Query 040106
Match_columns 324
No_of_seqs 338 out of 1611
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 05:12:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040106.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040106hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2202 U2 snRNP splicing fact 100.0 1.6E-63 3.4E-68 460.2 9.6 199 59-257 1-200 (260)
2 TIGR01645 half-pint poly-U bin 99.8 1.7E-18 3.7E-23 179.4 10.5 95 95-209 508-607 (612)
3 KOG0147 Transcriptional coacti 99.7 2.5E-18 5.5E-23 173.0 7.2 92 99-209 441-532 (549)
4 TIGR01622 SF-CC1 splicing fact 99.7 6.2E-17 1.4E-21 160.8 10.4 98 95-210 356-453 (457)
5 KOG1996 mRNA splicing factor [ 99.6 4.9E-16 1.1E-20 147.2 9.8 152 37-209 181-371 (378)
6 TIGR01642 U2AF_lg U2 snRNP aux 99.6 3E-15 6.5E-20 150.6 9.6 96 99-209 407-506 (509)
7 KOG0113 U1 small nuclear ribon 99.6 3.6E-14 7.8E-19 134.8 16.2 162 31-219 12-198 (335)
8 smart00361 RRM_1 RNA recogniti 99.5 1.3E-13 2.7E-18 104.8 9.0 64 137-200 3-70 (70)
9 KOG1548 Transcription elongati 99.5 7.6E-14 1.7E-18 134.7 9.1 90 97-203 261-350 (382)
10 KOG0107 Alternative splicing f 99.5 9.7E-13 2.1E-17 117.3 13.5 61 141-205 25-85 (195)
11 KOG0120 Splicing factor U2AF, 99.5 8.8E-14 1.9E-18 141.0 6.8 77 133-209 416-496 (500)
12 PF13893 RRM_5: RNA recognitio 99.4 1.8E-12 3.9E-17 93.8 8.4 56 143-202 1-56 (56)
13 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.4 2.7E-12 5.9E-17 123.0 11.2 65 141-205 284-349 (352)
14 KOG4207 Predicted splicing fac 99.4 6.9E-12 1.5E-16 114.6 12.3 67 137-203 24-91 (256)
15 PLN03134 glycine-rich RNA-bind 99.3 1.2E-11 2.6E-16 107.2 10.9 79 100-203 33-112 (144)
16 PF00076 RRM_1: RNA recognitio 99.3 5.1E-11 1.1E-15 87.5 9.4 58 141-198 13-70 (70)
17 KOG0124 Polypyrimidine tract-b 99.2 2.9E-11 6.3E-16 117.9 8.3 93 96-208 441-538 (544)
18 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.1 2.1E-10 4.5E-15 110.1 10.6 64 141-204 18-82 (352)
19 smart00362 RRM_2 RNA recogniti 99.1 7.3E-10 1.6E-14 79.6 9.1 58 141-199 14-71 (72)
20 PF14259 RRM_6: RNA recognitio 99.1 7.6E-10 1.7E-14 82.5 9.0 58 141-198 13-70 (70)
21 TIGR01659 sex-lethal sex-letha 99.1 2E-09 4.4E-14 105.6 13.6 147 18-205 126-275 (346)
22 TIGR01659 sex-lethal sex-letha 99.1 7.7E-10 1.7E-14 108.6 10.3 84 95-203 101-185 (346)
23 cd00590 RRM RRM (RNA recogniti 99.0 2.4E-09 5.3E-14 77.3 9.7 61 141-201 14-74 (74)
24 KOG0122 Translation initiation 99.0 2.1E-09 4.6E-14 100.3 11.0 64 141-204 204-268 (270)
25 KOG0114 Predicted RNA-binding 99.0 1.7E-09 3.7E-14 89.7 8.7 84 96-206 13-96 (124)
26 smart00360 RRM RNA recognition 99.0 2.3E-09 5E-14 76.6 8.1 60 141-200 11-71 (71)
27 TIGR01628 PABP-1234 polyadenyl 99.0 2.1E-09 4.5E-14 110.4 10.2 66 141-206 300-365 (562)
28 KOG0127 Nucleolar protein fibr 98.9 1.9E-09 4E-14 109.7 8.5 83 101-208 117-200 (678)
29 TIGR01622 SF-CC1 splicing fact 98.9 4.8E-09 1E-13 104.5 10.3 79 101-204 186-265 (457)
30 PLN03120 nucleic acid binding 98.9 8.4E-09 1.8E-13 97.6 9.9 75 101-203 4-78 (260)
31 TIGR01642 U2AF_lg U2 snRNP aux 98.9 1.4E-08 3E-13 102.4 11.0 64 141-204 310-374 (509)
32 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.8 1.3E-08 2.8E-13 103.5 10.5 60 141-204 291-350 (481)
33 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.8 9.9E-09 2.1E-13 104.3 9.6 75 100-204 1-77 (481)
34 KOG0121 Nuclear cap-binding pr 98.8 7.2E-09 1.6E-13 88.8 6.7 78 100-202 35-113 (153)
35 TIGR01645 half-pint poly-U bin 98.8 3.7E-08 7.9E-13 103.1 13.2 63 141-203 219-282 (612)
36 TIGR01628 PABP-1234 polyadenyl 98.8 1.5E-08 3.1E-13 104.2 10.0 63 141-203 15-78 (562)
37 COG0724 RNA-binding proteins ( 98.8 2.7E-08 5.8E-13 87.5 9.4 63 141-203 130-193 (306)
38 KOG0148 Apoptosis-promoting RN 98.8 7.9E-09 1.7E-13 97.8 6.3 67 140-206 76-143 (321)
39 KOG0130 RNA-binding protein RB 98.8 7.1E-09 1.5E-13 89.6 5.2 66 137-202 83-149 (170)
40 KOG0125 Ataxin 2-binding prote 98.7 2E-08 4.3E-13 97.1 6.8 62 141-203 111-172 (376)
41 TIGR01648 hnRNP-R-Q heterogene 98.7 4.7E-08 1E-12 101.8 10.1 74 100-205 232-307 (578)
42 TIGR01648 hnRNP-R-Q heterogene 98.7 4.7E-08 1E-12 101.8 9.2 82 96-202 53-135 (578)
43 PLN03121 nucleic acid binding 98.7 9.5E-08 2.1E-12 89.5 9.4 75 101-203 5-79 (243)
44 KOG4206 Spliceosomal protein s 98.7 6.7E-08 1.5E-12 89.2 7.9 82 100-204 8-89 (221)
45 KOG0415 Predicted peptidyl pro 98.6 2.1E-07 4.5E-12 91.1 9.8 95 141-235 254-355 (479)
46 KOG0153 Predicted RNA-binding 98.6 1.6E-07 3.6E-12 91.3 9.0 126 74-210 162-306 (377)
47 KOG0126 Predicted RNA-binding 98.6 6.2E-09 1.3E-13 93.8 -1.4 63 140-202 49-112 (219)
48 PLN03213 repressor of silencin 98.5 2.3E-07 4.9E-12 94.0 8.5 61 141-204 25-87 (759)
49 KOG0108 mRNA cleavage and poly 98.5 1.3E-07 2.8E-12 95.5 6.7 71 138-208 30-101 (435)
50 KOG0123 Polyadenylate-binding 98.5 3.1E-07 6.8E-12 91.1 8.9 67 141-209 91-157 (369)
51 KOG0117 Heterogeneous nuclear 98.5 3.4E-07 7.5E-12 91.6 7.3 76 137-218 94-171 (506)
52 KOG0148 Apoptosis-promoting RN 98.4 4.8E-07 1E-11 85.9 7.5 59 141-204 179-237 (321)
53 KOG0117 Heterogeneous nuclear 98.4 6.5E-07 1.4E-11 89.6 8.3 61 137-204 270-330 (506)
54 KOG0127 Nucleolar protein fibr 98.4 6.8E-07 1.5E-11 91.3 8.5 79 99-202 290-375 (678)
55 KOG0145 RNA-binding protein EL 98.4 2.4E-06 5.1E-11 81.0 10.9 85 96-204 35-120 (360)
56 KOG0105 Alternative splicing f 98.4 8.7E-07 1.9E-11 80.4 7.3 80 100-206 5-84 (241)
57 KOG0110 RNA-binding protein (R 98.4 1.5E-06 3.2E-11 91.0 9.2 101 135-241 524-628 (725)
58 KOG0149 Predicted RNA-binding 98.3 4.7E-07 1E-11 84.3 4.9 67 137-204 23-90 (247)
59 KOG0144 RNA-binding protein CU 98.3 7.6E-07 1.7E-11 88.9 6.2 70 138-207 136-208 (510)
60 KOG0123 Polyadenylate-binding 98.3 9.4E-07 2E-11 87.7 6.9 63 140-204 12-74 (369)
61 KOG0109 RNA-binding protein LA 98.3 8.1E-07 1.7E-11 85.1 6.0 97 63-204 53-149 (346)
62 KOG0145 RNA-binding protein EL 98.3 2.7E-06 5.8E-11 80.7 9.2 63 141-203 293-356 (360)
63 KOG4208 Nucleolar RNA-binding 98.2 2.4E-06 5.2E-11 78.3 6.8 67 139-205 62-130 (214)
64 KOG0111 Cyclophilin-type pepti 98.2 1.4E-06 3E-11 80.8 4.2 67 142-208 26-93 (298)
65 KOG0147 Transcriptional coacti 98.2 2.2E-06 4.8E-11 87.6 5.9 70 134-203 286-356 (549)
66 KOG0124 Polypyrimidine tract-b 98.2 1.6E-06 3.4E-11 85.3 4.0 65 137-201 124-189 (544)
67 KOG0110 RNA-binding protein (R 98.1 1.3E-05 2.8E-10 84.0 9.3 122 59-209 573-697 (725)
68 KOG0131 Splicing factor 3b, su 98.0 6.6E-06 1.4E-10 74.4 5.4 63 141-203 24-87 (203)
69 COG5175 MOT2 Transcriptional r 98.0 1.1E-05 2.4E-10 78.8 6.6 87 144-235 138-228 (480)
70 KOG0144 RNA-binding protein CU 97.9 1.6E-05 3.6E-10 79.6 6.8 66 140-205 48-117 (510)
71 KOG4661 Hsp27-ERE-TATA-binding 97.9 2.8E-05 6.1E-10 80.2 8.1 63 141-203 420-483 (940)
72 KOG0109 RNA-binding protein LA 97.9 2.8E-05 6E-10 74.8 6.5 58 141-205 17-74 (346)
73 KOG0131 Splicing factor 3b, su 97.9 2.3E-05 5E-10 70.9 5.4 64 141-204 111-176 (203)
74 KOG0146 RNA-binding protein ET 97.8 3.5E-05 7.5E-10 73.5 6.8 67 140-206 33-102 (371)
75 KOG4660 Protein Mei2, essentia 97.7 2.2E-05 4.7E-10 80.5 3.7 55 141-199 90-144 (549)
76 KOG4212 RNA-binding protein hn 97.7 5.5E-05 1.2E-09 76.1 6.4 74 100-202 535-608 (608)
77 KOG0132 RNA polymerase II C-te 97.7 9E-05 1.9E-09 78.7 7.7 57 141-202 436-492 (894)
78 KOG4212 RNA-binding protein hn 97.6 0.00015 3.3E-09 73.0 7.1 64 140-203 58-122 (608)
79 KOG4454 RNA binding protein (R 97.5 3.6E-05 7.9E-10 71.5 1.9 80 98-203 6-85 (267)
80 KOG2314 Translation initiation 97.5 0.0003 6.4E-09 72.7 8.6 63 137-199 75-138 (698)
81 KOG4209 Splicing factor RNPS1, 97.5 7.7E-05 1.7E-09 69.8 3.7 62 141-203 116-178 (231)
82 KOG1190 Polypyrimidine tract-b 97.4 0.00095 2.1E-08 66.9 10.3 67 141-211 313-379 (492)
83 KOG0533 RRM motif-containing p 97.4 0.00033 7.2E-09 66.1 6.6 66 141-206 98-163 (243)
84 KOG0146 RNA-binding protein ET 97.4 0.00021 4.4E-09 68.3 5.0 65 141-205 300-365 (371)
85 KOG0106 Alternative splicing f 97.1 0.0013 2.7E-08 61.2 6.6 53 140-199 113-165 (216)
86 KOG0106 Alternative splicing f 97.0 0.00036 7.8E-09 64.8 2.6 57 140-203 15-71 (216)
87 PF11608 Limkain-b1: Limkain b 97.0 0.0033 7.1E-08 50.7 7.5 58 139-205 19-77 (90)
88 PF14605 Nup35_RRM_2: Nup53/35 97.0 0.0016 3.4E-08 47.5 4.9 39 141-184 15-53 (53)
89 PF04059 RRM_2: RNA recognitio 96.9 0.0076 1.7E-07 49.5 8.7 82 102-206 2-88 (97)
90 PF08952 DUF1866: Domain of un 96.7 0.0089 1.9E-07 52.5 8.1 64 137-209 47-110 (146)
91 PF05172 Nup35_RRM: Nup53/35/4 96.7 0.0056 1.2E-07 50.5 6.4 61 141-202 20-89 (100)
92 KOG0226 RNA-binding proteins [ 96.5 0.0026 5.5E-08 60.5 3.8 58 144-201 208-266 (290)
93 KOG0116 RasGAP SH3 binding pro 96.4 0.0069 1.5E-07 61.4 6.3 61 140-201 302-363 (419)
94 KOG2416 Acinus (induces apopto 96.2 0.0032 6.9E-08 65.6 3.2 86 99-214 442-531 (718)
95 KOG1548 Transcription elongati 96.2 0.02 4.4E-07 56.5 8.4 63 141-203 149-219 (382)
96 smart00356 ZnF_C3H1 zinc finge 95.9 0.0045 9.8E-08 38.1 1.7 25 207-231 2-26 (27)
97 PF08777 RRM_3: RNA binding mo 95.8 0.015 3.3E-07 48.1 4.9 58 140-202 15-77 (105)
98 KOG1456 Heterogeneous nuclear 95.8 0.036 7.8E-07 55.4 8.1 64 141-208 137-202 (494)
99 PF00642 zf-CCCH: Zinc finger 95.7 0.0026 5.6E-08 40.2 -0.0 24 73-96 3-26 (27)
100 KOG4205 RNA-binding protein mu 95.7 0.0055 1.2E-07 59.9 2.1 65 137-202 17-82 (311)
101 KOG1190 Polypyrimidine tract-b 95.7 0.017 3.6E-07 58.2 5.4 62 141-206 165-229 (492)
102 PF15023 DUF4523: Protein of u 95.7 0.11 2.3E-06 46.0 9.6 55 141-202 105-159 (166)
103 PF00642 zf-CCCH: Zinc finger 95.7 0.0027 5.8E-08 40.1 -0.2 25 207-231 1-26 (27)
104 KOG1457 RNA binding protein (c 95.5 0.071 1.5E-06 50.2 8.5 65 142-206 50-119 (284)
105 KOG4307 RNA binding protein RB 95.4 0.036 7.9E-07 59.0 7.0 65 137-201 878-943 (944)
106 KOG1855 Predicted RNA-binding 95.4 0.014 3.1E-07 58.9 3.7 76 100-200 230-321 (484)
107 KOG4205 RNA-binding protein mu 95.2 0.016 3.4E-07 56.8 3.4 68 138-206 109-177 (311)
108 KOG0151 Predicted splicing reg 95.1 0.046 9.9E-07 58.3 6.5 62 141-202 189-254 (877)
109 KOG4210 Nuclear localization s 94.8 0.012 2.6E-07 56.9 1.3 72 135-207 194-266 (285)
110 KOG2068 MOT2 transcription fac 94.5 0.017 3.8E-07 56.6 1.6 84 145-234 99-187 (327)
111 smart00356 ZnF_C3H1 zinc finge 94.4 0.028 6E-07 34.5 1.9 22 74-96 5-26 (27)
112 PF04847 Calcipressin: Calcipr 94.4 0.11 2.3E-06 47.3 6.3 63 140-207 9-73 (184)
113 KOG0120 Splicing factor U2AF, 94.3 0.061 1.3E-06 55.7 5.0 65 140-204 303-368 (500)
114 KOG1365 RNA-binding protein Fu 94.1 0.04 8.7E-07 55.2 3.2 78 136-213 290-370 (508)
115 KOG4285 Mitotic phosphoprotein 94.0 0.095 2.1E-06 51.1 5.4 58 142-206 212-269 (350)
116 KOG4211 Splicing factor hnRNP- 93.9 0.19 4.2E-06 51.6 7.7 62 138-202 22-83 (510)
117 PF15519 RBM39linker: linker b 93.1 0.044 9.6E-07 42.7 1.3 21 95-115 48-68 (73)
118 KOG1456 Heterogeneous nuclear 92.8 0.31 6.7E-06 49.0 6.9 59 141-203 303-361 (494)
119 KOG1995 Conserved Zn-finger pr 92.6 0.11 2.4E-06 51.4 3.6 64 140-203 80-152 (351)
120 KOG4206 Spliceosomal protein s 92.6 0.41 8.8E-06 44.8 7.0 56 143-202 163-219 (221)
121 KOG1457 RNA binding protein (c 92.2 0.18 3.8E-06 47.6 4.2 62 103-192 212-273 (284)
122 KOG4211 Splicing factor hnRNP- 91.3 0.41 8.9E-06 49.3 6.0 69 141-210 118-187 (510)
123 KOG2591 c-Mpl binding protein, 91.0 0.25 5.5E-06 51.6 4.1 56 140-201 189-248 (684)
124 KOG4676 Splicing factor, argin 90.8 0.28 6.1E-06 49.4 4.2 52 138-193 163-214 (479)
125 PF11767 SET_assoc: Histone ly 88.8 1.9 4E-05 33.1 6.4 52 140-199 14-65 (66)
126 KOG0128 RNA-binding protein SA 88.7 0.07 1.5E-06 57.9 -2.0 57 141-197 682-739 (881)
127 KOG4574 RNA-binding protein (c 88.6 0.64 1.4E-05 50.8 5.1 92 140-244 312-405 (1007)
128 KOG0128 RNA-binding protein SA 88.0 0.15 3.2E-06 55.4 -0.1 70 135-204 745-814 (881)
129 KOG0112 Large RNA-binding prot 87.0 0.58 1.2E-05 51.4 3.6 58 141-203 470-529 (975)
130 KOG4676 Splicing factor, argin 85.3 1.2 2.6E-05 45.1 4.6 62 140-202 21-86 (479)
131 KOG2135 Proteins containing th 85.0 0.61 1.3E-05 48.0 2.4 60 139-204 386-445 (526)
132 KOG1677 CCCH-type Zn-finger pr 83.4 0.69 1.5E-05 44.8 2.0 31 73-103 177-207 (332)
133 KOG3152 TBP-binding protein, a 82.2 0.97 2.1E-05 43.3 2.4 57 141-197 89-158 (278)
134 PF03880 DbpA: DbpA RNA bindin 81.9 2.5 5.3E-05 32.4 4.2 54 141-202 16-74 (74)
135 KOG1677 CCCH-type Zn-finger pr 80.4 1.3 2.8E-05 42.9 2.6 37 200-236 168-205 (332)
136 KOG1847 mRNA splicing factor [ 80.2 1.1 2.5E-05 47.7 2.4 18 219-236 690-707 (878)
137 KOG0115 RNA-binding protein p5 79.6 2.1 4.5E-05 41.1 3.7 61 141-201 46-110 (275)
138 KOG2494 C3H1-type Zn-finger pr 78.3 0.83 1.8E-05 45.0 0.6 29 205-233 32-62 (331)
139 PF03439 Spt5-NGN: Early trans 77.5 2.9 6.2E-05 33.0 3.4 37 152-192 33-69 (84)
140 PF08675 RNA_bind: RNA binding 74.2 7.1 0.00015 31.6 4.8 41 141-188 23-63 (87)
141 KOG1365 RNA-binding protein Fu 73.9 5.5 0.00012 40.4 5.0 51 136-186 171-225 (508)
142 KOG0835 Cyclin L [General func 73.4 3.5 7.6E-05 41.0 3.5 29 164-193 170-198 (367)
143 KOG1040 Polyadenylation factor 65.9 2.3 5E-05 42.1 0.4 28 205-232 73-100 (325)
144 KOG4213 RNA-binding protein La 65.8 13 0.00028 34.2 5.1 49 137-187 120-170 (205)
145 PF07576 BRAP2: BRCA1-associat 64.1 31 0.00067 28.9 6.8 42 152-194 40-81 (110)
146 PF10309 DUF2414: Protein of u 62.2 22 0.00047 27.0 5.0 41 141-187 19-62 (62)
147 KOG4307 RNA binding protein RB 60.3 3.2 6.9E-05 44.9 0.3 65 140-204 448-513 (944)
148 KOG0112 Large RNA-binding prot 59.4 2.5 5.4E-05 46.6 -0.6 62 141-202 387-448 (975)
149 KOG0151 Predicted splicing reg 56.7 8.7 0.00019 41.8 2.8 25 170-194 695-719 (877)
150 PRK08559 nusG transcription an 55.2 30 0.00066 30.2 5.6 44 141-189 23-68 (153)
151 COG3309 VapD Uncharacterized v 54.3 31 0.00067 28.3 5.0 42 136-188 21-62 (96)
152 KOG2888 Putative RNA binding p 53.9 5.3 0.00011 39.9 0.6 13 130-142 172-184 (453)
153 KOG2193 IGF-II mRNA-binding pr 53.4 1.9 4.1E-05 44.1 -2.5 143 60-206 15-158 (584)
154 KOG0129 Predicted RNA-binding 52.1 41 0.0009 35.3 6.7 73 85-182 243-321 (520)
155 KOG1763 Uncharacterized conser 50.8 6.9 0.00015 38.4 0.9 32 205-236 88-119 (343)
156 COG5152 Uncharacterized conser 50.2 6.9 0.00015 36.5 0.7 37 197-233 129-166 (259)
157 KOG0835 Cyclin L [General func 49.8 15 0.00033 36.6 3.0 14 134-147 209-222 (367)
158 COG5252 Uncharacterized conser 48.6 6.2 0.00013 37.7 0.2 40 206-245 82-122 (299)
159 KOG1999 RNA polymerase II tran 46.8 31 0.00067 38.8 5.1 45 152-201 199-243 (1024)
160 KOG4849 mRNA cleavage factor I 46.1 24 0.00051 35.7 3.8 63 141-203 95-160 (498)
161 KOG0129 Predicted RNA-binding 44.5 50 0.0011 34.7 5.9 46 141-186 385-432 (520)
162 PF10567 Nab6_mRNP_bdg: RNA-re 43.4 43 0.00094 32.9 5.0 62 142-203 31-106 (309)
163 PF03468 XS: XS domain; Inter 41.9 52 0.0011 27.7 4.7 63 101-181 8-70 (116)
164 KOG0153 Predicted RNA-binding 41.4 13 0.00028 37.2 1.2 33 207-239 159-191 (377)
165 KOG4791 Uncharacterized conser 40.9 9.9 0.00021 39.7 0.3 28 72-100 117-144 (667)
166 KOG2185 Predicted RNA-processi 40.2 19 0.00042 36.8 2.2 41 195-235 126-166 (486)
167 KOG0804 Cytoplasmic Zn-finger 39.5 52 0.0011 34.2 5.1 53 141-194 89-142 (493)
168 PF14608 zf-CCCH_2: Zinc finge 39.3 19 0.00042 20.8 1.2 12 219-230 7-18 (19)
169 PF02956 TT_ORF1: TT viral orf 38.6 14 0.00031 38.8 1.0 10 310-319 59-68 (525)
170 KOG2891 Surface glycoprotein [ 38.5 6.9 0.00015 38.3 -1.2 52 141-192 176-247 (445)
171 PF11823 DUF3343: Protein of u 37.9 42 0.00091 25.4 3.3 42 168-214 2-43 (73)
172 KOG4246 Predicted DNA-binding 37.8 21 0.00045 39.7 2.1 18 302-319 352-369 (1194)
173 PF15513 DUF4651: Domain of un 37.0 88 0.0019 23.9 4.8 24 137-160 5-28 (62)
174 KOG2888 Putative RNA binding p 36.9 15 0.00032 36.8 0.8 11 166-176 159-169 (453)
175 PF14206 Cys_rich_CPCC: Cystei 36.6 17 0.00036 28.9 0.9 31 28-64 24-54 (78)
176 KOG4019 Calcineurin-mediated s 36.1 37 0.00081 31.2 3.1 54 146-204 35-89 (193)
177 smart00596 PRE_C2HC PRE_C2HC d 35.3 46 0.001 25.9 3.1 59 141-202 2-62 (69)
178 PF03467 Smg4_UPF3: Smg-4/UPF3 34.9 50 0.0011 29.6 3.8 42 166-207 54-100 (176)
179 KOG0105 Alternative splicing f 33.9 83 0.0018 29.4 5.0 48 141-194 130-177 (241)
180 PF07530 PRE_C2HC: Associated 33.4 62 0.0014 24.7 3.6 59 141-202 2-62 (68)
181 KOG1040 Polyadenylation factor 33.3 20 0.00043 35.6 1.0 25 74-98 106-130 (325)
182 COG0018 ArgS Arginyl-tRNA synt 32.6 1.7E+02 0.0037 31.3 7.9 60 140-205 60-127 (577)
183 KOG4660 Protein Mei2, essentia 32.3 60 0.0013 34.4 4.3 57 150-206 413-474 (549)
184 PF02580 Tyr_Deacylase: D-Tyr- 31.9 1.7E+02 0.0037 25.7 6.5 35 127-161 96-136 (145)
185 PF02714 DUF221: Domain of unk 31.4 50 0.0011 31.5 3.4 33 170-204 1-33 (325)
186 KOG1813 Predicted E3 ubiquitin 31.2 19 0.00041 35.4 0.5 28 205-232 182-210 (313)
187 KOG2185 Predicted RNA-processi 30.3 23 0.0005 36.3 0.9 25 71-96 138-162 (486)
188 TIGR00405 L26e_arch ribosomal 30.3 1.3E+02 0.0028 25.6 5.5 33 153-189 28-60 (145)
189 PF15440 THRAP3_BCLAF1: THRAP3 29.8 57 0.0012 35.3 3.8 7 253-259 2-8 (646)
190 PRK13817 ribosome-binding fact 29.1 80 0.0017 26.6 3.9 56 150-208 31-91 (119)
191 KOG2548 SWAP mRNA splicing reg 29.0 20 0.00044 37.8 0.3 13 169-181 229-241 (653)
192 PF06185 YecM: YecM protein; 28.3 2.8E+02 0.0061 25.5 7.5 63 129-199 5-74 (185)
193 PF08544 GHMP_kinases_C: GHMP 26.1 2.7E+02 0.0059 20.5 6.3 46 140-189 36-81 (85)
194 CHL00123 rps6 ribosomal protei 25.7 2.1E+02 0.0047 23.0 5.7 51 136-186 23-81 (97)
195 KOG4210 Nuclear localization s 25.5 54 0.0012 31.8 2.5 62 142-203 104-166 (285)
196 PF13721 SecD-TM1: SecD export 24.8 3.1E+02 0.0067 22.4 6.5 44 141-191 49-93 (101)
197 PF08156 NOP5NT: NOP5NT (NUC12 23.3 50 0.0011 25.1 1.5 36 141-188 27-65 (67)
198 KOG0156 Cytochrome P450 CYP2 s 23.2 1.9E+02 0.0042 30.0 6.2 72 94-197 25-97 (489)
199 KOG2494 C3H1-type Zn-finger pr 23.2 45 0.00099 33.1 1.5 27 212-242 74-100 (331)
200 PLN00108 unknown protein; Prov 23.0 1.9E+02 0.0042 27.8 5.7 80 126-207 43-140 (257)
201 COG0858 RbfA Ribosome-binding 22.6 72 0.0016 27.0 2.4 64 142-208 25-95 (118)
202 PRK11634 ATP-dependent RNA hel 22.4 3.5E+02 0.0076 29.0 8.1 44 152-203 518-561 (629)
203 KOG1847 mRNA splicing factor [ 21.1 93 0.002 33.9 3.3 10 253-262 750-759 (878)
204 KOG1039 Predicted E3 ubiquitin 21.0 44 0.00095 33.5 0.9 32 74-106 9-41 (344)
205 PRK06545 prephenate dehydrogen 20.4 2E+02 0.0044 28.3 5.5 39 153-192 318-356 (359)
206 COG5084 YTH1 Cleavage and poly 20.2 49 0.0011 32.3 1.1 31 206-236 101-131 (285)
207 PRK00521 rbfA ribosome-binding 20.2 2E+02 0.0044 24.0 4.7 55 151-208 35-95 (120)
No 1
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=100.00 E-value=1.6e-63 Score=460.23 Aligned_cols=199 Identities=64% Similarity=1.097 Sum_probs=189.1
Q ss_pred HHHHHHHHhCCCCCCcccccccccccccCCCcCCCCCCCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHh
Q 040106 59 MAEHLASIFGTEKDRVNCPFYFKIGACRHGDRCSRLHNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFED 138 (324)
Q Consensus 59 ma~~l~~~~gte~d~vnC~Fy~K~GACRhGd~CSr~H~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~ 138 (324)
||++||+|||||+|+|||+||+|||||||||+||++|.+|+.|+||||+|||++|++..+..|..++.++++++|.+||+
T Consensus 1 mae~lasifgtekdKv~c~fy~k~gacR~gdrcsR~h~kpt~s~t~ll~nmyq~P~~~~~~~d~~~~~~~de~~q~~~de 80 (260)
T KOG2202|consen 1 MAEYLASIFGTEKDKVNCSFYFKIGACRHGDRCSRLHEKPTFSQTVLLKNMYQNPENSWERRDAQGQFLTDEELQRHEDE 80 (260)
T ss_pred CchHHHHHhcccccccccchHHhhcccccccHHHHhhcccccchHHHHHHHHhCCCCCchhhhhccccccHHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999876666767788999999999999
Q ss_pred HHHHHHHHHh-ccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchhhhhccccc
Q 040106 139 FYEDIFEELS-KFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFREATCRQFEE 217 (324)
Q Consensus 139 ~~eDV~eEf~-kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ea~C~~~~~ 217 (324)
|||||+.||+ |||+|++++||+|..+|++|+|||+|..+++|++|+..|||+||+|++|+++|+||++|++|+|++|..
T Consensus 81 fyEd~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~rea~C~~~e~ 160 (260)
T KOG2202|consen 81 FYEDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFREAICGQFER 160 (260)
T ss_pred HHHHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchhhhhhccccc
Confidence 9999999997 999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCcccccccChhhhhhhhcccccCCCCCCCCC
Q 040106 218 NNCNRGGYCNFMHVKLIGRDLRNKLFGRYRRRSRSRSFSP 257 (324)
Q Consensus 218 g~C~rG~~Cnf~H~~~~~r~l~~~l~~~~~~~~r~Rsrs~ 257 (324)
+.|++|++|||||++.++++|.+.|+.++.+....+|+++
T Consensus 161 ~~C~rG~~CnFmH~k~~sr~L~r~l~~~~~~~~~~~sra~ 200 (260)
T KOG2202|consen 161 TECSRGGACNFMHVKRLSRSLRRELYGRQRKRYPRRSRAR 200 (260)
T ss_pred ccCCCCCcCcchhhhhhhHHHHHHhhhhhhcccccccccc
Confidence 9999999999999999999999999998777655444443
No 2
>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=99.76 E-value=1.7e-18 Score=179.38 Aligned_cols=95 Identities=28% Similarity=0.416 Sum_probs=84.2
Q ss_pred CCCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCC-----CCceeE
Q 040106 95 HNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLA-----DHMIGN 169 (324)
Q Consensus 95 H~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~-----~~~~G~ 169 (324)
-.+|..|+||+|+|||+..+ ++ ++|++||++||+|||.|++|.|+.+.. +|+.|+
T Consensus 508 l~rp~~S~vVvL~NMv~~~e-----------------ld---edl~eDV~eEC~K~G~V~~v~I~~~~~~~~~~~~~~g~ 567 (612)
T TIGR01645 508 LMRTNRSNVIVLRNMVTPQD-----------------ID---EFLEGEIREECGKFGVVDRVIINFEKQGEEEDAEIIVK 567 (612)
T ss_pred hcCCCCCCEEEEeCCCChHH-----------------hH---HHHHHHHHHHhhcCceeEEEEEecCCCCccccccceEE
Confidence 35788999999999998532 22 458899999999999999999998643 378999
Q ss_pred EEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchh
Q 040106 170 VYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFRE 209 (324)
Q Consensus 170 vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~e 209 (324)
|||+|.+.++|.+|++.||||||+||+|.++|++...|..
T Consensus 568 VfV~F~~~~~A~~A~~~LnGR~F~GR~V~a~~yd~~~f~~ 607 (612)
T TIGR01645 568 IFVEFSDSMEVDRAKAALDGRFFGGRTVVAEAYDQILFDH 607 (612)
T ss_pred EEEEECCHHHHHHHHHHhcCCeECCeEEEEEEcCHHHhhc
Confidence 9999999999999999999999999999999999999865
No 3
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.74 E-value=2.5e-18 Score=172.97 Aligned_cols=92 Identities=34% Similarity=0.570 Sum_probs=84.3
Q ss_pred CCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHH
Q 040106 99 TISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEE 178 (324)
Q Consensus 99 ~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~e 178 (324)
.+|+|++|.|||+..++..++|+ .+|.|||.+||+|||.|.+|.|..|. .|+|||+|.+.+
T Consensus 441 i~t~C~lL~nMFdpstete~n~d---------------~eI~edV~Eec~k~g~v~hi~vd~ns----~g~VYvrc~s~~ 501 (549)
T KOG0147|consen 441 IPTQCLLLSNMFDPSTETEPNWD---------------QEIREDVIEECGKHGKVCHIFVDKNS----AGCVYVRCPSAE 501 (549)
T ss_pred CccHHHHHhhcCCcccccCcchh---------------hHHHHHHHHHHHhcCCeeEEEEccCC----CceEEEecCcHH
Confidence 58999999999998777777776 46779999999999999999999984 599999999999
Q ss_pred HHHHHHHHhcCCeeCCeEEEEEeecCCCchh
Q 040106 179 QAAAALHALQGRFYSGRPIIVEFSPVTDFRE 209 (324)
Q Consensus 179 dA~~Ai~~LnGR~f~GR~I~vefs~v~~f~e 209 (324)
+|..|+++|||+||+||.|++.|.+++.|..
T Consensus 502 ~A~~a~~alhgrWF~gr~Ita~~~~~~~Y~~ 532 (549)
T KOG0147|consen 502 AAGTAVKALHGRWFAGRMITAKYLPLERYHS 532 (549)
T ss_pred HHHHHHHHHhhhhhccceeEEEEeehhhhhh
Confidence 9999999999999999999999999999864
No 4
>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=99.69 E-value=6.2e-17 Score=160.82 Aligned_cols=98 Identities=27% Similarity=0.449 Sum_probs=85.0
Q ss_pred CCCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEe
Q 040106 95 HNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQF 174 (324)
Q Consensus 95 H~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F 174 (324)
|+.+..++||+|.|||+.... +..++|.+|++||+++|++||.|++|.|+.+. ..|+|||+|
T Consensus 356 ~~~~~~~~~l~l~n~~~~~~~---------------~~~~~~~~~~~dv~~e~~k~G~v~~v~v~~~~---~~G~~fV~F 417 (457)
T TIGR01622 356 TNNNLATTCLVLSNMFDPATE---------------EEPNFDNEILDDVKEECSKYGGVVHIYVDTKN---SAGKIYLKF 417 (457)
T ss_pred ccCCCCCcEEEEecCCCCccc---------------ccchHHHHHHHHHHHHHHhcCCeeEEEEeCCC---CceeEEEEE
Confidence 445678999999999985331 11246889999999999999999999998653 589999999
Q ss_pred CcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchhh
Q 040106 175 REEEQAAAALHALQGRFYSGRPIIVEFSPVTDFREA 210 (324)
Q Consensus 175 ~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ea 210 (324)
.+.++|.+|+++|||++|+||+|.|.|++++.|...
T Consensus 418 ~~~e~A~~A~~~lnGr~f~gr~i~~~~~~~~~~~~~ 453 (457)
T TIGR01622 418 SSVDAALAAFQALNGRYFGGKMITAAFVVNDVYDMS 453 (457)
T ss_pred CCHHHHHHHHHHhcCcccCCeEEEEEEEcHHHHHhh
Confidence 999999999999999999999999999999998754
No 5
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=99.65 E-value=4.9e-16 Score=147.24 Aligned_cols=152 Identities=21% Similarity=0.353 Sum_probs=115.2
Q ss_pred CCCCCCCCCchh----------hhhh-ccccchHHHHHHHHhCCCC--------CCccccccc-ccccccCCCcC-----
Q 040106 37 SEIPFPSQDKDS----------AVKF-AGRGLAMAEHLASIFGTEK--------DRVNCPFYF-KIGACRHGDRC----- 91 (324)
Q Consensus 37 ~~~~~p~~~~~~----------~~~~-~~~g~~ma~~l~~~~gte~--------d~vnC~Fy~-K~GACRhGd~C----- 91 (324)
-+..||||++.+ +|+. ++.||.+|..+++.+|-.+ ..+.-+|.. ||+. |.|..-
T Consensus 181 ~~~~~spP~~~~~~ai~rs~tn~fg~~~gg~ltvA~~im~k~G~keGqGLGKsEQGlsTalsveKT~~-rgG~IIv~a~~ 259 (378)
T KOG1996|consen 181 HSSEMSPPSFLPSAAIPRSPTNSFGANTGGGLTVAHKIMQKYGFKEGQGLGKSEQGLSTALSVEKTSK-RGGKIIVGAAT 259 (378)
T ss_pred CcccCCCcccCcccccccCccchhhhhcccchhHHHHHHHHhCcccccCcCccccccccceeeeeccc-cCceeEecCcc
Confidence 346778888886 8888 8999999999999997332 234455544 5543 666311
Q ss_pred ------CCC------CCCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEe
Q 040106 92 ------SRL------HNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVC 159 (324)
Q Consensus 92 ------Sr~------H~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~ 159 (324)
|+. .|.--.+++|+|+||..... +| ++|++++.+||+|||+|..|.|.
T Consensus 260 ~k~~~askk~v~n~t~Il~~ptkvlllrnmVg~ge------------vd--------~elede~keEceKyg~V~~viif 319 (378)
T KOG1996|consen 260 EKFADASKKSVSNLTEILKCPTKVLLLRNMVGAGE------------VD--------EELEDETKEECEKYGKVGNVIIF 319 (378)
T ss_pred cccchhhhHhhhhHHHHHhcchHHHHhhhhcCccc------------cc--------HHHHHHHHHHHHhhcceeeEEEE
Confidence 111 11122456799999998432 11 56779999999999999999996
Q ss_pred eCC--CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchh
Q 040106 160 DNL--ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFRE 209 (324)
Q Consensus 160 ~n~--~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~e 209 (324)
... ..+-.--|||+|+..++|.+|+-.||||||+||.|.+.|+++.+|+.
T Consensus 320 eip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~ekfs~ 371 (378)
T KOG1996|consen 320 EIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNLEKFSN 371 (378)
T ss_pred ecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccHHhhhh
Confidence 653 34567789999999999999999999999999999999999999974
No 6
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.59 E-value=3e-15 Score=150.56 Aligned_cols=96 Identities=22% Similarity=0.480 Sum_probs=81.4
Q ss_pred CCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCC----CCceeEEEEEe
Q 040106 99 TISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLA----DHMIGNVYVQF 174 (324)
Q Consensus 99 ~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~----~~~~G~vyV~F 174 (324)
.+++||+|.||++..+++ + .+.|+++.+||+++|++||.|++|.|+.+.. ....|+|||+|
T Consensus 407 ~~s~v~~l~N~~~~~~l~-----------~----d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F 471 (509)
T TIGR01642 407 KPTKVVQLTNLVTGDDLM-----------D----DEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEY 471 (509)
T ss_pred CCceEEEeccCCchhHhc-----------C----cchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEE
Confidence 357899999998754321 1 2357899999999999999999999987532 23579999999
Q ss_pred CcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchh
Q 040106 175 REEEQAAAALHALQGRFYSGRPIIVEFSPVTDFRE 209 (324)
Q Consensus 175 ~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~e 209 (324)
.++++|++|+.+|||++|+|++|.|.|+++..|..
T Consensus 472 ~~~e~A~~A~~~lnGr~~~gr~v~~~~~~~~~~~~ 506 (509)
T TIGR01642 472 ADVRSAEKAMEGMNGRKFNDRVVVAAFYGEDCYKA 506 (509)
T ss_pred CCHHHHHHHHHHcCCCEECCeEEEEEEeCHHHhhc
Confidence 99999999999999999999999999999988864
No 7
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.59 E-value=3.6e-14 Score=134.81 Aligned_cols=162 Identities=15% Similarity=0.197 Sum_probs=113.3
Q ss_pred eeccCCCCCCCCCCCchhhhhhccccchHHHHHHHHhCCCCCCcccccccc----cccccCCCcCC--------------
Q 040106 31 VWIDKLSEIPFPSQDKDSAVKFAGRGLAMAEHLASIFGTEKDRVNCPFYFK----IGACRHGDRCS-------------- 92 (324)
Q Consensus 31 ~~~~~~~~~~~p~~~~~~~~~~~~~g~~ma~~l~~~~gte~d~vnC~Fy~K----~GACRhGd~CS-------------- 92 (324)
+....|-..++||-..++++.+|..=.+||..| +.|+.-.|..+=.++.. +-+- +-+.-.
T Consensus 12 LF~pRpPl~y~pP~d~~p~kr~~~~~tGvA~~~-~~~~~~~d~p~~~p~~t~~e~~er~-~~~k~e~~~~~~~~~l~~wd 89 (335)
T KOG0113|consen 12 LFAPRPPLPYLPPTDKLPHKRKTNPYTGVAQYL-STFEDPKDAPPKFPVETPEEPLERG-RREKTEKIPHKLERRLKLWD 89 (335)
T ss_pred hcCCCCCcccCCccccChhhccCCCcccHHHHH-HhhcCcccCCCcCcccchhhHHHhh-hhhhhhhhHHHHHHHHHhcC
Confidence 457788899999999999998888767888877 44665555322222211 0000 000000
Q ss_pred ---CCCCCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeC-CCCCcee
Q 040106 93 ---RLHNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDN-LADHMIG 168 (324)
Q Consensus 93 ---r~H~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n-~~~~~~G 168 (324)
-.|..-.+-.||+|.-| -|++.+.+|+.+|++||+|+.|.|+.+ .+++++|
T Consensus 90 P~~dp~a~gDPy~TLFv~RL-------------------------nydT~EskLrreF~~YG~IkrirlV~d~vTgkskG 144 (335)
T KOG0113|consen 90 PNNDPNAIGDPYKTLFVARL-------------------------NYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKG 144 (335)
T ss_pred CCCCCcccCCccceeeeeec-------------------------cccccHHHHHHHHHhcCcceeEEEeeecccCCccc
Confidence 01111112222222211 145666899999999999999999998 5788999
Q ss_pred EEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee---cCCCchhhhhcccccCC
Q 040106 169 NVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS---PVTDFREATCRQFEENN 219 (324)
Q Consensus 169 ~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs---~v~~f~ea~C~~~~~g~ 219 (324)
+|||+|+++.+...|++..+|..++|+.|.|++- +|..|.....|..+.|.
T Consensus 145 YAFIeye~erdm~~AYK~adG~~Idgrri~VDvERgRTvkgW~PRRLGGGLGg~ 198 (335)
T KOG0113|consen 145 YAFIEYEHERDMKAAYKDADGIKIDGRRILVDVERGRTVKGWLPRRLGGGLGGR 198 (335)
T ss_pred eEEEEeccHHHHHHHHHhccCceecCcEEEEEecccccccccccccccCCcCCc
Confidence 9999999999999999999999999999999995 67889988877655544
No 8
>smart00361 RRM_1 RNA recognition motif.
Probab=99.49 E-value=1.3e-13 Score=104.84 Aligned_cols=64 Identities=42% Similarity=0.750 Sum_probs=55.2
Q ss_pred HhHHHHHHHHHhccCCeeEEE-E-eeCCC--CCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEE
Q 040106 137 EDFYEDIFEELSKFGEIECLN-V-CDNLA--DHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVE 200 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~-V-~~n~~--~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~ve 200 (324)
++|.+.+.++|++||+|.+|. | ..+.+ ++++|++||+|.+.++|.+|++.|||++|+|++|.|.
T Consensus 3 ~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 3 EDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred hhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence 456678888889999999995 4 33334 7799999999999999999999999999999999873
No 9
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=99.49 E-value=7.6e-14 Score=134.71 Aligned_cols=90 Identities=30% Similarity=0.562 Sum_probs=76.6
Q ss_pred CCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCc
Q 040106 97 RPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFRE 176 (324)
Q Consensus 97 ~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s 176 (324)
++....||+|+|||+...+ . ++.++ ..++.+||.++|+|||+|.+|+|+++ |+.|.|-|.|.+
T Consensus 261 k~r~~~tVi~kn~Ftp~~~-~----------~~~~l---~~dlkedl~eec~K~G~v~~vvv~d~---hPdGvvtV~f~n 323 (382)
T KOG1548|consen 261 KARADRTVILKNMFTPEDF-E----------KNPDL---LNDLKEDLTEECEKFGQVRKVVVYDR---HPDGVVTVSFRN 323 (382)
T ss_pred cccCCcEEEeeecCCHHHh-c----------cCHHH---HHHHHHHHHHHHHHhCCcceEEEecc---CCCceeEEEeCC
Confidence 4456789999999995443 1 11223 36788999999999999999999976 689999999999
Q ss_pred HHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 177 EEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 177 ~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
.++|..||+.|+||||+||+|++.++.
T Consensus 324 ~eeA~~ciq~m~GR~fdgRql~A~i~D 350 (382)
T KOG1548|consen 324 NEEADQCIQTMDGRWFDGRQLTASIWD 350 (382)
T ss_pred hHHHHHHHHHhcCeeecceEEEEEEeC
Confidence 999999999999999999999999974
No 10
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.46 E-value=9.7e-13 Score=117.25 Aligned_cols=61 Identities=28% Similarity=0.429 Sum_probs=57.5
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCC
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVT 205 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~ 205 (324)
.||..+|.+||+|.+|+|..| +-|||||+|++..||.+|+..|||+.|.|..|.|+++...
T Consensus 25 ~eLE~~F~~yG~lrsvWvArn----PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~ 85 (195)
T KOG0107|consen 25 RELERAFSKYGPLRSVWVARN----PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGR 85 (195)
T ss_pred HHHHHHHHhcCcceeEEEeec----CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCC
Confidence 688999999999999999987 6899999999999999999999999999999999998653
No 11
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=99.45 E-value=8.8e-14 Score=141.02 Aligned_cols=77 Identities=23% Similarity=0.541 Sum_probs=70.8
Q ss_pred HhhHHhHHHHHHHHHhccCCeeEEEEeeC-CCCC---ceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCch
Q 040106 133 QEHFEDFYEDIFEELSKFGEIECLNVCDN-LADH---MIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFR 208 (324)
Q Consensus 133 ~~~fd~~~eDV~eEf~kfG~I~~V~V~~n-~~~~---~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ 208 (324)
.++|++|+|||+.||++||.|.+|.|+.+ ...+ ..|+|||+|.+.++|+.|+.+|+|+.|+||+|.+.|+++++|.
T Consensus 416 d~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYydeDkY~ 495 (500)
T KOG0120|consen 416 DEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDEDKYH 495 (500)
T ss_pred hHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCHHHhh
Confidence 36799999999999999999999999887 4333 5899999999999999999999999999999999999999997
Q ss_pred h
Q 040106 209 E 209 (324)
Q Consensus 209 e 209 (324)
.
T Consensus 496 ~ 496 (500)
T KOG0120|consen 496 A 496 (500)
T ss_pred c
Confidence 4
No 12
>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=99.39 E-value=1.8e-12 Score=93.77 Aligned_cols=56 Identities=32% Similarity=0.679 Sum_probs=51.3
Q ss_pred HHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 143 IFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 143 V~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
|+.+|++||+|.+|.+..+. .|+|||+|.+.++|..|+..|||.+|+|++|.|+|+
T Consensus 1 L~~~f~~fG~V~~i~~~~~~----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 57899999999999998763 589999999999999999999999999999999986
No 13
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.37 E-value=2.7e-12 Score=123.03 Aligned_cols=65 Identities=20% Similarity=0.390 Sum_probs=60.5
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCC
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVT 205 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~ 205 (324)
++|.+.|++||.|++|.|+.+. ++.++||+||+|.+.++|.+|+.+|||..|+||+|.|+|....
T Consensus 284 ~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~~ 349 (352)
T TIGR01661 284 TVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTNK 349 (352)
T ss_pred HHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccCC
Confidence 7899999999999999998876 6779999999999999999999999999999999999997643
No 14
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.36 E-value=6.9e-12 Score=114.56 Aligned_cols=67 Identities=21% Similarity=0.402 Sum_probs=61.0
Q ss_pred HhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
.+.-+||...|+|||.|-+|.|+.+. +..++||+||.|..-.||++|+++|+|..++|+.|.|+++.
T Consensus 24 RTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar 91 (256)
T KOG4207|consen 24 RTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR 91 (256)
T ss_pred cCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence 44448999999999999999999885 56699999999999999999999999999999999999863
No 15
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.32 E-value=1.2e-11 Score=107.21 Aligned_cols=79 Identities=23% Similarity=0.364 Sum_probs=69.4
Q ss_pred CCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHH
Q 040106 100 ISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEE 178 (324)
Q Consensus 100 ~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~e 178 (324)
.+.+|+|.||-.+.. ++||++.|++||+|.+|.|+.+. +++.+||+||+|.+.+
T Consensus 33 ~~~~lfVgnL~~~~t-------------------------e~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e 87 (144)
T PLN03134 33 MSTKLFIGGLSWGTD-------------------------DASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEG 87 (144)
T ss_pred CCCEEEEeCCCCCCC-------------------------HHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHH
Confidence 566788888876422 27899999999999999998774 5679999999999999
Q ss_pred HHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 179 QAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 179 dA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
+|++|++.|||..++|++|.|+++.
T Consensus 88 ~A~~Al~~lng~~i~Gr~l~V~~a~ 112 (144)
T PLN03134 88 AATAAISEMDGKELNGRHIRVNPAN 112 (144)
T ss_pred HHHHHHHHcCCCEECCEEEEEEeCC
Confidence 9999999999999999999999974
No 16
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=99.25 E-value=5.1e-11 Score=87.51 Aligned_cols=58 Identities=36% Similarity=0.586 Sum_probs=54.8
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEE
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPII 198 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~ 198 (324)
++|.+.|++||.|..+.|..+..++..|++||+|.+.++|.+|++.|||..++|++|+
T Consensus 13 ~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 13 EELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp HHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred HHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 7899999999999999999886778999999999999999999999999999999985
No 17
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.21 E-value=2.9e-11 Score=117.93 Aligned_cols=93 Identities=29% Similarity=0.507 Sum_probs=77.8
Q ss_pred CCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCC-----CceeEE
Q 040106 96 NRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLAD-----HMIGNV 170 (324)
Q Consensus 96 ~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~-----~~~G~v 170 (324)
.++..|.+|+|+||.+..++ + ++++.+|.+||+|||.|..|.|.....+ ...-.+
T Consensus 441 mR~~~S~VivLRNMV~P~Di-----------------D---e~LegEi~EECgKfG~V~rViI~nekq~e~edaeiiVKI 500 (544)
T KOG0124|consen 441 MRKQESTVIVLRNMVDPKDI-----------------D---EDLEGEITEECGKFGAVNRVIIYNEKQGEEEDAEIIVKI 500 (544)
T ss_pred hccccCcEEEEeccCChhhh-----------------h---hHHHHHHHHHHhcccceeEEEEEecccccccchhhhhee
Confidence 46678999999999995432 1 5677999999999999999998654321 246789
Q ss_pred EEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCch
Q 040106 171 YVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFR 208 (324)
Q Consensus 171 yV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ 208 (324)
||+|....++.+|..+||||||+||.|.++.+.-..|.
T Consensus 501 FVefS~~~e~~rak~ALdGRfFgGr~VvAE~YDQ~~FD 538 (544)
T KOG0124|consen 501 FVEFSIASETHRAKQALDGRFFGGRKVVAEVYDQERFD 538 (544)
T ss_pred eeeechhhHHHHHHHhhccceecCceeehhhhhhhccc
Confidence 99999999999999999999999999999998766664
No 18
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.15 E-value=2.1e-10 Score=110.09 Aligned_cols=64 Identities=23% Similarity=0.400 Sum_probs=59.2
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
+||++.|++||+|.+|.|+.+. ++..+||+||+|.+.++|.+|+..|||..+.|++|.|.|+..
T Consensus 18 ~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~ 82 (352)
T TIGR01661 18 EEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARP 82 (352)
T ss_pred HHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecc
Confidence 7899999999999999998874 567899999999999999999999999999999999999743
No 19
>smart00362 RRM_2 RNA recognition motif.
Probab=99.10 E-value=7.3e-10 Score=79.63 Aligned_cols=58 Identities=40% Similarity=0.623 Sum_probs=53.6
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEE
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIV 199 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~v 199 (324)
++|.+.|.+||+|..+.+..+. +.+.|++||+|.+.++|..|+..|+|..|+|++|.|
T Consensus 14 ~~l~~~~~~~g~v~~~~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v 71 (72)
T smart00362 14 EDLKELFSKFGPIESVKIPKDT-GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV 71 (72)
T ss_pred HHHHHHHHhcCCEEEEEEecCC-CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence 6888899999999999998775 667899999999999999999999999999999986
No 20
>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=99.08 E-value=7.6e-10 Score=82.50 Aligned_cols=58 Identities=33% Similarity=0.506 Sum_probs=54.4
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEE
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPII 198 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~ 198 (324)
+||.+.|+.||.|..|.+..+..+...|+|||+|.++++|..|++.++|.+|+|+.|.
T Consensus 13 ~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 13 EDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp HHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred HHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 7899999999999999999986667899999999999999999999999999999984
No 21
>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=99.06 E-value=2e-09 Score=105.63 Aligned_cols=147 Identities=17% Similarity=0.216 Sum_probs=95.0
Q ss_pred hhhhhccCcceeEeeccCCCCCCCCCCCchhhhhhccccchHHHHHHHHhCCCCCCcccccccccccccCCCcCCCCCCC
Q 040106 18 KRFLREGKREEVCVWIDKLSEIPFPSQDKDSAVKFAGRGLAMAEHLASIFGTEKDRVNCPFYFKIGACRHGDRCSRLHNR 97 (324)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~g~~ma~~l~~~~gte~d~vnC~Fy~K~GACRhGd~CSr~H~~ 97 (324)
.-|-.-|.-++|.|-.|+.+- .+.-.||.....--.+..+|+.+.|++.....+-..+ .+.+ ..
T Consensus 126 ~lF~~~G~V~~v~i~~d~~tg-----~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~----a~p~-------~~ 189 (346)
T TIGR01659 126 ALFRTIGPINTCRIMRDYKTG-----YSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSY----ARPG-------GE 189 (346)
T ss_pred HHHHhcCCEEEEEEEecCCCC-----ccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeec----cccc-------cc
Confidence 345455776666666665542 2222333222222234445666667665432111111 1111 11
Q ss_pred CCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCc
Q 040106 98 PTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFRE 176 (324)
Q Consensus 98 P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s 176 (324)
...+.+|+|.||-..- + ++||++.|++||+|+.|.|+.+. +++++|++||+|.+
T Consensus 190 ~~~~~~lfV~nLp~~v--------------t-----------ee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~ 244 (346)
T TIGR01659 190 SIKDTNLYVTNLPRTI--------------T-----------DDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNK 244 (346)
T ss_pred ccccceeEEeCCCCcc--------------c-----------HHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECC
Confidence 1235578888885432 1 26899999999999999998774 66789999999999
Q ss_pred HHHHHHHHHHhcCCeeCC--eEEEEEeecCC
Q 040106 177 EEQAAAALHALQGRFYSG--RPIIVEFSPVT 205 (324)
Q Consensus 177 ~edA~~Ai~~LnGR~f~G--R~I~vefs~v~ 205 (324)
.++|++|++.|||..+.| ++|.|.++...
T Consensus 245 ~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~ 275 (346)
T TIGR01659 245 REEAQEAISALNNVIPEGGSQPLTVRLAEEH 275 (346)
T ss_pred HHHHHHHHHHhCCCccCCCceeEEEEECCcc
Confidence 999999999999999977 78999987653
No 22
>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=99.06 E-value=7.7e-10 Score=108.62 Aligned_cols=84 Identities=14% Similarity=0.311 Sum_probs=71.6
Q ss_pred CCCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEE
Q 040106 95 HNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQ 173 (324)
Q Consensus 95 H~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~ 173 (324)
+.......+|+|.||-.+.+ +++|++.|++||+|++|.|+.+. ++..+|++||+
T Consensus 101 ~~~~~~~~~LfVgnLp~~~t-------------------------e~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVe 155 (346)
T TIGR01659 101 NDTNNSGTNLIVNYLPQDMT-------------------------DRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVD 155 (346)
T ss_pred cCCCCCCcEEEEeCCCCCCC-------------------------HHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEE
Confidence 45556677888888765422 27899999999999999998774 56789999999
Q ss_pred eCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 174 FREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 174 F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
|.++++|.+|+..|||..+.|++|.|.++.
T Consensus 156 F~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~ 185 (346)
T TIGR01659 156 FGSEADSQRAIKNLNGITVRNKRLKVSYAR 185 (346)
T ss_pred EccHHHHHHHHHHcCCCccCCceeeeeccc
Confidence 999999999999999999999999999864
No 23
>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=99.03 E-value=2.4e-09 Score=77.29 Aligned_cols=61 Identities=41% Similarity=0.691 Sum_probs=56.2
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEe
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEF 201 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vef 201 (324)
++|...|..||.|..+.+..+....+.|++||+|.+.++|..|++.|+|..|+|+.|.|.+
T Consensus 14 ~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 14 EDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred HHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 6899999999999999998876556799999999999999999999999999999999864
No 24
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.02 E-value=2.1e-09 Score=100.28 Aligned_cols=64 Identities=27% Similarity=0.376 Sum_probs=59.8
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
.||.+.|-+||.|..|.|..|. ++.++||+||.|.+.++|++||..|||.-|+.-.|.|+++..
T Consensus 204 ~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP 268 (270)
T KOG0122|consen 204 DDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKP 268 (270)
T ss_pred hHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCC
Confidence 6888899999999999999985 567999999999999999999999999999999999999865
No 25
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.00 E-value=1.7e-09 Score=89.65 Aligned_cols=84 Identities=19% Similarity=0.340 Sum_probs=70.2
Q ss_pred CCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeC
Q 040106 96 NRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFR 175 (324)
Q Consensus 96 ~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~ 175 (324)
..|...+.|.|+||-..-. .|++.+.|.+||+|..|.|-... .-+|.+||.|+
T Consensus 13 lppevnriLyirNLp~~IT-------------------------seemydlFGkyg~IrQIRiG~~k--~TrGTAFVVYe 65 (124)
T KOG0114|consen 13 LPPEVNRILYIRNLPFKIT-------------------------SEEMYDLFGKYGTIRQIRIGNTK--ETRGTAFVVYE 65 (124)
T ss_pred CChhhheeEEEecCCcccc-------------------------HHHHHHHhhcccceEEEEecCcc--CcCceEEEEeh
Confidence 4567888999999876421 27899999999999999993321 24899999999
Q ss_pred cHHHHHHHHHHhcCCeeCCeEEEEEeecCCC
Q 040106 176 EEEQAAAALHALQGRFYSGRPIIVEFSPVTD 206 (324)
Q Consensus 176 s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~ 206 (324)
+..+|.+|++.|+|..++++.+.|-|....+
T Consensus 66 di~dAk~A~dhlsg~n~~~ryl~vlyyq~~~ 96 (124)
T KOG0114|consen 66 DIFDAKKACDHLSGYNVDNRYLVVLYYQPED 96 (124)
T ss_pred HhhhHHHHHHHhcccccCCceEEEEecCHHH
Confidence 9999999999999999999999999975543
No 26
>smart00360 RRM RNA recognition motif.
Probab=98.99 E-value=2.3e-09 Score=76.59 Aligned_cols=60 Identities=38% Similarity=0.632 Sum_probs=54.6
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEE
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVE 200 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~ve 200 (324)
+||...|+.||+|..|.|..+. ++.+.|++||+|.+.++|..|+..|+|..|.|+.|.|.
T Consensus 11 ~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 11 EELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred HHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 7899999999999999998875 35689999999999999999999999999999999873
No 27
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=98.97 E-value=2.1e-09 Score=110.39 Aligned_cols=66 Identities=27% Similarity=0.417 Sum_probs=61.5
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCC
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTD 206 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~ 206 (324)
++|++.|++||.|.+|.|..+..+..+|++||+|.+.++|.+|+..|||.+|+|++|.|.++....
T Consensus 300 ~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~k~ 365 (562)
T TIGR01628 300 EKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQRKE 365 (562)
T ss_pred HHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccCcH
Confidence 689999999999999999988777899999999999999999999999999999999999986543
No 28
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.95 E-value=1.9e-09 Score=109.66 Aligned_cols=83 Identities=23% Similarity=0.413 Sum_probs=73.0
Q ss_pred CCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHH
Q 040106 101 SPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQA 180 (324)
Q Consensus 101 S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA 180 (324)
-+-|+|+||-....- .||...|+.||.|.+|.||.+..+.+.||+||+|....+|
T Consensus 117 k~rLIIRNLPf~~k~-------------------------~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA 171 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKK-------------------------PDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDA 171 (678)
T ss_pred cceEEeecCCcccCc-------------------------HHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHH
Confidence 456999999775431 5899999999999999999998889999999999999999
Q ss_pred HHHHHHhcCCeeCCeEEEEEeecC-CCch
Q 040106 181 AAALHALQGRFYSGRPIIVEFSPV-TDFR 208 (324)
Q Consensus 181 ~~Ai~~LnGR~f~GR~I~vefs~v-~~f~ 208 (324)
..|++.|||..|+||+|-|+|+-. +.|.
T Consensus 172 ~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye 200 (678)
T KOG0127|consen 172 EKALEFFNGNKIDGRPVAVDWAVDKDTYE 200 (678)
T ss_pred HHHHHhccCceecCceeEEeeeccccccc
Confidence 999999999999999999999744 4454
No 29
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=98.92 E-value=4.8e-09 Score=104.54 Aligned_cols=79 Identities=24% Similarity=0.378 Sum_probs=68.7
Q ss_pred CCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCC-CCceeEEEEEeCcHHH
Q 040106 101 SPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLA-DHMIGNVYVQFREEEQ 179 (324)
Q Consensus 101 S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~-~~~~G~vyV~F~s~ed 179 (324)
+.+|+|.||-... + +++|.+.|++||.|..|.|+.+.. +..+|++||+|.+.++
T Consensus 186 ~~~l~v~nl~~~~--------------t-----------e~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~ 240 (457)
T TIGR01622 186 FLKLYVGNLHFNI--------------T-----------EQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEE 240 (457)
T ss_pred CCEEEEcCCCCCC--------------C-----------HHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHH
Confidence 6889999986532 1 268889999999999999987754 4789999999999999
Q ss_pred HHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 180 AAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 180 A~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
|.+|+..|||..+.|++|.|.|+..
T Consensus 241 A~~A~~~l~g~~i~g~~i~v~~a~~ 265 (457)
T TIGR01622 241 AKEALEVMNGFELAGRPIKVGYAQD 265 (457)
T ss_pred HHHHHHhcCCcEECCEEEEEEEccC
Confidence 9999999999999999999999753
No 30
>PLN03120 nucleic acid binding protein; Provisional
Probab=98.89 E-value=8.4e-09 Score=97.57 Aligned_cols=75 Identities=24% Similarity=0.275 Sum_probs=65.3
Q ss_pred CCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHH
Q 040106 101 SPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQA 180 (324)
Q Consensus 101 S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA 180 (324)
..||.+.||-.... ++||++.|+.||+|++|.|+.+.. ..||+||+|.++++|
T Consensus 4 ~rtVfVgNLs~~tT-------------------------E~dLrefFS~~G~I~~V~I~~d~~--~~GfAFVtF~d~eaA 56 (260)
T PLN03120 4 VRTVKVSNVSLKAT-------------------------ERDIKEFFSFSGDIEYVEMQSENE--RSQIAYVTFKDPQGA 56 (260)
T ss_pred CCEEEEeCCCCCCC-------------------------HHHHHHHHHhcCCeEEEEEeecCC--CCCEEEEEeCcHHHH
Confidence 56899998876432 278999999999999999987743 479999999999999
Q ss_pred HHHHHHhcCCeeCCeEEEEEeec
Q 040106 181 AAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 181 ~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
..|+. |||..|.|++|.|..+.
T Consensus 57 e~All-LnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 57 ETALL-LSGATIVDQSVTITPAE 78 (260)
T ss_pred HHHHH-hcCCeeCCceEEEEecc
Confidence 99995 99999999999999964
No 31
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.86 E-value=1.4e-08 Score=102.42 Aligned_cols=64 Identities=20% Similarity=0.403 Sum_probs=58.6
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
++|.+.|++||.|..|.|+.+. ++..+|+|||+|.+.++|..|+..|||..+.|+.|.|.++..
T Consensus 310 ~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~ 374 (509)
T TIGR01642 310 DQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACV 374 (509)
T ss_pred HHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECcc
Confidence 7899999999999999998774 566899999999999999999999999999999999999743
No 32
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.85 E-value=1.3e-08 Score=103.48 Aligned_cols=60 Identities=23% Similarity=0.344 Sum_probs=56.1
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
++|++.|+.||.|.+|.|+.+ .+|++||+|.+.++|..|+..|||..+.|++|.|.++..
T Consensus 291 ~~L~~lF~~yG~V~~vki~~~----~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~ 350 (481)
T TIGR01649 291 DRLFNLFCVYGNVERVKFMKN----KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQ 350 (481)
T ss_pred HHHHHHHHhcCCeEEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccc
Confidence 689999999999999999886 379999999999999999999999999999999999754
No 33
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.85 E-value=9.9e-09 Score=104.29 Aligned_cols=75 Identities=24% Similarity=0.366 Sum_probs=65.4
Q ss_pred CCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHH
Q 040106 100 ISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQ 179 (324)
Q Consensus 100 ~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~ed 179 (324)
+|+||+|+||-..-. ++||.+.|++||+|.+|.|+.. +|++||+|.+.++
T Consensus 1 ps~vv~V~nLp~~~t-------------------------e~~L~~~f~~fG~V~~v~i~~~-----k~~afVef~~~e~ 50 (481)
T TIGR01649 1 PSPVVHVRNLPQDVV-------------------------EADLVEALIPFGPVSYVMMLPG-----KRQALVEFEDEES 50 (481)
T ss_pred CccEEEEcCCCCCCC-------------------------HHHHHHHHHhcCCeeEEEEECC-----CCEEEEEeCchHH
Confidence 589999999877422 2789999999999999999864 6899999999999
Q ss_pred HHHHHHHh--cCCeeCCeEEEEEeecC
Q 040106 180 AAAALHAL--QGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 180 A~~Ai~~L--nGR~f~GR~I~vefs~v 204 (324)
|.+|++.| |+..+.|++|.|.|+..
T Consensus 51 A~~Ai~~~~~~~~~l~g~~l~v~~s~~ 77 (481)
T TIGR01649 51 AKACVNFATSVPIYIRGQPAFFNYSTS 77 (481)
T ss_pred HHHHHHHhhcCCceEcCeEEEEEecCC
Confidence 99999975 78999999999999853
No 34
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=98.83 E-value=7.2e-09 Score=88.82 Aligned_cols=78 Identities=24% Similarity=0.362 Sum_probs=67.8
Q ss_pred CCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHH
Q 040106 100 ISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEE 178 (324)
Q Consensus 100 ~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~e 178 (324)
.|.||.+.||..-.. +|.|.+.|++.|+|..|.+=-|. .-.+.||+||+|.+.+
T Consensus 35 ~S~tvyVgNlSfytt-------------------------EEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~ 89 (153)
T KOG0121|consen 35 KSCTVYVGNLSFYTT-------------------------EEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRD 89 (153)
T ss_pred hcceEEEeeeeeeec-------------------------HHHHHHHHHhccchheeEeccccCCcCccceEEEEEecch
Confidence 588999999987422 37899999999999999984443 3448999999999999
Q ss_pred HHHHHHHHhcCCeeCCeEEEEEee
Q 040106 179 QAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 179 dA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
+|..|++.+||..++.++|.+++-
T Consensus 90 dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 90 DAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred hHHHHHHHhccCcccccceeeecc
Confidence 999999999999999999999985
No 35
>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=98.83 E-value=3.7e-08 Score=103.06 Aligned_cols=63 Identities=16% Similarity=0.183 Sum_probs=58.1
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
++|++.|++||+|+++.|..+. ++..+||+||+|.+.++|.+|+..|||..++|+.|.|.++.
T Consensus 219 edLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi 282 (612)
T TIGR01645 219 TDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 282 (612)
T ss_pred HHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecC
Confidence 6899999999999999998875 45689999999999999999999999999999999999863
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=98.82 E-value=1.5e-08 Score=104.23 Aligned_cols=63 Identities=24% Similarity=0.520 Sum_probs=58.7
Q ss_pred HHHHHHHhccCCeeEEEEeeCCC-CCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 141 EDIFEELSKFGEIECLNVCDNLA-DHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~-~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
++|++.|++||+|.+|.|+.+.. .+..|++||+|.+.++|.+|+..||+..+.|++|.|.++.
T Consensus 15 ~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~ 78 (562)
T TIGR01628 15 AKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQ 78 (562)
T ss_pred HHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccc
Confidence 78999999999999999998864 6789999999999999999999999999999999998874
No 37
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.80 E-value=2.7e-08 Score=87.51 Aligned_cols=63 Identities=30% Similarity=0.525 Sum_probs=59.3
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
++|.+.|.+||.|..|.|..+. .+..+|++||+|.+.++|..|+..|+|..|.|++|.|.+..
T Consensus 130 ~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 130 EDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred HHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 7899999999999999998874 67899999999999999999999999999999999999965
No 38
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.79 E-value=7.9e-09 Score=97.80 Aligned_cols=67 Identities=22% Similarity=0.428 Sum_probs=61.1
Q ss_pred HHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCC
Q 040106 140 YEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTD 206 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~ 206 (324)
+|+|++.|.+||+|.+.+|+++. +.+++|++||.|-+-++|+.||..|||.|+++|.|+-.++.-..
T Consensus 76 ~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp 143 (321)
T KOG0148|consen 76 NEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKP 143 (321)
T ss_pred hHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCc
Confidence 37999999999999999998874 67899999999999999999999999999999999988875443
No 39
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.79 E-value=7.1e-09 Score=89.62 Aligned_cols=66 Identities=26% Similarity=0.437 Sum_probs=59.8
Q ss_pred HhHHHHHHHHHhccCCeeEEEEeeC-CCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCDN-LADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~n-~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
++.++||.+.|+.||+|++|++--+ .++-++|++.|+|++.++|++|+.+|||..+-|..|.|+|+
T Consensus 83 EatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~ 149 (170)
T KOG0130|consen 83 EATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWC 149 (170)
T ss_pred chhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEE
Confidence 3456899999999999999999544 46779999999999999999999999999999999999997
No 40
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=98.73 E-value=2e-08 Score=97.10 Aligned_cols=62 Identities=24% Similarity=0.286 Sum_probs=57.8
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
-||...|++||+|.+|.|+-|.. .++||+||+|++.+||.+|-.+|||..+.||+|.|.-+.
T Consensus 111 pDL~aMF~kfG~VldVEIIfNER-GSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~AT 172 (376)
T KOG0125|consen 111 PDLRAMFEKFGKVLDVEIIFNER-GSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNAT 172 (376)
T ss_pred ccHHHHHHhhCceeeEEEEeccC-CCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccc
Confidence 58999999999999999999853 389999999999999999999999999999999998864
No 41
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.73 E-value=4.7e-08 Score=101.83 Aligned_cols=74 Identities=24% Similarity=0.366 Sum_probs=63.5
Q ss_pred CCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhcc--CCeeEEEEeeCCCCCceeEEEEEeCcH
Q 040106 100 ISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKF--GEIECLNVCDNLADHMIGNVYVQFREE 177 (324)
Q Consensus 100 ~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kf--G~I~~V~V~~n~~~~~~G~vyV~F~s~ 177 (324)
.+.+|+|.||-..- + +++|+++|++| |.|++|.+. +|++||+|.+.
T Consensus 232 ~~k~LfVgNL~~~~--------------t-----------ee~L~~~F~~f~~G~I~rV~~~-------rgfAFVeF~s~ 279 (578)
T TIGR01648 232 KVKILYVRNLMTTT--------------T-----------EEIIEKSFSEFKPGKVERVKKI-------RDYAFVHFEDR 279 (578)
T ss_pred cccEEEEeCCCCCC--------------C-----------HHHHHHHHHhcCCCceEEEEee-------cCeEEEEeCCH
Confidence 35789999886532 2 26899999999 999999875 56999999999
Q ss_pred HHHHHHHHHhcCCeeCCeEEEEEeecCC
Q 040106 178 EQAAAALHALQGRFYSGRPIIVEFSPVT 205 (324)
Q Consensus 178 edA~~Ai~~LnGR~f~GR~I~vefs~v~ 205 (324)
++|.+|++.|||..|+|+.|.|+++...
T Consensus 280 e~A~kAi~~lnG~~i~Gr~I~V~~Akp~ 307 (578)
T TIGR01648 280 EDAVKAMDELNGKELEGSEIEVTLAKPV 307 (578)
T ss_pred HHHHHHHHHhCCCEECCEEEEEEEccCC
Confidence 9999999999999999999999998553
No 42
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.70 E-value=4.7e-08 Score=101.80 Aligned_cols=82 Identities=20% Similarity=0.230 Sum_probs=68.6
Q ss_pred CCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeC
Q 040106 96 NRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFR 175 (324)
Q Consensus 96 ~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~ 175 (324)
..|....+|+|.||-.+-. +++|.+.|++||+|.+|.|+.+.++..+||+||+|.
T Consensus 53 ~~p~~~~~lFVgnLp~~~t-------------------------Ed~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~ 107 (578)
T TIGR01648 53 VQPGRGCEVFVGKIPRDLY-------------------------EDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFC 107 (578)
T ss_pred CCCCCCCEEEeCCCCCCCC-------------------------HHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeC
Confidence 3455667899998876422 278999999999999999988877889999999999
Q ss_pred cHHHHHHHHHHhcCCeeC-CeEEEEEee
Q 040106 176 EEEQAAAALHALQGRFYS-GRPIIVEFS 202 (324)
Q Consensus 176 s~edA~~Ai~~LnGR~f~-GR~I~vefs 202 (324)
+.++|++|++.|||..+. |+.|.|..+
T Consensus 108 ~~e~A~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 108 GKEEAKEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred CHHHHHHHHHHcCCCeecCCcccccccc
Confidence 999999999999999885 787766543
No 43
>PLN03121 nucleic acid binding protein; Provisional
Probab=98.67 E-value=9.5e-08 Score=89.50 Aligned_cols=75 Identities=17% Similarity=0.266 Sum_probs=63.8
Q ss_pred CCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHH
Q 040106 101 SPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQA 180 (324)
Q Consensus 101 S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA 180 (324)
.-||++.||-.... ++||++.|+.||+|.+|.|+.+. ...|++||+|.++++|
T Consensus 5 g~TV~V~NLS~~tT-------------------------E~dLrefFS~~G~I~~V~I~~D~--et~gfAfVtF~d~~aa 57 (243)
T PLN03121 5 GYTAEVTNLSPKAT-------------------------EKDVYDFFSHCGAIEHVEIIRSG--EYACTAYVTFKDAYAL 57 (243)
T ss_pred ceEEEEecCCCCCC-------------------------HHHHHHHHHhcCCeEEEEEecCC--CcceEEEEEECCHHHH
Confidence 45888888876432 37999999999999999998873 3468999999999999
Q ss_pred HHHHHHhcCCeeCCeEEEEEeec
Q 040106 181 AAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 181 ~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
..|+ .|||..+.+++|.|.-+.
T Consensus 58 etAl-lLnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 58 ETAV-LLSGATIVDQRVCITRWG 79 (243)
T ss_pred HHHH-hcCCCeeCCceEEEEeCc
Confidence 9998 799999999999988753
No 44
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.66 E-value=6.7e-08 Score=89.19 Aligned_cols=82 Identities=28% Similarity=0.524 Sum_probs=70.1
Q ss_pred CCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHH
Q 040106 100 ISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQ 179 (324)
Q Consensus 100 ~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~ed 179 (324)
+..||+|.||-+.-. . +++..-|...|+.||+|.+|.++.. .+++|-|||.|.+++.
T Consensus 8 pn~TlYInnLnekI~--------------~-------~elkrsL~~LFsqfG~ildI~a~kt--~KmRGQA~VvFk~~~~ 64 (221)
T KOG4206|consen 8 PNGTLYINNLNEKIK--------------K-------DELKRSLYLLFSQFGKILDISAFKT--PKMRGQAFVVFKETEA 64 (221)
T ss_pred CCceEeehhcccccc--------------H-------HHHHHHHHHHHHhhCCeEEEEecCC--CCccCceEEEecChhH
Confidence 344999999877422 1 4556788889999999999998764 4689999999999999
Q ss_pred HHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 180 AAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 180 A~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
|..|+.+|+|..|-|+++.+.|+..
T Consensus 65 As~A~r~l~gfpFygK~mriqyA~s 89 (221)
T KOG4206|consen 65 ASAALRALQGFPFYGKPMRIQYAKS 89 (221)
T ss_pred HHHHHHHhcCCcccCchhheecccC
Confidence 9999999999999999999999854
No 45
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=2.1e-07 Score=91.06 Aligned_cols=95 Identities=22% Similarity=0.405 Sum_probs=77.2
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec-CCC--chhhh---hc
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP-VTD--FREAT---CR 213 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~-v~~--f~ea~---C~ 213 (324)
|||.-.|+.||+|.++.|..+. ++.+.-++||+|++.+++++|+-.|++..++.|.|+|+|+. |.. |+.-- -.
T Consensus 254 eDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQSVsk~k~r~k~~~~~~ 333 (479)
T KOG0415|consen 254 EDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQSVSKVKYRQKGSQKET 333 (479)
T ss_pred cchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhhhhhhhcccccccccc
Confidence 6888999999999999999884 55577899999999999999999999999999999999974 333 44321 12
Q ss_pred ccccCCCCCCCCCCcccccccC
Q 040106 214 QFEENNCNRGGYCNFMHVKLIG 235 (324)
Q Consensus 214 ~~~~g~C~rG~~Cnf~H~~~~~ 235 (324)
.+-.-.|..|..-+|.|-.++.
T Consensus 334 d~~~~d~~~~~~~k~~~kd~~~ 355 (479)
T KOG0415|consen 334 DHRAKDCVGGPSSKFIHKDQNR 355 (479)
T ss_pred chhhhccccCCcccchhccCCC
Confidence 2233458899999999988775
No 46
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.60 E-value=1.6e-07 Score=91.34 Aligned_cols=126 Identities=23% Similarity=0.415 Sum_probs=86.5
Q ss_pred cccccccccccccCCCcCCCCCCCCCCCCeeEeccccCCCCC------------------CCCCCCCCCCCCChhHHHhh
Q 040106 74 VNCPFYFKIGACRHGDRCSRLHNRPTISPTLLLSNMYQRPDM------------------ITPGVDAQGQPIDPRKIQEH 135 (324)
Q Consensus 74 vnC~Fy~K~GACRhGd~CSr~H~~P~~S~tLlL~NMy~~p~~------------------~~~~~d~~~~eld~eel~~~ 135 (324)
..|+||.+ |.|--|..|+..|.+| ..--|.+.|+-++.-. +.+.-|.....|--..+..
T Consensus 162 ~Icsf~v~-geckRG~ec~yrhEkp-~d~~L~~qni~dryyg~ndPva~kil~ra~~~~~lepPeD~~I~tLyIg~l~d- 238 (377)
T KOG0153|consen 162 HICSFFVK-GECKRGAECPYRHEKP-PDDPLSLQNIKDRYYGLNDPVALKILNRAGSAGTLEPPEDTSIKTLYIGGLND- 238 (377)
T ss_pred ccccceee-ccccccccccccccCC-CCcchhhcccccccccccChHHHHHHhhcccccccCCCcccceeEEEeccccc-
Confidence 77999887 4999999999999999 4434666665443210 1111111110000000111
Q ss_pred HHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHh-cCCeeCCeEEEEEeecCCCchhh
Q 040106 136 FEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHAL-QGRFYSGRPIIVEFSPVTDFREA 210 (324)
Q Consensus 136 fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~L-nGR~f~GR~I~vefs~v~~f~ea 210 (324)
..++.||...|.+||+|..|.|... .|.|||+|.+-++|+.|...+ |--.++|+.|.+.+... |+.+
T Consensus 239 -~v~e~dIrdhFyqyGeirsi~~~~~-----~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~--~~~a 306 (377)
T KOG0153|consen 239 -EVLEQDIRDHFYQYGEIRSIRILPR-----KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP--KQAA 306 (377)
T ss_pred -chhHHHHHHHHhhcCCeeeEEeecc-----cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC--cccc
Confidence 4456899999999999999999764 789999999999999877665 55567999999998765 5443
No 47
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.58 E-value=6.2e-09 Score=93.79 Aligned_cols=63 Identities=24% Similarity=0.368 Sum_probs=59.0
Q ss_pred HHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 140 YEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
+.||...|++||+|++|.++++. ++.++||||+.|+++.+..-|+..|||-.+.||.|.|+..
T Consensus 49 EgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv 112 (219)
T KOG0126|consen 49 EGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV 112 (219)
T ss_pred CCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence 36899999999999999999885 6789999999999999999999999999999999999874
No 48
>PLN03213 repressor of silencing 3; Provisional
Probab=98.54 E-value=2.3e-07 Score=93.98 Aligned_cols=61 Identities=13% Similarity=0.336 Sum_probs=55.2
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcH--HHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREE--EQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~--edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
+||...|+.||.|.+|.|++. ++ +||+||+|.+. .++.+||..|||..+.|+.|.|.-+.+
T Consensus 25 DDLravFSeFGsVkdVEIpRE-TG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP 87 (759)
T PLN03213 25 DDLLKIFSPMGTVDAVEFVRT-KG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE 87 (759)
T ss_pred HHHHHHHHhcCCeeEEEEecc-cC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence 799999999999999999944 33 99999999987 689999999999999999999998754
No 49
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.53 E-value=1.3e-07 Score=95.46 Aligned_cols=71 Identities=20% Similarity=0.324 Sum_probs=63.5
Q ss_pred hHHHHHHHHHhccCCeeEEEEeeC-CCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCch
Q 040106 138 DFYEDIFEELSKFGEIECLNVCDN-LADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFR 208 (324)
Q Consensus 138 ~~~eDV~eEf~kfG~I~~V~V~~n-~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ 208 (324)
..+++|...|+..|.|.+++++.+ .++.++||+|++|.++++|..|+..|||..|.||+|.|.|..-.+-+
T Consensus 30 ~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~~~~ 101 (435)
T KOG0108|consen 30 GSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNRKNA 101 (435)
T ss_pred ccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccccchh
Confidence 344789999999999999999777 46889999999999999999999999999999999999998665543
No 50
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.52 E-value=3.1e-07 Score=91.10 Aligned_cols=67 Identities=30% Similarity=0.506 Sum_probs=59.9
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchh
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFRE 209 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~e 209 (324)
.+|.+.|+.||+|+++.|..+..+ ++|+ ||+|+++++|.+|++.|||..+.|.+|.|.......++.
T Consensus 91 ~~~~d~f~~~g~ilS~kv~~~~~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~ 157 (369)
T KOG0123|consen 91 KSLYDTFSEFGNILSCKVATDENG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEERE 157 (369)
T ss_pred HHHHHHHHhhcCeeEEEEEEcCCC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhc
Confidence 578999999999999999988665 9999 999999999999999999999999999998865544443
No 51
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.46 E-value=3.4e-07 Score=91.57 Aligned_cols=76 Identities=26% Similarity=0.387 Sum_probs=65.5
Q ss_pred HhHHHHHHHHHhccCCeeEEEEeeC-CCCCceeEEEEEeCcHHHHHHHHHHhcCCee-CCeEEEEEeecCCCchhhhhcc
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCDN-LADHMIGNVYVQFREEEQAAAALHALQGRFY-SGRPIIVEFSPVTDFREATCRQ 214 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~n-~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f-~GR~I~vefs~v~~f~ea~C~~ 214 (324)
|.+++||...|++.|+|-+|.|+.+ .++..+|++||+|.+-++|+.||+.||+..| .|+.|-|..+ .+.|++
T Consensus 94 D~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~S------van~RL 167 (506)
T KOG0117|consen 94 DVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVS------VANCRL 167 (506)
T ss_pred cccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEe------eeccee
Confidence 3455899999999999999999877 6778999999999999999999999999887 6999999886 456777
Q ss_pred cccC
Q 040106 215 FEEN 218 (324)
Q Consensus 215 ~~~g 218 (324)
|..+
T Consensus 168 FiG~ 171 (506)
T KOG0117|consen 168 FIGN 171 (506)
T ss_pred Eecc
Confidence 6443
No 52
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.44 E-value=4.8e-07 Score=85.90 Aligned_cols=59 Identities=22% Similarity=0.376 Sum_probs=55.4
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
++|+..|+.||+|.+|.|.++ +|++||+|++.|+|..||..|||..+.|.+|.|.+-.+
T Consensus 179 ~~mr~~Fs~fG~I~EVRvFk~-----qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe 237 (321)
T KOG0148|consen 179 DLMRQTFSPFGPIQEVRVFKD-----QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKE 237 (321)
T ss_pred HHHHHhcccCCcceEEEEecc-----cceEEEEecchhhHHHHHHHhcCceeCceEEEEecccc
Confidence 689999999999999999986 89999999999999999999999999999999998544
No 53
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.42 E-value=6.5e-07 Score=89.62 Aligned_cols=61 Identities=25% Similarity=0.415 Sum_probs=55.5
Q ss_pred HhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
..++|-|.++|++||.|+.|+.+++ ++||.|.+-++|.+|++.|||..++|-+|.|.++..
T Consensus 270 ~tTeE~lk~~F~~~G~veRVkk~rD-------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP 330 (506)
T KOG0117|consen 270 STTEETLKKLFNEFGKVERVKKPRD-------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKP 330 (506)
T ss_pred hhhHHHHHHHHHhccceEEeecccc-------eeEEeecchHHHHHHHHHhcCceecCceEEEEecCC
Confidence 3445778889999999999999865 999999999999999999999999999999999854
No 54
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.42 E-value=6.8e-07 Score=91.34 Aligned_cols=79 Identities=25% Similarity=0.427 Sum_probs=67.9
Q ss_pred CCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcH
Q 040106 99 TISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREE 177 (324)
Q Consensus 99 ~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~ 177 (324)
+.-.||+|+||..+. .+|+|.++|++||+|.-+.|+.+. ++|+.|.+||.|.++
T Consensus 290 ~~~~tVFvRNL~fD~-------------------------tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~ 344 (678)
T KOG0127|consen 290 TEGKTVFVRNLPFDT-------------------------TEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQ 344 (678)
T ss_pred cccceEEEecCCccc-------------------------cHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccH
Confidence 345899999986643 348899999999999999988764 789999999999999
Q ss_pred HHHHHHHHHh-----cC-CeeCCeEEEEEee
Q 040106 178 EQAAAALHAL-----QG-RFYSGRPIIVEFS 202 (324)
Q Consensus 178 edA~~Ai~~L-----nG-R~f~GR~I~vefs 202 (324)
.+|++||.+. .| -.|+||.|.|..+
T Consensus 345 ~~~~~ci~~Aspa~e~g~~ll~GR~Lkv~~A 375 (678)
T KOG0127|consen 345 IAAQNCIEAASPASEDGSVLLDGRLLKVTLA 375 (678)
T ss_pred HHHHHHHHhcCccCCCceEEEeccEEeeeec
Confidence 9999999988 44 6789999999986
No 55
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.40 E-value=2.4e-06 Score=81.02 Aligned_cols=85 Identities=20% Similarity=0.343 Sum_probs=72.0
Q ss_pred CCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEe
Q 040106 96 NRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQF 174 (324)
Q Consensus 96 ~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F 174 (324)
+--..|+|-||-|-.. .. |++ |+|+..|...|+|++++++++. .+++-|++||.|
T Consensus 35 ~~t~~skTNLIvNYLP-Q~------------MTq-----------dE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNY 90 (360)
T KOG0145|consen 35 NDTDESKTNLIVNYLP-QN------------MTQ-----------DELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNY 90 (360)
T ss_pred CCcCcccceeeeeecc-cc------------cCH-----------HHHHHHhhcccceeeeeeeeccccccccccceeee
Confidence 3345788877777554 22 333 6899999999999999999885 688999999999
Q ss_pred CcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 175 REEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 175 ~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
-+++||++|+..|||-.+..+.|.|.|+..
T Consensus 91 v~p~DAe~AintlNGLrLQ~KTIKVSyARP 120 (360)
T KOG0145|consen 91 VRPKDAEKAINTLNGLRLQNKTIKVSYARP 120 (360)
T ss_pred cChHHHHHHHhhhcceeeccceEEEEeccC
Confidence 999999999999999999999999999855
No 56
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.38 E-value=8.7e-07 Score=80.38 Aligned_cols=80 Identities=20% Similarity=0.248 Sum_probs=65.5
Q ss_pred CCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHH
Q 040106 100 ISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQ 179 (324)
Q Consensus 100 ~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~ed 179 (324)
.+.+|.+.||-.+-- +.||.+.|.|||.|..|.|-... .+..|+||+|++..+
T Consensus 5 ~~~~iyvGNLP~diR-------------------------ekeieDlFyKyg~i~~ieLK~r~--g~ppfafVeFEd~RD 57 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIR-------------------------EKEIEDLFYKYGRIREIELKNRP--GPPPFAFVEFEDPRD 57 (241)
T ss_pred ccceEEecCCCcchh-------------------------hccHHHHHhhhcceEEEEeccCC--CCCCeeEEEecCccc
Confidence 467788888865321 14788888999999999985432 267899999999999
Q ss_pred HHHHHHHhcCCeeCCeEEEEEeecCCC
Q 040106 180 AAAALHALQGRFYSGRPIIVEFSPVTD 206 (324)
Q Consensus 180 A~~Ai~~LnGR~f~GR~I~vefs~v~~ 206 (324)
|+.||..-||--|+|-.|.|+|..-..
T Consensus 58 AeDAiygRdGYdydg~rLRVEfprggr 84 (241)
T KOG0105|consen 58 AEDAIYGRDGYDYDGCRLRVEFPRGGR 84 (241)
T ss_pred hhhhhhcccccccCcceEEEEeccCCC
Confidence 999999999999999999999975543
No 57
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.35 E-value=1.5e-06 Score=90.98 Aligned_cols=101 Identities=23% Similarity=0.306 Sum_probs=81.4
Q ss_pred hHHhHHHHHHHHHhccCCeeEEEEeeCCCC----CceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchhh
Q 040106 135 HFEDFYEDIFEELSKFGEIECLNVCDNLAD----HMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFREA 210 (324)
Q Consensus 135 ~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~----~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ea 210 (324)
.|++..+++...|.++|.|.+|.|...... -+.||+||+|.+.++|+.|+++|+|..++|..|.|.|+.... .+
T Consensus 524 nf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~--~~ 601 (725)
T KOG0110|consen 524 NFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKP--AS 601 (725)
T ss_pred CcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCcc--cc
Confidence 478889999999999999999998654322 256999999999999999999999999999999999998111 11
Q ss_pred hhcccccCCCCCCCCCCcccccccChhhhhh
Q 040106 211 TCRQFEENNCNRGGYCNFMHVKLIGRDLRNK 241 (324)
Q Consensus 211 ~C~~~~~g~C~rG~~Cnf~H~~~~~r~l~~~ 241 (324)
. ....|+.-..|+-+|++.++-....+
T Consensus 602 ~----~gK~~~~kk~~tKIlVRNipFeAt~r 628 (725)
T KOG0110|consen 602 T----VGKKKSKKKKGTKILVRNIPFEATKR 628 (725)
T ss_pred c----cccccccccccceeeeeccchHHHHH
Confidence 1 11467777779999999998766643
No 58
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=98.35 E-value=4.7e-07 Score=84.29 Aligned_cols=67 Identities=24% Similarity=0.309 Sum_probs=58.2
Q ss_pred HhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
++-.|+|+..|++||+|++.+|+.+. ++.++|++||+|.+.++|..|++..|= .+|||...|.++..
T Consensus 23 ~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~p-iIdGR~aNcnlA~l 90 (247)
T KOG0149|consen 23 ETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNP-IIDGRKANCNLASL 90 (247)
T ss_pred ccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCC-cccccccccchhhh
Confidence 44558999999999999998887664 678999999999999999999998885 58999999988755
No 59
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.33 E-value=7.6e-07 Score=88.88 Aligned_cols=70 Identities=29% Similarity=0.432 Sum_probs=61.7
Q ss_pred hHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCe-eCC--eEEEEEeecCCCc
Q 040106 138 DFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRF-YSG--RPIIVEFSPVTDF 207 (324)
Q Consensus 138 ~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~-f~G--R~I~vefs~v~~f 207 (324)
..+.||++.|++||.|+++.|..+..+.++|++||+|.+-+-|..|+++|||.+ ..| .+|.|.|+...+-
T Consensus 136 ~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkd 208 (510)
T KOG0144|consen 136 CTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKD 208 (510)
T ss_pred ccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCC
Confidence 446899999999999999999998777799999999999999999999999976 344 8999999866543
No 60
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.33 E-value=9.4e-07 Score=87.73 Aligned_cols=63 Identities=25% Similarity=0.500 Sum_probs=59.6
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
+.+|++.|+.+|+|++|.||.+. + +.|++||.|.++.+|.+|++.||...+.|++|.+.++..
T Consensus 12 e~~l~~~f~~~~~v~s~rvc~d~-t-slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~r 74 (369)
T KOG0123|consen 12 EAMLFDKFSPAGPVLSIRVCRDA-T-SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQR 74 (369)
T ss_pred hHHHHHHhcccCCceeEEEeecC-C-ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhcc
Confidence 47899999999999999999998 6 999999999999999999999999999999999988754
No 61
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.33 E-value=8.1e-07 Score=85.09 Aligned_cols=97 Identities=19% Similarity=0.336 Sum_probs=75.3
Q ss_pred HHHHhCCCCCCcccccccccccccCCCcCCCCCCCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHH
Q 040106 63 LASIFGTEKDRVNCPFYFKIGACRHGDRCSRLHNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYED 142 (324)
Q Consensus 63 l~~~~gte~d~vnC~Fy~K~GACRhGd~CSr~H~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eD 142 (324)
+...+|.-.+.+|.- ...|+.- -..|.+|.+.|+-+.-.. ++
T Consensus 53 irNLhgYtLhg~nIn-----------VeaSksK--sk~stkl~vgNis~tctn-------------------------~E 94 (346)
T KOG0109|consen 53 IRNLHGYTLHGVNIN-----------VEASKSK--SKASTKLHVGNISPTCTN-------------------------QE 94 (346)
T ss_pred HhhcccceecceEEE-----------EEecccc--CCCccccccCCCCccccC-------------------------HH
Confidence 444566666665432 1333322 356778888888775431 57
Q ss_pred HHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 143 IFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 143 V~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
|++.|++||+|.+..|+.+ ++||.|.-.++|..|++.|||+.|+|++++|.++..
T Consensus 95 lRa~fe~ygpviecdivkd-------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~sts 149 (346)
T KOG0109|consen 95 LRAKFEKYGPVIECDIVKD-------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTS 149 (346)
T ss_pred HhhhhcccCCceeeeeecc-------eeEEEEeeccchHHHHhcccccccccceeeeeeecc
Confidence 9999999999999999754 999999999999999999999999999999999854
No 62
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.32 E-value=2.7e-06 Score=80.66 Aligned_cols=63 Identities=21% Similarity=0.378 Sum_probs=58.3
Q ss_pred HHHHHHHhccCCeeEEEEeeCCC-CCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 141 EDIFEELSKFGEIECLNVCDNLA-DHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~-~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
.-|+..|+.||.|.+|+|.++.+ .+.+||+||...+.++|..|+..|||..+++|.|+|.|-.
T Consensus 293 ~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKt 356 (360)
T KOG0145|consen 293 SILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKT 356 (360)
T ss_pred hHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEec
Confidence 45888999999999999999865 6799999999999999999999999999999999999954
No 63
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.24 E-value=2.4e-06 Score=78.27 Aligned_cols=67 Identities=19% Similarity=0.350 Sum_probs=59.8
Q ss_pred HHHHHHHHHhcc-CCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCC
Q 040106 139 FYEDIFEELSKF-GEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVT 205 (324)
Q Consensus 139 ~~eDV~eEf~kf-G~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~ 205 (324)
++..|+..|..| |.|..+.+.+|. ++.++||+||+|++++.|.-|.+.||+..|.|+.|.|.|.|..
T Consensus 62 ~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe 130 (214)
T KOG4208|consen 62 FETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE 130 (214)
T ss_pred hHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence 345677788777 788888888885 6789999999999999999999999999999999999999887
No 64
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.19 E-value=1.4e-06 Score=80.84 Aligned_cols=67 Identities=24% Similarity=0.372 Sum_probs=58.4
Q ss_pred HHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCch
Q 040106 142 DIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFR 208 (324)
Q Consensus 142 DV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ 208 (324)
=|...|-.||.|.+|.|+-+. +.+-+||+||+|...+||.+|+..||+..+-||.|+|.|+.+..-.
T Consensus 26 vLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~kik 93 (298)
T KOG0111|consen 26 VLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPEKIK 93 (298)
T ss_pred HHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCcccc
Confidence 355678999999999998774 4568999999999999999999999999999999999998664433
No 65
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.18 E-value=2.2e-06 Score=87.56 Aligned_cols=70 Identities=26% Similarity=0.333 Sum_probs=63.9
Q ss_pred hhHHhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 134 EHFEDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 134 ~~fd~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
-||.-.+++|+..|+.||.|+.|.+..+. ++..+||+||+|.+.++|.+|+..|||-.++||.|.|....
T Consensus 286 LHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~ 356 (549)
T KOG0147|consen 286 LHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVT 356 (549)
T ss_pred cccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEee
Confidence 36777789999999999999999998886 77899999999999999999999999999999999987753
No 66
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.15 E-value=1.6e-06 Score=85.31 Aligned_cols=65 Identities=26% Similarity=0.371 Sum_probs=58.2
Q ss_pred HhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEe
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEF 201 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vef 201 (324)
+.-++.|+..|..||+|++|.+..+. +.+-+||+||+|+-++.|+-|++.|||..++||.|.|..
T Consensus 124 El~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr 189 (544)
T KOG0124|consen 124 ELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 189 (544)
T ss_pred EechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence 33346789999999999999997774 678999999999999999999999999999999999874
No 67
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.08 E-value=1.3e-05 Score=84.04 Aligned_cols=122 Identities=20% Similarity=0.306 Sum_probs=87.0
Q ss_pred HHHHHHHHhCCCCCC--cccccccccccccCCCcCCCCCCCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhH
Q 040106 59 MAEHLASIFGTEKDR--VNCPFYFKIGACRHGDRCSRLHNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHF 136 (324)
Q Consensus 59 ma~~l~~~~gte~d~--vnC~Fy~K~GACRhGd~CSr~H~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~f 136 (324)
.-.+|..+.||..|. +-|.|..-..+---|-+|+..- + ..-|+|+|+- |
T Consensus 573 A~~a~k~lqgtvldGH~l~lk~S~~k~~~~~gK~~~~kk---~-~tKIlVRNip-------------------------F 623 (725)
T KOG0110|consen 573 AQAALKALQGTVLDGHKLELKISENKPASTVGKKKSKKK---K-GTKILVRNIP-------------------------F 623 (725)
T ss_pred HHHHHHHhcCceecCceEEEEeccCcccccccccccccc---c-cceeeeeccc-------------------------h
Confidence 344677778999996 3333333111212223333111 1 2236666653 4
Q ss_pred HhHHHHHHHHHhccCCeeEEEEeeCCC-CCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchh
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCDNLA-DHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFRE 209 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~n~~-~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~e 209 (324)
+..+.+|+..|..||.|.+|.|+.-.. .-.+||+||+|-+..+|..|+++|.+.-|-||.|.++|+..+.-.+
T Consensus 624 eAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d~~~e 697 (725)
T KOG0110|consen 624 EATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKSDNTME 697 (725)
T ss_pred HHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhccchHHH
Confidence 556689999999999999999998732 3369999999999999999999999999999999999997765544
No 68
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.04 E-value=6.6e-06 Score=74.38 Aligned_cols=63 Identities=27% Similarity=0.359 Sum_probs=57.3
Q ss_pred HHHHHHHhccCCeeEEEEeeCCC-CCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 141 EDIFEELSKFGEIECLNVCDNLA-DHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~-~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
+-|++.|-+.|+|++|+|+++.- ....||+||+|.++++|.-|++.||+-.+-||+|.|.-+.
T Consensus 24 ~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas 87 (203)
T KOG0131|consen 24 ELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS 87 (203)
T ss_pred HHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence 56788889999999999999863 4589999999999999999999999999999999998875
No 69
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.01 E-value=1.1e-05 Score=78.80 Aligned_cols=87 Identities=20% Similarity=0.444 Sum_probs=67.9
Q ss_pred HHHHhccCCeeEEEEeeCCC--CCce--eEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchhhhhcccccCC
Q 040106 144 FEELSKFGEIECLNVCDNLA--DHMI--GNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFREATCRQFEENN 219 (324)
Q Consensus 144 ~eEf~kfG~I~~V~V~~n~~--~~~~--G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ea~C~~~~~g~ 219 (324)
.+.|.+||.|..|+|-+... ..-. -=|||+|.+.+||..||.+.+|...|||.|.+.|-. +.| |-.|+.+.
T Consensus 138 ~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~lkatYGT-TKY----CtsYLRn~ 212 (480)
T COG5175 138 HEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVLKATYGT-TKY----CTSYLRNA 212 (480)
T ss_pred hhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceEeeecCc-hHH----HHHHHcCC
Confidence 45689999999999954421 1112 247999999999999999999999999999999953 333 88888886
Q ss_pred CCCCCCCCcccccccC
Q 040106 220 CNRGGYCNFMHVKLIG 235 (324)
Q Consensus 220 C~rG~~Cnf~H~~~~~ 235 (324)
-...+.|=|+|-..+-
T Consensus 213 ~CpNp~CMyLHEpg~e 228 (480)
T COG5175 213 VCPNPDCMYLHEPGPE 228 (480)
T ss_pred CCCCCCeeeecCCCcc
Confidence 4445789999976553
No 70
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=97.95 E-value=1.6e-05 Score=79.56 Aligned_cols=66 Identities=21% Similarity=0.427 Sum_probs=57.1
Q ss_pred HHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCe-eCC--eEEEEEeecCC
Q 040106 140 YEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRF-YSG--RPIIVEFSPVT 205 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~-f~G--R~I~vefs~v~ 205 (324)
+.||++.|++||.|.+|.|.++. ++..+|++||+|.+.++|.+|+.+|+..+ +-| -+|.|.|+..+
T Consensus 48 E~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E 117 (510)
T KOG0144|consen 48 EKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGE 117 (510)
T ss_pred HHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchh
Confidence 37999999999999999999986 45699999999999999999999998865 444 68888887543
No 71
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=97.92 E-value=2.8e-05 Score=80.17 Aligned_cols=63 Identities=22% Similarity=0.260 Sum_probs=58.0
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
-||+..|+|||+|+...|+.|. +...+.|+||+..+.++|.+||..|+-..+-||.|.|+-+.
T Consensus 420 tDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 420 TDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred hHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 5899999999999999999995 44578899999999999999999999999999999999863
No 72
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=97.87 E-value=2.8e-05 Score=74.76 Aligned_cols=58 Identities=21% Similarity=0.340 Sum_probs=53.7
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCC
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVT 205 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~ 205 (324)
.+|+..|++||+|+++.|++| ++||..++...|..|+..|||-.++|..|.|+-+...
T Consensus 17 ~elr~lFe~ygkVlECDIvKN-------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 17 QELRSLFEQYGKVLECDIVKN-------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred HHHHHHHHhhCceEeeeeecc-------cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 578899999999999999998 8899999999999999999999999999999987543
No 73
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=97.85 E-value=2.3e-05 Score=70.89 Aligned_cols=64 Identities=20% Similarity=0.410 Sum_probs=53.2
Q ss_pred HHHHHHHhccCCeeEE-EE-eeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 141 EDIFEELSKFGEIECL-NV-CDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V-~V-~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
.-+...|++||.|..- .| ..+.++.+.|++||.|.+.+.|.+|+.+|||.++..++|+|+|+--
T Consensus 111 ~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k 176 (203)
T KOG0131|consen 111 KLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFK 176 (203)
T ss_pred HHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEe
Confidence 3467788999998762 23 3334567999999999999999999999999999999999999743
No 74
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=97.85 E-value=3.5e-05 Score=73.50 Aligned_cols=67 Identities=27% Similarity=0.453 Sum_probs=58.4
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCe-eCC--eEEEEEeecCCC
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRF-YSG--RPIIVEFSPVTD 206 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~-f~G--R~I~vefs~v~~ 206 (324)
+|||+..|..||+|+++.|.....+.++|++||+|.+.-+|+.||.+|+|.. .-| -.|.|.|+..++
T Consensus 33 e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ADTdk 102 (371)
T KOG0146|consen 33 EDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFADTDK 102 (371)
T ss_pred HHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEeccchH
Confidence 4899999999999999999887777799999999999999999999999964 434 678889986554
No 75
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.73 E-value=2.2e-05 Score=80.55 Aligned_cols=55 Identities=29% Similarity=0.443 Sum_probs=50.0
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEE
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIV 199 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~v 199 (324)
++|...|+.||+|..|..-.+ ..|.|||+|-++.+|+.|+++||++.+.|+.|.+
T Consensus 90 ~~L~~~f~~yGeir~ir~t~~----~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k~ 144 (549)
T KOG4660|consen 90 DTLLRIFGAYGEIREIRETPN----KRGIVFVEFYDVRDAERALKALNRREIAGKRIKR 144 (549)
T ss_pred HHHHHHHHhhcchhhhhcccc----cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhcC
Confidence 689999999999999776544 5899999999999999999999999999999984
No 76
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.73 E-value=5.5e-05 Score=76.06 Aligned_cols=74 Identities=19% Similarity=0.313 Sum_probs=62.0
Q ss_pred CCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHH
Q 040106 100 ISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQ 179 (324)
Q Consensus 100 ~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~ed 179 (324)
-+.+|+|+||-.+.+ .+-|++.|..||.|.-..|..+ +..+| -|+|.++++
T Consensus 535 Ka~qIiirNlP~dfT-------------------------WqmlrDKfre~G~v~yadime~--GkskG--VVrF~s~ed 585 (608)
T KOG4212|consen 535 KACQIIIRNLPFDFT-------------------------WQMLRDKFREIGHVLYADIMEN--GKSKG--VVRFFSPED 585 (608)
T ss_pred cccEEEEecCCcccc-------------------------HHHHHHHHHhccceehhhhhcc--CCccc--eEEecCHHH
Confidence 356799998866543 3678899999999999988666 33566 799999999
Q ss_pred HHHHHHHhcCCeeCCeEEEEEee
Q 040106 180 AAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 180 A~~Ai~~LnGR~f~GR~I~vefs 202 (324)
|+.|+..|||..++||.|.|.|.
T Consensus 586 AEra~a~Mngs~l~Gr~I~V~y~ 608 (608)
T KOG4212|consen 586 AERACALMNGSRLDGRNIKVTYF 608 (608)
T ss_pred HHHHHHHhccCcccCceeeeeeC
Confidence 99999999999999999999984
No 77
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=97.70 E-value=9e-05 Score=78.67 Aligned_cols=57 Identities=19% Similarity=0.392 Sum_probs=53.3
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
.||...|+.||+|++|.|.-+ +|++||+...-.+|.+|+.+|+...++++.|.+.++
T Consensus 436 ~dL~~~feefGeiqSi~li~~-----R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa 492 (894)
T KOG0132|consen 436 QDLANLFEEFGEIQSIILIPP-----RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWA 492 (894)
T ss_pred HHHHHHHHhcccceeEeeccC-----CceeEEEEeehhHHHHHHHHHhcccccceeeEEeee
Confidence 799999999999999999765 899999999999999999999999999999988775
No 78
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.58 E-value=0.00015 Score=73.00 Aligned_cols=64 Identities=23% Similarity=0.385 Sum_probs=58.3
Q ss_pred HHHHHHHH-hccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 140 YEDIFEEL-SKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 140 ~eDV~eEf-~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
.+||++.+ +|-|+|+-|.+..+.+++++|++-|+|+++|.+++|++.||-..+.||+|.|.-.+
T Consensus 58 WqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~ 122 (608)
T KOG4212|consen 58 WQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDH 122 (608)
T ss_pred hHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccC
Confidence 35777777 79999999999999999999999999999999999999999999999999997654
No 79
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.54 E-value=3.6e-05 Score=71.50 Aligned_cols=80 Identities=19% Similarity=0.140 Sum_probs=67.1
Q ss_pred CCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcH
Q 040106 98 PTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREE 177 (324)
Q Consensus 98 P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~ 177 (324)
|..-.||++.|||...+ +|-|+|.|-.-|+|..|.|+.......+ ||||.|.++
T Consensus 6 ae~drtl~v~n~~~~v~-------------------------eelL~ElfiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E 59 (267)
T KOG4454|consen 6 AEMDRTLLVQNMYSGVS-------------------------EELLSELFIQAGPVYKVGIPSGQDQEQK-FAYVFFPNE 59 (267)
T ss_pred cchhhHHHHHhhhhhhh-------------------------HHHHHHHhhccCceEEEeCCCCccCCCc-eeeeecccc
Confidence 45667999999998432 1456677789999999999988665566 999999999
Q ss_pred HHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 178 EQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 178 edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
-...-|++.|||-.+-|++|.+.+-.
T Consensus 60 ~sv~~a~~L~ng~~l~~~e~q~~~r~ 85 (267)
T KOG4454|consen 60 NSVQLAGQLENGDDLEEDEEQRTLRC 85 (267)
T ss_pred cchhhhhhhcccchhccchhhccccc
Confidence 99999999999999999999998853
No 80
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.54 E-value=0.0003 Score=72.72 Aligned_cols=63 Identities=19% Similarity=0.260 Sum_probs=53.8
Q ss_pred HhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCe-EEEE
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGR-PIIV 199 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR-~I~v 199 (324)
+-|.--|...|+++|+|.++.++-+..+...|++|++|.++.+|+.|++.|||..++-. ...|
T Consensus 75 ~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v 138 (698)
T KOG2314|consen 75 EKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFV 138 (698)
T ss_pred HHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEEe
Confidence 34556677888999999999999877777999999999999999999999999998754 3444
No 81
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.51 E-value=7.7e-05 Score=69.84 Aligned_cols=62 Identities=26% Similarity=0.308 Sum_probs=55.9
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
++|..+|+-+|.|..|.|+.+. .+|++|++||+|.+.+.++.|+. |||..+.|++|.|.+..
T Consensus 116 ~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r 178 (231)
T KOG4209|consen 116 TKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKR 178 (231)
T ss_pred chhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeee
Confidence 5588999999999998886664 56799999999999999999999 99999999999999853
No 82
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.43 E-value=0.00095 Score=66.87 Aligned_cols=67 Identities=21% Similarity=0.369 Sum_probs=58.8
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchhhh
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFREAT 211 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ea~ 211 (324)
+-|+..|+-||.|..|.|..|. .-++.|+|.+...|+-|+..|+|..+-|++|+|.|+.-++-.-..
T Consensus 313 d~LftlFgvYGdVqRVkil~nk----kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~vqlp~ 379 (492)
T KOG1190|consen 313 DVLFTLFGVYGDVQRVKILYNK----KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNVQLPR 379 (492)
T ss_pred hHHHHHHhhhcceEEEEeeecC----CcceeeeecchhHHHHHHHHhhcceecCceEEEeeccCccccCCC
Confidence 5799999999999999999986 358999999999999999999999999999999998665544433
No 83
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=97.41 E-value=0.00033 Score=66.11 Aligned_cols=66 Identities=26% Similarity=0.446 Sum_probs=60.9
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCC
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTD 206 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~ 206 (324)
+||.+.|+.||.+..+.|..+..+.+.|.+=|.|..-+||..|++.+||.-++|+++.+.......
T Consensus 98 ~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~~ 163 (243)
T KOG0533|consen 98 ADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSPS 163 (243)
T ss_pred HHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCcc
Confidence 799999999999999999999888899999999999999999999999999999999998864433
No 84
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=97.39 E-value=0.00021 Score=68.33 Aligned_cols=65 Identities=18% Similarity=0.259 Sum_probs=57.0
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCC
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVT 205 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~ 205 (324)
.+|...|-.||.|++.+|.-+. ++.++-|+||.|.++.+|+.||.+|||-.++-+.|.|.+-...
T Consensus 300 aEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRPk 365 (371)
T KOG0146|consen 300 AELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRPK 365 (371)
T ss_pred HHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCcc
Confidence 5788899999999999986654 5679999999999999999999999999999899988875443
No 85
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.09 E-value=0.0013 Score=61.25 Aligned_cols=53 Identities=30% Similarity=0.532 Sum_probs=47.4
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEE
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIV 199 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~v 199 (324)
+.||.+.|..+|++....+ ..++++|+|++.++|..|+..|+|..+.|+.|.+
T Consensus 113 ~qdl~d~~~~~g~~~~~~~-------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 113 WQDLKDHFRPAGEVTYVDA-------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred HHHHhhhhcccCCCchhhh-------hccccceeehhhhhhhhcchhccchhhcCceeee
Confidence 3789999999999944444 3679999999999999999999999999999999
No 86
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.04 E-value=0.00036 Score=64.80 Aligned_cols=57 Identities=25% Similarity=0.421 Sum_probs=51.9
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
..||...|.+||.|.+|.+. .||+||.|.++.+|..|+..|||..|.|-.+.|++..
T Consensus 15 ~~d~E~~f~~yg~~~d~~mk-------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r 71 (216)
T KOG0106|consen 15 ERDVERFFKGYGKIPDADMK-------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHAR 71 (216)
T ss_pred hhHHHHHHhhccccccceee-------cccceeccCchhhhhcccchhcCceecceeeeeeccc
Confidence 47999999999999999874 6899999999999999999999999999888888864
No 87
>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=97.02 E-value=0.0033 Score=50.68 Aligned_cols=58 Identities=22% Similarity=0.322 Sum_probs=41.7
Q ss_pred HHHHHHHHHhccC-CeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCC
Q 040106 139 FYEDIFEELSKFG-EIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVT 205 (324)
Q Consensus 139 ~~eDV~eEf~kfG-~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~ 205 (324)
+.--|...+..+| .|.+|. .|.|.|.|.+++.|..|.+-|+|...-|+.|.|.|.+..
T Consensus 19 I~~RL~qLsdNCGGkVl~v~---------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~~ 77 (90)
T PF11608_consen 19 IKNRLRQLSDNCGGKVLSVS---------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPKN 77 (90)
T ss_dssp HHHHHHHHHHTTT--EEE-----------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--S
T ss_pred HHHHHHHHhhccCCEEEEEe---------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCCc
Confidence 3467788887776 677772 468999999999999999999999999999999998653
No 88
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=96.97 E-value=0.0016 Score=47.51 Aligned_cols=39 Identities=28% Similarity=0.580 Sum_probs=34.0
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHH
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAAL 184 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai 184 (324)
++|...|..||+|.++.+... .-.+||+|.+..+|++|+
T Consensus 15 ~~vl~~F~~fGeI~~~~~~~~-----~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 15 EEVLEHFASFGEIVDIYVPES-----TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred HHHHHHHHhcCCEEEEEcCCC-----CcEEEEEECCHHHHHhhC
Confidence 678889999999999999843 238999999999999985
No 89
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=96.87 E-value=0.0076 Score=49.45 Aligned_cols=82 Identities=12% Similarity=0.283 Sum_probs=59.4
Q ss_pred CeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCC-CceeEEEEEeCcHHHH
Q 040106 102 PTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLAD-HMIGNVYVQFREEEQA 180 (324)
Q Consensus 102 ~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~-~~~G~vyV~F~s~edA 180 (324)
.||+|+|+-.. ++.+.|. +.|-+.| .|...=+.+|-+... .-.|+|||-|.++++|
T Consensus 2 TTvMirNIPn~--------------~t~~~L~-------~~l~~~~--~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~ 58 (97)
T PF04059_consen 2 TTVMIRNIPNK--------------YTQEMLI-------QILDEHF--KGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAA 58 (97)
T ss_pred eeEEEecCCCC--------------CCHHHHH-------HHHHHhc--cCcceEEEeeeeccCCCceEEEEEEcCCHHHH
Confidence 38999998654 3444443 3333333 488888999877533 3689999999999999
Q ss_pred HHHHHHhcCCeeC----CeEEEEEeecCCC
Q 040106 181 AAALHALQGRFYS----GRPIIVEFSPVTD 206 (324)
Q Consensus 181 ~~Ai~~LnGR~f~----GR~I~vefs~v~~ 206 (324)
..-++.++|+... .+...+.|+.++.
T Consensus 59 ~~F~~~f~g~~w~~~~s~Kvc~i~yAriQG 88 (97)
T PF04059_consen 59 IRFYKAFNGKKWPNFNSKKVCEISYARIQG 88 (97)
T ss_pred HHHHHHHcCCccccCCCCcEEEEehhHhhC
Confidence 9999999998764 5666777765543
No 90
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=96.66 E-value=0.0089 Score=52.53 Aligned_cols=64 Identities=22% Similarity=0.564 Sum_probs=49.8
Q ss_pred HhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchh
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFRE 209 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~e 209 (324)
+.+..+|.+.|+.||+|.=|.+.. |..+|+|.+-+.|.+|+. |+|..+.|+.|.+.+-. .+|-.
T Consensus 47 d~l~~~ll~~~~~~GevvLvRfv~-------~~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKt-pdW~~ 110 (146)
T PF08952_consen 47 DNLMDELLQKFAQYGEVVLVRFVG-------DTMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKT-PDWLK 110 (146)
T ss_dssp HHHHHHHHHHHHCCS-ECEEEEET-------TCEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE--------
T ss_pred HHHHHHHHHHHHhCCceEEEEEeC-------CeEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCC-ccHHH
Confidence 457789999999999998887764 479999999999998885 99999999999999853 45654
No 91
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=96.66 E-value=0.0056 Score=50.50 Aligned_cols=61 Identities=20% Similarity=0.211 Sum_probs=43.5
Q ss_pred HHHHHHHhccCCeeEEE-EeeCC-------CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEE-EEEee
Q 040106 141 EDIFEELSKFGEIECLN-VCDNL-------ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPI-IVEFS 202 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~-V~~n~-------~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I-~vefs 202 (324)
..|..+|++||+|.+.. +..+. .......+.|+|.+..+|.+|+. -||..|+|-.| -|.+.
T Consensus 20 ~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~mvGV~~~ 89 (100)
T PF05172_consen 20 NQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLMVGVKPC 89 (100)
T ss_dssp HHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEEEEEEE-
T ss_pred HHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEEEEEEEc
Confidence 67999999999998875 11110 01124589999999999999996 89999998544 45554
No 92
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=96.49 E-value=0.0026 Score=60.48 Aligned_cols=58 Identities=21% Similarity=0.390 Sum_probs=49.5
Q ss_pred HHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEe
Q 040106 144 FEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEF 201 (324)
Q Consensus 144 ~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vef 201 (324)
-..|.||-.-..-.|.++. +++.+|+.||.|.+..++..|++.|||.+++.|+|.+.-
T Consensus 208 ~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk 266 (290)
T KOG0226|consen 208 ARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK 266 (290)
T ss_pred HHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence 3466777777777777764 678999999999999999999999999999999997654
No 93
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=96.36 E-value=0.0069 Score=61.40 Aligned_cols=61 Identities=20% Similarity=0.161 Sum_probs=50.0
Q ss_pred HHHHHHHHhccCCeeEEEEee-CCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEe
Q 040106 140 YEDIFEELSKFGEIECLNVCD-NLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEF 201 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~-n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vef 201 (324)
..+|.++|.+||+|+...|.. +..+....|+||+|.+.++++.|+.+- =-.++|+.|.|+-
T Consensus 302 ~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig~~kl~Vee 363 (419)
T KOG0116|consen 302 PAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-PLEIGGRKLNVEE 363 (419)
T ss_pred HHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-ccccCCeeEEEEe
Confidence 367999999999999988844 323444489999999999999999876 6678999999886
No 94
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=96.24 E-value=0.0032 Score=65.63 Aligned_cols=86 Identities=20% Similarity=0.264 Sum_probs=67.7
Q ss_pred CCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHh-ccCCeeEEEEeeCCCCCceeEEEEEeCcH
Q 040106 99 TISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELS-KFGEIECLNVCDNLADHMIGNVYVQFREE 177 (324)
Q Consensus 99 ~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~-kfG~I~~V~V~~n~~~~~~G~vyV~F~s~ 177 (324)
..|.+|.|.||.-...+ -.|+++|. ..|.|++++|.. .+-.+||.|.+.
T Consensus 442 ~~SnvlhI~nLvRPFTl-------------------------gQLkelL~rtgg~Vee~WmDk-----IKShCyV~yss~ 491 (718)
T KOG2416|consen 442 EPSNVLHIDNLVRPFTL-------------------------GQLKELLGRTGGNVEEFWMDK-----IKSHCYVSYSSV 491 (718)
T ss_pred CccceEeeecccccchH-------------------------HHHHHHHhhccCchHHHHHHH-----hhcceeEecccH
Confidence 36889999999986442 35888887 677888888754 467999999999
Q ss_pred HHHHHHHHHhcCC-ee--CCeEEEEEeecCCCchhhhhcc
Q 040106 178 EQAAAALHALQGR-FY--SGRPIIVEFSPVTDFREATCRQ 214 (324)
Q Consensus 178 edA~~Ai~~LnGR-~f--~GR~I~vefs~v~~f~ea~C~~ 214 (324)
++|.+...+|||- |- +++-|.|+|...++...++.++
T Consensus 492 eEA~atr~AlhnV~WP~sNPK~L~adf~~~deld~hr~~l 531 (718)
T KOG2416|consen 492 EEAAATREALHNVQWPPSNPKHLIADFVRADELDKHRNGL 531 (718)
T ss_pred HHHHHHHHHHhccccCCCCCceeEeeecchhHHHHHhccc
Confidence 9999999999995 43 6688999999887766555443
No 95
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.21 E-value=0.02 Score=56.47 Aligned_cols=63 Identities=19% Similarity=0.276 Sum_probs=56.5
Q ss_pred HHHHHHHhccCCee--------EEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 141 EDIFEELSKFGEIE--------CLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG~I~--------~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
+++.++|+|+|-|. .|.|..+..++++|-+-+.|...++..-|++.|++..|.|+.|+|+-+.
T Consensus 149 dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAk 219 (382)
T KOG1548|consen 149 DEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAK 219 (382)
T ss_pred HHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhh
Confidence 67888999999884 3677777779999999999999999999999999999999999998864
No 96
>smart00356 ZnF_C3H1 zinc finger.
Probab=95.94 E-value=0.0045 Score=38.09 Aligned_cols=25 Identities=28% Similarity=0.828 Sum_probs=22.1
Q ss_pred chhhhhcccccCCCCCCCCCCcccc
Q 040106 207 FREATCRQFEENNCNRGGYCNFMHV 231 (324)
Q Consensus 207 f~ea~C~~~~~g~C~rG~~Cnf~H~ 231 (324)
++...|..|..|.|..|..|.|+|.
T Consensus 2 ~k~~~C~~~~~g~C~~g~~C~~~H~ 26 (27)
T smart00356 2 YKTELCKFFKRGYCPYGDRCKFAHP 26 (27)
T ss_pred CCCCcCcCccCCCCCCCCCcCCCCc
Confidence 4556899999999999999999996
No 97
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=95.83 E-value=0.015 Score=48.05 Aligned_cols=58 Identities=31% Similarity=0.470 Sum_probs=37.7
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCC-----eeCCeEEEEEee
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGR-----FYSGRPIIVEFS 202 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR-----~f~GR~I~vefs 202 (324)
.++|++.|++||+|.-|.+... .-.+||.|.+.++|+.|+..+.-. .+.+..++++..
T Consensus 15 re~iK~~f~~~g~V~yVD~~~G-----~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vL 77 (105)
T PF08777_consen 15 REDIKEAFSQFGEVAYVDFSRG-----DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVL 77 (105)
T ss_dssp HHHHHHHT-SS--EEEEE--TT------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE--
T ss_pred HHHHHHHHHhcCCcceEEecCC-----CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEEC
Confidence 3799999999999998877553 348999999999999999988655 566777776664
No 98
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=95.81 E-value=0.036 Score=55.42 Aligned_cols=64 Identities=22% Similarity=0.278 Sum_probs=53.8
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCe-eCC-eEEEEEeecCCCch
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRF-YSG-RPIIVEFSPVTDFR 208 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~-f~G-R~I~vefs~v~~f~ 208 (324)
+=|...|...|+|..|+|.... --.+.|+|++.+.|++|..+|||.- |.| -.|.++|+..+...
T Consensus 137 DVly~Icnp~GkVlRIvIfkkn----gVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~rln 202 (494)
T KOG1456|consen 137 DVLYTICNPQGKVLRIVIFKKN----GVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTRLN 202 (494)
T ss_pred hhhhhhcCCCCceEEEEEEecc----ceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcceee
Confidence 4577899999999999998752 3479999999999999999999974 667 78999999776643
No 99
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=95.75 E-value=0.0026 Score=40.19 Aligned_cols=24 Identities=33% Similarity=0.923 Sum_probs=18.9
Q ss_pred CcccccccccccccCCCcCCCCCC
Q 040106 73 RVNCPFYFKIGACRHGDRCSRLHN 96 (324)
Q Consensus 73 ~vnC~Fy~K~GACRhGd~CSr~H~ 96 (324)
...|.+|.++|.|.+|+.|.-.|.
T Consensus 3 ~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 3 TKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp SSB-HHHHHTS--TTGGGSSSBSS
T ss_pred cccChhhccCCccCCCCCcCccCC
Confidence 467999999999999999998885
No 100
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=95.71 E-value=0.0055 Score=59.90 Aligned_cols=65 Identities=26% Similarity=0.272 Sum_probs=50.4
Q ss_pred HhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
++.+|.|.+.|.+||+|.+++|..+. +...+||+||+|++.+....++..- -..++|+.|.+.-+
T Consensus 17 ~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~-~h~~dgr~ve~k~a 82 (311)
T KOG4205|consen 17 ETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNAR-THKLDGRSVEPKRA 82 (311)
T ss_pred cccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeeccc-ccccCCccccceec
Confidence 44457899999999999999998774 5679999999999888766665543 34578888776654
No 101
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=95.71 E-value=0.017 Score=58.22 Aligned_cols=62 Identities=31% Similarity=0.426 Sum_probs=51.6
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeE-EEEEeCcHHHHHHHHHHhcCCe-eCC-eEEEEEeecCCC
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGN-VYVQFREEEQAAAALHALQGRF-YSG-RPIIVEFSPVTD 206 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~-vyV~F~s~edA~~Ai~~LnGR~-f~G-R~I~vefs~v~~ 206 (324)
+=|...|++||.|..|...... .|| +.|+|.+.+.|+.|..+|+|+. |+| -.|.++|+..++
T Consensus 165 DVLHqvFS~fG~VlKIiTF~Kn----n~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~Sklt~ 229 (492)
T KOG1190|consen 165 DVLHQVFSKFGFVLKIITFTKN----NGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFSKLTD 229 (492)
T ss_pred HHHHHHHhhcceeEEEEEEecc----cchhhhhhccchhhHHHHHHhccCCcccCceeEEEeehhhccc
Confidence 4578899999999999876542 444 8899999999999999999985 566 789999987654
No 102
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=95.67 E-value=0.11 Score=45.99 Aligned_cols=55 Identities=25% Similarity=0.481 Sum_probs=46.8
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
..|...++.||+|.+|.+|- +--|-|.|.+..+|-+|+.+++.+ --|..++|.+.
T Consensus 105 ~sV~~~Ls~fGpI~SVT~cG------rqsavVvF~d~~SAC~Av~Af~s~-~pgtm~qCsWq 159 (166)
T PF15023_consen 105 KSVIQRLSVFGPIQSVTLCG------RQSAVVVFKDITSACKAVSAFQSR-APGTMFQCSWQ 159 (166)
T ss_pred HHHHHHHHhcCCcceeeecC------CceEEEEehhhHHHHHHHHhhcCC-CCCceEEeecc
Confidence 57888999999999999985 447999999999999999999985 46777777653
No 103
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=95.66 E-value=0.0027 Score=40.12 Aligned_cols=25 Identities=32% Similarity=0.783 Sum_probs=18.8
Q ss_pred chhhhhccccc-CCCCCCCCCCcccc
Q 040106 207 FREATCRQFEE-NNCNRGGYCNFMHV 231 (324)
Q Consensus 207 f~ea~C~~~~~-g~C~rG~~Cnf~H~ 231 (324)
|+...|..|.. |.|+.|..|+|+|.
T Consensus 1 ~k~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 1 YKTKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp TTSSB-HHHHHTS--TTGGGSSSBSS
T ss_pred CccccChhhccCCccCCCCCcCccCC
Confidence 45678988877 99999999999996
No 104
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=95.53 E-value=0.071 Score=50.22 Aligned_cols=65 Identities=20% Similarity=0.330 Sum_probs=44.9
Q ss_pred HHHHHHhccCCeeEEEEe-eCCCCC-ceeEEEEEeCcHHHHHHHHHHhcCCeeC---CeEEEEEeecCCC
Q 040106 142 DIFEELSKFGEIECLNVC-DNLADH-MIGNVYVQFREEEQAAAALHALQGRFYS---GRPIIVEFSPVTD 206 (324)
Q Consensus 142 DV~eEf~kfG~I~~V~V~-~n~~~~-~~G~vyV~F~s~edA~~Ai~~LnGR~f~---GR~I~vefs~v~~ 206 (324)
+|+..|-.|---+...|- ....++ ..-++||+|.+..+|.+|+++|||..|| |..|+++++....
T Consensus 50 EiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElAKSNt 119 (284)
T KOG1457|consen 50 EIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELAKSNT 119 (284)
T ss_pred HHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeehhcCc
Confidence 444455444333444442 222222 2358999999999999999999999997 7899999985543
No 105
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=95.44 E-value=0.036 Score=59.01 Aligned_cols=65 Identities=22% Similarity=0.278 Sum_probs=57.0
Q ss_pred HhHHHHHHHHHhccCCe-eEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEe
Q 040106 137 EDFYEDIFEELSKFGEI-ECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEF 201 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I-~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vef 201 (324)
+...+||.+.|.-|-.+ .+|.+-.|..+.+.|-+-|-|++.++|..|+..|+|+.+..|+|.+.+
T Consensus 878 ~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 878 DVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred cccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 34458999999999877 466677777788999999999999999999999999999999999875
No 106
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=95.39 E-value=0.014 Score=58.95 Aligned_cols=76 Identities=21% Similarity=0.282 Sum_probs=56.0
Q ss_pred CCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCC---CC---Cc-------
Q 040106 100 ISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNL---AD---HM------- 166 (324)
Q Consensus 100 ~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~---~~---~~------- 166 (324)
.|+|||.-||+.+. .||.|.+.|+.+|.|..|.||... .+ .+
T Consensus 230 ~srtivaenLP~Dh-------------------------~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~ 284 (484)
T KOG1855|consen 230 PSRTIVAENLPLDH-------------------------SYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQ 284 (484)
T ss_pred ccceEEEecCCcch-------------------------HHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhh
Confidence 57788887777643 247899999999999999999872 11 12
Q ss_pred -eeEEEEEeCcHHHHHHHHHHhcC--CeeCCeEEEEE
Q 040106 167 -IGNVYVQFREEEQAAAALHALQG--RFYSGRPIIVE 200 (324)
Q Consensus 167 -~G~vyV~F~s~edA~~Ai~~LnG--R~f~GR~I~ve 200 (324)
+-.++|+|...+.|.+|...||- -|=.|-++..-
T Consensus 285 tk~~AlvEye~~~~A~KA~e~~~~e~~wr~glkvkLl 321 (484)
T KOG1855|consen 285 TKECALVEYEEVEAARKARELLNPEQNWRMGLKVKLL 321 (484)
T ss_pred hhhhhhhhhhhhHHHHHHHHhhchhhhhhhcchhhhh
Confidence 34689999999999999998853 34445444433
No 107
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=95.23 E-value=0.016 Score=56.76 Aligned_cols=68 Identities=15% Similarity=0.205 Sum_probs=55.2
Q ss_pred hHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCC
Q 040106 138 DFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTD 206 (324)
Q Consensus 138 ~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~ 206 (324)
..++++++.|++||.|..+.++.+. ...++||+||.|.++++..+++ ...-..|+|+.|.|.-+-..+
T Consensus 109 ~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~-~~~f~~~~gk~vevkrA~pk~ 177 (311)
T KOG4205|consen 109 TTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVT-LQKFHDFNGKKVEVKRAIPKE 177 (311)
T ss_pred CchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceec-ccceeeecCceeeEeeccchh
Confidence 3458999999999999999887764 4568999999999888777665 477788999999998875443
No 108
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=95.10 E-value=0.046 Score=58.34 Aligned_cols=62 Identities=16% Similarity=0.255 Sum_probs=54.9
Q ss_pred HHHHHHHhccCCeeEEEEeeCCC----CCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 141 EDIFEELSKFGEIECLNVCDNLA----DHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~----~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
+.+...|+.||+|.+|.|....+ ...+-++||-|.+-.||+.|++.|+|..+-+..+...+.
T Consensus 189 ~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWg 254 (877)
T KOG0151|consen 189 NFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWG 254 (877)
T ss_pred HHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeeccc
Confidence 67889999999999999977643 235678999999999999999999999999999998886
No 109
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=94.83 E-value=0.012 Score=56.86 Aligned_cols=72 Identities=25% Similarity=0.313 Sum_probs=62.0
Q ss_pred hHHhHHHHHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCc
Q 040106 135 HFEDFYEDIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDF 207 (324)
Q Consensus 135 ~fd~~~eDV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f 207 (324)
.|....+||+.+|..+|.|..|.++... .+.+.|++||.|.+...+..|+.. +...++|+++.+++......
T Consensus 194 ~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 266 (285)
T KOG4210|consen 194 DFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPRPK 266 (285)
T ss_pred ccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCCcc
Confidence 3555667888999999999999998875 456899999999999999999998 99999999999999765444
No 110
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=94.52 E-value=0.017 Score=56.56 Aligned_cols=84 Identities=21% Similarity=0.432 Sum_probs=60.4
Q ss_pred HHHhccCCeeEEEEeeCCC---CC-ceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchhhhhcccccC-C
Q 040106 145 EELSKFGEIECLNVCDNLA---DH-MIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFREATCRQFEEN-N 219 (324)
Q Consensus 145 eEf~kfG~I~~V~V~~n~~---~~-~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ea~C~~~~~g-~ 219 (324)
+-|.+||.|..|.+-.... .+ .---+||+|...++|..||...+|-.++|+.|.+.|-. +.| |-.|+.+ .
T Consensus 99 eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka~~gt-tky----cs~~l~~~~ 173 (327)
T KOG2068|consen 99 EYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKASLGT-TKY----CSFYLRNDI 173 (327)
T ss_pred ccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHHhhCC-Ccc----hhHHhhhhc
Confidence 4678999999999866431 11 11139999999999999999999999999998888753 333 3334443 3
Q ss_pred CCCCCCCCccccccc
Q 040106 220 CNRGGYCNFMHVKLI 234 (324)
Q Consensus 220 C~rG~~Cnf~H~~~~ 234 (324)
|... .|=|+|-.-.
T Consensus 174 c~~~-~cmylhe~~~ 187 (327)
T KOG2068|consen 174 CQNP-DCMYLHEIGD 187 (327)
T ss_pred ccCc-cccccccccc
Confidence 5554 4888886543
No 111
>smart00356 ZnF_C3H1 zinc finger.
Probab=94.45 E-value=0.028 Score=34.50 Aligned_cols=22 Identities=45% Similarity=0.908 Sum_probs=19.7
Q ss_pred cccccccccccccCCCcCCCCCC
Q 040106 74 VNCPFYFKIGACRHGDRCSRLHN 96 (324)
Q Consensus 74 vnC~Fy~K~GACRhGd~CSr~H~ 96 (324)
+.|.+| ++|.|.+|+.|...|.
T Consensus 5 ~~C~~~-~~g~C~~g~~C~~~H~ 26 (27)
T smart00356 5 ELCKFF-KRGYCPYGDRCKFAHP 26 (27)
T ss_pred CcCcCc-cCCCCCCCCCcCCCCc
Confidence 469999 9999999999998885
No 112
>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=94.36 E-value=0.11 Score=47.31 Aligned_cols=63 Identities=21% Similarity=0.288 Sum_probs=48.1
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhc--CCeeCCeEEEEEeecCCCc
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQ--GRFYSGRPIIVEFSPVTDF 207 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~Ln--GR~f~GR~I~vefs~v~~f 207 (324)
.+.|...|..|+.+..+.+... -+-+-|.|.+.++|..|...|+ |..|.|..+.+.|...+..
T Consensus 9 ~~~l~~l~~~~~~~~~~~~L~s-----FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~~ 73 (184)
T PF04847_consen 9 LAELEELFSTYDPPVQFSPLKS-----FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTPI 73 (184)
T ss_dssp HHHHHHHHHTT-SS-EEEEETT-----TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS-
T ss_pred HHHHHHHHHhcCCceEEEEcCC-----CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccccc
Confidence 3678888899999999988765 5689999999999999999999 9999999999999866555
No 113
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=94.25 E-value=0.061 Score=55.69 Aligned_cols=65 Identities=17% Similarity=0.346 Sum_probs=58.1
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCC-CCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLA-DHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~-~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
+..|.|.+..||++....++.|.. +-.+||+|-+|-+..-+..|+..|||....+.+|+|..+-+
T Consensus 303 ~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~ 368 (500)
T KOG0120|consen 303 EDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIV 368 (500)
T ss_pred HHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhc
Confidence 356888889999999999988865 46899999999999999999999999999999999998643
No 114
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=94.12 E-value=0.04 Score=55.22 Aligned_cols=78 Identities=24% Similarity=0.310 Sum_probs=63.9
Q ss_pred HHhHHHHHHHHHhccCCe---eEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchhhhh
Q 040106 136 FEDFYEDIFEELSKFGEI---ECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFREATC 212 (324)
Q Consensus 136 fd~~~eDV~eEf~kfG~I---~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ea~C 212 (324)
|+...|||...|..|..- ..|+|+-|..+++.|-+||+|.+.++|..|...-+..+..+|-|.|--+.++...++.-
T Consensus 290 y~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S~eeln~vL~ 369 (508)
T KOG1365|consen 290 YEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCSVEELNEVLS 369 (508)
T ss_pred hhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeeccHHHHHHHHh
Confidence 566677777777766642 34788999999999999999999999999999999888889999888888877776554
Q ss_pred c
Q 040106 213 R 213 (324)
Q Consensus 213 ~ 213 (324)
+
T Consensus 370 ~ 370 (508)
T KOG1365|consen 370 G 370 (508)
T ss_pred c
Confidence 4
No 115
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=94.02 E-value=0.095 Score=51.10 Aligned_cols=58 Identities=21% Similarity=0.302 Sum_probs=46.4
Q ss_pred HHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCC
Q 040106 142 DIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTD 206 (324)
Q Consensus 142 DV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~ 206 (324)
=|..+|++||+|++.+...|. -+.||.|.+.-+|.+|+. -||+.|+|-.+ |-..+.+|
T Consensus 212 ~vL~~F~~cG~Vvkhv~~~ng-----NwMhirYssr~~A~KALs-kng~ii~g~vm-iGVkpCtD 269 (350)
T KOG4285|consen 212 IVLNLFSRCGEVVKHVTPSNG-----NWMHIRYSSRTHAQKALS-KNGTIIDGDVM-IGVKPCTD 269 (350)
T ss_pred HHHHHHHhhCeeeeeecCCCC-----ceEEEEecchhHHHHhhh-hcCeeeccceE-EeeeecCC
Confidence 478899999999999887542 279999999999999986 79999998554 55555333
No 116
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=93.94 E-value=0.19 Score=51.63 Aligned_cols=62 Identities=27% Similarity=0.319 Sum_probs=46.8
Q ss_pred hHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 138 DFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 138 ~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
.+++||.+.|+..+ |+++.+++. ++...|-|||+|.+++++++|++ .+-....-|-|.|--+
T Consensus 22 at~~ei~~Ff~~~~-I~~~~~~r~-~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 22 ATEKEILDFFSNCG-IENLEIPRR-NGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTA 83 (510)
T ss_pred ccHHHHHHHHhcCc-eeEEEEecc-CCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEcc
Confidence 33478999888885 888777654 36689999999999999999997 4545555566666444
No 117
>PF15519 RBM39linker: linker between RRM2 and RRM3 domains in RBM39 protein; PDB: 3S6E_A 2LQ5_A.
Probab=93.15 E-value=0.044 Score=42.70 Aligned_cols=21 Identities=29% Similarity=0.422 Sum_probs=11.6
Q ss_pred CCCCCCCCeeEeccccCCCCC
Q 040106 95 HNRPTISPTLLLSNMYQRPDM 115 (324)
Q Consensus 95 H~~P~~S~tLlL~NMy~~p~~ 115 (324)
.+.|..|+||+|+|||+....
T Consensus 48 ~~~~~aS~C~lLkNMFDP~~E 68 (73)
T PF15519_consen 48 PIPPIASRCFLLKNMFDPAEE 68 (73)
T ss_dssp ---S---SEEEEESSS-TTCG
T ss_pred CCCCCCCceeeeecCCCcccc
Confidence 344589999999999996543
No 118
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=92.78 E-value=0.31 Score=48.95 Aligned_cols=59 Identities=17% Similarity=0.249 Sum_probs=54.4
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
+-|+..|..||.|+.|...+-. .|.+-|+..+..+.+.|+..||+-.+-|.+|.+.++.
T Consensus 303 drlFNl~ClYGNV~rvkFmkTk----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~Sk 361 (494)
T KOG1456|consen 303 DRLFNLFCLYGNVERVKFMKTK----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSK 361 (494)
T ss_pred hhhhhhhhhcCceeeEEEeecc----cceeEEEcCcHHHHHHHHHHhccCccccceEEEeecc
Confidence 5799999999999999998864 6899999999999999999999999999999999874
No 119
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=92.64 E-value=0.11 Score=51.43 Aligned_cols=64 Identities=19% Similarity=0.291 Sum_probs=53.0
Q ss_pred HHHHHHHHhccCCee--------EEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 140 YEDIFEELSKFGEIE--------CLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~--------~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
..+|++.|.++|.|. .|+|.++. +..++|-+-|.|++...|+.|+..++++-|.|.+|.|.++.
T Consensus 80 ~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~ 152 (351)
T KOG1995|consen 80 ENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAE 152 (351)
T ss_pred HHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhh
Confidence 367788888888773 45565554 56799999999999999999999999999999999988763
No 120
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=92.57 E-value=0.41 Score=44.83 Aligned_cols=56 Identities=23% Similarity=0.355 Sum_probs=44.2
Q ss_pred HHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeC-CeEEEEEee
Q 040106 143 IFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYS-GRPIIVEFS 202 (324)
Q Consensus 143 V~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~-GR~I~vefs 202 (324)
+...|..|.--..|.++.+. .|.|||+|.+...|..|..+|+|-.+- .-++.+.|+
T Consensus 163 l~~lf~qf~g~keir~i~~~----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a 219 (221)
T KOG4206|consen 163 LSDLFEQFPGFKEIRLIPPR----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFA 219 (221)
T ss_pred HHHHHhhCcccceeEeccCC----CceeEEecchhhhhHHHhhhhccceeccCceEEeccc
Confidence 34455677777777777653 689999999999999999999998876 677777765
No 121
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=92.25 E-value=0.18 Score=47.62 Aligned_cols=62 Identities=24% Similarity=0.383 Sum_probs=47.1
Q ss_pred eeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHH
Q 040106 103 TLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAA 182 (324)
Q Consensus 103 tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~ 182 (324)
||+|.||-.+-. +++|+..|+.|--..-+.|... + ..-.+||.|++.+.|..
T Consensus 212 tlfianl~~~~~-------------------------ed~l~~~~~~~~gf~~l~~~~~-~--g~~vaf~~~~~~~~at~ 263 (284)
T KOG1457|consen 212 TLFIANLGPNCT-------------------------EDELKQLLSRYPGFHILKIRAR-G--GMPVAFADFEEIEQATD 263 (284)
T ss_pred hHhhhccCCCCC-------------------------HHHHHHHHHhCCCceEEEEecC-C--CcceEeecHHHHHHHHH
Confidence 999999887643 1578888888876666665322 1 23489999999999999
Q ss_pred HHHHhcCCee
Q 040106 183 ALHALQGRFY 192 (324)
Q Consensus 183 Ai~~LnGR~f 192 (324)
|+..|+|-.+
T Consensus 264 am~~lqg~~~ 273 (284)
T KOG1457|consen 264 AMNHLQGNLL 273 (284)
T ss_pred HHHHhhccee
Confidence 9999998765
No 122
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=91.32 E-value=0.41 Score=49.35 Aligned_cols=69 Identities=25% Similarity=0.232 Sum_probs=52.4
Q ss_pred HHHHHHHhccCCeeE-EEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchhh
Q 040106 141 EDIFEELSKFGEIEC-LNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFREA 210 (324)
Q Consensus 141 eDV~eEf~kfG~I~~-V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ea 210 (324)
+||.+.|+-.=.|.. |.++.+....+.|-+||+|++.+.|++|+.. |-..+.-|-|.|--+....++.+
T Consensus 118 ~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~Ss~~e~~~~ 187 (510)
T KOG4211|consen 118 EDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVFRSSRAEVKRA 187 (510)
T ss_pred HHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEeehhHHHHHHhh
Confidence 688888876655544 5566666677999999999999999999874 44567778888877766555544
No 123
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=90.98 E-value=0.25 Score=51.65 Aligned_cols=56 Identities=20% Similarity=0.350 Sum_probs=45.8
Q ss_pred HHHHHHHH--hccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCC--eeCCeEEEEEe
Q 040106 140 YEDIFEEL--SKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGR--FYSGRPIIVEF 201 (324)
Q Consensus 140 ~eDV~eEf--~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR--~f~GR~I~vef 201 (324)
+|+|+..| +.+-++.++....|. +-||+|++..||+.|++.|.-+ .|-|++|.+.+
T Consensus 189 ~e~Vk~lf~~encPk~iscefa~N~------nWyITfesd~DAQqAykylreevk~fqgKpImARI 248 (684)
T KOG2591|consen 189 IEVVKALFKGENCPKVISCEFAHND------NWYITFESDTDAQQAYKYLREEVKTFQGKPIMARI 248 (684)
T ss_pred HHHHHHHhccCCCCCceeeeeeecC------ceEEEeecchhHHHHHHHHHHHHHhhcCcchhhhh
Confidence 36788888 457788888887764 7899999999999999999764 58899988754
No 124
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=90.79 E-value=0.28 Score=49.41 Aligned_cols=52 Identities=17% Similarity=0.230 Sum_probs=36.5
Q ss_pred hHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeC
Q 040106 138 DFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYS 193 (324)
Q Consensus 138 ~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~ 193 (324)
.+..++-+.|..||+|.-.++..... .-.+-|.|....+...|+. ++|+.|.
T Consensus 163 ~~l~e~~e~f~r~Gev~ya~~ask~~---s~~c~~sf~~qts~~halr-~~gre~k 214 (479)
T KOG4676|consen 163 AILPESGESFERKGEVSYAHTASKSR---SSSCSHSFRKQTSSKHALR-SHGRERK 214 (479)
T ss_pred hcchhhhhhhhhcchhhhhhhhccCC---CcchhhhHhhhhhHHHHHH-hcchhhh
Confidence 34567778889999998776643321 2245589988888888875 7778776
No 125
>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=88.75 E-value=1.9 Score=33.09 Aligned_cols=52 Identities=19% Similarity=0.361 Sum_probs=41.2
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEE
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIV 199 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~v 199 (324)
.+||+..|.+|+ ...|.... .| .||.|.+..+|++|+.+.||+.+.+-.|..
T Consensus 14 v~d~K~~Lr~y~-~~~I~~d~------tG-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 14 VEDFKKRLRKYR-WDRIRDDR------TG-FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred HHHHHHHHhcCC-cceEEecC------CE-EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 479999999997 44454322 44 599999999999999999999988766654
No 126
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=88.66 E-value=0.07 Score=57.86 Aligned_cols=57 Identities=28% Similarity=0.434 Sum_probs=45.9
Q ss_pred HHHHHHHhccCCeeEEEEeeC-CCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEE
Q 040106 141 EDIFEELSKFGEIECLNVCDN-LADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPI 197 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n-~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I 197 (324)
+|+...|..+|.|+.|.|... ..+..+|.+||.|..+++|.+||....+.+|+--.|
T Consensus 682 ~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~gK~~v 739 (881)
T KOG0128|consen 682 EDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFGKISV 739 (881)
T ss_pred chhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhhhhhh
Confidence 689999999999888877522 346689999999999999999998888777663333
No 127
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=88.64 E-value=0.64 Score=50.83 Aligned_cols=92 Identities=30% Similarity=0.413 Sum_probs=68.3
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCee--CCeEEEEEeecCCCchhhhhccccc
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFY--SGRPIIVEFSPVTDFREATCRQFEE 217 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f--~GR~I~vefs~v~~f~ea~C~~~~~ 217 (324)
-.-|-..|++||.|.+++...+. --+-|.|.+.+.|..|.++|+|+.. .|-|.+|.|+.+..+.+---
T Consensus 312 SssL~~l~s~yg~v~s~wtlr~~-----N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~~~ep~l----- 381 (1007)
T KOG4574|consen 312 SSSLATLCSDYGSVASAWTLRDL-----NMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLPMYEPPL----- 381 (1007)
T ss_pred HHHHHHHHHhhcchhhheecccc-----cchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccccccccCCc-----
Confidence 35688899999999999997763 2688999999999999999999975 68999999987765543221
Q ss_pred CCCCCCCCCCcccccccChhhhhhhhc
Q 040106 218 NNCNRGGYCNFMHVKLIGRDLRNKLFG 244 (324)
Q Consensus 218 g~C~rG~~Cnf~H~~~~~r~l~~~l~~ 244 (324)
.--|+.||-|-..-...|-..||.
T Consensus 382 ---n~~g~nn~~~~~~l~e~ln~g~~n 405 (1007)
T KOG4574|consen 382 ---NLTGYNNFNHQPLLQEQLNTGLFN 405 (1007)
T ss_pred ---CcccccCCCCCcchhhhhccccce
Confidence 113457788765555555544443
No 128
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=88.02 E-value=0.15 Score=55.44 Aligned_cols=70 Identities=19% Similarity=0.151 Sum_probs=63.5
Q ss_pred hHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 135 HFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 135 ~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
+|.-+.+++...|.++|.+.++.++.+..+.++|.+||.|.++.+|..++..+++..+.-+.+.+..+++
T Consensus 745 pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp 814 (881)
T KOG0128|consen 745 PFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP 814 (881)
T ss_pred CCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence 4566778899999999999999999998899999999999999999999999999999888888888755
No 129
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=86.98 E-value=0.58 Score=51.38 Aligned_cols=58 Identities=26% Similarity=0.469 Sum_probs=50.4
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCC--eEEEEEeec
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSG--RPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~G--R~I~vefs~ 203 (324)
.-+..+|..||+|..|.+- |..-++||+|++...|+.|+..|-|.-|+| +.|.|+|+.
T Consensus 470 ~~l~r~fd~fGpir~Idy~-----hgq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~ 529 (975)
T KOG0112|consen 470 SRLNREFDRFGPIRIIDYR-----HGQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLAS 529 (975)
T ss_pred HHHHHHhhccCcceeeecc-----cCCcceeeecccCccchhhHHHHhcCcCCCCCccccccccc
Confidence 4577899999999998774 345699999999999999999999999987 789999963
No 130
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=85.30 E-value=1.2 Score=45.06 Aligned_cols=62 Identities=21% Similarity=0.359 Sum_probs=46.3
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCCC----CceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLAD----HMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~~----~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
.+.|...|...|+|.++.|..+..+ -..-.|||.|.+...+..|. .|....|=++.|.|-.+
T Consensus 21 ~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfvdraliv~p~ 86 (479)
T KOG4676|consen 21 KDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFVDRALIVRPY 86 (479)
T ss_pred HHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceeeeeeEEEEec
Confidence 3678889999999999999765432 35668999999999888665 56666666666666543
No 131
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=84.98 E-value=0.61 Score=48.03 Aligned_cols=60 Identities=25% Similarity=0.308 Sum_probs=51.2
Q ss_pred HHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 139 FYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 139 ~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
..+++...|++||+|+.|.|..+. --+-|+|.+-.+|-.|+ +..|-.|++|.|.|-+-++
T Consensus 386 t~a~ln~hfA~fG~i~n~qv~~~~-----~~a~vTF~t~aeag~a~-~s~~avlnnr~iKl~whnp 445 (526)
T KOG2135|consen 386 TIADLNPHFAQFGEIENIQVDYSS-----LHAVVTFKTRAEAGEAY-ASHGAVLNNRFIKLFWHNP 445 (526)
T ss_pred hHhhhhhhhhhcCccccccccCch-----hhheeeeeccccccchh-ccccceecCceeEEEEecC
Confidence 357899999999999999997762 25789999999998887 4899999999999988655
No 132
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=83.36 E-value=0.69 Score=44.75 Aligned_cols=31 Identities=32% Similarity=0.733 Sum_probs=26.6
Q ss_pred CcccccccccccccCCCcCCCCCCCCCCCCe
Q 040106 73 RVNCPFYFKIGACRHGDRCSRLHNRPTISPT 103 (324)
Q Consensus 73 ~vnC~Fy~K~GACRhGd~CSr~H~~P~~S~t 103 (324)
.+.|+.|.++|.|.+|.+|-..|..+....+
T Consensus 177 t~lC~~f~~tG~C~yG~rC~F~H~~~~~~~~ 207 (332)
T KOG1677|consen 177 TKLCPKFQKTGLCKYGSRCRFIHGEPEDRAS 207 (332)
T ss_pred CcCCCccccCCCCCCCCcCeecCCCcccccc
Confidence 4779999999999999999999998854433
No 133
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=82.17 E-value=0.97 Score=43.32 Aligned_cols=57 Identities=18% Similarity=0.221 Sum_probs=45.0
Q ss_pred HHHHHHHhccCCeeEEEEeeCC-C--------CC----ceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEE
Q 040106 141 EDIFEELSKFGEIECLNVCDNL-A--------DH----MIGNVYVQFREEEQAAAALHALQGRFYSGRPI 197 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~-~--------~~----~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I 197 (324)
.-|++.|+.||.|-.|.|-.+. . +. .---+||+|.+-..|..+...|||..++|+.=
T Consensus 89 ~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Iggkk~ 158 (278)
T KOG3152|consen 89 VRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIGGKKK 158 (278)
T ss_pred HHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccCCCCC
Confidence 3688889999999999995442 1 11 11127899999999999999999999999763
No 134
>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=81.89 E-value=2.5 Score=32.42 Aligned_cols=54 Identities=30% Similarity=0.449 Sum_probs=32.4
Q ss_pred HHHHHHHhccC-----CeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 141 EDIFEELSKFG-----EIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 141 eDV~eEf~kfG-----~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
.+|...+..-+ .|-.|.|.++ +.||+-. .+.|..++..|++..+.|++|.|+.+
T Consensus 16 ~~iv~~i~~~~gi~~~~IG~I~I~~~-------~S~vev~-~~~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 16 RDIVGAICNEAGIPGRDIGRIDIFDN-------FSFVEVP-EEVAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp HHHHHHHHTCTTB-GGGEEEEEE-SS--------EEEEE--TT-HHHHHHHHTT--SSS----EEE-
T ss_pred HHHHHHHHhccCCCHHhEEEEEEeee-------EEEEEEC-HHHHHHHHHHhcCCCCCCeeEEEEEC
Confidence 45555554443 4778888776 7888885 44689999999999999999999853
No 135
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=80.36 E-value=1.3 Score=42.88 Aligned_cols=37 Identities=22% Similarity=0.597 Sum_probs=29.6
Q ss_pred EeecCCCchhhhhccccc-CCCCCCCCCCcccccccCh
Q 040106 200 EFSPVTDFREATCRQFEE-NNCNRGGYCNFMHVKLIGR 236 (324)
Q Consensus 200 efs~v~~f~ea~C~~~~~-g~C~rG~~Cnf~H~~~~~r 236 (324)
.......|+.-.|..|.. |.|.-|..|-|.|......
T Consensus 168 ~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~~~~ 205 (332)
T KOG1677|consen 168 QVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGEPEDR 205 (332)
T ss_pred hhcCCCCCCCcCCCccccCCCCCCCCcCeecCCCcccc
Confidence 334456788899999987 9999999999999876443
No 136
>KOG1847 consensus mRNA splicing factor [RNA processing and modification]
Probab=80.23 E-value=1.1 Score=47.69 Aligned_cols=18 Identities=11% Similarity=0.043 Sum_probs=7.2
Q ss_pred CCCCCCCCCcccccccCh
Q 040106 219 NCNRGGYCNFMHVKLIGR 236 (324)
Q Consensus 219 ~C~rG~~Cnf~H~~~~~r 236 (324)
.|.+|-.-.-+-...+.+
T Consensus 690 pcsg~R~l~~~~~~~~dr 707 (878)
T KOG1847|consen 690 PCSGKRHLHKTRYSSKDR 707 (878)
T ss_pred CCCCCCcCcccccCCCCc
Confidence 354444433333333333
No 137
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=79.64 E-value=2.1 Score=41.14 Aligned_cols=61 Identities=21% Similarity=0.223 Sum_probs=49.5
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeC----CeEEEEEe
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYS----GRPIIVEF 201 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~----GR~I~vef 201 (324)
|.+..+|+.||+|+.-+|+-+....+.|-..|.|...-.|.+|+..++-.-|. |+++.|+-
T Consensus 46 dll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP 110 (275)
T KOG0115|consen 46 DLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEP 110 (275)
T ss_pred HHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCCh
Confidence 56778999999999988887777778899999999999999999998554443 56665554
No 138
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=78.29 E-value=0.83 Score=45.00 Aligned_cols=29 Identities=38% Similarity=0.810 Sum_probs=24.4
Q ss_pred CCch-hhhhcccccCCCCCCCC-CCcccccc
Q 040106 205 TDFR-EATCRQFEENNCNRGGY-CNFMHVKL 233 (324)
Q Consensus 205 ~~f~-ea~C~~~~~g~C~rG~~-Cnf~H~~~ 233 (324)
+.|. -++|++|+.|.|.||+. |.|.|--+
T Consensus 32 ~~wl~~eVCReF~rn~C~R~d~~CkfaHP~~ 62 (331)
T KOG2494|consen 32 TKWLTLEVCREFLRNTCSRGDRECKFAHPPK 62 (331)
T ss_pred cchhHHHHHHHHHhccccCCCccccccCCCC
Confidence 4454 48999999999999997 99999654
No 139
>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=77.51 E-value=2.9 Score=33.03 Aligned_cols=37 Identities=19% Similarity=0.263 Sum_probs=27.3
Q ss_pred CeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCee
Q 040106 152 EIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFY 192 (324)
Q Consensus 152 ~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f 192 (324)
.|.+|.++++ ++|++||+=.++.+...|++.+.+-..
T Consensus 33 ~I~Si~~~~~----lkGyIyVEA~~~~~V~~ai~gi~~i~~ 69 (84)
T PF03439_consen 33 NIYSIFAPDS----LKGYIYVEAERESDVKEAIRGIRHIRG 69 (84)
T ss_dssp ---EEEE-TT----STSEEEEEESSHHHHHHHHTT-TTEEE
T ss_pred ceEEEEEeCC----CceEEEEEeCCHHHHHHHHhcccceee
Confidence 5778777765 799999999999999999998877543
No 140
>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=74.20 E-value=7.1 Score=31.62 Aligned_cols=41 Identities=27% Similarity=0.528 Sum_probs=36.6
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhc
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQ 188 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~Ln 188 (324)
.||.+.|+.||.|.=-+|.+. -|||.....+.|..|+..++
T Consensus 23 ~DI~qlFspfG~I~VsWi~dT-------SAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 23 SDIYQLFSPFGQIYVSWINDT-------SAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp HHHHHHCCCCCCEEEEEECTT-------EEEEEECCCHHHHHHHHHHT
T ss_pred hhHHHHhccCCcEEEEEEcCC-------cEEEEeecHHHHHHHHHHhc
Confidence 699999999999987777543 79999999999999999986
No 141
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=73.86 E-value=5.5 Score=40.45 Aligned_cols=51 Identities=25% Similarity=0.291 Sum_probs=39.1
Q ss_pred HHhHHHHHHHHHhc----cCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHH
Q 040106 136 FEDFYEDIFEELSK----FGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHA 186 (324)
Q Consensus 136 fd~~~eDV~eEf~k----fG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~ 186 (324)
|+....||.+.|.. -|-++.|..+....+.+.|-+||.|..+++|+.|+..
T Consensus 171 fdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 171 FDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred CCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHH
Confidence 56666789888852 2345666666665677999999999999999999864
No 142
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=73.43 E-value=3.5 Score=40.96 Aligned_cols=29 Identities=28% Similarity=0.360 Sum_probs=19.9
Q ss_pred CCceeEEEEEeCcHHHHHHHHHHhcCCeeC
Q 040106 164 DHMIGNVYVQFREEEQAAAALHALQGRFYS 193 (324)
Q Consensus 164 ~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~ 193 (324)
+.++-.|||.|..+.-|- |+..|-+|.+.
T Consensus 170 DslRT~v~vry~pe~iAC-aciyLaAR~~e 198 (367)
T KOG0835|consen 170 DSLRTDVFVRYSPESIAC-ACIYLAARNLE 198 (367)
T ss_pred hccccceeeecCHHHHHH-HHHHHHHhhhc
Confidence 457778999997665555 55567666655
No 143
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=65.89 E-value=2.3 Score=42.10 Aligned_cols=28 Identities=21% Similarity=0.665 Sum_probs=24.3
Q ss_pred CCchhhhhcccccCCCCCCCCCCccccc
Q 040106 205 TDFREATCRQFEENNCNRGGYCNFMHVK 232 (324)
Q Consensus 205 ~~f~ea~C~~~~~g~C~rG~~Cnf~H~~ 232 (324)
.....-+|.-|++|-|..|+.|+|||..
T Consensus 73 ~~~~~~vcK~~l~glC~kgD~C~Flhe~ 100 (325)
T KOG1040|consen 73 DSRGKVVCKHWLRGLCKKGDQCEFLHEY 100 (325)
T ss_pred ccCCceeehhhhhhhhhccCcCcchhhh
Confidence 4667788999999999999999999964
No 144
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=65.75 E-value=13 Score=34.25 Aligned_cols=49 Identities=24% Similarity=0.238 Sum_probs=37.0
Q ss_pred HhHHHHHHHHHhccCCeeEEEEeeCCCC--CceeEEEEEeCcHHHHHHHHHHh
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCDNLAD--HMIGNVYVQFREEEQAAAALHAL 187 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~n~~~--~~~G~vyV~F~s~edA~~Ai~~L 187 (324)
+++.++|.+..+ |++..|.+-..... ...|-|||+|.+-++|.++++.-
T Consensus 120 d~ql~~l~qw~~--~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~~~ 170 (205)
T KOG4213|consen 120 DDQLDDLNQWAS--GKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDDTH 170 (205)
T ss_pred HHHHHHHHHHhc--ccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhhhh
Confidence 455677777766 99999988554322 36899999999999998776643
No 145
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=64.12 E-value=31 Score=28.89 Aligned_cols=42 Identities=19% Similarity=0.346 Sum_probs=34.0
Q ss_pred CeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCC
Q 040106 152 EIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSG 194 (324)
Q Consensus 152 ~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~G 194 (324)
.|..+.|.++... -+=-|-|+|.+.++|..-+..+||+.|+.
T Consensus 40 ~i~~~riird~~p-nrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 40 DIEHIRIIRDGTP-NRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred cEEEEEEeeCCCC-ceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 5788888876421 23358899999999999999999999974
No 146
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=62.16 E-value=22 Score=27.02 Aligned_cols=41 Identities=34% Similarity=0.385 Sum_probs=29.3
Q ss_pred HHHHHHHhcc---CCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHh
Q 040106 141 EDIFEELSKF---GEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHAL 187 (324)
Q Consensus 141 eDV~eEf~kf---G~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~L 187 (324)
+||+..|..| .....|.-..+. .|-|.|.+.+.|.+|+.+|
T Consensus 19 ~dI~~y~~~y~~~~~~~~IEWIdDt------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 19 DDIKAYFSEYFDEEGPFRIEWIDDT------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred HHHHHHHHHhcccCCCceEEEecCC------cEEEEECCHHHHHHHHHcC
Confidence 5677777666 124455545543 6889999999999999876
No 147
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=60.33 E-value=3.2 Score=44.88 Aligned_cols=65 Identities=12% Similarity=0.046 Sum_probs=53.0
Q ss_pred HHHHHHHHhccCCeeE-EEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 140 YEDIFEELSKFGEIEC-LNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~-V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
..+|...|.+--.|++ |.|..-.++...+-+||.|..++++..|...-+-.+.+-|.|+|+-+..
T Consensus 448 ~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si~~ 513 (944)
T KOG4307|consen 448 IVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSIAD 513 (944)
T ss_pred ccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeechhh
Confidence 3578888888778887 7776666677899999999999999999887777777779999987644
No 148
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=59.42 E-value=2.5 Score=46.65 Aligned_cols=62 Identities=10% Similarity=0.161 Sum_probs=49.9
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
.+|+..|..||.|.+|.|-...-..-.-++||.|.+...|-.|...|.|..+..-.+.+-|.
T Consensus 387 seiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG 448 (975)
T KOG0112|consen 387 SEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLG 448 (975)
T ss_pred hhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCccccccc
Confidence 67999999999999999866533334568999999999999999999999886545555443
No 149
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=56.73 E-value=8.7 Score=41.75 Aligned_cols=25 Identities=12% Similarity=0.070 Sum_probs=14.0
Q ss_pred EEEEeCcHHHHHHHHHHhcCCeeCC
Q 040106 170 VYVQFREEEQAAAALHALQGRFYSG 194 (324)
Q Consensus 170 vyV~F~s~edA~~Ai~~LnGR~f~G 194 (324)
.||+|.++..+..--..+.|-.+.|
T Consensus 695 ~~~k~~de~~~~~~~~~ss~~~~~d 719 (877)
T KOG0151|consen 695 NPVKYDDEDRDKLRDIESSGSDNQD 719 (877)
T ss_pred cccccchhhhHHHhhhhhhcccccc
Confidence 5667766666655444444444433
No 150
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=55.17 E-value=30 Score=30.15 Aligned_cols=44 Identities=11% Similarity=0.097 Sum_probs=33.8
Q ss_pred HHHHHHHh--ccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcC
Q 040106 141 EDIFEELS--KFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQG 189 (324)
Q Consensus 141 eDV~eEf~--kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnG 189 (324)
+.|...+. ... |.+|.++.. ..||+||+-...+++..+++.+.|
T Consensus 23 ~~L~~~~~~~~~~-i~~i~vp~~----fpGYVfVe~~~~~~~~~~i~~v~~ 68 (153)
T PRK08559 23 LMLAMRAKKENLP-IYAILAPPE----LKGYVLVEAESKGAVEEAIRGIPH 68 (153)
T ss_pred HHHHHHHHhCCCc-EEEEEccCC----CCcEEEEEEEChHHHHHHHhcCCC
Confidence 44555443 333 788888776 689999999988999999988876
No 151
>COG3309 VapD Uncharacterized virulence-associated protein D [Function unknown]
Probab=54.28 E-value=31 Score=28.35 Aligned_cols=42 Identities=33% Similarity=0.501 Sum_probs=32.6
Q ss_pred HHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhc
Q 040106 136 FEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQ 188 (324)
Q Consensus 136 fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~Ln 188 (324)
+..-|.||+..++++| ..+ -.|-||+..+.+.+|...+.++|
T Consensus 21 ~~~aY~Dir~~L~~~g-------F~~----tQGSVYl~~~~i~~~~~~~~~q~ 62 (96)
T COG3309 21 YRQAYDDIRRVLERHG-------FEN----TQGSVYLNDEGINQAAGTLAAQN 62 (96)
T ss_pred HHHHHHHHHHHHHHcC-------ccc----ccceEEEccchHHHHHHHHHHHH
Confidence 4577899999999999 455 37999999998888775544443
No 152
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=53.93 E-value=5.3 Score=39.87 Aligned_cols=13 Identities=15% Similarity=0.575 Sum_probs=5.5
Q ss_pred hHHHhhHHhHHHH
Q 040106 130 RKIQEHFEDFYED 142 (324)
Q Consensus 130 eel~~~fd~~~eD 142 (324)
.+|+.+|+.+.+|
T Consensus 172 ~dLw~WyEpyldD 184 (453)
T KOG2888|consen 172 ADLWDWYEPYLDD 184 (453)
T ss_pred hHHHHHhhhhccc
Confidence 3444444444433
No 153
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=53.41 E-value=1.9 Score=44.14 Aligned_cols=143 Identities=20% Similarity=0.224 Sum_probs=80.9
Q ss_pred HHHHHHHhCCCCCCcccccccccccccCCCcCCCCCCCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhH
Q 040106 60 AEHLASIFGTEKDRVNCPFYFKIGACRHGDRCSRLHNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDF 139 (324)
Q Consensus 60 a~~l~~~~gte~d~vnC~Fy~K~GACRhGd~CSr~H~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~ 139 (324)
+..|.++||..+-..+=.|..|.|. +++| |+-.|-.-..+.|+-=+--.+-.-+..+......+-...-+|+..=-.+
T Consensus 15 psdl~svfg~ak~~~~g~fl~k~gy-afvd-~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkqrsrk~Qirnippql 92 (584)
T KOG2193|consen 15 PSDLESVFGDAKIPGSGQFLVKSGY-AFVD-CPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQRSRKIQIRNIPPQL 92 (584)
T ss_pred hHHHHHHhccccCCCCcceeeecce-eecc-CCchhhhhhhHHhhchhhhhcCceeeccchhhHHHHhhhhhHhcCCHHH
Confidence 4468899999988899999999887 5554 4433332222222211100000000000000000000000111111112
Q ss_pred HHHHHH-HHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCC
Q 040106 140 YEDIFE-ELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTD 206 (324)
Q Consensus 140 ~eDV~e-Ef~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~ 206 (324)
.-+|.. .+..||.|+++.+..- +.-.-.+-|+|...+.+..|+..|||-.+....+.+.|.|-..
T Consensus 93 ~wevld~Ll~qyg~ve~~eqvnt--~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiPdeq 158 (584)
T KOG2193|consen 93 QWEVLDSLLAQYGTVENCEQVNT--DSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIPDEQ 158 (584)
T ss_pred HHHHHHHHHhccCCHhHhhhhcc--chHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCchhh
Confidence 234444 5599999999877322 1224467799999999999999999999999999999987543
No 154
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=52.14 E-value=41 Score=35.29 Aligned_cols=73 Identities=18% Similarity=0.228 Sum_probs=49.3
Q ss_pred ccCCCcCCCCCCCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEe-eCC-
Q 040106 85 CRHGDRCSRLHNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVC-DNL- 162 (324)
Q Consensus 85 CRhGd~CSr~H~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~-~n~- 162 (324)
|-.|..+.+.+..|..|+-|++..|-.. +++ +.|..-|..||.|.-=+=. .+.
T Consensus 243 ~~~~~~~~~~~~~~~~S~KVFvGGlp~d--------------ise-----------~~i~~~F~~FGs~~VdWP~k~~~~ 297 (520)
T KOG0129|consen 243 TWSGSLPPRGYRSPRYSRKVFVGGLPWD--------------ITE-----------AQINASFGQFGSVKVDWPGKANSR 297 (520)
T ss_pred hhccccCCCCCCccccccceeecCCCcc--------------ccH-----------HHHHhhcccccceEeecCCCcccc
Confidence 6677888888888999988888755432 122 5678888899976422211 111
Q ss_pred -CCCcee---EEEEEeCcHHHHHH
Q 040106 163 -ADHMIG---NVYVQFREEEQAAA 182 (324)
Q Consensus 163 -~~~~~G---~vyV~F~s~edA~~ 182 (324)
.-.++| +||+-|+++...+.
T Consensus 298 ~~~ppkGs~~YvflvFe~E~sV~~ 321 (520)
T KOG0129|consen 298 GRAPPKGSYGYVFLVFEDERSVQS 321 (520)
T ss_pred ccCCCCCcccEEEEEecchHHHHH
Confidence 123677 99999999887654
No 155
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=50.84 E-value=6.9 Score=38.38 Aligned_cols=32 Identities=28% Similarity=0.698 Sum_probs=26.9
Q ss_pred CCchhhhhcccccCCCCCCCCCCcccccccCh
Q 040106 205 TDFREATCRQFEENNCNRGGYCNFMHVKLIGR 236 (324)
Q Consensus 205 ~~f~ea~C~~~~~g~C~rG~~Cnf~H~~~~~r 236 (324)
.+-..-+|-.|..|.|..|.-|+|.|-...-+
T Consensus 88 vDPKSvvCafFk~g~C~KG~kCKFsHdl~~~~ 119 (343)
T KOG1763|consen 88 VDPKSVVCAFFKQGTCTKGDKCKFSHDLAVER 119 (343)
T ss_pred CCchHHHHHHHhccCCCCCCcccccchHHHhh
Confidence 45667799999999999999999999876543
No 156
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=50.18 E-value=6.9 Score=36.48 Aligned_cols=37 Identities=22% Similarity=0.584 Sum_probs=29.0
Q ss_pred EEEEeecCCCchhhhhcccc-cCCCCCCCCCCcccccc
Q 040106 197 IIVEFSPVTDFREATCRQFE-ENNCNRGGYCNFMHVKL 233 (324)
Q Consensus 197 I~vefs~v~~f~ea~C~~~~-~g~C~rG~~Cnf~H~~~ 233 (324)
-.+..-.+-+|...+|..|- .|-|.-|+.|.|+|...
T Consensus 129 t~~r~~~viD~qpdVCKdyk~TGYCGYGDsCKflH~R~ 166 (259)
T COG5152 129 TMFRDGEVIDTQPDVCKDYKETGYCGYGDSCKFLHDRS 166 (259)
T ss_pred ceeeccceeecCcccccchhhcccccCCchhhhhhhhh
Confidence 33444456788999999995 57899999999999764
No 157
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=49.77 E-value=15 Score=36.63 Aligned_cols=14 Identities=21% Similarity=0.188 Sum_probs=6.5
Q ss_pred hhHHhHHHHHHHHH
Q 040106 134 EHFEDFYEDIFEEL 147 (324)
Q Consensus 134 ~~fd~~~eDV~eEf 147 (324)
..|+...++|-+.|
T Consensus 209 ~~Fd~~k~eid~ic 222 (367)
T KOG0835|consen 209 KAFDTTKREIDEIC 222 (367)
T ss_pred HHcCCcHHHHHHHH
Confidence 34444444544444
No 158
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=48.58 E-value=6.2 Score=37.68 Aligned_cols=40 Identities=28% Similarity=0.586 Sum_probs=30.8
Q ss_pred CchhhhhcccccCCCCCCCCCCcccccccChhhh-hhhhcc
Q 040106 206 DFREATCRQFEENNCNRGGYCNFMHVKLIGRDLR-NKLFGR 245 (324)
Q Consensus 206 ~f~ea~C~~~~~g~C~rG~~Cnf~H~~~~~r~l~-~~l~~~ 245 (324)
+-...+|-.|..+.|..|..|+|+|-+...+... .+||.+
T Consensus 82 dpK~~vcalF~~~~c~kg~~ckF~h~~ee~r~~eK~DLYsD 122 (299)
T COG5252 82 DPKTVVCALFLNKTCAKGDACKFAHGKEEARKTEKPDLYSD 122 (299)
T ss_pred CchhHHHHHhccCccccCchhhhhcchHHHhhhcccchhhh
Confidence 3456789999999999999999999877655444 345553
No 159
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=46.78 E-value=31 Score=38.83 Aligned_cols=45 Identities=18% Similarity=0.442 Sum_probs=35.9
Q ss_pred CeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEe
Q 040106 152 EIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEF 201 (324)
Q Consensus 152 ~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vef 201 (324)
+|.+|... +|++||+||+=..+.....||+.|-+-+.. +.+.|-.
T Consensus 199 qI~Sv~a~----D~lkGyIYIEA~KqshV~~Ai~gv~niy~~-~~~lVPi 243 (1024)
T KOG1999|consen 199 QIKSVFAK----DHLKGYIYIEADKQSHVKEAIEGVRNIYAN-RILLVPI 243 (1024)
T ss_pred eEEEEEec----cccceeEEEEechhHHHHHHHhhhhhheec-cEEEEeh
Confidence 46666554 458999999999999999999999987655 7777654
No 160
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=46.13 E-value=24 Score=35.66 Aligned_cols=63 Identities=13% Similarity=0.210 Sum_probs=50.7
Q ss_pred HHHHHHHhccC--CeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 141 EDIFEELSKFG--EIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 141 eDV~eEf~kfG--~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
+||.+.+...| .|.+|++.+|. ++.++||+.|...+..+.++-++.|--+.+.|..-+|.-++
T Consensus 95 ~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~N 160 (498)
T KOG4849|consen 95 ADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSYN 160 (498)
T ss_pred HHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeeccc
Confidence 56666665555 57788888885 56799999999999999999999999999999766655443
No 161
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=44.48 E-value=50 Score=34.72 Aligned_cols=46 Identities=17% Similarity=0.223 Sum_probs=36.1
Q ss_pred HHHHHHHh-ccCCeeEEEEeeCCC-CCceeEEEEEeCcHHHHHHHHHH
Q 040106 141 EDIFEELS-KFGEIECLNVCDNLA-DHMIGNVYVQFREEEQAAAALHA 186 (324)
Q Consensus 141 eDV~eEf~-kfG~I~~V~V~~n~~-~~~~G~vyV~F~s~edA~~Ai~~ 186 (324)
++|-..|+ -||-|.=+-|..+.. .-++|-+=|+|.+..+=.+||.+
T Consensus 385 ~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 385 EELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred HHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 45555664 699999999987743 44899999999999988877764
No 162
>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=43.37 E-value=43 Score=32.92 Aligned_cols=62 Identities=16% Similarity=0.283 Sum_probs=42.4
Q ss_pred HHHHHHhccCCeeEEEEeeCC--------CCCceeEEEEEeCcHHHHHHHHHHhcCC------eeCCeEEEEEeec
Q 040106 142 DIFEELSKFGEIECLNVCDNL--------ADHMIGNVYVQFREEEQAAAALHALQGR------FYSGRPIIVEFSP 203 (324)
Q Consensus 142 DV~eEf~kfG~I~~V~V~~n~--------~~~~~G~vyV~F~s~edA~~Ai~~LnGR------~f~GR~I~vefs~ 203 (324)
.+...|.+||+|++|.+..+. .+.-.--+-+.|-+-+.+..-+..+=.| .+....|.+.|..
T Consensus 31 ~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~~L~S~~L~lsFV~ 106 (309)
T PF10567_consen 31 SFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKTKLKSESLTLSFVS 106 (309)
T ss_pred HHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHHhcCCcceeEEEEE
Confidence 566778899999999998765 2234456888999888877554433222 2456667777754
No 163
>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=41.90 E-value=52 Score=27.73 Aligned_cols=63 Identities=14% Similarity=0.189 Sum_probs=29.5
Q ss_pred CCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHH
Q 040106 101 SPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQA 180 (324)
Q Consensus 101 S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA 180 (324)
.+|+||.|+....+. ++. -.-++. +.|.++|+.|.+++ |..+.+.. ...|++-|+|...-..
T Consensus 8 PwmgIi~N~~~~~~~--~g~---~~g~~~-----------~~l~~~l~~f~p~k-v~~l~~~~-gh~g~aiv~F~~~w~G 69 (116)
T PF03468_consen 8 PWMGIIVNIPTEKDD--DGR---WVGMSN-----------EELLDKLAEFNPLK-VKPLYGKQ-GHTGFAIVEFNKDWSG 69 (116)
T ss_dssp S-EEEEE----EE-T--TS----EE---S-----------HHHHHHHHH---SE-EEEEEETT-EEEEEEEEE--SSHHH
T ss_pred CCEEEEEcCccccCC--CCc---eeccCH-----------HHHHHHHHhcCCce-eEECcCCC-CCcEEEEEEECCChHH
Confidence 368899999774321 100 011222 46777777799986 55555543 3579999999886544
Q ss_pred H
Q 040106 181 A 181 (324)
Q Consensus 181 ~ 181 (324)
-
T Consensus 70 f 70 (116)
T PF03468_consen 70 F 70 (116)
T ss_dssp H
T ss_pred H
Confidence 4
No 164
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=41.41 E-value=13 Score=37.22 Aligned_cols=33 Identities=30% Similarity=0.573 Sum_probs=28.3
Q ss_pred chhhhhcccccCCCCCCCCCCcccccccChhhh
Q 040106 207 FREATCRQFEENNCNRGGYCNFMHVKLIGRDLR 239 (324)
Q Consensus 207 f~ea~C~~~~~g~C~rG~~Cnf~H~~~~~r~l~ 239 (324)
-..-+|..|..|+|.||..|.|-|-++++.+|.
T Consensus 159 n~p~Icsf~v~geckRG~ec~yrhEkp~d~~L~ 191 (377)
T KOG0153|consen 159 NRPHICSFFVKGECKRGAECPYRHEKPPDDPLS 191 (377)
T ss_pred CCCccccceeeccccccccccccccCCCCcchh
Confidence 345689999999999999999999999776663
No 165
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.87 E-value=9.9 Score=39.66 Aligned_cols=28 Identities=21% Similarity=-0.002 Sum_probs=23.5
Q ss_pred CCcccccccccccccCCCcCCCCCCCCCC
Q 040106 72 DRVNCPFYFKIGACRHGDRCSRLHNRPTI 100 (324)
Q Consensus 72 d~vnC~Fy~K~GACRhGd~CSr~H~~P~~ 100 (324)
..+.|+||.| +.|--||-||.+|..|..
T Consensus 117 ~p~P~l~~~K-~~e~~~D~~s~Lh~P~A~ 144 (667)
T KOG4791|consen 117 NPSPQLRSVK-KVESSEDVPSPLHPPVAI 144 (667)
T ss_pred CCchHHHHhh-hhhhhccccccCCCCccc
Confidence 3688998877 899999999999988654
No 166
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=40.16 E-value=19 Score=36.82 Aligned_cols=41 Identities=27% Similarity=0.392 Sum_probs=36.1
Q ss_pred eEEEEEeecCCCchhhhhcccccCCCCCCCCCCcccccccC
Q 040106 195 RPIIVEFSPVTDFREATCRQFEENNCNRGGYCNFMHVKLIG 235 (324)
Q Consensus 195 R~I~vefs~v~~f~ea~C~~~~~g~C~rG~~Cnf~H~~~~~ 235 (324)
-.|.|-|..++.-..-.|..|..|.|.=|..|.|-|-.-++
T Consensus 126 arvRVlfl~PTh~sMkpC~ffLeg~CRF~enCRfSHG~~V~ 166 (486)
T KOG2185|consen 126 ARVRVLFLTPTHESMKPCKFFLEGRCRFGENCRFSHGLDVP 166 (486)
T ss_pred cceEEEeecCcchhhccchHhhccccccCcccccccCcccc
Confidence 56788899999989999999999999999999999976543
No 167
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=39.52 E-value=52 Score=34.18 Aligned_cols=53 Identities=15% Similarity=0.302 Sum_probs=40.2
Q ss_pred HHHHHHHhcc-CCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCC
Q 040106 141 EDIFEELSKF-GEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSG 194 (324)
Q Consensus 141 eDV~eEf~kf-G~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~G 194 (324)
-||...|..| -.|.+|.|.++..+ -+=-|-|+|.+..+|..-+..+||+.|+.
T Consensus 89 ~Dll~F~~~~~~~I~~irivRd~~p-nrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 89 HDLLRFCASFIKQISDIRIVRDGMP-NRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred HHHHHHHHHHhhhhheeEEeecCCC-ceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 4566655443 46899999885321 13358899999999999999999999974
No 168
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=39.29 E-value=19 Score=20.79 Aligned_cols=12 Identities=50% Similarity=1.210 Sum_probs=10.9
Q ss_pred CCCCCCCCCccc
Q 040106 219 NCNRGGYCNFMH 230 (324)
Q Consensus 219 ~C~rG~~Cnf~H 230 (324)
.|..|..|.|.|
T Consensus 7 ~C~~~~~C~f~H 18 (19)
T PF14608_consen 7 NCTNGDNCPFSH 18 (19)
T ss_pred CCCCCCcCccCC
Confidence 399999999999
No 169
>PF02956 TT_ORF1: TT viral orf 1; InterPro: IPR004219 Torque teno virus, isolated initially from a Japanese patient with hepatitis of unknown aetiology, has since been found to infect both healthy and diseased individuals and numerous prevalence studies have raised questions about its role in unexplained hepatitis. ORF1 is a large 750 residue protein.
Probab=38.61 E-value=14 Score=38.79 Aligned_cols=10 Identities=20% Similarity=0.773 Sum_probs=5.7
Q ss_pred HHHHHhhhhh
Q 040106 310 RAKIEQWNRE 319 (324)
Q Consensus 310 r~~~~~~~~~ 319 (324)
+-.|-||+-+
T Consensus 59 ~~~~~qwqP~ 68 (525)
T PF02956_consen 59 KLVLKQWQPD 68 (525)
T ss_pred ceeEEEeCCC
Confidence 3346777643
No 170
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=38.54 E-value=6.9 Score=38.32 Aligned_cols=52 Identities=35% Similarity=0.577 Sum_probs=35.2
Q ss_pred HHHHHHHhccCCeeEEEE--eeCC----CCC-----ceeE---------EEEEeCcHHHHHHHHHHhcCCee
Q 040106 141 EDIFEELSKFGEIECLNV--CDNL----ADH-----MIGN---------VYVQFREEEQAAAALHALQGRFY 192 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V--~~n~----~~~-----~~G~---------vyV~F~s~edA~~Ai~~LnGR~f 192 (324)
+-|...|+.||.|..|.| |++. ++. ..|| +||+|.....-..|+.+|.|..+
T Consensus 176 ~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeayvqfmeykgfa~amdalr~~k~ 247 (445)
T KOG2891|consen 176 DRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAYVQFMEYKGFAQAMDALRGMKL 247 (445)
T ss_pred HHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHHHHHHHHHhHHHHHHHHhcchH
Confidence 447778899999988776 4432 111 1222 57888877777788888887754
No 171
>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=37.88 E-value=42 Score=25.42 Aligned_cols=42 Identities=21% Similarity=0.169 Sum_probs=31.1
Q ss_pred eEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecCCCchhhhhcc
Q 040106 168 GNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPVTDFREATCRQ 214 (324)
Q Consensus 168 G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v~~f~ea~C~~ 214 (324)
.+.+|.|.+..+|.+|-+.|...-+.++.| |+..--.+.||.
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi~~~li-----P~P~~i~~~CG~ 43 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGIPVRLI-----PTPREISAGCGL 43 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCCcEEEe-----CCChhccCCCCE
Confidence 368999999999999999998776654444 555544555665
No 172
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=37.83 E-value=21 Score=39.70 Aligned_cols=18 Identities=33% Similarity=0.335 Sum_probs=10.3
Q ss_pred CCCCcHHHHHHHHhhhhh
Q 040106 302 VREGSEERRAKIEQWNRE 319 (324)
Q Consensus 302 ~R~~s~err~~~~~~~~~ 319 (324)
.|+++-+||++|-.--++
T Consensus 352 Erer~prRr~R~~pRy~~ 369 (1194)
T KOG4246|consen 352 ERERIPRRRERQGPRYRE 369 (1194)
T ss_pred hhhcchHhhhhccchHHH
Confidence 355667777776543333
No 173
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=37.00 E-value=88 Score=23.86 Aligned_cols=24 Identities=33% Similarity=0.447 Sum_probs=20.4
Q ss_pred HhHHHHHHHHHhccCCeeEEEEee
Q 040106 137 EDFYEDIFEELSKFGEIECLNVCD 160 (324)
Q Consensus 137 d~~~eDV~eEf~kfG~I~~V~V~~ 160 (324)
+.+..+|++.|+..|+|.-+.|-.
T Consensus 5 e~i~~~iR~~fs~lG~I~vLYvn~ 28 (62)
T PF15513_consen 5 EEITAEIRQFFSQLGEIAVLYVNP 28 (62)
T ss_pred HHHHHHHHHHHHhcCcEEEEEEcc
Confidence 456789999999999999988843
No 174
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=36.95 E-value=15 Score=36.83 Aligned_cols=11 Identities=18% Similarity=0.794 Sum_probs=6.8
Q ss_pred ceeEEEEEeCc
Q 040106 166 MIGNVYVQFRE 176 (324)
Q Consensus 166 ~~G~vyV~F~s 176 (324)
..||.||.|..
T Consensus 159 alGFmYiRYtq 169 (453)
T KOG2888|consen 159 ALGFMYIRYTQ 169 (453)
T ss_pred hheeeEEeecC
Confidence 35677777654
No 175
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=36.60 E-value=17 Score=28.86 Aligned_cols=31 Identities=19% Similarity=0.326 Sum_probs=18.2
Q ss_pred eeEeeccCCCCCCCCCCCchhhhhhccccchHHHHHH
Q 040106 28 EVCVWIDKLSEIPFPSQDKDSAVKFAGRGLAMAEHLA 64 (324)
Q Consensus 28 ~~~~~~~~~~~~~~p~~~~~~~~~~~~~g~~ma~~l~ 64 (324)
.||-|+|++....-|-.. --.|+|++.++-.
T Consensus 24 ~VC~WEdD~~q~~~pd~~------~G~N~~SL~eAr~ 54 (78)
T PF14206_consen 24 PVCFWEDDGVQLRDPDYY------GGANHMSLNEARE 54 (78)
T ss_pred CCCCcccCCccccCCccc------CCCCHHHHHHHHH
Confidence 578999998743333322 2345666666554
No 176
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=36.09 E-value=37 Score=31.23 Aligned_cols=54 Identities=19% Similarity=0.274 Sum_probs=39.9
Q ss_pred HHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCe-EEEEEeecC
Q 040106 146 ELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGR-PIIVEFSPV 204 (324)
Q Consensus 146 Ef~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR-~I~vefs~v 204 (324)
+|-.|-+..-+.+.. +.++|-|-|.+.+.|..|...+++..|.|. .+.+.|+..
T Consensus 35 lFrq~n~~~~fq~lr-----sfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ~ 89 (193)
T KOG4019|consen 35 LFRQINEDATFQLLR-----SFRRVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQP 89 (193)
T ss_pred HHhhhCcchHHHHHH-----hhceeEEeccChhHHHHHHHHhhhcccCCCceEEEEEccC
Confidence 333444444443433 467899999999999999999999999998 777766543
No 177
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=35.33 E-value=46 Score=25.89 Aligned_cols=59 Identities=17% Similarity=0.156 Sum_probs=41.5
Q ss_pred HHHHHHHhccC-CeeEEEEeeCCC-CCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 141 EDIFEELSKFG-EIECLNVCDNLA-DHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 141 eDV~eEf~kfG-~I~~V~V~~n~~-~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
+.|.++|.++| +|..|+.+.+.. ..+.--.||+-....+-. ..|+=+.+.|+.|.|+-.
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~---~Il~ik~Lg~~~V~VEr~ 62 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGK---EILNIKTLGGQRVTVERP 62 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCc---ceEeehhhCCeeEEEecC
Confidence 46888999999 788998887754 235556777776553322 256667788888888754
No 178
>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=34.91 E-value=50 Score=29.62 Aligned_cols=42 Identities=24% Similarity=0.555 Sum_probs=29.7
Q ss_pred ceeEEEEEeCcHHHHHHHHHHhcCCeeC---C--eEEEEEeecCCCc
Q 040106 166 MIGNVYVQFREEEQAAAALHALQGRFYS---G--RPIIVEFSPVTDF 207 (324)
Q Consensus 166 ~~G~vyV~F~s~edA~~Ai~~LnGR~f~---G--R~I~vefs~v~~f 207 (324)
.-..|||.|.+.+++..-...++|..|- | -+-.|+|++-..+
T Consensus 54 ~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg~~~~~~VE~Apyqk~ 100 (176)
T PF03467_consen 54 TYSRAYINFKNPEDLLEFRDRFDGHVFVDSKGNEYPAVVEFAPYQKV 100 (176)
T ss_dssp --EEEEEEESSCHHHHHHHHHCTTEEEE-TTS-EEEEEEEE-SS---
T ss_pred cceEEEEEeCCHHHHHHHHHhcCCcEEECCCCCCcceeEEEcchhcc
Confidence 4568999999999999999999997662 2 3556788876554
No 179
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=33.86 E-value=83 Score=29.37 Aligned_cols=48 Identities=17% Similarity=0.326 Sum_probs=40.7
Q ss_pred HHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCC
Q 040106 141 EDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSG 194 (324)
Q Consensus 141 eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~G 194 (324)
+||++.+-+-|.|--..|..+ |..-|+|...++.+-|+..|+...|..
T Consensus 130 QDLKDHmReaGdvCfadv~rD------g~GvV~~~r~eDMkYAvr~ld~~~~~s 177 (241)
T KOG0105|consen 130 QDLKDHMREAGDVCFADVQRD------GVGVVEYLRKEDMKYAVRKLDDQKFRS 177 (241)
T ss_pred HHHHHHHHhhCCeeeeeeecc------cceeeeeeehhhHHHHHHhhccccccC
Confidence 688899999999877777654 688899999999999999999887753
No 180
>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=33.44 E-value=62 Score=24.70 Aligned_cols=59 Identities=17% Similarity=0.256 Sum_probs=42.0
Q ss_pred HHHHHHHhccC-CeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEee
Q 040106 141 EDIFEELSKFG-EIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFS 202 (324)
Q Consensus 141 eDV~eEf~kfG-~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs 202 (324)
++|.++|...| +|..|+-+.+. ...+.--.||+.+...+ ..+.++=..+.|..|.|+-.
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~---~k~i~~Ik~l~~~~V~vE~~ 62 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPN---NKEIYKIKTLCGQRVKVERP 62 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCcc---ccceeehHhhCCeEEEEecC
Confidence 57889998999 68888777665 33356678888876655 33455556778888888753
No 181
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=33.34 E-value=20 Score=35.60 Aligned_cols=25 Identities=36% Similarity=0.955 Sum_probs=18.6
Q ss_pred cccccccccccccCCCcCCCCCCCC
Q 040106 74 VNCPFYFKIGACRHGDRCSRLHNRP 98 (324)
Q Consensus 74 vnC~Fy~K~GACRhGd~CSr~H~~P 98 (324)
--|.||.+.|.|..|..|.-+|+-|
T Consensus 106 rec~ff~~~g~c~~~~~c~y~h~dp 130 (325)
T KOG1040|consen 106 RECKFFSLFGECTNGKDCPYLHGDP 130 (325)
T ss_pred ccccccccccccccccCCcccCCCh
Confidence 3577777777777777777777776
No 182
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=32.64 E-value=1.7e+02 Score=31.30 Aligned_cols=60 Identities=25% Similarity=0.344 Sum_probs=45.5
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhc--CCee------CCeEEEEEeecCC
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQ--GRFY------SGRPIIVEFSPVT 205 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~Ln--GR~f------~GR~I~vefs~v~ 205 (324)
-+.|-+.|..-+-|.+|.|.- .||+.+.....--+......+. +.+| .|++|.|+|+..+
T Consensus 60 A~~i~~~l~~~~~~~~veiaG------pgfINf~l~~~~~~~~~~~~l~~~~~~~G~~~~~~~~kV~iE~sSaN 127 (577)
T COG0018 60 AEEIAEKLDTDEIIEKVEIAG------PGFINFFLSPEFLAELLLEILEKGDDRYGRSKLGKGKKVVIEYSSAN 127 (577)
T ss_pred HHHHHHhccccCcEeEEEEcC------CCEEEEEECHHHHHHHHHHHHHhcccccCccccCCCCEEEEEEeCCC
Confidence 378888887777888998863 3788888887666766667776 5555 6899999998553
No 183
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=32.25 E-value=60 Score=34.40 Aligned_cols=57 Identities=11% Similarity=0.298 Sum_probs=41.1
Q ss_pred cCCeeEEEEeeCCCCC-ceeEEEEEeCcHHHHHHHHHHhcCCe---eCC-eEEEEEeecCCC
Q 040106 150 FGEIECLNVCDNLADH-MIGNVYVQFREEEQAAAALHALQGRF---YSG-RPIIVEFSPVTD 206 (324)
Q Consensus 150 fG~I~~V~V~~n~~~~-~~G~vyV~F~s~edA~~Ai~~LnGR~---f~G-R~I~vefs~v~~ 206 (324)
.|.=.=+.++.+-..+ -.|+|||-|.+.+++..+++++||.. |.+ +...+.|+..+.
T Consensus 413 ~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArIQG 474 (549)
T KOG4660|consen 413 KGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARIQG 474 (549)
T ss_pred cCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhhhc
Confidence 5665666666664333 58999999999999999999999973 444 445566655443
No 184
>PF02580 Tyr_Deacylase: D-Tyr-tRNA(Tyr) deacylase; InterPro: IPR003732 This homodimeric enzyme appears able to cleave any D-amino acid (and glycine, which does not have distinct D/L forms) from charged tRNA. The name reflects characterisation with respect to D-Tyr on tRNA(Tyr) as established in the literature, but substrate specificity seems much broader. ; GO: 0016788 hydrolase activity, acting on ester bonds, 0019478 D-amino acid catabolic process, 0005737 cytoplasm; PDB: 3LMU_F 3LMT_B 3KNF_B 3KOC_C 3KNP_D 3KO9_F 3KO3_B 3KO5_C 3KOB_D 3LMV_E ....
Probab=31.92 E-value=1.7e+02 Score=25.70 Aligned_cols=35 Identities=26% Similarity=0.463 Sum_probs=26.0
Q ss_pred CChhHHHhhHHhHHHHHHHHH------hccCCeeEEEEeeC
Q 040106 127 IDPRKIQEHFEDFYEDIFEEL------SKFGEIECLNVCDN 161 (324)
Q Consensus 127 ld~eel~~~fd~~~eDV~eEf------~kfG~I~~V~V~~n 161 (324)
+++++.++.|+.|.+.++... ..||.-..|.+..+
T Consensus 96 ~~~~~a~~ly~~f~~~l~~~~~~~V~~G~FGa~M~V~l~Nd 136 (145)
T PF02580_consen 96 APPEEAEELYERFVEKLREEYKPKVKTGVFGADMQVSLVND 136 (145)
T ss_dssp --HHHHHHHHHHHHHHHHHHSTSCEEE--TTS-EEEEEEEE
T ss_pred CCHHHHHHHHHHHHHHHHHhCCCceeECccCCeeEEEEEeC
Confidence 457888999999999999988 68998888887654
No 185
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=31.43 E-value=50 Score=31.52 Aligned_cols=33 Identities=24% Similarity=0.313 Sum_probs=26.1
Q ss_pred EEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeecC
Q 040106 170 VYVQFREEEQAAAALHALQGRFYSGRPIIVEFSPV 204 (324)
Q Consensus 170 vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~v 204 (324)
|||+|+++.+|+.|.+.+.... +..+.+..+|+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APe 33 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPE 33 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCC
Confidence 6999999999999999776654 45557777765
No 186
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.19 E-value=19 Score=35.38 Aligned_cols=28 Identities=25% Similarity=0.861 Sum_probs=24.0
Q ss_pred CCchhhhhcccc-cCCCCCCCCCCccccc
Q 040106 205 TDFREATCRQFE-ENNCNRGGYCNFMHVK 232 (324)
Q Consensus 205 ~~f~ea~C~~~~-~g~C~rG~~Cnf~H~~ 232 (324)
-+|...+|..|. .|-|.-|..|.|+|.+
T Consensus 182 ~d~qpDicKdykeTgycg~gdSckFlh~r 210 (313)
T KOG1813|consen 182 IDYQPDICKDYKETGYCGYGDSCKFLHDR 210 (313)
T ss_pred eecCchhhhhhHhhCcccccchhhhhhhh
Confidence 467888999985 5889999999999965
No 187
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=30.35 E-value=23 Score=36.32 Aligned_cols=25 Identities=32% Similarity=0.902 Sum_probs=19.1
Q ss_pred CCCcccccccccccccCCCcCCCCCC
Q 040106 71 KDRVNCPFYFKIGACRHGDRCSRLHN 96 (324)
Q Consensus 71 ~d~vnC~Fy~K~GACRhGd~CSr~H~ 96 (324)
.....|+||.- |-||||..|--.|-
T Consensus 138 ~sMkpC~ffLe-g~CRF~enCRfSHG 162 (486)
T KOG2185|consen 138 ESMKPCKFFLE-GRCRFGENCRFSHG 162 (486)
T ss_pred hhhccchHhhc-cccccCcccccccC
Confidence 33578887764 99999999996554
No 188
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=30.28 E-value=1.3e+02 Score=25.63 Aligned_cols=33 Identities=6% Similarity=0.127 Sum_probs=26.6
Q ss_pred eeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcC
Q 040106 153 IECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQG 189 (324)
Q Consensus 153 I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnG 189 (324)
|..+.++.. ..|++||+.....+...++..+.|
T Consensus 28 ~~~~~vp~~----fpGYvFV~~~~~~~~~~~i~~~~g 60 (145)
T TIGR00405 28 VYSILAPES----LKGYILVEAETKIDMRNPIIGVPH 60 (145)
T ss_pred EEEEEccCC----CCcEEEEEEECcHHHHHHHhCCCC
Confidence 556666664 789999999988888888888877
No 189
>PF15440 THRAP3_BCLAF1: THRAP3/BCLAF1 family
Probab=29.83 E-value=57 Score=35.31 Aligned_cols=7 Identities=57% Similarity=0.515 Sum_probs=3.0
Q ss_pred CCCCCCC
Q 040106 253 RSFSPIP 259 (324)
Q Consensus 253 Rsrs~~~ 259 (324)
||||+||
T Consensus 2 RSRSRSP 8 (646)
T PF15440_consen 2 RSRSRSP 8 (646)
T ss_pred CccCCCc
Confidence 3444444
No 190
>PRK13817 ribosome-binding factor A; Provisional
Probab=29.06 E-value=80 Score=26.63 Aligned_cols=56 Identities=13% Similarity=0.267 Sum_probs=33.8
Q ss_pred cCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCC-----eeCCeEEEEEeecCCCch
Q 040106 150 FGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGR-----FYSGRPIIVEFSPVTDFR 208 (324)
Q Consensus 150 fG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR-----~f~GR~I~vefs~v~~f~ 208 (324)
+-.|..|.|..+. ....|||.+-..++...++++|+.. ..-|+.|.+-+.|.-.|.
T Consensus 31 ~vtVt~V~vS~Dl---~~AkVyvs~~~~~~~~~~~~~L~~a~g~iR~~l~~~l~lR~~PeL~F~ 91 (119)
T PRK13817 31 KISLTAVSISPDL---KQAKVFYSLLENQNEKEVQKALNKATGYLRHLLAQATVLRYVPKLEFV 91 (119)
T ss_pred ceEEeEEEECCCC---CEEEEEEEECCCccHHHHHHHHHHhHHHHHHHHHHhCCCeECCEEEEE
Confidence 4567777776553 4668888875444344444445432 234667777787776664
No 191
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=28.98 E-value=20 Score=37.76 Aligned_cols=13 Identities=31% Similarity=0.480 Sum_probs=5.2
Q ss_pred EEEEEeCcHHHHH
Q 040106 169 NVYVQFREEEQAA 181 (324)
Q Consensus 169 ~vyV~F~s~edA~ 181 (324)
|||.-=.+.++|.
T Consensus 229 fv~mlkkdkeea~ 241 (653)
T KOG2548|consen 229 FVYMLKKDKEEAK 241 (653)
T ss_pred HHHHhhhhHHHHH
Confidence 3333334444444
No 192
>PF06185 YecM: YecM protein; InterPro: IPR010393 This family consists of several bacterial YecM proteins of unknown function.; PDB: 1K4N_A.
Probab=28.32 E-value=2.8e+02 Score=25.50 Aligned_cols=63 Identities=21% Similarity=0.303 Sum_probs=42.2
Q ss_pred hhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCC-------eeCCeEEEE
Q 040106 129 PRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGR-------FYSGRPIIV 199 (324)
Q Consensus 129 ~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR-------~f~GR~I~v 199 (324)
..++...+..|++.|.......|- .+ ..-..--+=+.-.+.+.|+.+..+|... .++||+|.+
T Consensus 5 ~~~l~~dl~~F~~ki~~l~~~l~l----~l----~~~~~DHialRvn~~~~A~~~~~~l~~~G~llSen~INGRPI~l 74 (185)
T PF06185_consen 5 LQDLIGDLPRFEQKIQQLAQKLGL----DL----SQYEIDHIALRVNSNETAERWKQALLQCGELLSENMINGRPICL 74 (185)
T ss_dssp GHHHHHHHHHHHHHHHHHHHHHT-----------TT-EEEEEEEE-S-HHHHHHHHHHHTTTEEEEEEEEETTEEEEE
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCC----Cc----cccCCcEEEEecCCHHHHHHHHHHHHHhChhhhhceeCCeeEEE
Confidence 467788899999999998888772 11 1111224456667899999888887543 579999876
No 193
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=26.08 E-value=2.7e+02 Score=20.53 Aligned_cols=46 Identities=15% Similarity=0.181 Sum_probs=34.0
Q ss_pred HHHHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcC
Q 040106 140 YEDIFEELSKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQG 189 (324)
Q Consensus 140 ~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnG 189 (324)
..+|.+.+.++| +.-..|.-- ..-|+||+-+.+.++|.++.+.|.-
T Consensus 36 i~~~~~~~~~~G-a~~~~~sGs---G~G~~v~~l~~~~~~~~~v~~~l~~ 81 (85)
T PF08544_consen 36 IDELKEAAEENG-ALGAKMSGS---GGGPTVFALCKDEDDAERVAEALRE 81 (85)
T ss_dssp HHHHHHHHHHTT-ESEEEEETT---SSSSEEEEEESSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCC-CCceecCCC---CCCCeEEEEECCHHHHHHHHHHHHH
Confidence 356777778999 666666532 2357999999999999999888753
No 194
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=25.65 E-value=2.1e+02 Score=23.03 Aligned_cols=51 Identities=12% Similarity=0.137 Sum_probs=33.2
Q ss_pred HHhHHHHHHHHHhccC-CeeEEEE------eeCCCCCcee-EEEEEeCcHHHHHHHHHH
Q 040106 136 FEDFYEDIFEELSKFG-EIECLNV------CDNLADHMIG-NVYVQFREEEQAAAALHA 186 (324)
Q Consensus 136 fd~~~eDV~eEf~kfG-~I~~V~V------~~n~~~~~~G-~vyV~F~s~edA~~Ai~~ 186 (324)
.+++.+.+...+.+.| +|.++.. ......+..| ++++.|.-..+|.+.++.
T Consensus 23 ~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~eler 81 (97)
T CHL00123 23 LLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLEK 81 (97)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHHH
Confidence 4566677777776665 6777653 2222345678 589999877777666653
No 195
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=25.45 E-value=54 Score=31.77 Aligned_cols=62 Identities=16% Similarity=0.016 Sum_probs=45.8
Q ss_pred HHHHHHhccCCeeEEEEeeCC-CCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 142 DIFEELSKFGEIECLNVCDNL-ADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 142 DV~eEf~kfG~I~~V~V~~n~-~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
++-.++.++|.+....+.... ....+|+.||.|...+.+..|+.........++.+...+..
T Consensus 104 ~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~ 166 (285)
T KOG4210|consen 104 EDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNT 166 (285)
T ss_pred cccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCcccc
Confidence 345566788887777665542 34579999999999999999987555557778888777753
No 196
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=24.80 E-value=3.1e+02 Score=22.39 Aligned_cols=44 Identities=14% Similarity=0.215 Sum_probs=32.6
Q ss_pred HHHHHHHhccC-CeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCe
Q 040106 141 EDIFEELSKFG-EIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRF 191 (324)
Q Consensus 141 eDV~eEf~kfG-~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~ 191 (324)
..|...+..-| .+++|..- .+.+-|.|.+.++=.+|.+.|+...
T Consensus 49 ~~v~~~L~~~~I~~k~i~~~-------~~~llirf~~~~~Ql~Ak~~L~~~L 93 (101)
T PF13721_consen 49 FQVEQALKAAGIAVKSIEQE-------GDSLLIRFDSTDQQLKAKDVLSKAL 93 (101)
T ss_pred HHHHHHHHHCCCCcceEEee-------CCEEEEEECCHHHHHHHHHHHHHHc
Confidence 37888887777 35556542 3588999999998888888887654
No 197
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=23.34 E-value=50 Score=25.11 Aligned_cols=36 Identities=25% Similarity=0.481 Sum_probs=25.7
Q ss_pred HHHHHHH---hccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhc
Q 040106 141 EDIFEEL---SKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQ 188 (324)
Q Consensus 141 eDV~eEf---~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~Ln 188 (324)
++|.+.| ++|++|..+ .+|..|.+.++|..++.++.
T Consensus 27 ~~v~~~~~~~~~f~k~vkL------------~aF~pF~s~~~ALe~~~ais 65 (67)
T PF08156_consen 27 EEVQKSFSDPEKFSKIVKL------------KAFSPFKSAEEALENANAIS 65 (67)
T ss_pred HHHHHHHcCHHHHhhhhhh------------hhccCCCCHHHHHHHHHHhh
Confidence 3566655 455555544 57899999999998888764
No 198
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=23.18 E-value=1.9e+02 Score=30.02 Aligned_cols=72 Identities=22% Similarity=0.236 Sum_probs=50.8
Q ss_pred CCCCCCCCCeeEeccccCCCCCCCCCCCCCCCCCChhHHHhhHHhHHHHHHHHHhccCCeeEEEEeeCCCCCceeEE-EE
Q 040106 94 LHNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIFEELSKFGEIECLNVCDNLADHMIGNV-YV 172 (324)
Q Consensus 94 ~H~~P~~S~tLlL~NMy~~p~~~~~~~d~~~~eld~eel~~~fd~~~eDV~eEf~kfG~I~~V~V~~n~~~~~~G~v-yV 172 (324)
....|.+.+--+|.||.+-... ....-+...-.+||+|-.+++ |.+ .|
T Consensus 25 ~~lPPGP~~lPiIGnl~~l~~~----------------------~~h~~~~~ls~~yGpi~tl~l---------G~~~~V 73 (489)
T KOG0156|consen 25 RNLPPGPPPLPIIGNLHQLGSL----------------------PPHRSFRKLSKKYGPVFTLRL---------GSVPVV 73 (489)
T ss_pred CCCCcCCCCCCccccHHHcCCC----------------------chhHHHHHHHHHhCCeEEEEe---------cCceEE
Confidence 4556677778889999884321 111334444479999998887 332 66
Q ss_pred EeCcHHHHHHHHHHhcCCeeCCeEE
Q 040106 173 QFREEEQAAAALHALQGRFYSGRPI 197 (324)
Q Consensus 173 ~F~s~edA~~Ai~~LnGR~f~GR~I 197 (324)
.-.+.+.|..|+. -||-.|++|+.
T Consensus 74 viss~~~akE~l~-~~d~~fa~Rp~ 97 (489)
T KOG0156|consen 74 VISSYEAAKEVLV-KQDLEFADRPD 97 (489)
T ss_pred EECCHHHHHHHHH-hCCccccCCCC
Confidence 7778898888886 56889999997
No 199
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=23.18 E-value=45 Score=33.14 Aligned_cols=27 Identities=26% Similarity=0.812 Sum_probs=19.7
Q ss_pred hcccccCCCCCCCCCCcccccccChhhhhhh
Q 040106 212 CRQFEENNCNRGGYCNFMHVKLIGRDLRNKL 242 (324)
Q Consensus 212 C~~~~~g~C~rG~~Cnf~H~~~~~r~l~~~l 242 (324)
|-.+..|.|.|-. |.|+|- +..|...|
T Consensus 74 C~Ds~kgrCsR~n-CkylHp---p~hlkdql 100 (331)
T KOG2494|consen 74 CFDSQKGRCSREN-CKYLHP---PQHLKDQL 100 (331)
T ss_pred EeccccCccCccc-ceecCC---Chhhhhhh
Confidence 6778899999966 999994 44444433
No 200
>PLN00108 unknown protein; Provisional
Probab=23.03 E-value=1.9e+02 Score=27.83 Aligned_cols=80 Identities=14% Similarity=0.262 Sum_probs=47.7
Q ss_pred CCC-hhHHHhhHHhHHHHHHHHH-----------hccCCeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCC---
Q 040106 126 PID-PRKIQEHFEDFYEDIFEEL-----------SKFGEIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGR--- 190 (324)
Q Consensus 126 eld-~eel~~~fd~~~eDV~eEf-----------~kfG~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR--- 190 (324)
.|. ..+|++.|.+|.+.|.+.+ .-||--++|.+. ...-|+.=-+++ ..+.++-++|++.|..-
T Consensus 43 PL~~~p~i~~~~~~Fk~~Vl~~~~~~~~~f~~~l~~~gid~siF~~-p~~LHLTLgmL~-L~~~eev~kA~~~L~s~~~~ 120 (257)
T PLN00108 43 PLAIYPDLKKNIEAFQNSVLGNNDKDPLKFQSTLAEMGIEKSIFVS-PKTFHLTVVMLK-LENNESVVKAQNILKSICSN 120 (257)
T ss_pred EcCCCHHHHHHHHHHHHHHHhccccccccccccccccCCCHHHcCC-CCceEEEEEEEE-cCCHHHHHHHHHHHHHHHHH
Confidence 353 5789999999999999853 345644455432 223455544555 44555556666555543
Q ss_pred ---eeCCeEEEEEeecCCCc
Q 040106 191 ---FYSGRPIIVEFSPVTDF 207 (324)
Q Consensus 191 ---~f~GR~I~vefs~v~~f 207 (324)
.+++.++.+.+-.+.-+
T Consensus 121 i~~~l~~~pl~I~lkGL~~M 140 (257)
T PLN00108 121 VRQALKDRPVFIRLRGLDCM 140 (257)
T ss_pred HHHhhCCCCeEEEEEeehhc
Confidence 23567777776555444
No 201
>COG0858 RbfA Ribosome-binding factor A [Translation, ribosomal structure and biogenesis]
Probab=22.61 E-value=72 Score=26.97 Aligned_cols=64 Identities=22% Similarity=0.256 Sum_probs=39.7
Q ss_pred HHHHHHhccCCeeEEEEeeCCCCCceeEEEEEeCc--H---HHHHHHHHHhcCC--eeCCeEEEEEeecCCCch
Q 040106 142 DIFEELSKFGEIECLNVCDNLADHMIGNVYVQFRE--E---EQAAAALHALQGR--FYSGRPIIVEFSPVTDFR 208 (324)
Q Consensus 142 DV~eEf~kfG~I~~V~V~~n~~~~~~G~vyV~F~s--~---edA~~Ai~~LnGR--~f~GR~I~vefs~v~~f~ 208 (324)
+|++.--+.+.|.+|.|-.+. ..-.|||++-. . +.+.+|++.-.|. .+-|..+.+-+.|.-.|.
T Consensus 25 eikDprl~~~~Vt~V~vS~Dl---~~A~Vyvt~l~~~~~~~~~~~~~L~~A~g~ir~~l~~~~~lr~~PeL~F~ 95 (118)
T COG0858 25 EIKDPRLGLVTVTDVEVSKDL---SHAKVYVTVLGDEESSKAEILAALNKAKGFIRSELGKRLRLRKTPELHFV 95 (118)
T ss_pred HccCCCcCceEEEEEEEcCCC---ceEEEEEEecCCchhhHHHHHHHHHHhHHHHHHHHHHhCCeEeCCeEEEE
Confidence 344433455668888886654 46789999633 2 2333444444442 356888888888877665
No 202
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=22.39 E-value=3.5e+02 Score=29.05 Aligned_cols=44 Identities=7% Similarity=0.150 Sum_probs=35.8
Q ss_pred CeeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCeeCCeEEEEEeec
Q 040106 152 EIECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFYSGRPIIVEFSP 203 (324)
Q Consensus 152 ~I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f~GR~I~vefs~ 203 (324)
.|-.|.|.++ +-||+-. ...|...+..|++.++.|++|.++.+.
T Consensus 518 ~ig~i~i~~~-------~s~v~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 561 (629)
T PRK11634 518 YIGNIKLFAS-------HSTIELP-KGMPGEVLQHFTRTRILNKPMNMQLLG 561 (629)
T ss_pred hCCcEEEeCC-------ceEEEcC-hhhHHHHHHHhccccccCCceEEEECC
Confidence 3566677655 7888885 566889999999999999999999874
No 203
>KOG1847 consensus mRNA splicing factor [RNA processing and modification]
Probab=21.11 E-value=93 Score=33.92 Aligned_cols=10 Identities=50% Similarity=0.474 Sum_probs=4.0
Q ss_pred CCCCCCCCCC
Q 040106 253 RSFSPIPHLR 262 (324)
Q Consensus 253 Rsrs~~~~~r 262 (324)
||||+||++|
T Consensus 750 rsRsrSpr~r 759 (878)
T KOG1847|consen 750 RSRSRSPRHR 759 (878)
T ss_pred ccccCCchhh
Confidence 3334444433
No 204
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.01 E-value=44 Score=33.48 Aligned_cols=32 Identities=38% Similarity=0.720 Sum_probs=23.7
Q ss_pred cccccccccccccCCCcCCCCCCCCC-CCCeeEe
Q 040106 74 VNCPFYFKIGACRHGDRCSRLHNRPT-ISPTLLL 106 (324)
Q Consensus 74 vnC~Fy~K~GACRhGd~CSr~H~~P~-~S~tLlL 106 (324)
..|-+|. .|.|+||+.|--.|..|. .-.++++
T Consensus 9 tic~~~~-~g~c~~g~~cr~~h~~~~~~~~~~~~ 41 (344)
T KOG1039|consen 9 TICKYYQ-KGNCKFGDLCRLSHSLPDEEFATLLT 41 (344)
T ss_pred hhhhhcc-cccccccceeeeeccCchhhcccccc
Confidence 5677554 599999999999999993 3344433
No 205
>PRK06545 prephenate dehydrogenase; Validated
Probab=20.41 E-value=2e+02 Score=28.25 Aligned_cols=39 Identities=23% Similarity=0.363 Sum_probs=30.5
Q ss_pred eeEEEEeeCCCCCceeEEEEEeCcHHHHHHHHHHhcCCee
Q 040106 153 IECLNVCDNLADHMIGNVYVQFREEEQAAAALHALQGRFY 192 (324)
Q Consensus 153 I~~V~V~~n~~~~~~G~vyV~F~s~edA~~Ai~~LnGR~f 192 (324)
|++|.|..+. +...|.+-+.|.+.+++..|...|...|.
T Consensus 318 i~~~~i~~~~-~~~~g~~~~~~~~~~~~~~~~~~~~~~~~ 356 (359)
T PRK06545 318 IENLRILEAR-EDIHGVLQISFKNEEDRERAKALLEEFWT 356 (359)
T ss_pred eecceeeecc-CCcCceEEEEeCCHHHHHHHHHHHHhcCc
Confidence 6666665542 34679999999999999999999876653
No 206
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=20.23 E-value=49 Score=32.30 Aligned_cols=31 Identities=23% Similarity=0.434 Sum_probs=26.8
Q ss_pred CchhhhhcccccCCCCCCCCCCcccccccCh
Q 040106 206 DFREATCRQFEENNCNRGGYCNFMHVKLIGR 236 (324)
Q Consensus 206 ~f~ea~C~~~~~g~C~rG~~Cnf~H~~~~~r 236 (324)
....-.|.-|+.|.|..|..|.|+|-..+-.
T Consensus 101 ~~s~V~c~~~~~g~c~s~~~c~~lh~~d~~~ 131 (285)
T COG5084 101 LSSSVVCKFFLRGLCKSGFSCEFLHEYDLRS 131 (285)
T ss_pred ccCCcccchhccccCcCCCccccccCCCccc
Confidence 5667789999999999999999999877655
No 207
>PRK00521 rbfA ribosome-binding factor A; Validated
Probab=20.17 E-value=2e+02 Score=23.98 Aligned_cols=55 Identities=25% Similarity=0.326 Sum_probs=30.7
Q ss_pred CCeeEEEEeeCCCCCceeEEEEEeCc----HHHHHHHHHHhcCC--eeCCeEEEEEeecCCCch
Q 040106 151 GEIECLNVCDNLADHMIGNVYVQFRE----EEQAAAALHALQGR--FYSGRPIIVEFSPVTDFR 208 (324)
Q Consensus 151 G~I~~V~V~~n~~~~~~G~vyV~F~s----~edA~~Ai~~LnGR--~f~GR~I~vefs~v~~f~ 208 (324)
-.|..|.|..+. ....|||.+-. .+.+.++++...|. ..-++.|..-+.|.-.|.
T Consensus 35 vtIt~V~vS~Dl---~~AkVyvs~~~~~~~~~~~~~~L~~~~~~iR~~la~~l~lr~~P~L~F~ 95 (120)
T PRK00521 35 VTVTDVEVSPDL---AHAKVYVTVLGDEEDKEEALAALKKAAGFLRSELGKRLRLRYVPELRFV 95 (120)
T ss_pred eEEEEEEECCCC---CEEEEEEEECCCchhHHHHHHHHHHhHHHHHHHHHhhCCCccCCEEEEE
Confidence 345666665543 56788988853 23444444444442 234566666666665553
Done!