493)
T ss_pred CCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCC--CceEEEEEEeccchhHHHHHHHcCCC-cCCC
Confidence 378899999999999999999887764 778899999632 33446789999999999999999997 6554
No 171
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=87.81 E-value=0.23 Score=42.84 Aligned_cols=44 Identities=16% Similarity=0.171 Sum_probs=37.2
Q ss_pred CCCCCcceecCCCCCCCCCCCccee-eecC-CCchhh-hcccCcccc
Q 030227 121 ISHHSMRISEPPPPGVTHESNGYET-HLNV-TNYDYS-RRVFGATLD 164 (181)
Q Consensus 121 f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~-~~~~~a-~~~~g~~~~ 164 (181)
|+.+|++....+|.++.|..+||.| +|.+ ++++.| ..+||..|+
T Consensus 85 fsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ld 131 (698)
T KOG2314|consen 85 FSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLD 131 (698)
T ss_pred HHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceec
Confidence 8999999999999996666999999 6654 455666 999999998
No 172
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=86.08 E-value=0.66 Score=31.35 Aligned_cols=54 Identities=7% Similarity=0.006 Sum_probs=40.2
Q ss_pred CccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-eec-CCCchhh-hcccCcccccCC
Q 030227 112 VPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HLN-VTNYDYS-RRVFGATLDSIS 167 (181)
Q Consensus 112 ~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f~-~~~~~~a-~~~~g~~~~~~~ 167 (181)
.-+.+.+|| |..+|.|..+++-.. ..-+|.|| -|. -.++..| ++|+|..+.++.
T Consensus 19 riLyirNLp~~ITseemydlFGkyg~IrQIRiG~~--k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ry 86 (124)
T KOG0114|consen 19 RILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNT--KETRGTAFVVYEDIFDAKKACDHLSGYNVDNRY 86 (124)
T ss_pred eeEEEecCCccccHHHHHHHhhcccceEEEEecCc--cCcCceEEEEehHhhhHHHHHHHhcccccCCce
Confidence 566888888 799999988888765 23489999 553 3456666 999998887654
No 173
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.34 E-value=3.2 Score=34.60 Aligned_cols=54 Identities=15% Similarity=0.100 Sum_probs=46.5
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHH
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIK 68 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G-~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~ 68 (181)
-+.|=|-++|...-.++|...|+.|+ .-..|.|+.|. .+|..|.+...|..||-
T Consensus 391 pHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt 445 (528)
T KOG4483|consen 391 PHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALT 445 (528)
T ss_pred cceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhh
Confidence 45678889999999999999999987 44678888773 89999999999999987
No 174
>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=80.49 E-value=11 Score=23.19 Aligned_cols=55 Identities=9% Similarity=0.139 Sum_probs=40.7
Q ss_pred cCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEE
Q 030227 19 KVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (181)
Q Consensus 19 ~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v 83 (181)
.++-++++..+..|+- ..|. .++ ..=||.|.+..+|+++....++. .+.+..|.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~I~--~d~------tGfYIvF~~~~Ea~rC~~~~~~~-~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DRIR--DDR------TGFYIVFNDSKEAERCFRAEDGT-LFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-ceEE--ecC------CEEEEEECChHHHHHHHHhcCCC-EEEEEEEEe
Confidence 4566889999999863 3333 332 13479999999999999999998 777766654
No 175
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=80.25 E-value=0.23 Score=41.02 Aligned_cols=60 Identities=8% Similarity=-0.021 Sum_probs=49.9
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCC
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~ 73 (181)
++++|++|+..|...++.+.|..+|++...++ ..+....+|-++|........|+. ++|.
T Consensus 152 Rt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~----ask~~s~~c~~sf~~qts~~halr-~~gr 211 (479)
T KOG4676|consen 152 RTREVQSLISAAILPESGESFERKGEVSYAHT----ASKSRSSSCSHSFRKQTSSKHALR-SHGR 211 (479)
T ss_pred hhhhhhcchhhhcchhhhhhhhhcchhhhhhh----hccCCCcchhhhHhhhhhHHHHHH-hcch
Confidence 67999999999999999999999999888776 345555677799999888888888 4554
No 176
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=77.27 E-value=0.95 Score=37.07 Aligned_cols=44 Identities=14% Similarity=0.076 Sum_probs=37.7
Q ss_pred CCCCCcceecCCCCC-CCCCCCccee-eecCCC-chhh-hcccCcccc
Q 030227 121 ISHHSMRISEPPPPG-VTHESNGYET-HLNVTN-YDYS-RRVFGATLD 164 (181)
Q Consensus 121 f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~-~~~a-~~~~g~~~~ 164 (181)
|+.||.|.+|.+.+| .||.+--|+| +|...+ .+.| =+|+...++
T Consensus 260 FSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLID 307 (479)
T KOG0415|consen 260 FSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLID 307 (479)
T ss_pred HhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeec
Confidence 899999999999999 9999999999 776655 4455 888888877
No 177
>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=77.20 E-value=1.3 Score=29.49 Aligned_cols=44 Identities=9% Similarity=0.006 Sum_probs=35.0
Q ss_pred CCcceecCCCCC-CCCCCCccee-eecCCCchhh--hcccCcccccCC
Q 030227 124 HSMRISEPPPPG-VTHESNGYET-HLNVTNYDYS--RRVFGATLDSIS 167 (181)
Q Consensus 124 ~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~~~a--~~~~g~~~~~~~ 167 (181)
.|+..=..+|.| .++...|||| .|.+.+.... +.++|..+....
T Consensus 27 ~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~ 74 (97)
T PF04059_consen 27 KGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFN 74 (97)
T ss_pred cCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCC
Confidence 355566789999 7888999999 9987766666 999999997544
No 178
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=76.65 E-value=9.3 Score=23.60 Aligned_cols=62 Identities=19% Similarity=0.211 Sum_probs=45.0
Q ss_pred HHHHHHHHhcC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecCC
Q 030227 23 RVLYDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (181)
Q Consensus 23 ~~l~~~f~~~G-~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~~ 88 (181)
++|.+-|...| .+..+.-+..+.++.+...-||+.....+...++ +=. .+.+..++|+....
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~i~---~Ik-~l~~~~V~vE~~~k 64 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKEIY---KIK-TLCGQRVKVERPRK 64 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCcccccee---ehH-hhCCeEEEEecCCC
Confidence 46777888877 7788877777767778888899988765544443 333 67888899987654
No 179
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=71.99 E-value=11 Score=23.38 Aligned_cols=62 Identities=15% Similarity=0.104 Sum_probs=44.6
Q ss_pred HHHHHHHHhcC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecCC
Q 030227 23 RVLYDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (181)
Q Consensus 23 ~~l~~~f~~~G-~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~~ 88 (181)
.+|.+.|...| ++..+.-+..+.++.+-..-+|+.....+.... ++-. .+.++++.|+....
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~I---l~ik-~Lg~~~V~VEr~~k 64 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKEI---LNIK-TLGGQRVTVERPHK 64 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcce---Eeeh-hhCCeeEEEecCcc
Confidence 46788888888 778888888877777777888888765444442 3434 78888888886543
No 180
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.60 E-value=39 Score=29.82 Aligned_cols=81 Identities=17% Similarity=0.183 Sum_probs=58.5
Q ss_pred CCCCeEEEcCCCCcC-cHHHHHHHHHhc----CCeEEEEEecCC----------CCCC----------------------
Q 030227 6 NSGCNVYIGNLDEKV-SERVLYDILIQA----GRVVDLYIPRDK----------ETDK---------------------- 48 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~-te~~l~~~f~~~----G~i~~~~i~~~~----------~~~~---------------------- 48 (181)
..+++|-|.||.|+. ...+|..+|+.| |.|.+|.|.... ..|.
T Consensus 172 ~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~ 251 (650)
T KOG2318|consen 172 EETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEE 251 (650)
T ss_pred cccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhh
Confidence 457899999999854 557898888876 588998875421 1111
Q ss_pred ---------------cceEEEEEeCCHHHHHHHHHHhCCCeeeCCe--EEEEEecC
Q 030227 49 ---------------PKGFAFVEYESEEIADYAIKLFSGIVTLYNR--TLRFALSG 87 (181)
Q Consensus 49 ---------------~~g~afV~f~~~~~a~~al~~l~g~~~i~g~--~i~v~~a~ 87 (181)
.-=||.|+|.+...|......++|. .+... .+-++|-.
T Consensus 252 ~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~-EfEsS~~~~DLRFIP 306 (650)
T KOG2318|consen 252 DVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGI-EFESSANKLDLRFIP 306 (650)
T ss_pred hHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcc-eeccccceeeeeecC
Confidence 1127889999999999999999996 77654 45555543
No 181
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=68.80 E-value=7.7 Score=31.02 Aligned_cols=48 Identities=13% Similarity=0.200 Sum_probs=36.8
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCe-EEEEEecCCCCCCcceEEEEEeCCHH
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRV-VDLYIPRDKETDKPKGFAFVEYESEE 61 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i-~~~~i~~~~~~~~~~g~afV~f~~~~ 61 (181)
.+-|+++||+.++.-.+|+..+.+.+.+ .++.| .-.+|-||+.|.+..
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~isw------kg~~~k~flh~~~~~ 378 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTPMSISW------KGHFGKCFLHFGNRK 378 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCceeEee------ecCCcceeEecCCcc
Confidence 4569999999999999999999887643 45544 235577999997654
No 182
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=64.11 E-value=23 Score=21.48 Aligned_cols=18 Identities=22% Similarity=0.451 Sum_probs=15.3
Q ss_pred HHHHHHHHhcCCeEEEEE
Q 030227 23 RVLYDILIQAGRVVDLYI 40 (181)
Q Consensus 23 ~~l~~~f~~~G~i~~~~i 40 (181)
.+|+++|+..|+|.-+.+
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 579999999999877655
No 183
>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT. SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.
Probab=59.60 E-value=28 Score=23.86 Aligned_cols=56 Identities=23% Similarity=0.190 Sum_probs=30.7
Q ss_pred eEEEcCCCCcC---------cHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeC-CHHHHHHHHH
Q 030227 10 NVYIGNLDEKV---------SERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYE-SEEIADYAIK 68 (181)
Q Consensus 10 ~l~V~nLp~~~---------te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~-~~~~a~~al~ 68 (181)
.+.|-|++... +.++|.+.|..|..+. ++.+.++ .-..|+++|+|. +-.....|+.
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~k-v~~l~~~--~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLK-VKPLYGK--QGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SE-EEEEEET--TEEEEEEEEE--SSHHHHHHHHH
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCce-eEECcCC--CCCcEEEEEEECCChHHHHHHHH
Confidence 35566665433 3478999999998765 4444543 357899999997 5555666665
No 184
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=56.88 E-value=8.1 Score=30.33 Aligned_cols=78 Identities=10% Similarity=0.022 Sum_probs=53.0
Q ss_pred HHHHHHHHHHhCCCeeeCCeEEEEEecCCCCCCCCCCCccCCCCCCCCCCCCCccccCCcc--CCCCCcceecCCCCCCC
Q 030227 60 EEIADYAIKLFSGIVTLYNRTLRFALSGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGME--ISHHSMRISEPPPPGVT 137 (181)
Q Consensus 60 ~~~a~~al~~l~g~~~i~g~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--f~~~g~i~~~~~~~~~~ 137 (181)
...|..|...|++. ..-++.++|.++.. .... +..... .+.-+.+. |..||.|...-+-+|+.
T Consensus 4 rt~ae~ak~eLd~~-~~~~~~lr~rfa~~-a~l~-----V~nl~~--------~~sndll~~~f~~fg~~e~av~~vD~r 68 (275)
T KOG0115|consen 4 RTLAEIAKRELDGR-FPKGRSLRVRFAMH-AELY-----VVNLMQ--------GASNDLLEQAFRRFGPIERAVAKVDDR 68 (275)
T ss_pred ccHHHHHHHhcCCC-CCCCCceEEEeecc-ceEE-----EEecch--------hhhhHHHHHhhhhcCccchheeeeccc
Confidence 44677888889998 88999999999855 2221 111111 22222222 89999999888888988
Q ss_pred CCCCccee-eecCCCc
Q 030227 138 HESNGYET-HLNVTNY 152 (181)
Q Consensus 138 ~~~kG~gf-~f~~~~~ 152 (181)
+++.|-|. .|...-.
T Consensus 69 ~k~t~eg~v~~~~k~~ 84 (275)
T KOG0115|consen 69 GKPTREGIVEFAKKPN 84 (275)
T ss_pred ccccccchhhhhcchh
Confidence 88888888 5555443
No 185
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=56.69 E-value=27 Score=26.10 Aligned_cols=76 Identities=11% Similarity=0.140 Sum_probs=52.4
Q ss_pred CeEEEcCCCCcCcHH-----HHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCe-EEE
Q 030227 9 CNVYIGNLDEKVSER-----VLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR-TLR 82 (181)
Q Consensus 9 ~~l~V~nLp~~~te~-----~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~-~i~ 82 (181)
..+++.+++..+..+ ...++|.++.+....++++ +.+.--|.|.+.+.|..|...++.. .+.|+ .++
T Consensus 11 ~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lr------sfrrvRi~f~~p~~a~~a~i~~~~~-~f~~~~~~k 83 (193)
T KOG4019|consen 11 TAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLR------SFRRVRINFSNPEAAADARIKLHST-SFNGKNELK 83 (193)
T ss_pred ceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHH------hhceeEEeccChhHHHHHHHHhhhc-ccCCCceEE
Confidence 456777777544432 2345566666555555544 2345568899999999999989998 99998 888
Q ss_pred EEecCCCCC
Q 030227 83 FALSGQDKN 91 (181)
Q Consensus 83 v~~a~~~~~ 91 (181)
.-++.+...
T Consensus 84 ~yfaQ~~~~ 92 (193)
T KOG4019|consen 84 LYFAQPGHP 92 (193)
T ss_pred EEEccCCCc
Confidence 888876433
No 186
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=54.75 E-value=18 Score=29.10 Aligned_cols=33 Identities=24% Similarity=0.372 Sum_probs=24.3
Q ss_pred EEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEecCC
Q 030227 53 AFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (181)
Q Consensus 53 afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a~~ 88 (181)
|||.|.+..+|+.|++.+... ....+++..|.+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~---~~~~~~v~~APe 33 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSK---RPNSWRVSPAPE 33 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcC---CCCCceEeeCCC
Confidence 799999999999999965543 335556666544
No 187
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=54.71 E-value=14 Score=28.53 Aligned_cols=43 Identities=12% Similarity=0.148 Sum_probs=33.0
Q ss_pred CCCCCcceecCCCCCCCCCCCccee-eecCC-Cchhh-hcccCcccc
Q 030227 121 ISHHSMRISEPPPPGVTHESNGYET-HLNVT-NYDYS-RRVFGATLD 164 (181)
Q Consensus 121 f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~-~~~~a-~~~~g~~~~ 164 (181)
|=+.|.|..+.||.+..+..| |+| +|..+ +...| .=+||..|-
T Consensus 30 fiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~ 75 (267)
T KOG4454|consen 30 FIQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLE 75 (267)
T ss_pred hhccCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccchhc
Confidence 789999999999999777777 999 77655 45566 556665554
No 188
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=49.43 E-value=8.4 Score=32.59 Aligned_cols=44 Identities=5% Similarity=-0.057 Sum_probs=32.3
Q ss_pred CccccCCcc-----------CCCCCcceecCCCCC-CCCCCCccee--eecCCCchhh
Q 030227 112 VPVPVNGME-----------ISHHSMRISEPPPPG-VTHESNGYET--HLNVTNYDYS 155 (181)
Q Consensus 112 ~~~~~~~~~-----------f~~~g~i~~~~~~~~-~~~~~kG~gf--~f~~~~~~~a 155 (181)
..+++.+|| |.+||.|...++.+. ..+....||| +++..++..|
T Consensus 289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~ 346 (419)
T KOG0116|consen 289 LGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNA 346 (419)
T ss_pred cceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhh
Confidence 346788888 899999999888886 4555559999 5555555555
No 189
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=46.91 E-value=21 Score=27.80 Aligned_cols=34 Identities=26% Similarity=0.285 Sum_probs=29.0
Q ss_pred CCCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEE
Q 030227 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDL 38 (181)
Q Consensus 5 ~~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~ 38 (181)
......+|+-|+|..+|++.|.++.+++|.+..+
T Consensus 37 ~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 37 SNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred cccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 4567889999999999999999999999855543
No 190
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=46.22 E-value=47 Score=26.72 Aligned_cols=81 Identities=14% Similarity=0.276 Sum_probs=55.8
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCC-------CCCCcceEEEEEeCCHHHHHHH----HHHhCCC-e
Q 030227 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDK-------ETDKPKGFAFVEYESEEIADYA----IKLFSGI-V 74 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~-------~~~~~~g~afV~f~~~~~a~~a----l~~l~g~-~ 74 (181)
.++.|...|+..+++=-.+...|..||+|++|.++.+. +..+......+.|-+.+.+... ++.|... -
T Consensus 14 rTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~ 93 (309)
T PF10567_consen 14 RTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKT 93 (309)
T ss_pred eeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHH
Confidence 36678888999888888888889999999999998764 1223345677888888776553 3333321 1
Q ss_pred eeCCeEEEEEecC
Q 030227 75 TLYNRTLRFALSG 87 (181)
Q Consensus 75 ~i~g~~i~v~~a~ 87 (181)
.+....|.+.+..
T Consensus 94 ~L~S~~L~lsFV~ 106 (309)
T PF10567_consen 94 KLKSESLTLSFVS 106 (309)
T ss_pred hcCCcceeEEEEE
Confidence 4555667766654
No 191
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=45.27 E-value=0.85 Score=38.18 Aligned_cols=76 Identities=25% Similarity=0.285 Sum_probs=60.0
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEe-cCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIP-RDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~-~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
.+++-|.|+|+...++.|-.++..||.+..|..+ .+..+ -..=|.|...+.++.||..++|. .+....+++.+-
T Consensus 80 srk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~et----avvnvty~~~~~~~~ai~kl~g~-Q~en~~~k~~Yi 154 (584)
T KOG2193|consen 80 SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSET----AVVNVTYSAQQQHRQAIHKLNGP-QLENQHLKVGYI 154 (584)
T ss_pred hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHH----HHHHHHHHHHHHHHHHHHhhcch-HhhhhhhhcccC
Confidence 5567889999999999999999999999888543 23221 12236788999999999999998 999999998875
Q ss_pred CC
Q 030227 87 GQ 88 (181)
Q Consensus 87 ~~ 88 (181)
..
T Consensus 155 Pd 156 (584)
T KOG2193|consen 155 PD 156 (584)
T ss_pred ch
Confidence 43
No 192
>PF03439 Spt5-NGN: Early transcription elongation factor of RNA pol II, NGN section; InterPro: IPR005100 Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4 []. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit []. ; PDB: 3H7H_B 3QQC_D 3P8B_B 2EXU_A.
Probab=42.92 E-value=55 Score=20.84 Aligned_cols=35 Identities=31% Similarity=0.509 Sum_probs=24.3
Q ss_pred CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCC
Q 030227 34 RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (181)
Q Consensus 34 ~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~ 73 (181)
.|.++... ...+||-|||=.+..++..|+..+.+-
T Consensus 33 ~I~Si~~~-----~~lkGyIyVEA~~~~~V~~ai~gi~~i 67 (84)
T PF03439_consen 33 NIYSIFAP-----DSLKGYIYVEAERESDVKEAIRGIRHI 67 (84)
T ss_dssp ---EEEE------TTSTSEEEEEESSHHHHHHHHTT-TTE
T ss_pred ceEEEEEe-----CCCceEEEEEeCCHHHHHHHHhcccce
Confidence 45555443 237899999999999999998877763
No 193
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=41.99 E-value=11 Score=23.36 Aligned_cols=26 Identities=12% Similarity=0.064 Sum_probs=18.7
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHh
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQ 31 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~ 31 (181)
.-++.+|||++|..|-++.=..++..
T Consensus 25 ~tSr~vflG~IP~~W~~~~~~~~~k~ 50 (67)
T PF15407_consen 25 LTSRRVFLGPIPEIWLQDHRKSWYKS 50 (67)
T ss_pred HcCceEEECCCChHHHHcCcchHHHH
Confidence 34789999999988877654444443
No 194
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=41.40 E-value=50 Score=21.54 Aligned_cols=34 Identities=26% Similarity=0.336 Sum_probs=26.5
Q ss_pred EEEEeCCHHHHHHHHHHhCCCeeeCCeEEEEEec
Q 030227 53 AFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (181)
Q Consensus 53 afV~f~~~~~a~~al~~l~g~~~i~g~~i~v~~a 86 (181)
|+|+|.+..=|+..++.=...+.++++.+.|.-+
T Consensus 1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~ 34 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVS 34 (88)
T ss_pred CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEE
Confidence 6799999999999988555556788887777654
No 195
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=41.16 E-value=23 Score=31.28 Aligned_cols=44 Identities=7% Similarity=0.052 Sum_probs=31.6
Q ss_pred CCCCCcceecCCCCC-CCCCCCccee-eecCCCchh-h-hcccCcccc
Q 030227 121 ISHHSMRISEPPPPG-VTHESNGYET-HLNVTNYDY-S-RRVFGATLD 164 (181)
Q Consensus 121 f~~~g~i~~~~~~~~-~~~~~kG~gf-~f~~~~~~~-a-~~~~g~~~~ 164 (181)
|+.||+|+..++++. .+...+.||| .+++.+.+. + ..|+-++|+
T Consensus 426 FSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELH 473 (940)
T KOG4661|consen 426 FSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELH 473 (940)
T ss_pred HHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhc
Confidence 899999999999988 6666788999 776653222 2 555555544
No 196
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=39.39 E-value=14 Score=30.34 Aligned_cols=48 Identities=10% Similarity=0.080 Sum_probs=33.1
Q ss_pred CccccCCcc-----------CCCCCcceecCCCCCCCCCCCccee-eecCCCchhh--hcccCcccc
Q 030227 112 VPVPVNGME-----------ISHHSMRISEPPPPGVTHESNGYET-HLNVTNYDYS--RRVFGATLD 164 (181)
Q Consensus 112 ~~~~~~~~~-----------f~~~g~i~~~~~~~~~~~~~kG~gf-~f~~~~~~~a--~~~~g~~~~ 164 (181)
+.+.+.++- |-+||+|.++++... +|.|| +|.+..+++- .+++...+-
T Consensus 229 ~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~-----~~CAFv~ftTR~aAE~Aae~~~n~lvI 290 (377)
T KOG0153|consen 229 KTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR-----KGCAFVTFTTREAAEKAAEKSFNKLVI 290 (377)
T ss_pred eEEEecccccchhHHHHHHHHhhcCCeeeEEeecc-----cccceeeehhhHHHHHHHHhhcceeee
Confidence 566666663 899999999887754 77999 8877765544 444444433
No 197
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=31.60 E-value=87 Score=25.16 Aligned_cols=34 Identities=21% Similarity=0.236 Sum_probs=26.5
Q ss_pred CCeEEEcCCCCc------------CcHHHHHHHHHhcCCeEEEEEe
Q 030227 8 GCNVYIGNLDEK------------VSERVLYDILIQAGRVVDLYIP 41 (181)
Q Consensus 8 ~~~l~V~nLp~~------------~te~~l~~~f~~~G~i~~~~i~ 41 (181)
-.+||+.+||-. -+++-|+..|..||.|..|.|+
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdip 194 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIP 194 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCc
Confidence 457888888832 3557799999999999887764
No 198
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=31.43 E-value=22 Score=32.43 Aligned_cols=39 Identities=8% Similarity=0.050 Sum_probs=30.0
Q ss_pred CCCCCcceecCCCCCCCCCCCccee--eecCCCchhh-hcccCcccc
Q 030227 121 ISHHSMRISEPPPPGVTHESNGYET--HLNVTNYDYS-RRVFGATLD 164 (181)
Q Consensus 121 f~~~g~i~~~~~~~~~~~~~kG~gf--~f~~~~~~~a-~~~~g~~~~ 164 (181)
|..||+|.++.+.. ++|+|| =|..++++.| .+|....+.
T Consensus 442 feefGeiqSi~li~-----~R~cAfI~M~~RqdA~kalqkl~n~kv~ 483 (894)
T KOG0132|consen 442 FEEFGEIQSIILIP-----PRGCAFIKMVRRQDAEKALQKLSNVKVA 483 (894)
T ss_pred HHhcccceeEeecc-----CCceeEEEEeehhHHHHHHHHHhccccc
Confidence 89999999988764 599999 7777788888 666644443
No 199
>PF11411 DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536 DNA ligase IV along with Xrcc4 functions in DNA non-homologous end joining. This process is required to mend double-strand breaks. Upon ligase binding to an Xrcc4 dimer, the helical tails unwind leading to a flat interaction surface []. ; GO: 0003910 DNA ligase (ATP) activity; PDB: 3II6_Y 2E2W_A 1IK9_C.
Probab=29.25 E-value=47 Score=17.81 Aligned_cols=16 Identities=13% Similarity=0.156 Sum_probs=10.2
Q ss_pred CcCcHHHHHHHHHhcC
Q 030227 18 EKVSERVLYDILIQAG 33 (181)
Q Consensus 18 ~~~te~~l~~~f~~~G 33 (181)
.++++++|++.|...+
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 4678899999998764
No 200
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=28.66 E-value=59 Score=17.26 Aligned_cols=16 Identities=25% Similarity=0.115 Sum_probs=14.0
Q ss_pred cCcHHHHHHHHHhcCC
Q 030227 19 KVSERVLYDILIQAGR 34 (181)
Q Consensus 19 ~~te~~l~~~f~~~G~ 34 (181)
.+++++|++.+..+|-
T Consensus 3 tWs~~~L~~wL~~~gi 18 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGI 18 (38)
T ss_pred CCCHHHHHHHHHHcCC
Confidence 5789999999999884
No 201
>PF14893 PNMA: PNMA
Probab=28.33 E-value=46 Score=27.36 Aligned_cols=26 Identities=12% Similarity=0.148 Sum_probs=21.9
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHh
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQ 31 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~ 31 (181)
++-+.|.|.++|.++++++|++.+..
T Consensus 16 ~~~r~lLv~giP~dc~~~ei~e~l~~ 41 (331)
T PF14893_consen 16 DPQRALLVLGIPEDCEEAEIEEALQA 41 (331)
T ss_pred ChhhhheeecCCCCCCHHHHHHHHHH
Confidence 44677899999999999999888764
No 202
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=27.99 E-value=94 Score=25.95 Aligned_cols=73 Identities=16% Similarity=0.237 Sum_probs=48.5
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHHhcCCe-EEEEEecCCCC--CCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeE
Q 030227 8 GCNVYIGNLDEKVSERVLYDILIQAGRV-VDLYIPRDKET--DKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRT 80 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~~~G~i-~~~~i~~~~~~--~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~ 80 (181)
-..|.|..||+..++.+|.+....+-.- ....+.....+ ..-.+.+||.|...++...-...++|.+.|+.+.
T Consensus 7 ~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifld~Kg 82 (376)
T KOG1295|consen 7 KVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFLDNKG 82 (376)
T ss_pred ceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEecCCC
Confidence 4578899999999999888777665321 11222211100 1235678999999999888888888875555444
No 203
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=27.22 E-value=1.5e+02 Score=25.81 Aligned_cols=64 Identities=22% Similarity=0.150 Sum_probs=44.4
Q ss_pred CCCeEEEcCCCCcCc---HHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCCeeeCCeEE
Q 030227 7 SGCNVYIGNLDEKVS---ERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTL 81 (181)
Q Consensus 7 ~~~~l~V~nLp~~~t---e~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~~~i~g~~i 81 (181)
|..-=+||||+.-.. ...+.++-++||++-.+++-.. -.|..++.+.|++++.. ++. .+.+|+.
T Consensus 31 P~~lPiIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~~---------~~Vviss~~~akE~l~~-~d~-~fa~Rp~ 97 (489)
T KOG0156|consen 31 PPPLPIIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGSV---------PVVVISSYEAAKEVLVK-QDL-EFADRPD 97 (489)
T ss_pred CCCCCccccHHHcCCCchhHHHHHHHHHhCCeEEEEecCc---------eEEEECCHHHHHHHHHh-CCc-cccCCCC
Confidence 333346888885433 3556666778999998887322 36888999999999985 554 6666653
No 204
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=25.71 E-value=7.1 Score=34.00 Aligned_cols=68 Identities=10% Similarity=0.143 Sum_probs=48.1
Q ss_pred CCCCeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHhCCC
Q 030227 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (181)
Q Consensus 6 ~~~~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~al~~l~g~ 73 (181)
..++.+|+.|++++++-.+|..+++.+--+..+.+............+.|.|.---....|+-+||+.
T Consensus 229 hke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~i 296 (648)
T KOG2295|consen 229 HKECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGI 296 (648)
T ss_pred hHHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhc
Confidence 44678999999999999999999998765666554433233345556788887555566666666664
No 205
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=25.06 E-value=1.9e+02 Score=19.29 Aligned_cols=49 Identities=16% Similarity=0.347 Sum_probs=27.5
Q ss_pred CCCeEEEcCCCCcCcHHHHHHHH-HhcCCeEEEEEecCCCCCCcceEEEEEeCC
Q 030227 7 SGCNVYIGNLDEKVSERVLYDIL-IQAGRVVDLYIPRDKETDKPKGFAFVEYES 59 (181)
Q Consensus 7 ~~~~l~V~nLp~~~te~~l~~~f-~~~G~i~~~~i~~~~~~~~~~g~afV~f~~ 59 (181)
...-||||++...+-+. |++.. +.++.-..+-+-.+ ..++ ||.|-.+..
T Consensus 26 v~~GVyVg~~S~rVRd~-lW~~v~~~~~~G~avmv~~~--~~eq-G~~~~t~G~ 75 (97)
T PRK11558 26 VRAGVYVGDVSRRIREM-IWQQVTQLAEEGNVVMAWAT--NTES-GFEFQTFGE 75 (97)
T ss_pred cCCCcEEcCCCHHHHHH-HHHHHHHhCCCCcEEEEEcC--CCCC-CcEEEecCC
Confidence 35569999988766554 44333 44444333322222 3344 899887754
No 206
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=24.64 E-value=1.2e+02 Score=24.00 Aligned_cols=33 Identities=18% Similarity=0.254 Sum_probs=25.0
Q ss_pred CeEEEcCCCCcCcHHHHHHHHHhcCCeEEEEEe
Q 030227 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIP 41 (181)
Q Consensus 9 ~~l~V~nLp~~~te~~l~~~f~~~G~i~~~~i~ 41 (181)
....|+|||.+++..-+..++...-.+....++
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M 128 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFIIQDMVLM 128 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCccceEEEE
Confidence 456799999999999999998876555444333
No 207
>PHA01632 hypothetical protein
Probab=23.69 E-value=99 Score=18.32 Aligned_cols=21 Identities=24% Similarity=0.374 Sum_probs=16.6
Q ss_pred EEEcCCCCcCcHHHHHHHHHh
Q 030227 11 VYIGNLDEKVSERVLYDILIQ 31 (181)
Q Consensus 11 l~V~nLp~~~te~~l~~~f~~ 31 (181)
|.|..+|..-|+++|+..+.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 345688999999999987754
No 208
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=23.25 E-value=90 Score=24.36 Aligned_cols=23 Identities=26% Similarity=0.335 Sum_probs=20.0
Q ss_pred CCeEEEcCCCCcCcHHHHHHHHH
Q 030227 8 GCNVYIGNLDEKVSERVLYDILI 30 (181)
Q Consensus 8 ~~~l~V~nLp~~~te~~l~~~f~ 30 (181)
...++|||||..++..-|..++.
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~ 119 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLE 119 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHH
T ss_pred CceEEEEEecccchHHHHHHHhh
Confidence 45679999999999999998887
Done!