Query 029736
Match_columns 189
No_of_seqs 207 out of 1950
Neff 8.9
Searched_HMMs 46136
Date Fri Mar 29 02:51:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029736.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029736hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0105 Alternative splicing f 99.9 3.8E-22 8.2E-27 146.7 8.0 157 1-173 1-177 (241)
2 TIGR01659 sex-lethal sex-letha 99.8 3.1E-21 6.6E-26 159.0 8.0 152 5-173 104-262 (346)
3 PLN03134 glycine-rich RNA-bind 99.8 4.5E-20 9.8E-25 134.6 12.5 82 7-89 33-114 (144)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 2.5E-20 5.5E-25 154.2 9.0 148 8-173 3-158 (352)
5 TIGR01645 half-pint poly-U bin 99.8 3.2E-19 7E-24 154.9 8.5 160 8-173 107-273 (612)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 2.7E-18 5.8E-23 142.1 12.9 81 8-89 269-349 (352)
7 KOG0148 Apoptosis-promoting RN 99.8 3.5E-19 7.5E-24 137.9 5.2 157 10-172 64-226 (321)
8 KOG0149 Predicted RNA-binding 99.7 9.9E-18 2.1E-22 127.6 10.4 78 9-88 13-90 (247)
9 TIGR01622 SF-CC1 splicing fact 99.7 7.5E-18 1.6E-22 144.1 9.6 159 7-172 88-254 (457)
10 PF00076 RRM_1: RNA recognitio 99.7 2.3E-17 5E-22 105.2 9.3 70 11-82 1-70 (70)
11 KOG0122 Translation initiation 99.7 1.8E-17 3.9E-22 126.8 10.1 86 3-89 184-269 (270)
12 KOG0145 RNA-binding protein EL 99.7 3E-18 6.4E-23 132.3 5.4 149 8-173 41-196 (360)
13 TIGR01628 PABP-1234 polyadenyl 99.7 1.1E-17 2.4E-22 146.6 8.6 149 10-173 2-156 (562)
14 KOG0121 Nuclear cap-binding pr 99.7 4.4E-17 9.6E-22 113.3 7.3 81 7-88 35-115 (153)
15 TIGR01642 U2AF_lg U2 snRNP aux 99.7 2.7E-16 5.8E-21 136.2 13.7 81 8-89 295-375 (509)
16 TIGR01659 sex-lethal sex-letha 99.7 1.8E-16 3.9E-21 130.8 11.5 84 8-92 193-278 (346)
17 KOG0131 Splicing factor 3b, su 99.7 5.9E-17 1.3E-21 119.0 6.9 154 3-174 4-167 (203)
18 KOG0111 Cyclophilin-type pepti 99.7 3.3E-17 7.1E-22 123.8 5.6 95 6-101 8-102 (298)
19 KOG0117 Heterogeneous nuclear 99.7 1.9E-16 4.2E-21 129.9 10.0 142 5-172 80-234 (506)
20 TIGR01645 half-pint poly-U bin 99.7 7.5E-16 1.6E-20 134.1 12.7 82 8-90 204-285 (612)
21 PF14259 RRM_6: RNA recognitio 99.7 8.6E-16 1.9E-20 98.3 9.3 70 11-82 1-70 (70)
22 KOG0107 Alternative splicing f 99.7 4.6E-16 9.9E-21 113.7 8.4 80 6-91 8-87 (195)
23 PLN03120 nucleic acid binding 99.6 1.4E-15 3.1E-20 119.1 10.8 77 8-89 4-80 (260)
24 KOG4207 Predicted splicing fac 99.6 3.1E-16 6.8E-21 117.4 6.7 83 8-91 13-95 (256)
25 KOG0125 Ataxin 2-binding prote 99.6 6.5E-16 1.4E-20 122.6 8.6 80 6-88 94-173 (376)
26 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 1.1E-15 2.3E-20 131.7 10.2 161 8-174 275-464 (481)
27 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 1.1E-15 2.5E-20 131.6 9.2 152 8-173 2-161 (481)
28 KOG0144 RNA-binding protein CU 99.6 4.1E-16 8.9E-21 127.6 6.1 85 8-93 124-210 (510)
29 KOG0113 U1 small nuclear ribon 99.6 3.1E-15 6.8E-20 117.4 10.0 83 3-88 98-180 (335)
30 TIGR01622 SF-CC1 splicing fact 99.6 5.2E-15 1.1E-19 126.6 11.5 80 8-88 186-265 (457)
31 TIGR01648 hnRNP-R-Q heterogene 99.6 4.3E-15 9.3E-20 129.0 10.3 81 5-87 55-136 (578)
32 KOG0126 Predicted RNA-binding 99.6 1.5E-16 3.2E-21 116.9 1.0 85 7-92 34-118 (219)
33 PLN03213 repressor of silencin 99.6 4.9E-15 1.1E-19 123.4 9.6 77 8-89 10-88 (759)
34 smart00362 RRM_2 RNA recogniti 99.6 2.1E-14 4.6E-19 90.8 9.9 72 10-84 1-72 (72)
35 KOG0148 Apoptosis-promoting RN 99.6 9.3E-15 2E-19 113.5 9.5 79 5-90 161-239 (321)
36 TIGR01628 PABP-1234 polyadenyl 99.6 1.1E-14 2.5E-19 127.6 11.2 81 8-90 285-365 (562)
37 PLN03121 nucleic acid binding 99.6 2.2E-14 4.7E-19 110.8 10.8 77 7-88 4-80 (243)
38 KOG0130 RNA-binding protein RB 99.6 6.8E-15 1.5E-19 103.4 6.2 80 8-88 72-151 (170)
39 KOG0108 mRNA cleavage and poly 99.6 1.1E-14 2.4E-19 122.3 8.6 83 9-92 19-101 (435)
40 KOG0144 RNA-binding protein CU 99.6 8.9E-15 1.9E-19 119.9 7.4 85 8-92 34-120 (510)
41 smart00360 RRM RNA recognition 99.5 5.1E-14 1.1E-18 88.7 8.9 71 13-84 1-71 (71)
42 COG0724 RNA-binding proteins ( 99.5 5.4E-14 1.2E-18 110.6 10.6 79 8-87 115-193 (306)
43 KOG0109 RNA-binding protein LA 99.5 1.9E-14 4.1E-19 112.8 7.6 128 9-173 3-139 (346)
44 KOG0127 Nucleolar protein fibr 99.5 1.8E-14 3.8E-19 121.1 5.8 174 8-184 5-202 (678)
45 TIGR01648 hnRNP-R-Q heterogene 99.5 4.1E-13 8.8E-18 116.8 13.4 74 8-90 233-308 (578)
46 TIGR01642 U2AF_lg U2 snRNP aux 99.5 4E-14 8.7E-19 122.6 7.3 158 7-173 174-364 (509)
47 cd00590 RRM RRM (RNA recogniti 99.5 5.2E-13 1.1E-17 84.8 10.4 74 10-85 1-74 (74)
48 KOG0124 Polypyrimidine tract-b 99.5 2.1E-14 4.5E-19 115.8 4.6 156 9-172 114-278 (544)
49 KOG0145 RNA-binding protein EL 99.5 4.2E-13 9E-18 104.0 10.3 85 3-88 273-357 (360)
50 KOG0114 Predicted RNA-binding 99.5 5.6E-13 1.2E-17 89.7 8.8 79 6-88 16-94 (124)
51 KOG0146 RNA-binding protein ET 99.4 1.1E-13 2.4E-18 107.5 5.3 84 6-90 283-366 (371)
52 smart00361 RRM_1 RNA recogniti 99.4 1.2E-12 2.5E-17 84.0 8.4 61 22-83 2-69 (70)
53 KOG0147 Transcriptional coacti 99.4 2.5E-13 5.4E-18 114.3 6.4 78 10-88 280-357 (549)
54 PF13893 RRM_5: RNA recognitio 99.4 4E-12 8.7E-17 77.8 8.5 56 25-86 1-56 (56)
55 KOG0127 Nucleolar protein fibr 99.4 2.4E-12 5.2E-17 108.5 9.4 80 8-89 117-196 (678)
56 KOG0117 Heterogeneous nuclear 99.4 1.9E-12 4.2E-17 106.7 8.1 76 8-92 259-334 (506)
57 KOG0123 Polyadenylate-binding 99.3 5.7E-12 1.2E-16 104.8 9.5 153 8-172 76-234 (369)
58 KOG0146 RNA-binding protein ET 99.3 2E-12 4.3E-17 100.6 5.9 88 5-93 16-105 (371)
59 KOG0131 Splicing factor 3b, su 99.3 3.7E-12 8.1E-17 93.9 6.3 83 6-89 94-177 (203)
60 KOG4212 RNA-binding protein hn 99.3 7.3E-12 1.6E-16 103.2 8.3 79 8-88 44-123 (608)
61 KOG4206 Spliceosomal protein s 99.3 1E-11 2.2E-16 94.6 8.4 85 1-91 4-92 (221)
62 KOG4205 RNA-binding protein mu 99.3 5.7E-12 1.2E-16 102.0 5.5 154 7-172 5-164 (311)
63 KOG0415 Predicted peptidyl pro 99.3 9.5E-12 2.1E-16 100.2 6.5 80 8-88 239-318 (479)
64 KOG0106 Alternative splicing f 99.2 1.3E-11 2.8E-16 94.5 6.0 145 9-172 2-159 (216)
65 KOG0153 Predicted RNA-binding 99.2 7E-11 1.5E-15 94.9 10.2 75 8-88 228-302 (377)
66 KOG0124 Polypyrimidine tract-b 99.2 5.9E-11 1.3E-15 96.1 7.2 79 9-88 211-289 (544)
67 KOG0109 RNA-binding protein LA 99.2 3.6E-11 7.8E-16 94.6 5.7 73 8-89 78-150 (346)
68 KOG4208 Nucleolar RNA-binding 99.2 1E-10 2.2E-15 87.9 7.6 81 8-89 49-130 (214)
69 KOG0123 Polyadenylate-binding 99.1 1.6E-10 3.4E-15 96.3 8.1 133 9-174 2-143 (369)
70 KOG0110 RNA-binding protein (R 99.1 2E-10 4.3E-15 99.6 8.8 152 9-171 516-680 (725)
71 KOG4661 Hsp27-ERE-TATA-binding 99.1 1.9E-10 4.2E-15 97.7 8.1 84 7-91 404-487 (940)
72 KOG0132 RNA polymerase II C-te 99.1 1.9E-10 4.2E-15 100.4 7.9 75 8-89 421-495 (894)
73 KOG0110 RNA-binding protein (R 99.1 8.7E-11 1.9E-15 101.7 4.8 82 8-90 613-694 (725)
74 KOG1457 RNA binding protein (c 99.0 8.6E-09 1.9E-13 78.6 13.0 89 4-93 30-122 (284)
75 KOG0151 Predicted splicing reg 99.0 1.2E-09 2.7E-14 94.7 9.4 84 3-88 170-256 (877)
76 KOG4205 RNA-binding protein mu 99.0 9.1E-10 2E-14 89.2 6.9 84 8-93 97-180 (311)
77 KOG4212 RNA-binding protein hn 99.0 1.3E-09 2.9E-14 90.1 7.2 73 7-85 535-607 (608)
78 KOG0533 RRM motif-containing p 99.0 3.3E-09 7.3E-14 83.0 8.8 80 8-89 83-162 (243)
79 KOG1548 Transcription elongati 99.0 3.4E-09 7.3E-14 85.3 8.3 86 5-92 131-224 (382)
80 KOG0116 RasGAP SH3 binding pro 98.9 2.1E-08 4.5E-13 84.3 10.3 79 8-88 288-366 (419)
81 KOG0226 RNA-binding proteins [ 98.8 2.8E-09 6.2E-14 82.5 4.2 84 5-89 187-270 (290)
82 KOG0147 Transcriptional coacti 98.8 5.7E-10 1.2E-14 94.4 0.0 161 6-172 177-346 (549)
83 KOG4211 Splicing factor hnRNP- 98.8 3.7E-08 8E-13 82.6 10.7 142 7-163 9-161 (510)
84 KOG4209 Splicing factor RNPS1, 98.8 9.9E-09 2.2E-13 80.2 5.8 80 7-88 100-179 (231)
85 KOG4454 RNA binding protein (R 98.8 3.4E-09 7.5E-14 80.5 2.2 80 6-88 7-86 (267)
86 KOG4660 Protein Mei2, essentia 98.6 2.2E-08 4.7E-13 85.1 3.6 69 8-82 75-143 (549)
87 KOG0120 Splicing factor U2AF, 98.6 5.3E-08 1.1E-12 83.1 4.8 87 5-92 286-372 (500)
88 PF04059 RRM_2: RNA recognitio 98.6 7.1E-07 1.5E-11 60.4 9.2 79 9-88 2-86 (97)
89 KOG1995 Conserved Zn-finger pr 98.4 1.9E-07 4E-12 75.8 4.2 83 7-90 65-155 (351)
90 PF11608 Limkain-b1: Limkain b 98.3 4.3E-06 9.3E-11 54.5 6.8 69 9-88 3-76 (90)
91 KOG1190 Polypyrimidine tract-b 98.3 1.5E-05 3.2E-10 66.0 11.5 76 8-89 297-373 (492)
92 KOG4849 mRNA cleavage factor I 98.2 1.1E-05 2.4E-10 65.6 9.0 71 9-80 81-153 (498)
93 KOG4210 Nuclear localization s 98.1 2.3E-06 5E-11 69.1 3.6 80 8-89 184-264 (285)
94 KOG4211 Splicing factor hnRNP- 98.1 1.2E-05 2.6E-10 67.9 7.2 77 8-87 103-180 (510)
95 KOG1457 RNA binding protein (c 98.1 4.9E-06 1.1E-10 63.8 4.4 61 9-73 211-271 (284)
96 KOG0106 Alternative splicing f 97.9 9.6E-06 2.1E-10 62.5 3.0 69 8-85 99-167 (216)
97 KOG4206 Spliceosomal protein s 97.9 8.1E-05 1.8E-09 57.1 7.9 73 8-86 146-219 (221)
98 PF08777 RRM_3: RNA binding mo 97.9 5E-05 1.1E-09 52.4 6.1 72 8-85 1-76 (105)
99 KOG0129 Predicted RNA-binding 97.8 9.2E-05 2E-09 63.0 7.6 65 3-69 367-432 (520)
100 KOG4307 RNA binding protein RB 97.7 0.00016 3.4E-09 63.7 8.0 76 8-85 866-943 (944)
101 COG5175 MOT2 Transcriptional r 97.7 0.00014 3.1E-09 59.0 7.1 79 9-88 115-202 (480)
102 KOG3152 TBP-binding protein, a 97.6 5.7E-05 1.2E-09 59.0 3.5 71 9-80 75-157 (278)
103 KOG2314 Translation initiation 97.6 0.0004 8.7E-09 59.8 8.1 77 6-84 56-139 (698)
104 KOG2193 IGF-II mRNA-binding pr 97.5 5.6E-05 1.2E-09 62.9 2.9 77 9-92 2-79 (584)
105 KOG1190 Polypyrimidine tract-b 97.5 0.0003 6.5E-09 58.5 6.7 76 8-88 414-490 (492)
106 PF14605 Nup35_RRM_2: Nup53/35 97.5 0.0004 8.8E-09 41.7 5.6 52 9-67 2-53 (53)
107 KOG0120 Splicing factor U2AF, 97.5 0.00039 8.5E-09 59.8 7.4 66 23-89 424-492 (500)
108 KOG1365 RNA-binding protein Fu 97.5 0.00046 1E-08 57.0 7.0 79 8-88 280-361 (508)
109 KOG1548 Transcription elongati 97.5 0.00071 1.5E-08 55.1 7.9 79 6-89 263-352 (382)
110 KOG1855 Predicted RNA-binding 97.5 0.00011 2.4E-09 61.3 3.4 66 8-73 231-309 (484)
111 KOG1456 Heterogeneous nuclear 97.3 0.0032 7E-08 52.0 9.9 81 7-93 286-367 (494)
112 KOG0105 Alternative splicing f 97.2 0.0015 3.2E-08 49.0 6.7 59 8-73 115-173 (241)
113 PF05172 Nup35_RRM: Nup53/35/4 97.2 0.0036 7.8E-08 42.7 7.9 76 8-86 6-89 (100)
114 KOG0129 Predicted RNA-binding 97.1 0.0015 3.3E-08 55.8 6.9 66 5-71 256-327 (520)
115 KOG1996 mRNA splicing factor [ 97.0 0.0027 5.8E-08 50.8 7.0 66 22-88 300-366 (378)
116 PF08952 DUF1866: Domain of un 97.0 0.0044 9.6E-08 44.9 7.4 59 23-91 51-109 (146)
117 KOG0128 RNA-binding protein SA 97.0 0.00033 7.1E-09 62.9 1.9 79 9-89 737-815 (881)
118 PF10309 DUF2414: Protein of u 97.0 0.0054 1.2E-07 37.9 6.6 55 8-70 5-62 (62)
119 KOG1456 Heterogeneous nuclear 96.9 0.0053 1.1E-07 50.7 8.1 79 8-92 120-202 (494)
120 KOG4676 Splicing factor, argin 96.8 0.0086 1.9E-07 49.8 8.6 75 8-84 7-84 (479)
121 PF08675 RNA_bind: RNA binding 96.8 0.007 1.5E-07 39.6 6.4 56 8-72 9-64 (87)
122 KOG0112 Large RNA-binding prot 96.7 0.00079 1.7E-08 60.9 1.9 79 5-85 369-447 (975)
123 KOG1365 RNA-binding protein Fu 96.7 0.0059 1.3E-07 50.6 6.7 71 10-83 163-237 (508)
124 KOG0115 RNA-binding protein p5 96.5 0.0035 7.6E-08 49.2 3.9 64 9-73 32-95 (275)
125 KOG0128 RNA-binding protein SA 96.5 0.00016 3.4E-09 64.8 -4.1 66 8-73 667-732 (881)
126 KOG2202 U2 snRNP splicing fact 96.5 0.0016 3.4E-08 51.1 1.9 64 23-88 83-147 (260)
127 KOG0112 Large RNA-binding prot 96.4 0.007 1.5E-07 55.0 5.9 79 8-93 455-535 (975)
128 KOG4307 RNA binding protein RB 96.2 0.0035 7.6E-08 55.5 2.8 78 8-87 434-512 (944)
129 PF03467 Smg4_UPF3: Smg-4/UPF3 95.8 0.031 6.8E-07 42.0 5.9 83 6-88 5-97 (176)
130 KOG2068 MOT2 transcription fac 95.4 0.0064 1.4E-07 49.5 0.9 79 9-88 78-162 (327)
131 KOG2416 Acinus (induces apopto 95.2 0.022 4.7E-07 49.8 3.8 77 8-90 444-523 (718)
132 PF07576 BRAP2: BRCA1-associat 94.9 0.35 7.6E-06 33.5 8.3 66 10-78 15-81 (110)
133 PF04847 Calcipressin: Calcipr 94.7 0.15 3.3E-06 38.6 6.8 61 21-88 8-70 (184)
134 PF15023 DUF4523: Protein of u 94.7 0.3 6.5E-06 35.4 7.8 70 8-86 86-159 (166)
135 PF03880 DbpA: DbpA RNA bindin 94.6 0.31 6.8E-06 31.1 7.2 67 10-86 2-74 (74)
136 KOG4574 RNA-binding protein (c 93.5 0.057 1.2E-06 49.1 2.6 74 10-89 300-374 (1007)
137 KOG2135 Proteins containing th 93.1 0.068 1.5E-06 45.6 2.4 71 11-89 375-446 (526)
138 KOG4210 Nuclear localization s 92.8 0.067 1.5E-06 43.4 1.9 77 7-84 87-163 (285)
139 KOG2591 c-Mpl binding protein, 92.5 0.17 3.6E-06 44.2 4.0 69 9-84 176-247 (684)
140 KOG2253 U1 snRNP complex, subu 92.4 0.075 1.6E-06 47.0 1.8 69 8-86 40-108 (668)
141 KOG4660 Protein Mei2, essentia 92.3 0.3 6.6E-06 42.5 5.3 83 8-90 388-474 (549)
142 PF11767 SET_assoc: Histone ly 91.5 1.9 4.2E-05 27.0 7.0 55 19-83 11-65 (66)
143 KOG4285 Mitotic phosphoprotein 89.9 0.91 2E-05 36.9 5.5 66 11-85 200-266 (350)
144 KOG0125 Ataxin 2-binding prote 89.8 0.11 2.5E-06 42.4 0.4 64 107-175 92-165 (376)
145 KOG4410 5-formyltetrahydrofola 89.1 1.1 2.5E-05 36.1 5.5 47 8-60 330-377 (396)
146 KOG0804 Cytoplasmic Zn-finger 87.8 2.1 4.6E-05 36.6 6.5 68 8-78 74-142 (493)
147 KOG2193 IGF-II mRNA-binding pr 84.4 0.11 2.5E-06 43.8 -2.4 75 8-87 80-155 (584)
148 KOG0226 RNA-binding proteins [ 83.9 0.47 1E-05 37.6 0.8 148 10-173 98-259 (290)
149 KOG4676 Splicing factor, argin 81.9 0.18 4E-06 42.1 -2.2 74 9-88 152-225 (479)
150 PF07530 PRE_C2HC: Associated 81.2 5.2 0.00011 25.1 4.8 62 23-88 2-64 (68)
151 smart00596 PRE_C2HC PRE_C2HC d 79.1 5.2 0.00011 25.2 4.2 61 23-87 2-63 (69)
152 KOG2318 Uncharacterized conser 75.3 24 0.00053 31.4 8.5 78 8-86 174-305 (650)
153 KOG4483 Uncharacterized conser 72.8 11 0.00025 31.9 5.7 55 8-69 391-446 (528)
154 KOG4454 RNA binding protein (R 72.1 0.77 1.7E-05 35.7 -1.1 65 8-73 80-148 (267)
155 KOG4019 Calcineurin-mediated s 71.2 8 0.00017 29.2 4.1 75 8-89 10-90 (193)
156 PF10567 Nab6_mRNP_bdg: RNA-re 67.6 12 0.00027 30.4 4.7 81 8-88 15-107 (309)
157 PF07292 NID: Nmi/IFP 35 domai 64.3 13 0.00028 24.6 3.7 34 53-86 1-34 (88)
158 COG0724 RNA-binding proteins ( 57.4 15 0.00032 28.0 3.6 59 8-66 225-283 (306)
159 PF15513 DUF4651: Domain of un 56.5 28 0.00062 21.4 3.9 18 23-40 9-26 (62)
160 PF07292 NID: Nmi/IFP 35 domai 53.6 7 0.00015 25.9 1.0 23 7-29 51-73 (88)
161 KOG4365 Uncharacterized conser 53.6 2.4 5.1E-05 36.3 -1.6 79 9-89 4-82 (572)
162 KOG2891 Surface glycoprotein [ 53.1 15 0.00033 29.7 3.0 34 8-41 149-194 (445)
163 PRK14548 50S ribosomal protein 51.2 68 0.0015 21.0 5.6 57 10-69 22-80 (84)
164 KOG0107 Alternative splicing f 50.6 6.3 0.00014 29.7 0.4 25 149-173 49-74 (195)
165 PF03468 XS: XS domain; Inter 46.8 29 0.00064 24.1 3.3 56 10-68 10-75 (116)
166 PF14893 PNMA: PNMA 42.9 21 0.00046 29.7 2.4 29 1-31 13-41 (331)
167 PF08206 OB_RNB: Ribonuclease 41.4 5.9 0.00013 23.8 -0.8 38 48-87 6-44 (58)
168 TIGR03636 L23_arch archaeal ri 40.6 98 0.0021 19.9 5.6 57 10-69 15-73 (77)
169 KOG2295 C2H2 Zn-finger protein 39.1 3.9 8.4E-05 36.0 -2.5 68 8-76 231-298 (648)
170 PF09707 Cas_Cas2CT1978: CRISP 36.1 1.1E+02 0.0024 20.1 4.6 48 8-58 25-72 (86)
171 KOG4207 Predicted splicing fac 31.8 12 0.00027 29.0 -0.5 24 149-172 57-81 (256)
172 KOG4008 rRNA processing protei 31.4 42 0.00091 26.5 2.3 32 7-38 39-70 (261)
173 COG5193 LHP1 La protein, small 31.4 22 0.00048 30.2 0.9 60 9-68 175-244 (438)
174 PF11411 DNA_ligase_IV: DNA li 30.8 43 0.00094 18.2 1.6 16 18-33 19-34 (36)
175 KOG4213 RNA-binding protein La 30.7 81 0.0018 23.9 3.6 49 20-69 118-169 (205)
176 PF02714 DUF221: Domain of unk 29.4 68 0.0015 26.1 3.4 31 53-86 1-31 (325)
177 PRK11558 putative ssRNA endonu 27.8 1.4E+02 0.0031 20.1 4.1 49 8-59 27-75 (97)
178 KOG1295 Nonsense-mediated deca 26.0 97 0.0021 26.2 3.7 73 8-80 7-82 (376)
179 PF15063 TC1: Thyroid cancer p 25.1 50 0.0011 21.2 1.4 27 9-35 26-52 (79)
180 PF08442 ATP-grasp_2: ATP-gras 24.0 2E+02 0.0044 22.0 4.9 54 20-77 25-81 (202)
181 PHA01632 hypothetical protein 23.3 94 0.002 18.7 2.3 20 12-31 20-39 (64)
182 PF10281 Ish1: Putative stress 23.0 82 0.0018 16.9 1.9 17 19-35 3-19 (38)
183 PRK11901 hypothetical protein; 22.5 1.9E+02 0.0041 24.1 4.7 61 8-73 245-307 (327)
184 KOG3424 40S ribosomal protein 22.4 2.9E+02 0.0062 19.5 5.3 46 18-64 33-83 (132)
185 cd00027 BRCT Breast Cancer Sup 22.4 1.5E+02 0.0032 16.9 3.3 27 9-35 2-28 (72)
186 PF03439 Spt5-NGN: Early trans 21.9 1.1E+02 0.0025 19.6 2.8 35 34-73 33-67 (84)
187 PF11823 DUF3343: Protein of u 21.6 1.1E+02 0.0024 19.0 2.6 28 51-79 2-29 (73)
188 KOG0156 Cytochrome P450 CYP2 s 21.6 1.8E+02 0.004 25.5 4.8 59 12-81 36-97 (489)
189 PF00398 RrnaAD: Ribosomal RNA 20.8 1.1E+02 0.0023 24.3 2.9 27 8-34 97-125 (262)
No 1
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.87 E-value=3.8e-22 Score=146.67 Aligned_cols=157 Identities=24% Similarity=0.319 Sum_probs=124.0
Q ss_pred CCCCCCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeE
Q 029736 1 MSGNSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRT 80 (189)
Q Consensus 1 m~~~~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~ 80 (189)
|+... .++|||||||.++.+.+|+++|.+||.|..|.|..- .....||||+|+++.+|+.||..-+|. .++|..
T Consensus 1 ~~gr~--~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r---~g~ppfafVeFEd~RDAeDAiygRdGY-dydg~r 74 (241)
T KOG0105|consen 1 MSGRN--SRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNR---PGPPPFAFVEFEDPRDAEDAIYGRDGY-DYDGCR 74 (241)
T ss_pred CCCcc--cceEEecCCCcchhhccHHHHHhhhcceEEEEeccC---CCCCCeeEEEecCccchhhhhhccccc-ccCcce
Confidence 55555 899999999999999999999999999999988433 244689999999999999999999997 999999
Q ss_pred EEEEecCCCCCCCCCCC-------CcCCCCC---CCCCCCCCcccCCCCCC---CCCC---CCCCCCCCCCCCCCCCCcc
Q 029736 81 LRFALSGQDKNTQNSSM-------TTTPLSS---RKSRSDPVPVPVNGMEI---SHHS---MRISGTRHYSSEEPPPPGV 144 (189)
Q Consensus 81 l~v~~~~~~~~~~~~~~-------~~~~~~~---~~~~~~~~~~~~~~~p~---~~~~---~~~~~~~~~~~~~~~~~~~ 144 (189)
|+|+++........... ...+... +......+++.|+++|. ||++ |+ .++.+.+
T Consensus 75 LRVEfprggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmR----------eaGdvCf 144 (241)
T KOG0105|consen 75 LRVEFPRGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMR----------EAGDVCF 144 (241)
T ss_pred EEEEeccCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHH----------hhCCeee
Confidence 99999987543321110 0111111 11122228999999999 9998 88 8888887
Q ss_pred ccCC---CCccccCCCcccccc-ccccCcccCC
Q 029736 145 THES---NGYETHLNVTNYDYS-RRVFGATLDS 173 (189)
Q Consensus 145 ~~~~---~Gy~~~~~~~~~~~a-~~~~g~~~~~ 173 (189)
+.+. .|.|.|..+++|+|| ++|+.+.+.+
T Consensus 145 adv~rDg~GvV~~~r~eDMkYAvr~ld~~~~~s 177 (241)
T KOG0105|consen 145 ADVQRDGVGVVEYLRKEDMKYAVRKLDDQKFRS 177 (241)
T ss_pred eeeecccceeeeeeehhhHHHHHHhhccccccC
Confidence 7664 799999999999999 9998887774
No 2
>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=99.84 E-value=3.1e-21 Score=159.01 Aligned_cols=152 Identities=19% Similarity=0.255 Sum_probs=113.8
Q ss_pred CCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEE
Q 029736 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (189)
Q Consensus 5 ~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~ 84 (189)
....++|||+|||+++++++|+++|++||.|++|+|++|+.+++++|||||+|.++++|++|++.|++. .|.+++|+|.
T Consensus 104 ~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~-~l~gr~i~V~ 182 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGI-TVRNKRLKVS 182 (346)
T ss_pred CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCC-ccCCceeeee
Confidence 345789999999999999999999999999999999999999999999999999999999999999998 9999999999
Q ss_pred ecCCCCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCC---CCCCCC-CCCCCCCCCCCCCCCcccc--CCCCccccCCCc
Q 029736 85 LSGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEI---SHHSMR-ISGTRHYSSEEPPPPGVTH--ESNGYETHLNVT 158 (189)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~---~~~~~~-~~~~~~~~~~~~~~~~~~~--~~~Gy~~~~~~~ 158 (189)
++++.... .....+.|.++|. ++++.. +.....+..-.......+. ..++||.|.+.+
T Consensus 183 ~a~p~~~~----------------~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e 246 (346)
T TIGR01659 183 YARPGGES----------------IKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKRE 246 (346)
T ss_pred cccccccc----------------cccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHH
Confidence 87643211 1125688889887 222211 0011011000000000011 127899999999
Q ss_pred ccccc-ccccCcccCC
Q 029736 159 NYDYS-RRVFGATLDS 173 (189)
Q Consensus 159 ~~~~a-~~~~g~~~~~ 173 (189)
+++.| ..|+|..|..
T Consensus 247 ~A~~Ai~~lng~~~~g 262 (346)
T TIGR01659 247 EAQEAISALNNVIPEG 262 (346)
T ss_pred HHHHHHHHhCCCccCC
Confidence 99999 8899998763
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.84 E-value=4.5e-20 Score=134.58 Aligned_cols=82 Identities=29% Similarity=0.470 Sum_probs=78.3
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
..++|||+||++.++|++|+++|++||.|.+|.|+.|+.+++++|||||+|.+.++|++|++.||+. .|+|+.|+|+++
T Consensus 33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~-~i~Gr~l~V~~a 111 (144)
T PLN03134 33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGK-ELNGRHIRVNPA 111 (144)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCC-EECCEEEEEEeC
Confidence 3789999999999999999999999999999999999999999999999999999999999999998 999999999998
Q ss_pred CCC
Q 029736 87 GQD 89 (189)
Q Consensus 87 ~~~ 89 (189)
...
T Consensus 112 ~~~ 114 (144)
T PLN03134 112 NDR 114 (144)
T ss_pred CcC
Confidence 654
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.82 E-value=2.5e-20 Score=154.20 Aligned_cols=148 Identities=18% Similarity=0.293 Sum_probs=112.3
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|||+|||..+++++|+++|++||.|.+|+|++|+.+|+++|||||+|.+.++|++||+.|||. .|.|+.|+|.+++
T Consensus 3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~-~l~g~~i~v~~a~ 81 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGL-RLQNKTIKVSYAR 81 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccE-EECCeeEEEEeec
Confidence 789999999999999999999999999999999999999999999999999999999999999998 9999999999986
Q ss_pred CCCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCC---CCCCCC-CCCCCCCCC---CCCCCCccccCCCCccccCCCccc
Q 029736 88 QDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEI---SHHSMR-ISGTRHYSS---EEPPPPGVTHESNGYETHLNVTNY 160 (189)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~---~~~~~~-~~~~~~~~~---~~~~~~~~~~~~~Gy~~~~~~~~~ 160 (189)
+.... .....+.+.++|. ++++.. +.....+.. ......+ ....+||+.|.+.+++
T Consensus 82 ~~~~~----------------~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~-~~~g~~fv~f~~~~~A 144 (352)
T TIGR01661 82 PSSDS----------------IKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTG-LSKGVGFIRFDKRDEA 144 (352)
T ss_pred ccccc----------------cccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCC-CcCcEEEEEECCHHHH
Confidence 53211 1124678888887 222211 011111100 0000000 1223799999999999
Q ss_pred ccc-ccccCcccCC
Q 029736 161 DYS-RRVFGATLDS 173 (189)
Q Consensus 161 ~~a-~~~~g~~~~~ 173 (189)
..| ..|+|..+..
T Consensus 145 ~~ai~~l~g~~~~g 158 (352)
T TIGR01661 145 DRAIKTLNGTTPSG 158 (352)
T ss_pred HHHHHHhCCCccCC
Confidence 999 8899988764
No 5
>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=99.78 E-value=3.2e-19 Score=154.93 Aligned_cols=160 Identities=20% Similarity=0.275 Sum_probs=113.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|||+||++.+++++|+++|.+||.|.+|+|++|+.+++++|||||+|.+.++|++|++.|||. .|+|+.|+|.+..
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~-~i~GR~IkV~rp~ 185 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQ-MLGGRNIKVGRPS 185 (612)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCe-EEecceeeecccc
Confidence 579999999999999999999999999999999999999999999999999999999999999998 9999999998643
Q ss_pred CCCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCC---CCCCCC-CCCCCCCCCCCCC--CCccccCCCCccccCCCcccc
Q 029736 88 QDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEI---SHHSMR-ISGTRHYSSEEPP--PPGVTHESNGYETHLNVTNYD 161 (189)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~---~~~~~~-~~~~~~~~~~~~~--~~~~~~~~~Gy~~~~~~~~~~ 161 (189)
....... ..... ........+++|.++|. +.++.. +.....+..-... +.+.....+||+.|.+.+++.
T Consensus 186 ~~p~a~~----~~~~~-~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~ 260 (612)
T TIGR01645 186 NMPQAQP----IIDMV-QEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQS 260 (612)
T ss_pred ccccccc----ccccc-cccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHH
Confidence 3211100 00000 00011126889999987 222211 1111111110000 001112237899999999999
Q ss_pred cc-ccccCcccCC
Q 029736 162 YS-RRVFGATLDS 173 (189)
Q Consensus 162 ~a-~~~~g~~~~~ 173 (189)
.| ..++|.+|++
T Consensus 261 kAI~amNg~elgG 273 (612)
T TIGR01645 261 EAIASMNLFDLGG 273 (612)
T ss_pred HHHHHhCCCeeCC
Confidence 99 8999988883
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.78 E-value=2.7e-18 Score=142.13 Aligned_cols=81 Identities=31% Similarity=0.463 Sum_probs=77.5
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
+.+|||+|||+.+++++|+++|++||.|.+++|++|+.++.+||||||+|.+.++|.+|++.|||. .|+|+.|+|.+..
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~-~~~gr~i~V~~~~ 347 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGY-TLGNRVLQVSFKT 347 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCC-EECCeEEEEEEcc
Confidence 457999999999999999999999999999999999999999999999999999999999999998 9999999999986
Q ss_pred CC
Q 029736 88 QD 89 (189)
Q Consensus 88 ~~ 89 (189)
.+
T Consensus 348 ~~ 349 (352)
T TIGR01661 348 NK 349 (352)
T ss_pred CC
Confidence 64
No 7
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.77 E-value=3.5e-19 Score=137.90 Aligned_cols=157 Identities=22% Similarity=0.270 Sum_probs=119.6
Q ss_pred eEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCCC
Q 029736 10 NVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQD 89 (189)
Q Consensus 10 ~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~~ 89 (189)
-+||+.|..+++-++|++.|.+||+|.++++++|..|+++|||+||.|.+.++|+.||+.|||. -|++|.||..|+..+
T Consensus 64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGq-WlG~R~IRTNWATRK 142 (321)
T KOG0148|consen 64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQ-WLGRRTIRTNWATRK 142 (321)
T ss_pred eEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCe-eeccceeeccccccC
Confidence 4899999999999999999999999999999999999999999999999999999999999999 899999999999776
Q ss_pred CCCCCCCCCcCCCCCCCCCCCCCcccCCCCCC-C-CCCCC--CCCCCCCCCCCCCCCccccC-CCCccccCCCcccccc-
Q 029736 90 KNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEI-S-HHSMR--ISGTRHYSSEEPPPPGVTHE-SNGYETHLNVTNYDYS- 163 (189)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-~-~~~~~--~~~~~~~~~~~~~~~~~~~~-~~Gy~~~~~~~~~~~a- 163 (189)
.....+....-...-....|....+.+.+++. + .++|+ +++..++. .++.... .+.||.|..++.+-+|
T Consensus 143 p~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~-----EVRvFk~qGYaFVrF~tkEaAahAI 217 (321)
T KOG0148|consen 143 PSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQ-----EVRVFKDQGYAFVRFETKEAAAHAI 217 (321)
T ss_pred ccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcce-----EEEEecccceEEEEecchhhHHHHH
Confidence 53322221110111112234447888888887 2 22232 22222222 3333332 3789999999999999
Q ss_pred ccccCcccC
Q 029736 164 RRVFGATLD 172 (189)
Q Consensus 164 ~~~~g~~~~ 172 (189)
..++|+++.
T Consensus 218 v~mNntei~ 226 (321)
T KOG0148|consen 218 VQMNNTEIG 226 (321)
T ss_pred HHhcCceeC
Confidence 899999988
No 8
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.75 E-value=9.9e-18 Score=127.60 Aligned_cols=78 Identities=24% Similarity=0.377 Sum_probs=73.4
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
++||||+|+|++..+.|+++|++||+|++..++.|+.+|++||||||+|.+.+.|.+|++..|- .|+||+..+.++..
T Consensus 13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~p--iIdGR~aNcnlA~l 90 (247)
T KOG0149|consen 13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNP--IIDGRKANCNLASL 90 (247)
T ss_pred EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCC--cccccccccchhhh
Confidence 6899999999999999999999999999999999999999999999999999999999998776 59999988887765
No 9
>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=99.74 E-value=7.5e-18 Score=144.10 Aligned_cols=159 Identities=19% Similarity=0.290 Sum_probs=113.3
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
..++|||+|||..+++++|+++|++||.|..|+|+.|+.+++++|||||+|.+.++|++||. |+|. .|.|+.|.|..+
T Consensus 88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~-~~~g~~i~v~~~ 165 (457)
T TIGR01622 88 DDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQ-MLLGRPIIVQSS 165 (457)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCC-EECCeeeEEeec
Confidence 36899999999999999999999999999999999999999999999999999999999997 8998 999999999887
Q ss_pred CCCCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCC---CCCCCC-CCCCCCCCC---CCCCCCccccCCCCccccCCCcc
Q 029736 87 GQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEI---SHHSMR-ISGTRHYSS---EEPPPPGVTHESNGYETHLNVTN 159 (189)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~---~~~~~~-~~~~~~~~~---~~~~~~~~~~~~~Gy~~~~~~~~ 159 (189)
............. .....+....+.|.++|. .+++.. +.....+.. ......+ ....+|||.|.+..+
T Consensus 166 ~~~~~~~~~~~~~----~~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g-~~~g~afV~f~~~e~ 240 (457)
T TIGR01622 166 QAEKNRAAKAATH----QPGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETG-RSKGFGFIQFHDAEE 240 (457)
T ss_pred chhhhhhhhcccc----cCCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCC-ccceEEEEEECCHHH
Confidence 5533322111000 111122247789999996 111111 111111110 0000000 112368999999999
Q ss_pred cccc-ccccCcccC
Q 029736 160 YDYS-RRVFGATLD 172 (189)
Q Consensus 160 ~~~a-~~~~g~~~~ 172 (189)
+..| ..|+|..|.
T Consensus 241 A~~A~~~l~g~~i~ 254 (457)
T TIGR01622 241 AKEALEVMNGFELA 254 (457)
T ss_pred HHHHHHhcCCcEEC
Confidence 9999 789998886
No 10
>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=99.74 E-value=2.3e-17 Score=105.17 Aligned_cols=70 Identities=39% Similarity=0.669 Sum_probs=67.1
Q ss_pred EEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEE
Q 029736 11 VYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (189)
Q Consensus 11 l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~ 82 (189)
|||+|||.++++++|+++|++||.|..+.+..+ .++..+++|||+|.+.++|++|++.|+|. .++|+.|+
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 68899999999999999999999999998 99999986
No 11
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.74 E-value=1.8e-17 Score=126.76 Aligned_cols=86 Identities=34% Similarity=0.466 Sum_probs=81.0
Q ss_pred CCCCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEE
Q 029736 3 GNSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (189)
Q Consensus 3 ~~~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~ 82 (189)
.+..|..+|-|.||+.+++|++|+++|.+||.|..+.|.+|+.||.+||||||.|.++++|++||+.|||. -++.-.|+
T Consensus 184 R~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~-gyd~LILr 262 (270)
T KOG0122|consen 184 RERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGY-GYDNLILR 262 (270)
T ss_pred ccCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCc-ccceEEEE
Confidence 45667899999999999999999999999999999999999999999999999999999999999999997 88888999
Q ss_pred EEecCCC
Q 029736 83 FALSGQD 89 (189)
Q Consensus 83 v~~~~~~ 89 (189)
|+|+++.
T Consensus 263 vEwskP~ 269 (270)
T KOG0122|consen 263 VEWSKPS 269 (270)
T ss_pred EEecCCC
Confidence 9999874
No 12
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.73 E-value=3e-18 Score=132.27 Aligned_cols=149 Identities=17% Similarity=0.234 Sum_probs=114.1
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.+.|+|.-||..+|+++|+.+|...|+|++|++++|+.+|.+-||+||.|.++++|++|+..|||. .+..+.|+|++++
T Consensus 41 kTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGL-rLQ~KTIKVSyAR 119 (360)
T KOG0145|consen 41 KTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGL-RLQNKTIKVSYAR 119 (360)
T ss_pred cceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcce-eeccceEEEEecc
Confidence 578999999999999999999999999999999999999999999999999999999999999996 9999999999997
Q ss_pred CCCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCC---CCCCC-CCCCCCCCCCCCCCCCccccC--CCCccccCCCcccc
Q 029736 88 QDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEI---SHHSM-RISGTRHYSSEEPPPPGVTHE--SNGYETHLNVTNYD 161 (189)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~---~~~~~-~~~~~~~~~~~~~~~~~~~~~--~~Gy~~~~~~~~~~ 161 (189)
+..... +...+.++|+|- .+++. -+.+...+-.++..-...+.. ..||+.|..+.+++
T Consensus 120 PSs~~I----------------k~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe 183 (360)
T KOG0145|consen 120 PSSDSI----------------KDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAE 183 (360)
T ss_pred CChhhh----------------cccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHH
Confidence 743321 124567777776 11111 111222222222222222222 37899999999999
Q ss_pred cc-ccccCcccCC
Q 029736 162 YS-RRVFGATLDS 173 (189)
Q Consensus 162 ~a-~~~~g~~~~~ 173 (189)
.| ..|+|..=-+
T Consensus 184 ~AIk~lNG~~P~g 196 (360)
T KOG0145|consen 184 EAIKGLNGQKPSG 196 (360)
T ss_pred HHHHhccCCCCCC
Confidence 99 8999986543
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=99.72 E-value=1.1e-17 Score=146.59 Aligned_cols=149 Identities=21% Similarity=0.320 Sum_probs=109.0
Q ss_pred eEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCCC
Q 029736 10 NVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQD 89 (189)
Q Consensus 10 ~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~~ 89 (189)
+|||+|||++++|++|+++|++||.|.+|+|.+|+.+++++|||||+|.+.++|++|++.||+. .|.|+.|+|.|+...
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 6999999999999999999999999999999999999999999999999999999999999998 899999999987532
Q ss_pred CCCCCCCCCcCCCCCCCCCCCCCcccCCCCCCCCC---CCC-CCCCCCCCCCCCCC-CccccCCCCccccCCCcccccc-
Q 029736 90 KNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEISHH---SMR-ISGTRHYSSEEPPP-PGVTHESNGYETHLNVTNYDYS- 163 (189)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~---~~~-~~~~~~~~~~~~~~-~~~~~~~~Gy~~~~~~~~~~~a- 163 (189)
...+ ......+.|.++|.--+ +.. +.....+..-.... .......+|||.|.+.++++.|
T Consensus 81 ~~~~--------------~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai 146 (562)
T TIGR01628 81 PSLR--------------RSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAI 146 (562)
T ss_pred cccc--------------ccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHH
Confidence 1110 01124678888886111 100 00000111000000 0000123789999999999999
Q ss_pred ccccCcccCC
Q 029736 164 RRVFGATLDS 173 (189)
Q Consensus 164 ~~~~g~~~~~ 173 (189)
.+++|..++.
T Consensus 147 ~~lng~~~~~ 156 (562)
T TIGR01628 147 QKVNGMLLND 156 (562)
T ss_pred HHhcccEecC
Confidence 8898888774
No 14
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.70 E-value=4.4e-17 Score=113.30 Aligned_cols=81 Identities=31% Similarity=0.595 Sum_probs=77.2
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
.+++||||||++.++|++|.++|+++|.|..|.+-.|+.+..+.|||||+|.+.++|+.|++.++++ .++.+.|++.|.
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 4789999999999999999999999999999999999999999999999999999999999999999 999999999987
Q ss_pred CC
Q 029736 87 GQ 88 (189)
Q Consensus 87 ~~ 88 (189)
-.
T Consensus 114 ~G 115 (153)
T KOG0121|consen 114 AG 115 (153)
T ss_pred cc
Confidence 54
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=99.70 E-value=2.7e-16 Score=136.15 Aligned_cols=81 Identities=26% Similarity=0.397 Sum_probs=77.5
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|||+|||..+++++|+++|++||.|..+.|+.++.+|.++|||||+|.+.+.|..||+.|||. .|+|+.|.|.++.
T Consensus 295 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~-~~~~~~l~v~~a~ 373 (509)
T TIGR01642 295 KDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGK-DTGDNKLHVQRAC 373 (509)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCC-EECCeEEEEEECc
Confidence 579999999999999999999999999999999999999999999999999999999999999998 9999999999986
Q ss_pred CC
Q 029736 88 QD 89 (189)
Q Consensus 88 ~~ 89 (189)
..
T Consensus 374 ~~ 375 (509)
T TIGR01642 374 VG 375 (509)
T ss_pred cC
Confidence 54
No 16
>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=99.69 E-value=1.8e-16 Score=130.77 Aligned_cols=84 Identities=29% Similarity=0.448 Sum_probs=77.0
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCC--eEEEEEe
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN--RTLRFAL 85 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g--~~l~v~~ 85 (189)
.++|||+|||+.+++++|+++|++||.|+.++|++|+.++++||||||+|.+.++|++||+.||+. .+.+ ++|+|.+
T Consensus 193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~-~~~g~~~~l~V~~ 271 (346)
T TIGR01659 193 DTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNV-IPEGGSQPLTVRL 271 (346)
T ss_pred cceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCC-ccCCCceeEEEEE
Confidence 578999999999999999999999999999999999999999999999999999999999999998 7765 6899999
Q ss_pred cCCCCCC
Q 029736 86 SGQDKNT 92 (189)
Q Consensus 86 ~~~~~~~ 92 (189)
++.....
T Consensus 272 a~~~~~~ 278 (346)
T TIGR01659 272 AEEHGKA 278 (346)
T ss_pred CCccccc
Confidence 8765443
No 17
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.69 E-value=5.9e-17 Score=118.98 Aligned_cols=154 Identities=31% Similarity=0.457 Sum_probs=110.5
Q ss_pred CCCCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEE
Q 029736 3 GNSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (189)
Q Consensus 3 ~~~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~ 82 (189)
.+.++..+||||||+..++++.|.++|-+.|.|+.+++.+|+.++..+||||++|.++++|+-|++.||. +.|.|++|+
T Consensus 4 ~~rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~-VkLYgrpIr 82 (203)
T KOG0131|consen 4 IERNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNM-VKLYGRPIR 82 (203)
T ss_pred cccCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHH-HHhcCceeE
Confidence 4566789999999999999999999999999999999999999999999999999999999999999996 599999999
Q ss_pred EEecCCCCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCC------CCCCCCCCCCCCCCC-CCCCCCcc--ccCCCCccc
Q 029736 83 FALSGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEI------SHHSMRISGTRHYSS-EEPPPPGV--THESNGYET 153 (189)
Q Consensus 83 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~------~~~~~~~~~~~~~~~-~~~~~~~~--~~~~~Gy~~ 153 (189)
|..+..... +..+ ...+.+.++.. +.+... ...++.. |+..+... ....+||+.
T Consensus 83 v~kas~~~~----nl~v-----------ganlfvgNLd~~vDe~~L~dtFs--afG~l~~~P~i~rd~~tg~~~~~g~i~ 145 (203)
T KOG0131|consen 83 VNKASAHQK----NLDV-----------GANLFVGNLDPEVDEKLLYDTFS--AFGVLISPPKIMRDPDTGNPKGFGFIN 145 (203)
T ss_pred EEecccccc----cccc-----------cccccccccCcchhHHHHHHHHH--hccccccCCcccccccCCCCCCCeEEe
Confidence 998862211 1111 13444555444 111111 1111111 12111111 122378888
Q ss_pred cCCCcccccc-ccccCcccCCc
Q 029736 154 HLNVTNYDYS-RRVFGATLDSI 174 (189)
Q Consensus 154 ~~~~~~~~~a-~~~~g~~~~~~ 174 (189)
|...+..+.| ..++|..+.+.
T Consensus 146 ~~sfeasd~ai~s~ngq~l~nr 167 (203)
T KOG0131|consen 146 YASFEASDAAIGSMNGQYLCNR 167 (203)
T ss_pred chhHHHHHHHHHHhccchhcCC
Confidence 8888888888 88888887743
No 18
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.69 E-value=3.3e-17 Score=123.75 Aligned_cols=95 Identities=35% Similarity=0.545 Sum_probs=87.3
Q ss_pred CCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 6 ~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
++.++||||+|..+++|.-|...|.+||.|..|+++.|-.+++.||||||+|...|+|.+||..||+. +|.||.|+|.+
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnes-EL~GrtirVN~ 86 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNES-ELFGRTIRVNL 86 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchh-hhcceeEEEee
Confidence 45789999999999999999999999999999999999999999999999999999999999999999 99999999999
Q ss_pred cCCCCCCCCCCCCcCC
Q 029736 86 SGQDKNTQNSSMTTTP 101 (189)
Q Consensus 86 ~~~~~~~~~~~~~~~~ 101 (189)
+++.+-...+..++|.
T Consensus 87 AkP~kikegsqkPvWA 102 (298)
T KOG0111|consen 87 AKPEKIKEGSQKPVWA 102 (298)
T ss_pred cCCccccCCCCCCccc
Confidence 9987766655555543
No 19
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.68 E-value=1.9e-16 Score=129.95 Aligned_cols=142 Identities=18% Similarity=0.327 Sum_probs=106.5
Q ss_pred CCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceee-CCeEEEE
Q 029736 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTL-YNRTLRF 83 (189)
Q Consensus 5 ~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~-~g~~l~v 83 (189)
|.-++-||||.||.++.|++|.-+|++.|+|-+++|++|+.+|.+||||||+|.+.++|+.|++.||+. +| .|+.|.|
T Consensus 80 p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~-Eir~GK~igv 158 (506)
T KOG0117|consen 80 PPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNY-EIRPGKLLGV 158 (506)
T ss_pred CCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCc-cccCCCEeEE
Confidence 455899999999999999999999999999999999999999999999999999999999999999998 76 6789999
Q ss_pred EecCCCCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCC-CCCC-----C-----CCCCCCCCCCCCCCCCccccCCCCcc
Q 029736 84 ALSGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEI-SHHS-----M-----RISGTRHYSSEEPPPPGVTHESNGYE 152 (189)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-~~~~-----~-----~~~~~~~~~~~~~~~~~~~~~~~Gy~ 152 (189)
..+... .++++.++|- |... + +.-....|. ++.. ---|--+.|+
T Consensus 159 c~Svan----------------------~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~--~p~d-k~KNRGFaFv 213 (506)
T KOG0117|consen 159 CVSVAN----------------------CRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYP--SPDD-KTKNRGFAFV 213 (506)
T ss_pred EEeeec----------------------ceeEeccCCccccHHHHHHHHHhhCCCeeEEEEec--Cccc-cccccceEEE
Confidence 887554 3445555554 1111 0 111111111 1111 1113337799
Q ss_pred ccCCCcccccc-ccccCcccC
Q 029736 153 THLNVTNYDYS-RRVFGATLD 172 (189)
Q Consensus 153 ~~~~~~~~~~a-~~~~g~~~~ 172 (189)
.|.++..+++| +||--..|.
T Consensus 214 eYe~H~~Aa~aRrKl~~g~~k 234 (506)
T KOG0117|consen 214 EYESHRAAAMARRKLMPGKIK 234 (506)
T ss_pred EeecchhHHHHHhhccCCcee
Confidence 99999999999 666555554
No 20
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.67 E-value=7.5e-16 Score=134.10 Aligned_cols=82 Identities=20% Similarity=0.284 Sum_probs=78.0
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|||+||++++++++|+++|++||.|.+|+|.+|+.++++||||||+|.+.++|.+|++.||+. .|+|+.|+|.++.
T Consensus 204 ~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~-elgGr~LrV~kAi 282 (612)
T TIGR01645 204 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLF-DLGGQYLRVGKCV 282 (612)
T ss_pred cceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCC-eeCCeEEEEEecC
Confidence 478999999999999999999999999999999999999999999999999999999999999998 9999999999887
Q ss_pred CCC
Q 029736 88 QDK 90 (189)
Q Consensus 88 ~~~ 90 (189)
..+
T Consensus 283 ~pP 285 (612)
T TIGR01645 283 TPP 285 (612)
T ss_pred CCc
Confidence 543
No 21
>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=8.6e-16 Score=98.31 Aligned_cols=70 Identities=37% Similarity=0.604 Sum_probs=64.5
Q ss_pred EEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEE
Q 029736 11 VYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (189)
Q Consensus 11 l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~ 82 (189)
|||+|||+.+++++|+++|+.+|.|..+++..++. +..+++|||+|.+.++|.+|++.+++. .++|+.|+
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 899999999999999999999999987 99999885
No 22
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.66 E-value=4.6e-16 Score=113.68 Aligned_cols=80 Identities=30% Similarity=0.573 Sum_probs=73.4
Q ss_pred CCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 6 ~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
+..++||||||+..+++.||+..|..||.|.++.|-.. +.|||||+|+++.+|++|+..|+|. .|.|..|+|++
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 34799999999999999999999999999999988654 5799999999999999999999999 99999999999
Q ss_pred cCCCCC
Q 029736 86 SGQDKN 91 (189)
Q Consensus 86 ~~~~~~ 91 (189)
+.....
T Consensus 82 S~G~~r 87 (195)
T KOG0107|consen 82 STGRPR 87 (195)
T ss_pred ecCCcc
Confidence 987544
No 23
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.65 E-value=1.4e-15 Score=119.06 Aligned_cols=77 Identities=17% Similarity=0.285 Sum_probs=71.1
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|||+||++.+++++|+++|+.||.|.+|.|+.++ ..+|||||+|.++++|+.||. |+|. .|.|+.|+|..+.
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 6799999999999999999999999999999999885 357999999999999999996 9998 9999999999876
Q ss_pred CC
Q 029736 88 QD 89 (189)
Q Consensus 88 ~~ 89 (189)
..
T Consensus 79 ~~ 80 (260)
T PLN03120 79 DY 80 (260)
T ss_pred CC
Confidence 43
No 24
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.65 E-value=3.1e-16 Score=117.38 Aligned_cols=83 Identities=31% Similarity=0.508 Sum_probs=78.5
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
-.+|-|.||...++.++|+.+|++||.|.+|.|.+|+.|+.++|||||-|....+|++|+++|+|. .|+|+.|+|++++
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 467999999999999999999999999999999999999999999999999999999999999998 9999999999887
Q ss_pred CCCC
Q 029736 88 QDKN 91 (189)
Q Consensus 88 ~~~~ 91 (189)
....
T Consensus 92 ygr~ 95 (256)
T KOG4207|consen 92 YGRP 95 (256)
T ss_pred cCCC
Confidence 6443
No 25
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.64 E-value=6.5e-16 Score=122.65 Aligned_cols=80 Identities=21% Similarity=0.286 Sum_probs=74.1
Q ss_pred CCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 6 ~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
...++|+|+|||+...+-||+..|++||+|.+|.|+.+ ..-+||||||+|++.++|++|-++|+|. .+.||+|.|..
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfN--ERGSKGFGFVTmen~~dadRARa~LHgt-~VEGRkIEVn~ 170 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFN--ERGSKGFGFVTMENPADADRARAELHGT-VVEGRKIEVNN 170 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEec--cCCCCccceEEecChhhHHHHHHHhhcc-eeeceEEEEec
Confidence 34689999999999999999999999999999999986 3568999999999999999999999999 99999999998
Q ss_pred cCC
Q 029736 86 SGQ 88 (189)
Q Consensus 86 ~~~ 88 (189)
+..
T Consensus 171 ATa 173 (376)
T KOG0125|consen 171 ATA 173 (376)
T ss_pred cch
Confidence 865
No 26
>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=99.64 E-value=1.1e-15 Score=131.73 Aligned_cols=161 Identities=15% Similarity=0.182 Sum_probs=108.4
Q ss_pred CCeEEEcCCCC-CCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 8 GCNVYIGNLDE-KVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 8 ~~~l~V~nL~~-~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
+++|||+||++ .+++++|+++|++||.|..|++++++ +|+|||+|.+.++|+.|++.|||. .|.|+.|+|.++
T Consensus 275 ~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~-~l~g~~l~v~~s 348 (481)
T TIGR01649 275 GSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGV-KLFGKPLRVCPS 348 (481)
T ss_pred CCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCC-EECCceEEEEEc
Confidence 68999999998 69999999999999999999998863 699999999999999999999998 999999999998
Q ss_pred CCCCCCCCCC-------C----CcCCCCCCCC----------CCCCCcccCCCCCC---CCCCCCCC-CCCC--CCCCCC
Q 029736 87 GQDKNTQNSS-------M----TTTPLSSRKS----------RSDPVPVPVNGMEI---SHHSMRIS-GTRH--YSSEEP 139 (189)
Q Consensus 87 ~~~~~~~~~~-------~----~~~~~~~~~~----------~~~~~~~~~~~~p~---~~~~~~~~-~~~~--~~~~~~ 139 (189)
+......... . .......... .+....+++.++|. ++++..+. .... +..-..
T Consensus 349 ~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~ 428 (481)
T TIGR01649 349 KQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQPPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKF 428 (481)
T ss_pred ccccccCCCCCcCcCCCcccccccCCccccCCCcccccccccCCCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEE
Confidence 6542211100 0 0000000000 01115678888886 32221110 0000 000000
Q ss_pred CCCccccCCCCccccCCCcccccc-ccccCcccCCc
Q 029736 140 PPPGVTHESNGYETHLNVTNYDYS-RRVFGATLDSI 174 (189)
Q Consensus 140 ~~~~~~~~~~Gy~~~~~~~~~~~a-~~~~g~~~~~~ 174 (189)
-+..-.....||++|.+.+++..| ..++|..|+..
T Consensus 429 ~~~~~~~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~ 464 (481)
T TIGR01649 429 FPKDNERSKMGLLEWESVEDAVEALIALNHHQLNEP 464 (481)
T ss_pred ecCCCCcceeEEEEcCCHHHHHHHHHHhcCCccCCC
Confidence 000000123799999999999999 89999999854
No 27
>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=99.63 E-value=1.1e-15 Score=131.60 Aligned_cols=152 Identities=17% Similarity=0.111 Sum_probs=104.1
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHc--CCceeeCCeEEEEEe
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLF--SGIVTLYNRTLRFAL 85 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l--~g~~~~~g~~l~v~~ 85 (189)
+++|||+|||+.+++++|+++|++||.|.+|.++.+ |++|||+|.+.++|++|++.+ ++. .|.|+.|+|.+
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~-~l~g~~l~v~~ 74 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPI-YIRGQPAFFNY 74 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCc-eEcCeEEEEEe
Confidence 789999999999999999999999999999999864 489999999999999999874 666 89999999999
Q ss_pred cCCCCCCCCCCCCcCCCCCCCCCCCC-CcccCCCCCCCCCC---CC-CCCCCCCCCCCCCCCccccCCCCccccCCCccc
Q 029736 86 SGQDKNTQNSSMTTTPLSSRKSRSDP-VPVPVNGMEISHHS---MR-ISGTRHYSSEEPPPPGVTHESNGYETHLNVTNY 160 (189)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~p~~~~~---~~-~~~~~~~~~~~~~~~~~~~~~~Gy~~~~~~~~~ 160 (189)
+.........+. .. ....+.. ..+.+.+++.+-.. .. +.....+..-...... ....|||.|.+.+++
T Consensus 75 s~~~~~~~~~~~----~~-~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~--~~~~afVef~~~~~A 147 (481)
T TIGR01649 75 STSQEIKRDGNS----DF-DSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKN--NVFQALVEFESVNSA 147 (481)
T ss_pred cCCcccccCCCC----cc-cCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecC--CceEEEEEECCHHHH
Confidence 865432221110 00 0111122 46778887752111 00 1111111100000000 012599999999999
Q ss_pred ccc-ccccCcccCC
Q 029736 161 DYS-RRVFGATLDS 173 (189)
Q Consensus 161 ~~a-~~~~g~~~~~ 173 (189)
+.| ..|+|.+|.+
T Consensus 148 ~~A~~~Lng~~i~~ 161 (481)
T TIGR01649 148 QHAKAALNGADIYN 161 (481)
T ss_pred HHHHHHhcCCcccC
Confidence 999 8899999853
No 28
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.63 E-value=4.1e-16 Score=127.61 Aligned_cols=85 Identities=27% Similarity=0.472 Sum_probs=79.8
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCe--EEEEEe
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR--TLRFAL 85 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~--~l~v~~ 85 (189)
.++||||.|+..++|.+++++|.+||.|++|.|++|. .+.+||||||.|.+++.|..||+.|||..++.|. +|.|+|
T Consensus 124 e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkF 202 (510)
T KOG0144|consen 124 ERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKF 202 (510)
T ss_pred chhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEe
Confidence 6789999999999999999999999999999999994 7999999999999999999999999999888887 899999
Q ss_pred cCCCCCCC
Q 029736 86 SGQDKNTQ 93 (189)
Q Consensus 86 ~~~~~~~~ 93 (189)
++.++.+.
T Consensus 203 ADtqkdk~ 210 (510)
T KOG0144|consen 203 ADTQKDKD 210 (510)
T ss_pred cccCCCch
Confidence 99877665
No 29
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.62 E-value=3.1e-15 Score=117.43 Aligned_cols=83 Identities=29% Similarity=0.404 Sum_probs=78.6
Q ss_pred CCCCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEE
Q 029736 3 GNSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (189)
Q Consensus 3 ~~~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~ 82 (189)
+|| -+||||+-|+.+++|..|+..|++||.|+.|+|++|+.||+++|||||+|..+-+...|.+..+|. .|+|+.|.
T Consensus 98 gDP--y~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~-~Idgrri~ 174 (335)
T KOG0113|consen 98 GDP--YKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGI-KIDGRRIL 174 (335)
T ss_pred CCc--cceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCc-eecCcEEE
Confidence 466 799999999999999999999999999999999999999999999999999999999999999997 99999999
Q ss_pred EEecCC
Q 029736 83 FALSGQ 88 (189)
Q Consensus 83 v~~~~~ 88 (189)
|.+-..
T Consensus 175 VDvERg 180 (335)
T KOG0113|consen 175 VDVERG 180 (335)
T ss_pred EEeccc
Confidence 987644
No 30
>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=99.61 E-value=5.2e-15 Score=126.60 Aligned_cols=80 Identities=29% Similarity=0.546 Sum_probs=76.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|||+|||..+++++|+++|++||.|..|.|+.++.+|+++|||||+|.+.++|.+|++.|||. .|.|+.|+|.++.
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 589999999999999999999999999999999999989999999999999999999999999997 9999999999976
Q ss_pred C
Q 029736 88 Q 88 (189)
Q Consensus 88 ~ 88 (189)
.
T Consensus 265 ~ 265 (457)
T TIGR01622 265 D 265 (457)
T ss_pred C
Confidence 3
No 31
>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=99.60 E-value=4.3e-15 Score=129.02 Aligned_cols=81 Identities=27% Similarity=0.500 Sum_probs=73.2
Q ss_pred CCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceee-CCeEEEE
Q 029736 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTL-YNRTLRF 83 (189)
Q Consensus 5 ~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~-~g~~l~v 83 (189)
|...++|||+|||++++|++|+++|++||.|.+|+|++| .++++||||||+|.+.++|++||+.||+. .| .|+.|.|
T Consensus 55 p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~-~i~~Gr~l~V 132 (578)
T TIGR01648 55 PGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNY-EIRPGRLLGV 132 (578)
T ss_pred CCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCC-eecCCccccc
Confidence 344689999999999999999999999999999999999 79999999999999999999999999998 66 4777777
Q ss_pred EecC
Q 029736 84 ALSG 87 (189)
Q Consensus 84 ~~~~ 87 (189)
..+.
T Consensus 133 ~~S~ 136 (578)
T TIGR01648 133 CISV 136 (578)
T ss_pred cccc
Confidence 6553
No 32
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.60 E-value=1.5e-16 Score=116.93 Aligned_cols=85 Identities=33% Similarity=0.541 Sum_probs=78.5
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
++.-|||||||+++||.||-..|++||.|+.|.|++|+.||+++||||+.|++.....-|+..|||. .|.||.|+|...
T Consensus 34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGi-ki~gRtirVDHv 112 (219)
T KOG0126|consen 34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGI-KILGRTIRVDHV 112 (219)
T ss_pred cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCc-eecceeEEeeec
Confidence 3567999999999999999999999999999999999999999999999999999999999999997 999999999977
Q ss_pred CCCCCC
Q 029736 87 GQDKNT 92 (189)
Q Consensus 87 ~~~~~~ 92 (189)
...+..
T Consensus 113 ~~Yk~p 118 (219)
T KOG0126|consen 113 SNYKKP 118 (219)
T ss_pred ccccCC
Confidence 654443
No 33
>PLN03213 repressor of silencing 3; Provisional
Probab=99.60 E-value=4.9e-15 Score=123.38 Aligned_cols=77 Identities=19% Similarity=0.370 Sum_probs=71.5
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCH--HHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESE--EIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~--~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
+.+||||||++.+++++|+.+|..||.|..|.|++ .+| ||||||+|... .++.+||..|||. .+.|+.|+|..
T Consensus 10 gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpR--ETG--RGFAFVEMssdddaEeeKAISaLNGA-EWKGR~LKVNK 84 (759)
T PLN03213 10 GVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVR--TKG--RSFAYIDFSPSSTNSLTKLFSTYNGC-VWKGGRLRLEK 84 (759)
T ss_pred ceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEec--ccC--CceEEEEecCCcHHHHHHHHHHhcCC-eecCceeEEee
Confidence 67899999999999999999999999999999995 466 89999999987 7899999999999 99999999999
Q ss_pred cCCC
Q 029736 86 SGQD 89 (189)
Q Consensus 86 ~~~~ 89 (189)
+++.
T Consensus 85 AKP~ 88 (759)
T PLN03213 85 AKEH 88 (759)
T ss_pred ccHH
Confidence 8763
No 34
>smart00362 RRM_2 RNA recognition motif.
Probab=99.59 E-value=2.1e-14 Score=90.77 Aligned_cols=72 Identities=42% Similarity=0.680 Sum_probs=67.1
Q ss_pred eEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEE
Q 029736 10 NVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (189)
Q Consensus 10 ~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~ 84 (189)
+|||+|||..+++++|+++|.+||.+..+.+..++ +.++|+|||+|.+.++|++|++.+++. .+.|+.|.|+
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 778999999999999999999999997 8999998863
No 35
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.58 E-value=9.3e-15 Score=113.49 Aligned_cols=79 Identities=23% Similarity=0.448 Sum_probs=73.9
Q ss_pred CCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEE
Q 029736 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (189)
Q Consensus 5 ~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~ 84 (189)
..+.++|||||++..++|++|++.|+.||.|.+|++.+++ ||+||.|.+.|.|..||..+|+. +|+|..+++.
T Consensus 161 sp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q------GYaFVrF~tkEaAahAIv~mNnt-ei~G~~VkCs 233 (321)
T KOG0148|consen 161 SPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ------GYAFVRFETKEAAAHAIVQMNNT-EIGGQLVRCS 233 (321)
T ss_pred CCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc------ceEEEEecchhhHHHHHHHhcCc-eeCceEEEEe
Confidence 3468999999999999999999999999999999999885 99999999999999999999999 9999999999
Q ss_pred ecCCCC
Q 029736 85 LSGQDK 90 (189)
Q Consensus 85 ~~~~~~ 90 (189)
|.+...
T Consensus 234 WGKe~~ 239 (321)
T KOG0148|consen 234 WGKEGD 239 (321)
T ss_pred ccccCC
Confidence 987643
No 36
>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=99.58 E-value=1.1e-14 Score=127.62 Aligned_cols=81 Identities=28% Similarity=0.508 Sum_probs=76.9
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|||+||+..+++++|+++|++||.|.+|+++.| .++.++|||||+|.+.++|.+|+..||+. .|+|+.|.|.++.
T Consensus 285 ~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~-~~~gk~l~V~~a~ 362 (562)
T TIGR01628 285 GVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGR-MLGGKPLYVALAQ 362 (562)
T ss_pred CCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCC-eeCCceeEEEecc
Confidence 678999999999999999999999999999999999 68999999999999999999999999998 9999999999987
Q ss_pred CCC
Q 029736 88 QDK 90 (189)
Q Consensus 88 ~~~ 90 (189)
.+.
T Consensus 363 ~k~ 365 (562)
T TIGR01628 363 RKE 365 (562)
T ss_pred CcH
Confidence 643
No 37
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.58 E-value=2.2e-14 Score=110.84 Aligned_cols=77 Identities=23% Similarity=0.370 Sum_probs=70.2
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
++.+|||+||++.+++++|+++|+.||.|.+|+|++|. ..+++|||+|.+++.|+.|+. |+|. .|.++.|.|...
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAll-LnGa-~l~d~~I~It~~ 78 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAVL-LSGA-TIVDQRVCITRW 78 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHHh-cCCC-eeCCceEEEEeC
Confidence 36899999999999999999999999999999999884 556899999999999999996 9999 999999998876
Q ss_pred CC
Q 029736 87 GQ 88 (189)
Q Consensus 87 ~~ 88 (189)
..
T Consensus 79 ~~ 80 (243)
T PLN03121 79 GQ 80 (243)
T ss_pred cc
Confidence 53
No 38
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.56 E-value=6.8e-15 Score=103.36 Aligned_cols=80 Identities=24% Similarity=0.394 Sum_probs=76.4
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
+..|||.++...++|++|.+.|..||.|+.+.|..|+.||-.||||+|+|.+.++|++|++.+||. .|.|+.|.|.|+-
T Consensus 72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~-~ll~q~v~VDw~F 150 (170)
T KOG0130|consen 72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGA-ELLGQNVSVDWCF 150 (170)
T ss_pred eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccch-hhhCCceeEEEEE
Confidence 467999999999999999999999999999999999999999999999999999999999999998 9999999999874
Q ss_pred C
Q 029736 88 Q 88 (189)
Q Consensus 88 ~ 88 (189)
-
T Consensus 151 v 151 (170)
T KOG0130|consen 151 V 151 (170)
T ss_pred e
Confidence 3
No 39
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.56 E-value=1.1e-14 Score=122.29 Aligned_cols=83 Identities=36% Similarity=0.602 Sum_probs=79.9
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
+.|||||+|+++++++|..+|+..|.|.+++++.|+.+|++|||||++|.+.+.|..|++.|||. ++.|++|+|.++..
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 88999999999999999999999999999999999999999999999999999999999999998 99999999999987
Q ss_pred CCCC
Q 029736 89 DKNT 92 (189)
Q Consensus 89 ~~~~ 92 (189)
.+.+
T Consensus 98 ~~~~ 101 (435)
T KOG0108|consen 98 RKNA 101 (435)
T ss_pred cchh
Confidence 6553
No 40
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.56 E-value=8.9e-15 Score=119.86 Aligned_cols=85 Identities=24% Similarity=0.429 Sum_probs=78.1
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCe--EEEEEe
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR--TLRFAL 85 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~--~l~v~~ 85 (189)
.-++|||.+|..++|.||+++|++||.|.+|.|++|+.++.++|||||.|.+.++|.+|+.+|+...+|-|- +|.|++
T Consensus 34 ~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~ 113 (510)
T KOG0144|consen 34 AVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKY 113 (510)
T ss_pred hhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecc
Confidence 458999999999999999999999999999999999999999999999999999999999999988677775 788888
Q ss_pred cCCCCCC
Q 029736 86 SGQDKNT 92 (189)
Q Consensus 86 ~~~~~~~ 92 (189)
++.++.+
T Consensus 114 Ad~E~er 120 (510)
T KOG0144|consen 114 ADGERER 120 (510)
T ss_pred cchhhhc
Confidence 8876554
No 41
>smart00360 RRM RNA recognition motif.
Probab=99.55 E-value=5.1e-14 Score=88.66 Aligned_cols=71 Identities=41% Similarity=0.659 Sum_probs=66.4
Q ss_pred EcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEE
Q 029736 13 IGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (189)
Q Consensus 13 V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~ 84 (189)
|+|||..+++++|+++|++||.|..+.+..++.+++++|+|||+|.+.++|..|++.+++. .+.|+.|+|+
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 5799999999999999999999999999998878899999999999999999999999987 8999998863
No 42
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.54 E-value=5.4e-14 Score=110.62 Aligned_cols=79 Identities=39% Similarity=0.594 Sum_probs=76.2
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|||+|||..+++++|+++|.+||.|..+.+..++.+++++|+|||+|.+.++|..|++.+++. .|.|+.|+|.++.
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 489999999999999999999999999999999999889999999999999999999999999998 9999999999965
No 43
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.54 E-value=1.9e-14 Score=112.77 Aligned_cols=128 Identities=18% Similarity=0.259 Sum_probs=97.0
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
-+|||||||..+++.+|+.+|++||+|.+|.|+++ ||||..++...|+.||..|+|. +|+|..|.|+.++.
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 47999999999999999999999999999999875 9999999999999999999997 99999999998866
Q ss_pred CCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCC------CCCCCCCCCCCCCCCCCCCCCccccC--CCCccccCCCccc
Q 029736 89 DKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEI------SHHSMRISGTRHYSSEEPPPPGVTHE--SNGYETHLNVTNY 160 (189)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~------~~~~~~~~~~~~~~~~~~~~~~~~~~--~~Gy~~~~~~~~~ 160 (189)
+.... ..++|.++.. .+.... .-+|+---++ ..+|+.|..-+++
T Consensus 74 Ksk~s------------------tkl~vgNis~tctn~ElRa~fe----------~ygpviecdivkdy~fvh~d~~eda 125 (346)
T KOG0109|consen 74 KSKAS------------------TKLHVGNISPTCTNQELRAKFE----------KYGPVIECDIVKDYAFVHFDRAEDA 125 (346)
T ss_pred cCCCc------------------cccccCCCCccccCHHHhhhhc----------ccCCceeeeeecceeEEEEeeccch
Confidence 41110 2334444443 111111 1222221122 2678888888888
Q ss_pred ccc-ccccCcccCC
Q 029736 161 DYS-RRVFGATLDS 173 (189)
Q Consensus 161 ~~a-~~~~g~~~~~ 173 (189)
..| +.|++.+|+.
T Consensus 126 ~~air~l~~~~~~g 139 (346)
T KOG0109|consen 126 VEAIRGLDNTEFQG 139 (346)
T ss_pred HHHHhccccccccc
Confidence 888 8999999984
No 44
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=1.8e-14 Score=121.12 Aligned_cols=174 Identities=11% Similarity=0.147 Sum_probs=121.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
+.||||++||+.++.++|.++|+.+|+|..|.++.++.++.+|||+||+|.-.+++++|+...++. .|+|+.|+|..+.
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 9999999999887
Q ss_pred CCCCCCCCCCC----c-CCCCC----CCCCCC-CCcccCCCCCCC---CCCC-CCCCCC---CCCCCCCCCCccccCCCC
Q 029736 88 QDKNTQNSSMT----T-TPLSS----RKSRSD-PVPVPVNGMEIS---HHSM-RISGTR---HYSSEEPPPPGVTHESNG 150 (189)
Q Consensus 88 ~~~~~~~~~~~----~-~~~~~----~~~~~~-~~~~~~~~~p~~---~~~~-~~~~~~---~~~~~~~~~~~~~~~~~G 150 (189)
...+....... + .|.-. ..-... ..++-+.+||+. .++- -++... -+..|.-...+. -.+|
T Consensus 84 ~R~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgkl--cGFa 161 (678)
T KOG0127|consen 84 KRARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKL--CGFA 161 (678)
T ss_pred ccccchhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCc--cceE
Confidence 65444311100 0 01100 000111 267788888871 1110 001110 000022211111 1389
Q ss_pred ccccCCCcccccc-ccccCcccC------CcccCCCCCCCC
Q 029736 151 YETHLNVTNYDYS-RRVFGATLD------SISRSRSGRYNT 184 (189)
Q Consensus 151 y~~~~~~~~~~~a-~~~~g~~~~------~~~~~~~~~~~~ 184 (189)
||.|-...+++.| ..++|..|+ .|+.....+-++
T Consensus 162 FV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye~t 202 (678)
T KOG0127|consen 162 FVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYEDT 202 (678)
T ss_pred EEEEeeHHHHHHHHHhccCceecCceeEEeeeccccccccc
Confidence 9999999999999 889999888 455555555544
No 45
>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=99.50 E-value=4.1e-13 Score=116.82 Aligned_cols=74 Identities=23% Similarity=0.302 Sum_probs=68.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcC--CCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQA--GRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~--G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
.++|||+||++++++++|+++|++| |.|+.|.+++ +||||+|.+.++|++|++.||+. .|+|+.|+|.+
T Consensus 233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r--------gfAFVeF~s~e~A~kAi~~lnG~-~i~Gr~I~V~~ 303 (578)
T TIGR01648 233 VKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR--------DYAFVHFEDREDAVKAMDELNGK-ELEGSEIEVTL 303 (578)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec--------CeEEEEeCCHHHHHHHHHHhCCC-EECCEEEEEEE
Confidence 4789999999999999999999999 9999998753 59999999999999999999998 99999999999
Q ss_pred cCCCC
Q 029736 86 SGQDK 90 (189)
Q Consensus 86 ~~~~~ 90 (189)
+++..
T Consensus 304 Akp~~ 308 (578)
T TIGR01648 304 AKPVD 308 (578)
T ss_pred ccCCC
Confidence 98743
No 46
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.50 E-value=4e-14 Score=122.62 Aligned_cols=158 Identities=15% Similarity=0.204 Sum_probs=98.6
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcC------------CCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCce
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQA------------GRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIV 74 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~------------G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~ 74 (189)
..++|||||||+.+++++|+++|.++ +.|..+.+ ++.+|||||+|.+.++|..||. |+|.
T Consensus 174 ~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~~~kg~afVeF~~~e~A~~Al~-l~g~- 245 (509)
T TIGR01642 174 QARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------NKEKNFAFLEFRTVEEATFAMA-LDSI- 245 (509)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------CCCCCEEEEEeCCHHHHhhhhc-CCCe-
Confidence 36899999999999999999999975 23444444 3457999999999999999995 9997
Q ss_pred eeCCeEEEEEecCCCCCCCCCC---CCcCCC-----C----CCCCCCC-CCcccCCCCCCCCC---CCC-CCCCCCCCC-
Q 029736 75 TLYNRTLRFALSGQDKNTQNSS---MTTTPL-----S----SRKSRSD-PVPVPVNGMEISHH---SMR-ISGTRHYSS- 136 (189)
Q Consensus 75 ~~~g~~l~v~~~~~~~~~~~~~---~~~~~~-----~----~~~~~~~-~~~~~~~~~p~~~~---~~~-~~~~~~~~~- 136 (189)
.|.|+.|+|............. ....+. . ....... ...+.|.++|..-. +.. +.....+..
T Consensus 246 ~~~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~ 325 (509)
T TIGR01642 246 IYSNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAF 325 (509)
T ss_pred EeeCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEE
Confidence 9999999997654332111000 000000 0 0011112 26789999987211 100 011111110
Q ss_pred --CCCCCCccccCCCCccccCCCcccccc-ccccCcccCC
Q 029736 137 --EEPPPPGVTHESNGYETHLNVTNYDYS-RRVFGATLDS 173 (189)
Q Consensus 137 --~~~~~~~~~~~~~Gy~~~~~~~~~~~a-~~~~g~~~~~ 173 (189)
......| ....+|||.|.+...++.| ..|+|..|..
T Consensus 326 ~~~~~~~~g-~~~g~afv~f~~~~~a~~A~~~l~g~~~~~ 364 (509)
T TIGR01642 326 NLIKDIATG-LSKGYAFCEYKDPSVTDVAIAALNGKDTGD 364 (509)
T ss_pred EEEecCCCC-CcCeEEEEEECCHHHHHHHHHHcCCCEECC
Confidence 0000001 0123799999999999999 7899998873
No 47
>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=5.2e-13 Score=84.77 Aligned_cols=74 Identities=42% Similarity=0.674 Sum_probs=68.0
Q ss_pred eEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 10 NVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 10 ~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
+|+|+|||..+++++|+++|+.+|.|..+.+..++.+ .++|+|||+|.+.++|..|++.+++. .+.|+.+.|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~-~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGK-ELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCC-eECCeEEEEeC
Confidence 4899999999999999999999999999999987644 77899999999999999999999998 89999998863
No 48
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.49 E-value=2.1e-14 Score=115.79 Aligned_cols=156 Identities=21% Similarity=0.315 Sum_probs=105.0
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
|+||||.+.+++.|+.|+..|..||.|+++.+-+|+.|+++||||||+|+-+|.|+-|++.|||. .++||.|+|.....
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 99999999974322
Q ss_pred CCCCCCCCCCcCCCCCCCC-CCCC-CcccCCCCCC-CCCC-C--CCCCCCCCCC--CCCCCCccccCCCCccccCCCccc
Q 029736 89 DKNTQNSSMTTTPLSSRKS-RSDP-VPVPVNGMEI-SHHS-M--RISGTRHYSS--EEPPPPGVTHESNGYETHLNVTNY 160 (189)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~-~~~~-~~~~~~~~p~-~~~~-~--~~~~~~~~~~--~~~~~~~~~~~~~Gy~~~~~~~~~ 160 (189)
-.... |...... ..+. .++++..+-. +.+. . -+.....+.. --..|.+..+-.+||.+|.+....
T Consensus 193 mpQAQ-------piID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~ 265 (544)
T KOG0124|consen 193 MPQAQ-------PIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQ 265 (544)
T ss_pred Ccccc-------hHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccch
Confidence 11110 0000000 0011 3444443322 1110 0 0001111111 112245556777999999999999
Q ss_pred ccc-ccccCcccC
Q 029736 161 DYS-RRVFGATLD 172 (189)
Q Consensus 161 ~~a-~~~~g~~~~ 172 (189)
+.| ..++=.+|+
T Consensus 266 ~eAiasMNlFDLG 278 (544)
T KOG0124|consen 266 SEAIASMNLFDLG 278 (544)
T ss_pred HHHhhhcchhhcc
Confidence 988 444333343
No 49
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.47 E-value=4.2e-13 Score=103.99 Aligned_cols=85 Identities=28% Similarity=0.469 Sum_probs=79.5
Q ss_pred CCCCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEE
Q 029736 3 GNSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (189)
Q Consensus 3 ~~~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~ 82 (189)
+.+..+..|||-||.++++|.-|.++|.+||.|..+++++|..+.+.||||||...+-++|..||..|||. .+++|.|.
T Consensus 273 ~~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy-~lg~rvLQ 351 (360)
T KOG0145|consen 273 GGPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGY-RLGDRVLQ 351 (360)
T ss_pred CCCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCc-cccceEEE
Confidence 44556789999999999999999999999999999999999988999999999999999999999999998 99999999
Q ss_pred EEecCC
Q 029736 83 FALSGQ 88 (189)
Q Consensus 83 v~~~~~ 88 (189)
|.+...
T Consensus 352 VsFKtn 357 (360)
T KOG0145|consen 352 VSFKTN 357 (360)
T ss_pred EEEecC
Confidence 998644
No 50
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.46 E-value=5.6e-13 Score=89.66 Aligned_cols=79 Identities=28% Similarity=0.341 Sum_probs=71.5
Q ss_pred CCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 6 ~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
-.++-|||.|||+.+|.+++.++|.+||.|..|+|-.. ...+|-|||.|++..+|.+|++.|+|. .+.++.|.|-+
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 34678999999999999999999999999999999654 356899999999999999999999998 99999999987
Q ss_pred cCC
Q 029736 86 SGQ 88 (189)
Q Consensus 86 ~~~ 88 (189)
..+
T Consensus 92 yq~ 94 (124)
T KOG0114|consen 92 YQP 94 (124)
T ss_pred cCH
Confidence 654
No 51
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.44 E-value=1.1e-13 Score=107.54 Aligned_cols=84 Identities=24% Similarity=0.479 Sum_probs=79.6
Q ss_pred CCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 6 ~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
+++|+|||-.||.+..+.+|-..|-.||.|++.++..|+.|..+|+|+||.|+++.+|+.||..|||. .|+-++|+|..
T Consensus 283 PeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGF-QIGMKRLKVQL 361 (371)
T KOG0146|consen 283 PEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGF-QIGMKRLKVQL 361 (371)
T ss_pred CCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcch-hhhhhhhhhhh
Confidence 46899999999999999999999999999999999999999999999999999999999999999998 99999999998
Q ss_pred cCCCC
Q 029736 86 SGQDK 90 (189)
Q Consensus 86 ~~~~~ 90 (189)
.+++.
T Consensus 362 KRPkd 366 (371)
T KOG0146|consen 362 KRPKD 366 (371)
T ss_pred cCccc
Confidence 76643
No 52
>smart00361 RRM_1 RNA recognition motif.
Probab=99.43 E-value=1.2e-12 Score=83.98 Aligned_cols=61 Identities=21% Similarity=0.237 Sum_probs=55.5
Q ss_pred HHHHHHHHh----cCCCeEEEE-EecCCCC--CCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEE
Q 029736 22 ERVLYDILI----QAGRVVDLY-IPRDKET--DKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (189)
Q Consensus 22 e~~L~~~F~----~~G~i~~~~-~~~~~~~--~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v 83 (189)
+++|+++|+ +||.|.++. ++.++.+ +.++|+|||+|.+.++|.+|++.|||. .+.|+.|++
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 578899998 999999995 7777666 899999999999999999999999999 999999976
No 53
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.42 E-value=2.5e-13 Score=114.31 Aligned_cols=78 Identities=27% Similarity=0.561 Sum_probs=74.0
Q ss_pred eEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 10 NVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 10 ~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
+||||||.+++++++|+.+|+.||.|..|.+.+|..||.+||||||+|.+.+.|.+|++.|||. +|.|+.|+|.....
T Consensus 280 rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngf-elAGr~ikV~~v~~ 357 (549)
T KOG0147|consen 280 RLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGF-ELAGRLIKVSVVTE 357 (549)
T ss_pred hhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccc-eecCceEEEEEeee
Confidence 4899999999999999999999999999999999889999999999999999999999999995 99999999986653
No 54
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=99.38 E-value=4e-12 Score=77.79 Aligned_cols=56 Identities=36% Similarity=0.584 Sum_probs=50.6
Q ss_pred HHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 25 LYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 25 L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
|+++|++||.|..+.+..+. +++|||+|.+.++|+.|++.||+. .+.|++|+|+++
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 999999999885
No 55
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.38 E-value=2.4e-12 Score=108.49 Aligned_cols=80 Identities=29% Similarity=0.467 Sum_probs=74.1
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
..+|+|.||||.+.+.+|+.+|+.||.|..|.|++.+ .|+-+|||||+|....+|..|++.+|+. .|+||+|-|.|+-
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~-dgklcGFaFV~fk~~~dA~~Al~~~N~~-~i~gR~VAVDWAV 194 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKK-DGKLCGFAFVQFKEKKDAEKALEFFNGN-KIDGRPVAVDWAV 194 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCC-CCCccceEEEEEeeHHHHHHHHHhccCc-eecCceeEEeeec
Confidence 6789999999999999999999999999999999775 4555699999999999999999999998 9999999999987
Q ss_pred CC
Q 029736 88 QD 89 (189)
Q Consensus 88 ~~ 89 (189)
.+
T Consensus 195 ~K 196 (678)
T KOG0127|consen 195 DK 196 (678)
T ss_pred cc
Confidence 54
No 56
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.37 E-value=1.9e-12 Score=106.70 Aligned_cols=76 Identities=28% Similarity=0.368 Sum_probs=70.3
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.+.|||.||+.++||+.|+++|++||.|..|+.++| ||||.|.++++|.+|++.+||+ +|+|..|.|.+++
T Consensus 259 VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngk-eldG~~iEvtLAK 329 (506)
T KOG0117|consen 259 VKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGK-ELDGSPIEVTLAK 329 (506)
T ss_pred eeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCc-eecCceEEEEecC
Confidence 468999999999999999999999999999988765 9999999999999999999999 9999999999998
Q ss_pred CCCCC
Q 029736 88 QDKNT 92 (189)
Q Consensus 88 ~~~~~ 92 (189)
+....
T Consensus 330 P~~k~ 334 (506)
T KOG0117|consen 330 PVDKK 334 (506)
T ss_pred Chhhh
Confidence 75443
No 57
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.34 E-value=5.7e-12 Score=104.85 Aligned_cols=153 Identities=22% Similarity=0.336 Sum_probs=104.7
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
...|||.||+++++..+|.++|+.||.|.+|++..+. .| ++|| ||+|+++++|.+|++.+||. .+.++.|.|....
T Consensus 76 ~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~-ll~~kki~vg~~~ 151 (369)
T KOG0123|consen 76 PSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGM-LLNGKKIYVGLFE 151 (369)
T ss_pred CceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCc-ccCCCeeEEeecc
Confidence 3449999999999999999999999999999999985 45 9999 99999999999999999998 8999999998775
Q ss_pred CCCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCCCCCC----CCCCCCCCCCCCCCCCCccc-cCCCCccccCCCccccc
Q 029736 88 QDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEISHHS----MRISGTRHYSSEEPPPPGVT-HESNGYETHLNVTNYDY 162 (189)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~----~~~~~~~~~~~~~~~~~~~~-~~~~Gy~~~~~~~~~~~ 162 (189)
....+... . ......-..+.+.+.+.-... ..+....++......+.... +..+||+.|.+..++..
T Consensus 152 ~~~er~~~------~--~~~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~ 223 (369)
T KOG0123|consen 152 RKEEREAP------L--GEYKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIGKSKGFGFVNFENPEDAKK 223 (369)
T ss_pred chhhhccc------c--cchhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCCCCCCCccceeecChhHHHH
Confidence 54332210 0 000011133333333321011 11112222221111111111 34589999999999999
Q ss_pred c-ccccCcccC
Q 029736 163 S-RRVFGATLD 172 (189)
Q Consensus 163 a-~~~~g~~~~ 172 (189)
| ..++|+.++
T Consensus 224 av~~l~~~~~~ 234 (369)
T KOG0123|consen 224 AVETLNGKIFG 234 (369)
T ss_pred HHHhccCCcCC
Confidence 9 999999987
No 58
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.33 E-value=2e-12 Score=100.61 Aligned_cols=88 Identities=23% Similarity=0.363 Sum_probs=79.1
Q ss_pred CCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCe--EEE
Q 029736 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR--TLR 82 (189)
Q Consensus 5 ~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~--~l~ 82 (189)
+.+.++||||.|...-.|+|++.+|..||.|.+|.+.+.+ .|.+|||+||.|.+.-+|+.||..|+|.-++-|- .|.
T Consensus 16 g~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLV 94 (371)
T KOG0146|consen 16 GGDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLV 94 (371)
T ss_pred CccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceE
Confidence 3367999999999999999999999999999999999985 7899999999999999999999999998667664 799
Q ss_pred EEecCCCCCCC
Q 029736 83 FALSGQDKNTQ 93 (189)
Q Consensus 83 v~~~~~~~~~~ 93 (189)
|.++..++.+.
T Consensus 95 VK~ADTdkER~ 105 (371)
T KOG0146|consen 95 VKFADTDKERT 105 (371)
T ss_pred EEeccchHHHH
Confidence 99998876654
No 59
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.32 E-value=3.7e-12 Score=93.85 Aligned_cols=83 Identities=37% Similarity=0.644 Sum_probs=76.3
Q ss_pred CCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEE-EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEE
Q 029736 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVD-LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (189)
Q Consensus 6 ~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~-~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~ 84 (189)
..+.+|||+||.++++|..|.+.|+.||++.. -++++++.||.++|||||.|.+.+.+.+|++.+||. .++.++++|.
T Consensus 94 ~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq-~l~nr~itv~ 172 (203)
T KOG0131|consen 94 DVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQ-YLCNRPITVS 172 (203)
T ss_pred cccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccc-hhcCCceEEE
Confidence 34678999999999999999999999998876 589999999999999999999999999999999999 8999999999
Q ss_pred ecCCC
Q 029736 85 LSGQD 89 (189)
Q Consensus 85 ~~~~~ 89 (189)
++..+
T Consensus 173 ya~k~ 177 (203)
T KOG0131|consen 173 YAFKK 177 (203)
T ss_pred EEEec
Confidence 88654
No 60
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.31 E-value=7.3e-12 Score=103.22 Aligned_cols=79 Identities=23% Similarity=0.282 Sum_probs=73.1
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHh-cCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 8 GCNVYIGNLDEKVSERVLYDILI-QAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~-~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
.+.+||.|||+++.+.+|+++|. +.|.|+.|.|+.| .+|++||||.|+|+++|.+++|++.||.. ++.||+|.|.-.
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 35699999999999999999996 6899999999999 58999999999999999999999999997 999999999865
Q ss_pred CC
Q 029736 87 GQ 88 (189)
Q Consensus 87 ~~ 88 (189)
..
T Consensus 122 ~d 123 (608)
T KOG4212|consen 122 HD 123 (608)
T ss_pred Cc
Confidence 54
No 61
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.31 E-value=1e-11 Score=94.56 Aligned_cols=85 Identities=31% Similarity=0.540 Sum_probs=75.2
Q ss_pred CCCCCCCCCeEEEcCCCCCCcHHHHHH----HHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceee
Q 029736 1 MSGNSNSGCNVYIGNLDEKVSERVLYD----ILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTL 76 (189)
Q Consensus 1 m~~~~~~~~~l~V~nL~~~~~e~~L~~----~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~ 76 (189)
|+.+| ..||||.||+..+..++|+. +|++||+|..|.... +.+.||-|||.|.+.+.|-.|+..|+|. .+
T Consensus 4 ~~~~p--n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gf-pF 77 (221)
T KOG4206|consen 4 MSVNP--NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGF-PF 77 (221)
T ss_pred cccCC--CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCC-cc
Confidence 34556 44999999999999999888 999999999988764 5689999999999999999999999998 99
Q ss_pred CCeEEEEEecCCCCC
Q 029736 77 YNRTLRFALSGQDKN 91 (189)
Q Consensus 77 ~g~~l~v~~~~~~~~ 91 (189)
.|+++++++++.+..
T Consensus 78 ygK~mriqyA~s~sd 92 (221)
T KOG4206|consen 78 YGKPMRIQYAKSDSD 92 (221)
T ss_pred cCchhheecccCccc
Confidence 999999999987543
No 62
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.27 E-value=5.7e-12 Score=101.96 Aligned_cols=154 Identities=16% Similarity=0.187 Sum_probs=103.2
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
+.++||||+|+|+++++.|++.|.+||.|..|.+++|+.+++++||+||+|++.+...+++..... .|.|+.|.+..+
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 589999999999999999999999999999999999999999999999999999999999876554 599999887766
Q ss_pred CCCCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCCCCCC--CC--CCCCCCCCC-CCCCCCccc-cCCCCccccCCCccc
Q 029736 87 GQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEISHHS--MR--ISGTRHYSS-EEPPPPGVT-HESNGYETHLNVTNY 160 (189)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~--~~--~~~~~~~~~-~~~~~~~~~-~~~~Gy~~~~~~~~~ 160 (189)
.+.......... ..--.+.+.++|.--.. ++ +.....+.. .......-. .--+||+++...+..
T Consensus 83 v~r~~~~~~~~~----------~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sV 152 (311)
T KOG4205|consen 83 VSREDQTKVGRH----------LRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSV 152 (311)
T ss_pred cCcccccccccc----------cceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEecccccc
Confidence 443221111000 01145666677761111 00 000000000 000000000 112799999999999
Q ss_pred cccccccCcccC
Q 029736 161 DYSRRVFGATLD 172 (189)
Q Consensus 161 ~~a~~~~g~~~~ 172 (189)
|.+.....++|+
T Consensus 153 dkv~~~~f~~~~ 164 (311)
T KOG4205|consen 153 DKVTLQKFHDFN 164 (311)
T ss_pred ceecccceeeec
Confidence 999555555555
No 63
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=9.5e-12 Score=100.16 Aligned_cols=80 Identities=20% Similarity=0.360 Sum_probs=76.7
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
...|||.-|.+-++.++|+-+|+.||+|.+|.+++|..||.+-.||||+|.+.+++++|.-.|++. -|+.++|.|.++.
T Consensus 239 eNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNv-LIDDrRIHVDFSQ 317 (479)
T KOG0415|consen 239 ENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNV-LIDDRRIHVDFSQ 317 (479)
T ss_pred cceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcce-eeccceEEeehhh
Confidence 678999999999999999999999999999999999999999999999999999999999999996 8999999999876
Q ss_pred C
Q 029736 88 Q 88 (189)
Q Consensus 88 ~ 88 (189)
.
T Consensus 318 S 318 (479)
T KOG0415|consen 318 S 318 (479)
T ss_pred h
Confidence 4
No 64
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.24 E-value=1.3e-11 Score=94.51 Aligned_cols=145 Identities=19% Similarity=0.244 Sum_probs=104.3
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
..+|||+||+.+.+.+|+.||..||.+..+.+. .||+||+|.+..+|..|+..||+. +|++..+.|+++..
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~~-~l~~e~~vve~~r~ 72 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGK-ELCGERLVVEHARG 72 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCc-eecceeeeeecccc
Confidence 469999999999999999999999999988773 379999999999999999999999 89998899999875
Q ss_pred CCCCCCCCCC-cCC-CCCCCCCCCC--CcccCCCCCC---CCCC---CCCCCCCCCCCCCCCCCccc--cCCCCccccCC
Q 029736 89 DKNTQNSSMT-TTP-LSSRKSRSDP--VPVPVNGMEI---SHHS---MRISGTRHYSSEEPPPPGVT--HESNGYETHLN 156 (189)
Q Consensus 89 ~~~~~~~~~~-~~~-~~~~~~~~~~--~~~~~~~~p~---~~~~---~~~~~~~~~~~~~~~~~~~~--~~~~Gy~~~~~ 156 (189)
.......... ... .......|.. ..+.+.+++. ||++ +. +.+...+. ....+++.|..
T Consensus 73 ~~~~~g~~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~----------~~g~~~~~~~~~~~~~v~Fs~ 142 (216)
T KOG0106|consen 73 KRRGRGRPRGGDRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFR----------PAGEVTYVDARRNFAFVEFSE 142 (216)
T ss_pred cccccCCCCCCCccchhhccCCcccccceeeeccchhhhhHHHHhhhhc----------ccCCCchhhhhccccceeehh
Confidence 3322211000 000 1122222222 5666666666 5665 33 33333111 45689999999
Q ss_pred Ccccccc-ccccCcccC
Q 029736 157 VTNYDYS-RRVFGATLD 172 (189)
Q Consensus 157 ~~~~~~a-~~~~g~~~~ 172 (189)
..++..| ..++|.++.
T Consensus 143 ~~da~ra~~~l~~~~~~ 159 (216)
T KOG0106|consen 143 QEDAKRALEKLDGKKLN 159 (216)
T ss_pred hhhhhhcchhccchhhc
Confidence 9999999 888888877
No 65
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.24 E-value=7e-11 Score=94.88 Aligned_cols=75 Identities=25% Similarity=0.342 Sum_probs=68.7
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
-++|||++|...++|.+|++.|.+||.|.++.++..+ +||||+|.+.+.|+.|.+.+-..+.|+|++|+|.|++
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 4789999999999999999999999999999997653 7999999999999999987666779999999999998
Q ss_pred C
Q 029736 88 Q 88 (189)
Q Consensus 88 ~ 88 (189)
+
T Consensus 302 ~ 302 (377)
T KOG0153|consen 302 P 302 (377)
T ss_pred C
Confidence 8
No 66
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.18 E-value=5.9e-11 Score=96.05 Aligned_cols=79 Identities=20% Similarity=0.323 Sum_probs=74.8
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
.+|||..+.++++|+||+..|+.||+|+.|++-+++..+.+|||||++|.+......|+..||-. .++|+.|+|..+-.
T Consensus 211 nRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlF-DLGGQyLRVGk~vT 289 (544)
T KOG0124|consen 211 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLF-DLGGQYLRVGKCVT 289 (544)
T ss_pred heEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchh-hcccceEecccccC
Confidence 57999999999999999999999999999999999988999999999999999999999999997 99999999987653
No 67
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.18 E-value=3.6e-11 Score=94.56 Aligned_cols=73 Identities=22% Similarity=0.358 Sum_probs=69.0
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|+||||.+.++..+|++.|++||.|.+|.|++| |+||.|.-.++|..|++.|++. ++.|++++|+.+.
T Consensus 78 stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~-~~~gk~m~vq~st 148 (346)
T KOG0109|consen 78 STKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNT-EFQGKRMHVQLST 148 (346)
T ss_pred ccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhccccc-ccccceeeeeeec
Confidence 689999999999999999999999999999999875 9999999999999999999999 9999999999886
Q ss_pred CC
Q 029736 88 QD 89 (189)
Q Consensus 88 ~~ 89 (189)
..
T Consensus 149 sr 150 (346)
T KOG0109|consen 149 SR 150 (346)
T ss_pred cc
Confidence 53
No 68
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.17 E-value=1e-10 Score=87.91 Aligned_cols=81 Identities=28% Similarity=0.443 Sum_probs=73.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcC-CCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQA-GRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~-G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
..-+||+.+|..+.+.++..+|.++ |.+..+++-+++.||.+||||||+|++++.|.-|.+.||+. -|.++.|.+.+-
T Consensus 49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNY-Ll~e~lL~c~vm 127 (214)
T KOG4208|consen 49 EGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNY-LLMEHLLECHVM 127 (214)
T ss_pred ccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhh-hhhhheeeeEEe
Confidence 3568999999999999999999998 78888888899999999999999999999999999999998 788999988876
Q ss_pred CCC
Q 029736 87 GQD 89 (189)
Q Consensus 87 ~~~ 89 (189)
.+.
T Consensus 128 ppe 130 (214)
T KOG4208|consen 128 PPE 130 (214)
T ss_pred Cch
Confidence 654
No 69
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.14 E-value=1.6e-10 Score=96.26 Aligned_cols=133 Identities=20% Similarity=0.300 Sum_probs=100.1
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
..|||| +++||..|.++|+++|.++++++.+|. | +-|||||.|.++++|++||+.+|.. .+.|++|++-|+..
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 368999 899999999999999999999999997 5 9999999999999999999999999 99999999998755
Q ss_pred CCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCCCCCCC----CCCCCCCCCCCCCCCCcccc----CCCCccccCCCccc
Q 029736 89 DKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEISHHSM----RISGTRHYSSEEPPPPGVTH----ESNGYETHLNVTNY 160 (189)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~----~~~~~~~~~~~~~~~~~~~~----~~~Gy~~~~~~~~~ 160 (189)
.... +.+.+++..-+.- -++... +..++-... ...+||.|.+...+
T Consensus 75 d~~~---------------------~~i~nl~~~~~~~~~~d~f~~~g-----~ilS~kv~~~~~g~kg~FV~f~~e~~a 128 (369)
T KOG0123|consen 75 DPSL---------------------VFIKNLDESIDNKSLYDTFSEFG-----NILSCKVATDENGSKGYFVQFESEESA 128 (369)
T ss_pred CCce---------------------eeecCCCcccCcHHHHHHHHhhc-----CeeEEEEEEcCCCceeeEEEeCCHHHH
Confidence 3221 6666666522210 000111 222211111 22349999999999
Q ss_pred ccc-ccccCcccCCc
Q 029736 161 DYS-RRVFGATLDSI 174 (189)
Q Consensus 161 ~~a-~~~~g~~~~~~ 174 (189)
..| ..++|..+..-
T Consensus 129 ~~ai~~~ng~ll~~k 143 (369)
T KOG0123|consen 129 KKAIEKLNGMLLNGK 143 (369)
T ss_pred HHHHHHhcCcccCCC
Confidence 999 88888888743
No 70
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.14 E-value=2e-10 Score=99.55 Aligned_cols=152 Identities=18% Similarity=0.283 Sum_probs=102.8
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCC---CcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETD---KPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~---~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
++|||.||++.++.++|+..|.+.|.|.++.|...+... .+.|||||+|.+.+.|+.|++.|+|+ .|.|+.|.|++
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgt-vldGH~l~lk~ 594 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGT-VLDGHKLELKI 594 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCc-eecCceEEEEe
Confidence 449999999999999999999999999999887654221 24599999999999999999999999 99999999999
Q ss_pred cCCCCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCCC------CCCCCCCCCCCCCC---CCCCCCccccCCCCccccCC
Q 029736 86 SGQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEIS------HHSMRISGTRHYSS---EEPPPPGVTHESNGYETHLN 156 (189)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~------~~~~~~~~~~~~~~---~~~~~~~~~~~~~Gy~~~~~ 156 (189)
+........+ . ..........+.+.++|.. +.+.. ....+-. |.- -....+-.+|||.|..
T Consensus 595 S~~k~~~~~g-----K--~~~~kk~~tKIlVRNipFeAt~rEVr~LF~--aFGqlksvRlPKK-~~k~a~rGF~Fv~f~t 664 (725)
T KOG0110|consen 595 SENKPASTVG-----K--KKSKKKKGTKILVRNIPFEATKREVRKLFT--AFGQLKSVRLPKK-IGKGAHRGFGFVDFLT 664 (725)
T ss_pred ccCccccccc-----c--ccccccccceeeeeccchHHHHHHHHHHHh--cccceeeeccchh-hcchhhccceeeeccC
Confidence 8721111111 0 0111111368899999972 11111 1101110 111 1112234478999999
Q ss_pred Ccccccc-ccccCccc
Q 029736 157 VTNYDYS-RRVFGATL 171 (189)
Q Consensus 157 ~~~~~~a-~~~~g~~~ 171 (189)
..++..| ..|.++.|
T Consensus 665 ~~ea~nA~~al~STHl 680 (725)
T KOG0110|consen 665 PREAKNAFDALGSTHL 680 (725)
T ss_pred cHHHHHHHHhhcccce
Confidence 9999998 45544443
No 71
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.12 E-value=1.9e-10 Score=97.70 Aligned_cols=84 Identities=15% Similarity=0.279 Sum_probs=77.6
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
.+++|||.+|...+...+|+.+|++||+|+..+++++..+.-.++|+||++.+.++|.+||+.|+.+ +|.|+.|.|+.+
T Consensus 404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrT-ELHGrmISVEka 482 (940)
T KOG4661|consen 404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRT-ELHGRMISVEKA 482 (940)
T ss_pred cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhh-hhcceeeeeeec
Confidence 4689999999999999999999999999999999998777788999999999999999999999999 999999999988
Q ss_pred CCCCC
Q 029736 87 GQDKN 91 (189)
Q Consensus 87 ~~~~~ 91 (189)
+....
T Consensus 483 KNEp~ 487 (940)
T KOG4661|consen 483 KNEPG 487 (940)
T ss_pred ccCcc
Confidence 76543
No 72
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.12 E-value=1.9e-10 Score=100.44 Aligned_cols=75 Identities=17% Similarity=0.389 Sum_probs=69.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
++|||||.|+..++|.||..+|+.||.|.+|.++.. +|||||......+|++|+.+|+.. .+.++.|++.|+.
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 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSNV-KVADKTIKIAWAV 493 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhcc-cccceeeEEeeec
Confidence 589999999999999999999999999999988754 599999999999999999999986 9999999999987
Q ss_pred CC
Q 029736 88 QD 89 (189)
Q Consensus 88 ~~ 89 (189)
..
T Consensus 494 g~ 495 (894)
T KOG0132|consen 494 GK 495 (894)
T ss_pred cC
Confidence 53
No 73
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.09 E-value=8.7e-11 Score=101.72 Aligned_cols=82 Identities=20% Similarity=0.423 Sum_probs=75.7
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|+|.|||+..+..+++.+|..||.+.+|+|+.....+.++|||||+|-++.+|..|++.|..+ -|.||.|.++|++
T Consensus 613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~ST-HlyGRrLVLEwA~ 691 (725)
T KOG0110|consen 613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGST-HLYGRRLVLEWAK 691 (725)
T ss_pred cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhccc-ceechhhheehhc
Confidence 468999999999999999999999999999999887566778999999999999999999999988 8999999999998
Q ss_pred CCC
Q 029736 88 QDK 90 (189)
Q Consensus 88 ~~~ 90 (189)
...
T Consensus 692 ~d~ 694 (725)
T KOG0110|consen 692 SDN 694 (725)
T ss_pred cch
Confidence 654
No 74
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.04 E-value=8.6e-09 Score=78.61 Aligned_cols=89 Identities=17% Similarity=0.293 Sum_probs=71.4
Q ss_pred CCCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEe-cCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeC---Ce
Q 029736 4 NSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIP-RDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLY---NR 79 (189)
Q Consensus 4 ~~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~-~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~---g~ 79 (189)
.|+.-+||||.+||.++...+|..+|..|-.-+.+.|- .++..+..+-+||++|.+..+|++|+.+|||. .|+ +.
T Consensus 30 ~~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGv-rFDpE~~s 108 (284)
T KOG1457|consen 30 EPGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGV-RFDPETGS 108 (284)
T ss_pred cccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCe-eeccccCc
Confidence 35557999999999999999999999998766666553 33333345689999999999999999999996 776 45
Q ss_pred EEEEEecCCCCCCC
Q 029736 80 TLRFALSGQDKNTQ 93 (189)
Q Consensus 80 ~l~v~~~~~~~~~~ 93 (189)
.|++++++...+.+
T Consensus 109 tLhiElAKSNtK~k 122 (284)
T KOG1457|consen 109 TLHIELAKSNTKRK 122 (284)
T ss_pred eeEeeehhcCcccc
Confidence 89999988755444
No 75
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=99.04 E-value=1.2e-09 Score=94.74 Aligned_cols=84 Identities=23% Similarity=0.420 Sum_probs=74.3
Q ss_pred CCCCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCC---CCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCe
Q 029736 3 GNSNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDK---ETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR 79 (189)
Q Consensus 3 ~~~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~---~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~ 79 (189)
++| .+++|||+||++.++++.|-..|..||.|.+++|++-+ ...+.+-||||.|-+..+|++|++.|+|. .+.+.
T Consensus 170 gDP-~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~-iv~~~ 247 (877)
T KOG0151|consen 170 GDP-QTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGI-IVMEY 247 (877)
T ss_pred CCC-cccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcce-eeeee
Confidence 345 37899999999999999999999999999999998654 33456789999999999999999999997 89999
Q ss_pred EEEEEecCC
Q 029736 80 TLRFALSGQ 88 (189)
Q Consensus 80 ~l~v~~~~~ 88 (189)
.+++.|++.
T Consensus 248 e~K~gWgk~ 256 (877)
T KOG0151|consen 248 EMKLGWGKA 256 (877)
T ss_pred eeeeccccc
Confidence 999999865
No 76
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.00 E-value=9.1e-10 Score=89.24 Aligned_cols=84 Identities=25% Similarity=0.391 Sum_probs=74.9
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++||||+||.++++++++++|++||.|..+.++.|..+.+++||+||.|.+++.+.+++.. .- +.|+++.+.|..+.
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~-~f-~~~~gk~vevkrA~ 174 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQ-KF-HDFNGKKVEVKRAI 174 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceeccc-ce-eeecCceeeEeecc
Confidence 56999999999999999999999999999999999999999999999999999999999873 33 48999999999887
Q ss_pred CCCCCC
Q 029736 88 QDKNTQ 93 (189)
Q Consensus 88 ~~~~~~ 93 (189)
++....
T Consensus 175 pk~~~~ 180 (311)
T KOG4205|consen 175 PKEVMQ 180 (311)
T ss_pred chhhcc
Confidence 754433
No 77
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.98 E-value=1.3e-09 Score=90.08 Aligned_cols=73 Identities=30% Similarity=0.400 Sum_probs=67.2
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
..|+|||.|||+++|+..|++-|..||.|..+.|+ ..|+++| .|.|.++++|++|+..|++. .++||.|+|.+
T Consensus 535 Ka~qIiirNlP~dfTWqmlrDKfre~G~v~yadim---e~GkskG--VVrF~s~edAEra~a~Mngs-~l~Gr~I~V~y 607 (608)
T KOG4212|consen 535 KACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIM---ENGKSKG--VVRFFSPEDAERACALMNGS-RLDGRNIKVTY 607 (608)
T ss_pred cccEEEEecCCccccHHHHHHHHHhccceehhhhh---ccCCccc--eEEecCHHHHHHHHHHhccC-cccCceeeeee
Confidence 36889999999999999999999999999999884 3578877 89999999999999999998 99999999976
No 78
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.97 E-value=3.3e-09 Score=82.95 Aligned_cols=80 Identities=20% Similarity=0.356 Sum_probs=73.7
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
..+|+|.||+..++++||+++|..||.+..+.+..++ .|.+.|.|-|.|...++|.+|++.+++. .++|+.|++....
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 4789999999999999999999999989989888885 8999999999999999999999999995 9999999988765
Q ss_pred CC
Q 029736 88 QD 89 (189)
Q Consensus 88 ~~ 89 (189)
..
T Consensus 161 ~~ 162 (243)
T KOG0533|consen 161 SP 162 (243)
T ss_pred Cc
Confidence 53
No 79
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.95 E-value=3.4e-09 Score=85.30 Aligned_cols=86 Identities=21% Similarity=0.316 Sum_probs=76.5
Q ss_pred CCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEE--------EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceee
Q 029736 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVD--------LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTL 76 (189)
Q Consensus 5 ~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~--------~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~ 76 (189)
+...+.|||.|||.++|.+++.++|+++|.|.. |+|.++. .|+.||=|++.|-..+++.-|++.|++. .|
T Consensus 131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~-~~ 208 (382)
T KOG1548|consen 131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDED-EL 208 (382)
T ss_pred cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcc-cc
Confidence 344678999999999999999999999998754 7888885 5999999999999999999999999999 99
Q ss_pred CCeEEEEEecCCCCCC
Q 029736 77 YNRTLRFALSGQDKNT 92 (189)
Q Consensus 77 ~g~~l~v~~~~~~~~~ 92 (189)
.|+.|+|+.|+.+...
T Consensus 209 rg~~~rVerAkfq~Kg 224 (382)
T KOG1548|consen 209 RGKKLRVERAKFQMKG 224 (382)
T ss_pred cCcEEEEehhhhhhcc
Confidence 9999999999865443
No 80
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.86 E-value=2.1e-08 Score=84.31 Aligned_cols=79 Identities=22% Similarity=0.285 Sum_probs=66.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
..+|||.|||+++++++|+++|.+||.|+...|..-.-.++..+||||+|.+.++++.||++- .+.|++++|.|+-.+
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As--p~~ig~~kl~Veek~ 365 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS--PLEIGGRKLNVEEKR 365 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC--ccccCCeeEEEEecc
Confidence 456999999999999999999999999999877543223444499999999999999999975 458999999998765
Q ss_pred C
Q 029736 88 Q 88 (189)
Q Consensus 88 ~ 88 (189)
.
T Consensus 366 ~ 366 (419)
T KOG0116|consen 366 P 366 (419)
T ss_pred c
Confidence 4
No 81
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.84 E-value=2.8e-09 Score=82.53 Aligned_cols=84 Identities=21% Similarity=0.340 Sum_probs=76.2
Q ss_pred CCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEE
Q 029736 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (189)
Q Consensus 5 ~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~ 84 (189)
+.+..+||+|.|..+++.+.|-..|.+|-.-...++++|+.||+++||+||.|.+..++..|+..|+|. .++.+.|++.
T Consensus 187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gk-yVgsrpiklR 265 (290)
T KOG0226|consen 187 DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGK-YVGSRPIKLR 265 (290)
T ss_pred ccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhccc-ccccchhHhh
Confidence 345678999999999999999999999987777889999999999999999999999999999999999 8999999887
Q ss_pred ecCCC
Q 029736 85 LSGQD 89 (189)
Q Consensus 85 ~~~~~ 89 (189)
.+..+
T Consensus 266 kS~wk 270 (290)
T KOG0226|consen 266 KSEWK 270 (290)
T ss_pred hhhHH
Confidence 66543
No 82
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.83 E-value=5.7e-10 Score=94.35 Aligned_cols=161 Identities=22% Similarity=0.309 Sum_probs=111.7
Q ss_pred CCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 6 ~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
.+.+++|+-.|...+++.+|.+||+.+|+|..|+++.|+.++.+||.|||+|.+.+....||. |.|. -+.|.+|.|..
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 356789999999999999999999999999999999999999999999999999999999996 8998 89999999988
Q ss_pred cCCCCCCCCCCCCcCCCCCCCCCCCC-CcccCCCCCC-CCCCCC---CCCCCCCCC---CCCCCCccccCCCCccccCCC
Q 029736 86 SGQDKNTQNSSMTTTPLSSRKSRSDP-VPVPVNGMEI-SHHSMR---ISGTRHYSS---EEPPPPGVTHESNGYETHLNV 157 (189)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~p~-~~~~~~---~~~~~~~~~---~~~~~~~~~~~~~Gy~~~~~~ 157 (189)
+...+... ++.. +.......-.+ .++.+.++-. ++..|- +.+...+.. +.-...| -...+||+.|.+.
T Consensus 255 sEaeknr~-a~~s--~a~~~k~~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG-~skgfGfi~f~~~ 330 (549)
T KOG0147|consen 255 SEAEKNRA-ANAS--PALQGKGFTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETG-RSKGFGFITFVNK 330 (549)
T ss_pred cHHHHHHH-Hhcc--ccccccccccchhhhhhcccccCchHHHHhhhccCcccceeeeeccccccc-cccCcceEEEecH
Confidence 77655442 1111 11111111122 2256666544 233321 112222221 1111111 1234899999999
Q ss_pred cccccc-ccccCcccC
Q 029736 158 TNYDYS-RRVFGATLD 172 (189)
Q Consensus 158 ~~~~~a-~~~~g~~~~ 172 (189)
.++..| ..|+|-+|-
T Consensus 331 ~~ar~a~e~lngfelA 346 (549)
T KOG0147|consen 331 EDARKALEQLNGFELA 346 (549)
T ss_pred HHHHHHHHHhccceec
Confidence 999999 999995554
No 83
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.83 E-value=3.7e-08 Score=82.63 Aligned_cols=142 Identities=19% Similarity=0.290 Sum_probs=95.7
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
...-|-+.+|||++|++||++||+.++ |..+.+.+ .+|+..|-|||+|.+.+++++|++ .+.. .+..|-|.|-.+
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r--~~Gr~sGeA~Ve~~seedv~~Alk-kdR~-~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPR--RNGRPSGEAYVEFTSEEDVEKALK-KDRE-SMGHRYIEVFTA 83 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcCc-eeEEEEec--cCCCcCcceEEEeechHHHHHHHH-hhHH-HhCCceEEEEcc
Confidence 356678889999999999999999998 77876665 479999999999999999999999 5555 788899998766
Q ss_pred CCCCCCCCCCCCcCCCCCCCCCCCCCcccCCCCCCC---CCC----CCCCCCCC---CCC-CCCCCCccccCCCCccccC
Q 029736 87 GQDKNTQNSSMTTTPLSSRKSRSDPVPVPVNGMEIS---HHS----MRISGTRH---YSS-EEPPPPGVTHESNGYETHL 155 (189)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~---~~~----~~~~~~~~---~~~-~~~~~~~~~~~~~Gy~~~~ 155 (189)
....... +..............|.+.+||.. ++. .++..... +.. .+..+.| ..||.|.
T Consensus 84 ~~~e~d~-----~~~~~g~~s~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tG-----EAfVqF~ 153 (510)
T KOG4211|consen 84 GGAEADW-----VMRPGGPNSSANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTG-----EAFVQFE 153 (510)
T ss_pred CCccccc-----cccCCCCCCCCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCccc-----ceEEEec
Confidence 4432210 111111111112277888888881 111 12222211 111 2332333 6799999
Q ss_pred CCcccccc
Q 029736 156 NVTNYDYS 163 (189)
Q Consensus 156 ~~~~~~~a 163 (189)
..+.++.|
T Consensus 154 sqe~ae~A 161 (510)
T KOG4211|consen 154 SQESAEIA 161 (510)
T ss_pred CHHHHHHH
Confidence 99999888
No 84
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.79 E-value=9.9e-09 Score=80.25 Aligned_cols=80 Identities=28% Similarity=0.449 Sum_probs=74.8
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
+.+.+||+|+.+.++.++++..|+.||.|..+.+..|+..+.+|||+||+|.+.+.++.++. |++. .|.|+.+.|.+.
T Consensus 100 d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs-~i~~~~i~vt~~ 177 (231)
T KOG4209|consen 100 DAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGS-EIPGPAIEVTLK 177 (231)
T ss_pred CCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCc-ccccccceeeee
Confidence 36789999999999999999999999999999999999999999999999999999999999 9999 999999999876
Q ss_pred CC
Q 029736 87 GQ 88 (189)
Q Consensus 87 ~~ 88 (189)
+.
T Consensus 178 r~ 179 (231)
T KOG4209|consen 178 RT 179 (231)
T ss_pred ee
Confidence 54
No 85
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.76 E-value=3.4e-09 Score=80.50 Aligned_cols=80 Identities=28% Similarity=0.353 Sum_probs=71.1
Q ss_pred CCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 6 NSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 6 ~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
...++|||+|+...++|+-|.++|.+.|.|..+.|..++ .++.| ||||+|.++....-|++.+||. .+.++++.+.+
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 346899999999999999999999999999999998885 56666 9999999999999999999997 99999888765
Q ss_pred cCC
Q 029736 86 SGQ 88 (189)
Q Consensus 86 ~~~ 88 (189)
-..
T Consensus 84 r~G 86 (267)
T KOG4454|consen 84 RCG 86 (267)
T ss_pred ccC
Confidence 443
No 86
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.63 E-value=2.2e-08 Score=85.07 Aligned_cols=69 Identities=22% Similarity=0.314 Sum_probs=63.7
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEE
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~ 82 (189)
.++|+|-|||..+++++|+.+|+.||+|..++. +-..+|.+||+|.+.-+|++|++.|++. .|.|+.|+
T Consensus 75 ~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~-----t~~~~~~~~v~FyDvR~A~~Alk~l~~~-~~~~~~~k 143 (549)
T KOG4660|consen 75 QGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRE-----TPNKRGIVFVEFYDVRDAERALKALNRR-EIAGKRIK 143 (549)
T ss_pred cceEEEEecCCcCCHHHHHHHHHhhcchhhhhc-----ccccCceEEEEEeehHhHHHHHHHHHHH-Hhhhhhhc
Confidence 678999999999999999999999999999765 4456799999999999999999999998 99999988
No 87
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.59 E-value=5.3e-08 Score=83.08 Aligned_cols=87 Identities=24% Similarity=0.389 Sum_probs=79.9
Q ss_pred CCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEE
Q 029736 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (189)
Q Consensus 5 ~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~ 84 (189)
+.+..+|||++||..+++.++++++..||.+....++.|..+|.++||||.+|.+......|+..|||. .++++.|.|.
T Consensus 286 ~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm-~lgd~~lvvq 364 (500)
T KOG0120|consen 286 PDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGM-QLGDKKLVVQ 364 (500)
T ss_pred ccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchh-hhcCceeEee
Confidence 445678999999999999999999999999999999999999999999999999999999999999998 9999999999
Q ss_pred ecCCCCCC
Q 029736 85 LSGQDKNT 92 (189)
Q Consensus 85 ~~~~~~~~ 92 (189)
.+-.....
T Consensus 365 ~A~~g~~~ 372 (500)
T KOG0120|consen 365 RAIVGASN 372 (500)
T ss_pred hhhccchh
Confidence 88665443
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=98.59 E-value=7.1e-07 Score=60.42 Aligned_cols=79 Identities=25% Similarity=0.367 Sum_probs=67.5
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhc--CCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeC----CeEEE
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQ--AGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLY----NRTLR 82 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~--~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~----g~~l~ 82 (189)
+||.|.|||...+.++|.+++.. .|..-.+.++.|-.++.+.|||||.|.+++.|.+-.+.++|. ... .+.+.
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 68999999999999999999875 366777889999888999999999999999999999999998 553 34667
Q ss_pred EEecCC
Q 029736 83 FALSGQ 88 (189)
Q Consensus 83 v~~~~~ 88 (189)
|.+|+-
T Consensus 81 i~yAri 86 (97)
T PF04059_consen 81 ISYARI 86 (97)
T ss_pred EehhHh
Confidence 777654
No 89
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.45 E-value=1.9e-07 Score=75.77 Aligned_cols=83 Identities=29% Similarity=0.423 Sum_probs=75.4
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEE--------EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCC
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVD--------LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN 78 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~--------~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g 78 (189)
+.-+|||.+|+..+++++|.++|.++|.|.. |.|-+|+.|+++||-|.|.|.+...|++|++.+++. .+.+
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 4678999999999999999999999998753 678889999999999999999999999999999999 9999
Q ss_pred eEEEEEecCCCC
Q 029736 79 RTLRFALSGQDK 90 (189)
Q Consensus 79 ~~l~v~~~~~~~ 90 (189)
..|+|..+....
T Consensus 144 n~ikvs~a~~r~ 155 (351)
T KOG1995|consen 144 NTIKVSLAERRT 155 (351)
T ss_pred CCchhhhhhhcc
Confidence 999998876543
No 90
>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=98.29 E-value=4.3e-06 Score=54.53 Aligned_cols=69 Identities=20% Similarity=0.373 Sum_probs=47.6
Q ss_pred CeEEEcCCCCCCcHH----HHHHHHhcCC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEE
Q 029736 9 CNVYIGNLDEKVSER----VLYDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~----~L~~~F~~~G-~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v 83 (189)
..|||.|||.+.+.. -|++++..+| +|.++. .+.|+|.|.+.+.|.+|.+.|+|. .+.|.+|.|
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 469999999888765 4566777776 666552 378999999999999999999999 999999999
Q ss_pred EecCC
Q 029736 84 ALSGQ 88 (189)
Q Consensus 84 ~~~~~ 88 (189)
++...
T Consensus 72 ~~~~~ 76 (90)
T PF11608_consen 72 SFSPK 76 (90)
T ss_dssp ESS--
T ss_pred EEcCC
Confidence 98744
No 91
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.28 E-value=1.5e-05 Score=65.99 Aligned_cols=76 Identities=28% Similarity=0.425 Sum_probs=68.4
Q ss_pred CCeEEEcCCC-CCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 8 GCNVYIGNLD-EKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 8 ~~~l~V~nL~-~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
...|.|.||. ..+|.+.|..+|.-||.|..|+|+..+ +.-|+|.+.+...|+-|++.|+|. .+.|++|+|.++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~g~-~l~gk~lrvt~S 370 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLEGH-KLYGKKLRVTLS 370 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC-----CcceeeeecchhHHHHHHHHhhcc-eecCceEEEeec
Confidence 4778899997 558999999999999999999999874 367999999999999999999998 999999999998
Q ss_pred CCC
Q 029736 87 GQD 89 (189)
Q Consensus 87 ~~~ 89 (189)
+-.
T Consensus 371 KH~ 373 (492)
T KOG1190|consen 371 KHT 373 (492)
T ss_pred cCc
Confidence 743
No 92
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.20 E-value=1.1e-05 Score=65.56 Aligned_cols=71 Identities=18% Similarity=0.351 Sum_probs=64.2
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCC--CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeE
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAG--RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRT 80 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G--~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~ 80 (189)
-.+|||||-|.+|++||.+.+...| .+.++++..++.+|++||||+|...+.....+.++.|-.+ +|.|+.
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 3589999999999999999988877 6677888889999999999999999999999999999998 999984
No 93
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.12 E-value=2.3e-06 Score=69.11 Aligned_cols=80 Identities=21% Similarity=0.459 Sum_probs=72.9
Q ss_pred CCeEE-EcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 8 GCNVY-IGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 8 ~~~l~-V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
..++| |++|++.+++++|+..|..+|.|..+++..++.++..+|||+|.|.....+..++.. +.. .+.++.+++...
T Consensus 184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~-~~~~~~~~~~~~ 261 (285)
T KOG4210|consen 184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTR-SIGGRPLRLEED 261 (285)
T ss_pred cccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccC-cccCcccccccC
Confidence 45566 999999999999999999999999999999999999999999999999999999987 666 899999999887
Q ss_pred CCC
Q 029736 87 GQD 89 (189)
Q Consensus 87 ~~~ 89 (189)
...
T Consensus 262 ~~~ 264 (285)
T KOG4210|consen 262 EPR 264 (285)
T ss_pred CCC
Confidence 664
No 94
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.08 E-value=1.2e-05 Score=67.86 Aligned_cols=77 Identities=25% Similarity=0.342 Sum_probs=62.8
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEE-EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVD-LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~-~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
...|-+.+||+.++++||.+||+..-.+.. +.++.++ .+++.|-|||+|++.+.|++|+..-.. .|+.|-|.|-.+
T Consensus 103 d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~rhre--~iGhRYIEvF~S 179 (510)
T KOG4211|consen 103 DGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGRHRE--NIGHRYIEVFRS 179 (510)
T ss_pred CceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHHHHH--hhccceEEeehh
Confidence 456889999999999999999998765444 5666764 678999999999999999999985433 588888888655
Q ss_pred C
Q 029736 87 G 87 (189)
Q Consensus 87 ~ 87 (189)
.
T Consensus 180 s 180 (510)
T KOG4211|consen 180 S 180 (510)
T ss_pred H
Confidence 4
No 95
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.08 E-value=4.9e-06 Score=63.79 Aligned_cols=61 Identities=25% Similarity=0.274 Sum_probs=50.6
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCc
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~ 73 (189)
.+|||.||.++++|++|+.+|+.|-.-.-++|.. ...-..||++|++.+.|..|+..|+|.
T Consensus 211 stlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~----~~g~~vaf~~~~~~~~at~am~~lqg~ 271 (284)
T KOG1457|consen 211 STLFIANLGPNCTEDELKQLLSRYPGFHILKIRA----RGGMPVAFADFEEIEQATDAMNHLQGN 271 (284)
T ss_pred hhHhhhccCCCCCHHHHHHHHHhCCCceEEEEec----CCCcceEeecHHHHHHHHHHHHHhhcc
Confidence 4799999999999999999999997655555532 123358999999999999999999987
No 96
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.88 E-value=9.6e-06 Score=62.45 Aligned_cols=69 Identities=29% Similarity=0.362 Sum_probs=61.0
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
.+.++|.+++..+.+.+|.+.|.++|.+....+ ..+++||+|.+.++|.+|++.|++. .+.++.|.+..
T Consensus 99 ~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~-~~~~~~l~~~~ 167 (216)
T KOG0106|consen 99 HFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGK-KLNGRRISVEK 167 (216)
T ss_pred cceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccch-hhcCceeeecc
Confidence 577999999999999999999999999844433 3479999999999999999999999 99999999943
No 97
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.87 E-value=8.1e-05 Score=57.13 Aligned_cols=73 Identities=19% Similarity=0.357 Sum_probs=63.1
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeC-CeEEEEEec
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLY-NRTLRFALS 86 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~-g~~l~v~~~ 86 (189)
...+|+.|||.+++.+.|..+|.+|..-..++++..+ ++.|||+|.+...|..|...+++. .|- ...+++.++
T Consensus 146 n~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~-~it~~~~m~i~~a 219 (221)
T KOG4206|consen 146 NNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGF-KITKKNTMQITFA 219 (221)
T ss_pred ceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccc-eeccCceEEeccc
Confidence 6789999999999999999999999989999987653 589999999999999999999997 665 556666655
No 98
>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=97.87 E-value=5e-05 Score=52.36 Aligned_cols=72 Identities=18% Similarity=0.335 Sum_probs=43.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCc----eeeCCeEEEE
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI----VTLYNRTLRF 83 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~----~~~~g~~l~v 83 (189)
++.|.+.+++..++.++|++.|++||.|..|.+.... ..|+|.|.+.+.|++|++.+... +.+.+..+.+
T Consensus 1 G~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~ 74 (105)
T PF08777_consen 1 GCILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTL 74 (105)
T ss_dssp --EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEE
T ss_pred CeEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEE
Confidence 3568888999999999999999999999999886542 58999999999999999765432 3555555554
Q ss_pred Ee
Q 029736 84 AL 85 (189)
Q Consensus 84 ~~ 85 (189)
..
T Consensus 75 ~v 76 (105)
T PF08777_consen 75 EV 76 (105)
T ss_dssp E-
T ss_pred EE
Confidence 43
No 99
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.79 E-value=9.2e-05 Score=62.98 Aligned_cols=65 Identities=23% Similarity=0.263 Sum_probs=60.8
Q ss_pred CCCCCCCeEEEcCCCCCCcHHHHHHHHh-cCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHH
Q 029736 3 GNSNSGCNVYIGNLDEKVSERVLYDILI-QAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKL 69 (189)
Q Consensus 3 ~~~~~~~~l~V~nL~~~~~e~~L~~~F~-~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~ 69 (189)
-|| .+|||||+||.-++.++|..+|+ -||.|..+.|-+|++-+-++|-|=|+|.+...-.+||.+
T Consensus 367 lDp--rrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 367 IDP--RRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred cCc--cceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 467 89999999999999999999999 699999999999988889999999999999999999975
No 100
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.71 E-value=0.00016 Score=63.66 Aligned_cols=76 Identities=21% Similarity=0.267 Sum_probs=65.8
Q ss_pred CC-eEEEcCCCCCCcHHHHHHHHhcCCCeEE-EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 8 GC-NVYIGNLDEKVSERVLYDILIQAGRVVD-LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 8 ~~-~l~V~nL~~~~~e~~L~~~F~~~G~i~~-~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
++ .|-|.|+|++++-+||.+||..|-.+-. |.+.+. +.|+..|-|-|.|++.++|.+|...|+++ .|..+.+.+.+
T Consensus 866 Gp~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~n-d~G~pTGe~mvAfes~~eAr~A~~dl~~~-~i~nr~V~l~i 943 (944)
T KOG4307|consen 866 GPRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRN-DDGVPTGECMVAFESQEEARRASMDLDGQ-KIRNRVVSLRI 943 (944)
T ss_pred CCeEEEecCCCccccHHHHHHHhcccccCCCceeEeec-CCCCcccceeEeecCHHHHHhhhhccccC-cccceeEEEEe
Confidence 44 6788999999999999999999986544 555444 67999999999999999999999999999 99999988764
No 101
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.70 E-value=0.00014 Score=58.99 Aligned_cols=79 Identities=20% Similarity=0.302 Sum_probs=60.8
Q ss_pred CeEEEcCCCCCCcHHH----H--HHHHhcCCCeEEEEEecCCCCC-CcceEE--EEEeCCHHHHHHHHHHcCCceeeCCe
Q 029736 9 CNVYIGNLDEKVSERV----L--YDILIQAGRVVDLYIPRDKETD-KPKGFA--FVEYESEEIADYAIKLFSGIVTLYNR 79 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~----L--~~~F~~~G~i~~~~~~~~~~~~-~~kg~a--fV~f~~~~~a~~al~~l~g~~~~~g~ 79 (189)
.-+||-+|++.+..++ | .++|.+||.|..|.+.+...+. ...+.+ +|+|.+.++|.+||...+|. .++||
T Consensus 115 NLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs-~~DGr 193 (480)
T COG5175 115 NLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGS-LLDGR 193 (480)
T ss_pred ceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccc-cccCc
Confidence 4589999998776554 2 6799999999988775542111 112323 89999999999999999999 89999
Q ss_pred EEEEEecCC
Q 029736 80 TLRFALSGQ 88 (189)
Q Consensus 80 ~l~v~~~~~ 88 (189)
.|+..+...
T Consensus 194 ~lkatYGTT 202 (480)
T COG5175 194 VLKATYGTT 202 (480)
T ss_pred eEeeecCch
Confidence 999987653
No 102
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.61 E-value=5.7e-05 Score=58.99 Aligned_cols=71 Identities=21% Similarity=0.326 Sum_probs=59.4
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCC--------CCcce----EEEEEeCCHHHHHHHHHHcCCceee
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKET--------DKPKG----FAFVEYESEEIADYAIKLFSGIVTL 76 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~--------~~~kg----~afV~f~~~~~a~~al~~l~g~~~~ 76 (189)
-.||+++||+.++..-|+++|+.||.|-.|.|-....+ |..++ -|-|+|.+...|..+.+.||+. .|
T Consensus 75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~-~I 153 (278)
T KOG3152|consen 75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNT-PI 153 (278)
T ss_pred eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCC-cc
Confidence 56999999999999999999999999999988665433 23333 3559999999999999999999 88
Q ss_pred CCeE
Q 029736 77 YNRT 80 (189)
Q Consensus 77 ~g~~ 80 (189)
+|+.
T Consensus 154 ggkk 157 (278)
T KOG3152|consen 154 GGKK 157 (278)
T ss_pred CCCC
Confidence 8763
No 103
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.56 E-value=0.0004 Score=59.84 Aligned_cols=77 Identities=30% Similarity=0.441 Sum_probs=61.0
Q ss_pred CCCCeEEEcCCCCCC--c----HHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCC-
Q 029736 6 NSGCNVYIGNLDEKV--S----ERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN- 78 (189)
Q Consensus 6 ~~~~~l~V~nL~~~~--~----e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g- 78 (189)
+....|+|.|+|.-- . ..-|..+|+++|+++.+.++.+..+| .+||.|++|.+...|+.|++.|||. .|+-
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~-~ldkn 133 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGK-RLDKN 133 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccc-eeccc
Confidence 445778999998321 1 23467789999999999999886544 9999999999999999999999998 6654
Q ss_pred eEEEEE
Q 029736 79 RTLRFA 84 (189)
Q Consensus 79 ~~l~v~ 84 (189)
.+..|.
T Consensus 134 Htf~v~ 139 (698)
T KOG2314|consen 134 HTFFVR 139 (698)
T ss_pred ceEEee
Confidence 356555
No 104
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.55 E-value=5.6e-05 Score=62.95 Aligned_cols=77 Identities=27% Similarity=0.388 Sum_probs=62.0
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCC-eEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGR-VVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~-i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|+|||.+.++.++|+.+|...-- ...-.++. .||+||.+.+...|.+|++.++|++++.|+++.+..+-
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 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK-------SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSV 74 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeee-------cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchh
Confidence 36899999999999999999976421 11122222 38999999999999999999999999999999998877
Q ss_pred CCCCC
Q 029736 88 QDKNT 92 (189)
Q Consensus 88 ~~~~~ 92 (189)
+++.+
T Consensus 75 ~kkqr 79 (584)
T KOG2193|consen 75 PKKQR 79 (584)
T ss_pred hHHHH
Confidence 65443
No 105
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.52 E-value=0.0003 Score=58.45 Aligned_cols=76 Identities=24% Similarity=0.235 Sum_probs=62.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCe-EEEEEec
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR-TLRFALS 86 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~-~l~v~~~ 86 (189)
..+|.+.|+|.+++|++|+..|..-|........ -++.+.++++.+.+.|+|..|+..++.. .+++. -|||+++
T Consensus 414 satlHlsnip~svsee~lk~~f~~~g~~vkafkf----f~kd~kmal~q~~sveeA~~ali~~hnh-~lgen~hlRvSFS 488 (492)
T KOG1190|consen 414 SATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKF----FQKDRKMALPQLESVEEAIQALIDLHNH-YLGENHHLRVSFS 488 (492)
T ss_pred hhheeeccCCcccchhHHHHhhhcCCceEEeeee----cCCCcceeecccCChhHhhhhccccccc-cCCCCceEEEEee
Confidence 5689999999999999999999998866554332 2345679999999999999999999887 77666 7999998
Q ss_pred CC
Q 029736 87 GQ 88 (189)
Q Consensus 87 ~~ 88 (189)
+.
T Consensus 489 ks 490 (492)
T KOG1190|consen 489 KS 490 (492)
T ss_pred cc
Confidence 64
No 106
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.51 E-value=0.0004 Score=41.70 Aligned_cols=52 Identities=19% Similarity=0.516 Sum_probs=41.5
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHH
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAI 67 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al 67 (189)
+.|-|.+.+++..+. +...|..||.|..+.+. ....+.+|.|.++.+|++|+
T Consensus 2 ~wI~V~Gf~~~~~~~-vl~~F~~fGeI~~~~~~------~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEE-VLEHFASFGEIVDIYVP------ESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHHH-HHHHHHhcCCEEEEEcC------CCCcEEEEEECCHHHHHhhC
Confidence 467788888776644 55588899999998885 23469999999999999985
No 107
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.50 E-value=0.00039 Score=59.80 Aligned_cols=66 Identities=24% Similarity=0.293 Sum_probs=54.0
Q ss_pred HHHHHHHhcCCCeEEEEEecC-C--CCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCCC
Q 029736 23 RVLYDILIQAGRVVDLYIPRD-K--ETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQD 89 (189)
Q Consensus 23 ~~L~~~F~~~G~i~~~~~~~~-~--~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~~ 89 (189)
++++.-+.+||.|..|.+.++ . .-.-..|.-||+|.+.+++++|.+.|.|. .+.+|.+...+....
T Consensus 424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~Gr-KF~nRtVvtsYydeD 492 (500)
T KOG0120|consen 424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGR-KFANRTVVASYYDED 492 (500)
T ss_pred HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCc-eeCCcEEEEEecCHH
Confidence 345556778999999999877 2 22334577899999999999999999999 999999999887654
No 108
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.46 E-value=0.00046 Score=56.96 Aligned_cols=79 Identities=15% Similarity=0.116 Sum_probs=65.9
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCC-eEE--EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEE
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGR-VVD--LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~-i~~--~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~ 84 (189)
...|-+.+||...+.++|.+||..|.. |.. ++++.+ ..|++.|-|||+|.+.+.|..|....+.+ .+..|.|.|-
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 456889999999999999999999873 333 677776 57999999999999999999999988887 5668888886
Q ss_pred ecCC
Q 029736 85 LSGQ 88 (189)
Q Consensus 85 ~~~~ 88 (189)
.++.
T Consensus 358 p~S~ 361 (508)
T KOG1365|consen 358 PCSV 361 (508)
T ss_pred eccH
Confidence 6553
No 109
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.45 E-value=0.00071 Score=55.13 Aligned_cols=79 Identities=19% Similarity=0.224 Sum_probs=62.6
Q ss_pred CCCCeEEEcCCC----CCCc-------HHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCce
Q 029736 6 NSGCNVYIGNLD----EKVS-------ERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIV 74 (189)
Q Consensus 6 ~~~~~l~V~nL~----~~~~-------e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~ 74 (189)
...++|.+.|+= +..+ +++|++-..+||.|..|.+.- ..+.|.+-|.|.+.++|..||+.|+|.
T Consensus 263 r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d----~hPdGvvtV~f~n~eeA~~ciq~m~GR- 337 (382)
T KOG1548|consen 263 RADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYD----RHPDGVVTVSFRNNEEADQCIQTMDGR- 337 (382)
T ss_pred cCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEec----cCCCceeEEEeCChHHHHHHHHHhcCe-
Confidence 346889999873 2233 245566678999999987742 346799999999999999999999999
Q ss_pred eeCCeEEEEEecCCC
Q 029736 75 TLYNRTLRFALSGQD 89 (189)
Q Consensus 75 ~~~g~~l~v~~~~~~ 89 (189)
.++||.|..+.....
T Consensus 338 ~fdgRql~A~i~DG~ 352 (382)
T KOG1548|consen 338 WFDGRQLTASIWDGK 352 (382)
T ss_pred eecceEEEEEEeCCc
Confidence 899999998876543
No 110
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.45 E-value=0.00011 Score=61.26 Aligned_cols=66 Identities=27% Similarity=0.215 Sum_probs=55.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecC---CCCC--C--------cceEEEEEeCCHHHHHHHHHHcCCc
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRD---KETD--K--------PKGFAFVEYESEEIADYAIKLFSGI 73 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~---~~~~--~--------~kg~afV~f~~~~~a~~al~~l~g~ 73 (189)
.++|.+-|||.+-.-+.|.++|..+|.|+.|+|..- +.+. . .+-||||+|.+.+.|.+|.+.|+..
T Consensus 231 srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~e 309 (484)
T KOG1855|consen 231 SRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNPE 309 (484)
T ss_pred cceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhchh
Confidence 789999999999888999999999999999998754 2211 1 2568999999999999999988654
No 111
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.28 E-value=0.0032 Score=51.97 Aligned_cols=81 Identities=23% Similarity=0.372 Sum_probs=70.1
Q ss_pred CCCeEEEcCCCC-CCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEe
Q 029736 7 SGCNVYIGNLDE-KVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFAL 85 (189)
Q Consensus 7 ~~~~l~V~nL~~-~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~ 85 (189)
+++.+.|-+|.. .++.+.|-.+|-.||-|+.|++++.+ .|-|.|+..+..+.++|+..||+. .+-|.+|.|..
T Consensus 286 ~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~-~lfG~kl~v~~ 359 (494)
T KOG1456|consen 286 PGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNI-PLFGGKLNVCV 359 (494)
T ss_pred CCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccC-ccccceEEEee
Confidence 378889999985 46778899999999999999998764 478999999999999999999997 88999999999
Q ss_pred cCCCCCCC
Q 029736 86 SGQDKNTQ 93 (189)
Q Consensus 86 ~~~~~~~~ 93 (189)
+++..-..
T Consensus 360 SkQ~~v~~ 367 (494)
T KOG1456|consen 360 SKQNFVSP 367 (494)
T ss_pred cccccccc
Confidence 88754433
No 112
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=97.21 E-value=0.0015 Score=49.01 Aligned_cols=59 Identities=29% Similarity=0.330 Sum_probs=55.1
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCc
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~ 73 (189)
..+|.|.+||+..++.+|++...+.|.|....+.+| |.+.|+|...|+.+-|+..|...
T Consensus 115 e~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~ 173 (241)
T KOG0105|consen 115 EYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQ 173 (241)
T ss_pred ceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhccc
Confidence 567999999999999999999999999999999887 69999999999999999988876
No 113
>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=97.19 E-value=0.0036 Score=42.66 Aligned_cols=76 Identities=9% Similarity=0.152 Sum_probs=50.9
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEE-EecCC------CCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeE
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLY-IPRDK------ETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRT 80 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~-~~~~~------~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~ 80 (189)
.+-|.|-+.|+. ....+-+.|++||.|.+.. +.++. .......+-.|.|.++.+|++||. .||. .|.|..
T Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~-i~~g~~ 82 (100)
T PF05172_consen 6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGT-IFSGSL 82 (100)
T ss_dssp CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTE-EETTCE
T ss_pred CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCe-EEcCcE
Confidence 566888899987 5567888999999998874 11110 011234688999999999999999 7998 788875
Q ss_pred E-EEEec
Q 029736 81 L-RFALS 86 (189)
Q Consensus 81 l-~v~~~ 86 (189)
| -|.+.
T Consensus 83 mvGV~~~ 89 (100)
T PF05172_consen 83 MVGVKPC 89 (100)
T ss_dssp EEEEEE-
T ss_pred EEEEEEc
Confidence 4 46555
No 114
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.14 E-value=0.0015 Score=55.78 Aligned_cols=66 Identities=23% Similarity=0.372 Sum_probs=50.7
Q ss_pred CCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCC---CCCCcce---EEEEEeCCHHHHHHHHHHcC
Q 029736 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDK---ETDKPKG---FAFVEYESEEIADYAIKLFS 71 (189)
Q Consensus 5 ~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~---~~~~~kg---~afV~f~~~~~a~~al~~l~ 71 (189)
+...++||||+||++++|++|...|..||.+ .+.|.... .---++| |.|+.|+++..++.-+.++.
T Consensus 256 ~~~S~KVFvGGlp~dise~~i~~~F~~FGs~-~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~ 327 (520)
T KOG0129|consen 256 PRYSRKVFVGGLPWDITEAQINASFGQFGSV-KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS 327 (520)
T ss_pred cccccceeecCCCccccHHHHHhhcccccce-EeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHh
Confidence 4456899999999999999999999999965 45555321 1112467 99999999988888776543
No 115
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.04 E-value=0.0027 Score=50.83 Aligned_cols=66 Identities=20% Similarity=0.111 Sum_probs=52.8
Q ss_pred HHHHHHHHhcCCCeEEEEEecCCCCCCcc-eEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 22 ERVLYDILIQAGRVVDLYIPRDKETDKPK-GFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 22 e~~L~~~F~~~G~i~~~~~~~~~~~~~~k-g~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
++++++-.++||+|..|.|..++..-... ---||+|...++|.+|+-.|||. .|+||.++..+...
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGR-yFGGr~v~A~Fyn~ 366 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGR-YFGGRVVSACFYNL 366 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCc-eecceeeeheeccH
Confidence 45678888999999999887665333322 24699999999999999999999 99999998876543
No 116
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.02 E-value=0.0044 Score=44.87 Aligned_cols=59 Identities=27% Similarity=0.311 Sum_probs=45.7
Q ss_pred HHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCCCCC
Q 029736 23 RVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQDKN 91 (189)
Q Consensus 23 ~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~~~~ 91 (189)
.+|.+.|..||.+.-++++.+ .-.|+|.+.+.|.+|+. ++|. +++|+.|+|+...+...
T Consensus 51 ~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals-~dg~-~v~g~~l~i~LKtpdW~ 109 (146)
T PF08952_consen 51 DELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALS-LDGI-QVNGRTLKIRLKTPDWL 109 (146)
T ss_dssp HHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHH-GCCS-EETTEEEEEEE------
T ss_pred HHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHc-cCCc-EECCEEEEEEeCCccHH
Confidence 367788899999988888764 57899999999999999 8997 99999999998766543
No 117
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.01 E-value=0.00033 Score=62.88 Aligned_cols=79 Identities=20% Similarity=0.199 Sum_probs=69.3
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
..++|.|+|+..|.++|+.++.++|.+.+++++..+ .|+++|.++|.|.++.++.++....... .+....+.|+.+.+
T Consensus 737 ~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~-~~rE~~~~v~vsnp 814 (881)
T KOG0128|consen 737 ISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVA-GKRENNGEVQVSNP 814 (881)
T ss_pred hhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhh-hhhhcCccccccCC
Confidence 568999999999999999999999999999988875 7999999999999999999998877775 66667777777665
Q ss_pred C
Q 029736 89 D 89 (189)
Q Consensus 89 ~ 89 (189)
.
T Consensus 815 ~ 815 (881)
T KOG0128|consen 815 E 815 (881)
T ss_pred c
Confidence 3
No 118
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.99 E-value=0.0054 Score=37.95 Aligned_cols=55 Identities=18% Similarity=0.111 Sum_probs=45.5
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcC---CCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHc
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQA---GRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLF 70 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~---G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l 70 (189)
..+|+|.++. +++.++|+.+|..| .....+.|+-|. -|-|.|.+.+.|.+||..|
T Consensus 5 peavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 3579999997 57889999999998 235679999883 5779999999999999764
No 119
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=96.95 E-value=0.0053 Score=50.74 Aligned_cols=79 Identities=24% Similarity=0.349 Sum_probs=62.5
Q ss_pred CCeEEEcCCC--CCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCC--eEEEE
Q 029736 8 GCNVYIGNLD--EKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN--RTLRF 83 (189)
Q Consensus 8 ~~~l~V~nL~--~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g--~~l~v 83 (189)
.+.|.+.=|. ..+|.+-|..+....|+|..|.|++. +| -.|.|+|++.+.|++|.+.|||. .|.. ..|+|
T Consensus 120 N~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk--ng---VQAmVEFdsv~~AqrAk~alNGA-DIYsGCCTLKI 193 (494)
T KOG1456|consen 120 NKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK--NG---VQAMVEFDSVEVAQRAKAALNGA-DIYSGCCTLKI 193 (494)
T ss_pred CeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec--cc---eeeEEeechhHHHHHHHhhcccc-cccccceeEEE
Confidence 3444444444 56889999999999999999988764 33 47999999999999999999998 6543 48999
Q ss_pred EecCCCCCC
Q 029736 84 ALSGQDKNT 92 (189)
Q Consensus 84 ~~~~~~~~~ 92 (189)
+++++.+-.
T Consensus 194 eyAkP~rln 202 (494)
T KOG1456|consen 194 EYAKPTRLN 202 (494)
T ss_pred EecCcceee
Confidence 999886543
No 120
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=96.84 E-value=0.0086 Score=49.76 Aligned_cols=75 Identities=9% Similarity=0.172 Sum_probs=58.9
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCC---CCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEE
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDK---ETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~---~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~ 84 (189)
...|-|.||.+.++.++++.+|.-.|.|..+.|+... ......-.|||.|.+...+..|.. |-.+ .+-++.|.|-
T Consensus 7 ~~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltnt-vfvdraliv~ 84 (479)
T KOG4676|consen 7 LGVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNT-VFVDRALIVR 84 (479)
T ss_pred CceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccc-eeeeeeEEEE
Confidence 4589999999999999999999999999999886532 233456799999999999998877 4455 3445555444
No 121
>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=96.83 E-value=0.007 Score=39.60 Aligned_cols=56 Identities=13% Similarity=0.189 Sum_probs=43.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSG 72 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g 72 (189)
....+|. .|..+...||.++|+.||.| .|.|+-| .-|||...+++.|..++..+.-
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I-~VsWi~d-------TSAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQI-YVSWIND-------TSAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCE-EEEEECT-------TEEEEEECCCHHHHHHHHHHTT
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcE-EEEEEcC-------CcEEEEeecHHHHHHHHHHhcc
Confidence 4556666 99999999999999999976 6888877 4799999999999999887653
No 122
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.72 E-value=0.00079 Score=60.88 Aligned_cols=79 Identities=24% Similarity=0.322 Sum_probs=63.2
Q ss_pred CCCCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEE
Q 029736 5 SNSGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (189)
Q Consensus 5 ~~~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~ 84 (189)
...+++||+|||+..+++.+|+..|..+|.|..|.|-+-+ -+.-..++||.|.+-+.+..|+..+.+. .|..-.+++.
T Consensus 369 ~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~-~I~~g~~r~g 446 (975)
T KOG0112|consen 369 FRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGP-LIGNGTHRIG 446 (975)
T ss_pred hhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhcCC-ccccCccccc
Confidence 3457899999999999999999999999999999886542 3344569999999999999999888887 4544444444
Q ss_pred e
Q 029736 85 L 85 (189)
Q Consensus 85 ~ 85 (189)
+
T Consensus 447 l 447 (975)
T KOG0112|consen 447 L 447 (975)
T ss_pred c
Confidence 3
No 123
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.70 E-value=0.0059 Score=50.65 Aligned_cols=71 Identities=18% Similarity=0.260 Sum_probs=52.8
Q ss_pred eEEEcCCCCCCcHHHHHHHHhcC----CCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEE
Q 029736 10 NVYIGNLDEKVSERVLYDILIQA----GRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (189)
Q Consensus 10 ~l~V~nL~~~~~e~~L~~~F~~~----G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v 83 (189)
.|-+.+||+++++.++.+||.+- |..+.+.+++. -.|+..|-|||.|..++.|+.||..-.+ .|+-|.|.+
T Consensus 163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~r-pdgrpTGdAFvlfa~ee~aq~aL~khrq--~iGqRYIEl 237 (508)
T KOG1365|consen 163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTR-PDGRPTGDAFVLFACEEDAQFALRKHRQ--NIGQRYIEL 237 (508)
T ss_pred EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEEC-CCCCcccceEEEecCHHHHHHHHHHHHH--HHhHHHHHH
Confidence 45567999999999999999732 24455655554 3689999999999999999999985322 354444444
No 124
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.48 E-value=0.0035 Score=49.22 Aligned_cols=64 Identities=20% Similarity=0.224 Sum_probs=56.1
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCc
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~ 73 (189)
..|||.||...+..+.|++-|+.||.|....+..| ..++..+-++|.|...-.|.+|+..+...
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 57999999999999999999999999988666666 46888899999999999999999887433
No 125
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.46 E-value=0.00016 Score=64.83 Aligned_cols=66 Identities=24% Similarity=0.318 Sum_probs=59.5
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCc
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~ 73 (189)
..++||.||+..+.+.+|...|..+|.+..+++......++.||.|+++|..++.+.+|+....+.
T Consensus 667 ~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~ 732 (881)
T KOG0128|consen 667 LIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSC 732 (881)
T ss_pred HHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhh
Confidence 357899999999999999999999999988888766678899999999999999999999977665
No 126
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=96.46 E-value=0.0016 Score=51.09 Aligned_cols=64 Identities=22% Similarity=0.267 Sum_probs=49.9
Q ss_pred HHHHHHHh-cCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 23 RVLYDILI-QAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 23 ~~L~~~F~-~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
++|...|+ +||.|+.+.+-.+. .-.-.|=.+|.|...++|++|++.||+. .+.|++|...+..-
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnR-w~~G~pi~ae~~pv 147 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNR-WYNGRPIHAELSPV 147 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCc-cccCCcceeeecCc
Confidence 34444455 89999988654432 3345688999999999999999999999 89999999887643
No 127
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.43 E-value=0.007 Score=55.00 Aligned_cols=79 Identities=22% Similarity=0.220 Sum_probs=67.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCC--eEEEEEe
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN--RTLRFAL 85 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g--~~l~v~~ 85 (189)
.+.+|+++|..++....|...|..||.|..|.+-. ..-|++|.|.+...++.|+..|-|. .|++ +.++|.+
T Consensus 455 ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h------gq~yayi~yes~~~aq~a~~~~rga-p~G~P~~r~rvdl 527 (975)
T KOG0112|consen 455 TTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH------GQPYAYIQYESPPAAQAATHDMRGA-PLGGPPRRLRVDL 527 (975)
T ss_pred ceeeccCCCCCCChHHHHHHHhhccCcceeeeccc------CCcceeeecccCccchhhHHHHhcC-cCCCCCccccccc
Confidence 68899999999999999999999999999887733 2369999999999999999999998 8876 4789998
Q ss_pred cCCCCCCC
Q 029736 86 SGQDKNTQ 93 (189)
Q Consensus 86 ~~~~~~~~ 93 (189)
+...-...
T Consensus 528 a~~~~~~P 535 (975)
T KOG0112|consen 528 ASPPGATP 535 (975)
T ss_pred ccCCCCCh
Confidence 87654433
No 128
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.21 E-value=0.0035 Score=55.52 Aligned_cols=78 Identities=19% Similarity=0.128 Sum_probs=64.1
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEE-EEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVD-LYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~-~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
+..|||..||..+++.++..+|...-.|++ |.|.+.+ +++.++.|||.|..++++.+|+..-... .++.+.|+|.-.
T Consensus 434 g~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~-y~G~r~irv~si 511 (944)
T KOG4307|consen 434 GGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKF-YPGHRIIRVDSI 511 (944)
T ss_pred cceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhccccc-ccCceEEEeech
Confidence 568999999999999999999998776766 7776664 7788999999999999988888755444 778888998744
Q ss_pred C
Q 029736 87 G 87 (189)
Q Consensus 87 ~ 87 (189)
.
T Consensus 512 ~ 512 (944)
T KOG4307|consen 512 A 512 (944)
T ss_pred h
Confidence 3
No 129
>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=95.77 E-value=0.031 Score=42.05 Aligned_cols=83 Identities=12% Similarity=0.118 Sum_probs=50.4
Q ss_pred CCCCeEEEcCCCCCCcHHHHHHHHhc-CCCe---EEEE--EecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCe
Q 029736 6 NSGCNVYIGNLDEKVSERVLYDILIQ-AGRV---VDLY--IPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR 79 (189)
Q Consensus 6 ~~~~~l~V~nL~~~~~e~~L~~~F~~-~G~i---~~~~--~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~ 79 (189)
....+|.|.+||+.+||+++.+.+.. ++.. ..+. ..........-.-|+|.|.+.+++..-...++|...++.+
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 34789999999999999999887766 6655 2332 1111111123467999999999999999999997334333
Q ss_pred ----EEEEEecCC
Q 029736 80 ----TLRFALSGQ 88 (189)
Q Consensus 80 ----~l~v~~~~~ 88 (189)
...|+++-.
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 456666654
No 130
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=95.35 E-value=0.0064 Score=49.51 Aligned_cols=79 Identities=24% Similarity=0.320 Sum_probs=58.2
Q ss_pred CeEEEcCCCCCCcHH-HH--HHHHhcCCCeEEEEEecCCC--CC-CcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEE
Q 029736 9 CNVYIGNLDEKVSER-VL--YDILIQAGRVVDLYIPRDKE--TD-KPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLR 82 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~-~L--~~~F~~~G~i~~~~~~~~~~--~~-~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~ 82 (189)
.-+||-+|+..+..+ .| .+.|.+||.|..+.+..++. .+ ....-++|+|...++|..||...+|. .+.|+.|+
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 457788888766544 44 45799999999998887652 11 11223799999999999999999997 88888876
Q ss_pred EEecCC
Q 029736 83 FALSGQ 88 (189)
Q Consensus 83 v~~~~~ 88 (189)
..+...
T Consensus 157 a~~gtt 162 (327)
T KOG2068|consen 157 ASLGTT 162 (327)
T ss_pred HhhCCC
Confidence 665543
No 131
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=95.23 E-value=0.022 Score=49.81 Aligned_cols=77 Identities=22% Similarity=0.222 Sum_probs=61.2
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhc-CCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCce--eeCCeEEEEE
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQ-AGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIV--TLYNRTLRFA 84 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~-~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~--~~~g~~l~v~ 84 (189)
...|+|.||-.-+|.-+|+.++.+ .|.|... || | +-|..|||.|.+.++|.....+|+|.. .-+.+.|-+.
T Consensus 444 SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~-Wm-D----kIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~ad 517 (718)
T KOG2416|consen 444 SNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF-WM-D----KIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIAD 517 (718)
T ss_pred cceEeeecccccchHHHHHHHHhhccCchHHH-HH-H----HhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEee
Confidence 578999999999999999999995 5566666 32 3 356799999999999999999999961 2355678888
Q ss_pred ecCCCC
Q 029736 85 LSGQDK 90 (189)
Q Consensus 85 ~~~~~~ 90 (189)
|.....
T Consensus 518 f~~~de 523 (718)
T KOG2416|consen 518 FVRADE 523 (718)
T ss_pred ecchhH
Confidence 876543
No 132
>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=94.86 E-value=0.35 Score=33.51 Aligned_cols=66 Identities=14% Similarity=0.119 Sum_probs=48.1
Q ss_pred eEEEcCCCCCCcHHHHHHHHhcCC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCC
Q 029736 10 NVYIGNLDEKVSERVLYDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN 78 (189)
Q Consensus 10 ~l~V~nL~~~~~e~~L~~~F~~~G-~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g 78 (189)
.+.+...|..++.++|..+.+.+- .|..++|++|. ...+-.+++.|.+.+.|..-.+.+||+ .++.
T Consensus 15 ~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk-~Fns 81 (110)
T PF07576_consen 15 LCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGK-PFNS 81 (110)
T ss_pred EEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCC-ccCC
Confidence 344444455555667776666654 66778999873 346678899999999999999999998 6654
No 133
>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=94.73 E-value=0.15 Score=38.62 Aligned_cols=61 Identities=20% Similarity=0.167 Sum_probs=45.2
Q ss_pred cHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcC--CceeeCCeEEEEEecCC
Q 029736 21 SERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFS--GIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 21 ~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~--g~~~~~g~~l~v~~~~~ 88 (189)
..+.|+++|..++.+..+..++. -+-..|.|.+.+.|.+|...|+ +. .+.|..+++-++..
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~~-~~~g~~l~~yf~~~ 70 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDGT-SFNGKRLRVYFGQP 70 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--TS-EETTEE-EEE----
T ss_pred hHHHHHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhccccc-ccCCCceEEEEccc
Confidence 34789999999999888877654 2467899999999999999999 87 99999999988854
No 134
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=94.71 E-value=0.3 Score=35.38 Aligned_cols=70 Identities=11% Similarity=0.084 Sum_probs=51.8
Q ss_pred CCeEEEcCCCCCCcH-HH---HHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEE
Q 029736 8 GCNVYIGNLDEKVSE-RV---LYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e-~~---L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v 83 (189)
-.+|.|.=|..++.. +| +-..++.||+|.++.+. .+.-|.|.|.+...|-+|+.+++.. ..|..+..
T Consensus 86 MsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-------GrqsavVvF~d~~SAC~Av~Af~s~--~pgtm~qC 156 (166)
T PF15023_consen 86 MSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-------GRQSAVVVFKDITSACKAVSAFQSR--APGTMFQC 156 (166)
T ss_pred ceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-------CCceEEEEehhhHHHHHHHHhhcCC--CCCceEEe
Confidence 456777766655532 34 44556789999999763 3357999999999999999998875 66777777
Q ss_pred Eec
Q 029736 84 ALS 86 (189)
Q Consensus 84 ~~~ 86 (189)
.|-
T Consensus 157 sWq 159 (166)
T PF15023_consen 157 SWQ 159 (166)
T ss_pred ecc
Confidence 764
No 135
>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=94.61 E-value=0.31 Score=31.07 Aligned_cols=67 Identities=16% Similarity=0.350 Sum_probs=39.0
Q ss_pred eEEEc-CCCCCCcHHHHHHHHhcCC-----CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEE
Q 029736 10 NVYIG-NLDEKVSERVLYDILIQAG-----RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (189)
Q Consensus 10 ~l~V~-nL~~~~~e~~L~~~F~~~G-----~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v 83 (189)
++||. +--..++..+|..++...+ .|-.+.+.. .|+||+-.. +.|..+++.|++. .+.|+.++|
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 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------NFSFVEVPE-EVAEKVLEALNGK-KIKGKKVRV 71 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------S-EEEEE-T-T-HHHHHHHHTT---SSS----E
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEee--------eEEEEEECH-HHHHHHHHHhcCC-CCCCeeEEE
Confidence 34553 2235678889999888765 344566644 489998875 5889999999998 999999999
Q ss_pred Eec
Q 029736 84 ALS 86 (189)
Q Consensus 84 ~~~ 86 (189)
+.+
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 136
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=93.45 E-value=0.057 Score=49.12 Aligned_cols=74 Identities=20% Similarity=0.238 Sum_probs=61.5
Q ss_pred eEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCc-eeeCCeEEEEEecCC
Q 029736 10 NVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI-VTLYNRTLRFALSGQ 88 (189)
Q Consensus 10 ~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~-~~~~g~~l~v~~~~~ 88 (189)
+.++.|.+-..+...|..++.+||.|.+.+.+++- ..|.|+|...+.|..|+++|+|+ +..-|-+.+|.+++.
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~ 373 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL------NMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKT 373 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhheecccc------cchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccc
Confidence 45566667778888999999999999999887764 58999999999999999999998 345667888888875
Q ss_pred C
Q 029736 89 D 89 (189)
Q Consensus 89 ~ 89 (189)
.
T Consensus 374 ~ 374 (1007)
T KOG4574|consen 374 L 374 (1007)
T ss_pred c
Confidence 3
No 137
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=93.14 E-value=0.068 Score=45.61 Aligned_cols=71 Identities=15% Similarity=0.144 Sum_probs=54.9
Q ss_pred EEEcCCCCCC-cHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCCC
Q 029736 11 VYIGNLDEKV-SERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQD 89 (189)
Q Consensus 11 l~V~nL~~~~-~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~~ 89 (189)
|-+.-.++.+ +-++|...|.+||.|..|++-.. ---|.|+|.+..+|-+|.. ..+. .|++|-|+|.|-...
T Consensus 375 l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~------~~~a~vTF~t~aeag~a~~-s~~a-vlnnr~iKl~whnps 446 (526)
T KOG2135|consen 375 LALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS------SLHAVVTFKTRAEAGEAYA-SHGA-VLNNRFIKLFWHNPS 446 (526)
T ss_pred hhhhccCCCCchHhhhhhhhhhcCccccccccCc------hhhheeeeeccccccchhc-cccc-eecCceeEEEEecCC
Confidence 3333345444 45789999999999999987543 2468999999999977765 6777 899999999998663
No 138
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=92.80 E-value=0.067 Score=43.37 Aligned_cols=77 Identities=18% Similarity=0.121 Sum_probs=62.6
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEE
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFA 84 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~ 84 (189)
..+++|++++.+.+.+.+...++..+|....+.+........++|++.+.|...+.+..|++..... .+.++.+...
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~-~~~~~~~~~d 163 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSK-VLDGNKGEKD 163 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhcc-ccccccccCc
Confidence 3678999999999999999999999998888777766677889999999999999999999865444 4555544433
No 139
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=92.53 E-value=0.17 Score=44.19 Aligned_cols=69 Identities=17% Similarity=0.265 Sum_probs=53.9
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhc--CCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCce-eeCCeEEEEE
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQ--AGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIV-TLYNRTLRFA 84 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~--~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~-~~~g~~l~v~ 84 (189)
|.|++.-||..+-+++++.||.. +-++.+|.+-.+ .-=||+|++..+|+.|.+.|...+ +|.|+.|..+
T Consensus 176 cIvilREIpettp~e~Vk~lf~~encPk~iscefa~N-------~nWyITfesd~DAQqAykylreevk~fqgKpImAR 247 (684)
T KOG2591|consen 176 CIVILREIPETTPIEVVKALFKGENCPKVISCEFAHN-------DNWYITFESDTDAQQAYKYLREEVKTFQGKPIMAR 247 (684)
T ss_pred eEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeec-------CceEEEeecchhHHHHHHHHHHHHHhhcCcchhhh
Confidence 56788899999999999999975 678888887544 235899999999999988776432 5777766443
No 140
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=92.41 E-value=0.075 Score=47.04 Aligned_cols=69 Identities=22% Similarity=0.286 Sum_probs=59.5
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
.-++||+|+...+..+-++.++..+|.|.++..+. |||..|........|+..+.-. .++|..+.+...
T Consensus 40 ~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~-~~~~~kl~~~~d 108 (668)
T KOG2253|consen 40 RDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTEL-NIDDQKLIENVD 108 (668)
T ss_pred CceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhccc-CCCcchhhccch
Confidence 56899999999999999999999999998775532 9999999999999999988886 888887766543
No 141
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=92.28 E-value=0.3 Score=42.48 Aligned_cols=83 Identities=20% Similarity=0.267 Sum_probs=58.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhc-CCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCce--eeCC-eEEEE
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQ-AGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIV--TLYN-RTLRF 83 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~-~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~--~~~g-~~l~v 83 (189)
.+++-|.|++...|...|.+.-++ .|.-..+.++.|=.+....|||||.|.+++.+..+.+++||+. .|++ +.+.+
T Consensus 388 rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~i 467 (549)
T KOG4660|consen 388 RTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASI 467 (549)
T ss_pred hhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeee
Confidence 455566666655555554444332 5666778888887777888999999999999999999999981 2333 35667
Q ss_pred EecCCCC
Q 029736 84 ALSGQDK 90 (189)
Q Consensus 84 ~~~~~~~ 90 (189)
.|++-+.
T Consensus 468 tYArIQG 474 (549)
T KOG4660|consen 468 TYARIQG 474 (549)
T ss_pred ehhhhhc
Confidence 7776543
No 142
>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=91.49 E-value=1.9 Score=26.95 Aligned_cols=55 Identities=11% Similarity=0.218 Sum_probs=41.8
Q ss_pred CCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEE
Q 029736 19 KVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRF 83 (189)
Q Consensus 19 ~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v 83 (189)
.++-++++..|.+|+- ..|. .|+ .| =||.|.+..+|+++....++. .+.+..|.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~I~--~d~-----tG-fYIvF~~~~Ea~rC~~~~~~~-~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DRIR--DDR-----TG-FYIVFNDSKEAERCFRAEDGT-LFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-ceEE--ecC-----CE-EEEEECChHHHHHHHHhcCCC-EEEEEEEEe
Confidence 4677899999999984 3333 332 13 379999999999999999998 777766654
No 143
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=89.87 E-value=0.91 Score=36.86 Aligned_cols=66 Identities=15% Similarity=0.245 Sum_probs=47.4
Q ss_pred EEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeE-EEEEe
Q 029736 11 VYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRT-LRFAL 85 (189)
Q Consensus 11 l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~-l~v~~ 85 (189)
|-|-++++.- ...|..+|++||.|+..... ..-.+-.|.|.+..+|++||. .||+ .|+|.. |-|..
T Consensus 200 VTVfGFppg~-~s~vL~~F~~cG~Vvkhv~~------~ngNwMhirYssr~~A~KALs-kng~-ii~g~vmiGVkp 266 (350)
T KOG4285|consen 200 VTVFGFPPGQ-VSIVLNLFSRCGEVVKHVTP------SNGNWMHIRYSSRTHAQKALS-KNGT-IIDGDVMIGVKP 266 (350)
T ss_pred EEEeccCccc-hhHHHHHHHhhCeeeeeecC------CCCceEEEEecchhHHHHhhh-hcCe-eeccceEEeeee
Confidence 3344666543 35677899999999876442 334689999999999999998 6887 677764 34554
No 144
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=89.82 E-value=0.11 Score=42.37 Aligned_cols=64 Identities=16% Similarity=0.211 Sum_probs=40.8
Q ss_pred CCCCCCcccCCCCCC-CCCC--C-CCCCCCCCCC-----CCCCCCccccCCCCccccCCCcccccc-ccccCcccCCcc
Q 029736 107 SRSDPVPVPVNGMEI-SHHS--M-RISGTRHYSS-----EEPPPPGVTHESNGYETHLNVTNYDYS-RRVFGATLDSIS 175 (189)
Q Consensus 107 ~~~~~~~~~~~~~p~-~~~~--~-~~~~~~~~~~-----~~~~~~~~~~~~~Gy~~~~~~~~~~~a-~~~~g~~~~~~~ 175 (189)
....+-+++|+++|. +.++ . .+.....+.. -..|+-| +|||.+.+-+++|+| .+|||+.+....
T Consensus 92 s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKG-----FGFVTmen~~dadRARa~LHgt~VEGRk 165 (376)
T KOG0125|consen 92 SKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKG-----FGFVTMENPADADRARAELHGTVVEGRK 165 (376)
T ss_pred CCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCc-----cceEEecChhhHHHHHHHhhcceeeceE
Confidence 333448999999999 3333 0 1111111111 1222222 899999999999999 899999998544
No 145
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=89.12 E-value=1.1 Score=36.07 Aligned_cols=47 Identities=13% Similarity=0.183 Sum_probs=36.9
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCC-eEEEEEecCCCCCCcceEEEEEeCCH
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGR-VVDLYIPRDKETDKPKGFAFVEYESE 60 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~-i~~~~~~~~~~~~~~kg~afV~f~~~ 60 (189)
.+-|+++||+.++...||+..+.+.+. ..++.| .-+.|-||+.|.+.
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~isw------kg~~~k~flh~~~~ 377 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTPMSISW------KGHFGKCFLHFGNR 377 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCceeEee------ecCCcceeEecCCc
Confidence 456999999999999999999999883 344544 23568899999764
No 146
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=87.77 E-value=2.1 Score=36.64 Aligned_cols=68 Identities=15% Similarity=0.171 Sum_probs=57.0
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYN 78 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G-~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g 78 (189)
.+.|+|=.+|..++..||-.|...+- .|..+++++|. --.+=..+|.|.+.++|..-.+.+||. .|+.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~--~pnrymvLIkFr~q~da~~Fy~efNGk-~Fn~ 142 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDG--MPNRYMVLIKFRDQADADTFYEEFNGK-QFNS 142 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecC--CCceEEEEEEeccchhHHHHHHHcCCC-cCCC
Confidence 67889999999999999999998764 78889999963 223446789999999999999999998 7654
No 147
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=84.41 E-value=0.11 Score=43.78 Aligned_cols=75 Identities=25% Similarity=0.288 Sum_probs=61.8
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEE-ecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYI-PRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~-~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
.+++-+.|+|+...++.|..++.+||.+..|.. .+|..+ ..--|+|...+.+..||..|+|. .+....+++.+-
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 467889999999999999999999999998854 333322 23347889999999999999998 999999998875
Q ss_pred C
Q 029736 87 G 87 (189)
Q Consensus 87 ~ 87 (189)
.
T Consensus 155 P 155 (584)
T KOG2193|consen 155 P 155 (584)
T ss_pred c
Confidence 4
No 148
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=83.86 E-value=0.47 Score=37.58 Aligned_cols=148 Identities=12% Similarity=0.087 Sum_probs=87.9
Q ss_pred eEEEcCCCCCCcHHH-H--HHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 10 NVYIGNLDEKVSERV-L--YDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 10 ~l~V~nL~~~~~e~~-L--~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
..+++++-..+..+- | ...|+.+-.+...++++++ -+..++++|+.|.......++-..-+++ .+.-+.+++...
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 455666655554443 3 6667777777777777774 5777899999998877777776666666 555555554432
Q ss_pred CCCCCCCCCCCCcCCCCCCCCCCCC-CcccCCCCCC---CCCCC----CCCCCCCCCCCCCCCCccccC--CCCccccCC
Q 029736 87 GQDKNTQNSSMTTTPLSSRKSRSDP-VPVPVNGMEI---SHHSM----RISGTRHYSSEEPPPPGVTHE--SNGYETHLN 156 (189)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~p~---~~~~~----~~~~~~~~~~~~~~~~~~~~~--~~Gy~~~~~ 156 (189)
. +|-.++....+.. ++++.+.+.+ -+.+. +++... - ..+.....+.. -+|||+|.+
T Consensus 176 t-----------swedPsl~ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~-~--akviRdkRTgKSkgygfVSf~~ 241 (290)
T KOG0226|consen 176 T-----------SWEDPSLAEWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQ-K--AKVIRDKRTGKSKGYGFVSFRD 241 (290)
T ss_pred c-----------ccCCcccccCccccceeecccccccccHHHHHHHHHhccchh-h--ccccccccccccccceeeeecC
Confidence 2 2223333334444 7777777765 11111 111100 0 01111112222 289999999
Q ss_pred Ccccccc-ccccCcccCC
Q 029736 157 VTNYDYS-RRVFGATLDS 173 (189)
Q Consensus 157 ~~~~~~a-~~~~g~~~~~ 173 (189)
-.++-.| +.++|.-+++
T Consensus 242 pad~~rAmrem~gkyVgs 259 (290)
T KOG0226|consen 242 PADYVRAMREMNGKYVGS 259 (290)
T ss_pred HHHHHHHHHhhccccccc
Confidence 9999999 9999998883
No 149
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=81.93 E-value=0.18 Score=42.13 Aligned_cols=74 Identities=9% Similarity=-0.021 Sum_probs=54.7
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
++++|++|+..+...++.++|..+|.|...+|- .+...-+|-++|........|+. ++|. ++.-+..+....++
T Consensus 152 Rt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a----sk~~s~~c~~sf~~qts~~halr-~~gr-e~k~qhsr~ai~kP 225 (479)
T KOG4676|consen 152 RTREVQSLISAAILPESGESFERKGEVSYAHTA----SKSRSSSCSHSFRKQTSSKHALR-SHGR-ERKRQHSRRAIIKP 225 (479)
T ss_pred hhhhhhcchhhhcchhhhhhhhhcchhhhhhhh----ccCCCcchhhhHhhhhhHHHHHH-hcch-hhhhhhhhhhhcCc
Confidence 679999999999999999999999998887763 33444567799998888888887 4554 55433344433333
No 150
>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=81.24 E-value=5.2 Score=25.10 Aligned_cols=62 Identities=19% Similarity=0.243 Sum_probs=45.7
Q ss_pred HHHHHHHhcCC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 23 RVLYDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 23 ~~L~~~F~~~G-~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
++|.+-|...| .|..+.-+..+.++.+-..-||+.....+...+ ++=. .+++..++|+....
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 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKEI---YKIK-TLCGQRVKVERPRK 64 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccce---eehH-hhCCeEEEEecCCC
Confidence 46777888888 788888888777778888889998876553443 4445 68888999987543
No 151
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=79.13 E-value=5.2 Score=25.20 Aligned_cols=61 Identities=15% Similarity=0.117 Sum_probs=45.0
Q ss_pred HHHHHHHhcCC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 23 RVLYDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 23 ~~L~~~F~~~G-~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
++|++-|.+.| .+..+.-+..+.++.+-..-||+.....+... .|+=+ .|+++++.|+...
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik-~Lg~~~V~VEr~~ 63 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIK-TLGGQRVTVERPH 63 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeeh-hhCCeeEEEecCc
Confidence 46788888888 78888888887777777888888876544333 34445 7889998888643
No 152
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.26 E-value=24 Score=31.44 Aligned_cols=78 Identities=19% Similarity=0.217 Sum_probs=58.3
Q ss_pred CCeEEEcCCCCC-CcHHHHHHHHhcC----CCeEEEEEecCC----------CCCC------------------------
Q 029736 8 GCNVYIGNLDEK-VSERVLYDILIQA----GRVVDLYIPRDK----------ETDK------------------------ 48 (189)
Q Consensus 8 ~~~l~V~nL~~~-~~e~~L~~~F~~~----G~i~~~~~~~~~----------~~~~------------------------ 48 (189)
+++|-|-||.|. +...+|..+|..| |.|.+|.|.... ..|.
T Consensus 174 T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~~~ 253 (650)
T KOG2318|consen 174 TKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEEDV 253 (650)
T ss_pred cceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhhhH
Confidence 788999999986 6778999998876 688888765321 1111
Q ss_pred -------------cceEEEEEeCCHHHHHHHHHHcCCceeeCCeE--EEEEec
Q 029736 49 -------------PKGFAFVEYESEEIADYAIKLFSGIVTLYNRT--LRFALS 86 (189)
Q Consensus 49 -------------~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~--l~v~~~ 86 (189)
.-=||.|+|.+.+.|....+.+.|. ++.... |-+++.
T Consensus 254 ~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~-EfEsS~~~~DLRFI 305 (650)
T KOG2318|consen 254 DREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGI-EFESSANKLDLRFI 305 (650)
T ss_pred HHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcc-eeccccceeeeeec
Confidence 0127899999999999999999997 887664 444444
No 153
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.75 E-value=11 Score=31.93 Aligned_cols=55 Identities=16% Similarity=0.115 Sum_probs=45.7
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHH
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKL 69 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G-~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~ 69 (189)
...|=|-++|.....+||...|+.|+ .--.|+|+-| -.+|..|.+...|..||-.
T Consensus 391 pHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDd-------thalaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 391 PHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDD-------THALAVFSSVNRAAEALTL 446 (528)
T ss_pred cceeEeccCchhhccHHHHHHHHHhhcCCceeEEeec-------ceeEEeecchHHHHHHhhc
Confidence 35677889999998999999999987 4455788777 3899999999999999874
No 154
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=72.12 E-value=0.77 Score=35.69 Aligned_cols=65 Identities=34% Similarity=0.691 Sum_probs=55.7
Q ss_pred CCeEEEcC----CCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCc
Q 029736 8 GCNVYIGN----LDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (189)
Q Consensus 8 ~~~l~V~n----L~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~ 73 (189)
..+++.|+ |...++++.+...|+.-|.+..+++.++. .++.+.++|+.+........++....+.
T Consensus 80 q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~qr~~~~P~~~~~y~~l 148 (267)
T KOG4454|consen 80 QRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTYQRLCAVPFALDLYQGL 148 (267)
T ss_pred hcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchhhhhhhcCcHHhhhhccc
Confidence 46788888 88899999999999999999999999885 4889999999998888888888766664
No 155
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=71.20 E-value=8 Score=29.19 Aligned_cols=75 Identities=11% Similarity=0.132 Sum_probs=54.3
Q ss_pred CCeEEEcCCCCCCcH-----HHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCe-EE
Q 029736 8 GCNVYIGNLDEKVSE-----RVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNR-TL 81 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e-----~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~-~l 81 (189)
..++++.+++..+.. ...+.+|.+|.+....++++. .+.--|.|.+++.|..|...+++. .|.|+ .+
T Consensus 10 p~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrs------frrvRi~f~~p~~a~~a~i~~~~~-~f~~~~~~ 82 (193)
T KOG4019|consen 10 PTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRS------FRRVRINFSNPEAAADARIKLHST-SFNGKNEL 82 (193)
T ss_pred cceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHh------hceeEEeccChhHHHHHHHHhhhc-ccCCCceE
Confidence 355777787755432 344667777777766666653 356668999999999999999998 99998 77
Q ss_pred EEEecCCC
Q 029736 82 RFALSGQD 89 (189)
Q Consensus 82 ~v~~~~~~ 89 (189)
+.=++...
T Consensus 83 k~yfaQ~~ 90 (193)
T KOG4019|consen 83 KLYFAQPG 90 (193)
T ss_pred EEEEccCC
Confidence 76666543
No 156
>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=67.59 E-value=12 Score=30.37 Aligned_cols=81 Identities=14% Similarity=0.256 Sum_probs=55.4
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCC-------CCCCcceEEEEEeCCHHHHHHHH----HHcCCc-ee
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDK-------ETDKPKGFAFVEYESEEIADYAI----KLFSGI-VT 75 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~-------~~~~~kg~afV~f~~~~~a~~al----~~l~g~-~~ 75 (189)
+|.|...|+..+++--.+..-|.+||+|+++.++.+. ...+......+.|-+.+.|..-. +.|... -.
T Consensus 15 TRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~~ 94 (309)
T PF10567_consen 15 TRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKTK 94 (309)
T ss_pred eHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHHh
Confidence 4667788999888877778888999999999998764 12233467788998888765542 222211 03
Q ss_pred eCCeEEEEEecCC
Q 029736 76 LYNRTLRFALSGQ 88 (189)
Q Consensus 76 ~~g~~l~v~~~~~ 88 (189)
+....|.+.+..-
T Consensus 95 L~S~~L~lsFV~l 107 (309)
T PF10567_consen 95 LKSESLTLSFVSL 107 (309)
T ss_pred cCCcceeEEEEEE
Confidence 5666777776653
No 157
>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=64.29 E-value=13 Score=24.63 Aligned_cols=34 Identities=26% Similarity=0.336 Sum_probs=27.3
Q ss_pred EEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 53 AFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 53 afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
|+|+|.+..-|+..++.-...+.+++..+.|...
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 6899999999999998655557788887777654
No 158
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=57.43 E-value=15 Score=28.01 Aligned_cols=59 Identities=32% Similarity=0.446 Sum_probs=41.2
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHH
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYA 66 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~a 66 (189)
...+++++++..++..++...|..+|.+....+.............++.+.....+...
T Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 283 (306)
T COG0724 225 SDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALES 283 (306)
T ss_pred cceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhh
Confidence 67899999999999999999999999997777665543333444444444433333333
No 159
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=56.50 E-value=28 Score=21.41 Aligned_cols=18 Identities=22% Similarity=0.451 Sum_probs=15.4
Q ss_pred HHHHHHHhcCCCeEEEEE
Q 029736 23 RVLYDILIQAGRVVDLYI 40 (189)
Q Consensus 23 ~~L~~~F~~~G~i~~~~~ 40 (189)
++||++|+..|.|.-+.+
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 689999999999977655
No 160
>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=53.64 E-value=7 Score=25.90 Aligned_cols=23 Identities=26% Similarity=0.335 Sum_probs=19.7
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHH
Q 029736 7 SGCNVYIGNLDEKVSERVLYDIL 29 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F 29 (189)
+.++|-|.|||..+.+++|++.+
T Consensus 51 s~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 51 SKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred cCCEEEEeCCCCCCChhhheeeE
Confidence 36889999999999999998654
No 161
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.55 E-value=2.4 Score=36.32 Aligned_cols=79 Identities=8% Similarity=-0.163 Sum_probs=57.7
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEecCC
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTLRFALSGQ 88 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~~~ 88 (189)
.+.|+..++...+++++.-+|+.||.|.-+.+-+--..+..+-.+|+.-.+ ..++.++.-+.-. .+.|..++++.+..
T Consensus 4 ~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~q-~~~~~~~r~~~~~~ 81 (572)
T KOG4365|consen 4 MKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKRQ-TTFESQDRKAVSPS 81 (572)
T ss_pred hhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccCHHHHh-hhhhhhhhhhcCch
Confidence 456778899999999999999999988877665544455566778887654 4556666555555 67788888877764
Q ss_pred C
Q 029736 89 D 89 (189)
Q Consensus 89 ~ 89 (189)
.
T Consensus 82 s 82 (572)
T KOG4365|consen 82 S 82 (572)
T ss_pred h
Confidence 3
No 162
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=53.14 E-value=15 Score=29.71 Aligned_cols=34 Identities=21% Similarity=0.236 Sum_probs=26.7
Q ss_pred CCeEEEcCCCCC------------CcHHHHHHHHhcCCCeEEEEEe
Q 029736 8 GCNVYIGNLDEK------------VSERVLYDILIQAGRVVDLYIP 41 (189)
Q Consensus 8 ~~~l~V~nL~~~------------~~e~~L~~~F~~~G~i~~~~~~ 41 (189)
..+||+.+||-. -+++.|+..|+.||.|..+.|+
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 457888888732 3567899999999999988764
No 163
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=51.16 E-value=68 Score=21.01 Aligned_cols=57 Identities=14% Similarity=0.038 Sum_probs=41.4
Q ss_pred eEEEcCCCCCCcHHHHHHHHhc-CC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHH
Q 029736 10 NVYIGNLDEKVSERVLYDILIQ-AG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKL 69 (189)
Q Consensus 10 ~l~V~nL~~~~~e~~L~~~F~~-~G-~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~ 69 (189)
.-|+--.+..++..++++.+++ || .|.+|..+.-+ ...-=|+|.+...+.|......
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~---~~~KKA~V~L~~g~~A~~va~k 80 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP---KGEKKAYVKLAEEYDAEEIASR 80 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCcEEEEEEeCCCCcHHHHHHh
Confidence 3455567889999999999987 67 66777655443 2234699999988888877554
No 164
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=50.55 E-value=6.3 Score=29.68 Aligned_cols=25 Identities=8% Similarity=0.072 Sum_probs=23.4
Q ss_pred CCccccCCCcccccc-ccccCcccCC
Q 029736 149 NGYETHLNVTNYDYS-RRVFGATLDS 173 (189)
Q Consensus 149 ~Gy~~~~~~~~~~~a-~~~~g~~~~~ 173 (189)
+.||+|....+++.| +.|+|.+|-.
T Consensus 49 fAFVEFed~RDA~DAvr~LDG~~~cG 74 (195)
T KOG0107|consen 49 FAFVEFEDPRDAEDAVRYLDGKDICG 74 (195)
T ss_pred ceEEeccCcccHHHHHhhcCCccccC
Confidence 899999999999999 9999999873
No 165
>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=46.84 E-value=29 Score=24.14 Aligned_cols=56 Identities=23% Similarity=0.207 Sum_probs=29.2
Q ss_pred eEEEcCCCCC---------CcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCC-HHHHHHHHH
Q 029736 10 NVYIGNLDEK---------VSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYES-EEIADYAIK 68 (189)
Q Consensus 10 ~l~V~nL~~~---------~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~-~~~a~~al~ 68 (189)
++.|-|++.. .+.++|++.|..|..+. ++.+.++ .-++|+++|.|.. -.--..|+.
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 4566677533 34578999999998765 4444543 2567999999974 444445544
No 166
>PF14893 PNMA: PNMA
Probab=42.88 E-value=21 Score=29.70 Aligned_cols=29 Identities=14% Similarity=0.149 Sum_probs=24.7
Q ss_pred CCCCCCCCCeEEEcCCCCCCcHHHHHHHHhc
Q 029736 1 MSGNSNSGCNVYIGNLDEKVSERVLYDILIQ 31 (189)
Q Consensus 1 m~~~~~~~~~l~V~nL~~~~~e~~L~~~F~~ 31 (189)
|..|+ .+.|.|.+||.++++++|++.+..
T Consensus 13 m~~~~--~r~lLv~giP~dc~~~ei~e~l~~ 41 (331)
T PF14893_consen 13 MGVDP--QRALLVLGIPEDCEEAEIEEALQA 41 (331)
T ss_pred cCcCh--hhhheeecCCCCCCHHHHHHHHHH
Confidence 56677 889999999999999998887654
No 167
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=41.43 E-value=5.9 Score=23.82 Aligned_cols=38 Identities=21% Similarity=0.303 Sum_probs=21.4
Q ss_pred CcceEEEEEeCC-HHHHHHHHHHcCCceeeCCeEEEEEecC
Q 029736 48 KPKGFAFVEYES-EEIADYAIKLFSGIVTLYNRTLRFALSG 87 (189)
Q Consensus 48 ~~kg~afV~f~~-~~~a~~al~~l~g~~~~~g~~l~v~~~~ 87 (189)
.++|||||...+ .++.--.-..|++. ++|-.+.|....
T Consensus 6 ~~~GfGFv~~~~~~~DifIp~~~l~~A--~~gD~V~v~i~~ 44 (58)
T PF08206_consen 6 HPKGFGFVIPDDGGEDIFIPPRNLNGA--MDGDKVLVRITP 44 (58)
T ss_dssp -SSS-EEEEECT-TEEEEE-HHHHTTS---TT-EEEEEEEE
T ss_pred EcCCCEEEEECCCCCCEEECHHHHCCC--CCCCEEEEEEec
Confidence 357999999887 22333334557765 777777776654
No 168
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=40.62 E-value=98 Score=19.86 Aligned_cols=57 Identities=14% Similarity=0.053 Sum_probs=40.8
Q ss_pred eEEEcCCCCCCcHHHHHHHHhc-CC-CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHH
Q 029736 10 NVYIGNLDEKVSERVLYDILIQ-AG-RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKL 69 (189)
Q Consensus 10 ~l~V~nL~~~~~e~~L~~~F~~-~G-~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~ 69 (189)
+-|+-.++...+..+++..+++ || .|..+..+.-+ ...-=|||.+...+.|.+.-..
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~---~~~KKA~VtL~~g~~a~~va~k 73 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITP---RGEKKAYVKLAEEYAAEEIASR 73 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCceEEEEEECCCCcHHHHHHh
Confidence 4566678899999999999987 66 56666554433 1234689999888877776543
No 169
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=39.07 E-value=3.9 Score=36.04 Aligned_cols=68 Identities=12% Similarity=0.155 Sum_probs=49.6
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceee
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTL 76 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~ 76 (189)
.+++|+.|+++.++-++|..+...+-....+.+-.+....+-..++.|.|.---....|+.+||+. .+
T Consensus 231 e~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~i-rl 298 (648)
T KOG2295|consen 231 ECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGI-RL 298 (648)
T ss_pred HHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhc-cc
Confidence 467899999999999999999998765655555433223344567778888766777777777775 44
No 170
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=36.13 E-value=1.1e+02 Score=20.15 Aligned_cols=48 Identities=25% Similarity=0.407 Sum_probs=30.7
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYE 58 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~ 58 (189)
..-||||+++..+.|.-...+.+..+.-.-+-+..+ ....||+|-...
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~---~neqG~~~~t~G 72 (86)
T PF09707_consen 25 RPGVYVGNVSARVRERLWERVTEWIGDGSAVMVWSD---NNEQGFDFRTLG 72 (86)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEcc---CCCCCEEEEEeC
Confidence 346999999988887766666665444333333333 226689988774
No 171
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=31.77 E-value=12 Score=28.95 Aligned_cols=24 Identities=17% Similarity=0.191 Sum_probs=22.0
Q ss_pred CCccccCCCcccccc-ccccCcccC
Q 029736 149 NGYETHLNVTNYDYS-RRVFGATLD 172 (189)
Q Consensus 149 ~Gy~~~~~~~~~~~a-~~~~g~~~~ 172 (189)
++||.|+...+++.| ..|+|..|+
T Consensus 57 FaFVrf~~k~daedA~damDG~~ld 81 (256)
T KOG4207|consen 57 FAFVRFHDKRDAEDALDAMDGAVLD 81 (256)
T ss_pred eeEEEeeecchHHHHHHhhcceeec
Confidence 789999999999999 888888887
No 172
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=31.40 E-value=42 Score=26.53 Aligned_cols=32 Identities=22% Similarity=0.240 Sum_probs=27.3
Q ss_pred CCCeEEEcCCCCCCcHHHHHHHHhcCCCeEEE
Q 029736 7 SGCNVYIGNLDEKVSERVLYDILIQAGRVVDL 38 (189)
Q Consensus 7 ~~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~ 38 (189)
...++|+-|+|...+++.|.++.++.|-+..+
T Consensus 39 eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 39 EKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred cccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 36789999999999999999999999855443
No 173
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=31.38 E-value=22 Score=30.20 Aligned_cols=60 Identities=17% Similarity=0.087 Sum_probs=46.0
Q ss_pred CeEEEcCCCCCCcH--------HHHHHHHhc--CCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHH
Q 029736 9 CNVYIGNLDEKVSE--------RVLYDILIQ--AGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIK 68 (189)
Q Consensus 9 ~~l~V~nL~~~~~e--------~~L~~~F~~--~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~ 68 (189)
+.+|+.+....... +++...|.. .+.+..+..-++......+|--|++|.....|++.+.
T Consensus 175 r~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 175 RDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 45666666644433 488999988 6777778887776577888999999999999999863
No 174
>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=30.77 E-value=43 Score=18.22 Aligned_cols=16 Identities=13% Similarity=0.156 Sum_probs=10.3
Q ss_pred CCCcHHHHHHHHhcCC
Q 029736 18 EKVSERVLYDILIQAG 33 (189)
Q Consensus 18 ~~~~e~~L~~~F~~~G 33 (189)
.++++++|++.|.+.+
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 4678999999998754
No 175
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=30.74 E-value=81 Score=23.94 Aligned_cols=49 Identities=18% Similarity=0.188 Sum_probs=33.0
Q ss_pred CcHHHHHHHHh-cCCCeEEEEEecCCCCC--CcceEEEEEeCCHHHHHHHHHH
Q 029736 20 VSERVLYDILI-QAGRVVDLYIPRDKETD--KPKGFAFVEYESEEIADYAIKL 69 (189)
Q Consensus 20 ~~e~~L~~~F~-~~G~i~~~~~~~~~~~~--~~kg~afV~f~~~~~a~~al~~ 69 (189)
.++++|..+.. .-|.+..+.+-+.. .+ ..+|--||+|.+.+.|.+.++.
T Consensus 118 ~td~ql~~l~qw~~~k~~nv~mr~~~-~k~~~fkGsvkv~f~tk~qa~a~~~~ 169 (205)
T KOG4213|consen 118 ITDDQLDDLNQWASGKGHNVKMRRHG-NKAHPFKGSVKVTFQTKEQAFANDDT 169 (205)
T ss_pred CCHHHHHHHHHHhcccceEeeccccC-CCCCCCCCceEEEeecHHHHHhhhhh
Confidence 44454444432 22788888765442 23 5678899999999999998764
No 176
>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=29.44 E-value=68 Score=26.09 Aligned_cols=31 Identities=26% Similarity=0.395 Sum_probs=22.5
Q ss_pred EEEEeCCHHHHHHHHHHcCCceeeCCeEEEEEec
Q 029736 53 AFVEYESEEIADYAIKLFSGIVTLYNRTLRFALS 86 (189)
Q Consensus 53 afV~f~~~~~a~~al~~l~g~~~~~g~~l~v~~~ 86 (189)
|||+|.+..+|+.|++.+... ..+.+++..+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~---~~~~~~v~~A 31 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSK---RPNSWRVSPA 31 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcC---CCCCceEeeC
Confidence 799999999999999965443 2344455544
No 177
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=27.81 E-value=1.4e+02 Score=20.13 Aligned_cols=49 Identities=16% Similarity=0.404 Sum_probs=29.2
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYES 59 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~ 59 (189)
..-||||+++..+.+.--..+-+.++.- ++.++.. .+ .-.||+|-++..
T Consensus 27 ~~GVyVg~~S~rVRd~lW~~v~~~~~~G-~avmv~~-~~-~eqG~~~~t~G~ 75 (97)
T PRK11558 27 RAGVYVGDVSRRIREMIWQQVTQLAEEG-NVVMAWA-TN-TESGFEFQTFGE 75 (97)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCCC-cEEEEEc-CC-CCCCcEEEecCC
Confidence 3469999999888765544444444432 2333332 22 333999988765
No 178
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=25.96 E-value=97 Score=26.24 Aligned_cols=73 Identities=18% Similarity=0.296 Sum_probs=48.1
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEE-EEEecCCCC--CCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeE
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVD-LYIPRDKET--DKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRT 80 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~-~~~~~~~~~--~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~ 80 (189)
-+++.|.+||+..++.+|.+-...+-.-.. ..+.....+ ..-.+.++|.|...++...-...++|.+.|+.+.
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 577889999999999988877666532211 122111000 0114678999999999888888888875555444
No 179
>PF15063 TC1: Thyroid cancer protein 1
Probab=25.08 E-value=50 Score=21.22 Aligned_cols=27 Identities=19% Similarity=0.146 Sum_probs=22.1
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCe
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRV 35 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i 35 (189)
++--+.||=.+++...|+.+|..-|..
T Consensus 26 RKkasaNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 26 RKKASANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred hhhhhhhhhhccCHHHHHHHHHHccch
Confidence 344567888899999999999999964
No 180
>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []. They contribute predominantly to macromolecular synthesis. ATP-hydrolysis is used to activate a substrate. For example, DD-ligase transfers phosphate from ATP to D-alanine on the first step of catalysis. On the second step the resulting acylphosphate is attacked by a second D-alanine to produce a DD dipeptide following phosphate elimination []. The ATP-grasp domain contains three conserved motifs, corresponding to the phosphate binding loop and the Mg(2+) binding site []. The fold is characterised by two alpha-beta subdomains that grasp the ATP molecule between them. Each subdomain provides a variable loop that forms a part of the active site, completed by region of other domains not conserved between the various ATP-grasp enzymes []. The ATP-grasp domain represented by this entry is found primarily in succinyl-CoA synthetases (6.2.1.5 from EC).; PDB: 3PFF_A 3MWD_A 3MWE_A 1CQI_E 1SCU_B 2NU9_G 2NU6_E 1CQJ_E 2NU7_B 1JLL_E ....
Probab=24.02 E-value=2e+02 Score=22.02 Aligned_cols=54 Identities=24% Similarity=0.086 Sum_probs=34.2
Q ss_pred CcHHHHHHHHhcCCC---eEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeC
Q 029736 20 VSERVLYDILIQAGR---VVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLY 77 (189)
Q Consensus 20 ~~e~~L~~~F~~~G~---i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~ 77 (189)
.+.+++++.....|. |...++.. .|+.|+-+...-.+.++|..+.+.|-|. .+.
T Consensus 25 ~s~eea~~~~~~l~~~~~VvKaQvl~---GgRGK~GgVk~~~s~~ea~~~a~~mlg~-~l~ 81 (202)
T PF08442_consen 25 TSPEEAREAAKELGGKPLVVKAQVLA---GGRGKAGGVKIAKSPEEAKEAAKEMLGK-TLK 81 (202)
T ss_dssp SSHHHHHHHHHHHTTSSEEEEE-SSS---STTTTTTCEEEESSHHHHHHHHHTTTTS-EEE
T ss_pred CCHHHHHHHHHHhCCCcEEEEEeEee---cCcccCCceeecCCHHHHHHHHHHHhCC-ceE
Confidence 356677777766553 45555543 3555664444456889999998887777 665
No 181
>PHA01632 hypothetical protein
Probab=23.27 E-value=94 Score=18.69 Aligned_cols=20 Identities=25% Similarity=0.341 Sum_probs=16.2
Q ss_pred EEcCCCCCCcHHHHHHHHhc
Q 029736 12 YIGNLDEKVSERVLYDILIQ 31 (189)
Q Consensus 12 ~V~nL~~~~~e~~L~~~F~~ 31 (189)
.|..+|..-||++|+..+.+
T Consensus 20 lieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 20 LIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred ehhhcCCCCCHHHHHHHHHH
Confidence 35588999999999987765
No 182
>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=23.05 E-value=82 Score=16.92 Aligned_cols=17 Identities=24% Similarity=0.073 Sum_probs=14.3
Q ss_pred CCcHHHHHHHHhcCCCe
Q 029736 19 KVSERVLYDILIQAGRV 35 (189)
Q Consensus 19 ~~~e~~L~~~F~~~G~i 35 (189)
.+++++|++.+..+|.+
T Consensus 3 tWs~~~L~~wL~~~gi~ 19 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIP 19 (38)
T ss_pred CCCHHHHHHHHHHcCCC
Confidence 46789999999999954
No 183
>PRK11901 hypothetical protein; Reviewed
Probab=22.51 E-value=1.9e+02 Score=24.05 Aligned_cols=61 Identities=15% Similarity=0.139 Sum_probs=38.8
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHhcCCCeEEEEEecCCCCCCcceEE--EEEeCCHHHHHHHHHHcCCc
Q 029736 8 GCNVYIGNLDEKVSERVLYDILIQAGRVVDLYIPRDKETDKPKGFA--FVEYESEEIADYAIKLFSGI 73 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~a--fV~f~~~~~a~~al~~l~g~ 73 (189)
.-+|-+.. ...++.|+.|..+.+ +..+.+.+....|+.- |. +-.|.+.++|..|+..|-..
T Consensus 245 ~YTLQL~A---as~~~~L~~f~~~~~-L~~~~VYqT~RnGkpW-YVVvyG~Y~Sr~eAk~Ai~sLPa~ 307 (327)
T PRK11901 245 HYTLQLSS---ASRSDTLNAYAKKQN-LSHYHVYETKRDGKPW-YVLVSGNYASSAEAKRAIATLPAE 307 (327)
T ss_pred CeEEEeec---CCCHHHHHHHHHHcC-cCceEEEEEEECCceE-EEEEecCcCCHHHHHHHHHhCCHH
Confidence 34454444 346788999888876 4445554433333332 22 34789999999999988764
No 184
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=22.42 E-value=2.9e+02 Score=19.49 Aligned_cols=46 Identities=26% Similarity=0.333 Sum_probs=27.7
Q ss_pred CCCcHHHHHHHHhc-CCCeEE----EEEecCCCCCCcceEEEEEeCCHHHHH
Q 029736 18 EKVSERVLYDILIQ-AGRVVD----LYIPRDKETDKPKGFAFVEYESEEIAD 64 (189)
Q Consensus 18 ~~~~e~~L~~~F~~-~G~i~~----~~~~~~~~~~~~kg~afV~f~~~~~a~ 64 (189)
..+..++|++-+++ |-.-.+ ..+-..-..|++.|||.| |++.+.|.
T Consensus 33 a~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~ak 83 (132)
T KOG3424|consen 33 ANVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAK 83 (132)
T ss_pred CCCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHH
Confidence 35677888887765 432222 233333457788899977 66655544
No 185
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=22.41 E-value=1.5e+02 Score=16.91 Aligned_cols=27 Identities=11% Similarity=0.016 Sum_probs=21.4
Q ss_pred CeEEEcCCCCCCcHHHHHHHHhcCCCe
Q 029736 9 CNVYIGNLDEKVSERVLYDILIQAGRV 35 (189)
Q Consensus 9 ~~l~V~nL~~~~~e~~L~~~F~~~G~i 35 (189)
..+++.+.......++|.+++..+|.-
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 467777776678889999999999853
No 186
>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=21.87 E-value=1.1e+02 Score=19.64 Aligned_cols=35 Identities=29% Similarity=0.462 Sum_probs=24.1
Q ss_pred CeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCc
Q 029736 34 RVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGI 73 (189)
Q Consensus 34 ~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~ 73 (189)
.|.++.... .-+||-||+=.+.+++..|++.+.+.
T Consensus 33 ~I~Si~~~~-----~lkGyIyVEA~~~~~V~~ai~gi~~i 67 (84)
T PF03439_consen 33 NIYSIFAPD-----SLKGYIYVEAERESDVKEAIRGIRHI 67 (84)
T ss_dssp ---EEEE-T-----TSTSEEEEEESSHHHHHHHHTT-TTE
T ss_pred ceEEEEEeC-----CCceEEEEEeCCHHHHHHHHhcccce
Confidence 455554432 36899999999999999999877664
No 187
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=21.62 E-value=1.1e+02 Score=18.97 Aligned_cols=28 Identities=21% Similarity=0.164 Sum_probs=21.7
Q ss_pred eEEEEEeCCHHHHHHHHHHcCCceeeCCe
Q 029736 51 GFAFVEYESEEIADYAIKLFSGIVTLYNR 79 (189)
Q Consensus 51 g~afV~f~~~~~a~~al~~l~g~~~~~g~ 79 (189)
.+.++.|.+...|.+|-+.|... .+..+
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~-gi~~~ 29 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKN-GIPVR 29 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHC-CCcEE
Confidence 36889999999999998887765 44333
No 188
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=21.61 E-value=1.8e+02 Score=25.55 Aligned_cols=59 Identities=22% Similarity=0.221 Sum_probs=42.2
Q ss_pred EEcCCCCCC---cHHHHHHHHhcCCCeEEEEEecCCCCCCcceEEEEEeCCHHHHHHHHHHcCCceeeCCeEE
Q 029736 12 YIGNLDEKV---SERVLYDILIQAGRVVDLYIPRDKETDKPKGFAFVEYESEEIADYAIKLFSGIVTLYNRTL 81 (189)
Q Consensus 12 ~V~nL~~~~---~e~~L~~~F~~~G~i~~~~~~~~~~~~~~kg~afV~f~~~~~a~~al~~l~g~~~~~g~~l 81 (189)
+||||..-. ....+.++-.+||.|-.+++-. .-.|...+.+.|+.|+.. ++. .+.+|..
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~---------~~~Vviss~~~akE~l~~-~d~-~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGS---------VPVVVISSYEAAKEVLVK-QDL-EFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecC---------ceEEEECCHHHHHHHHHh-CCc-cccCCCC
Confidence 578887433 3456677777899999887722 236888899999999984 555 6777765
No 189
>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=20.79 E-value=1.1e+02 Score=24.30 Aligned_cols=27 Identities=30% Similarity=0.415 Sum_probs=22.2
Q ss_pred CCeEEEcCCCCCCcHHHHHHHHh--cCCC
Q 029736 8 GCNVYIGNLDEKVSERVLYDILI--QAGR 34 (189)
Q Consensus 8 ~~~l~V~nL~~~~~e~~L~~~F~--~~G~ 34 (189)
...++|||||..++..-|..++. .+|.
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~~~~~g~ 125 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLELYRFGR 125 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHHHGGGCE
T ss_pred CceEEEEEecccchHHHHHHHhhcccccc
Confidence 45689999999999999999987 4553
Done!