Query 021488
Match_columns 311
No_of_seqs 425 out of 2796
Neff 9.2
Searched_HMMs 46136
Date Fri Mar 29 03:22:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021488.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021488hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01659 sex-lethal sex-letha 99.9 8.9E-24 1.9E-28 190.4 15.9 133 1-143 140-277 (346)
2 TIGR01645 half-pint poly-U bin 99.9 4.4E-23 9.5E-28 195.4 15.8 144 1-144 140-287 (612)
3 KOG0148 Apoptosis-promoting RN 99.9 5.7E-23 1.2E-27 170.8 14.4 137 1-143 95-240 (321)
4 TIGR01622 SF-CC1 splicing fact 99.9 9.1E-22 2E-26 186.1 16.7 140 1-140 122-265 (457)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.9 2.3E-21 4.9E-26 177.4 18.5 142 2-143 123-351 (352)
6 KOG0109 RNA-binding protein LA 99.9 3.1E-22 6.7E-27 168.0 9.5 145 10-233 36-183 (346)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 1.6E-20 3.5E-25 171.8 15.4 132 1-142 36-172 (352)
8 TIGR01642 U2AF_lg U2 snRNP aux 99.8 3.9E-20 8.5E-25 177.3 16.0 137 6-142 219-376 (509)
9 KOG0117 Heterogeneous nuclear 99.8 3.2E-20 6.9E-25 164.2 11.8 135 1-143 116-333 (506)
10 TIGR01628 PABP-1234 polyadenyl 99.8 2.7E-19 5.8E-24 173.4 14.4 140 3-143 212-366 (562)
11 TIGR01628 PABP-1234 polyadenyl 99.8 3.6E-19 7.8E-24 172.5 14.7 134 1-143 33-169 (562)
12 KOG0145 RNA-binding protein EL 99.8 1.5E-19 3.2E-24 149.8 9.0 131 1-141 74-209 (360)
13 KOG0109 RNA-binding protein LA 99.8 2E-19 4.4E-24 151.2 8.6 177 64-299 3-182 (346)
14 KOG0131 Splicing factor 3b, su 99.8 3.3E-19 7.2E-24 140.4 8.7 135 2-145 43-181 (203)
15 KOG0124 Polypyrimidine tract-b 99.8 1.3E-19 2.7E-24 156.7 6.9 142 2-143 147-292 (544)
16 KOG0127 Nucleolar protein fibr 99.8 9.6E-19 2.1E-23 158.3 12.2 143 2-145 39-200 (678)
17 KOG0144 RNA-binding protein CU 99.8 4.7E-19 1E-23 156.2 9.0 134 1-144 67-209 (510)
18 TIGR01648 hnRNP-R-Q heterogene 99.8 9.8E-18 2.1E-22 159.0 15.4 127 4-143 176-309 (578)
19 TIGR01648 hnRNP-R-Q heterogene 99.7 1.4E-17 3.1E-22 157.9 12.9 126 1-143 91-224 (578)
20 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.7 7.2E-17 1.6E-21 153.2 15.4 131 9-141 312-480 (481)
21 KOG0147 Transcriptional coacti 99.7 9.1E-18 2E-22 152.6 8.0 143 1-143 212-360 (549)
22 KOG0145 RNA-binding protein EL 99.7 2.3E-16 5E-21 130.9 15.0 141 1-141 160-358 (360)
23 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.7 2.7E-16 5.9E-21 149.2 16.3 131 8-142 36-175 (481)
24 TIGR01642 U2AF_lg U2 snRNP aux 99.7 2.7E-16 5.9E-21 150.8 15.8 139 2-140 329-501 (509)
25 PLN03134 glycine-rich RNA-bind 99.7 2.9E-16 6.2E-21 124.5 12.8 84 60-143 31-116 (144)
26 KOG0107 Alternative splicing f 99.7 9.3E-17 2E-21 125.9 9.6 77 63-144 10-88 (195)
27 KOG0127 Nucleolar protein fibr 99.7 3.3E-16 7.2E-21 142.0 14.0 142 3-144 151-381 (678)
28 KOG0110 RNA-binding protein (R 99.7 1.8E-16 3.9E-21 147.9 9.6 135 8-143 558-695 (725)
29 KOG0123 Polyadenylate-binding 99.7 9.2E-16 2E-20 139.3 12.9 122 2-144 32-156 (369)
30 PTZ00368 universal minicircle 99.7 2.5E-16 5.5E-21 125.9 7.7 108 168-296 27-148 (148)
31 KOG4205 RNA-binding protein mu 99.7 2.7E-16 5.8E-21 138.1 8.3 142 1-146 39-181 (311)
32 PTZ00368 universal minicircle 99.6 5.9E-16 1.3E-20 123.8 7.6 108 170-296 2-122 (148)
33 TIGR01622 SF-CC1 splicing fact 99.6 4.5E-14 9.8E-19 133.7 15.9 135 2-140 220-447 (457)
34 KOG0122 Translation initiation 99.6 1.4E-14 3E-19 119.5 10.0 80 62-141 188-269 (270)
35 KOG4211 Splicing factor hnRNP- 99.5 3.4E-14 7.3E-19 128.0 11.1 136 3-139 42-180 (510)
36 TIGR01659 sex-lethal sex-letha 99.5 7.7E-14 1.7E-18 126.1 10.0 82 61-142 105-188 (346)
37 KOG0123 Polyadenylate-binding 99.5 9E-14 2E-18 126.3 10.4 133 3-140 110-245 (369)
38 PF00076 RRM_1: RNA recognitio 99.5 1.5E-13 3.3E-18 95.1 9.0 68 66-134 1-70 (70)
39 COG5082 AIR1 Arginine methyltr 99.5 3.3E-14 7.2E-19 114.1 5.8 118 167-301 59-178 (190)
40 KOG0149 Predicted RNA-binding 99.5 1.1E-13 2.4E-18 113.8 6.8 79 62-140 11-90 (247)
41 PF14259 RRM_6: RNA recognitio 99.4 1.7E-12 3.7E-17 90.1 9.9 68 66-134 1-70 (70)
42 KOG0125 Ataxin 2-binding prote 99.4 5.8E-13 1.3E-17 114.3 8.9 87 60-148 93-181 (376)
43 KOG0117 Heterogeneous nuclear 99.4 1.9E-12 4.1E-17 115.3 12.4 132 18-157 42-177 (506)
44 PLN03120 nucleic acid binding 99.4 1E-12 2.2E-17 111.7 9.7 76 63-141 4-80 (260)
45 KOG0146 RNA-binding protein ET 99.4 1.8E-12 3.9E-17 108.3 9.3 82 63-144 285-368 (371)
46 KOG0148 Apoptosis-promoting RN 99.4 8.7E-13 1.9E-17 110.5 7.0 79 64-142 63-143 (321)
47 KOG4207 Predicted splicing fac 99.4 7.2E-13 1.6E-17 106.8 6.0 87 57-143 7-95 (256)
48 KOG0113 U1 small nuclear ribon 99.4 2.7E-12 5.8E-17 109.0 8.9 81 61-141 99-181 (335)
49 KOG0121 Nuclear cap-binding pr 99.4 1.3E-12 2.8E-17 97.5 6.2 79 61-139 34-114 (153)
50 KOG0111 Cyclophilin-type pepti 99.4 8.7E-13 1.9E-17 107.2 5.2 82 62-143 9-92 (298)
51 KOG0126 Predicted RNA-binding 99.3 2.5E-13 5.5E-18 107.3 1.9 81 62-142 34-116 (219)
52 TIGR01645 half-pint poly-U bin 99.3 5.5E-12 1.2E-16 120.4 9.9 79 61-139 105-185 (612)
53 KOG0130 RNA-binding protein RB 99.3 5.7E-12 1.2E-16 94.9 6.3 87 57-143 66-154 (170)
54 PLN03121 nucleic acid binding 99.3 1.7E-11 3.6E-16 102.7 9.8 75 63-140 5-80 (243)
55 PLN03213 repressor of silencin 99.3 9.7E-12 2.1E-16 112.1 8.9 76 62-141 9-88 (759)
56 smart00362 RRM_2 RNA recogniti 99.3 3.6E-11 7.8E-16 82.8 8.5 70 65-136 1-72 (72)
57 KOG0108 mRNA cleavage and poly 99.2 1.5E-11 3.2E-16 113.0 7.3 81 64-144 19-101 (435)
58 KOG4206 Spliceosomal protein s 99.2 1.1E-10 2.4E-15 96.0 11.3 131 3-138 45-219 (221)
59 KOG0131 Splicing factor 3b, su 99.2 1.3E-11 2.7E-16 97.9 5.4 79 62-140 8-88 (203)
60 KOG0114 Predicted RNA-binding 99.2 5.3E-11 1.1E-15 85.6 8.0 78 62-142 17-96 (124)
61 smart00360 RRM RNA recognition 99.2 6.8E-11 1.5E-15 81.1 7.7 69 68-136 1-71 (71)
62 cd00590 RRM RRM (RNA recogniti 99.2 2.2E-10 4.7E-15 79.3 9.1 72 65-137 1-74 (74)
63 KOG0147 Transcriptional coacti 99.2 1.7E-10 3.6E-15 105.7 9.7 134 1-139 311-526 (549)
64 COG0724 RNA-binding proteins ( 99.1 1.8E-10 3.9E-15 100.8 9.5 78 63-140 115-194 (306)
65 KOG0105 Alternative splicing f 99.1 6.3E-10 1.4E-14 88.4 10.5 115 8-129 43-176 (241)
66 KOG4400 E3 ubiquitin ligase in 99.1 1.4E-10 3E-15 101.5 6.1 107 168-299 72-186 (261)
67 KOG4212 RNA-binding protein hn 99.1 1.4E-09 3.1E-14 97.0 12.2 135 2-137 78-290 (608)
68 KOG0105 Alternative splicing f 99.1 3.3E-10 7.3E-15 90.0 6.4 77 62-141 5-83 (241)
69 COG5082 AIR1 Arginine methyltr 99.0 1.5E-10 3.3E-15 93.2 3.9 76 210-296 60-139 (190)
70 smart00361 RRM_1 RNA recogniti 99.0 1.9E-09 4.2E-14 74.6 7.2 59 77-135 2-69 (70)
71 KOG0106 Alternative splicing f 99.0 6.3E-10 1.4E-14 92.4 5.0 120 10-137 35-167 (216)
72 KOG0144 RNA-binding protein CU 99.0 1.5E-09 3.2E-14 96.7 7.1 84 61-144 32-120 (510)
73 KOG0124 Polypyrimidine tract-b 99.0 6.1E-10 1.3E-14 97.2 4.4 74 64-137 114-189 (544)
74 KOG0120 Splicing factor U2AF, 98.9 1.4E-09 3E-14 100.7 5.9 138 6-143 219-371 (500)
75 KOG0110 RNA-binding protein (R 98.9 6.5E-09 1.4E-13 98.0 9.7 128 13-140 424-597 (725)
76 KOG1190 Polypyrimidine tract-b 98.9 1.8E-08 3.8E-13 89.4 11.7 125 11-140 336-490 (492)
77 KOG4212 RNA-binding protein hn 98.9 3.1E-09 6.7E-14 94.8 6.8 78 62-140 43-123 (608)
78 PF13893 RRM_5: RNA recognitio 98.9 8.1E-09 1.8E-13 68.1 7.3 54 80-138 1-56 (56)
79 KOG4206 Spliceosomal protein s 98.9 5.4E-09 1.2E-13 86.2 7.4 80 61-143 7-92 (221)
80 PF00098 zf-CCHC: Zinc knuckle 98.9 1E-09 2.3E-14 54.2 1.5 18 278-295 1-18 (18)
81 KOG0153 Predicted RNA-binding 98.9 8.1E-09 1.8E-13 89.8 7.8 78 57-140 222-302 (377)
82 KOG4205 RNA-binding protein mu 98.8 3.9E-09 8.6E-14 93.1 5.7 86 62-147 5-91 (311)
83 KOG0120 Splicing factor U2AF, 98.8 8.7E-09 1.9E-13 95.5 8.0 139 1-139 322-490 (500)
84 KOG1457 RNA binding protein (c 98.8 2.4E-08 5.2E-13 81.9 9.3 114 9-128 76-273 (284)
85 KOG4400 E3 ubiquitin ligase in 98.8 1E-08 2.3E-13 89.7 6.9 131 168-307 24-176 (261)
86 KOG0415 Predicted peptidyl pro 98.8 8.5E-09 1.8E-13 89.8 6.1 82 60-141 236-319 (479)
87 KOG4210 Nuclear localization s 98.8 1E-08 2.2E-13 90.1 6.4 141 4-144 124-267 (285)
88 KOG4208 Nucleolar RNA-binding 98.8 2.6E-08 5.7E-13 80.9 7.7 82 60-141 46-130 (214)
89 KOG0226 RNA-binding proteins [ 98.8 7.3E-09 1.6E-13 86.5 4.0 135 4-142 134-271 (290)
90 KOG1365 RNA-binding protein Fu 98.8 2.7E-09 6E-14 93.7 1.6 136 3-139 199-360 (508)
91 KOG1365 RNA-binding protein Fu 98.7 2E-08 4.4E-13 88.4 6.4 131 5-136 97-238 (508)
92 KOG1548 Transcription elongati 98.7 3.3E-07 7.2E-12 79.9 12.2 138 3-144 176-355 (382)
93 PLN03134 glycine-rich RNA-bind 98.7 4E-08 8.7E-13 77.9 6.1 48 1-48 67-115 (144)
94 KOG0132 RNA polymerase II C-te 98.7 4.8E-08 1E-12 93.0 6.8 76 62-143 420-497 (894)
95 smart00361 RRM_1 RNA recogniti 98.6 6.2E-08 1.4E-12 67.0 5.0 40 2-41 27-69 (70)
96 KOG0146 RNA-binding protein ET 98.6 4.7E-08 1E-12 82.2 5.1 97 36-143 2-103 (371)
97 KOG4211 Splicing factor hnRNP- 98.6 1.7E-07 3.7E-12 85.3 8.1 80 62-143 9-88 (510)
98 COG0724 RNA-binding proteins ( 98.5 5.2E-07 1.1E-11 78.7 9.9 107 2-108 149-271 (306)
99 KOG1457 RNA binding protein (c 98.5 1.1E-06 2.5E-11 72.2 9.6 84 62-146 33-123 (284)
100 KOG4661 Hsp27-ERE-TATA-binding 98.5 5.4E-07 1.2E-11 83.2 8.2 83 62-144 404-488 (940)
101 KOG0533 RRM motif-containing p 98.5 7.3E-07 1.6E-11 75.9 8.0 82 62-144 82-165 (243)
102 PF04059 RRM_2: RNA recognitio 98.4 1.6E-06 3.5E-11 63.3 8.3 76 64-139 2-85 (97)
103 KOG0128 RNA-binding protein SA 98.4 2.3E-07 5E-12 89.4 3.5 114 4-144 703-818 (881)
104 PF00098 zf-CCHC: Zinc knuckle 98.4 1.3E-07 2.9E-12 46.6 0.7 17 212-228 2-18 (18)
105 KOG4209 Splicing factor RNPS1, 98.3 1.4E-06 3E-11 74.3 7.2 81 62-142 100-181 (231)
106 KOG0129 Predicted RNA-binding 98.3 6.5E-06 1.4E-10 75.7 11.4 111 11-122 307-431 (520)
107 KOG0116 RasGAP SH3 binding pro 98.3 1.4E-06 3.1E-11 80.0 7.2 81 63-143 288-369 (419)
108 KOG0106 Alternative splicing f 98.3 9.4E-07 2E-11 73.6 4.3 70 64-141 2-73 (216)
109 KOG1456 Heterogeneous nuclear 98.3 2.6E-05 5.7E-10 68.9 13.3 118 11-130 326-474 (494)
110 KOG4207 Predicted splicing fac 98.2 7.5E-07 1.6E-11 72.4 3.1 47 2-48 47-94 (256)
111 KOG0126 Predicted RNA-binding 98.2 2.8E-07 6E-12 73.4 0.5 47 1-47 68-115 (219)
112 KOG4208 Nucleolar RNA-binding 98.2 1.4E-06 3E-11 71.0 4.3 46 2-47 84-130 (214)
113 KOG1548 Transcription elongati 98.2 6.1E-06 1.3E-10 72.2 8.5 80 63-143 134-223 (382)
114 KOG0125 Ataxin 2-binding prote 98.2 2E-06 4.3E-11 74.6 4.6 46 7-52 133-179 (376)
115 KOG0111 Cyclophilin-type pepti 98.1 1.9E-06 4.1E-11 70.7 3.7 48 2-49 44-92 (298)
116 KOG4307 RNA binding protein RB 98.1 4.4E-06 9.6E-11 79.0 6.5 129 10-139 352-512 (944)
117 PF13893 RRM_5: RNA recognitio 98.1 6.1E-06 1.3E-10 54.2 4.8 35 10-44 21-56 (56)
118 KOG4454 RNA binding protein (R 98.1 1.4E-06 3E-11 71.5 1.9 77 61-139 7-85 (267)
119 KOG0113 U1 small nuclear ribon 98.0 6.1E-06 1.3E-10 70.8 4.8 44 1-44 134-178 (335)
120 KOG4660 Protein Mei2, essentia 98.0 3.2E-06 6.9E-11 78.3 3.3 70 60-134 72-143 (549)
121 KOG0149 Predicted RNA-binding 98.0 3.8E-06 8.2E-11 69.8 3.2 46 1-46 45-90 (247)
122 KOG0108 mRNA cleavage and poly 98.0 8E-06 1.7E-10 75.6 5.2 47 1-47 51-98 (435)
123 PF00076 RRM_1: RNA recognitio 98.0 8.5E-06 1.8E-10 55.7 4.0 36 5-40 34-70 (70)
124 smart00360 RRM RNA recognition 98.0 1.4E-05 3.1E-10 54.0 4.9 39 3-41 31-70 (71)
125 KOG1190 Polypyrimidine tract-b 97.9 0.00014 3E-09 65.2 11.2 75 63-142 297-374 (492)
126 PF14259 RRM_6: RNA recognitio 97.8 2.1E-05 4.5E-10 54.0 3.7 34 7-40 36-70 (70)
127 KOG0107 Alternative splicing f 97.8 1.8E-05 3.8E-10 63.0 3.4 39 9-47 46-85 (195)
128 KOG1995 Conserved Zn-finger pr 97.8 1.5E-05 3.2E-10 70.3 3.3 82 62-143 65-156 (351)
129 PF11608 Limkain-b1: Limkain b 97.8 6.7E-05 1.5E-09 52.4 5.7 67 64-140 3-76 (90)
130 KOG0130 RNA-binding protein RB 97.8 2.6E-05 5.7E-10 59.3 3.9 46 2-47 106-152 (170)
131 KOG4454 RNA binding protein (R 97.8 9.4E-06 2E-10 66.7 1.4 100 1-121 41-142 (267)
132 KOG0226 RNA-binding proteins [ 97.8 1.5E-05 3.4E-10 66.9 2.6 44 1-44 223-267 (290)
133 KOG1456 Heterogeneous nuclear 97.7 0.00022 4.8E-09 63.2 9.4 126 10-143 67-201 (494)
134 PF13696 zf-CCHC_2: Zinc knuck 97.7 1.7E-05 3.7E-10 44.7 1.5 21 276-296 7-27 (32)
135 PLN03120 nucleic acid binding 97.6 8.2E-05 1.8E-09 63.8 5.3 40 8-47 41-80 (260)
136 KOG0151 Predicted splicing reg 97.6 0.00015 3.3E-09 69.1 6.3 81 62-142 173-258 (877)
137 smart00362 RRM_2 RNA recogniti 97.5 0.0002 4.4E-09 48.4 4.7 35 7-41 36-71 (72)
138 PF08777 RRM_3: RNA binding mo 97.4 0.00042 9.1E-09 51.7 6.1 67 65-137 3-76 (105)
139 PLN03213 repressor of silencin 97.4 0.00015 3.2E-09 66.5 4.2 41 4-46 44-87 (759)
140 PLN03121 nucleic acid binding 97.4 0.00021 4.5E-09 60.5 4.8 42 6-47 40-81 (243)
141 KOG0121 Nuclear cap-binding pr 97.4 0.00025 5.4E-09 53.6 4.1 42 3-44 71-113 (153)
142 KOG4849 mRNA cleavage factor I 97.3 0.00017 3.6E-09 63.3 2.9 72 64-135 81-156 (498)
143 PF13696 zf-CCHC_2: Zinc knuck 97.2 0.00015 3.3E-09 40.9 1.4 21 210-230 8-28 (32)
144 KOG0128 RNA-binding protein SA 97.2 1.1E-05 2.3E-10 78.3 -6.3 119 12-130 616-735 (881)
145 cd00590 RRM RRM (RNA recogniti 97.2 0.00086 1.9E-08 45.5 5.0 35 8-42 38-73 (74)
146 KOG4307 RNA binding protein RB 97.1 0.002 4.4E-08 61.6 7.6 74 63-137 867-943 (944)
147 KOG0114 Predicted RNA-binding 96.9 0.0015 3.3E-08 47.5 4.2 46 4-49 51-97 (124)
148 smart00343 ZnF_C2HC zinc finge 96.9 0.00043 9.4E-09 37.6 0.9 18 279-296 1-18 (26)
149 PF13917 zf-CCHC_3: Zinc knuck 96.9 0.00053 1.1E-08 41.6 1.3 19 277-295 4-22 (42)
150 KOG0112 Large RNA-binding prot 96.8 0.00093 2E-08 65.6 3.2 118 7-142 410-532 (975)
151 COG5175 MOT2 Transcriptional r 96.8 0.003 6.4E-08 55.5 5.7 79 63-141 114-203 (480)
152 KOG0415 Predicted peptidyl pro 96.7 0.0014 3E-08 57.9 3.6 47 1-47 272-319 (479)
153 PF05172 Nup35_RRM: Nup53/35/4 96.7 0.01 2.2E-07 43.7 7.3 75 64-139 7-90 (100)
154 PF08952 DUF1866: Domain of un 96.6 0.013 2.8E-07 45.9 7.8 71 62-140 26-106 (146)
155 PF14605 Nup35_RRM_2: Nup53/35 96.6 0.0047 1E-07 39.9 4.5 51 64-121 2-53 (53)
156 KOG4209 Splicing factor RNPS1, 96.6 0.0028 6.1E-08 54.2 4.2 46 2-47 135-180 (231)
157 KOG0115 RNA-binding protein p5 96.5 0.0071 1.5E-07 51.3 6.0 81 23-121 7-89 (275)
158 KOG2193 IGF-II mRNA-binding pr 96.3 0.0002 4.3E-09 64.4 -4.4 114 10-139 37-155 (584)
159 KOG1855 Predicted RNA-binding 96.2 0.01 2.2E-07 53.9 5.9 77 61-137 229-320 (484)
160 KOG3152 TBP-binding protein, a 96.2 0.0026 5.7E-08 53.8 2.0 71 62-132 73-157 (278)
161 KOG2193 IGF-II mRNA-binding pr 96.0 0.0027 5.9E-08 57.4 1.3 107 64-177 2-113 (584)
162 PF07292 NID: Nmi/IFP 35 domai 95.8 0.01 2.3E-07 42.4 3.3 72 13-85 1-74 (88)
163 smart00343 ZnF_C2HC zinc finge 95.7 0.004 8.7E-08 33.7 0.7 18 212-229 1-18 (26)
164 PF10309 DUF2414: Protein of u 95.6 0.052 1.1E-06 36.1 5.7 50 64-121 6-59 (62)
165 PF11608 Limkain-b1: Limkain b 95.5 0.023 5E-07 39.9 4.0 37 9-45 38-75 (90)
166 PF04059 RRM_2: RNA recognitio 95.3 0.026 5.6E-07 41.3 3.9 34 2-35 37-71 (97)
167 PF14787 zf-CCHC_5: GAG-polypr 95.2 0.0087 1.9E-07 34.5 1.0 19 278-296 3-21 (36)
168 PF13917 zf-CCHC_3: Zinc knuck 95.2 0.01 2.3E-07 36.0 1.3 19 210-228 4-22 (42)
169 KOG0129 Predicted RNA-binding 95.2 0.048 1E-06 50.8 6.1 58 63-121 259-323 (520)
170 KOG2314 Translation initiation 95.1 0.03 6.5E-07 52.7 4.7 76 63-139 58-142 (698)
171 KOG4676 Splicing factor, argin 94.9 0.051 1.1E-06 48.9 5.1 76 64-139 8-87 (479)
172 KOG2416 Acinus (induces apopto 94.8 0.024 5.1E-07 53.6 3.1 78 58-141 439-522 (718)
173 PF07576 BRAP2: BRCA1-associat 94.7 0.4 8.7E-06 36.0 9.0 64 65-130 15-81 (110)
174 PF14392 zf-CCHC_4: Zinc knuck 94.6 0.012 2.6E-07 37.3 0.4 18 278-295 32-49 (49)
175 KOG0119 Splicing factor 1/bran 94.5 0.023 5.1E-07 52.6 2.4 43 211-296 262-304 (554)
176 KOG0119 Splicing factor 1/bran 94.4 0.011 2.5E-07 54.6 0.2 45 167-229 260-304 (554)
177 KOG1996 mRNA splicing factor [ 94.4 0.11 2.5E-06 45.0 6.1 63 77-139 300-365 (378)
178 PF15288 zf-CCHC_6: Zinc knuck 93.8 0.033 7.1E-07 33.2 1.2 20 278-297 2-23 (40)
179 COG5222 Uncharacterized conser 93.6 0.027 5.9E-07 48.7 0.9 19 278-296 177-195 (427)
180 KOG0112 Large RNA-binding prot 93.4 0.017 3.7E-07 57.1 -0.7 77 62-139 371-449 (975)
181 KOG0804 Cytoplasmic Zn-finger 93.4 1 2.2E-05 41.6 10.4 66 63-130 74-142 (493)
182 PF03880 DbpA: DbpA RNA bindin 93.3 0.3 6.4E-06 33.8 5.5 65 65-138 2-74 (74)
183 KOG2314 Translation initiation 93.0 0.06 1.3E-06 50.7 2.1 40 5-44 100-141 (698)
184 PF03467 Smg4_UPF3: Smg-4/UPF3 92.8 0.35 7.7E-06 39.6 6.3 78 63-140 7-97 (176)
185 KOG4676 Splicing factor, argin 92.4 0.014 3E-07 52.4 -2.6 121 10-134 52-219 (479)
186 KOG0153 Predicted RNA-binding 92.3 0.15 3.2E-06 45.4 3.6 38 9-46 263-302 (377)
187 KOG4661 Hsp27-ERE-TATA-binding 92.3 0.18 4E-06 47.6 4.3 42 6-47 443-485 (940)
188 KOG2202 U2 snRNP splicing fact 92.3 0.054 1.2E-06 46.1 0.8 62 78-140 83-147 (260)
189 KOG1995 Conserved Zn-finger pr 92.2 0.11 2.4E-06 46.4 2.6 44 2-45 108-152 (351)
190 PF14787 zf-CCHC_5: GAG-polypr 91.9 0.051 1.1E-06 31.4 0.2 21 211-231 3-23 (36)
191 PF14392 zf-CCHC_4: Zinc knuck 91.6 0.062 1.4E-06 34.0 0.4 18 211-228 32-49 (49)
192 PF15288 zf-CCHC_6: Zinc knuck 91.5 0.091 2E-06 31.4 0.9 21 211-231 2-24 (40)
193 COG5222 Uncharacterized conser 91.3 0.093 2E-06 45.6 1.2 22 210-231 176-197 (427)
194 KOG0533 RRM motif-containing p 90.9 0.42 9.1E-06 41.1 4.8 44 4-47 118-162 (243)
195 KOG2591 c-Mpl binding protein, 90.4 0.66 1.4E-05 43.9 5.9 65 64-135 176-246 (684)
196 KOG0314 Predicted E3 ubiquitin 89.6 0.5 1.1E-05 44.1 4.4 20 277-296 158-177 (448)
197 PF08952 DUF1866: Domain of un 89.5 0.53 1.1E-05 37.0 3.9 38 12-49 72-109 (146)
198 KOG2202 U2 snRNP splicing fact 88.9 0.3 6.4E-06 41.8 2.3 36 9-44 109-145 (260)
199 KOG2068 MOT2 transcription fac 88.9 0.19 4.1E-06 44.6 1.1 80 64-143 78-165 (327)
200 KOG4660 Protein Mei2, essentia 88.7 0.65 1.4E-05 43.9 4.6 77 64-140 389-472 (549)
201 KOG0132 RNA polymerase II C-te 88.3 0.88 1.9E-05 44.9 5.2 40 9-48 456-496 (894)
202 KOG0116 RasGAP SH3 binding pro 86.3 0.86 1.9E-05 42.5 3.9 40 7-46 327-366 (419)
203 PF04847 Calcipressin: Calcipr 85.2 2.5 5.4E-05 34.9 5.7 61 76-142 8-72 (184)
204 PF15023 DUF4523: Protein of u 84.6 4 8.7E-05 31.9 6.1 70 61-138 84-159 (166)
205 PF07530 PRE_C2HC: Associated 84.0 1.5 3.3E-05 29.8 3.3 61 78-140 2-64 (68)
206 KOG4285 Mitotic phosphoprotein 83.7 3.7 8.1E-05 36.1 6.2 70 65-141 199-270 (350)
207 PF08675 RNA_bind: RNA binding 83.2 8.3 0.00018 27.3 6.7 51 65-124 11-63 (87)
208 KOG2135 Proteins containing th 81.3 1 2.2E-05 41.9 2.1 72 65-142 374-447 (526)
209 smart00596 PRE_C2HC PRE_C2HC d 78.7 2.4 5.3E-05 28.7 2.7 61 78-140 2-64 (69)
210 PF05172 Nup35_RRM: Nup53/35/4 78.6 3.6 7.8E-05 30.3 3.9 34 11-44 55-89 (100)
211 KOG4849 mRNA cleavage factor I 77.7 3.2 6.9E-05 37.2 3.9 43 3-45 117-160 (498)
212 KOG4210 Nuclear localization s 75.8 1.9 4.2E-05 38.2 2.2 81 62-142 87-169 (285)
213 PF14111 DUF4283: Domain of un 74.2 0.8 1.7E-05 36.2 -0.6 84 9-96 54-139 (153)
214 PF12353 eIF3g: Eukaryotic tra 72.6 2 4.3E-05 33.2 1.2 21 277-298 106-126 (128)
215 KOG2253 U1 snRNP complex, subu 68.8 3.3 7E-05 40.3 2.0 68 61-137 38-107 (668)
216 PF11767 SET_assoc: Histone ly 66.1 8.9 0.00019 25.8 3.2 29 13-41 36-65 (66)
217 KOG4410 5-formyltetrahydrofola 65.2 6.4 0.00014 34.3 2.9 46 64-115 331-378 (396)
218 KOG4574 RNA-binding protein (c 64.7 4.6 0.0001 40.5 2.2 75 65-145 300-378 (1007)
219 PF11767 SET_assoc: Histone ly 62.9 39 0.00085 22.7 5.8 54 74-135 11-65 (66)
220 KOG2044 5'-3' exonuclease HKE1 62.7 3.2 7E-05 41.3 0.8 23 274-296 257-279 (931)
221 COG5175 MOT2 Transcriptional r 61.8 10 0.00022 34.0 3.6 30 14-43 169-199 (480)
222 PF03880 DbpA: DbpA RNA bindin 60.0 13 0.00027 25.5 3.2 33 11-44 41-74 (74)
223 KOG0151 Predicted splicing reg 59.9 8.9 0.00019 37.8 3.1 37 8-44 217-254 (877)
224 PRK14548 50S ribosomal protein 55.5 36 0.00077 24.2 4.9 53 66-121 23-78 (84)
225 KOG0314 Predicted E3 ubiquitin 55.4 8.3 0.00018 36.2 2.1 47 169-232 134-180 (448)
226 TIGR03636 L23_arch archaeal ri 54.3 41 0.00089 23.4 5.0 53 66-121 16-71 (77)
227 KOG4483 Uncharacterized conser 53.8 42 0.0009 31.0 6.1 56 61-123 389-446 (528)
228 PF08777 RRM_3: RNA binding mo 53.2 18 0.0004 26.8 3.3 17 12-28 39-55 (105)
229 KOG2318 Uncharacterized conser 48.1 1E+02 0.0022 30.1 7.9 76 60-135 171-300 (650)
230 PRK04023 DNA polymerase II lar 44.0 87 0.0019 32.8 7.3 19 209-228 625-643 (1121)
231 COG5179 TAF1 Transcription ini 43.5 11 0.00024 36.6 1.0 21 276-296 936-958 (968)
232 KOG2560 RNA splicing factor - 40.8 8.4 0.00018 35.9 -0.2 17 278-294 113-129 (529)
233 PF04847 Calcipressin: Calcipr 38.2 51 0.0011 27.2 4.0 35 11-45 32-69 (184)
234 KOG2044 5'-3' exonuclease HKE1 37.7 14 0.0003 37.1 0.7 23 208-230 258-280 (931)
235 KOG4285 Mitotic phosphoprotein 37.1 43 0.00093 29.7 3.5 42 3-44 225-267 (350)
236 KOG2673 Uncharacterized conser 37.0 17 0.00037 34.0 1.1 17 280-296 131-147 (485)
237 KOG3116 Predicted C3H1-type Zn 36.6 8 0.00017 30.3 -0.9 23 209-231 26-48 (177)
238 KOG3794 CBF1-interacting corep 35.4 17 0.00036 33.3 0.8 24 208-231 122-147 (453)
239 PF02714 DUF221: Domain of unk 34.2 69 0.0015 28.7 4.6 55 13-85 1-56 (325)
240 KOG2673 Uncharacterized conser 32.7 21 0.00046 33.4 1.1 20 212-231 130-149 (485)
241 PHA00689 hypothetical protein 28.6 23 0.00049 22.1 0.4 12 276-287 16-27 (62)
242 KOG3424 40S ribosomal protein 28.6 1.4E+02 0.003 22.6 4.5 44 74-118 34-83 (132)
243 PF07292 NID: Nmi/IFP 35 domai 28.3 95 0.0021 22.2 3.5 31 107-137 1-33 (88)
244 COG0445 GidA Flavin-dependent 27.8 1.8E+02 0.0038 28.6 6.2 85 12-96 238-335 (621)
245 PF08844 DUF1815: Domain of un 27.5 24 0.00052 25.4 0.3 13 278-290 33-47 (105)
246 KOG4198 RNA-binding Ran Zn-fin 27.3 1.3E+02 0.0027 26.7 4.8 13 278-290 155-167 (280)
247 PF07576 BRAP2: BRCA1-associat 27.0 1.1E+02 0.0024 22.9 3.9 28 9-36 53-81 (110)
248 KOG0341 DEAD-box protein abstr 26.4 39 0.00084 31.3 1.5 23 208-230 568-590 (610)
249 PF12353 eIF3g: Eukaryotic tra 26.2 31 0.00068 26.6 0.8 22 208-230 104-125 (128)
250 PF03468 XS: XS domain; Inter 25.0 75 0.0016 24.0 2.7 44 75-121 29-74 (116)
251 KOG0122 Translation initiation 24.8 32 0.0007 29.5 0.7 19 278-297 120-138 (270)
252 KOG1295 Nonsense-mediated deca 23.7 1E+02 0.0022 28.3 3.7 65 64-128 8-77 (376)
253 PTZ00191 60S ribosomal protein 23.7 2E+02 0.0044 22.7 4.9 52 65-119 83-137 (145)
254 KOG4365 Uncharacterized conser 23.0 14 0.0003 34.4 -1.9 77 63-140 3-81 (572)
255 PRK01178 rps24e 30S ribosomal 23.0 71 0.0015 23.4 2.1 20 6-26 62-81 (99)
256 COG1644 RPB10 DNA-directed RNA 22.4 41 0.0009 22.2 0.7 11 211-221 5-16 (63)
257 KOG2891 Surface glycoprotein [ 22.3 71 0.0015 28.0 2.3 35 62-96 148-195 (445)
258 PF03802 CitX: Apo-citrate lya 21.8 4.3E+02 0.0094 21.4 7.1 70 106-192 82-153 (170)
259 PF04026 SpoVG: SpoVG; InterP 21.7 2E+02 0.0043 20.3 4.1 26 88-113 2-27 (84)
260 KOG3116 Predicted C3H1-type Zn 21.3 27 0.0006 27.4 -0.3 19 278-296 28-46 (177)
261 CHL00030 rpl23 ribosomal prote 21.0 2.2E+02 0.0048 20.6 4.3 33 65-97 20-55 (93)
262 PLN00032 DNA-directed RNA poly 20.7 41 0.0009 22.9 0.5 9 211-219 5-13 (71)
263 KOG2416 Acinus (induces apopto 20.6 1.3E+02 0.0028 29.5 3.8 35 10-44 481-519 (718)
264 PF00276 Ribosomal_L23: Riboso 20.5 85 0.0018 22.5 2.1 32 66-97 22-56 (91)
265 PHA01632 hypothetical protein 20.2 70 0.0015 20.6 1.4 21 66-86 19-39 (64)
266 KOG0341 DEAD-box protein abstr 20.2 59 0.0013 30.2 1.5 21 276-296 569-589 (610)
267 PF01194 RNA_pol_N: RNA polyme 20.1 39 0.00085 22.2 0.3 9 211-219 5-13 (60)
268 KOG3497 DNA-directed RNA polym 20.1 46 0.00099 21.8 0.6 9 211-219 5-13 (69)
No 1
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.91 E-value=8.9e-24 Score=190.37 Aligned_cols=133 Identities=26% Similarity=0.358 Sum_probs=117.3
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHH
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEED 79 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~ 79 (311)
|+|..||+++|||||+|.++++|++||+ |++..|.+++|+|..+.+... .....+|||.|||+++++++
T Consensus 140 ~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~----------~~~~~~lfV~nLp~~vtee~ 209 (346)
T TIGR01659 140 MRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGGE----------SIKDTNLYVTNLPRTITDDQ 209 (346)
T ss_pred EecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeeccccccc----------ccccceeEEeCCCCcccHHH
Confidence 3678899999999999999999999995 999999999999987654321 12346899999999999999
Q ss_pred HHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCC--eEeEEEEcCCCCC
Q 021488 80 LKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG--RPVKISCAVPPKK 143 (311)
Q Consensus 80 l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g--~~i~v~~a~~~~~ 143 (311)
|+++|++ |.|..+.|+.++.+++++|||||+|.+.++|.+|| .|++..+.+ +.|+|.++..+..
T Consensus 210 L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~~~ 277 (346)
T TIGR01659 210 LDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEHGK 277 (346)
T ss_pred HHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCcccc
Confidence 9999999 99999999999999999999999999999999999 799998865 6899999876543
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=99.90 E-value=4.4e-23 Score=195.44 Aligned_cols=144 Identities=22% Similarity=0.403 Sum_probs=121.7
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccC-CCCCCCCcCCCCEEEEcCCCCCCCHH
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRT-SDFTPKIVEGYNRIYIGNLSWDITEE 78 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~-~~~~~~~~~~~~~l~V~~L~~~~t~~ 78 (311)
++|+.||+++|||||+|.+.++|++||+ |||..|.|++|+|........... ............+|||+|||++++++
T Consensus 140 ~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vtee 219 (612)
T TIGR01645 140 SWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSET 219 (612)
T ss_pred eecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccccccccccccccccccccccceEEeecCCCCCCHH
Confidence 4688999999999999999999999995 999999999999985432211100 01111122345799999999999999
Q ss_pred HHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCCC
Q 021488 79 DLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKKG 144 (311)
Q Consensus 79 ~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~~ 144 (311)
+|+++|+. |.|.+++|.+++.++.++|||||+|.+.++|.+|| .||+..|+|+.|+|.++...+..
T Consensus 220 dLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~pP~~ 287 (612)
T TIGR01645 220 DIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPPDA 287 (612)
T ss_pred HHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCCccc
Confidence 99999999 99999999999999999999999999999999999 89999999999999999876543
No 3
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.90 E-value=5.7e-23 Score=170.81 Aligned_cols=137 Identities=18% Similarity=0.326 Sum_probs=116.7
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCC------CCCCCcCCCCEEEEcCCCC
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSD------FTPKIVEGYNRIYIGNLSW 73 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~------~~~~~~~~~~~l~V~~L~~ 73 (311)
|+|..|+|||||+||.|...++|+.||. |||..|++|.|+-..+..++...... .--..+....+|||+|++.
T Consensus 95 irD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~ 174 (321)
T KOG0148|consen 95 IRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIAS 174 (321)
T ss_pred eecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCccccCCCCccHHHHhccCCCCCceEEeCCcCc
Confidence 6899999999999999999999999995 99999999999887554333211111 0112345678999999999
Q ss_pred CCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCC
Q 021488 74 DITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKK 143 (311)
Q Consensus 74 ~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~ 143 (311)
-++|++|++.|+. |.|.+|+|.++ +||+||.|.+.|+|..|| ++|+..|.|..|+..|-+....
T Consensus 175 ~lte~~mr~~Fs~fG~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~~~ 240 (321)
T KOG0148|consen 175 GLTEDLMRQTFSPFGPIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEGDD 240 (321)
T ss_pred cccHHHHHHhcccCCcceEEEEecc------cceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccCCC
Confidence 9999999999999 99999999988 799999999999999999 8999999999999999765443
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=99.88 E-value=9.1e-22 Score=186.14 Aligned_cols=140 Identities=26% Similarity=0.501 Sum_probs=120.7
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccccccCC--CCCCCCcCCCCEEEEcCCCCCCCHH
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKRTS--DFTPKIVEGYNRIYIGNLSWDITEE 78 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~~~--~~~~~~~~~~~~l~V~~L~~~~t~~ 78 (311)
|+|+.+|+++|||||+|.+.++|.+||+|++..|.|++|.|............ ...+.......+|||+|||..++++
T Consensus 122 ~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~~~~~~~~~~~~~~~~~~~~p~~~~l~v~nl~~~~te~ 201 (457)
T TIGR01622 122 IKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQSSQAEKNRAAKAATHQPGDIPNFLKLYVGNLHFNITEQ 201 (457)
T ss_pred eecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEeecchhhhhhhhcccccCCCCCCCCEEEEcCCCCCCCHH
Confidence 45788999999999999999999999999999999999999876544322211 0111112236899999999999999
Q ss_pred HHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCC
Q 021488 79 DLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 79 ~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~ 140 (311)
+|+++|.. |.|..|.|+.+..++.++|||||+|.+.++|.+|+ .|++..|.|+.|+|.++..
T Consensus 202 ~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~ 265 (457)
T TIGR01622 202 ELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQD 265 (457)
T ss_pred HHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccC
Confidence 99999999 99999999999989999999999999999999999 7999999999999999874
No 5
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.88 E-value=2.3e-21 Score=177.40 Aligned_cols=142 Identities=20% Similarity=0.274 Sum_probs=115.3
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCC--eeEEEEECcccccccC--------------CC----------
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDG--LFLKIQPYKATKAKRT--------------SD---------- 54 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g--~~i~V~~~~~~~~~~~--------------~~---------- 54 (311)
+|..+|.++|||||+|.+.++|+.||+ ||+..+.| .+|.|..+........ ..
T Consensus 123 ~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 202 (352)
T TIGR01661 123 SDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNPSSSNSKGLLSQLEAVQNPQTTRVPLSTILTA 202 (352)
T ss_pred ecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCCCCcCCchhcCchhhcccCcccCCCCccccccc
Confidence 456789999999999999999999995 99999887 5677765432220000 00
Q ss_pred -----------------------------------------CC-----------------CCCcCCCCEEEEcCCCCCCC
Q 021488 55 -----------------------------------------FT-----------------PKIVEGYNRIYIGNLSWDIT 76 (311)
Q Consensus 55 -----------------------------------------~~-----------------~~~~~~~~~l~V~~L~~~~t 76 (311)
.. +.......+|||+|||++++
T Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~~~ 282 (352)
T TIGR01661 203 AGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHAAQRASPPATDGQTAGLAAGAQIAASDGAGYCIFVYNLSPDTD 282 (352)
T ss_pred cCCCCccCcccccccCcchhhhhhhhhhhhcccccccccccCCCccccccccccccCCCCCCCCCCCcEEEEeCCCCCCC
Confidence 00 00011123699999999999
Q ss_pred HHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCC
Q 021488 77 EEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKK 143 (311)
Q Consensus 77 ~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~ 143 (311)
+++|+++|++ |.|.+++|+.++.++.++|||||+|.+.++|.+|| .|+|..|+|+.|+|.|+.++..
T Consensus 283 e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~~~~ 351 (352)
T TIGR01661 283 ETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTNKAY 351 (352)
T ss_pred HHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccCCCC
Confidence 9999999999 99999999999999999999999999999999999 7999999999999999887653
No 6
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.87 E-value=3.1e-22 Score=168.03 Aligned_cols=145 Identities=21% Similarity=0.444 Sum_probs=126.1
Q ss_pred cceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHhhccC-C
Q 021488 10 RGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKKLFSD-C 87 (311)
Q Consensus 10 kG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g 87 (311)
|.||||+.++...|+.||. |++.+|.|..|.|+.++++. ..+++|+|+||.+.++..||+..|.+ |
T Consensus 36 KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKs------------k~stkl~vgNis~tctn~ElRa~fe~yg 103 (346)
T KOG0109|consen 36 KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKS------------KASTKLHVGNISPTCTNQELRAKFEKYG 103 (346)
T ss_pred cccceEEeecccccHHHHhhcccceecceEEEEEeccccC------------CCccccccCCCCccccCHHHhhhhcccC
Confidence 5699999999999999996 99999999999999776652 24578999999999999999999999 9
Q ss_pred ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCCCCCCCCCCCCchhhccccccccc
Q 021488 88 KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKKGINSKSRSLPSNKRATSKVTDSA 166 (311)
Q Consensus 88 ~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~k~~~~~ 166 (311)
.+.+++|+ ++|+||.|...++|..|+ .|++..|.|++++|.++.++-... |
T Consensus 104 pviecdiv--------kdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlrta-------p------------- 155 (346)
T KOG0109|consen 104 PVIECDIV--------KDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLRTA-------P------------- 155 (346)
T ss_pred Cceeeeee--------cceeEEEEeeccchHHHHhcccccccccceeeeeeeccccccC-------C-------------
Confidence 99999998 569999999999999999 899999999999999988876521 0
Q ss_pred CCCCCcccCCCCchhhhhhcccCCCccccccccccccccCcccCCceeecCCCCcccccccCCcccc
Q 021488 167 GLGTSNDADNSGAVTSNVAANAGSGTSDVTEHIDLSAVSGKIRRRTCYECGEKGHLSSACLKKTADQ 233 (311)
Q Consensus 167 ~~~~c~~c~~~gh~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~ 233 (311)
|......||+||+.|||++.||..+.+.
T Consensus 156 ---------------------------------------gmgDq~~cyrcGkeghwskEcP~~~~~r 183 (346)
T KOG0109|consen 156 ---------------------------------------GMGDQSGCYRCGKEGHWSKECPVDRTGR 183 (346)
T ss_pred ---------------------------------------CCCCHHHheeccccccccccCCccCCCc
Confidence 1122347999999999999999987643
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.85 E-value=1.6e-20 Score=171.79 Aligned_cols=132 Identities=20% Similarity=0.334 Sum_probs=116.2
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHH
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEED 79 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~ 79 (311)
|+|+.+|+++|||||+|.+.++|++||+ ||+..|.|+.|.|....+... .....+|||+|||..+++++
T Consensus 36 ~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~----------~~~~~~l~v~~l~~~~~~~~ 105 (352)
T TIGR01661 36 VRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSD----------SIKGANLYVSGLPKTMTQHE 105 (352)
T ss_pred EEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeeccccc----------ccccceEEECCccccCCHHH
Confidence 4678899999999999999999999996 999999999999987654322 11345899999999999999
Q ss_pred HHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCC--eEeEEEEcCCCC
Q 021488 80 LKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG--RPVKISCAVPPK 142 (311)
Q Consensus 80 l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g--~~i~v~~a~~~~ 142 (311)
|+++|.. |.|..+.++.+..++.++|||||+|.+.++|..|+ .|++..+.+ ..|.|.++....
T Consensus 106 l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~~ 172 (352)
T TIGR01661 106 LESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNPS 172 (352)
T ss_pred HHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCCCC
Confidence 9999999 99999999999888999999999999999999999 799998876 678888876554
No 8
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.84 E-value=3.9e-20 Score=177.29 Aligned_cols=137 Identities=24% Similarity=0.379 Sum_probs=114.4
Q ss_pred CCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECccccccc---------CCC----------CCCCCcCCCCEE
Q 021488 6 TGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKR---------TSD----------FTPKIVEGYNRI 66 (311)
Q Consensus 6 tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~---------~~~----------~~~~~~~~~~~l 66 (311)
.++++|||||+|.+.++|..||+|+|..|.|++|.|.......... ... .........++|
T Consensus 219 ~~~~kg~afVeF~~~e~A~~Al~l~g~~~~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 298 (509)
T TIGR01642 219 INKEKNFAFLEFRTVEEATFAMALDSIIYSNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRI 298 (509)
T ss_pred ECCCCCEEEEEeCCHHHHhhhhcCCCeEeeCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEE
Confidence 4678999999999999999999999999999999996432211000 000 001122345799
Q ss_pred EEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCC
Q 021488 67 YIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPK 142 (311)
Q Consensus 67 ~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~ 142 (311)
||+|||..+++++|+++|.. |.|..+.|+.+..++.++|||||+|.+.++|..|+ .|++..|.++.|.|.++....
T Consensus 299 ~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~~ 376 (509)
T TIGR01642 299 YIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGA 376 (509)
T ss_pred EEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccCC
Confidence 99999999999999999999 99999999999999999999999999999999999 799999999999999987644
No 9
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.83 E-value=3.2e-20 Score=164.24 Aligned_cols=135 Identities=27% Similarity=0.414 Sum_probs=109.5
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcC-CeeEEEEECccccc-----------------------------
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMD-GLFLKIQPYKATKA----------------------------- 49 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~-g~~i~V~~~~~~~~----------------------------- 49 (311)
|+|+.+|.+||||||.|.+.++|++||+ ||+.+|. |+.|.|..+.+...
T Consensus 116 MmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan~RLFiG~IPK~k~keeIlee~~kVteGVvdV 195 (506)
T KOG0117|consen 116 MMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDV 195 (506)
T ss_pred eecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeecceeEeccCCccccHHHHHHHHHhhCCCeeEE
Confidence 7899999999999999999999999996 9999986 88888843322110
Q ss_pred --------ccC------------------------------------------CCCCCCCcCCCCEEEEcCCCCCCCHHH
Q 021488 50 --------KRT------------------------------------------SDFTPKIVEGYNRIYIGNLSWDITEED 79 (311)
Q Consensus 50 --------~~~------------------------------------------~~~~~~~~~~~~~l~V~~L~~~~t~~~ 79 (311)
... ....+.....-..|||+||+.++|+|.
T Consensus 196 ivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~ 275 (506)
T KOG0117|consen 196 IVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEET 275 (506)
T ss_pred EEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCChhhhhheeeeeeeccchhhhHHH
Confidence 000 000000111234799999999999999
Q ss_pred HHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCC
Q 021488 80 LKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKK 143 (311)
Q Consensus 80 l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~ 143 (311)
|+++|.+ |.|+.|..++| ||||.|...++|.+|| ++|+..|.|..|.|.+|+|...
T Consensus 276 lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~k 333 (506)
T KOG0117|consen 276 LKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVDK 333 (506)
T ss_pred HHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceEEEEecCChhh
Confidence 9999999 99999988755 9999999999999999 8999999999999999988654
No 10
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.81 E-value=2.7e-19 Score=173.35 Aligned_cols=140 Identities=24% Similarity=0.420 Sum_probs=117.3
Q ss_pred cCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcC----CeeEEEEECcccccccCC--------CCCCCCcCCCCEEEEc
Q 021488 3 FPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMD----GLFLKIQPYKATKAKRTS--------DFTPKIVEGYNRIYIG 69 (311)
Q Consensus 3 d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~----g~~i~V~~~~~~~~~~~~--------~~~~~~~~~~~~l~V~ 69 (311)
.+.+|+++|||||+|.+.++|.+|++ |++..|. |+.|.|............ ...........+|||+
T Consensus 212 ~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v~~a~~k~er~~~~~~~~~~~~~~~~~~~~~~~l~V~ 291 (562)
T TIGR01628 212 KDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYVGRAQKRAEREAELRRKFEELQQERKMKAQGVNLYVK 291 (562)
T ss_pred ECCCCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEeecccChhhhHHHHHhhHHhhhhhhhcccCCCEEEEe
Confidence 34689999999999999999999995 9999999 999999765443321100 0001112345689999
Q ss_pred CCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCC
Q 021488 70 NLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKK 143 (311)
Q Consensus 70 ~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~ 143 (311)
|||+++++++|+++|++ |.|.++.|+.+ .++.++|||||+|.+.++|.+|+ +|++..|+|+.|.|.++..+..
T Consensus 292 nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~k~~ 366 (562)
T TIGR01628 292 NLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQRKEQ 366 (562)
T ss_pred CCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccCcHH
Confidence 99999999999999999 99999999999 58999999999999999999999 8999999999999999886643
No 11
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.81 E-value=3.6e-19 Score=172.49 Aligned_cols=134 Identities=22% Similarity=0.335 Sum_probs=115.6
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHH
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEED 79 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~ 79 (311)
++|..|++++|||||+|.+.++|++||+ +++..|.|++|+|..+....... .....+|||+|||.++++++
T Consensus 33 ~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~~~~--------~~~~~~vfV~nLp~~~~~~~ 104 (562)
T TIGR01628 33 CRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDPSLR--------RSGVGNIFVKNLDKSVDNKA 104 (562)
T ss_pred EecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccccccccc--------ccCCCceEEcCCCccCCHHH
Confidence 3678899999999999999999999995 99999999999998654322111 11345799999999999999
Q ss_pred HHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCC
Q 021488 80 LKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKK 143 (311)
Q Consensus 80 l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~ 143 (311)
|+++|+. |.|.++.|..+. +++++|||||+|.+.++|.+|+ ++++..+.++.|.|.....+..
T Consensus 105 L~~~F~~~G~i~~~~i~~~~-~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~~~~~~~ 169 (562)
T TIGR01628 105 LFDTFSKFGNILSCKVATDE-NGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVYVGRFIKKHE 169 (562)
T ss_pred HHHHHHhcCCcceeEeeecC-CCCcccEEEEEECCHHHHHHHHHHhcccEecCceEEEeccccccc
Confidence 9999999 999999999885 7888999999999999999999 8999999999999987665443
No 12
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.80 E-value=1.5e-19 Score=149.78 Aligned_cols=131 Identities=21% Similarity=0.367 Sum_probs=118.4
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHH
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEED 79 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~ 79 (311)
|+|+.||.|-||+||.|.+++||++||. |||..|..+.|+|.++++..... ....|||.+||.++|..|
T Consensus 74 vRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs~~I----------k~aNLYvSGlPktMtqke 143 (360)
T KOG0145|consen 74 VRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSSDSI----------KDANLYVSGLPKTMTQKE 143 (360)
T ss_pred eeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCChhhh----------cccceEEecCCccchHHH
Confidence 6899999999999999999999999996 99999999999999887765432 235799999999999999
Q ss_pred HHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCC--eEeEEEEcCCC
Q 021488 80 LKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG--RPVKISCAVPP 141 (311)
Q Consensus 80 l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g--~~i~v~~a~~~ 141 (311)
|+++|++ |.|..-+|+.|..++.++|.+||.|+...+|+.|| .|||..-.| .+|.|.++...
T Consensus 144 lE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannP 209 (360)
T KOG0145|consen 144 LEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNP 209 (360)
T ss_pred HHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCc
Confidence 9999999 99999999999999999999999999999999999 799987654 68999998754
No 13
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.79 E-value=2e-19 Score=151.17 Aligned_cols=177 Identities=19% Similarity=0.338 Sum_probs=136.0
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCC
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPP 141 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~ 141 (311)
.+|||+|||..+++.+|+.+|.+ |.|++++|+ +.||||..++...|..|| .|++..|.|..|.|+-++++
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv--------KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIV--------KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeee--------cccceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 47999999999999999999999 999999998 559999999999999999 79999999999999999988
Q ss_pred C-CCCCCCCCCCCchhhcccccccccCCCCCcccCCCCchhhhhhcccCCCccccccccccccccCcccCCceeecCCCC
Q 021488 142 K-KGINSKSRSLPSNKRATSKVTDSAGLGTSNDADNSGAVTSNVAANAGSGTSDVTEHIDLSAVSGKIRRRTCYECGEKG 220 (311)
Q Consensus 142 ~-~~~~~~~~~~~~~~~~~~k~~~~~~~~~c~~c~~~gh~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~Cg~~G 220 (311)
. ...+....++...-.+++........+...+|.....++ ..+....+...+.+.++|++.+.|.. -
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkdy~-fvh~d~~eda~~air~l~~~~~~gk~-----------m 142 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKDYA-FVHFDRAEDAVEAIRGLDNTEFQGKR-----------M 142 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcccCCceeeeeeccee-EEEEeeccchHHHHhcccccccccce-----------e
Confidence 4 355667777766666666667677778888888887776 56666666666777777777776632 2
Q ss_pred cccccccCCccccccccCccccCCCCCCCCCCCCCCCCCcccCCCCCCCCcCCCCCCccccccCCccccCCCCCCcccc
Q 021488 221 HLSSACLKKTADQTMVTGKVSDNAGSRTGNFADNAGLGTTNVSDNAGLSAVSGKIRRRTCYECGEKGHLSSACPKKTAD 299 (311)
Q Consensus 221 H~~~~Cp~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cy~Cg~~gH~~~~Cp~~~~~ 299 (311)
|+.-.-..-+. ..+.+....||.||+.||||++||.....
T Consensus 143 ~vq~stsrlrt---------------------------------------apgmgDq~~cyrcGkeghwskEcP~~~~~ 182 (346)
T KOG0109|consen 143 HVQLSTSRLRT---------------------------------------APGMGDQSGCYRCGKEGHWSKECPVDRTG 182 (346)
T ss_pred eeeeecccccc---------------------------------------CCCCCCHHHheeccccccccccCCccCCC
Confidence 33222211111 11223345799999999999999987443
No 14
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.79 E-value=3.3e-19 Score=140.42 Aligned_cols=135 Identities=20% Similarity=0.319 Sum_probs=116.6
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHH
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDL 80 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l 80 (311)
+|+.|.+.+|||||+|.++++|+-|++ ||..+|.|++|+|..+.....+ ..-...|||+||++.+++..|
T Consensus 43 kDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas~~~~n---------l~vganlfvgNLd~~vDe~~L 113 (203)
T KOG0131|consen 43 KDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKASAHQKN---------LDVGANLFVGNLDPEVDEKLL 113 (203)
T ss_pred hhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEeccccccc---------ccccccccccccCcchhHHHH
Confidence 467788999999999999999999998 8999999999999866521111 112368999999999999999
Q ss_pred HhhccC-CceeE-EEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCCCC
Q 021488 81 KKLFSD-CKISS-LRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKKGI 145 (311)
Q Consensus 81 ~~~f~~-g~i~~-i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~~~ 145 (311)
.+.|+. |.+.. -.+++++.|+.++|++||.|.+.+++.+|+ .+++..+..++|+|.++..+....
T Consensus 114 ~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~~~kg 181 (203)
T KOG0131|consen 114 YDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFKKDTKG 181 (203)
T ss_pred HHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEecCCCc
Confidence 999999 86654 488999999999999999999999999999 799999999999999988766543
No 15
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.79 E-value=1.3e-19 Score=156.68 Aligned_cols=142 Identities=22% Similarity=0.408 Sum_probs=120.2
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECccccc-ccCCCCCCCCcCCCCEEEEcCCCCCCCHHH
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKA-KRTSDFTPKIVEGYNRIYIGNLSWDITEED 79 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~-~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~ 79 (311)
||+.|+++||||||+|+-+|.|..|++ |||..++||+|+|.....-.. .+.-+.........++|||..+.++++++|
T Consensus 147 WDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsNmpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~D 226 (544)
T KOG0124|consen 147 WDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETD 226 (544)
T ss_pred cccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCCCcccchHHHHHHHHHHhhheEEeeecCCCccHHH
Confidence 799999999999999999999999997 999999999999974322211 100011111223567999999999999999
Q ss_pred HHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCC
Q 021488 80 LKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKK 143 (311)
Q Consensus 80 l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~ 143 (311)
|+..|.. |+|..+.+.+.+..+.++||+||+|.+..+...|+ .||-+.++|..|+|-.+...+.
T Consensus 227 iKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vTPP~ 292 (544)
T KOG0124|consen 227 IKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPPD 292 (544)
T ss_pred HHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecccccCCCc
Confidence 9999999 99999999999999999999999999999999999 7999999999999998776554
No 16
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.79 E-value=9.6e-19 Score=158.29 Aligned_cols=143 Identities=27% Similarity=0.402 Sum_probs=119.7
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCC----------------CCCCCcCCCC
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSD----------------FTPKIVEGYN 64 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~----------------~~~~~~~~~~ 64 (311)
.++.++.+|||+||.|+-.++++.|++ +++..|.|+.|.|.++.......... .......+..
T Consensus 39 t~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~ 118 (678)
T KOG0127|consen 39 TNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKW 118 (678)
T ss_pred cCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccccccchhcccccchhhhcccccCCcchhhccCccc
Confidence 466788999999999999999999996 89999999999998776544322100 0011133467
Q ss_pred EEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCC
Q 021488 65 RIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPK 142 (311)
Q Consensus 65 ~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~ 142 (311)
+|.|+|||+.+.+.+|+.+|+. |.|.+|.|++.+.... .|||||+|....+|..|| .+|+..|.|++|.|.||.++.
T Consensus 119 rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgkl-cGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd 197 (678)
T KOG0127|consen 119 RLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKL-CGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKD 197 (678)
T ss_pred eEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCc-cceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccc
Confidence 8999999999999999999999 9999999998775555 499999999999999999 799999999999999999987
Q ss_pred CCC
Q 021488 143 KGI 145 (311)
Q Consensus 143 ~~~ 145 (311)
...
T Consensus 198 ~ye 200 (678)
T KOG0127|consen 198 TYE 200 (678)
T ss_pred ccc
Confidence 643
No 17
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.78 E-value=4.7e-19 Score=156.20 Aligned_cols=134 Identities=21% Similarity=0.344 Sum_probs=115.4
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCC-CcCC--eeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCC
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGS-EMDG--LFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDIT 76 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~-~~~g--~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t 76 (311)
|+|+.||.++|||||.|.+.++|.+|+. |++. .|.| .+|.|+++..+..+. ...++|||+-|+..+|
T Consensus 67 ~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er~---------~~e~KLFvg~lsK~~t 137 (510)
T KOG0144|consen 67 IKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERERI---------VEERKLFVGMLSKQCT 137 (510)
T ss_pred ecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhcc---------ccchhhhhhhcccccc
Confidence 6899999999999999999999999994 6554 4554 678888877665543 2347899999999999
Q ss_pred HHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCc-eeCC--eEeEEEEcCCCCCC
Q 021488 77 EEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQE-VVRG--RPVKISCAVPPKKG 144 (311)
Q Consensus 77 ~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~-~i~g--~~i~v~~a~~~~~~ 144 (311)
|.||+++|++ |.|+++.|+++. .+.+||+|||.|.+.+-|..|| .||+. .+.| .+|.|.||.+++++
T Consensus 138 e~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkdk 209 (510)
T KOG0144|consen 138 ENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKDK 209 (510)
T ss_pred HHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCCc
Confidence 9999999999 999999999997 7899999999999999999999 79886 4554 68999999987764
No 18
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.76 E-value=9.8e-18 Score=158.97 Aligned_cols=127 Identities=24% Similarity=0.350 Sum_probs=104.6
Q ss_pred CCCCCccceEEEEeCCHHHHHHHHH-cCC--CCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHH
Q 021488 4 PDTGKFRGIAIINFRTEGAVKRALA-LDG--SEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDL 80 (311)
Q Consensus 4 ~~tg~skG~afV~F~~~~~A~~Al~-l~g--~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l 80 (311)
..+++++|||||+|.+.++|..|++ |+. ..+.|+.|.|..+.+.... .+......++|||+|||+++++++|
T Consensus 176 ~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~~~-----d~~~~~~~k~LfVgNL~~~~tee~L 250 (578)
T TIGR01648 176 ADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEEEV-----DEDVMAKVKILYVRNLMTTTTEEII 250 (578)
T ss_pred cccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeecccccc-----cccccccccEEEEeCCCCCCCHHHH
Confidence 3467899999999999999999995 543 4577999999866544321 1122234578999999999999999
Q ss_pred HhhccC---CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCC
Q 021488 81 KKLFSD---CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKK 143 (311)
Q Consensus 81 ~~~f~~---g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~ 143 (311)
+++|++ |.|+.|.++ ++||||+|.+.++|.+|+ +||+..|.|+.|+|.|+.++..
T Consensus 251 ~~~F~~f~~G~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~~ 309 (578)
T TIGR01648 251 EKSFSEFKPGKVERVKKI--------RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVDK 309 (578)
T ss_pred HHHHHhcCCCceEEEEee--------cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCCc
Confidence 999997 588888775 569999999999999999 7999999999999999988654
No 19
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.74 E-value=1.4e-17 Score=157.90 Aligned_cols=126 Identities=22% Similarity=0.353 Sum_probs=102.5
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcC-CeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHH
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMD-GLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEE 78 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~-g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~ 78 (311)
|+| .+|+|||||||+|.+.++|++||+ ||+..|. |+.|.|..+. ...+|||+|||.+++++
T Consensus 91 ~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~----------------~~~rLFVgNLP~~~Tee 153 (578)
T TIGR01648 91 MMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISV----------------DNCRLFVGGIPKNKKRE 153 (578)
T ss_pred EEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccccc----------------cCceeEeecCCcchhhH
Confidence 355 899999999999999999999996 8999885 7777665331 23689999999999999
Q ss_pred HHHhhccC-C-ceeEEEEe-ecCCCCCceeEEEEEecCHHHHHHHH-hcC--CceeCCeEeEEEEcCCCCC
Q 021488 79 DLKKLFSD-C-KISSLRFG-TNKETGEFRGYAHVDFSDSLSLSMAL-KLD--QEVVRGRPVKISCAVPPKK 143 (311)
Q Consensus 79 ~l~~~f~~-g-~i~~i~v~-~~~~~~~~~G~afV~f~~~~~a~~al-~l~--~~~i~g~~i~v~~a~~~~~ 143 (311)
+|.+.|++ + .++++.+. .....++++|||||+|.+.++|..|+ .|. ...+.++.|.|.|+.+...
T Consensus 154 eL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~~ 224 (578)
T TIGR01648 154 EILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEEE 224 (578)
T ss_pred HHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeeccccc
Confidence 99999999 5 45555443 33345678999999999999999999 664 3468899999999987653
No 20
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.73 E-value=7.2e-17 Score=153.16 Aligned_cols=131 Identities=21% Similarity=0.326 Sum_probs=104.4
Q ss_pred ccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccC------------CCC--------CC-------CCc
Q 021488 9 FRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRT------------SDF--------TP-------KIV 60 (311)
Q Consensus 9 skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~------------~~~--------~~-------~~~ 60 (311)
.+|||||+|.+.++|..||+ ||+..|.|++|+|..++....... .+. .. ...
T Consensus 312 ~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~ 391 (481)
T TIGR01649 312 KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQ 391 (481)
T ss_pred CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccccccCCCCCcCcCCCcccccccCCccccCCCcccccccccC
Confidence 36999999999999999996 999999999999987654321000 000 00 012
Q ss_pred CCCCEEEEcCCCCCCCHHHHHhhccC-Cc--eeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeE----
Q 021488 61 EGYNRIYIGNLSWDITEEDLKKLFSD-CK--ISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRP---- 132 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~~f~~-g~--i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~---- 132 (311)
.++.+|||.|||.++++++|+++|+. |. |..+++.... + ..+++|||+|.+.++|..|| .|++..|.++.
T Consensus 392 ~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~~~~-~-~~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~~~~~~ 469 (481)
T TIGR01649 392 PPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFFPKD-N-ERSKMGLLEWESVEDAVEALIALNHHQLNEPNGSAP 469 (481)
T ss_pred CCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEEecCC-C-CcceeEEEEcCCHHHHHHHHHHhcCCccCCCCCCcc
Confidence 35679999999999999999999999 86 8888876543 2 25789999999999999999 89999999885
Q ss_pred --eEEEEcCCC
Q 021488 133 --VKISCAVPP 141 (311)
Q Consensus 133 --i~v~~a~~~ 141 (311)
|+|.++.++
T Consensus 470 ~~lkv~fs~~~ 480 (481)
T TIGR01649 470 YHLKVSFSTSR 480 (481)
T ss_pred ceEEEEeccCC
Confidence 999998764
No 21
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.72 E-value=9.1e-18 Score=152.55 Aligned_cols=143 Identities=27% Similarity=0.452 Sum_probs=123.5
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccccccCCC---CC-CCCcCCCCEEEEcCCCCCCC
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKRTSD---FT-PKIVEGYNRIYIGNLSWDIT 76 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~~~~---~~-~~~~~~~~~l~V~~L~~~~t 76 (311)
|.|+.+++++|.|||+|.+.+.+-.||.|.|..+.|.+|.|.+..+.+...... .. .....+...|||+||.+.++
T Consensus 212 I~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~vq~sEaeknr~a~~s~a~~~k~~~~p~~rl~vgnLHfNit 291 (549)
T KOG0147|consen 212 IGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIVQLSEAEKNRAANASPALQGKGFTGPMRRLYVGNLHFNIT 291 (549)
T ss_pred eccccchhhcceeEEEEecccchhhHhhhcCCcccCceeEecccHHHHHHHHhccccccccccccchhhhhhcccccCch
Confidence 678999999999999999999999999999999999999999877665432211 11 11123444599999999999
Q ss_pred HHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCC
Q 021488 77 EEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKK 143 (311)
Q Consensus 77 ~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~ 143 (311)
+++|+.+|.. |.|..|.+.++..+|.++||+||+|.+.++|.+|+ .||+..|-|+.|+|.....+..
T Consensus 292 e~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~~ 360 (549)
T KOG0147|consen 292 EDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERVD 360 (549)
T ss_pred HHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeecc
Confidence 9999999999 99999999999999999999999999999999999 8999999999999988765543
No 22
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.72 E-value=2.3e-16 Score=130.90 Aligned_cols=141 Identities=22% Similarity=0.294 Sum_probs=116.2
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCC--eeEEEEECcccccccCC------------------------
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDG--LFLKIQPYKATKAKRTS------------------------ 53 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g--~~i~V~~~~~~~~~~~~------------------------ 53 (311)
+.|.-||.|||.+||.|...++|+.||+ |||..-.| .+|.|..+.........
T Consensus 160 L~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~r 239 (360)
T KOG0145|consen 160 LVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNPSQKTNQALLSQLYQSPARRYGGPMHHQAQR 239 (360)
T ss_pred hhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCcccccchhhhHHhhcCccccCCCcccchhhh
Confidence 4678899999999999999999999996 99999876 56888655433211110
Q ss_pred --------------CCC---------------CCCcCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCc
Q 021488 54 --------------DFT---------------PKIVEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEF 103 (311)
Q Consensus 54 --------------~~~---------------~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~ 103 (311)
.+. +........|||-||.++++|.-|+++|.+ |.|..|+|++|..+.+.
T Consensus 240 ~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkC 319 (360)
T KOG0145|consen 240 FRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKC 319 (360)
T ss_pred hccccccchhhhhccCCCccccccceeeeeccCCCCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccc
Confidence 000 111123458999999999999999999999 99999999999999999
Q ss_pred eeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCC
Q 021488 104 RGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPP 141 (311)
Q Consensus 104 ~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~ 141 (311)
+||+||++.+.++|..|| .|||..++++.|.|.+...+
T Consensus 320 KGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtnk 358 (360)
T KOG0145|consen 320 KGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTNK 358 (360)
T ss_pred cceeEEEecchHHHHHHHHHhcCccccceEEEEEEecCC
Confidence 999999999999999999 89999999999999986543
No 23
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.71 E-value=2.7e-16 Score=149.18 Aligned_cols=131 Identities=19% Similarity=0.133 Sum_probs=104.4
Q ss_pred CccceEEEEeCCHHHHHHHHH---cCCCCcCCeeEEEEECcccccccCCCC--CCCCcCCCCEEEEcCCCCCCCHHHHHh
Q 021488 8 KFRGIAIINFRTEGAVKRALA---LDGSEMDGLFLKIQPYKATKAKRTSDF--TPKIVEGYNRIYIGNLSWDITEEDLKK 82 (311)
Q Consensus 8 ~skG~afV~F~~~~~A~~Al~---l~g~~~~g~~i~V~~~~~~~~~~~~~~--~~~~~~~~~~l~V~~L~~~~t~~~l~~ 82 (311)
++||||||+|.+.++|++||+ +++..|.|++|+|..+........... .........+|||.||++++++++|++
T Consensus 36 ~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~~~~~~~~~~~~~~~~~~~~v~v~nl~~~vt~~~L~~ 115 (481)
T TIGR01649 36 PGKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEIKRDGNSDFDSAGPNKVLRVIVENPMYPITLDVLYQ 115 (481)
T ss_pred CCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCcccccCCCCcccCCCCCceEEEEEcCCCCCCCHHHHHH
Confidence 367999999999999999996 588999999999998765432211110 011112234799999999999999999
Q ss_pred hccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCC--eEeEEEEcCCCC
Q 021488 83 LFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG--RPVKISCAVPPK 142 (311)
Q Consensus 83 ~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g--~~i~v~~a~~~~ 142 (311)
+|+. |.|.+|.|.++. ..++|||+|.+.++|.+|+ .||+..|.+ ..|+|.|+.+..
T Consensus 116 ~F~~~G~V~~v~i~~~~----~~~~afVef~~~~~A~~A~~~Lng~~i~~~~~~l~v~~sk~~~ 175 (481)
T TIGR01649 116 IFNPYGKVLRIVTFTKN----NVFQALVEFESVNSAQHAKAALNGADIYNGCCTLKIEYAKPTR 175 (481)
T ss_pred HHhccCCEEEEEEEecC----CceEEEEEECCHHHHHHHHHHhcCCcccCCceEEEEEEecCCC
Confidence 9999 999999988754 2478999999999999999 799999864 589999988654
No 24
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.70 E-value=2.7e-16 Score=150.82 Aligned_cols=139 Identities=18% Similarity=0.148 Sum_probs=108.4
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCC--------------C----CCCcCC
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDF--------------T----PKIVEG 62 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~--------------~----~~~~~~ 62 (311)
++..+|+++|||||+|.+.++|..||+ |+|..|.|++|.|..+........... . .....+
T Consensus 329 ~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 408 (509)
T TIGR01642 329 KDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGANQATIDTSNGMAPVTLLAKALSQSILQIGGKP 408 (509)
T ss_pred ecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccCCCCCCccccccccccccccccchhhhccccCCC
Confidence 567899999999999999999999995 999999999999987653321111000 0 001235
Q ss_pred CCEEEEcCCCCCC----------CHHHHHhhccC-CceeEEEEeecC---CCCCceeEEEEEecCHHHHHHHH-hcCCce
Q 021488 63 YNRIYIGNLSWDI----------TEEDLKKLFSD-CKISSLRFGTNK---ETGEFRGYAHVDFSDSLSLSMAL-KLDQEV 127 (311)
Q Consensus 63 ~~~l~V~~L~~~~----------t~~~l~~~f~~-g~i~~i~v~~~~---~~~~~~G~afV~f~~~~~a~~al-~l~~~~ 127 (311)
+.+|+|.||...- ..++|++.|.+ |.|..|.|++.. .++...|++||+|.+.++|.+|+ .|+|..
T Consensus 409 s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~ 488 (509)
T TIGR01642 409 TKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRK 488 (509)
T ss_pred ceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCE
Confidence 6789999996321 23678999999 999999998652 33456799999999999999999 899999
Q ss_pred eCCeEeEEEEcCC
Q 021488 128 VRGRPVKISCAVP 140 (311)
Q Consensus 128 i~g~~i~v~~a~~ 140 (311)
|+|+.|.|.|...
T Consensus 489 ~~gr~v~~~~~~~ 501 (509)
T TIGR01642 489 FNDRVVVAAFYGE 501 (509)
T ss_pred ECCeEEEEEEeCH
Confidence 9999999999543
No 25
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.70 E-value=2.9e-16 Score=124.53 Aligned_cols=84 Identities=24% Similarity=0.492 Sum_probs=78.9
Q ss_pred cCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEE
Q 021488 60 VEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISC 137 (311)
Q Consensus 60 ~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~ 137 (311)
...+++|||+|||+++++++|+++|.+ |.|.++.|+.++.+++++|||||+|.+.++|+.|| .|++..|.|+.|+|++
T Consensus 31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~ 110 (144)
T PLN03134 31 RLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNP 110 (144)
T ss_pred cCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence 445679999999999999999999999 99999999999999999999999999999999999 7999999999999999
Q ss_pred cCCCCC
Q 021488 138 AVPPKK 143 (311)
Q Consensus 138 a~~~~~ 143 (311)
+.+++.
T Consensus 111 a~~~~~ 116 (144)
T PLN03134 111 ANDRPS 116 (144)
T ss_pred CCcCCC
Confidence 887655
No 26
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.70 E-value=9.3e-17 Score=125.91 Aligned_cols=77 Identities=26% Similarity=0.480 Sum_probs=71.6
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCC
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~ 140 (311)
..+|||+||+..+++.||+.+|.. |.|..|.|...+ .|||||+|.++.+|..|+ .|+|..|.|..|+|+++.-
T Consensus 10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G 84 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTG 84 (195)
T ss_pred CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCceEEEEeecC
Confidence 478999999999999999999999 999999998765 899999999999999999 8999999999999999887
Q ss_pred CCCC
Q 021488 141 PKKG 144 (311)
Q Consensus 141 ~~~~ 144 (311)
++..
T Consensus 85 ~~r~ 88 (195)
T KOG0107|consen 85 RPRG 88 (195)
T ss_pred Cccc
Confidence 6653
No 27
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.69 E-value=3.3e-16 Score=141.99 Aligned_cols=142 Identities=25% Similarity=0.411 Sum_probs=114.6
Q ss_pred cCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccc---------------------c--C------
Q 021488 3 FPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAK---------------------R--T------ 52 (311)
Q Consensus 3 d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~---------------------~--~------ 52 (311)
.+.+|+..|||||.|....+|.+||+ +|+..|.||+|-|..+.+...- . .
T Consensus 151 ~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye~ta~~~~~s~Kk~~~eEed~e~~~d~~~~~ 230 (678)
T KOG0127|consen 151 RKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYEDTAHEEKQSLKKAVKEEEDKEADEDDGKDF 230 (678)
T ss_pred cCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccccccccchhhhhhhhhccchhhhccccccccccc
Confidence 35678889999999999999999997 9999999999999643321100 0 0
Q ss_pred ------------C--CC------------------C-------------------CCCcCCCCEEEEcCCCCCCCHHHHH
Q 021488 53 ------------S--DF------------------T-------------------PKIVEGYNRIYIGNLSWDITEEDLK 81 (311)
Q Consensus 53 ------------~--~~------------------~-------------------~~~~~~~~~l~V~~L~~~~t~~~l~ 81 (311)
. +. . +.......+|||+|||+++|+++|.
T Consensus 231 ~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~~~k~~q~k~~~en~~~~~tVFvRNL~fD~tEEel~ 310 (678)
T KOG0127|consen 231 DEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKESDKKAQNKTTRENITEGKTVFVRNLPFDTTEEELK 310 (678)
T ss_pred chhcccccccccccccccchhhhccccccccccccccccccccCcccchhccccccccccccceEEEecCCccccHHHHH
Confidence 0 00 0 0001112689999999999999999
Q ss_pred hhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHh-c-----CC-ceeCCeEeEEEEcCCCCCC
Q 021488 82 KLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALK-L-----DQ-EVVRGRPVKISCAVPPKKG 144 (311)
Q Consensus 82 ~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~-l-----~~-~~i~g~~i~v~~a~~~~~~ 144 (311)
+.|++ |+|..+.|+.++.|+.++|.|||.|.+..+|..+|+ . .+ ..|.|+.|.|.++..+...
T Consensus 311 ~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~Lkv~~Av~RkeA 381 (678)
T KOG0127|consen 311 EHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRLLKVTLAVTRKEA 381 (678)
T ss_pred HHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccEEeeeeccchHHH
Confidence 99999 999999999999999999999999999999999993 3 23 6789999999999988764
No 28
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.67 E-value=1.8e-16 Score=147.91 Aligned_cols=135 Identities=21% Similarity=0.359 Sum_probs=112.7
Q ss_pred CccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHhhccC
Q 021488 8 KFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKKLFSD 86 (311)
Q Consensus 8 ~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~ 86 (311)
.|.|||||+|.++++|..|++ |+|+.|.|+.|.|..+...+... ...........++|+|.|||+..+..+|+.+|..
T Consensus 558 lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~-~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~a 636 (725)
T KOG0110|consen 558 LSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKPAST-VGKKKSKKKKGTKILVRNIPFEATKREVRKLFTA 636 (725)
T ss_pred cccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCccccc-cccccccccccceeeeeccchHHHHHHHHHHHhc
Confidence 367999999999999999996 89999999999999776222111 1111112223568999999999999999999999
Q ss_pred -CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCC
Q 021488 87 -CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKK 143 (311)
Q Consensus 87 -g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~ 143 (311)
|.+.+++|+.....+.++||+||+|-++.+|.+|+ .|..+.+.|++|.++|+.....
T Consensus 637 FGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d~~ 695 (725)
T KOG0110|consen 637 FGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKSDNT 695 (725)
T ss_pred ccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhccchH
Confidence 99999999988667778999999999999999999 8999999999999999876543
No 29
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.66 E-value=9.2e-16 Score=139.28 Aligned_cols=122 Identities=25% Similarity=0.357 Sum_probs=108.7
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHH
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDL 80 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l 80 (311)
+|. | |-|||||.|.++++|++||+ ||...+.|++|+|.++...+. .|||.||+++++..+|
T Consensus 32 ~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~~---------------~~~i~nl~~~~~~~~~ 93 (369)
T KOG0123|consen 32 RDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDPS---------------LVFIKNLDESIDNKSL 93 (369)
T ss_pred ecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCCc---------------eeeecCCCcccCcHHH
Confidence 455 5 99999999999999999995 999999999999986543321 2999999999999999
Q ss_pred HhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCCC
Q 021488 81 KKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKKG 144 (311)
Q Consensus 81 ~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~~ 144 (311)
.++|+. |.|++++|..+. .| ++|| ||+|.++++|.+|+ .+||..+.++.|.|.....+...
T Consensus 94 ~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er 156 (369)
T KOG0123|consen 94 YDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEER 156 (369)
T ss_pred HHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhh
Confidence 999999 999999999986 44 8999 99999999999999 79999999999999998776654
No 30
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=99.65 E-value=2.5e-16 Score=125.89 Aligned_cols=108 Identities=26% Similarity=0.518 Sum_probs=59.3
Q ss_pred CCCCcccCCCCchhhhhhcccCCCccccccccccccccCcccCCceeecCCCCcccccccCCccccccccCccccCCCCC
Q 021488 168 LGTSNDADNSGAVTSNVAANAGSGTSDVTEHIDLSAVSGKIRRRTCYECGEKGHLSSACLKKTADQTMVTGKVSDNAGSR 247 (311)
Q Consensus 168 ~~~c~~c~~~gh~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~~~~~~~~~ 247 (311)
...|++|+..+|++++||..... .....||.|++.||++++||...... ....|+.|+.
T Consensus 27 ~~~C~~Cg~~GH~~~~Cp~~~~~-----------------~~~~~C~~Cg~~GH~~~~Cp~~~~~~----~~~~C~~Cg~ 85 (148)
T PTZ00368 27 ARPCYKCGEPGHLSRECPSAPGG-----------------RGERSCYNCGKTGHLSRECPEAPPGS----GPRSCYNCGQ 85 (148)
T ss_pred CccCccCCCCCcCcccCcCCCCC-----------------CCCcccCCCCCcCcCcccCCCcccCC----CCcccCcCCC
Confidence 45677777777777777653211 11234666666666666666543211 1223666666
Q ss_pred CCCCCCCCCCCC-------cccCCCCCCCCcCCCC-------CCccccccCCccccCCCCCCc
Q 021488 248 TGNFADNAGLGT-------TNVSDNAGLSAVSGKI-------RRRTCYECGEKGHLSSACPKK 296 (311)
Q Consensus 248 ~g~~~~~~~~~~-------~~~~~~~~~~~~~~~~-------~~~~Cy~Cg~~gH~~~~Cp~~ 296 (311)
.||++++|+... .++.++...|...++. ....||+|++.|||++|||++
T Consensus 86 ~GH~~~~C~~~~~~~~~~~~C~~Cg~~gH~~~~C~~~~~~~~~~~~C~~Cg~~gH~~~dCp~~ 148 (148)
T PTZ00368 86 TGHISRECPNRAKGGAARRACYNCGGEGHISRDCPNAGKRPGGDKTCYNCGQTGHLSRDCPDK 148 (148)
T ss_pred CCcccccCCCcccccccchhhcccCcCCcchhcCCCccccCCCCCccccCCCcCcccccCCCC
Confidence 666666665421 2333333333322221 234677777777777777764
No 31
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.65 E-value=2.7e-16 Score=138.10 Aligned_cols=142 Identities=24% Similarity=0.346 Sum_probs=124.1
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHH
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDL 80 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l 80 (311)
|+|+.|++++||+||+|++++.+.++|......|.|+.|.+..+.+........ ......+|||++||.+++++++
T Consensus 39 m~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~r~~~~~~~----~~~~tkkiFvGG~~~~~~e~~~ 114 (311)
T KOG4205|consen 39 MRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVSREDQTKVG----RHLRTKKIFVGGLPPDTTEEDF 114 (311)
T ss_pred eccCCCCCcccccceecCCCcchheeecccccccCCccccceeccCcccccccc----cccceeEEEecCcCCCCchHHH
Confidence 689999999999999999999999999888888999998887766554332211 1125678999999999999999
Q ss_pred HhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCCCCCCCC
Q 021488 81 KKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVPPKKGIN 146 (311)
Q Consensus 81 ~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~~~~~~~ 146 (311)
+++|.+ |.|.++.++.|..+...+||+||.|.+++++.+++...-+.|+++.+.|..|.++.....
T Consensus 115 r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkrA~pk~~~~~ 181 (311)
T KOG4205|consen 115 KDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKRAIPKEVMQS 181 (311)
T ss_pred hhhhhccceeEeeEEeecccccccccceeeEeccccccceecccceeeecCceeeEeeccchhhccc
Confidence 999999 999999999999999999999999999999999998888899999999999999886543
No 32
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=99.63 E-value=5.9e-16 Score=123.78 Aligned_cols=108 Identities=27% Similarity=0.531 Sum_probs=82.5
Q ss_pred CCcccCCCCchhhhhhcccCCCccccccccccccccCcccCCceeecCCCCcccccccCCccccccccCccccCCCCCCC
Q 021488 170 TSNDADNSGAVTSNVAANAGSGTSDVTEHIDLSAVSGKIRRRTCYECGEKGHLSSACLKKTADQTMVTGKVSDNAGSRTG 249 (311)
Q Consensus 170 ~c~~c~~~gh~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~~~~~~~~~~g 249 (311)
.|++|+..||++++||..... +......||+|++.||++++||+.... .....|+.|+..|
T Consensus 2 ~C~~C~~~GH~~~~c~~~~~~---------------~~~~~~~C~~Cg~~GH~~~~Cp~~~~~----~~~~~C~~Cg~~G 62 (148)
T PTZ00368 2 VCYRCGGVGHQSRECPNSAPA---------------GAAKARPCYKCGEPGHLSRECPSAPGG----RGERSCYNCGKTG 62 (148)
T ss_pred cCCCCCCCCcCcccCcCCCCC---------------CCCCCccCccCCCCCcCcccCcCCCCC----CCCcccCCCCCcC
Confidence 599999999999999864221 113456899999999999999987632 2344599999999
Q ss_pred CCCCCCCCCC------cccCCCCCCCCcCCCC-------CCccccccCCccccCCCCCCc
Q 021488 250 NFADNAGLGT------TNVSDNAGLSAVSGKI-------RRRTCYECGEKGHLSSACPKK 296 (311)
Q Consensus 250 ~~~~~~~~~~------~~~~~~~~~~~~~~~~-------~~~~Cy~Cg~~gH~~~~Cp~~ 296 (311)
|++.+|+... .++.++...|..+++. ....||+|++.||++++||+.
T Consensus 63 H~~~~Cp~~~~~~~~~~C~~Cg~~GH~~~~C~~~~~~~~~~~~C~~Cg~~gH~~~~C~~~ 122 (148)
T PTZ00368 63 HLSRECPEAPPGSGPRSCYNCGQTGHISRECPNRAKGGAARRACYNCGGEGHISRDCPNA 122 (148)
T ss_pred cCcccCCCcccCCCCcccCcCCCCCcccccCCCcccccccchhhcccCcCCcchhcCCCc
Confidence 9999998742 4566666666544432 234799999999999999985
No 33
>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=99.58 E-value=4.5e-14 Score=133.70 Aligned_cols=135 Identities=21% Similarity=0.248 Sum_probs=104.6
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccC----------------------------
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRT---------------------------- 52 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~---------------------------- 52 (311)
+|+.+|+++|||||+|.+.++|.+||+ |+|..|.|++|.|..+........
T Consensus 220 ~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 299 (457)
T TIGR01622 220 RDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDSTYLLDAANTFEDIDKQQQMGKNLNTEEREQLME 299 (457)
T ss_pred EcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccCCCccccchhhhccccccccCCcCCCccchHHHHH
Confidence 567889999999999999999999995 999999999999987431100000
Q ss_pred ----CC----------------------------CC------------------CC--CcCCCCEEEEcCCCCCCC----
Q 021488 53 ----SD----------------------------FT------------------PK--IVEGYNRIYIGNLSWDIT---- 76 (311)
Q Consensus 53 ----~~----------------------------~~------------------~~--~~~~~~~l~V~~L~~~~t---- 76 (311)
.. .. +. .......|+|.||....+
T Consensus 300 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~~~~ 379 (457)
T TIGR01622 300 KLDRDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGALAIMARNSFVPSTNNNLATTCLVLSNMFDPATEEEP 379 (457)
T ss_pred hhccCCCCccccCCCccchhhhhccccccccccccccccccccccccccCCCCCCcccCCCCCcEEEEecCCCCcccccc
Confidence 00 00 00 113456789999854443
Q ss_pred ------HHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCC
Q 021488 77 ------EEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 77 ------~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~ 140 (311)
.+||++.|.+ |.|+.|.|.. ....|++||.|.+.++|.+|+ .|+|..|+|+.|.|.+...
T Consensus 380 ~~~~~~~~dv~~e~~k~G~v~~v~v~~----~~~~G~~fV~F~~~e~A~~A~~~lnGr~f~gr~i~~~~~~~ 447 (457)
T TIGR01622 380 NFDNEILDDVKEECSKYGGVVHIYVDT----KNSAGKIYLKFSSVDAALAAFQALNGRYFGGKMITAAFVVN 447 (457)
T ss_pred hHHHHHHHHHHHHHHhcCCeeEEEEeC----CCCceeEEEEECCHHHHHHHHHHhcCcccCCeEEEEEEEcH
Confidence 3678999999 9999998863 345799999999999999999 8999999999999999654
No 34
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.57 E-value=1.4e-14 Score=119.52 Aligned_cols=80 Identities=26% Similarity=0.391 Sum_probs=76.8
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
...+|+|.||+.++++++|+++|.+ |.|..+.|.+++.||.++|||||+|.+.++|++|| .|+|+-++.-.|+|+|++
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwsk 267 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSK 267 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecC
Confidence 4568999999999999999999999 99999999999999999999999999999999999 799999999999999998
Q ss_pred CC
Q 021488 140 PP 141 (311)
Q Consensus 140 ~~ 141 (311)
|+
T Consensus 268 P~ 269 (270)
T KOG0122|consen 268 PS 269 (270)
T ss_pred CC
Confidence 86
No 35
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=99.55 E-value=3.4e-14 Score=127.95 Aligned_cols=136 Identities=21% Similarity=0.294 Sum_probs=109.6
Q ss_pred cCCCCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccccccCCC-CCCCCcCCCCEEEEcCCCCCCCHHHHH
Q 021488 3 FPDTGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKRTSD-FTPKIVEGYNRIYIGNLSWDITEEDLK 81 (311)
Q Consensus 3 d~~tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~~~~-~~~~~~~~~~~l~V~~L~~~~t~~~l~ 81 (311)
.+.|||..|-|||+|.+++++++||+++...+..|.|.|-.+.......... ..+........|++++||+++|++||.
T Consensus 42 ~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~~~e~d~~~~~~g~~s~~~d~vVRLRGLPfscte~dI~ 121 (510)
T KOG4211|consen 42 PRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAGGAEADWVMRPGGPNSSANDGVVRLRGLPFSCTEEDIV 121 (510)
T ss_pred eccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccCCccccccccCCCCCCCCCCceEEecCCCccCcHHHHH
Confidence 4568999999999999999999999999999999999998775554433222 222333466789999999999999999
Q ss_pred hhccCCcee--EEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcC
Q 021488 82 KLFSDCKIS--SLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 82 ~~f~~g~i~--~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~ 139 (311)
++|+--.|. .|.++.++ .+++.|-|||.|.+.+.|+.||..+...|+-+.|.|-.+.
T Consensus 122 ~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~Ss 180 (510)
T KOG4211|consen 122 EFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRSS 180 (510)
T ss_pred HHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehhH
Confidence 999973333 24455554 6678999999999999999999888888999999987654
No 36
>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=99.51 E-value=7.7e-14 Score=126.08 Aligned_cols=82 Identities=29% Similarity=0.409 Sum_probs=77.1
Q ss_pred CCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEc
Q 021488 61 EGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCA 138 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a 138 (311)
...++|||++||+++|+++|+++|+. |.|++++|+.+..+++++|||||+|.++++|.+|| +|++..|.+++|+|.++
T Consensus 105 ~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a 184 (346)
T TIGR01659 105 NSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYA 184 (346)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecc
Confidence 35679999999999999999999999 99999999999999999999999999999999999 79999999999999998
Q ss_pred CCCC
Q 021488 139 VPPK 142 (311)
Q Consensus 139 ~~~~ 142 (311)
.+..
T Consensus 185 ~p~~ 188 (346)
T TIGR01659 185 RPGG 188 (346)
T ss_pred cccc
Confidence 7643
No 37
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.50 E-value=9e-14 Score=126.32 Aligned_cols=133 Identities=22% Similarity=0.417 Sum_probs=113.1
Q ss_pred cCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHH
Q 021488 3 FPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLK 81 (311)
Q Consensus 3 d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~ 81 (311)
.+.+| |+|| ||+|+++++|.+||+ +||..+.+++|+|.+............. .......+||.+++.++++++|.
T Consensus 110 ~~~~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~~~~~--~~~~~t~v~vk~~~~~~~~~~l~ 185 (369)
T KOG0123|consen 110 TDENG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEEREAPLGE--YKKRFTNVYVKNLEEDSTDEELK 185 (369)
T ss_pred EcCCC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhcccccc--hhhhhhhhheeccccccchHHHH
Confidence 34566 9999 999999999999996 9999999999999877665443322222 23345679999999999999999
Q ss_pred hhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCC
Q 021488 82 KLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 82 ~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~ 140 (311)
.+|.. |.|..+.++.+. .+++++|+||.|.++++|..|+ .|++..+.+..+.|..+..
T Consensus 186 ~~f~~~g~i~s~~v~~~~-~g~~~~~gfv~f~~~e~a~~av~~l~~~~~~~~~~~V~~aqk 245 (369)
T KOG0123|consen 186 DLFSAYGSITSVAVMRDS-IGKSKGFGFVNFENPEDAKKAVETLNGKIFGDKELYVGRAQK 245 (369)
T ss_pred HhhcccCcceEEEEeecC-CCCCCCccceeecChhHHHHHHHhccCCcCCccceeeccccc
Confidence 99999 999999999987 5568999999999999999999 7999999999999988776
No 38
>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=99.50 E-value=1.5e-13 Score=95.14 Aligned_cols=68 Identities=38% Similarity=0.706 Sum_probs=64.6
Q ss_pred EEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeE
Q 021488 66 IYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVK 134 (311)
Q Consensus 66 l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~ 134 (311)
|||+|||.++++++|+++|.+ |.|..+.+..+ .++..+++|||+|.+.++|..|+ .+++..++++.|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 799999999999999999999 99999999988 58889999999999999999999 6999999999886
No 39
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.49 E-value=3.3e-14 Score=114.12 Aligned_cols=118 Identities=19% Similarity=0.342 Sum_probs=79.6
Q ss_pred CCCCCcccCCCCchhhhhhcccCCCccccccccccccccCcccCCceeecCCCCcccccc-cCCccccccccCccccCCC
Q 021488 167 GLGTSNDADNSGAVTSNVAANAGSGTSDVTEHIDLSAVSGKIRRRTCYECGEKGHLSSAC-LKKTADQTMVTGKVSDNAG 245 (311)
Q Consensus 167 ~~~~c~~c~~~gh~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C-p~~~~~~~~~~~~~~~~~~ 245 (311)
....|++|++.||..++||...=..- -..++. ...-.....||.||+.||++++| |..... ..|..|
T Consensus 59 ~~~~C~nCg~~GH~~~DCP~~iC~~C-~~~~H~----s~~C~~~~~C~~Cg~~GH~~~dC~P~~~~~-------~~C~~C 126 (190)
T COG5082 59 ENPVCFNCGQNGHLRRDCPHSICYNC-SWDGHR----SNHCPKPKKCYNCGETGHLSRDCNPSKDQQ-------KSCFDC 126 (190)
T ss_pred cccccchhcccCcccccCChhHhhhc-CCCCcc----cccCCcccccccccccCccccccCcccccC-------cceecc
Confidence 35789999999999999982100000 000000 00001226899999999999999 555432 249999
Q ss_pred CCCCCCCCCCCCCCcccCCC-CCCCCcCCCCCCccccccCCccccCCCCCCcccccc
Q 021488 246 SRTGNFADNAGLGTTNVSDN-AGLSAVSGKIRRRTCYECGEKGHLSSACPKKTADQT 301 (311)
Q Consensus 246 ~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~Cy~Cg~~gH~~~~Cp~~~~~~~ 301 (311)
+..+|.+.+|+..+..|.-. +..+ .-...||+|+..+|+..+|+.+.....
T Consensus 127 ~s~~H~s~~Cp~~~k~y~~~~~~~~-----~~~~~cy~c~~~~H~~~dc~~~~~s~~ 178 (190)
T COG5082 127 NSTRHSSEDCPSIWKHYVLNNGDGH-----PIKKFCYSCGSAGHFGDDCKEPRSSRV 178 (190)
T ss_pred CCCccccccCcccccccccccCCCc-----ceeeeccccCCccccCCCCCCCccccc
Confidence 99999999999876655544 1111 223679999999999999997754443
No 40
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.46 E-value=1.1e-13 Score=113.83 Aligned_cols=79 Identities=28% Similarity=0.528 Sum_probs=73.6
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~ 140 (311)
..++|||+||+|.++.++|+++|++ |+|++..|+.|+.+++++||+||+|.+.++|.+|++-..-.|+||+..+.+|..
T Consensus 11 ~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~l 90 (247)
T KOG0149|consen 11 TFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLASL 90 (247)
T ss_pred eEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhhh
Confidence 4468999999999999999999999 999999999999999999999999999999999996666789999999988764
No 41
>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=99.42 E-value=1.7e-12 Score=90.07 Aligned_cols=68 Identities=38% Similarity=0.626 Sum_probs=61.8
Q ss_pred EEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeE
Q 021488 66 IYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVK 134 (311)
Q Consensus 66 l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~ 134 (311)
|||+|||+++++++|+++|.. |.|..+.+..++. +..+++|||+|.++++|..|+ .+++..|+|+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 799999999999999999999 9999999999976 899999999999999999999 5777999999875
No 42
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.42 E-value=5.8e-13 Score=114.29 Aligned_cols=87 Identities=20% Similarity=0.356 Sum_probs=77.5
Q ss_pred cCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEE
Q 021488 60 VEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISC 137 (311)
Q Consensus 60 ~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~ 137 (311)
....++|+|+|||+...+-||+.+|.+ |.|++|+|+.+. .-++||+||+|+++++|++|- +|+|..|.||+|.|..
T Consensus 93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ 170 (376)
T KOG0125|consen 93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNN 170 (376)
T ss_pred CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEec
Confidence 345679999999999999999999999 999999998763 346999999999999999999 8999999999999999
Q ss_pred cCCCCCCCCCC
Q 021488 138 AVPPKKGINSK 148 (311)
Q Consensus 138 a~~~~~~~~~~ 148 (311)
+..+....+..
T Consensus 171 ATarV~n~K~~ 181 (376)
T KOG0125|consen 171 ATARVHNKKKK 181 (376)
T ss_pred cchhhccCCcc
Confidence 99986654433
No 43
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.42 E-value=1.9e-12 Score=115.34 Aligned_cols=132 Identities=22% Similarity=0.332 Sum_probs=95.7
Q ss_pred CCHHHHHHHH-HcCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEe
Q 021488 18 RTEGAVKRAL-ALDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFG 95 (311)
Q Consensus 18 ~~~~~A~~Al-~l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~ 95 (311)
.+.++|.+|| +..+.. |.|+.-..+-..+......+.......|||+.||.++.|+||.-+|.+ |.|-+++|+
T Consensus 42 ~~~eaal~al~E~tgy~-----l~ve~gqrk~ggPpP~weg~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLM 116 (506)
T KOG0117|consen 42 QSEEAALKALLERTGYT-----LVVENGQRKYGGPPPGWEGPPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLM 116 (506)
T ss_pred ccHHHHHHHHHHhcCce-----EEEeccccccCCCCCcccCCCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEe
Confidence 4467777887 355543 444422221111111111112234467999999999999999999999 999999999
Q ss_pred ecCCCCCceeEEEEEecCHHHHHHHH-hcCCcee-CCeEeEEEEcCCCCCCCCCCCCCCCchhh
Q 021488 96 TNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVV-RGRPVKISCAVPPKKGINSKSRSLPSNKR 157 (311)
Q Consensus 96 ~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i-~g~~i~v~~a~~~~~~~~~~~~~~~~~~~ 157 (311)
.|+.+|.++|||||+|.+.++|+.|| .||+..| .|+.|.|..+...- +....++|..++
T Consensus 117 mD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan~---RLFiG~IPK~k~ 177 (506)
T KOG0117|consen 117 MDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVANC---RLFIGNIPKTKK 177 (506)
T ss_pred ecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeecc---eeEeccCCcccc
Confidence 99999999999999999999999999 7999987 58899988876543 234455664444
No 44
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.41 E-value=1e-12 Score=111.68 Aligned_cols=76 Identities=26% Similarity=0.296 Sum_probs=70.4
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCCC
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVPP 141 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~~ 141 (311)
.++|||+|||+.+++++|+++|+. |.|.+|+|+.++. .+|||||+|.++++|..||.|++..|.|+.|+|.++..-
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~~~ 80 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAEDY 80 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEeccCC
Confidence 469999999999999999999999 9999999998763 478999999999999999999999999999999998654
No 45
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.39 E-value=1.8e-12 Score=108.33 Aligned_cols=82 Identities=16% Similarity=0.269 Sum_probs=77.5
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCC
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~ 140 (311)
...|||-.||.+..+.||..+|.. |.|.+.+|..|+-|..++.|+||.|+++.+|+.|| .|||+.|+-++|+|.+.++
T Consensus 285 GCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRP 364 (371)
T KOG0146|consen 285 GCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRP 364 (371)
T ss_pred cceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCc
Confidence 358999999999999999999999 99999999999999999999999999999999999 8999999999999999888
Q ss_pred CCCC
Q 021488 141 PKKG 144 (311)
Q Consensus 141 ~~~~ 144 (311)
+..+
T Consensus 365 kdan 368 (371)
T KOG0146|consen 365 KDAN 368 (371)
T ss_pred cccC
Confidence 7653
No 46
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.38 E-value=8.7e-13 Score=110.46 Aligned_cols=79 Identities=22% Similarity=0.428 Sum_probs=76.7
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCC
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPP 141 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~ 141 (311)
..|||+.|...++.++|++.|.+ |+|.+.+|++|..|++++||+||.|...++|+.|| .|+|..|+.|.|+..||..+
T Consensus 63 fhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRK 142 (321)
T KOG0148|consen 63 FHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRK 142 (321)
T ss_pred eeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccC
Confidence 46999999999999999999999 99999999999999999999999999999999999 89999999999999999888
Q ss_pred C
Q 021488 142 K 142 (311)
Q Consensus 142 ~ 142 (311)
+
T Consensus 143 p 143 (321)
T KOG0148|consen 143 P 143 (321)
T ss_pred c
Confidence 7
No 47
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.38 E-value=7.2e-13 Score=106.80 Aligned_cols=87 Identities=26% Similarity=0.490 Sum_probs=80.3
Q ss_pred CCCcCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeE
Q 021488 57 PKIVEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVK 134 (311)
Q Consensus 57 ~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~ 134 (311)
|+..+....|.|-||.+.++.++|+.+|++ |.|-+|.|+.|+.|..++|||||.|....+|+.|+ .|+|..|+|+.|+
T Consensus 7 PPdv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelr 86 (256)
T KOG4207|consen 7 PPDVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELR 86 (256)
T ss_pred CCCcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceee
Confidence 455567789999999999999999999999 99999999999999999999999999999999999 8999999999999
Q ss_pred EEEcCCCCC
Q 021488 135 ISCAVPPKK 143 (311)
Q Consensus 135 v~~a~~~~~ 143 (311)
|++|.--..
T Consensus 87 Vq~arygr~ 95 (256)
T KOG4207|consen 87 VQMARYGRP 95 (256)
T ss_pred ehhhhcCCC
Confidence 999875433
No 48
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.36 E-value=2.7e-12 Score=108.98 Aligned_cols=81 Identities=22% Similarity=0.489 Sum_probs=76.6
Q ss_pred CCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEc
Q 021488 61 EGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCA 138 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a 138 (311)
.+..||||.-|+.+++|..|+..|.. |.|..|.|+.+..|++++|||||+|..+.+..+|. ..+++.|+++.|.|.+-
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE 178 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE 178 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence 57789999999999999999999999 99999999999999999999999999999999999 79999999999999886
Q ss_pred CCC
Q 021488 139 VPP 141 (311)
Q Consensus 139 ~~~ 141 (311)
..+
T Consensus 179 RgR 181 (335)
T KOG0113|consen 179 RGR 181 (335)
T ss_pred ccc
Confidence 544
No 49
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.36 E-value=1.3e-12 Score=97.49 Aligned_cols=79 Identities=25% Similarity=0.412 Sum_probs=74.5
Q ss_pred CCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEc
Q 021488 61 EGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCA 138 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a 138 (311)
..+.+|||+||++.++|++|.++|+. |.|..|.+-.++.+..+-||+||+|.+.++|..|+ -++++.+..+.|+|.|.
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence 35679999999999999999999999 99999999999999999999999999999999999 79999999999999984
Q ss_pred C
Q 021488 139 V 139 (311)
Q Consensus 139 ~ 139 (311)
.
T Consensus 114 ~ 114 (153)
T KOG0121|consen 114 A 114 (153)
T ss_pred c
Confidence 3
No 50
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=8.7e-13 Score=107.24 Aligned_cols=82 Identities=23% Similarity=0.469 Sum_probs=78.2
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
..++|||++|-..+++.-|..+|-. |.|.+|.++.|..+++.+||+||+|...++|.+|| .||+..|.|+.|+|.+|.
T Consensus 9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~Ak 88 (298)
T KOG0111|consen 9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAK 88 (298)
T ss_pred cceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecC
Confidence 4579999999999999999999999 99999999999999999999999999999999999 899999999999999999
Q ss_pred CCCC
Q 021488 140 PPKK 143 (311)
Q Consensus 140 ~~~~ 143 (311)
|.+-
T Consensus 89 P~ki 92 (298)
T KOG0111|consen 89 PEKI 92 (298)
T ss_pred Cccc
Confidence 8654
No 51
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.35 E-value=2.5e-13 Score=107.26 Aligned_cols=81 Identities=28% Similarity=0.493 Sum_probs=75.4
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
.+.-|||+|||+.+||.||..+|++ |+|++|.+++|..||+++||||+.|.+..+...|+ .|||..|.|+.|+|....
T Consensus 34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~ 113 (219)
T KOG0126|consen 34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS 113 (219)
T ss_pred cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence 3457999999999999999999999 99999999999999999999999999999999999 899999999999998765
Q ss_pred CCC
Q 021488 140 PPK 142 (311)
Q Consensus 140 ~~~ 142 (311)
..+
T Consensus 114 ~Yk 116 (219)
T KOG0126|consen 114 NYK 116 (219)
T ss_pred ccc
Confidence 443
No 52
>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=99.33 E-value=5.5e-12 Score=120.36 Aligned_cols=79 Identities=23% Similarity=0.548 Sum_probs=74.4
Q ss_pred CCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEc
Q 021488 61 EGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCA 138 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a 138 (311)
....+|||+|||+++++++|+++|.+ |.|.+|.|+.++.+++++|||||+|.+.++|.+|+ .||+..|.|+.|+|.+.
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp 184 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 184 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence 34578999999999999999999999 99999999999999999999999999999999999 79999999999999864
Q ss_pred C
Q 021488 139 V 139 (311)
Q Consensus 139 ~ 139 (311)
.
T Consensus 185 ~ 185 (612)
T TIGR01645 185 S 185 (612)
T ss_pred c
Confidence 4
No 53
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.29 E-value=5.7e-12 Score=94.87 Aligned_cols=87 Identities=22% Similarity=0.362 Sum_probs=80.3
Q ss_pred CCCcCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeE
Q 021488 57 PKIVEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVK 134 (311)
Q Consensus 57 ~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~ 134 (311)
|..+.....|||+++...+++++|.+.|.. |+|..|.+-.|+.||..+|||+|+|.+.+.|++|+ .+|+..|.+..|.
T Consensus 66 PqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~ 145 (170)
T KOG0130|consen 66 PQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVS 145 (170)
T ss_pred CccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCcee
Confidence 444455678999999999999999999999 99999999999999999999999999999999999 8999999999999
Q ss_pred EEEcCCCCC
Q 021488 135 ISCAVPPKK 143 (311)
Q Consensus 135 v~~a~~~~~ 143 (311)
|.|+..+..
T Consensus 146 VDw~Fv~gp 154 (170)
T KOG0130|consen 146 VDWCFVKGP 154 (170)
T ss_pred EEEEEecCC
Confidence 999887654
No 54
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.29 E-value=1.7e-11 Score=102.69 Aligned_cols=75 Identities=25% Similarity=0.228 Sum_probs=69.1
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCC
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~ 140 (311)
..+|||+||++.+|+++|+++|+. |.|.+|+|+++. ...+||||+|.++++|..|+.|+|..|.++.|.|..+..
T Consensus 5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~~ 80 (243)
T PLN03121 5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWGQ 80 (243)
T ss_pred ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCcc
Confidence 469999999999999999999999 999999999885 345799999999999999999999999999999988664
No 55
>PLN03213 repressor of silencing 3; Provisional
Probab=99.29 E-value=9.7e-12 Score=112.11 Aligned_cols=76 Identities=29% Similarity=0.457 Sum_probs=69.3
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCH--HHHHHHH-hcCCceeCCeEeEEEE
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDS--LSLSMAL-KLDQEVVRGRPVKISC 137 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~--~~a~~al-~l~~~~i~g~~i~v~~ 137 (311)
...+|||+||++.++++||+..|+. |.|.++.|+ +.+| +|||||+|.+. .++.+|| .|++..+.|+.|+|..
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNK 84 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEK 84 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEee
Confidence 3468999999999999999999999 999999999 4466 99999999987 6789999 8999999999999999
Q ss_pred cCCC
Q 021488 138 AVPP 141 (311)
Q Consensus 138 a~~~ 141 (311)
|++.
T Consensus 85 AKP~ 88 (759)
T PLN03213 85 AKEH 88 (759)
T ss_pred ccHH
Confidence 8764
No 56
>smart00362 RRM_2 RNA recognition motif.
Probab=99.26 E-value=3.6e-11 Score=82.84 Aligned_cols=70 Identities=36% Similarity=0.675 Sum_probs=64.3
Q ss_pred EEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEE
Q 021488 65 RIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKIS 136 (311)
Q Consensus 65 ~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~ 136 (311)
+|||.|||..+++++|+++|.+ |.+..+.+..++ +.++|+|||+|.+.++|..|+ .+++..+.++.|.|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 5899999999999999999999 999999998776 677899999999999999999 799999999998873
No 57
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.24 E-value=1.5e-11 Score=113.01 Aligned_cols=81 Identities=26% Similarity=0.536 Sum_probs=77.6
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCC
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPP 141 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~ 141 (311)
..|||+|+|+++++++|.++|+. |.|.+++++.|+.+|+++||||++|.+.+++..|+ .|++..+.|++|+|.|+...
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 78999999999999999999999 99999999999999999999999999999999999 79999999999999998876
Q ss_pred CCC
Q 021488 142 KKG 144 (311)
Q Consensus 142 ~~~ 144 (311)
+..
T Consensus 99 ~~~ 101 (435)
T KOG0108|consen 99 KNA 101 (435)
T ss_pred chh
Confidence 653
No 58
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.23 E-value=1.1e-10 Score=95.97 Aligned_cols=131 Identities=24% Similarity=0.299 Sum_probs=104.0
Q ss_pred cCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCC----------------------------
Q 021488 3 FPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTS---------------------------- 53 (311)
Q Consensus 3 d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~---------------------------- 53 (311)
--.|.+.||-|||.|.+.+.|..|+. |+|..|.|++++|+++.........
T Consensus 45 a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng 124 (221)
T KOG4206|consen 45 AFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNG 124 (221)
T ss_pred ecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhccCceeccccCccccccccccCCcccccc
Confidence 34689999999999999999999995 9999999999999877654321111
Q ss_pred --------CCC----CCCcCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHH
Q 021488 54 --------DFT----PKIVEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMA 120 (311)
Q Consensus 54 --------~~~----~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~a 120 (311)
... .....+...|++.|||..++.+.|..+|.+ .....|+++... .+.|||+|.+...|..|
T Consensus 125 ~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a 199 (221)
T KOG4206|consen 125 HFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAA 199 (221)
T ss_pred cccccccccCCCCccccCCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHH
Confidence 000 111446678999999999999999999999 678888887654 78999999999998888
Q ss_pred H-hcCCceeC-CeEeEEEEc
Q 021488 121 L-KLDQEVVR-GRPVKISCA 138 (311)
Q Consensus 121 l-~l~~~~i~-g~~i~v~~a 138 (311)
. .+.+..|. ...+.|.++
T Consensus 200 ~~~lq~~~it~~~~m~i~~a 219 (221)
T KOG4206|consen 200 QQALQGFKITKKNTMQITFA 219 (221)
T ss_pred hhhhccceeccCceEEeccc
Confidence 8 78888876 666777664
No 59
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.23 E-value=1.3e-11 Score=97.85 Aligned_cols=79 Identities=25% Similarity=0.452 Sum_probs=75.0
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
...+|||+|||..++++-|.++|-+ |+|.++.+++++.+...+||||++|.++++|+-|+ -|+...+.|++|+|..+.
T Consensus 8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas 87 (203)
T KOG0131|consen 8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS 87 (203)
T ss_pred CCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence 4579999999999999999999999 99999999999999999999999999999999999 699999999999999987
Q ss_pred C
Q 021488 140 P 140 (311)
Q Consensus 140 ~ 140 (311)
.
T Consensus 88 ~ 88 (203)
T KOG0131|consen 88 A 88 (203)
T ss_pred c
Confidence 3
No 60
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.23 E-value=5.3e-11 Score=85.62 Aligned_cols=78 Identities=32% Similarity=0.440 Sum_probs=70.8
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
-.+.|||.|||+++|.++..++|.+ |.|..|+|...+.| +|.|||.|.+..+|.+|+ .|+|..+.++.+.|-+..
T Consensus 17 vnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~T---rGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq 93 (124)
T KOG0114|consen 17 VNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKET---RGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQ 93 (124)
T ss_pred hheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCc---CceEEEEehHhhhHHHHHHHhcccccCCceEEEEecC
Confidence 4578999999999999999999999 99999999876544 899999999999999999 899999999999999976
Q ss_pred CCC
Q 021488 140 PPK 142 (311)
Q Consensus 140 ~~~ 142 (311)
+..
T Consensus 94 ~~~ 96 (124)
T KOG0114|consen 94 PED 96 (124)
T ss_pred HHH
Confidence 644
No 61
>smart00360 RRM RNA recognition motif.
Probab=99.20 E-value=6.8e-11 Score=81.11 Aligned_cols=69 Identities=42% Similarity=0.715 Sum_probs=64.0
Q ss_pred EcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEE
Q 021488 68 IGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKIS 136 (311)
Q Consensus 68 V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~ 136 (311)
|.|||..+++++|+++|.. |.|..+.+..++.++.++|+|||+|.+.++|..|+ .+++..+.++.|+|+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 5799999999999999999 99999999998878889999999999999999999 799999999998873
No 62
>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=99.17 E-value=2.2e-10 Score=79.32 Aligned_cols=72 Identities=39% Similarity=0.702 Sum_probs=65.9
Q ss_pred EEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEE
Q 021488 65 RIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISC 137 (311)
Q Consensus 65 ~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~ 137 (311)
+|+|.|||..+++++|+++|.. |.|..+.+..++.+ ..+|++||+|.+.++|..|+ .+++..+.++.+.|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 4899999999999999999999 99999999987655 67899999999999999999 7999999999998864
No 63
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.15 E-value=1.7e-10 Score=105.75 Aligned_cols=134 Identities=19% Similarity=0.266 Sum_probs=94.8
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccC---------------------------
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRT--------------------------- 52 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~--------------------------- 52 (311)
++|.+||+++||+||+|.+.++|.+|++ |||..|.|+.|+|......-....
T Consensus 311 ~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~~~~~a~~~~~d~D~~d~~gl~~~~~g~~Ql~ 390 (549)
T KOG0147|consen 311 TKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERVDTKEAAVTQFDFDEDDRQGLSLGSGGRNQLM 390 (549)
T ss_pred ccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeecccccccccccccchhhccccccccccHHHHH
Confidence 3677899999999999999999999985 999999999999942211000000
Q ss_pred -------------------------------C------CC-----CCCCcCCCCEEEEcCCC--CCCC--------HHHH
Q 021488 53 -------------------------------S------DF-----TPKIVEGYNRIYIGNLS--WDIT--------EEDL 80 (311)
Q Consensus 53 -------------------------------~------~~-----~~~~~~~~~~l~V~~L~--~~~t--------~~~l 80 (311)
. .. .|....++..+.|.|+= .+.| .+||
T Consensus 391 ~kla~~~~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~~i~t~C~lL~nMFdpstete~n~d~eI~edV 470 (549)
T KOG0147|consen 391 AKLAEGKGRSLPSTAISALLLLAKLASAAQFNGVVRVRSVDPADASPAFDIPTQCLLLSNMFDPSTETEPNWDQEIREDV 470 (549)
T ss_pred HHHhccCCccccchhhhHHHhccccchHHhhcCCcCccccCccccccccCCccHHHHHhhcCCcccccCcchhhHHHHHH
Confidence 0 00 00001233445555541 1111 2456
Q ss_pred HhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 81 KKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 81 ~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
.+...+ |.|.+|.|-.. +-|+.||.|++.++|..|+ +|+|..|.|+.|.+.+..
T Consensus 471 ~Eec~k~g~v~hi~vd~n-----s~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~ 526 (549)
T KOG0147|consen 471 IEECGKHGKVCHIFVDKN-----SAGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLP 526 (549)
T ss_pred HHHHHhcCCeeEEEEccC-----CCceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEee
Confidence 666677 89999988654 2599999999999999999 899999999999999854
No 64
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.15 E-value=1.8e-10 Score=100.81 Aligned_cols=78 Identities=37% Similarity=0.728 Sum_probs=74.6
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCC
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~ 140 (311)
..+|||+|||..+++++|.++|.+ |.|..+.+..++.++.++|||||+|.+.++|..|+ .+++..|.++.|.|.++.+
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~ 194 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP 194 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence 589999999999999999999999 99999999999989999999999999999999999 7999999999999999764
No 65
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.12 E-value=6.3e-10 Score=88.43 Aligned_cols=115 Identities=18% Similarity=0.251 Sum_probs=91.9
Q ss_pred CccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccC----------------CCCCCCCcCCCCEEEEcC
Q 021488 8 KFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRT----------------SDFTPKIVEGYNRIYIGN 70 (311)
Q Consensus 8 ~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~----------------~~~~~~~~~~~~~l~V~~ 70 (311)
..-.||||+|+++.+|+.||. .+|..+.|..|+|+.+........ ....++......+|.|.+
T Consensus 43 g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsG 122 (241)
T KOG0105|consen 43 GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSG 122 (241)
T ss_pred CCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEec
Confidence 345799999999999999996 899999999999998765431110 011133334456899999
Q ss_pred CCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeC
Q 021488 71 LSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVR 129 (311)
Q Consensus 71 L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~ 129 (311)
||++-+..||++.+.+ |.|....+.+| |++.|+|...++..-|+ +|+...+.
T Consensus 123 Lp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 123 LPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred CCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhcccccc
Confidence 9999999999999999 99999988775 48999999999999999 77766543
No 66
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=1.4e-10 Score=101.51 Aligned_cols=107 Identities=21% Similarity=0.390 Sum_probs=73.3
Q ss_pred CCCCcccCCCCchhhhhhcccCCCccccccccccccccCcccCCceeecCCCCcccccccCCccccccccCccccCCCCC
Q 021488 168 LGTSNDADNSGAVTSNVAANAGSGTSDVTEHIDLSAVSGKIRRRTCYECGEKGHLSSACLKKTADQTMVTGKVSDNAGSR 247 (311)
Q Consensus 168 ~~~c~~c~~~gh~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~~~~~~~~~ 247 (311)
...|+.|+..+|....|+. ....||+|++.||++++||....... ....|+.|..
T Consensus 72 ~~~c~~~g~~~~~~~~~~~----------------------~~~~c~~C~~~gH~~~~c~~~~~~~~---~~~~~~~c~~ 126 (261)
T KOG4400|consen 72 EVSCYICGEKGHLGRRCTR----------------------IAAACFNCGEGGHIERDCPEAGKEGS---SETSCYSCGK 126 (261)
T ss_pred CceeeecCCCCchhhcCcc----------------------cchhhhhCCCCccchhhCCcccCccc---ccceeeccCC
Confidence 4567888888888877742 23468888888888888888765432 2233677777
Q ss_pred CCCCC-CCCC-----CCCcccCCCCCCCCcCCCC--CCccccccCCccccCCCCCCcccc
Q 021488 248 TGNFA-DNAG-----LGTTNVSDNAGLSAVSGKI--RRRTCYECGEKGHLSSACPKKTAD 299 (311)
Q Consensus 248 ~g~~~-~~~~-----~~~~~~~~~~~~~~~~~~~--~~~~Cy~Cg~~gH~~~~Cp~~~~~ 299 (311)
.||.+ +++. ....||+|+.-+|.+..+. ...+||.|++.||++++||.....
T Consensus 127 ~gh~~~~~~~~~~~~~~~~Cy~Cg~~GH~s~~C~~~~~~~c~~c~~~~h~~~~C~~~~~~ 186 (261)
T KOG4400|consen 127 TGHRGCPDADPVDGPKPAKCYSCGEQGHISDDCPENKGGTCFRCGKVGHGSRDCPSKQKS 186 (261)
T ss_pred CccccCcccccccCCCCCccCCCCcCCcchhhCCCCCCCccccCCCcceecccCCccccc
Confidence 77777 2221 1134666666666666555 368999999999999999988544
No 67
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.09 E-value=1.4e-09 Score=96.95 Aligned_cols=135 Identities=25% Similarity=0.470 Sum_probs=105.2
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccC----------------------------
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRT---------------------------- 52 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~---------------------------- 52 (311)
..+++||+||+|.|+|+++|.+++|++ ||.+.+.||+|.|.........+.
T Consensus 78 l~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d~q~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~g 157 (608)
T KOG4212|consen 78 LFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHDEQRDQYGRIVRDGGGGFGGGGGVQGGNGGLNGGG 157 (608)
T ss_pred ecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCchhhhhhhheeeccCcccccCcceecccccccccC
Confidence 457899999999999999999999997 999999999999953322111000
Q ss_pred ------------------C----------CC---------------C----CCCcCCCCEEEEcCCCCCCCHHHHHhhcc
Q 021488 53 ------------------S----------DF---------------T----PKIVEGYNRIYIGNLSWDITEEDLKKLFS 85 (311)
Q Consensus 53 ------------------~----------~~---------------~----~~~~~~~~~l~V~~L~~~~t~~~l~~~f~ 85 (311)
. ++ . --..+.-.++||.||.+.+....|.+.|.
T Consensus 158 ~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~Flr~~h~f~pPl~~k~fvanl~~~vg~~kL~qvfg 237 (608)
T KOG4212|consen 158 GGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSASFLRSLHIFSPPLHNKVFVANLDYKVGNKKLKQVFG 237 (608)
T ss_pred CCCccccCCCCcccccccccccCccccccccccchhhhcccchhhhhhhccCCCCCccceeeeeccccccchHHHHHHhc
Confidence 0 00 0 00112235799999999999999999999
Q ss_pred C-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEE
Q 021488 86 D-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISC 137 (311)
Q Consensus 86 ~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~ 137 (311)
- |.+..|.+..++ .+.++||+.++|..+-.|..|| .+++.-+..++..+.+
T Consensus 238 mAGkv~~vdf~idK-eG~s~G~~vi~y~hpveavqaIsml~~~g~~~~~~~~Rl 290 (608)
T KOG4212|consen 238 MAGKVQSVDFSIDK-EGNSRGFAVIEYDHPVEAVQAISMLDRQGLFDRRMTVRL 290 (608)
T ss_pred cceeeeeeceeecc-ccccCCeeEEEecchHHHHHHHHhhccCCCccccceeec
Confidence 8 999999999887 5588999999999999999999 6776666666666655
No 68
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.06 E-value=3.3e-10 Score=89.99 Aligned_cols=77 Identities=25% Similarity=0.371 Sum_probs=68.7
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
.+.+|||+|||.++.+.||+++|.+ |.|..|.|...+ ....||||+|+++.+|+.|| .-++..+.|.+|+|+++.
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfpr 81 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPR 81 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEEEecc
Confidence 4578999999999999999999999 999999986432 33679999999999999999 789999999999999987
Q ss_pred CC
Q 021488 140 PP 141 (311)
Q Consensus 140 ~~ 141 (311)
.-
T Consensus 82 gg 83 (241)
T KOG0105|consen 82 GG 83 (241)
T ss_pred CC
Confidence 54
No 69
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.04 E-value=1.5e-10 Score=93.20 Aligned_cols=76 Identities=20% Similarity=0.455 Sum_probs=55.0
Q ss_pred CCceeecCCCCcccccccCCccccccccCccccCCCCCCCCCCCCCCCCCcccCCCCCCCCcCCC----CCCccccccCC
Q 021488 210 RRTCYECGEKGHLSSACLKKTADQTMVTGKVSDNAGSRTGNFADNAGLGTTNVSDNAGLSAVSGK----IRRRTCYECGE 285 (311)
Q Consensus 210 ~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~Cy~Cg~ 285 (311)
...||+||+.||+++||| ... |+.|+.-||.+..|+..-.|+.|+-.+|.++++ ...+-||.|+.
T Consensus 60 ~~~C~nCg~~GH~~~DCP-~~i----------C~~C~~~~H~s~~C~~~~~C~~Cg~~GH~~~dC~P~~~~~~~C~~C~s 128 (190)
T COG5082 60 NPVCFNCGQNGHLRRDCP-HSI----------CYNCSWDGHRSNHCPKPKKCYNCGETGHLSRDCNPSKDQQKSCFDCNS 128 (190)
T ss_pred ccccchhcccCcccccCC-hhH----------hhhcCCCCcccccCCcccccccccccCccccccCcccccCcceeccCC
Confidence 457999999999999999 332 777777788888887775555555555554444 34456888888
Q ss_pred ccccCCCCCCc
Q 021488 286 KGHLSSACPKK 296 (311)
Q Consensus 286 ~gH~~~~Cp~~ 296 (311)
.+|++++||..
T Consensus 129 ~~H~s~~Cp~~ 139 (190)
T COG5082 129 TRHSSEDCPSI 139 (190)
T ss_pred CccccccCccc
Confidence 88888888765
No 70
>smart00361 RRM_1 RNA recognition motif.
Probab=98.99 E-value=1.9e-09 Score=74.65 Aligned_cols=59 Identities=24% Similarity=0.360 Sum_probs=52.4
Q ss_pred HHHHHhhcc----C-CceeEEE-EeecCCC--CCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEE
Q 021488 77 EEDLKKLFS----D-CKISSLR-FGTNKET--GEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKI 135 (311)
Q Consensus 77 ~~~l~~~f~----~-g~i~~i~-v~~~~~~--~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v 135 (311)
+++|+++|+ . |.|.++. |+.++.+ +.++||+||+|.+.++|.+|+ .|++..+.|+.|++
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 578888888 8 9999995 7776666 889999999999999999999 79999999999976
No 71
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.97 E-value=6.3e-10 Score=92.39 Aligned_cols=120 Identities=26% Similarity=0.370 Sum_probs=94.5
Q ss_pred cceEEEEeCCHHHHHHHH-HcCCCCcCCeeEEEEECcccccccC----------CCCCCCCcCCCCEEEEcCCCCCCCHH
Q 021488 10 RGIAIINFRTEGAVKRAL-ALDGSEMDGLFLKIQPYKATKAKRT----------SDFTPKIVEGYNRIYIGNLSWDITEE 78 (311)
Q Consensus 10 kG~afV~F~~~~~A~~Al-~l~g~~~~g~~i~V~~~~~~~~~~~----------~~~~~~~~~~~~~l~V~~L~~~~t~~ 78 (311)
.||+||+|.+..+|+.|+ .+++..|.+-.+.|+++........ .............|.|.+|+..+.+.
T Consensus 35 ~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~~~g~~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~q 114 (216)
T KOG0106|consen 35 NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRRGRGRPRGGDRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQ 114 (216)
T ss_pred cccceeccCchhhhhcccchhcCceecceeeeeecccccccccCCCCCCCccchhhccCCcccccceeeeccchhhhhHH
Confidence 489999999999999999 5999999998888877664322110 00111123344678999999999999
Q ss_pred HHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEE
Q 021488 79 DLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISC 137 (311)
Q Consensus 79 ~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~ 137 (311)
+|.+.|.. |.+....+ ..+++||.|...++|..|+ .+++..+.++.|.+..
T Consensus 115 dl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~ 167 (216)
T KOG0106|consen 115 DLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEK 167 (216)
T ss_pred HHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccchhhcCceeeecc
Confidence 99999999 88754444 2678999999999999999 7999999999999933
No 72
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.96 E-value=1.5e-09 Score=96.73 Aligned_cols=84 Identities=20% Similarity=0.433 Sum_probs=73.7
Q ss_pred CCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCc-eeCC--eEeEE
Q 021488 61 EGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQE-VVRG--RPVKI 135 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~-~i~g--~~i~v 135 (311)
...-+|||+-+|..++|.||+.+|++ |.|.+|.|++|+.++.++|++||.|.+.++|.+|+ .|+.. .|-| ..|.|
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqv 111 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQV 111 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceee
Confidence 45568999999999999999999999 99999999999999999999999999999999999 77665 3444 57888
Q ss_pred EEcCCCCCC
Q 021488 136 SCAVPPKKG 144 (311)
Q Consensus 136 ~~a~~~~~~ 144 (311)
.+|....++
T Consensus 112 k~Ad~E~er 120 (510)
T KOG0144|consen 112 KYADGERER 120 (510)
T ss_pred cccchhhhc
Confidence 888765543
No 73
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.95 E-value=6.1e-10 Score=97.16 Aligned_cols=74 Identities=24% Similarity=0.609 Sum_probs=71.6
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEE
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISC 137 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~ 137 (311)
.+|||+.+.+.+.|+.|+..|.. |.|.+|.+..|+.|++++|||||+|.-++.|..|+ .||+..++|+.|+|..
T Consensus 114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr 189 (544)
T KOG0124|consen 114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 189 (544)
T ss_pred HheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence 47999999999999999999999 99999999999999999999999999999999999 7999999999999984
No 74
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.92 E-value=1.4e-09 Score=100.72 Aligned_cols=138 Identities=22% Similarity=0.361 Sum_probs=113.6
Q ss_pred CCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccccccC-------------CCCCCCCcCCCCEEEEcCCC
Q 021488 6 TGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKRT-------------SDFTPKIVEGYNRIYIGNLS 72 (311)
Q Consensus 6 tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~~-------------~~~~~~~~~~~~~l~V~~L~ 72 (311)
....+.||||+|.+.++|..|+.+++..+.|.++.+.........+. ....+........+||++||
T Consensus 219 ~n~~~nfa~ie~~s~~~at~~~~~~~~~f~g~~~~~~r~~d~~~~p~~~~~~~~~~~~~~~~~~t~~~~~~~ki~v~~lp 298 (500)
T KOG0120|consen 219 LNLEKNFAFIEFRSISEATEAMALDGIIFEGRPLKIRRPHDYQPVPGITLSPSQLGKVGLLPASTDVPDSPNKIFVGGLP 298 (500)
T ss_pred ecccccceeEEecCCCchhhhhcccchhhCCCCceecccccccCCccchhhhccccccCCcccccCcccccchhhhccCc
Confidence 35678899999999999999999999999999988853222111110 01112233345689999999
Q ss_pred CCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCC
Q 021488 73 WDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKK 143 (311)
Q Consensus 73 ~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~ 143 (311)
..+++.++.+++.. |.+....++.+..++.++||+|.+|.++.....|+ .|||..++++.|.|..|.....
T Consensus 299 ~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~ 371 (500)
T KOG0120|consen 299 LYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGAS 371 (500)
T ss_pred CccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccch
Confidence 99999999999999 99999999999999999999999999999999999 7999999999999999876544
No 75
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.90 E-value=6.5e-09 Score=98.03 Aligned_cols=128 Identities=23% Similarity=0.312 Sum_probs=95.3
Q ss_pred EEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccc--------------c-----C------CCCCCC--------
Q 021488 13 AIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAK--------------R-----T------SDFTPK-------- 58 (311)
Q Consensus 13 afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~--------------~-----~------~~~~~~-------- 58 (311)
|+|+|.+..+|.+|+. |....+..-++++...+..... . . ......
T Consensus 424 aiv~fl~p~eAr~Afrklaysr~k~~plyle~aP~dvf~~~pka~~~~~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~s 503 (725)
T KOG0110|consen 424 AIVEFLNPLEARKAFRKLAYSRFKSAPLYLEWAPEDVFTEDPKADDLSAESRSKMEENPSERVSAEDGQVEEDKDPTEES 503 (725)
T ss_pred eeeeecCccchHHHHHHhchhhhccCccccccChhhhccCCccccccccccccccccCcceecccccccccccCCccccc
Confidence 8999999999999996 7777776666665422110000 0 0 000000
Q ss_pred -------CcCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCC---CCceeEEEEEecCHHHHHHHH-hcCCc
Q 021488 59 -------IVEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKET---GEFRGYAHVDFSDSLSLSMAL-KLDQE 126 (311)
Q Consensus 59 -------~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~---~~~~G~afV~f~~~~~a~~al-~l~~~ 126 (311)
......+|||.||++++|.++|...|.. |.|.++.|...+.. -.+.|||||+|.++++|..|+ .|+|+
T Consensus 504 s~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgt 583 (725)
T KOG0110|consen 504 SLARVAEDEETETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGT 583 (725)
T ss_pred cchhhhhccccchhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCc
Confidence 0112234999999999999999999999 99999988766522 135699999999999999999 79999
Q ss_pred eeCCeEeEEEEcCC
Q 021488 127 VVRGRPVKISCAVP 140 (311)
Q Consensus 127 ~i~g~~i~v~~a~~ 140 (311)
.|.|+.|.|+++..
T Consensus 584 vldGH~l~lk~S~~ 597 (725)
T KOG0110|consen 584 VLDGHKLELKISEN 597 (725)
T ss_pred eecCceEEEEeccC
Confidence 99999999999883
No 76
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.90 E-value=1.8e-08 Score=89.44 Aligned_cols=125 Identities=21% Similarity=0.309 Sum_probs=96.9
Q ss_pred ceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCC----C------C--------C-------CCCcCCCC
Q 021488 11 GIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTS----D------F--------T-------PKIVEGYN 64 (311)
Q Consensus 11 G~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~----~------~--------~-------~~~~~~~~ 64 (311)
--|.|+|.+...|..|++ |+|..+.|++|+|.+++...-.... + . . ...-+++.
T Consensus 336 d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~vqlp~egq~d~glT~dy~~spLhrfkkpgsKN~~ni~Ppsa 415 (492)
T KOG1190|consen 336 DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNYQNIFPPSA 415 (492)
T ss_pred cceeeeecchhHHHHHHHHhhcceecCceEEEeeccCccccCCCCCCccccccccCCCCchhhccCcccccccccCCchh
Confidence 359999999999999996 9999999999999887654321110 0 0 0 01124667
Q ss_pred EEEEcCCCCCCCHHHHHhhccC-C-ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCe-EeEEEEcCC
Q 021488 65 RIYIGNLSWDITEEDLKKLFSD-C-KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGR-PVKISCAVP 140 (311)
Q Consensus 65 ~l~V~~L~~~~t~~~l~~~f~~-g-~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~-~i~v~~a~~ 140 (311)
+|++.|+|.+++|++|+..|.+ | .+...... ++.+-++++.+.+.+.|..|+ .++.+.++.. .|+|+++++
T Consensus 416 tlHlsnip~svsee~lk~~f~~~g~~vkafkff-----~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFSks 490 (492)
T KOG1190|consen 416 TLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFF-----QKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFSKS 490 (492)
T ss_pred heeeccCCcccchhHHHHhhhcCCceEEeeeec-----CCCcceeecccCChhHhhhhccccccccCCCCceEEEEeecc
Confidence 9999999999999999999999 6 44544443 233569999999999999999 8998888765 899999764
No 77
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.90 E-value=3.1e-09 Score=94.83 Aligned_cols=78 Identities=27% Similarity=0.428 Sum_probs=72.2
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC--CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEc
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD--CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCA 138 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~--g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a 138 (311)
..+.+||+|||+++...+|+++|.+ |+|+.++++.|. .++++|.|.|+|+++|.+++|+ .|+.+.+.|+.|.|+..
T Consensus 43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd 121 (608)
T KOG4212|consen 43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKED 121 (608)
T ss_pred ccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEecc
Confidence 3456999999999999999999997 899999999996 8999999999999999999999 79999999999999875
Q ss_pred CC
Q 021488 139 VP 140 (311)
Q Consensus 139 ~~ 140 (311)
..
T Consensus 122 ~d 123 (608)
T KOG4212|consen 122 HD 123 (608)
T ss_pred Cc
Confidence 54
No 78
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=98.90 E-value=8.1e-09 Score=68.14 Aligned_cols=54 Identities=35% Similarity=0.597 Sum_probs=48.4
Q ss_pred HHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEc
Q 021488 80 LKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCA 138 (311)
Q Consensus 80 l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a 138 (311)
|.++|++ |.|..+.+.... +++|||+|.+.++|..|+ .|++..+.|++|+|+||
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 6789999 999999997653 589999999999999999 79999999999999985
No 79
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.89 E-value=5.4e-09 Score=86.15 Aligned_cols=80 Identities=33% Similarity=0.442 Sum_probs=72.5
Q ss_pred CCCCEEEEcCCCCCCCHHHHHh----hccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeE
Q 021488 61 EGYNRIYIGNLSWDITEEDLKK----LFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVK 134 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~----~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~ 134 (311)
.+..||||.||+..+..++|+. +|++ |.|.+|.... +.+.+|-|||.|.+.+.|..|+ .|+|..+-|+.++
T Consensus 7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mr 83 (221)
T KOG4206|consen 7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMR 83 (221)
T ss_pred CCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhh
Confidence 3455999999999999999987 9999 9999998875 5678999999999999999999 8999999999999
Q ss_pred EEEcCCCCC
Q 021488 135 ISCAVPPKK 143 (311)
Q Consensus 135 v~~a~~~~~ 143 (311)
|.||..+..
T Consensus 84 iqyA~s~sd 92 (221)
T KOG4206|consen 84 IQYAKSDSD 92 (221)
T ss_pred eecccCccc
Confidence 999998765
No 80
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 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 the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. 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: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=98.86 E-value=1e-09 Score=54.17 Aligned_cols=18 Identities=56% Similarity=1.510 Sum_probs=16.6
Q ss_pred ccccccCCccccCCCCCC
Q 021488 278 RTCYECGEKGHLSSACPK 295 (311)
Q Consensus 278 ~~Cy~Cg~~gH~~~~Cp~ 295 (311)
++||+||+.||++++||+
T Consensus 1 ~~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 1 RKCFNCGEPGHIARDCPK 18 (18)
T ss_dssp SBCTTTSCSSSCGCTSSS
T ss_pred CcCcCCCCcCcccccCcc
Confidence 479999999999999996
No 81
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.85 E-value=8.1e-09 Score=89.79 Aligned_cols=78 Identities=28% Similarity=0.457 Sum_probs=69.5
Q ss_pred CCCcCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-h-cCCceeCCeEe
Q 021488 57 PKIVEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-K-LDQEVVRGRPV 133 (311)
Q Consensus 57 ~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~-l~~~~i~g~~i 133 (311)
|+......+|||++|-..+++.+|+++|.+ |+|..|.+... ++.|||+|.+.++|+.|. + ++...|+|.+|
T Consensus 222 pPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl 295 (377)
T KOG0153|consen 222 PPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVINGFRL 295 (377)
T ss_pred CCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc------cccceeeehhhHHHHHHHHhhcceeeecceEE
Confidence 344455679999999999999999999999 99999999865 569999999999999999 4 78888999999
Q ss_pred EEEEcCC
Q 021488 134 KISCAVP 140 (311)
Q Consensus 134 ~v~~a~~ 140 (311)
.|.|..+
T Consensus 296 ~i~Wg~~ 302 (377)
T KOG0153|consen 296 KIKWGRP 302 (377)
T ss_pred EEEeCCC
Confidence 9999888
No 82
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.84 E-value=3.9e-09 Score=93.12 Aligned_cols=86 Identities=27% Similarity=0.482 Sum_probs=79.4
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~ 140 (311)
...+|||++|+++++++.|++.|.+ |+|.++.+++++.++.++||+||+|++++...++|....+.|.++.|.+..+.+
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~ 84 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVS 84 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccC
Confidence 4578999999999999999999999 999999999999999999999999999999999997777899999999999999
Q ss_pred CCCCCCC
Q 021488 141 PKKGINS 147 (311)
Q Consensus 141 ~~~~~~~ 147 (311)
+....+.
T Consensus 85 r~~~~~~ 91 (311)
T KOG4205|consen 85 REDQTKV 91 (311)
T ss_pred ccccccc
Confidence 8876544
No 83
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.84 E-value=8.7e-09 Score=95.55 Aligned_cols=139 Identities=18% Similarity=0.183 Sum_probs=96.8
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCC--------------CCCcCCCCE
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFT--------------PKIVEGYNR 65 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~--------------~~~~~~~~~ 65 (311)
+.|..+|-++||||.+|.+..-...|++ |||..+++++|.|+.+............ .....++..
T Consensus 322 v~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~~~~~~~~~~~~~~~~i~~~~~q~~g~~t~V 401 (500)
T KOG0120|consen 322 VKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGASNANVNFNISQSQVPGIPLLMTQMAGIPTEV 401 (500)
T ss_pred ecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccchhccccCCccccccccchhhhcccCCCcchh
Confidence 3577889999999999999999999997 9999999999999765443322111111 111223334
Q ss_pred EEEcCC------CCCCCHH----HHHhhccC-CceeEEEEeecCCC---CCceeEEEEEecCHHHHHHHH-hcCCceeCC
Q 021488 66 IYIGNL------SWDITEE----DLKKLFSD-CKISSLRFGTNKET---GEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG 130 (311)
Q Consensus 66 l~V~~L------~~~~t~~----~l~~~f~~-g~i~~i~v~~~~~~---~~~~G~afV~f~~~~~a~~al-~l~~~~i~g 130 (311)
|.+.|+ -++..-+ +|+..+++ |.|..|.+++.... ....|-.||+|.+.+++++|+ +|+|.++.+
T Consensus 402 l~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~n 481 (500)
T KOG0120|consen 402 LCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFAN 481 (500)
T ss_pred hhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCC
Confidence 444443 1111112 23344556 68888888877222 234577899999999999999 899999999
Q ss_pred eEeEEEEcC
Q 021488 131 RPVKISCAV 139 (311)
Q Consensus 131 ~~i~v~~a~ 139 (311)
+.|...|-.
T Consensus 482 RtVvtsYyd 490 (500)
T KOG0120|consen 482 RTVVASYYD 490 (500)
T ss_pred cEEEEEecC
Confidence 999998843
No 84
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.83 E-value=2.4e-08 Score=81.87 Aligned_cols=114 Identities=25% Similarity=0.385 Sum_probs=81.3
Q ss_pred ccceEEEEeCCHHHHHHHHH-cCCCCcC---CeeEEEEECcccccccCCCCC----------------------------
Q 021488 9 FRGIAIINFRTEGAVKRALA-LDGSEMD---GLFLKIQPYKATKAKRTSDFT---------------------------- 56 (311)
Q Consensus 9 skG~afV~F~~~~~A~~Al~-l~g~~~~---g~~i~V~~~~~~~~~~~~~~~---------------------------- 56 (311)
.+-+|||.|.+..+|.+|+. |||..|. +..|.|+.+++....+.....
T Consensus 76 ~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElAKSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~ 155 (284)
T KOG1457|consen 76 CKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELAKSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHDE 155 (284)
T ss_pred ccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeehhcCcccccCCCCCCCCCCccccccccChhhcccchhhccc
Confidence 44699999999999999995 9999986 777888766543321110000
Q ss_pred ----C------------CC--------------------------------cCCCCEEEEcCCCCCCCHHHHHhhccC--
Q 021488 57 ----P------------KI--------------------------------VEGYNRIYIGNLSWDITEEDLKKLFSD-- 86 (311)
Q Consensus 57 ----~------------~~--------------------------------~~~~~~l~V~~L~~~~t~~~l~~~f~~-- 86 (311)
+ +. ...-.+|||.||...++|++|+.+|+.
T Consensus 156 ~l~~p~~l~~~~~a~al~~~~~t~~~~l~a~~~~~P~a~a~l~ks~q~~~~~~acstlfianl~~~~~ed~l~~~~~~~~ 235 (284)
T KOG1457|consen 156 GLSDPDELQEPGNADALKENDTTKSEALSAPDSKAPSANAHLEKSSQGGSGARACSTLFIANLGPNCTEDELKQLLSRYP 235 (284)
T ss_pred cccCccccCCccccccCCCccccchhhhhhhhhcCCcccchhhhhhcccccchhhhhHhhhccCCCCCHHHHHHHHHhCC
Confidence 0 00 000127999999999999999999998
Q ss_pred C-ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCcee
Q 021488 87 C-KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVV 128 (311)
Q Consensus 87 g-~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i 128 (311)
| .|..|+-. .| .-.||++|...+.|..|+ .|.|..|
T Consensus 236 gf~~l~~~~~----~g--~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 236 GFHILKIRAR----GG--MPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred CceEEEEecC----CC--cceEeecHHHHHHHHHHHHHhhccee
Confidence 4 44444432 22 447999999999999999 7887765
No 85
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=1e-08 Score=89.70 Aligned_cols=131 Identities=21% Similarity=0.353 Sum_probs=82.9
Q ss_pred CCCCcccCCCCchhhhhhcccCCCcc---cccccc---ccccccCcccCCceeecCCCCcccccccCCccccccccCccc
Q 021488 168 LGTSNDADNSGAVTSNVAANAGSGTS---DVTEHI---DLSAVSGKIRRRTCYECGEKGHLSSACLKKTADQTMVTGKVS 241 (311)
Q Consensus 168 ~~~c~~c~~~gh~~~~c~~~~~~~~~---~~~~~~---~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~~~ 241 (311)
...++.+...+|.+..|+........ +..+.. -............||.|++.||.+++|+... ..
T Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~~~~~~~~---------~~ 94 (261)
T KOG4400|consen 24 SPNELKCLKSGHKAVSCTDGDSRGDSSKSDGPGCVSTSPNGPLKSECPEVSCYICGEKGHLGRRCTRIA---------AA 94 (261)
T ss_pred chhhhhhccccCcceecccCCcccccccCCCCcccccccCcccCCCCCCceeeecCCCCchhhcCcccc---------hh
Confidence 45677777777777777655444321 111100 0111122234568999999999999999721 12
Q ss_pred cCCCCCCCCCCCCCCCCCc-------ccCCCCCCCCc-CCCC-----CCccccccCCccccCCCCCCc---cccccCCcc
Q 021488 242 DNAGSRTGNFADNAGLGTT-------NVSDNAGLSAV-SGKI-----RRRTCYECGEKGHLSSACPKK---TADQTNSTT 305 (311)
Q Consensus 242 ~~~~~~~g~~~~~~~~~~~-------~~~~~~~~~~~-~~~~-----~~~~Cy~Cg~~gH~~~~Cp~~---~~~~~~~~~ 305 (311)
|++|++.||+.++|+.... ++.++..+++. +... ....||+||+.|||+++||+. ..-..+..+
T Consensus 95 c~~C~~~gH~~~~c~~~~~~~~~~~~~~~c~~~gh~~~~~~~~~~~~~~~~Cy~Cg~~GH~s~~C~~~~~~~c~~c~~~~ 174 (261)
T KOG4400|consen 95 CFNCGEGGHIERDCPEAGKEGSSETSCYSCGKTGHRGCPDADPVDGPKPAKCYSCGEQGHISDDCPENKGGTCFRCGKVG 174 (261)
T ss_pred hhhCCCCccchhhCCcccCcccccceeeccCCCccccCcccccccCCCCCccCCCCcCCcchhhCCCCCCCccccCCCcc
Confidence 9999999999999987522 34666666665 2111 114599999999999999953 333334444
Q ss_pred cc
Q 021488 306 IQ 307 (311)
Q Consensus 306 ~~ 307 (311)
+.
T Consensus 175 h~ 176 (261)
T KOG4400|consen 175 HG 176 (261)
T ss_pred ee
Confidence 44
No 86
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=8.5e-09 Score=89.80 Aligned_cols=82 Identities=26% Similarity=0.367 Sum_probs=77.3
Q ss_pred cCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEE
Q 021488 60 VEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISC 137 (311)
Q Consensus 60 ~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~ 137 (311)
.++.+.|||--|.+-++.++|.-+|+. |.|.++.|+++..||.+..||||+|.+.+++.+|. +|++..|..++|+|.+
T Consensus 236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDF 315 (479)
T KOG0415|consen 236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDF 315 (479)
T ss_pred CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeeh
Confidence 456789999999999999999999999 99999999999999999999999999999999999 9999999999999999
Q ss_pred cCCC
Q 021488 138 AVPP 141 (311)
Q Consensus 138 a~~~ 141 (311)
+.+-
T Consensus 316 SQSV 319 (479)
T KOG0415|consen 316 SQSV 319 (479)
T ss_pred hhhh
Confidence 7653
No 87
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.79 E-value=1e-08 Score=90.12 Aligned_cols=141 Identities=26% Similarity=0.399 Sum_probs=107.4
Q ss_pred CCCCCccceEEEEeCCHHHHHHHHHcCCC-CcCCeeEEEEECcccccccCCCCCCCCcCCCCEEE-EcCCCCCCCHHHHH
Q 021488 4 PDTGKFRGIAIINFRTEGAVKRALALDGS-EMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIY-IGNLSWDITEEDLK 81 (311)
Q Consensus 4 ~~tg~skG~afV~F~~~~~A~~Al~l~g~-~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~-V~~L~~~~t~~~l~ 81 (311)
.....++|+++|.|...+++..||++.+. .+.++.+......................+..++| |.+|++.+++++|.
T Consensus 124 ~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~~~~~~~~n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~ 203 (285)
T KOG4210|consen 124 EDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNTRRGLRPKNKLSRLSSGPSDTIFFVGELDFSLTRDDLK 203 (285)
T ss_pred ccccccccceeeccccHHHHHHHHHhhhccccccccccCcccccccccccchhcccccCccccceeecccccccchHHHh
Confidence 45678999999999999999999988775 44444433322111111111111122233445666 99999999999999
Q ss_pred hhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCCCCCC
Q 021488 82 KLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVPPKKG 144 (311)
Q Consensus 82 ~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~~~~~ 144 (311)
..|.. +.|..++++.++.++..+||++|.|.....+..++......+.++.+.+....+++..
T Consensus 204 ~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 267 (285)
T KOG4210|consen 204 EHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALNDQTRSIGGRPLRLEEDEPRPKS 267 (285)
T ss_pred hhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhcccCcccCcccccccCCCCccc
Confidence 99998 9999999999999999999999999999999999843777899999999998887653
No 88
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.77 E-value=2.6e-08 Score=80.88 Aligned_cols=82 Identities=20% Similarity=0.376 Sum_probs=74.0
Q ss_pred cCCCCEEEEcCCCCCCCHHHHHhhccC--CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEE
Q 021488 60 VEGYNRIYIGNLSWDITEEDLKKLFSD--CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKIS 136 (311)
Q Consensus 60 ~~~~~~l~V~~L~~~~t~~~l~~~f~~--g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~ 136 (311)
......+||..+|.-+.+.+|..+|.+ |.+..+++.+++.||.++|||||+|.+++.|..|. .||+..+.++.|.+.
T Consensus 46 ~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~ 125 (214)
T KOG4208|consen 46 QEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECH 125 (214)
T ss_pred cCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeE
Confidence 344567999999999999999999998 68888899899999999999999999999999999 799999999999999
Q ss_pred EcCCC
Q 021488 137 CAVPP 141 (311)
Q Consensus 137 ~a~~~ 141 (311)
+-.+.
T Consensus 126 vmppe 130 (214)
T KOG4208|consen 126 VMPPE 130 (214)
T ss_pred EeCch
Confidence 86655
No 89
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.75 E-value=7.3e-09 Score=86.47 Aligned_cols=135 Identities=19% Similarity=0.295 Sum_probs=102.5
Q ss_pred CCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHh
Q 021488 4 PDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKK 82 (311)
Q Consensus 4 ~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~ 82 (311)
..-+..++++|+.|.....-.++-. -+++++.-..|++. ....-. ......-.+...+||.+.|..+++++-|..
T Consensus 134 ~~p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a--~gtswe--dPsl~ew~~~DfRIfcgdlgNevnd~vl~r 209 (290)
T KOG0226|consen 134 DRPQPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRLA--AGTSWE--DPSLAEWDEDDFRIFCGDLGNEVNDDVLAR 209 (290)
T ss_pred cCCCccCcccccCcchhhhhhhhccccccccccCcceeec--cccccC--CcccccCccccceeecccccccccHHHHHH
Confidence 3456678899999988877777763 56666665554442 111110 001111223456899999999999999999
Q ss_pred hccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCC
Q 021488 83 LFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPK 142 (311)
Q Consensus 83 ~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~ 142 (311)
.|.+ =......+++++.|++++||+||.|.++.++..|+ +|++.-++.+.|++..+..+.
T Consensus 210 af~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~wke 271 (290)
T KOG0226|consen 210 AFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSEWKE 271 (290)
T ss_pred HHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhhHHh
Confidence 9999 56777789999999999999999999999999999 899999999999987766655
No 90
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=98.75 E-value=2.7e-09 Score=93.68 Aligned_cols=136 Identities=18% Similarity=0.241 Sum_probs=99.3
Q ss_pred cCCCCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccc------------ccc--CCCCCC-------CCcC
Q 021488 3 FPDTGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATK------------AKR--TSDFTP-------KIVE 61 (311)
Q Consensus 3 d~~tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~------------~~~--~~~~~~-------~~~~ 61 (311)
.+.+||-.|-|||.|..+++|..||..|...|+-|.|.+..+.+.. -.. .....+ +...
T Consensus 199 ~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFRSTaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p~~~ 278 (508)
T KOG1365|consen 199 TRPDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFRSTAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVPPTR 278 (508)
T ss_pred ECCCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHHHhHHHHHHHHHhhccccccCCCCCCCCCCCccccCCCCC
Confidence 3568999999999999999999999888888888876663221110 000 000000 1112
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-C-ceeE--EEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEE
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-C-KISS--LRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKIS 136 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g-~i~~--i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~ 136 (311)
....|++++||++.+.++|.++|.. - .|.. |.++.+. .|...|-|||.|.+.++|.+|. .-+++....+.|.|-
T Consensus 279 ~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvf 357 (508)
T KOG1365|consen 279 SKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVF 357 (508)
T ss_pred CCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEe
Confidence 3568999999999999999999988 3 5544 6776664 7888999999999999999998 566555668888887
Q ss_pred EcC
Q 021488 137 CAV 139 (311)
Q Consensus 137 ~a~ 139 (311)
.+.
T Consensus 358 p~S 360 (508)
T KOG1365|consen 358 PCS 360 (508)
T ss_pred ecc
Confidence 654
No 91
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=98.73 E-value=2e-08 Score=88.35 Aligned_cols=131 Identities=18% Similarity=0.229 Sum_probs=96.2
Q ss_pred CCCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccccccC------CCCCCCCcCCCCEEEEcCCCCCCCHH
Q 021488 5 DTGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKRT------SDFTPKIVEGYNRIYIGNLSWDITEE 78 (311)
Q Consensus 5 ~tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~~------~~~~~~~~~~~~~l~V~~L~~~~t~~ 78 (311)
..|+..|.|.|.|.++|.-+.|++.+...+.+++|.|-.+....--.. ........+..-.|++++||+++++.
T Consensus 97 ~qgrRnge~lvrf~d~e~RdlalkRhkhh~g~ryievYka~ge~f~~iagg~s~e~~~flsk~~qvivRmRGLPfdat~~ 176 (508)
T KOG1365|consen 97 AQGRRNGEALVRFVDPEGRDLALKRHKHHMGTRYIEVYKATGEEFLKIAGGTSNEAAPFLSKENQVIVRMRGLPFDATAL 176 (508)
T ss_pred hhhccccceEEEecCchhhhhhhHhhhhhccCCceeeeccCchhheEecCCccccCCCCCCcccceEEEecCCCCCcchH
Confidence 357778999999999999999999999999999988854332221000 01111122334578999999999999
Q ss_pred HHHhhccC-C----ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEE
Q 021488 79 DLKKLFSD-C----KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKIS 136 (311)
Q Consensus 79 ~l~~~f~~-g----~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~ 136 (311)
|+.++|.. + ..+.|-++..+ .++..|-|||.|.++++|+.||..+...|+-+.|.+-
T Consensus 177 dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElF 238 (508)
T KOG1365|consen 177 DVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELF 238 (508)
T ss_pred HHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHH
Confidence 99999975 3 44556555543 7888999999999999999999666666666665543
No 92
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.68 E-value=3.3e-07 Score=79.90 Aligned_cols=138 Identities=19% Similarity=0.243 Sum_probs=101.2
Q ss_pred cCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECccccc---------c-cC------------------C
Q 021488 3 FPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKA---------K-RT------------------S 53 (311)
Q Consensus 3 d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~---------~-~~------------------~ 53 (311)
..+.|+.||-|.+.|--.++++.|++ |++..|.|+.|+|+.++-... . +. .
T Consensus 176 rd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd 255 (382)
T KOG1548|consen 176 RDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPD 255 (382)
T ss_pred ecCCCCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCC
Confidence 34669999999999999999999998 899999999999975432110 0 00 0
Q ss_pred CCCCCCcCCCCEEEEcCCC----CCCC-------HHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH
Q 021488 54 DFTPKIVEGYNRIYIGNLS----WDIT-------EEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL 121 (311)
Q Consensus 54 ~~~~~~~~~~~~l~V~~L~----~~~t-------~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al 121 (311)
...+......++|.|.||= ...+ .++|.+-..+ |.|..|.|.- ..+.|.+.|.|.+.++|..+|
T Consensus 256 ~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d----~hPdGvvtV~f~n~eeA~~ci 331 (382)
T KOG1548|consen 256 RDDPSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYD----RHPDGVVTVSFRNNEEADQCI 331 (382)
T ss_pred ccccccccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEec----cCCCceeEEEeCChHHHHHHH
Confidence 0011222345688888872 2233 2344555566 8888887762 345899999999999999999
Q ss_pred -hcCCceeCCeEeEEEEcCCCCCC
Q 021488 122 -KLDQEVVRGRPVKISCAVPPKKG 144 (311)
Q Consensus 122 -~l~~~~i~g~~i~v~~a~~~~~~ 144 (311)
.|+|..|.|+.|..++...+...
T Consensus 332 q~m~GR~fdgRql~A~i~DG~t~~ 355 (382)
T KOG1548|consen 332 QTMDGRWFDGRQLTASIWDGKTKF 355 (382)
T ss_pred HHhcCeeecceEEEEEEeCCccee
Confidence 79999999999999998766553
No 93
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=98.68 E-value=4e-08 Score=77.95 Aligned_cols=48 Identities=31% Similarity=0.672 Sum_probs=43.0
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccc
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATK 48 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~ 48 (311)
++|+.|++++|||||+|++.++|+.||+ ||+..|.|++|+|.......
T Consensus 67 ~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~~~ 115 (144)
T PLN03134 67 IVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPANDRP 115 (144)
T ss_pred EecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCcCC
Confidence 3678899999999999999999999996 99999999999999775543
No 94
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.65 E-value=4.8e-08 Score=93.05 Aligned_cols=76 Identities=28% Similarity=0.414 Sum_probs=70.2
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
-++||||++|+..+++.||..+|.. |+|.+|.++.. +|.|||.+....+|.+|+ +|....+..+.|+|.|+.
T Consensus 420 ~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~ 493 (894)
T KOG0132|consen 420 CSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAV 493 (894)
T ss_pred eeeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhcccccceeeEEeeec
Confidence 3679999999999999999999999 99999998754 899999999999999999 899999999999999998
Q ss_pred CCCC
Q 021488 140 PPKK 143 (311)
Q Consensus 140 ~~~~ 143 (311)
.+-.
T Consensus 494 g~G~ 497 (894)
T KOG0132|consen 494 GKGP 497 (894)
T ss_pred cCCc
Confidence 7654
No 95
>smart00361 RRM_1 RNA recognition motif.
Probab=98.62 E-value=6.2e-08 Score=67.01 Aligned_cols=40 Identities=28% Similarity=0.324 Sum_probs=36.1
Q ss_pred ccCCC--CCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEE
Q 021488 2 TFPDT--GKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKI 41 (311)
Q Consensus 2 ~d~~t--g~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V 41 (311)
+++.+ |+++|||||.|.+.++|.+|+. |||..+.|+.|.+
T Consensus 27 ~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 27 IDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred eCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 45566 9999999999999999999996 9999999999875
No 96
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.62 E-value=4.7e-08 Score=82.18 Aligned_cols=97 Identities=19% Similarity=0.316 Sum_probs=79.5
Q ss_pred CeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCH
Q 021488 36 GLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDS 114 (311)
Q Consensus 36 g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~ 114 (311)
.|+|.|+|...+... ...++|||+-|...-.|+|++.+|.. |.|.++.+.+.+ .+.++|.+||.|.+.
T Consensus 2 nrpiqvkpadsesrg----------~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~ 70 (371)
T KOG0146|consen 2 NRPIQVKPADSESRG----------GDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSH 70 (371)
T ss_pred CCCccccccccccCC----------ccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccc
Confidence 466777766544321 14579999999999999999999999 999999999887 788999999999999
Q ss_pred HHHHHHH-hcCCce-eC--CeEeEEEEcCCCCC
Q 021488 115 LSLSMAL-KLDQEV-VR--GRPVKISCAVPPKK 143 (311)
Q Consensus 115 ~~a~~al-~l~~~~-i~--g~~i~v~~a~~~~~ 143 (311)
.+|..|| .|++.. +- ...|.|+++...++
T Consensus 71 ~eAqaAI~aLHgSqTmpGASSSLVVK~ADTdkE 103 (371)
T KOG0146|consen 71 AEAQAAINALHGSQTMPGASSSLVVKFADTDKE 103 (371)
T ss_pred hHHHHHHHHhcccccCCCCccceEEEeccchHH
Confidence 9999999 788764 33 36789999876544
No 97
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.59 E-value=1.7e-07 Score=85.28 Aligned_cols=80 Identities=26% Similarity=0.421 Sum_probs=70.7
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccCCceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCCC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSDCKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVPP 141 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~~ 141 (311)
....|.+.+|||++|++||.++|+.+.|+.+.+.+. +++..|-|||+|.+.+++.+|++++...++.+.|.|-.+...
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~~I~~~~~~r~--~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~~~ 86 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNCGIENLEIPRR--NGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAGGA 86 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcCceeEEEEecc--CCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccCCc
Confidence 345799999999999999999999988999766654 799999999999999999999999999999999999887655
Q ss_pred CC
Q 021488 142 KK 143 (311)
Q Consensus 142 ~~ 143 (311)
+-
T Consensus 87 e~ 88 (510)
T KOG4211|consen 87 EA 88 (510)
T ss_pred cc
Confidence 43
No 98
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.54 E-value=5.2e-07 Score=78.74 Aligned_cols=107 Identities=26% Similarity=0.431 Sum_probs=78.1
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcc----cccccC----------CCCCCCCcCCCCEE
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKA----TKAKRT----------SDFTPKIVEGYNRI 66 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~----~~~~~~----------~~~~~~~~~~~~~l 66 (311)
+|+.+|+++|||||+|.+.++|..|++ +++..|.|++|.|..... ...... .............+
T Consensus 149 ~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 228 (306)
T COG0724 149 RDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQPASQPRSELSNNLDASFAKKLSRGKALLLEKSDNL 228 (306)
T ss_pred eccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccccccccccccccccchhhhcccccccccccccccee
Confidence 466799999999999999999999996 899999999999998542 111110 01112223455689
Q ss_pred EEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEE
Q 021488 67 YIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAH 108 (311)
Q Consensus 67 ~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~af 108 (311)
++.+++..++..++...|.. +.+..+.+...........+.+
T Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 271 (306)
T COG0724 229 YVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSF 271 (306)
T ss_pred eccccccccchhHHHHhccccccceeeeccCCCCCcccccccc
Confidence 99999999999999999999 8887766665543333333333
No 99
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.48 E-value=1.1e-06 Score=72.18 Aligned_cols=84 Identities=19% Similarity=0.257 Sum_probs=64.9
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC--C-ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeC---CeEeE
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD--C-KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVR---GRPVK 134 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~--g-~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~---g~~i~ 134 (311)
.-+||||.+||.++...||..+|.. | +-.-+++ .++.....+-+|||+|.+...|..|+ .|||..|+ +..|+
T Consensus 33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~-Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLh 111 (284)
T KOG1457|consen 33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKY-TSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLH 111 (284)
T ss_pred ccceeeeccCCcccCHHHHHHHhccCCCccceeeee-ccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeE
Confidence 4689999999999999999999998 4 3333333 22222223468999999999999999 89999885 67899
Q ss_pred EEEcCCCCCCCC
Q 021488 135 ISCAVPPKKGIN 146 (311)
Q Consensus 135 v~~a~~~~~~~~ 146 (311)
|+++++.....+
T Consensus 112 iElAKSNtK~kr 123 (284)
T KOG1457|consen 112 IELAKSNTKRKR 123 (284)
T ss_pred eeehhcCccccc
Confidence 999987665433
No 100
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.47 E-value=5.4e-07 Score=83.24 Aligned_cols=83 Identities=25% Similarity=0.330 Sum_probs=76.5
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
..+.|||.+|+..+...+|+.+|++ |.|+-..|+.+..+.-.+.|+||++.+.++|.++| .|+.+.|.|+.|.|+.++
T Consensus 404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 3568999999999999999999999 99999999998888888999999999999999999 799999999999999988
Q ss_pred CCCCC
Q 021488 140 PPKKG 144 (311)
Q Consensus 140 ~~~~~ 144 (311)
..+..
T Consensus 484 NEp~G 488 (940)
T KOG4661|consen 484 NEPGG 488 (940)
T ss_pred cCccc
Confidence 76643
No 101
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.45 E-value=7.3e-07 Score=75.88 Aligned_cols=82 Identities=24% Similarity=0.466 Sum_probs=73.8
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
.+.+|+|.|||+.++++||+++|.+ +.+..+.|..++ .|.+.|.|-|.|...++|.+|+ .++++.++|+.+++.+..
T Consensus 82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~ 160 (243)
T KOG0533|consen 82 RSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIIS 160 (243)
T ss_pred CcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEec
Confidence 4468999999999999999999999 888888888886 8899999999999999999999 799999999999998877
Q ss_pred CCCCC
Q 021488 140 PPKKG 144 (311)
Q Consensus 140 ~~~~~ 144 (311)
+....
T Consensus 161 ~~~~~ 165 (243)
T KOG0533|consen 161 SPSQS 165 (243)
T ss_pred Ccccc
Confidence 65543
No 102
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=98.43 E-value=1.6e-06 Score=63.32 Aligned_cols=76 Identities=18% Similarity=0.200 Sum_probs=64.7
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC---CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeC----CeEeEE
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD---CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVR----GRPVKI 135 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~---g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~----g~~i~v 135 (311)
+||.|+|||...|.++|.+++.. |...-+-++.|..+..+.|||||.|.+++.|.+-. .++|..+. .+...|
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i 81 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI 81 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence 58999999999999999999987 57777888999889999999999999999999888 78887764 345566
Q ss_pred EEcC
Q 021488 136 SCAV 139 (311)
Q Consensus 136 ~~a~ 139 (311)
.+|.
T Consensus 82 ~yAr 85 (97)
T PF04059_consen 82 SYAR 85 (97)
T ss_pred ehhH
Confidence 6654
No 103
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=98.37 E-value=2.3e-07 Score=89.42 Aligned_cols=114 Identities=25% Similarity=0.340 Sum_probs=98.7
Q ss_pred CCCCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHhh
Q 021488 4 PDTGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKKL 83 (311)
Q Consensus 4 ~~tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~ 83 (311)
.++++.+|+|||.|..++++.+||+++...+.|+ ..|+|.|+|+..|.++++.+
T Consensus 703 ~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~gK--------------------------~~v~i~g~pf~gt~e~~k~l 756 (881)
T KOG0128|consen 703 KNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFGK--------------------------ISVAISGPPFQGTKEELKSL 756 (881)
T ss_pred hhccccccceeeEeecCCchhhhhhhhhhhhhhh--------------------------hhhheeCCCCCCchHHHHhh
Confidence 4678999999999999999999999877777662 36899999999999999999
Q ss_pred ccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCCCCC
Q 021488 84 FSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPPKKG 144 (311)
Q Consensus 84 f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~~ 144 (311)
+.. |.+.+++++..+ .|+++|.+||.|.++.++.+++ ..+...+.-..+.|..+.|.+..
T Consensus 757 ~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp~~~K 818 (881)
T KOG0128|consen 757 ASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNPERDK 818 (881)
T ss_pred ccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCCcccc
Confidence 999 999999877765 7889999999999999999998 78877777778888887774443
No 104
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 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 the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. 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: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=98.35 E-value=1.3e-07 Score=46.61 Aligned_cols=17 Identities=47% Similarity=1.314 Sum_probs=15.9
Q ss_pred ceeecCCCCcccccccC
Q 021488 212 TCYECGEKGHLSSACLK 228 (311)
Q Consensus 212 ~C~~Cg~~GH~~~~Cp~ 228 (311)
.||+|++.||++++||+
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 69999999999999995
No 105
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.34 E-value=1.4e-06 Score=74.27 Aligned_cols=81 Identities=21% Similarity=0.341 Sum_probs=75.5
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~ 140 (311)
....+||+|+++.+|.++|...|.. |.|..+.|+.+..++.++||+||+|.+.+.+..++.|++..|.++.+.|.+...
T Consensus 100 d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~~r~ 179 (231)
T KOG4209|consen 100 DAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTLKRT 179 (231)
T ss_pred CCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeeeeee
Confidence 4568999999999999999999999 899999999999999999999999999999999999999999999999999776
Q ss_pred CC
Q 021488 141 PK 142 (311)
Q Consensus 141 ~~ 142 (311)
+.
T Consensus 180 ~~ 181 (231)
T KOG4209|consen 180 NV 181 (231)
T ss_pred ec
Confidence 53
No 106
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=98.32 E-value=6.5e-06 Score=75.65 Aligned_cols=111 Identities=18% Similarity=0.306 Sum_probs=84.7
Q ss_pred ceEEEEeCCHHHHHHHHH---cCC--C-------CcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHH
Q 021488 11 GIAIINFRTEGAVKRALA---LDG--S-------EMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEE 78 (311)
Q Consensus 11 G~afV~F~~~~~A~~Al~---l~g--~-------~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~ 78 (311)
||+|+.|+++..+..-|. ... . .+..+.|.|.||......-..+ ......+.+||||++||.-++.+
T Consensus 307 ~YvflvFe~E~sV~~Ll~aC~~~~~~~yf~vss~~~k~k~VQIrPW~laDs~fv~d-~sq~lDprrTVFVGgvprpl~A~ 385 (520)
T KOG0129|consen 307 GYVFLVFEDERSVQSLLSACSEGEGNYYFKVSSPTIKDKEVQIRPWVLADSDFVLD-HNQPIDPRRTVFVGGLPRPLTAE 385 (520)
T ss_pred cEEEEEecchHHHHHHHHHHhhcccceEEEEecCcccccceeEEeeEeccchhhhc-cCcccCccceEEecCCCCcchHH
Confidence 499999999999887763 211 1 1234446666665544322211 23344577899999999999999
Q ss_pred HHHhhccC--CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHh
Q 021488 79 DLKKLFSD--CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALK 122 (311)
Q Consensus 79 ~l~~~f~~--g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~ 122 (311)
||..+|.. |.|..+-|-.|++-.-++|-|=|+|.+..+-.+||.
T Consensus 386 eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs 431 (520)
T KOG0129|consen 386 ELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS 431 (520)
T ss_pred HHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence 99999997 899999999998888899999999999999888884
No 107
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.32 E-value=1.4e-06 Score=79.98 Aligned_cols=81 Identities=19% Similarity=0.287 Sum_probs=68.7
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCCC
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVPP 141 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~~ 141 (311)
..+|||.|||.++++.+|+++|.. |.|....|......++...||||+|.+.+++..||+.+...|++++|.|+...+.
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~~ 367 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRPG 367 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEecccc
Confidence 346999999999999999999999 9999888776543445458999999999999999977788999999999986554
Q ss_pred CC
Q 021488 142 KK 143 (311)
Q Consensus 142 ~~ 143 (311)
..
T Consensus 368 ~~ 369 (419)
T KOG0116|consen 368 FR 369 (419)
T ss_pred cc
Confidence 43
No 108
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.26 E-value=9.4e-07 Score=73.61 Aligned_cols=70 Identities=27% Similarity=0.499 Sum_probs=64.7
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCCC
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVPP 141 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~~ 141 (311)
..|||++||+.+.+.+|..+|.. |.+.++.+. .||+||+|.+..+|..|+ .+++..|.+..+.|+++...
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~ 73 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 36999999999999999999999 999999886 678999999999999999 89999999999999998854
No 109
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.26 E-value=2.6e-05 Score=68.89 Aligned_cols=118 Identities=22% Similarity=0.243 Sum_probs=90.2
Q ss_pred ceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccC--------------------CCC-------CCCCcCC
Q 021488 11 GIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRT--------------------SDF-------TPKIVEG 62 (311)
Q Consensus 11 G~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~--------------------~~~-------~~~~~~~ 62 (311)
|-|.|++.+..++++||. ||+..+.|.+|.|.+++..--... ..+ ......+
T Consensus 326 gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~~v~~~~pflLpDgSpSfKdys~SkNnRFssp~qAsKNrIq~P 405 (494)
T KOG1456|consen 326 GTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQNFVSPVQPFLLPDGSPSFKDYSGSKNNRFSSPEQASKNRIQPP 405 (494)
T ss_pred ceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccccccccCCceecCCCCcchhhcccccccccCChhHhhcccccCC
Confidence 679999999999999996 999999999999976543211100 011 1123457
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC-C-ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCC
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD-C-KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG 130 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~-g-~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g 130 (311)
+.+|..-|.|..+||+.|.++|.. . ...+++|...+ +-+ ..-+.++|++.++|..|| .+|-..|.+
T Consensus 406 s~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvFp~k-ser-SssGllEfe~~s~Aveal~~~NH~pi~~ 474 (494)
T KOG1456|consen 406 SNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVFPLK-SER-SSSGLLEFENKSDAVEALMKLNHYPIEG 474 (494)
T ss_pred cceeEEecCCCccCHHHHHHHhhhcCCCcceEEeeccc-ccc-cccceeeeehHHHHHHHHHHhccccccC
Confidence 889999999999999999999998 4 56677776654 222 335899999999999999 788777755
No 110
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=98.24 E-value=7.5e-07 Score=72.42 Aligned_cols=47 Identities=28% Similarity=0.404 Sum_probs=42.8
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccc
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATK 48 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~ 48 (311)
+|+-|+.++|||||.|.+..+|+.||+ |+|..|.|+.|.|+.++...
T Consensus 47 rdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~arygr 94 (256)
T KOG4207|consen 47 RDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARYGR 94 (256)
T ss_pred cccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhcCC
Confidence 688899999999999999999999996 99999999999998766543
No 111
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.23 E-value=2.8e-07 Score=73.40 Aligned_cols=47 Identities=19% Similarity=0.334 Sum_probs=42.6
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECccc
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKAT 47 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~ 47 (311)
|+|+.||+|+||||+.|++..+...|+. |||..|.||.|+|......
T Consensus 68 iRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~~Y 115 (219)
T KOG0126|consen 68 IRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVSNY 115 (219)
T ss_pred EecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecccc
Confidence 6899999999999999999999999995 9999999999999865443
No 112
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.22 E-value=1.4e-06 Score=71.02 Aligned_cols=46 Identities=20% Similarity=0.259 Sum_probs=40.7
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECccc
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKAT 47 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~ 47 (311)
+.+.||.|||||||+|++++.|+.|-+ ||++.|.++-|.+..-.+.
T Consensus 84 RnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe 130 (214)
T KOG4208|consen 84 RNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE 130 (214)
T ss_pred cccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence 567899999999999999999999986 9999999999888765444
No 113
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.22 E-value=6.1e-06 Score=72.18 Aligned_cols=80 Identities=23% Similarity=0.417 Sum_probs=69.7
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC-Ccee--------EEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeE
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD-CKIS--------SLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRP 132 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~-g~i~--------~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~ 132 (311)
...|||.|||.++|.+++.++|++ |.|. .|.|.++. .|..+|=|.+.|-..+++..|+ -|++..|.|..
T Consensus 134 Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~ 212 (382)
T KOG1548|consen 134 NTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDELRGKK 212 (382)
T ss_pred CceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcccccCcE
Confidence 456999999999999999999999 6553 46777776 5889999999999999999999 69999999999
Q ss_pred eEEEEcCCCCC
Q 021488 133 VKISCAVPPKK 143 (311)
Q Consensus 133 i~v~~a~~~~~ 143 (311)
|+|+.|.-...
T Consensus 213 ~rVerAkfq~K 223 (382)
T KOG1548|consen 213 LRVERAKFQMK 223 (382)
T ss_pred EEEehhhhhhc
Confidence 99999875443
No 114
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=98.18 E-value=2e-06 Score=74.62 Aligned_cols=46 Identities=15% Similarity=0.308 Sum_probs=39.4
Q ss_pred CCccceEEEEeCCHHHHHHHH-HcCCCCcCCeeEEEEECcccccccC
Q 021488 7 GKFRGIAIINFRTEGAVKRAL-ALDGSEMDGLFLKIQPYKATKAKRT 52 (311)
Q Consensus 7 g~skG~afV~F~~~~~A~~Al-~l~g~~~~g~~i~V~~~~~~~~~~~ 52 (311)
--||||+||.|++.+||++|- +|||..+.||+|.|+.+...-..++
T Consensus 133 RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATarV~n~K 179 (376)
T KOG0125|consen 133 RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATARVHNKK 179 (376)
T ss_pred CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchhhccCC
Confidence 349999999999999999998 5999999999999997766544433
No 115
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=1.9e-06 Score=70.72 Aligned_cols=48 Identities=21% Similarity=0.324 Sum_probs=43.5
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECccccc
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKA 49 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~ 49 (311)
.|-+++|+||||||+|.-.|+|.+||. ||+.+|.||.|+|..+++.+.
T Consensus 44 lDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~ki 92 (298)
T KOG0111|consen 44 LDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPEKI 92 (298)
T ss_pred cchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCccc
Confidence 466899999999999999999999995 999999999999998877654
No 116
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.14 E-value=4.4e-06 Score=79.04 Aligned_cols=129 Identities=12% Similarity=0.055 Sum_probs=97.7
Q ss_pred cceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccccccCC-----------------C------------CCCCCc
Q 021488 10 RGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKRTS-----------------D------------FTPKIV 60 (311)
Q Consensus 10 kG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~~~-----------------~------------~~~~~~ 60 (311)
.|-++|.|....++.+|+..|...+-.|.|.|.+.-...-.... . ..+...
T Consensus 352 tG~~~v~f~~~~~~q~A~~rn~~~~~~R~~q~~P~g~~~~~~a~~~~~~~~~~~~~~~hg~p~~~pr~~~~~gq~vp~P~ 431 (944)
T KOG4307|consen 352 TGRKTVMFTPQAPFQNAFTRNPSDDVNRPFQTGPPGNLGRNGAPPFQAGVPPPVIQNNHGRPIAPPRAMVRPGQNVPFPG 431 (944)
T ss_pred CCceEEEecCcchHHHHHhcCchhhhhcceeecCCCccccccCccccccCCCCcccccCCCCCCCcccccCCCCCCCCCC
Confidence 68899999999999999999999888999888543221100000 0 000111
Q ss_pred CCCCEEEEcCCCCCCCHHHHHhhccC-CceeE-EEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEE
Q 021488 61 EGYNRIYIGNLSWDITEEDLKKLFSD-CKISS-LRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISC 137 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~-i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~ 137 (311)
.....|||..||..+++.++.++|.. ..|++ |.|...+ +++.++.|||.|..++++..|+ ....+-++.+.|+|.-
T Consensus 432 ~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~s 510 (944)
T KOG4307|consen 432 GAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDS 510 (944)
T ss_pred CccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCceEEEeec
Confidence 23458999999999999999999999 77777 7776665 7778999999999999888888 5666778888888875
Q ss_pred cC
Q 021488 138 AV 139 (311)
Q Consensus 138 a~ 139 (311)
..
T Consensus 511 i~ 512 (944)
T KOG4307|consen 511 IA 512 (944)
T ss_pred hh
Confidence 43
No 117
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=98.10 E-value=6.1e-06 Score=54.20 Aligned_cols=35 Identities=29% Similarity=0.553 Sum_probs=32.4
Q ss_pred cceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEEC
Q 021488 10 RGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPY 44 (311)
Q Consensus 10 kG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~ 44 (311)
+++|||+|.+.++|..|++ ||+..+.|++|+|..+
T Consensus 21 ~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 21 RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 5899999999999999996 9999999999999753
No 118
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.09 E-value=1.4e-06 Score=71.51 Aligned_cols=77 Identities=17% Similarity=0.181 Sum_probs=67.9
Q ss_pred CCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEc
Q 021488 61 EGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCA 138 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a 138 (311)
+..+||||.||...++|+-|.++|-+ |.|..|.|..++ .++.+ ||||.|+++.+..-|+ -+||..+.+..+.|.+-
T Consensus 7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r 84 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLR 84 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhhcccc
Confidence 34579999999999999999999999 999999998876 55556 9999999999999999 58999999998888774
Q ss_pred C
Q 021488 139 V 139 (311)
Q Consensus 139 ~ 139 (311)
.
T Consensus 85 ~ 85 (267)
T KOG4454|consen 85 C 85 (267)
T ss_pred c
Confidence 3
No 119
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.04 E-value=6.1e-06 Score=70.79 Aligned_cols=44 Identities=30% Similarity=0.392 Sum_probs=40.3
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEEC
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPY 44 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~ 44 (311)
|+|..||+|+|||||+|+++.+...|.+ .+|.+|.|+.|.|..-
T Consensus 134 V~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE 178 (335)
T KOG0113|consen 134 VRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE 178 (335)
T ss_pred eeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence 5688999999999999999999999996 8999999999999754
No 120
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.03 E-value=3.2e-06 Score=78.26 Aligned_cols=70 Identities=23% Similarity=0.361 Sum_probs=62.9
Q ss_pred cCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeE
Q 021488 60 VEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVK 134 (311)
Q Consensus 60 ~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~ 134 (311)
..+.++|+|.|||.++++++|..+|+. |+|..|+.. ...+|..||+|.+..+|+.|+ +|++..|.++.|+
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t-----~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRET-----PNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcc-----cccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 456789999999999999999999999 999997654 345899999999999999999 8999999998887
No 121
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=98.02 E-value=3.8e-06 Score=69.82 Aligned_cols=46 Identities=24% Similarity=0.283 Sum_probs=40.7
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcc
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKA 46 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~ 46 (311)
|.|+.|||||||+||.|.+.++|.+|++-..-.|.||+..++.+..
T Consensus 45 itd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~l 90 (247)
T KOG0149|consen 45 ITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLASL 90 (247)
T ss_pred EeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhhh
Confidence 5799999999999999999999999998777788899888876554
No 122
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.00 E-value=8e-06 Score=75.55 Aligned_cols=47 Identities=28% Similarity=0.463 Sum_probs=42.6
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECccc
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKAT 47 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~ 47 (311)
+.|+.||+++||||++|.+.++|..|++ ||+..+.|++|+|......
T Consensus 51 v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 51 VYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred cccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 4689999999999999999999999997 9999999999999765443
No 123
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=97.99 E-value=8.5e-06 Score=55.75 Aligned_cols=36 Identities=31% Similarity=0.669 Sum_probs=33.6
Q ss_pred CCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEE
Q 021488 5 DTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLK 40 (311)
Q Consensus 5 ~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~ 40 (311)
.+++++|||||+|.+.++|++|++ +++..+.|++|+
T Consensus 34 ~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 34 SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 678999999999999999999997 999999999875
No 124
>smart00360 RRM RNA recognition motif.
Probab=97.97 E-value=1.4e-05 Score=54.03 Aligned_cols=39 Identities=44% Similarity=0.714 Sum_probs=34.7
Q ss_pred cCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEE
Q 021488 3 FPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKI 41 (311)
Q Consensus 3 d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V 41 (311)
++.+++++|||||+|.+.++|..|++ +++..+.|++|.|
T Consensus 31 ~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v 70 (71)
T smart00360 31 DKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV 70 (71)
T ss_pred CCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence 34478999999999999999999996 8999999998876
No 125
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.91 E-value=0.00014 Score=65.15 Aligned_cols=75 Identities=19% Similarity=0.302 Sum_probs=65.3
Q ss_pred CCEEEEcCCC-CCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 63 YNRIYIGNLS-WDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 63 ~~~l~V~~L~-~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
...|.|.||. ..+|.+.|-.+|.- |.|..|.|+..+ +--|.|.+.+...|..|+ .|+|..+.|++|+|.+++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC-----CcceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 3568888885 45899999999999 999999999876 346999999999999999 799999999999999987
Q ss_pred CCC
Q 021488 140 PPK 142 (311)
Q Consensus 140 ~~~ 142 (311)
-..
T Consensus 372 H~~ 374 (492)
T KOG1190|consen 372 HTN 374 (492)
T ss_pred Ccc
Confidence 543
No 126
>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=97.82 E-value=2.1e-05 Score=54.05 Aligned_cols=34 Identities=47% Similarity=0.801 Sum_probs=31.1
Q ss_pred CCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEE
Q 021488 7 GKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLK 40 (311)
Q Consensus 7 g~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~ 40 (311)
|+++|+|||+|.+.++|..|++ +++..|.|++|+
T Consensus 36 ~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 36 GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 8899999999999999999997 677999999874
No 127
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=97.81 E-value=1.8e-05 Score=62.97 Aligned_cols=39 Identities=21% Similarity=0.392 Sum_probs=34.8
Q ss_pred ccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECccc
Q 021488 9 FRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKAT 47 (311)
Q Consensus 9 skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~ 47 (311)
.-|||||+|++..+|+.|+. |+|..|.|..|.|+.+...
T Consensus 46 PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~ 85 (195)
T KOG0107|consen 46 PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGR 85 (195)
T ss_pred CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCC
Confidence 46899999999999999995 9999999999999976544
No 128
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=97.80 E-value=1.5e-05 Score=70.30 Aligned_cols=82 Identities=23% Similarity=0.295 Sum_probs=73.3
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-Ccee--------EEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCe
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKIS--------SLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGR 131 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~--------~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~ 131 (311)
...+|||.+||..+++.+|.++|.+ +.|. .|.|.++++|+..+|-|.|+|.++..|+.|+ -+++..+.+.
T Consensus 65 ~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn 144 (351)
T KOG1995|consen 65 DNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGN 144 (351)
T ss_pred ccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCC
Confidence 4468999999999999999999999 6553 5788889999999999999999999999999 6999999999
Q ss_pred EeEEEEcCCCCC
Q 021488 132 PVKISCAVPPKK 143 (311)
Q Consensus 132 ~i~v~~a~~~~~ 143 (311)
.|+|.+|..+..
T Consensus 145 ~ikvs~a~~r~~ 156 (351)
T KOG1995|consen 145 TIKVSLAERRTG 156 (351)
T ss_pred CchhhhhhhccC
Confidence 999999887763
No 129
>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=97.80 E-value=6.7e-05 Score=52.42 Aligned_cols=67 Identities=21% Similarity=0.305 Sum_probs=44.9
Q ss_pred CEEEEcCCCCCCCHHHHHhhcc----C--CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEE
Q 021488 64 NRIYIGNLSWDITEEDLKKLFS----D--CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKIS 136 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~----~--g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~ 136 (311)
..|+|.|||.+.+...|+.-+. . |.|..|. .+.|+|.|.+.+.|.+|. .|++..+-|.+|.|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~----------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~ 72 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS----------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe----------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEE
Confidence 3699999999999888765554 4 3666652 457999999999999999 799999999999999
Q ss_pred EcCC
Q 021488 137 CAVP 140 (311)
Q Consensus 137 ~a~~ 140 (311)
+...
T Consensus 73 ~~~~ 76 (90)
T PF11608_consen 73 FSPK 76 (90)
T ss_dssp SS--
T ss_pred EcCC
Confidence 9643
No 130
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=97.79 E-value=2.6e-05 Score=59.28 Aligned_cols=46 Identities=22% Similarity=0.316 Sum_probs=41.4
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECccc
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKAT 47 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~ 47 (311)
.|+.||-.||||.|+|++.++|++||. +|+..|.|.+|.|..+...
T Consensus 106 LDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~ 152 (170)
T KOG0130|consen 106 LDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVK 152 (170)
T ss_pred cccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEec
Confidence 478899999999999999999999995 9999999999999865444
No 131
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.77 E-value=9.4e-06 Score=66.71 Aligned_cols=100 Identities=21% Similarity=0.266 Sum_probs=78.6
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHH
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEED 79 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~ 79 (311)
|.+..+++-| ||||.|.++..+..|++ +||..+.+..|.|.+....... -|+..++++.
T Consensus 41 ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~sha-------------------pld~r~~~ei 100 (267)
T KOG4454|consen 41 IPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGNSHA-------------------PLDERVTEEI 100 (267)
T ss_pred CCCCccCCCc-eeeeecccccchhhhhhhcccchhccchhhcccccCCCcc-------------------hhhhhcchhh
Confidence 4466778888 99999999999999997 7999999998877643322111 1566788999
Q ss_pred HHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH
Q 021488 80 LKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL 121 (311)
Q Consensus 80 l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al 121 (311)
+...|+. +.+..+++..+.. +..+.++|+.+...-+.-.++
T Consensus 101 ~~~v~s~a~p~~~~R~~~~~d-~rnrn~~~~~~qr~~~~P~~~ 142 (267)
T KOG4454|consen 101 LYEVFSQAGPIEGVRIPTDND-GRNRNFGFVTYQRLCAVPFAL 142 (267)
T ss_pred heeeecccCCCCCcccccccc-CCccCccchhhhhhhcCcHHh
Confidence 9999999 9999999988864 777888999887666655555
No 132
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=97.76 E-value=1.5e-05 Score=66.90 Aligned_cols=44 Identities=23% Similarity=0.394 Sum_probs=40.4
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHH-HcCCCCcCCeeEEEEEC
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRAL-ALDGSEMDGLFLKIQPY 44 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al-~l~g~~~~g~~i~V~~~ 44 (311)
|+|+.||+|+||+||.|.+..++..|| +|+|..++.++|+...+
T Consensus 223 iRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS 267 (290)
T KOG0226|consen 223 IRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKS 267 (290)
T ss_pred cccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhh
Confidence 689999999999999999999999999 59999999999887644
No 133
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.73 E-value=0.00022 Score=63.19 Aligned_cols=126 Identities=16% Similarity=0.139 Sum_probs=89.8
Q ss_pred cceEEEEeCCHHHHHHHHH---cCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEc--CCCCCCCHHHHHhhc
Q 021488 10 RGIAIINFRTEGAVKRALA---LDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIG--NLSWDITEEDLKKLF 84 (311)
Q Consensus 10 kG~afV~F~~~~~A~~Al~---l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~--~L~~~~t~~~l~~~f 84 (311)
+..|.|+|++.+.|+.++. -+...+.|..-.+..+.+..-.+. .+....+...|.++ |--+.+|.+-|..+.
T Consensus 67 ~r~alvefedi~~akn~Vnfaa~n~i~i~gq~Al~NyStsq~i~R~---g~es~~pN~VLl~TIlNp~YpItvDVly~Ic 143 (494)
T KOG1456|consen 67 KRQALVEFEDIEGAKNCVNFAADNQIYIAGQQALFNYSTSQCIERP---GDESATPNKVLLFTILNPQYPITVDVLYTIC 143 (494)
T ss_pred cceeeeeeccccchhhheehhccCcccccCchhhcccchhhhhccC---CCCCCCCCeEEEEEeecCccccchhhhhhhc
Confidence 4479999999999999985 456667777666665533322211 12222333444444 334568888888888
Q ss_pred cC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCC--eEeEEEEcCCCCC
Q 021488 85 SD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG--RPVKISCAVPPKK 143 (311)
Q Consensus 85 ~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g--~~i~v~~a~~~~~ 143 (311)
-. |.|..|.|.+. ++ --|.|+|++.+.|++|. .|||..|.. -.|+|++|+|...
T Consensus 144 np~GkVlRIvIfkk--ng---VQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~rl 201 (494)
T KOG1456|consen 144 NPQGKVLRIVIFKK--NG---VQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTRL 201 (494)
T ss_pred CCCCceEEEEEEec--cc---eeeEEeechhHHHHHHHhhcccccccccceeEEEEecCccee
Confidence 88 99999988865 22 25999999999999999 799998743 5899999988653
No 134
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=97.71 E-value=1.7e-05 Score=44.74 Aligned_cols=21 Identities=38% Similarity=0.936 Sum_probs=18.6
Q ss_pred CCccccccCCccccCCCCCCc
Q 021488 276 RRRTCYECGEKGHLSSACPKK 296 (311)
Q Consensus 276 ~~~~Cy~Cg~~gH~~~~Cp~~ 296 (311)
.+-.|+.|+++|||.+|||..
T Consensus 7 ~~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 7 PGYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCCEeecCCCCCccHhHCCCC
Confidence 346899999999999999984
No 135
>PLN03120 nucleic acid binding protein; Provisional
Probab=97.64 E-value=8.2e-05 Score=63.83 Aligned_cols=40 Identities=23% Similarity=0.325 Sum_probs=36.6
Q ss_pred CccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECccc
Q 021488 8 KFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKAT 47 (311)
Q Consensus 8 ~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~ 47 (311)
.++|||||+|.++++|+.||.|+|..|.|++|.|.+....
T Consensus 41 ~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~~~ 80 (260)
T PLN03120 41 ERSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAEDY 80 (260)
T ss_pred CCCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEeccCC
Confidence 4679999999999999999999999999999999987644
No 136
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=97.56 E-value=0.00015 Score=69.08 Aligned_cols=81 Identities=21% Similarity=0.271 Sum_probs=69.4
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecC---CCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEE
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNK---ETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKIS 136 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~---~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~ 136 (311)
..+.|||+||++.++++.|...|.. |+|..++|+.-+ .....+-.+||.|-+..+|.+|+ .|++..+....+++-
T Consensus 173 ~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~g 252 (877)
T KOG0151|consen 173 QTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLG 252 (877)
T ss_pred cccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeec
Confidence 3567999999999999999999999 999999887543 22334678999999999999999 899999999999999
Q ss_pred EcCCCC
Q 021488 137 CAVPPK 142 (311)
Q Consensus 137 ~a~~~~ 142 (311)
|+++-+
T Consensus 253 Wgk~V~ 258 (877)
T KOG0151|consen 253 WGKAVP 258 (877)
T ss_pred cccccc
Confidence 985443
No 137
>smart00362 RRM_2 RNA recognition motif.
Probab=97.49 E-value=0.0002 Score=48.43 Aligned_cols=35 Identities=31% Similarity=0.706 Sum_probs=32.1
Q ss_pred CCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEE
Q 021488 7 GKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKI 41 (311)
Q Consensus 7 g~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V 41 (311)
+.++|+|||+|.+.++|+.|++ +++..+.|++|.|
T Consensus 36 ~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v 71 (72)
T smart00362 36 GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV 71 (72)
T ss_pred CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence 6788999999999999999996 8999999998876
No 138
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=97.43 E-value=0.00042 Score=51.72 Aligned_cols=67 Identities=22% Similarity=0.339 Sum_probs=41.9
Q ss_pred EEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hc--C---CceeCCeEeEEEE
Q 021488 65 RIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KL--D---QEVVRGRPVKISC 137 (311)
Q Consensus 65 ~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l--~---~~~i~g~~i~v~~ 137 (311)
.|+|.+++..++.++|+++|++ +.|..|.+... .-.|||.|.++++|..|+ .+ . +..|.+..+.++.
T Consensus 3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G------~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~v 76 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG------DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEV 76 (105)
T ss_dssp EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE-
T ss_pred EEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC------CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEE
Confidence 5889999999999999999999 99999998754 336999999999999988 43 3 4456777766665
No 139
>PLN03213 repressor of silencing 3; Provisional
Probab=97.42 E-value=0.00015 Score=66.54 Aligned_cols=41 Identities=22% Similarity=0.424 Sum_probs=36.3
Q ss_pred CCCCCccceEEEEeCCH--HHHHHHHH-cCCCCcCCeeEEEEECcc
Q 021488 4 PDTGKFRGIAIINFRTE--GAVKRALA-LDGSEMDGLFLKIQPYKA 46 (311)
Q Consensus 4 ~~tg~skG~afV~F~~~--~~A~~Al~-l~g~~~~g~~i~V~~~~~ 46 (311)
+.|| ||||||+|.+. .++.+||. |||..+.|+.|+|+.+++
T Consensus 44 RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP 87 (759)
T PLN03213 44 RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE 87 (759)
T ss_pred cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence 6788 89999999987 67999995 999999999999987654
No 140
>PLN03121 nucleic acid binding protein; Provisional
Probab=97.42 E-value=0.00021 Score=60.49 Aligned_cols=42 Identities=19% Similarity=0.322 Sum_probs=37.9
Q ss_pred CCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECccc
Q 021488 6 TGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKAT 47 (311)
Q Consensus 6 tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~ 47 (311)
++++++||||+|.++++|+.||.|+|..|.+++|.|.++...
T Consensus 40 D~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~~y 81 (243)
T PLN03121 40 SGEYACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWGQY 81 (243)
T ss_pred CCCcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCccc
Confidence 367778999999999999999999999999999999987643
No 141
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=97.36 E-value=0.00025 Score=53.61 Aligned_cols=42 Identities=14% Similarity=0.193 Sum_probs=38.3
Q ss_pred cCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEEC
Q 021488 3 FPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPY 44 (311)
Q Consensus 3 d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~ 44 (311)
|+.+-...||+||+|.+.++|+.||. +++..|..++|.|...
T Consensus 71 dr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 71 DRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred ccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence 67788889999999999999999997 9999999999999743
No 142
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=97.30 E-value=0.00017 Score=63.35 Aligned_cols=72 Identities=24% Similarity=0.517 Sum_probs=62.9
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC-C--ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHh-cCCceeCCeEeEE
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD-C--KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALK-LDQEVVRGRPVKI 135 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~-g--~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~-l~~~~i~g~~i~v 135 (311)
..+||+||-|.+|++||.+++.. | .+.++++..++.+|.++|||+|..-+..+..+.++ |-...|.|..-.|
T Consensus 81 ~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V 156 (498)
T KOG4849|consen 81 YCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTV 156 (498)
T ss_pred EEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCee
Confidence 36999999999999999999988 6 88999999999999999999999988888888884 7777888865444
No 143
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=97.24 E-value=0.00015 Score=40.91 Aligned_cols=21 Identities=33% Similarity=0.795 Sum_probs=18.4
Q ss_pred CCceeecCCCCcccccccCCc
Q 021488 210 RRTCYECGEKGHLSSACLKKT 230 (311)
Q Consensus 210 ~~~C~~Cg~~GH~~~~Cp~~~ 230 (311)
.-.|+.|++.|||..|||...
T Consensus 8 ~Y~C~~C~~~GH~i~dCP~~~ 28 (32)
T PF13696_consen 8 GYVCHRCGQKGHWIQDCPTNK 28 (32)
T ss_pred CCEeecCCCCCccHhHCCCCC
Confidence 347999999999999999854
No 144
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.17 E-value=1.1e-05 Score=78.29 Aligned_cols=119 Identities=21% Similarity=0.275 Sum_probs=93.5
Q ss_pred eEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHhhccC-Ccee
Q 021488 12 IAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKKLFSD-CKIS 90 (311)
Q Consensus 12 ~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~ 90 (311)
++++.++...+++.|....+..+.++.+.|.++.+..........+.......++||+||+..+.+++|...|.. +.+.
T Consensus 616 ~~~~~~s~~~~~esat~pa~~~~a~~~~av~~ad~~~~~~~~kvs~n~~R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e 695 (881)
T KOG0128|consen 616 QQQKVQSKHGSAESATVPAGGALANRSAAVGLADAEEKEENFKVSPNEIRDLIKIFVSNLSPKMSEEDLSERFSPSGTIE 695 (881)
T ss_pred hhhhhhccccchhhcccccccccCCccccCCCCCchhhhhccCcCchHHHHHHHHHHhhcchhhcCchhhhhcCccchhh
Confidence 678999999999999988888898888888776665543333334444445568999999999999999999999 7777
Q ss_pred EEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCC
Q 021488 91 SLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRG 130 (311)
Q Consensus 91 ~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g 130 (311)
.+++......+..+|++|+.|..++.+.+||.++...+-|
T Consensus 696 ~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 696 VVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred hHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 7666655567888999999999999999999655444444
No 145
>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=97.17 E-value=0.00086 Score=45.49 Aligned_cols=35 Identities=34% Similarity=0.666 Sum_probs=31.9
Q ss_pred CccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEE
Q 021488 8 KFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQ 42 (311)
Q Consensus 8 ~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~ 42 (311)
+.+|+|||+|.+.++|..|++ +++..+.|++|.|.
T Consensus 38 ~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~ 73 (74)
T cd00590 38 KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE 73 (74)
T ss_pred CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence 678999999999999999996 89998999998875
No 146
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.05 E-value=0.002 Score=61.60 Aligned_cols=74 Identities=27% Similarity=0.388 Sum_probs=63.3
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccCC--ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEE
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSDC--KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISC 137 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~g--~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~ 137 (311)
.+.|-+.|+|++++-+||.++|... ..-+|.+... +.|+..|-+.|.|++.++|.+|. .+++..|..+.|.+.+
T Consensus 867 p~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~n-d~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 867 PRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRN-DDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred CeEEEecCCCccccHHHHHHHhcccccCCCceeEeec-CCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 3578999999999999999999984 3345555444 57899999999999999999999 8999999999998865
No 147
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.89 E-value=0.0015 Score=47.54 Aligned_cols=46 Identities=26% Similarity=0.383 Sum_probs=40.3
Q ss_pred CCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECccccc
Q 021488 4 PDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKATKA 49 (311)
Q Consensus 4 ~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~~~ 49 (311)
-.+-..+|-|||.|++..+|.+|+. |+|..+.++.+.|-.+.+...
T Consensus 51 G~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~~~ 97 (124)
T KOG0114|consen 51 GNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPEDA 97 (124)
T ss_pred cCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHHHH
Confidence 3566789999999999999999996 999999999999988776543
No 148
>smart00343 ZnF_C2HC zinc finger.
Probab=96.86 E-value=0.00043 Score=37.61 Aligned_cols=18 Identities=50% Similarity=1.449 Sum_probs=16.2
Q ss_pred cccccCCccccCCCCCCc
Q 021488 279 TCYECGEKGHLSSACPKK 296 (311)
Q Consensus 279 ~Cy~Cg~~gH~~~~Cp~~ 296 (311)
.||+||+.||++++||..
T Consensus 1 ~C~~CG~~GH~~~~C~~~ 18 (26)
T smart00343 1 KCYNCGKEGHIARDCPKX 18 (26)
T ss_pred CCccCCCCCcchhhCCcc
Confidence 499999999999999954
No 149
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=96.85 E-value=0.00053 Score=41.62 Aligned_cols=19 Identities=47% Similarity=1.190 Sum_probs=17.2
Q ss_pred CccccccCCccccCCCCCC
Q 021488 277 RRTCYECGEKGHLSSACPK 295 (311)
Q Consensus 277 ~~~Cy~Cg~~gH~~~~Cp~ 295 (311)
...|.+|++.|||+-+||+
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 3679999999999999994
No 150
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.80 E-value=0.00093 Score=65.60 Aligned_cols=118 Identities=15% Similarity=0.177 Sum_probs=91.4
Q ss_pred CCccceEEEEeCCHHHHHHHH-HcCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHhhcc
Q 021488 7 GKFRGIAIINFRTEGAVKRAL-ALDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKKLFS 85 (311)
Q Consensus 7 g~skG~afV~F~~~~~A~~Al-~l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~ 85 (311)
+.-.-||||.|.+.+.+-.|. ++.+..|..-.+++..-.. .....+.+++++|..++....|..+|.
T Consensus 410 ~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~~------------kst~ttr~~sgglg~w~p~~~l~r~fd 477 (975)
T KOG0112|consen 410 KTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQP------------KSTPTTRLQSGGLGPWSPVSRLNREFD 477 (975)
T ss_pred CcccchhhhhhhccccCcccchhhcCCccccCccccccccc------------ccccceeeccCCCCCCChHHHHHHHhh
Confidence 334458999999999988887 5777776543333332211 223557899999999999999999999
Q ss_pred C-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCC--eEeEEEEcCCCC
Q 021488 86 D-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG--RPVKISCAVPPK 142 (311)
Q Consensus 86 ~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g--~~i~v~~a~~~~ 142 (311)
. |.|..|.+-.. .-|++|.|.++..++.|+ .|.+..|++ +.++|.++.+.-
T Consensus 478 ~fGpir~Idy~hg------q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~~ 532 (975)
T KOG0112|consen 478 RFGPIRIIDYRHG------QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPPG 532 (975)
T ss_pred ccCcceeeecccC------CcceeeecccCccchhhHHHHhcCcCCCCCcccccccccCCC
Confidence 9 89988887533 459999999999999999 799999876 678888887543
No 151
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.76 E-value=0.003 Score=55.49 Aligned_cols=79 Identities=14% Similarity=0.280 Sum_probs=61.4
Q ss_pred CCEEEEcCCCCCCCHHHH------HhhccC-CceeEEEEeecCCCCCc-eeE--EEEEecCHHHHHHHH-hcCCceeCCe
Q 021488 63 YNRIYIGNLSWDITEEDL------KKLFSD-CKISSLRFGTNKETGEF-RGY--AHVDFSDSLSLSMAL-KLDQEVVRGR 131 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l------~~~f~~-g~i~~i~v~~~~~~~~~-~G~--afV~f~~~~~a~~al-~l~~~~i~g~ 131 (311)
..-+||.+||+.+..|++ .++|.+ |.|..|.|-+...+..+ .+. .||+|.+.++|.++| +.+|..++|+
T Consensus 114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr 193 (480)
T COG5175 114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGR 193 (480)
T ss_pred cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCc
Confidence 346999999999888873 378889 99999877654311111 122 499999999999999 8999999999
Q ss_pred EeEEEEcCCC
Q 021488 132 PVKISCAVPP 141 (311)
Q Consensus 132 ~i~v~~a~~~ 141 (311)
.|+..+...+
T Consensus 194 ~lkatYGTTK 203 (480)
T COG5175 194 VLKATYGTTK 203 (480)
T ss_pred eEeeecCchH
Confidence 9999986543
No 152
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=96.75 E-value=0.0014 Score=57.91 Aligned_cols=47 Identities=17% Similarity=0.236 Sum_probs=43.1
Q ss_pred CccCCCCCccceEEEEeCCHHHHHHHH-HcCCCCcCCeeEEEEECccc
Q 021488 1 MTFPDTGKFRGIAIINFRTEGAVKRAL-ALDGSEMDGLFLKIQPYKAT 47 (311)
Q Consensus 1 i~d~~tg~skG~afV~F~~~~~A~~Al-~l~g~~~~g~~i~V~~~~~~ 47 (311)
|+|..||-|.-||||+|++.++.++|. +|++..|..+.|-|..+.+.
T Consensus 272 IRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQSV 319 (479)
T KOG0415|consen 272 IRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQSV 319 (479)
T ss_pred EecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhhh
Confidence 689999999999999999999999998 79999999999999876544
No 153
>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=96.69 E-value=0.01 Score=43.73 Aligned_cols=75 Identities=13% Similarity=0.137 Sum_probs=50.5
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC-CceeEEE-EeecC------CCCCceeEEEEEecCHHHHHHHHhcCCceeCCe-EeE
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD-CKISSLR-FGTNK------ETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGR-PVK 134 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~-v~~~~------~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~-~i~ 134 (311)
.-|.|-|.|+. ....|.+.|++ |.|.+.. +..+. .......+..|+|.++.+|.+||..||..|.|. .+-
T Consensus 7 ~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mvG 85 (100)
T PF05172_consen 7 TWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSLMVG 85 (100)
T ss_dssp CEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCEEEE
T ss_pred eEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcEEEE
Confidence 46889999997 55778889999 9887764 11100 011225688999999999999999999999885 556
Q ss_pred EEEcC
Q 021488 135 ISCAV 139 (311)
Q Consensus 135 v~~a~ 139 (311)
|.+..
T Consensus 86 V~~~~ 90 (100)
T PF05172_consen 86 VKPCD 90 (100)
T ss_dssp EEE-H
T ss_pred EEEcH
Confidence 77753
No 154
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=96.62 E-value=0.013 Score=45.87 Aligned_cols=71 Identities=27% Similarity=0.306 Sum_probs=50.5
Q ss_pred CCCEEEEcCCC-----CCCCHH----HHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCe
Q 021488 62 GYNRIYIGNLS-----WDITEE----DLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGR 131 (311)
Q Consensus 62 ~~~~l~V~~L~-----~~~t~~----~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~ 131 (311)
+..||.|.=+. ...-.+ +|.+.|+. |.+.=+++..+ --+|+|.+-..|.+|+.+++..|+|+
T Consensus 26 pDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals~dg~~v~g~ 97 (146)
T PF08952_consen 26 PDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALSLDGIQVNGR 97 (146)
T ss_dssp TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHHGCCSEETTE
T ss_pred CCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHccCCcEECCE
Confidence 34566666554 112222 56677888 98888887743 47999999999999999999999999
Q ss_pred EeEEEEcCC
Q 021488 132 PVKISCAVP 140 (311)
Q Consensus 132 ~i~v~~a~~ 140 (311)
.|+|.+..+
T Consensus 98 ~l~i~LKtp 106 (146)
T PF08952_consen 98 TLKIRLKTP 106 (146)
T ss_dssp EEEEEE---
T ss_pred EEEEEeCCc
Confidence 999998554
No 155
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=96.60 E-value=0.0047 Score=39.87 Aligned_cols=51 Identities=14% Similarity=0.256 Sum_probs=41.2
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL 121 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al 121 (311)
+.|-|.|.+.+.. ++|..+|.. |+|.++.+... .-+.+|.|.+..+|.+||
T Consensus 2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 5688999998665 456668889 99999988622 458999999999999985
No 156
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=96.56 E-value=0.0028 Score=54.17 Aligned_cols=46 Identities=26% Similarity=0.376 Sum_probs=41.7
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECccc
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKAT 47 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~ 47 (311)
.|+.+|.+||||||+|.+.+.+..|+.|++..|.++.|.|.+.+..
T Consensus 135 ~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~~r~~ 180 (231)
T KOG4209|consen 135 KDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTLKRTN 180 (231)
T ss_pred ccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeeeeeee
Confidence 5778889999999999999999999999999999999999876554
No 157
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.49 E-value=0.0071 Score=51.32 Aligned_cols=81 Identities=20% Similarity=0.197 Sum_probs=67.9
Q ss_pred HHHHH-HcCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCC
Q 021488 23 VKRAL-ALDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKET 100 (311)
Q Consensus 23 A~~Al-~l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~ 100 (311)
|+.|- +|++....++.++|.++.. ..|||.||+..++.+.+...|+. |.|....+..|. .
T Consensus 7 ae~ak~eLd~~~~~~~~lr~rfa~~-----------------a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r 68 (275)
T KOG0115|consen 7 AEIAKRELDGRFPKGRSLRVRFAMH-----------------AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-R 68 (275)
T ss_pred HHHHHHhcCCCCCCCCceEEEeecc-----------------ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-c
Confidence 44554 4999999999999986533 26999999999999999999999 988877776664 6
Q ss_pred CCceeEEEEEecCHHHHHHHH
Q 021488 101 GEFRGYAHVDFSDSLSLSMAL 121 (311)
Q Consensus 101 ~~~~G~afV~f~~~~~a~~al 121 (311)
++..+-++|.|.....|.+|+
T Consensus 69 ~k~t~eg~v~~~~k~~a~~a~ 89 (275)
T KOG0115|consen 69 GKPTREGIVEFAKKPNARKAA 89 (275)
T ss_pred ccccccchhhhhcchhHHHHH
Confidence 777888999999998888888
No 158
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.31 E-value=0.0002 Score=64.43 Aligned_cols=114 Identities=19% Similarity=0.262 Sum_probs=90.5
Q ss_pred cceEEEEeCCHHHHHHHHH-cCCCC-cCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHhhccC-
Q 021488 10 RGIAIINFRTEGAVKRALA-LDGSE-MDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKKLFSD- 86 (311)
Q Consensus 10 kG~afV~F~~~~~A~~Al~-l~g~~-~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~~- 86 (311)
.|||||.+.+...|.+|++ ++++. +.|+.+.|..+.+... .++++-|.|+|+....+-|..++..
T Consensus 37 ~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkq------------rsrk~Qirnippql~wevld~Ll~qy 104 (584)
T KOG2193|consen 37 SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQ------------RSRKIQIRNIPPQLQWEVLDSLLAQY 104 (584)
T ss_pred cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHHH------------HhhhhhHhcCCHHHHHHHHHHHHhcc
Confidence 4899999999999999997 77755 6699988886655543 2357899999999999999999999
Q ss_pred CceeEEEEe-ecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 87 CKISSLRFG-TNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 87 g~i~~i~v~-~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
|.+..+..+ .+..+ -..-|+|...+.+..|| .+++..+....++|.|-.
T Consensus 105 g~ve~~eqvnt~~et----avvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiP 155 (584)
T KOG2193|consen 105 GTVENCEQVNTDSET----AVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIP 155 (584)
T ss_pred CCHhHhhhhccchHH----HHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCc
Confidence 888877653 23222 22347788889999999 899999999999998843
No 159
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=96.23 E-value=0.01 Score=53.87 Aligned_cols=77 Identities=23% Similarity=0.193 Sum_probs=58.1
Q ss_pred CCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeec---CCCC--Cc--------eeEEEEEecCHHHHHHHHhcCCc
Q 021488 61 EGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTN---KETG--EF--------RGYAHVDFSDSLSLSMALKLDQE 126 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~---~~~~--~~--------~G~afV~f~~~~~a~~al~l~~~ 126 (311)
.++++|.+.|||.+-.-+.|.++|.. |.|..|+|..- +.+. .. +-.|+|+|...+.|.+|.++.+.
T Consensus 229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~ 308 (484)
T KOG1855|consen 229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP 308 (484)
T ss_pred cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence 47899999999999999999999999 99999999765 2222 11 34589999999999999965444
Q ss_pred eeCCe-EeEEEE
Q 021488 127 VVRGR-PVKISC 137 (311)
Q Consensus 127 ~i~g~-~i~v~~ 137 (311)
.-.|+ -++|.+
T Consensus 309 e~~wr~glkvkL 320 (484)
T KOG1855|consen 309 EQNWRMGLKVKL 320 (484)
T ss_pred hhhhhhcchhhh
Confidence 33443 234443
No 160
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=96.21 E-value=0.0026 Score=53.82 Aligned_cols=71 Identities=13% Similarity=0.234 Sum_probs=58.4
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCC--------CCc----eeEEEEEecCHHHHHHHH-hcCCce
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKET--------GEF----RGYAHVDFSDSLSLSMAL-KLDQEV 127 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~--------~~~----~G~afV~f~~~~~a~~al-~l~~~~ 127 (311)
....||+++||+.+...-|+++|+. |.|-.|.|-....+ +.. .--|||+|.+...|.... .||+..
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~ 152 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP 152 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence 4468999999999999999999999 99999988766544 222 224799999999998887 799999
Q ss_pred eCCeE
Q 021488 128 VRGRP 132 (311)
Q Consensus 128 i~g~~ 132 (311)
|+|+.
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 99864
No 161
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.03 E-value=0.0027 Score=57.38 Aligned_cols=107 Identities=28% Similarity=0.394 Sum_probs=77.6
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC-C-ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCc-eeCCeEeEEEEcC
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD-C-KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQE-VVRGRPVKISCAV 139 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~-g-~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~-~i~g~~i~v~~a~ 139 (311)
.+|||+||.+.++..||..+|.. - ....-.++. .||+||.+.+...|.+|+ .+++. .+.|.++.|..+.
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k-------~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv 74 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK-------SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSV 74 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeee-------cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchh
Confidence 46999999999999999999987 2 222222221 689999999999999999 67765 6899999999998
Q ss_pred CCCC-CCCCCCCCCCchhhcccccccccCCCCCcccCCC
Q 021488 140 PPKK-GINSKSRSLPSNKRATSKVTDSAGLGTSNDADNS 177 (311)
Q Consensus 140 ~~~~-~~~~~~~~~~~~~~~~~k~~~~~~~~~c~~c~~~ 177 (311)
++.. +.+...+++|....++-....-+.+.+.-+|...
T Consensus 75 ~kkqrsrk~Qirnippql~wevld~Ll~qyg~ve~~eqv 113 (584)
T KOG2193|consen 75 PKKQRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQV 113 (584)
T ss_pred hHHHHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhh
Confidence 8764 4455566677555554444445555555566553
No 162
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=95.83 E-value=0.01 Score=42.39 Aligned_cols=72 Identities=17% Similarity=0.257 Sum_probs=46.4
Q ss_pred EEEEeCCHHHHHHHHHc--CCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHhhcc
Q 021488 13 AIINFRTEGAVKRALAL--DGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKKLFS 85 (311)
Q Consensus 13 afV~F~~~~~A~~Al~l--~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~ 85 (311)
|.|.|.++.-|+..+++ +...+.+..+.|.......... ..+.-......++|.|+|||..+++++|++.+.
T Consensus 1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~P~~~~~~-~k~qv~~~vs~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVSPVTLGHL-QKFQVFSGVSKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEEeEecCCc-eEEEEEEcccCCEEEEeCCCCCCChhhheeeEE
Confidence 68999999999999874 4444566665554332221110 111111223457999999999999999987753
No 163
>smart00343 ZnF_C2HC zinc finger.
Probab=95.74 E-value=0.004 Score=33.73 Aligned_cols=18 Identities=44% Similarity=1.267 Sum_probs=16.0
Q ss_pred ceeecCCCCcccccccCC
Q 021488 212 TCYECGEKGHLSSACLKK 229 (311)
Q Consensus 212 ~C~~Cg~~GH~~~~Cp~~ 229 (311)
.||+|++.||++++||+.
T Consensus 1 ~C~~CG~~GH~~~~C~~~ 18 (26)
T smart00343 1 KCYNCGKEGHIARDCPKX 18 (26)
T ss_pred CCccCCCCCcchhhCCcc
Confidence 499999999999999954
No 164
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=95.60 E-value=0.052 Score=36.06 Aligned_cols=50 Identities=20% Similarity=0.300 Sum_probs=42.3
Q ss_pred CEEEEcCCCCCCCHHHHHhhccCC----ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSDC----KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL 121 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~g----~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al 121 (311)
..|+|.|++. ++.++|+.+|... ....|+.+-|. -+-|.|.+.+.|.+||
T Consensus 6 eavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL 59 (62)
T PF10309_consen 6 EAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARAL 59 (62)
T ss_pred ceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHH
Confidence 5799999975 8889999999872 77788888764 3789999999999998
No 165
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=95.53 E-value=0.023 Score=39.93 Aligned_cols=37 Identities=22% Similarity=0.322 Sum_probs=27.6
Q ss_pred ccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECc
Q 021488 9 FRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYK 45 (311)
Q Consensus 9 skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~ 45 (311)
+.+-|+|.|.+.+.|.+|.+ |+|..+.|++|.|....
T Consensus 38 ~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~ 75 (90)
T PF11608_consen 38 SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSP 75 (90)
T ss_dssp -TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS-
T ss_pred eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcC
Confidence 45789999999999999997 99999999999998654
No 166
>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=95.28 E-value=0.026 Score=41.29 Aligned_cols=34 Identities=21% Similarity=0.185 Sum_probs=29.9
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcC
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMD 35 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~ 35 (311)
+|..++.+.|||||.|.+++.|....+ ++|..+.
T Consensus 37 iDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~ 71 (97)
T PF04059_consen 37 IDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWP 71 (97)
T ss_pred eeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccc
Confidence 477889999999999999999999885 8888775
No 167
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=95.25 E-value=0.0087 Score=34.54 Aligned_cols=19 Identities=37% Similarity=0.737 Sum_probs=12.0
Q ss_pred ccccccCCccccCCCCCCc
Q 021488 278 RTCYECGEKGHLSSACPKK 296 (311)
Q Consensus 278 ~~Cy~Cg~~gH~~~~Cp~~ 296 (311)
..|.+|++..||+++|-.+
T Consensus 3 ~~CprC~kg~Hwa~~C~sk 21 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSK 21 (36)
T ss_dssp -C-TTTSSSCS-TTT---T
T ss_pred ccCcccCCCcchhhhhhhh
Confidence 3699999999999999654
No 168
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=95.22 E-value=0.01 Score=36.00 Aligned_cols=19 Identities=42% Similarity=1.017 Sum_probs=17.2
Q ss_pred CCceeecCCCCcccccccC
Q 021488 210 RRTCYECGEKGHLSSACLK 228 (311)
Q Consensus 210 ~~~C~~Cg~~GH~~~~Cp~ 228 (311)
...|.+|++.|||.-.||+
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4579999999999999994
No 169
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=95.16 E-value=0.048 Score=50.82 Aligned_cols=58 Identities=24% Similarity=0.527 Sum_probs=42.9
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCC---CCCcee---EEEEEecCHHHHHHHH
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKE---TGEFRG---YAHVDFSDSLSLSMAL 121 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~---~~~~~G---~afV~f~~~~~a~~al 121 (311)
+++|||++||++++|++|...|.. |. ..|+.+.... .-..+| |+|+.|+++.++..-|
T Consensus 259 S~KVFvGGlp~dise~~i~~~F~~FGs-~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll 323 (520)
T KOG0129|consen 259 SRKVFVGGLPWDITEAQINASFGQFGS-VKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLL 323 (520)
T ss_pred ccceeecCCCccccHHHHHhhcccccc-eEeecCCCccccccCCCCCcccEEEEEecchHHHHHHH
Confidence 568999999999999999999999 64 3444442111 112456 9999999988877655
No 170
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=95.15 E-value=0.03 Score=52.68 Aligned_cols=76 Identities=17% Similarity=0.246 Sum_probs=59.3
Q ss_pred CCEEEEcCCCCCCC------HHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCC-eEe
Q 021488 63 YNRIYIGNLSWDIT------EEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG-RPV 133 (311)
Q Consensus 63 ~~~l~V~~L~~~~t------~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g-~~i 133 (311)
...|.|-|+|.--. ..-|..+|++ |.+..+.++.+..+| .+||.|++|.+..+|..|+ .+||..|.- ...
T Consensus 58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf 136 (698)
T KOG2314|consen 58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTF 136 (698)
T ss_pred ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccceE
Confidence 35788999985322 1235578899 999999999887666 8999999999999999999 899998764 556
Q ss_pred EEEEcC
Q 021488 134 KISCAV 139 (311)
Q Consensus 134 ~v~~a~ 139 (311)
.|...+
T Consensus 137 ~v~~f~ 142 (698)
T KOG2314|consen 137 FVRLFK 142 (698)
T ss_pred Eeehhh
Confidence 665543
No 171
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=94.85 E-value=0.051 Score=48.95 Aligned_cols=76 Identities=26% Similarity=0.313 Sum_probs=61.5
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCC---CCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcC
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKET---GEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~---~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~ 139 (311)
..|.|.||.++++.++++.+|.. |.|.++.|+..... ....-.+||.|.+...+..|-.|..+.|-++.|.|-...
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~~ 87 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPYG 87 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEecC
Confidence 47999999999999999999999 99999998763221 234568999999999998888888787777777665544
No 172
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=94.82 E-value=0.024 Score=53.64 Aligned_cols=78 Identities=17% Similarity=0.125 Sum_probs=61.4
Q ss_pred CCcCCCCEEEEcCCCCCCCHHHHHhhccC-C-ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCcee---CCe
Q 021488 58 KIVEGYNRIYIGNLSWDITEEDLKKLFSD-C-KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVV---RGR 131 (311)
Q Consensus 58 ~~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g-~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i---~g~ 131 (311)
.....++.|||.||-.-+|.-+|+.+|.. | .|++. +.|+ -+..+||.|.+.++|.... .|++..+ +.+
T Consensus 439 sR~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~--WmDk----IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK 512 (718)
T KOG2416|consen 439 SRKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF--WMDK----IKSHCYVSYSSVEEAAATREALHNVQWPPSNPK 512 (718)
T ss_pred CCCCccceEeeecccccchHHHHHHHHhhccCchHHH--HHHH----hhcceeEecccHHHHHHHHHHHhccccCCCCCc
Confidence 34456789999999999999999999997 4 66666 2232 2567999999999999988 7998864 668
Q ss_pred EeEEEEcCCC
Q 021488 132 PVKISCAVPP 141 (311)
Q Consensus 132 ~i~v~~a~~~ 141 (311)
.|.+.|....
T Consensus 513 ~L~adf~~~d 522 (718)
T KOG2416|consen 513 HLIADFVRAD 522 (718)
T ss_pred eeEeeecchh
Confidence 8888886543
No 173
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=94.71 E-value=0.4 Score=35.96 Aligned_cols=64 Identities=11% Similarity=0.028 Sum_probs=47.0
Q ss_pred EEEEcCCCCCCCHHHHHhhccC--CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCC
Q 021488 65 RIYIGNLSWDITEEDLKKLFSD--CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG 130 (311)
Q Consensus 65 ~l~V~~L~~~~t~~~l~~~f~~--g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g 130 (311)
.+-+...|..++.++|..+.+. ..|..++|+++. ...+-.+.+.|.+.++|.... ..||..++.
T Consensus 15 ~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 15 LCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred EEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 3444444555555667666665 488899999875 335668999999999999999 799987754
No 174
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=94.55 E-value=0.012 Score=37.29 Aligned_cols=18 Identities=50% Similarity=1.281 Sum_probs=16.4
Q ss_pred ccccccCCccccCCCCCC
Q 021488 278 RTCYECGEKGHLSSACPK 295 (311)
Q Consensus 278 ~~Cy~Cg~~gH~~~~Cp~ 295 (311)
.-|+.||..||..++||+
T Consensus 32 ~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 32 RFCFHCGRIGHSDKECPK 49 (49)
T ss_pred hhhcCCCCcCcCHhHcCC
Confidence 459999999999999985
No 175
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=94.54 E-value=0.023 Score=52.57 Aligned_cols=43 Identities=33% Similarity=0.784 Sum_probs=35.4
Q ss_pred CceeecCCCCcccccccCCccccccccCccccCCCCCCCCCCCCCCCCCcccCCCCCCCCcCCCCCCccccccCCccccC
Q 021488 211 RTCYECGEKGHLSSACLKKTADQTMVTGKVSDNAGSRTGNFADNAGLGTTNVSDNAGLSAVSGKIRRRTCYECGEKGHLS 290 (311)
Q Consensus 211 ~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cy~Cg~~gH~~ 290 (311)
..|-.||..||..-+||..-. . . ...|..||..||++
T Consensus 262 ~~c~~cg~~~H~q~~cp~r~~-~-----------------------------------------~-~n~c~~cg~~gH~~ 298 (554)
T KOG0119|consen 262 RACRNCGSTGHKQYDCPGRIP-N-----------------------------------------T-TNVCKICGPLGHIS 298 (554)
T ss_pred ccccccCCCccccccCCcccc-c-----------------------------------------c-cccccccCCccccc
Confidence 479999999999999998621 1 0 12699999999999
Q ss_pred CCCCCc
Q 021488 291 SACPKK 296 (311)
Q Consensus 291 ~~Cp~~ 296 (311)
+||+..
T Consensus 299 ~dc~~~ 304 (554)
T KOG0119|consen 299 IDCKVN 304 (554)
T ss_pred ccCCCc
Confidence 999876
No 176
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=94.44 E-value=0.011 Score=54.55 Aligned_cols=45 Identities=18% Similarity=0.383 Sum_probs=37.1
Q ss_pred CCCCCcccCCCCchhhhhhcccCCCccccccccccccccCcccCCceeecCCCCcccccccCC
Q 021488 167 GLGTSNDADNSGAVTSNVAANAGSGTSDVTEHIDLSAVSGKIRRRTCYECGEKGHLSSACLKK 229 (311)
Q Consensus 167 ~~~~c~~c~~~gh~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~ 229 (311)
+...|.+|+..+|-..+||.+..-. ...|+.||..||+++||+..
T Consensus 260 d~~~c~~cg~~~H~q~~cp~r~~~~------------------~n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 260 DNRACRNCGSTGHKQYDCPGRIPNT------------------TNVCKICGPLGHISIDCKVN 304 (554)
T ss_pred ccccccccCCCccccccCCcccccc------------------cccccccCCcccccccCCCc
Confidence 4578999999999999998762111 12799999999999999987
No 177
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=94.43 E-value=0.11 Score=45.00 Aligned_cols=63 Identities=19% Similarity=0.113 Sum_probs=48.8
Q ss_pred HHHHHhhccC-CceeEEEEeecCCCCCce-eEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 77 EEDLKKLFSD-CKISSLRFGTNKETGEFR-GYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 77 ~~~l~~~f~~-g~i~~i~v~~~~~~~~~~-G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
++++.+...+ |.|..+.|..++...... --.||+|...++|.+|+ .|||..|+|+.++..+-.
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 3456666777 888888887775443322 23799999999999999 899999999999887743
No 178
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=93.83 E-value=0.033 Score=33.24 Aligned_cols=20 Identities=35% Similarity=0.883 Sum_probs=17.2
Q ss_pred ccccccCCccccC--CCCCCcc
Q 021488 278 RTCYECGEKGHLS--SACPKKT 297 (311)
Q Consensus 278 ~~Cy~Cg~~gH~~--~~Cp~~~ 297 (311)
+.|.+||.-||.+ +.||-..
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~~ 23 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMYC 23 (40)
T ss_pred ccccccccccccccCccCCCCC
Confidence 5799999999996 8899763
No 179
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.64 E-value=0.027 Score=48.75 Aligned_cols=19 Identities=47% Similarity=1.242 Sum_probs=17.5
Q ss_pred ccccccCCccccCCCCCCc
Q 021488 278 RTCYECGEKGHLSSACPKK 296 (311)
Q Consensus 278 ~~Cy~Cg~~gH~~~~Cp~~ 296 (311)
--||+||+.|||-.+||.+
T Consensus 177 Y~CyRCGqkgHwIqnCpTN 195 (427)
T COG5222 177 YVCYRCGQKGHWIQNCPTN 195 (427)
T ss_pred eeEEecCCCCchhhcCCCC
Confidence 5699999999999999976
No 180
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=93.44 E-value=0.017 Score=57.05 Aligned_cols=77 Identities=17% Similarity=0.273 Sum_probs=62.9
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAV 139 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~ 139 (311)
.+++||++||+..+++.+|+.+|.. |.|.+|.|-.-... ...-|+||.|.+...+..|. ++.+..|....+++.+..
T Consensus 371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~-~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~ 449 (975)
T KOG0112|consen 371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIK-TESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQ 449 (975)
T ss_pred hhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCC-cccchhhhhhhccccCcccchhhcCCccccCcccccccc
Confidence 4679999999999999999999999 99999888655422 23458999999999999998 888887776666666664
No 181
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=93.37 E-value=1 Score=41.63 Aligned_cols=66 Identities=15% Similarity=0.166 Sum_probs=57.0
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC--CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCC
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD--CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG 130 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~--g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g 130 (311)
.+.|.|-.+|..++-.||..|... -.|.+|+|+++.. ..+-.++|.|.+.++|.... ++||..|+.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~--pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGM--PNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCC--CceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 678999999999999999999998 4999999999642 23556899999999999999 899997754
No 182
>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=93.26 E-value=0.3 Score=33.80 Aligned_cols=65 Identities=17% Similarity=0.364 Sum_probs=37.1
Q ss_pred EEEEc-CCCCCCCHHHHHhhccC-C-----ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEE
Q 021488 65 RIYIG-NLSWDITEEDLKKLFSD-C-----KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKIS 136 (311)
Q Consensus 65 ~l~V~-~L~~~~t~~~l~~~f~~-g-----~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~ 136 (311)
+|||. |--..++..+|..+|.. + .|-.|+|.. .|+||+.+.. .|..++ .|++..+.|++|+|+
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~--------~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve 72 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------NFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------S-EEEEE-TT--HHHHHHHHTT--SSS----EE
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEee--------eEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEE
Confidence 34442 33345888999999887 4 556777763 3899998544 666777 799999999999998
Q ss_pred Ec
Q 021488 137 CA 138 (311)
Q Consensus 137 ~a 138 (311)
.|
T Consensus 73 ~A 74 (74)
T PF03880_consen 73 RA 74 (74)
T ss_dssp E-
T ss_pred EC
Confidence 75
No 183
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=93.00 E-value=0.06 Score=50.73 Aligned_cols=40 Identities=18% Similarity=0.451 Sum_probs=33.3
Q ss_pred CCCCccceEEEEeCCHHHHHHHHH-cCCCCcC-CeeEEEEEC
Q 021488 5 DTGKFRGIAIINFRTEGAVKRALA-LDGSEMD-GLFLKIQPY 44 (311)
Q Consensus 5 ~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~-g~~i~V~~~ 44 (311)
+.|.++||.|++|.+..+|+.|++ |||+.|. ...+.|...
T Consensus 100 e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~~f 141 (698)
T KOG2314|consen 100 EEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVRLF 141 (698)
T ss_pred ccCCeeeEEEEEecChhhHHHHHHhcccceecccceEEeehh
Confidence 456699999999999999999996 9999987 556666543
No 184
>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=92.83 E-value=0.35 Score=39.61 Aligned_cols=78 Identities=18% Similarity=0.175 Sum_probs=48.8
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC--Cce---eEEE--EeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCC----
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD--CKI---SSLR--FGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRG---- 130 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~--g~i---~~i~--v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g---- 130 (311)
..+|.|+.||+.+|++++.+.++. +.- ..+. +...........-|||.|.+.+++.... .++|+.+-+
T Consensus 7 ~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg~ 86 (176)
T PF03467_consen 7 GTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSKGN 86 (176)
T ss_dssp --EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TTS-
T ss_pred CceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCCCC
Confidence 358999999999999999997776 322 2333 2211111223456999999999988888 789877632
Q ss_pred -eEeEEEEcCC
Q 021488 131 -RPVKISCAVP 140 (311)
Q Consensus 131 -~~i~v~~a~~ 140 (311)
....|++|.-
T Consensus 87 ~~~~~VE~Apy 97 (176)
T PF03467_consen 87 EYPAVVEFAPY 97 (176)
T ss_dssp EEEEEEEE-SS
T ss_pred CcceeEEEcch
Confidence 4567777654
No 185
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=92.41 E-value=0.014 Score=52.39 Aligned_cols=121 Identities=12% Similarity=0.076 Sum_probs=84.5
Q ss_pred cceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccccccC------------------CCCC---------------
Q 021488 10 RGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKRT------------------SDFT--------------- 56 (311)
Q Consensus 10 kG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~~------------------~~~~--------------- 56 (311)
.-.|||.|.+...+..|..|.++.|-++.|.|.|+........ ....
T Consensus 52 sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~~~~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~nh~p~a 131 (479)
T KOG4676|consen 52 SRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPYGDEVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKINHSPNA 131 (479)
T ss_pred eeeEEEeccCCcceeHHhhhccceeeeeeEEEEecCCCCCccHHHHHhcCcccccccccCCCCccCCCCccccccCCccc
Confidence 3489999999999999999999999999998876543211000 0000
Q ss_pred ---CC----------CcCCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHh
Q 021488 57 ---PK----------IVEGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALK 122 (311)
Q Consensus 57 ---~~----------~~~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~ 122 (311)
++ ..+-.++|+|.+|+..+...++.+.|.. |++....+... ...-+..|.|........|+.
T Consensus 132 ilktP~Lp~~~~A~kleeirRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask----~~s~~c~~sf~~qts~~halr 207 (479)
T KOG4676|consen 132 ILKTPELPPQAAAKKLEEIRRTREVQSLISAAILPESGESFERKGEVSYAHTASK----SRSSSCSHSFRKQTSSKHALR 207 (479)
T ss_pred eecCCCCChHhhhhhhHHHHhhhhhhcchhhhcchhhhhhhhhcchhhhhhhhcc----CCCcchhhhHhhhhhHHHHHH
Confidence 00 0111357899999999999999999998 88887766533 224466789988888888887
Q ss_pred cCCceeCCeEeE
Q 021488 123 LDQEVVRGRPVK 134 (311)
Q Consensus 123 l~~~~i~g~~i~ 134 (311)
+++..+.-...+
T Consensus 208 ~~gre~k~qhsr 219 (479)
T KOG4676|consen 208 SHGRERKRQHSR 219 (479)
T ss_pred hcchhhhhhhhh
Confidence 777766533333
No 186
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=92.35 E-value=0.15 Score=45.37 Aligned_cols=38 Identities=26% Similarity=0.391 Sum_probs=32.4
Q ss_pred ccceEEEEeCCHHHHHHHHH--cCCCCcCCeeEEEEECcc
Q 021488 9 FRGIAIINFRTEGAVKRALA--LDGSEMDGLFLKIQPYKA 46 (311)
Q Consensus 9 skG~afV~F~~~~~A~~Al~--l~g~~~~g~~i~V~~~~~ 46 (311)
.+++|||+|.+.++|++|.+ ++...|.|++|.|....+
T Consensus 263 ~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 263 RKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred ccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 35799999999999999995 787788999999995544
No 187
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=92.30 E-value=0.18 Score=47.62 Aligned_cols=42 Identities=14% Similarity=0.317 Sum_probs=36.2
Q ss_pred CCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECccc
Q 021488 6 TGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKAT 47 (311)
Q Consensus 6 tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~ 47 (311)
+.-.+.|+||.+++.++|.++|+ |+.+.|.|+-|.|+..+..
T Consensus 443 sPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKNE 485 (940)
T KOG4661|consen 443 SPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKNE 485 (940)
T ss_pred CCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecccC
Confidence 44467799999999999999997 9999999999999766543
No 188
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=92.25 E-value=0.054 Score=46.12 Aligned_cols=62 Identities=23% Similarity=0.288 Sum_probs=48.4
Q ss_pred HHHHhhcc-C-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCC
Q 021488 78 EDLKKLFS-D-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 78 ~~l~~~f~-~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~ 140 (311)
++|...|+ + |+|+.+.|..+. ...-.|-++|.|...++|.+|+ .||+..+.|++|..++...
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pv 147 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPV 147 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCc
Confidence 34445555 4 888888665432 3445788999999999999999 7999999999999998544
No 189
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=92.20 E-value=0.11 Score=46.40 Aligned_cols=44 Identities=25% Similarity=0.365 Sum_probs=39.4
Q ss_pred ccCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECc
Q 021488 2 TFPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYK 45 (311)
Q Consensus 2 ~d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~ 45 (311)
+|++|++.||-|.|.|++...|+.||. +++..|.+..|+|.++.
T Consensus 108 ~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~ 152 (351)
T KOG1995|consen 108 TDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAE 152 (351)
T ss_pred ccccccCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhh
Confidence 478999999999999999999999997 99999999888886543
No 190
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=91.88 E-value=0.051 Score=31.41 Aligned_cols=21 Identities=38% Similarity=0.681 Sum_probs=13.3
Q ss_pred CceeecCCCCcccccccCCcc
Q 021488 211 RTCYECGEKGHLSSACLKKTA 231 (311)
Q Consensus 211 ~~C~~Cg~~GH~~~~Cp~~~~ 231 (311)
..|++|++-.||+.+|.....
T Consensus 3 ~~CprC~kg~Hwa~~C~sk~d 23 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSKTD 23 (36)
T ss_dssp -C-TTTSSSCS-TTT---TCC
T ss_pred ccCcccCCCcchhhhhhhhhc
Confidence 369999999999999998754
No 191
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=91.64 E-value=0.062 Score=33.97 Aligned_cols=18 Identities=44% Similarity=1.099 Sum_probs=16.4
Q ss_pred CceeecCCCCcccccccC
Q 021488 211 RTCYECGEKGHLSSACLK 228 (311)
Q Consensus 211 ~~C~~Cg~~GH~~~~Cp~ 228 (311)
..|+.||..||...+||.
T Consensus 32 ~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 32 RFCFHCGRIGHSDKECPK 49 (49)
T ss_pred hhhcCCCCcCcCHhHcCC
Confidence 469999999999999984
No 192
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=91.51 E-value=0.091 Score=31.37 Aligned_cols=21 Identities=29% Similarity=0.627 Sum_probs=17.3
Q ss_pred CceeecCCCCccc--ccccCCcc
Q 021488 211 RTCYECGEKGHLS--SACLKKTA 231 (311)
Q Consensus 211 ~~C~~Cg~~GH~~--~~Cp~~~~ 231 (311)
.+|..||..||.+ +.||....
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~~~ 24 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMYCW 24 (40)
T ss_pred ccccccccccccccCccCCCCCC
Confidence 4799999999998 56998653
No 193
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.29 E-value=0.093 Score=45.56 Aligned_cols=22 Identities=36% Similarity=0.904 Sum_probs=18.7
Q ss_pred CCceeecCCCCcccccccCCcc
Q 021488 210 RRTCYECGEKGHLSSACLKKTA 231 (311)
Q Consensus 210 ~~~C~~Cg~~GH~~~~Cp~~~~ 231 (311)
.-.||+||+.|||..+||....
T Consensus 176 gY~CyRCGqkgHwIqnCpTN~D 197 (427)
T COG5222 176 GYVCYRCGQKGHWIQNCPTNQD 197 (427)
T ss_pred ceeEEecCCCCchhhcCCCCCC
Confidence 3469999999999999997654
No 194
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=90.94 E-value=0.42 Score=41.07 Aligned_cols=44 Identities=25% Similarity=0.419 Sum_probs=38.7
Q ss_pred CCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECccc
Q 021488 4 PDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYKAT 47 (311)
Q Consensus 4 ~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~~~ 47 (311)
...|+|.|.|-|.|...++|..||+ +++..+.|++|.+......
T Consensus 118 ~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~ 162 (243)
T KOG0533|consen 118 DRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSP 162 (243)
T ss_pred CCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCc
Confidence 5789999999999999999999996 9999999999888754433
No 195
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=90.36 E-value=0.66 Score=43.92 Aligned_cols=65 Identities=22% Similarity=0.340 Sum_probs=48.0
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC--C-ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcC--CceeCCeEeEE
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD--C-KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLD--QEVVRGRPVKI 135 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~--g-~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~--~~~i~g~~i~v 135 (311)
..|.|+-||.++..|+|+.+|.. + .+.++.+..+. -=||+|.+..+|+.|. .|. -..|.|+.|..
T Consensus 176 cIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKpImA 246 (684)
T KOG2591|consen 176 CIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKPIMA 246 (684)
T ss_pred eEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence 46788999999999999999987 5 77777776542 2589999999999886 332 22455555443
No 196
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.60 E-value=0.5 Score=44.06 Aligned_cols=20 Identities=30% Similarity=0.698 Sum_probs=18.1
Q ss_pred CccccccCCccccCCCCCCc
Q 021488 277 RRTCYECGEKGHLSSACPKK 296 (311)
Q Consensus 277 ~~~Cy~Cg~~gH~~~~Cp~~ 296 (311)
+.+||+|+.+|||..+||..
T Consensus 158 sy~c~rc~~~g~wikacptv 177 (448)
T KOG0314|consen 158 SYKCVKCPTPGPWIKACPTV 177 (448)
T ss_pred CcceecCCCCCccceecccc
Confidence 46899999999999999976
No 197
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=89.51 E-value=0.53 Score=36.99 Aligned_cols=38 Identities=29% Similarity=0.366 Sum_probs=30.0
Q ss_pred eEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECccccc
Q 021488 12 IAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKA 49 (311)
Q Consensus 12 ~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~ 49 (311)
--.|.|.+.+.|.+|+.++|..+.|+.|.|.+..+.+.
T Consensus 72 ~mwVTF~dg~sALaals~dg~~v~g~~l~i~LKtpdW~ 109 (146)
T PF08952_consen 72 TMWVTFRDGQSALAALSLDGIQVNGRTLKIRLKTPDWL 109 (146)
T ss_dssp CEEEEESSCHHHHHHHHGCCSEETTEEEEEEE------
T ss_pred eEEEEECccHHHHHHHccCCcEECCEEEEEEeCCccHH
Confidence 45899999999999999999999999999987665543
No 198
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=88.93 E-value=0.3 Score=41.75 Aligned_cols=36 Identities=22% Similarity=0.323 Sum_probs=31.6
Q ss_pred ccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEEC
Q 021488 9 FRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPY 44 (311)
Q Consensus 9 skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~ 44 (311)
.+|=+||.|..+++|++|++ ||+..+.|++|..+..
T Consensus 109 l~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~ 145 (260)
T KOG2202|consen 109 LVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS 145 (260)
T ss_pred hhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence 45778999999999999996 9999999999877643
No 199
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=88.89 E-value=0.19 Score=44.62 Aligned_cols=80 Identities=18% Similarity=0.256 Sum_probs=60.8
Q ss_pred CEEEEcCCCCCCCHHHHH---hhccC-CceeEEEEeecCC--CCC-ceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEE
Q 021488 64 NRIYIGNLSWDITEEDLK---KLFSD-CKISSLRFGTNKE--TGE-FRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKI 135 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~---~~f~~-g~i~~i~v~~~~~--~~~-~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v 135 (311)
+-+||-+|+..+..+++. +.|.+ |.|..|.+..++. .+. ..--++|+|...++|..+| ..++..+.++.|+.
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka 157 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKA 157 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHH
Confidence 468899999887666654 56888 8999998887652 111 1123899999999999999 79999999998888
Q ss_pred EEcCCCCC
Q 021488 136 SCAVPPKK 143 (311)
Q Consensus 136 ~~a~~~~~ 143 (311)
.+...+.-
T Consensus 158 ~~gttkyc 165 (327)
T KOG2068|consen 158 SLGTTKYC 165 (327)
T ss_pred hhCCCcch
Confidence 87766543
No 200
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=88.73 E-value=0.65 Score=43.93 Aligned_cols=77 Identities=13% Similarity=0.099 Sum_probs=51.9
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC--CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCce---eCC-eEeEEE
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD--CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEV---VRG-RPVKIS 136 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~--g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~---i~g-~~i~v~ 136 (311)
.++.|.|+|...|-.-|.+...+ +.-.-+.++.|..+....|||||.|.+++++..+. +.+|+. |+. +...+.
T Consensus 389 tt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~it 468 (549)
T KOG4660|consen 389 TTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASIT 468 (549)
T ss_pred hhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeee
Confidence 35556666655555555555333 44445667777777788999999999999999988 678774 443 334566
Q ss_pred EcCC
Q 021488 137 CAVP 140 (311)
Q Consensus 137 ~a~~ 140 (311)
||.-
T Consensus 469 YArI 472 (549)
T KOG4660|consen 469 YARI 472 (549)
T ss_pred hhhh
Confidence 6543
No 201
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=88.29 E-value=0.88 Score=44.87 Aligned_cols=40 Identities=23% Similarity=0.216 Sum_probs=35.6
Q ss_pred ccceEEEEeCCHHHHHHHH-HcCCCCcCCeeEEEEECcccc
Q 021488 9 FRGIAIINFRTEGAVKRAL-ALDGSEMDGLFLKIQPYKATK 48 (311)
Q Consensus 9 skG~afV~F~~~~~A~~Al-~l~g~~~~g~~i~V~~~~~~~ 48 (311)
++|+|||.+...++|.+|| +|+...+..+.|+|..+....
T Consensus 456 ~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G 496 (894)
T KOG0132|consen 456 PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKG 496 (894)
T ss_pred CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCC
Confidence 6899999999999999999 599999999999998765543
No 202
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=86.26 E-value=0.86 Score=42.47 Aligned_cols=40 Identities=23% Similarity=0.371 Sum_probs=34.7
Q ss_pred CCccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcc
Q 021488 7 GKFRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKA 46 (311)
Q Consensus 7 g~skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~ 46 (311)
+++..||||+|.+.+++..||+.+-..|++++|.|+..+.
T Consensus 327 ~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~ 366 (419)
T KOG0116|consen 327 GKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRP 366 (419)
T ss_pred CCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEeccc
Confidence 5555899999999999999999888889999999985543
No 203
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=85.24 E-value=2.5 Score=34.88 Aligned_cols=61 Identities=18% Similarity=0.148 Sum_probs=42.5
Q ss_pred CHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcC--CceeCCeEeEEEEcCCCC
Q 021488 76 TEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLD--QEVVRGRPVKISCAVPPK 142 (311)
Q Consensus 76 t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~--~~~i~g~~i~v~~a~~~~ 142 (311)
....|+++|.. +.+..+.++.. .+-..|.|.+.++|.+|. .++ +..+.|..+++-++..-.
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~ 72 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTP 72 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS
T ss_pred hHHHHHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccccc
Confidence 45788999999 77777766643 345899999999999999 788 899999999999985443
No 204
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=84.57 E-value=4 Score=31.92 Aligned_cols=70 Identities=24% Similarity=0.222 Sum_probs=49.0
Q ss_pred CCCCEEEEcCCCCCCC-HHH---HHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeE
Q 021488 61 EGYNRIYIGNLSWDIT-EED---LKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVK 134 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t-~~~---l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~ 134 (311)
.+..+|.|.=|...+. .+| |...++. |+|.+|.+. | +--|.|.|.+..+|-+|+ ++.. ..-|..+.
T Consensus 84 pPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-----G--rqsavVvF~d~~SAC~Av~Af~s-~~pgtm~q 155 (166)
T PF15023_consen 84 PPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-----G--RQSAVVVFKDITSACKAVSAFQS-RAPGTMFQ 155 (166)
T ss_pred CCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-----C--CceEEEEehhhHHHHHHHHhhcC-CCCCceEE
Confidence 3556788876655543 234 4455666 899998764 2 446999999999999999 5654 56677777
Q ss_pred EEEc
Q 021488 135 ISCA 138 (311)
Q Consensus 135 v~~a 138 (311)
..|-
T Consensus 156 CsWq 159 (166)
T PF15023_consen 156 CSWQ 159 (166)
T ss_pred eecc
Confidence 7773
No 205
>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=84.00 E-value=1.5 Score=29.78 Aligned_cols=61 Identities=13% Similarity=0.148 Sum_probs=44.4
Q ss_pred HHHHhhccC-C-ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCC
Q 021488 78 EDLKKLFSD-C-KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 78 ~~l~~~f~~-g-~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~ 140 (311)
++|.+.|.. | .|..|.-+..+.+....-.-||++....+...+ ++=..+++..|+|+....
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~i--~~Ik~l~~~~V~vE~~~k 64 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKEI--YKIKTLCGQRVKVERPRK 64 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccce--eehHhhCCeEEEEecCCC
Confidence 578888887 6 899998888776777777889988776553333 333468888999987544
No 206
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=83.69 E-value=3.7 Score=36.11 Aligned_cols=70 Identities=11% Similarity=0.132 Sum_probs=51.1
Q ss_pred EEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCe-EeEEEEcCCC
Q 021488 65 RIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGR-PVKISCAVPP 141 (311)
Q Consensus 65 ~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~-~i~v~~a~~~ 141 (311)
=|-|.++|+.-. .-|...|++ |.|++..... .-.+-+|.|.+.-+|++||..++..|++. .|-|.....+
T Consensus 199 WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~~------ngNwMhirYssr~~A~KALskng~ii~g~vmiGVkpCtDk 270 (350)
T KOG4285|consen 199 WVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTPS------NGNWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPCTDK 270 (350)
T ss_pred eEEEeccCccch-hHHHHHHHhhCeeeeeecCC------CCceEEEEecchhHHHHhhhhcCeeeccceEEeeeecCCH
Confidence 466668887544 456678888 8888765542 23488999999999999999999998875 4556664443
No 207
>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=83.24 E-value=8.3 Score=27.30 Aligned_cols=51 Identities=16% Similarity=0.219 Sum_probs=35.7
Q ss_pred EEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcC
Q 021488 65 RIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLD 124 (311)
Q Consensus 65 ~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~ 124 (311)
..+|+ +|..+-..||.++|+. |.| .|..+.+ .-|||.+...+.|..++ .+.
T Consensus 11 VFhlt-FPkeWK~~DI~qlFspfG~I-~VsWi~d-------TSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 11 VFHLT-FPKEWKTSDIYQLFSPFGQI-YVSWIND-------TSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp EEEEE---TT--HHHHHHHCCCCCCE-EEEEECT-------TEEEEEECCCHHHHHHHHHHT
T ss_pred EEEEe-CchHhhhhhHHHHhccCCcE-EEEEEcC-------CcEEEEeecHHHHHHHHHHhc
Confidence 45555 9999999999999999 654 4444443 25999999999999887 444
No 208
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=81.34 E-value=1 Score=41.86 Aligned_cols=72 Identities=18% Similarity=0.218 Sum_probs=57.0
Q ss_pred EEEEcCCCCCC-CHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCCCC
Q 021488 65 RIYIGNLSWDI-TEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVPPK 142 (311)
Q Consensus 65 ~l~V~~L~~~~-t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~~~ 142 (311)
.|-+.-.|+.. +-++|...|++ |.|..|.|-.. .--|.|+|.+..+|-.|....+..|+++.|+|.|-.+.+
T Consensus 374 ~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~------~~~a~vTF~t~aeag~a~~s~~avlnnr~iKl~whnps~ 447 (526)
T KOG2135|consen 374 PLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS------SLHAVVTFKTRAEAGEAYASHGAVLNNRFIKLFWHNPSP 447 (526)
T ss_pred hhhhhccCCCCchHhhhhhhhhhcCccccccccCc------hhhheeeeeccccccchhccccceecCceeEEEEecCCc
Confidence 34444455554 45789999999 99999988654 225899999999998888888899999999999988744
No 209
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=78.72 E-value=2.4 Score=28.67 Aligned_cols=61 Identities=11% Similarity=0.146 Sum_probs=44.2
Q ss_pred HHHHhhccC-C-ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCceeCCeEeEEEEcCC
Q 021488 78 EDLKKLFSD-C-KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 78 ~~l~~~f~~-g-~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~~i~g~~i~v~~a~~ 140 (311)
.+|.+.|.+ | .+..+.-+..+.+..+..+-||+.....+-... ++=..|++.+|.|+....
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~I--l~ik~Lg~~~V~VEr~~k 64 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKEI--LNIKTLGGQRVTVERPHK 64 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcce--EeehhhCCeeEEEecCcc
Confidence 468888888 7 999999888887777777888888665433222 333468899999887443
No 210
>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=78.63 E-value=3.6 Score=30.28 Aligned_cols=34 Identities=21% Similarity=0.403 Sum_probs=28.1
Q ss_pred ceEEEEeCCHHHHHHHHHcCCCCcCCeeEE-EEEC
Q 021488 11 GIAIINFRTEGAVKRALALDGSEMDGLFLK-IQPY 44 (311)
Q Consensus 11 G~afV~F~~~~~A~~Al~l~g~~~~g~~i~-V~~~ 44 (311)
..-.|.|.++.+|.+||..||..|.|.-|. |.+.
T Consensus 55 NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mvGV~~~ 89 (100)
T PF05172_consen 55 NWIHITYDNPLSAQRALQKNGTIFSGSLMVGVKPC 89 (100)
T ss_dssp TEEEEEESSHHHHHHHHTTTTEEETTCEEEEEEE-
T ss_pred CEEEEECCCHHHHHHHHHhCCeEEcCcEEEEEEEc
Confidence 478999999999999999999999986544 5554
No 211
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=77.69 E-value=3.2 Score=37.21 Aligned_cols=43 Identities=21% Similarity=0.410 Sum_probs=35.7
Q ss_pred cCCCCCccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEECc
Q 021488 3 FPDTGKFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPYK 45 (311)
Q Consensus 3 d~~tg~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~~ 45 (311)
.+.+|+|||||.|...+..++++-|+ |.-+.|.|..-.|.++.
T Consensus 117 NR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~N 160 (498)
T KOG4849|consen 117 NRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSYN 160 (498)
T ss_pred cccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeeccc
Confidence 35689999999999999999999998 78888888776775543
No 212
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=75.80 E-value=1.9 Score=38.18 Aligned_cols=81 Identities=17% Similarity=0.178 Sum_probs=62.8
Q ss_pred CCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhcCCc-eeCCeEeEEEEcC
Q 021488 62 GYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKLDQE-VVRGRPVKISCAV 139 (311)
Q Consensus 62 ~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l~~~-~i~g~~i~v~~a~ 139 (311)
...++|++++.+.+.+.++..++.. |......+........++|+.++.|...+.+..++++.+. .+.+..+...+..
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~ 166 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNT 166 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCcccc
Confidence 4568999999999999988888888 8777776666666778899999999999999999966553 5556665555544
Q ss_pred CCC
Q 021488 140 PPK 142 (311)
Q Consensus 140 ~~~ 142 (311)
.+.
T Consensus 167 ~~~ 169 (285)
T KOG4210|consen 167 RRG 169 (285)
T ss_pred ccc
Confidence 443
No 213
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=74.18 E-value=0.8 Score=36.22 Aligned_cols=84 Identities=19% Similarity=0.129 Sum_probs=58.3
Q ss_pred ccceEEEEeCCHHHHHHHHHcCCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCC-CCHHHHHhhccC-
Q 021488 9 FRGIAIINFRTEGAVKRALALDGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWD-ITEEDLKKLFSD- 86 (311)
Q Consensus 9 skG~afV~F~~~~~A~~Al~l~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~-~t~~~l~~~f~~- 86 (311)
..++..+.|.+.+++..+++.....+.+..+.+..+.+........ .....-=|.|.|||.. .+++-|..+.+.
T Consensus 54 ~~~~fl~~F~~~~d~~~vl~~~p~~~~~~~~~l~~W~~~~~~~~~~----~~~~~vWVri~glP~~~~~~~~~~~i~~~i 129 (153)
T PF14111_consen 54 GDNLFLFQFESEEDRQRVLKGGPWNFNGHFLILQRWSPDFNPSEVK----FEHIPVWVRIYGLPLHLWSEEILKAIGSKI 129 (153)
T ss_pred CCCeEEEEEEeccceeEEEecccccccccchhhhhhcccccccccc----eeccchhhhhccCCHHHhhhHHHHHHHHhc
Confidence 3578899999999999999888888888888888776432211100 0011224778899988 455666666666
Q ss_pred CceeEEEEee
Q 021488 87 CKISSLRFGT 96 (311)
Q Consensus 87 g~i~~i~v~~ 96 (311)
|.+..++...
T Consensus 130 G~~i~vD~~t 139 (153)
T PF14111_consen 130 GEPIEVDENT 139 (153)
T ss_pred CCeEEEEcCC
Confidence 9988887653
No 214
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=72.59 E-value=2 Score=33.23 Aligned_cols=21 Identities=33% Similarity=0.740 Sum_probs=17.8
Q ss_pred CccccccCCccccCCCCCCccc
Q 021488 277 RRTCYECGEKGHLSSACPKKTA 298 (311)
Q Consensus 277 ~~~Cy~Cg~~gH~~~~Cp~~~~ 298 (311)
...|..|+ ..||...||-+..
T Consensus 106 ~v~CR~Ck-GdH~T~~CPyKd~ 126 (128)
T PF12353_consen 106 KVKCRICK-GDHWTSKCPYKDT 126 (128)
T ss_pred eEEeCCCC-CCcccccCCcccc
Confidence 36799996 9999999998754
No 215
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=68.79 E-value=3.3 Score=40.29 Aligned_cols=68 Identities=13% Similarity=0.237 Sum_probs=54.5
Q ss_pred CCCCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEE
Q 021488 61 EGYNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISC 137 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~ 137 (311)
++..++||+|+...+..+-++.++.. |-|....... |+|..|..+.....|+ .++...+++..+.+..
T Consensus 38 ~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~ 107 (668)
T KOG2253|consen 38 PPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELNIDDQKLIENV 107 (668)
T ss_pred CCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccCCCcchhhccc
Confidence 35578999999999999999999998 7655544321 8999999999999998 6777778887776655
No 216
>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=66.10 E-value=8.9 Score=25.84 Aligned_cols=29 Identities=17% Similarity=0.230 Sum_probs=23.9
Q ss_pred EEEEeCCHHHHHHHHH-cCCCCcCCeeEEE
Q 021488 13 AIINFRTEGAVKRALA-LDGSEMDGLFLKI 41 (311)
Q Consensus 13 afV~F~~~~~A~~Al~-l~g~~~~g~~i~V 41 (311)
=||.|.+..+|+++.. .++..+..-.|.+
T Consensus 36 fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 36 FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 4899999999999996 7888877766554
No 217
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=65.24 E-value=6.4 Score=34.34 Aligned_cols=46 Identities=30% Similarity=0.465 Sum_probs=35.8
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC--CceeEEEEeecCCCCCceeEEEEEecCHH
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD--CKISSLRFGTNKETGEFRGYAHVDFSDSL 115 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~--g~i~~i~v~~~~~~~~~~G~afV~f~~~~ 115 (311)
.-|+|+|||.++.-.||+..+.+ +...++.+. | +.|-+|+.|.+..
T Consensus 331 ~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk-----g-~~~k~flh~~~~~ 378 (396)
T KOG4410|consen 331 TDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK-----G-HFGKCFLHFGNRK 378 (396)
T ss_pred cceeeccCccccchHHHHHHHHhcCCCceeEeee-----c-CCcceeEecCCcc
Confidence 35999999999999999999998 355555553 2 2667999997654
No 218
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=64.72 E-value=4.6 Score=40.47 Aligned_cols=75 Identities=27% Similarity=0.232 Sum_probs=59.9
Q ss_pred EEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCce--eCCeEeEEEEcCC
Q 021488 65 RIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEV--VRGRPVKISCAVP 140 (311)
Q Consensus 65 ~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~--i~g~~i~v~~a~~ 140 (311)
+.++.|.+-..+-.-|..++.+ |.+.+++.+++ ...|.|+|...+.|..|+ .+.|+. +.|-+.+|.+|+.
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~------~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~ 373 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRD------LNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKT 373 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhheeccc------ccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccc
Confidence 3445555666777788899999 99999988776 457999999999999999 798886 4677899999987
Q ss_pred CCCCC
Q 021488 141 PKKGI 145 (311)
Q Consensus 141 ~~~~~ 145 (311)
-+...
T Consensus 374 ~~~~e 378 (1007)
T KOG4574|consen 374 LPMYE 378 (1007)
T ss_pred ccccc
Confidence 66543
No 219
>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=62.89 E-value=39 Score=22.74 Aligned_cols=54 Identities=20% Similarity=0.279 Sum_probs=39.5
Q ss_pred CCCHHHHHhhccCCceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEE
Q 021488 74 DITEEDLKKLFSDCKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKI 135 (311)
Q Consensus 74 ~~t~~~l~~~f~~g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v 135 (311)
.++-++|+..|......+|.. ++ .| -||.|.+..+|.++. ..++..+....+.+
T Consensus 11 ~~~v~d~K~~Lr~y~~~~I~~--d~-----tG-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRWDRIRD--DR-----TG-FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCcceEEe--cC-----CE-EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 367789999998855555543 32 34 489999999999999 68888776666543
No 220
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=62.74 E-value=3.2 Score=41.27 Aligned_cols=23 Identities=35% Similarity=0.875 Sum_probs=19.6
Q ss_pred CCCCccccccCCccccCCCCCCc
Q 021488 274 KIRRRTCYECGEKGHLSSACPKK 296 (311)
Q Consensus 274 ~~~~~~Cy~Cg~~gH~~~~Cp~~ 296 (311)
+.+.+.|+.||+.||.+.||...
T Consensus 257 P~~~~~C~~cgq~gh~~~dc~g~ 279 (931)
T KOG2044|consen 257 PNKPRRCFLCGQTGHEAKDCEGK 279 (931)
T ss_pred CCCcccchhhcccCCcHhhcCCc
Confidence 34567799999999999999866
No 221
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=61.76 E-value=10 Score=33.98 Aligned_cols=30 Identities=37% Similarity=0.547 Sum_probs=27.3
Q ss_pred EEEeCCHHHHHHHHH-cCCCCcCCeeEEEEE
Q 021488 14 IINFRTEGAVKRALA-LDGSEMDGLFLKIQP 43 (311)
Q Consensus 14 fV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~ 43 (311)
||.|.+.++|..||+ .+|..+.||.|+..+
T Consensus 169 YITy~~kedAarcIa~vDgs~~DGr~lkatY 199 (480)
T COG5175 169 YITYSTKEDAARCIAEVDGSLLDGRVLKATY 199 (480)
T ss_pred EEEecchHHHHHHHHHhccccccCceEeeec
Confidence 999999999999995 999999999888753
No 222
>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=60.04 E-value=13 Score=25.53 Aligned_cols=33 Identities=15% Similarity=0.434 Sum_probs=18.0
Q ss_pred ceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEEC
Q 021488 11 GIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPY 44 (311)
Q Consensus 11 G~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~ 44 (311)
-|+||+-... .|+.+++ |++..+.|++|.|+++
T Consensus 41 ~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 41 NFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp S-EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred eEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence 3888887765 4667774 9999999999999853
No 223
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=59.85 E-value=8.9 Score=37.80 Aligned_cols=37 Identities=22% Similarity=0.229 Sum_probs=31.5
Q ss_pred CccceEEEEeCCHHHHHHHHH-cCCCCcCCeeEEEEEC
Q 021488 8 KFRGIAIINFRTEGAVKRALA-LDGSEMDGLFLKIQPY 44 (311)
Q Consensus 8 ~skG~afV~F~~~~~A~~Al~-l~g~~~~g~~i~V~~~ 44 (311)
+-+-++||.|-+..+|++|++ |+|..+.+..+++-..
T Consensus 217 r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWg 254 (877)
T KOG0151|consen 217 RERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWG 254 (877)
T ss_pred cccccceeeehhhhhHHHHHHHhcceeeeeeeeeeccc
Confidence 345689999999999999996 9999999888887644
No 224
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=55.48 E-value=36 Score=24.15 Aligned_cols=53 Identities=13% Similarity=0.097 Sum_probs=39.2
Q ss_pred EEEcCCCCCCCHHHHHhhccC--C-ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH
Q 021488 66 IYIGNLSWDITEEDLKKLFSD--C-KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL 121 (311)
Q Consensus 66 l~V~~L~~~~t~~~l~~~f~~--g-~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al 121 (311)
-|+.-++...+..+|+++++. + .|..|....-+ .+ .-=|||.+.....|....
T Consensus 23 ~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~-~~--~KKA~V~L~~g~~A~~va 78 (84)
T PRK14548 23 KLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP-KG--EKKAYVKLAEEYDAEEIA 78 (84)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC-CC--cEEEEEEeCCCCcHHHHH
Confidence 455567889999999999998 4 77788776654 22 224999998887776654
No 225
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.40 E-value=8.3 Score=36.21 Aligned_cols=47 Identities=15% Similarity=0.317 Sum_probs=31.5
Q ss_pred CCCcccCCCCchhhhhhcccCCCccccccccccccccCcccCCceeecCCCCcccccccCCccc
Q 021488 169 GTSNDADNSGAVTSNVAANAGSGTSDVTEHIDLSAVSGKIRRRTCYECGEKGHLSSACLKKTAD 232 (311)
Q Consensus 169 ~~c~~c~~~gh~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~ 232 (311)
..|..|...+|+...|..... ......|++|+..|||...||.....
T Consensus 134 ~~~~~~~~~~~~iq~~~~~g~-----------------Pppsy~c~rc~~~g~wikacptv~~~ 180 (448)
T KOG0314|consen 134 YVCHRCNSPGHFIQHCSTNGS-----------------PPPSYKCVKCPTPGPWIKACPTVSGS 180 (448)
T ss_pred ceeeecccCccccccccccCC-----------------CCCCcceecCCCCCccceeccccCCc
Confidence 345566666666655533222 13456899999999999999986553
No 226
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=54.29 E-value=41 Score=23.40 Aligned_cols=53 Identities=13% Similarity=0.088 Sum_probs=38.4
Q ss_pred EEEcCCCCCCCHHHHHhhccC--C-ceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH
Q 021488 66 IYIGNLSWDITEEDLKKLFSD--C-KISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL 121 (311)
Q Consensus 66 l~V~~L~~~~t~~~l~~~f~~--g-~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al 121 (311)
-|+..++...+..+|+.+++. + .|..|....-+ .+ .--|||++.....|...-
T Consensus 16 ~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~-~~--~KKA~VtL~~g~~a~~va 71 (77)
T TIGR03636 16 KLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITP-RG--EKKAYVKLAEEYAAEEIA 71 (77)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC-CC--ceEEEEEECCCCcHHHHH
Confidence 556667889999999999998 3 77777766554 11 224999998877766543
No 227
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.80 E-value=42 Score=30.98 Aligned_cols=56 Identities=23% Similarity=0.175 Sum_probs=44.9
Q ss_pred CCCCEEEEcCCCCCCCHHHHHhhccC--CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHHhc
Q 021488 61 EGYNRIYIGNLSWDITEEDLKKLFSD--CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMALKL 123 (311)
Q Consensus 61 ~~~~~l~V~~L~~~~t~~~l~~~f~~--g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al~l 123 (311)
+-...|-|.++|...-.+||...|.. +.--+|.++-+. .+|..|.+...|..||.+
T Consensus 389 dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 389 DLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALTL 446 (528)
T ss_pred cccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhhc
Confidence 34568999999999999999999988 344566665543 799999999999999855
No 228
>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=53.22 E-value=18 Score=26.76 Aligned_cols=17 Identities=29% Similarity=0.481 Sum_probs=12.6
Q ss_pred eEEEEeCCHHHHHHHHH
Q 021488 12 IAIINFRTEGAVKRALA 28 (311)
Q Consensus 12 ~afV~F~~~~~A~~Al~ 28 (311)
-|||.|.++++|+.|++
T Consensus 39 ~g~VRf~~~~~A~~a~~ 55 (105)
T PF08777_consen 39 EGYVRFKTPEAAQKALE 55 (105)
T ss_dssp EEEEEESS---HHHHHH
T ss_pred EEEEEECCcchHHHHHH
Confidence 58999999999999995
No 229
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.13 E-value=1e+02 Score=30.08 Aligned_cols=76 Identities=22% Similarity=0.282 Sum_probs=55.4
Q ss_pred cCCCCEEEEcCCCCC-CCHHHHHhhccC-----CceeEEEEeecC----------CCCC---------------------
Q 021488 60 VEGYNRIYIGNLSWD-ITEEDLKKLFSD-----CKISSLRFGTNK----------ETGE--------------------- 102 (311)
Q Consensus 60 ~~~~~~l~V~~L~~~-~t~~~l~~~f~~-----g~i~~i~v~~~~----------~~~~--------------------- 102 (311)
...+++|-|-||+|+ +..++|.-+|.. |.|.+|.|.... ..|.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 456789999999988 678888776653 589988886431 1111
Q ss_pred ----------------ceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEE
Q 021488 103 ----------------FRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKI 135 (311)
Q Consensus 103 ----------------~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v 135 (311)
..-||.|+|.+.+.|.... .-+|+.+...-..+
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~ 300 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKL 300 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceecccccee
Confidence 2357999999999999888 78999886544333
No 230
>PRK04023 DNA polymerase II large subunit; Validated
Probab=44.03 E-value=87 Score=32.77 Aligned_cols=19 Identities=32% Similarity=0.732 Sum_probs=12.4
Q ss_pred cCCceeecCCCCcccccccC
Q 021488 209 RRRTCYECGEKGHLSSACLK 228 (311)
Q Consensus 209 ~~~~C~~Cg~~GH~~~~Cp~ 228 (311)
....|-.||..+ +...||.
T Consensus 625 g~RfCpsCG~~t-~~frCP~ 643 (1121)
T PRK04023 625 GRRKCPSCGKET-FYRRCPF 643 (1121)
T ss_pred cCccCCCCCCcC-CcccCCC
Confidence 345688888876 4456665
No 231
>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=43.49 E-value=11 Score=36.64 Aligned_cols=21 Identities=52% Similarity=1.115 Sum_probs=16.9
Q ss_pred CCccccccCCccccC--CCCCCc
Q 021488 276 RRRTCYECGEKGHLS--SACPKK 296 (311)
Q Consensus 276 ~~~~Cy~Cg~~gH~~--~~Cp~~ 296 (311)
-.++|-+||+.||+. +.||.=
T Consensus 936 Ttr~C~nCGQvGHmkTNK~CP~f 958 (968)
T COG5179 936 TTRTCGNCGQVGHMKTNKACPKF 958 (968)
T ss_pred cceecccccccccccccccCccc
Confidence 357899999999995 568863
No 232
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=40.78 E-value=8.4 Score=35.94 Aligned_cols=17 Identities=29% Similarity=0.720 Sum_probs=15.5
Q ss_pred ccccccCCccccCCCCC
Q 021488 278 RTCYECGEKGHLSSACP 294 (311)
Q Consensus 278 ~~Cy~Cg~~gH~~~~Cp 294 (311)
..|-+||..+|-.+||-
T Consensus 113 GACeNCGAmtHk~KDCm 129 (529)
T KOG2560|consen 113 GACENCGAMTHKVKDCM 129 (529)
T ss_pred hhhhhhhhhhcchHHHh
Confidence 46999999999999994
No 233
>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=38.19 E-value=51 Score=27.19 Aligned_cols=35 Identities=20% Similarity=0.277 Sum_probs=26.3
Q ss_pred ceEEEEeCCHHHHHHHHH-cC--CCCcCCeeEEEEECc
Q 021488 11 GIAIINFRTEGAVKRALA-LD--GSEMDGLFLKIQPYK 45 (311)
Q Consensus 11 G~afV~F~~~~~A~~Al~-l~--g~~~~g~~i~V~~~~ 45 (311)
+-..|.|.+.++|.+|.. |+ +..+.|..++|....
T Consensus 32 rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~ 69 (184)
T PF04847_consen 32 RRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQ 69 (184)
T ss_dssp TEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE---
T ss_pred CEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcc
Confidence 457899999999999985 78 899999999887653
No 234
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=37.72 E-value=14 Score=37.11 Aligned_cols=23 Identities=35% Similarity=0.852 Sum_probs=19.6
Q ss_pred ccCCceeecCCCCcccccccCCc
Q 021488 208 IRRRTCYECGEKGHLSSACLKKT 230 (311)
Q Consensus 208 ~~~~~C~~Cg~~GH~~~~Cp~~~ 230 (311)
.....|+.||+.||.+.+|....
T Consensus 258 ~~~~~C~~cgq~gh~~~dc~g~~ 280 (931)
T KOG2044|consen 258 NKPRRCFLCGQTGHEAKDCEGKP 280 (931)
T ss_pred CCcccchhhcccCCcHhhcCCcC
Confidence 44567999999999999998764
No 235
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=37.05 E-value=43 Score=29.71 Aligned_cols=42 Identities=19% Similarity=0.280 Sum_probs=31.7
Q ss_pred cCCCCCccceEEEEeCCHHHHHHHHHcCCCCcCCee-EEEEEC
Q 021488 3 FPDTGKFRGIAIINFRTEGAVKRALALDGSEMDGLF-LKIQPY 44 (311)
Q Consensus 3 d~~tg~skG~afV~F~~~~~A~~Al~l~g~~~~g~~-i~V~~~ 44 (311)
+-.++..--+-+|.|.+.-+|.+||..||..|.|.. |-|.++
T Consensus 225 khv~~~ngNwMhirYssr~~A~KALskng~ii~g~vmiGVkpC 267 (350)
T KOG4285|consen 225 KHVTPSNGNWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPC 267 (350)
T ss_pred eeecCCCCceEEEEecchhHHHHhhhhcCeeeccceEEeeeec
Confidence 334454445889999999999999999999998753 445543
No 236
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=37.03 E-value=17 Score=34.00 Aligned_cols=17 Identities=35% Similarity=1.093 Sum_probs=16.3
Q ss_pred ccccCCccccCCCCCCc
Q 021488 280 CYECGEKGHLSSACPKK 296 (311)
Q Consensus 280 Cy~Cg~~gH~~~~Cp~~ 296 (311)
||+||..-|--||||++
T Consensus 131 CFNC~g~~hsLrdC~rp 147 (485)
T KOG2673|consen 131 CFNCGGTPHSLRDCPRP 147 (485)
T ss_pred ccccCCCCCccccCCCc
Confidence 99999999999999987
No 237
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=36.60 E-value=8 Score=30.26 Aligned_cols=23 Identities=26% Similarity=0.616 Sum_probs=19.9
Q ss_pred cCCceeecCCCCcccccccCCcc
Q 021488 209 RRRTCYECGEKGHLSSACLKKTA 231 (311)
Q Consensus 209 ~~~~C~~Cg~~GH~~~~Cp~~~~ 231 (311)
...+|-+|-+.|||.-.|.+++.
T Consensus 26 ~~~rCQKClq~GHWtYECk~kRk 48 (177)
T KOG3116|consen 26 SSARCQKCLQAGHWTYECKNKRK 48 (177)
T ss_pred cchhHHHHHhhccceeeecCcee
Confidence 34589999999999999998765
No 238
>KOG3794 consensus CBF1-interacting corepressor CIR and related proteins [Transcription]
Probab=35.44 E-value=17 Score=33.34 Aligned_cols=24 Identities=25% Similarity=0.646 Sum_probs=18.7
Q ss_pred ccCCceeecCCCCcccc--cccCCcc
Q 021488 208 IRRRTCYECGEKGHLSS--ACLKKTA 231 (311)
Q Consensus 208 ~~~~~C~~Cg~~GH~~~--~Cp~~~~ 231 (311)
-+..+|++|+..||+.. +||--..
T Consensus 122 VRNVrC~kChkwGH~n~DreCplf~~ 147 (453)
T KOG3794|consen 122 VRNVRCLKCHKWGHINTDRECPLFGK 147 (453)
T ss_pred eeeeeEEeecccccccCCccCcchhh
Confidence 34568999999999984 5987543
No 239
>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=34.19 E-value=69 Score=28.69 Aligned_cols=55 Identities=20% Similarity=0.280 Sum_probs=33.0
Q ss_pred EEEEeCCHHHHHHHHHc-CCCCcCCeeEEEEECcccccccCCCCCCCCcCCCCEEEEcCCCCCCCHHHHHhhcc
Q 021488 13 AIINFRTEGAVKRALAL-DGSEMDGLFLKIQPYKATKAKRTSDFTPKIVEGYNRIYIGNLSWDITEEDLKKLFS 85 (311)
Q Consensus 13 afV~F~~~~~A~~Al~l-~g~~~~g~~i~V~~~~~~~~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~l~~~f~ 85 (311)
|||.|++..+|..|++. .... ...+.|.++..+ .-|.=.||..+..+..++..+.
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APeP----------------~DI~W~NL~~~~~~r~~R~~~~ 56 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPEP----------------DDIIWENLSISSKQRFLRRIIV 56 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCCc----------------ccccccccCCChHHHHHHHHHH
Confidence 79999999999999972 2222 133355543322 2244567766666666655443
No 240
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=32.75 E-value=21 Score=33.38 Aligned_cols=20 Identities=25% Similarity=0.725 Sum_probs=18.0
Q ss_pred ceeecCCCCcccccccCCcc
Q 021488 212 TCYECGEKGHLSSACLKKTA 231 (311)
Q Consensus 212 ~C~~Cg~~GH~~~~Cp~~~~ 231 (311)
.||+|+..-|-.+|||+...
T Consensus 130 ~CFNC~g~~hsLrdC~rp~d 149 (485)
T KOG2673|consen 130 PCFNCGGTPHSLRDCPRPFD 149 (485)
T ss_pred cccccCCCCCccccCCCccc
Confidence 48999999999999998765
No 241
>PHA00689 hypothetical protein
Probab=28.62 E-value=23 Score=22.07 Aligned_cols=12 Identities=50% Similarity=1.121 Sum_probs=9.9
Q ss_pred CCccccccCCcc
Q 021488 276 RRRTCYECGEKG 287 (311)
Q Consensus 276 ~~~~Cy~Cg~~g 287 (311)
+..+|-+||+.|
T Consensus 16 ravtckrcgktg 27 (62)
T PHA00689 16 RAVTCKRCGKTG 27 (62)
T ss_pred ceeehhhccccC
Confidence 447999999987
No 242
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=28.59 E-value=1.4e+02 Score=22.62 Aligned_cols=44 Identities=14% Similarity=0.348 Sum_probs=27.8
Q ss_pred CCCHHHHHhhccC-Cc-----eeEEEEeecCCCCCceeEEEEEecCHHHHH
Q 021488 74 DITEEDLKKLFSD-CK-----ISSLRFGTNKETGEFRGYAHVDFSDSLSLS 118 (311)
Q Consensus 74 ~~t~~~l~~~f~~-g~-----i~~i~v~~~~~~~~~~G~afV~f~~~~~a~ 118 (311)
.++.+||++-+++ .. |.-..+....-.|++.|||.| |.+.+.|.
T Consensus 34 ~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~ak 83 (132)
T KOG3424|consen 34 NVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAK 83 (132)
T ss_pred CCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHH
Confidence 4788999988887 42 222233444456778888876 45555554
No 243
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=28.29 E-value=95 Score=22.23 Aligned_cols=31 Identities=16% Similarity=0.183 Sum_probs=23.2
Q ss_pred EEEEecCHHHHHHHHhcCCc--eeCCeEeEEEE
Q 021488 107 AHVDFSDSLSLSMALKLDQE--VVRGRPVKISC 137 (311)
Q Consensus 107 afV~f~~~~~a~~al~l~~~--~i~g~~i~v~~ 137 (311)
|+|+|..+..|+..+.+..+ .+++..+.|..
T Consensus 1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v 33 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKV 33 (88)
T ss_pred CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEE
Confidence 68999999999999865444 56676666655
No 244
>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]
Probab=27.75 E-value=1.8e+02 Score=28.59 Aligned_cols=85 Identities=15% Similarity=0.124 Sum_probs=48.4
Q ss_pred eEEEEeCCHHHHHHHHH-cCCCCcCCeeEE-E----EECcccc------cccCCCCCCCCcCCCCEEEEcCCCCCCCHHH
Q 021488 12 IAIINFRTEGAVKRALA-LDGSEMDGLFLK-I----QPYKATK------AKRTSDFTPKIVEGYNRIYIGNLSWDITEED 79 (311)
Q Consensus 12 ~afV~F~~~~~A~~Al~-l~g~~~~g~~i~-V----~~~~~~~------~~~~~~~~~~~~~~~~~l~V~~L~~~~t~~~ 79 (311)
-|||.+.++..-+.--+ |+...|.+-.|. | .|+...+ ...-+-+..+.......||+.+|+.++.++-
T Consensus 238 ~C~iT~Tn~~TH~iIr~Nl~rSpmysG~Ieg~GPRYCPSIEDKIvrF~dK~~HqIFlEPEGl~~~evY~nGlSTSlP~dV 317 (621)
T COG0445 238 PCYITYTNEKTHEIIRDNLHRSPMYSGEIEGVGPRYCPSIEDKIVRFADKERHQIFLEPEGLDTDEVYPNGLSTSLPEDV 317 (621)
T ss_pred ceeeecCChHHHHHHHHhhhhCchhcccccccCCCCCCCHHHhhccCCCCccceEEecCCCCCCceEecCcccccCCHHH
Confidence 48999998876554443 555544332222 1 1111111 0001122334445567899999999998876
Q ss_pred HHhhccC-CceeEEEEee
Q 021488 80 LKKLFSD-CKISSLRFGT 96 (311)
Q Consensus 80 l~~~f~~-g~i~~i~v~~ 96 (311)
=.+++.. =..+.+.|++
T Consensus 318 Q~~~irsipGlEna~i~r 335 (621)
T COG0445 318 QEQIIRSIPGLENAEILR 335 (621)
T ss_pred HHHHHHhCcccccceeec
Confidence 6677776 5667777764
No 245
>PF08844 DUF1815: Domain of unknown function (DUF1815); InterPro: IPR014943 This entry is about 100 amino acids in length and is functionally uncharacterised.
Probab=27.47 E-value=24 Score=25.38 Aligned_cols=13 Identities=31% Similarity=0.917 Sum_probs=9.4
Q ss_pred cccccc--CCccccC
Q 021488 278 RTCYEC--GEKGHLS 290 (311)
Q Consensus 278 ~~Cy~C--g~~gH~~ 290 (311)
.+||.| |..+|-+
T Consensus 33 AsCYtC~dG~~~~~A 47 (105)
T PF08844_consen 33 ASCYTCGDGRDMNSA 47 (105)
T ss_pred eEEEecCCCCCCCce
Confidence 579999 6666653
No 246
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=27.25 E-value=1.3e+02 Score=26.68 Aligned_cols=13 Identities=38% Similarity=1.050 Sum_probs=10.0
Q ss_pred ccccccCCccccC
Q 021488 278 RTCYECGEKGHLS 290 (311)
Q Consensus 278 ~~Cy~Cg~~gH~~ 290 (311)
..|++||.+--++
T Consensus 155 ~~C~rC~~~r~~~ 167 (280)
T KOG4198|consen 155 SECFRCGAKRPLA 167 (280)
T ss_pred chhhhcCCcCccc
Confidence 6899999876553
No 247
>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=26.99 E-value=1.1e+02 Score=22.89 Aligned_cols=28 Identities=18% Similarity=0.415 Sum_probs=23.4
Q ss_pred ccceEEEEeCCHHHHHHHHH-cCCCCcCC
Q 021488 9 FRGIAIINFRTEGAVKRALA-LDGSEMDG 36 (311)
Q Consensus 9 skG~afV~F~~~~~A~~Al~-l~g~~~~g 36 (311)
++=.+.|.|.+.++|+.... +||+.|..
T Consensus 53 nrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 53 NRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred ceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 44467999999999999985 99999864
No 248
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=26.38 E-value=39 Score=31.33 Aligned_cols=23 Identities=30% Similarity=0.556 Sum_probs=19.6
Q ss_pred ccCCceeecCCCCcccccccCCc
Q 021488 208 IRRRTCYECGEKGHLSSACLKKT 230 (311)
Q Consensus 208 ~~~~~C~~Cg~~GH~~~~Cp~~~ 230 (311)
.....|-.||..||...|||+-.
T Consensus 568 ~~~kGCayCgGLGHRItdCPKle 590 (610)
T KOG0341|consen 568 GGEKGCAYCGGLGHRITDCPKLE 590 (610)
T ss_pred CCccccccccCCCcccccCchhh
Confidence 44567999999999999999854
No 249
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=26.15 E-value=31 Score=26.57 Aligned_cols=22 Identities=27% Similarity=0.513 Sum_probs=18.1
Q ss_pred ccCCceeecCCCCcccccccCCc
Q 021488 208 IRRRTCYECGEKGHLSSACLKKT 230 (311)
Q Consensus 208 ~~~~~C~~Cg~~GH~~~~Cp~~~ 230 (311)
.....|..|+ -.||...||-..
T Consensus 104 ~~~v~CR~Ck-GdH~T~~CPyKd 125 (128)
T PF12353_consen 104 KSKVKCRICK-GDHWTSKCPYKD 125 (128)
T ss_pred CceEEeCCCC-CCcccccCCccc
Confidence 3456799996 999999999764
No 250
>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=24.96 E-value=75 Score=24.02 Aligned_cols=44 Identities=18% Similarity=0.345 Sum_probs=24.5
Q ss_pred CCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHH-HHHHHH
Q 021488 75 ITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSL-SLSMAL 121 (311)
Q Consensus 75 ~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~-~a~~al 121 (311)
.+.++|.+.|+. ..+ .+..+.++ .-+.|+++|.|...- --..|+
T Consensus 29 ~~~~~l~~~l~~f~p~-kv~~l~~~--~gh~g~aiv~F~~~w~Gf~~A~ 74 (116)
T PF03468_consen 29 MSNEELLDKLAEFNPL-KVKPLYGK--QGHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp --SHHHHHHHHH---S-EEEEEEET--TEEEEEEEEE--SSHHHHHHHH
T ss_pred cCHHHHHHHHHhcCCc-eeEECcCC--CCCcEEEEEEECCChHHHHHHH
Confidence 456788999888 433 45555553 245899999997643 333444
No 251
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=24.77 E-value=32 Score=29.55 Aligned_cols=19 Identities=32% Similarity=0.798 Sum_probs=16.9
Q ss_pred ccccccCCccccCCCCCCcc
Q 021488 278 RTCYECGEKGHLSSACPKKT 297 (311)
Q Consensus 278 ~~Cy~Cg~~gH~~~~Cp~~~ 297 (311)
..|..| ...||+.+||.+.
T Consensus 120 ~~CR~C-~gdHwt~~CPyK~ 138 (270)
T KOG0122|consen 120 VACRIC-KGDHWTTNCPYKD 138 (270)
T ss_pred eeeeec-CCCeeeecCCchh
Confidence 569999 8999999999883
No 252
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=23.69 E-value=1e+02 Score=28.31 Aligned_cols=65 Identities=14% Similarity=0.154 Sum_probs=42.6
Q ss_pred CEEEEcCCCCCCCHHHHHhhccC--CceeEEEEeecC--CCCCceeEEEEEecCHHHHHHHH-hcCCcee
Q 021488 64 NRIYIGNLSWDITEEDLKKLFSD--CKISSLRFGTNK--ETGEFRGYAHVDFSDSLSLSMAL-KLDQEVV 128 (311)
Q Consensus 64 ~~l~V~~L~~~~t~~~l~~~f~~--g~i~~i~v~~~~--~~~~~~G~afV~f~~~~~a~~al-~l~~~~i 128 (311)
..|.|..||+..++++|.+-+.. -.+....+.... ....-.+.+||.|..+++..... .++|+.+
T Consensus 8 ~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~if 77 (376)
T KOG1295|consen 8 VKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIF 77 (376)
T ss_pred eeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEE
Confidence 47889999999999999887776 233333333111 01122567899999998866555 4676654
No 253
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=23.67 E-value=2e+02 Score=22.66 Aligned_cols=52 Identities=12% Similarity=0.070 Sum_probs=36.2
Q ss_pred EEEEcCCCCCCCHHHHHhhccC-C--ceeEEEEeecCCCCCceeEEEEEecCHHHHHH
Q 021488 65 RIYIGNLSWDITEEDLKKLFSD-C--KISSLRFGTNKETGEFRGYAHVDFSDSLSLSM 119 (311)
Q Consensus 65 ~l~V~~L~~~~t~~~l~~~f~~-g--~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~ 119 (311)
..|+.-++...+..+|+++++. . .|..|..+..+. +. -=|||.+....+|..
T Consensus 83 N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p~-g~--KKA~V~L~~~~~aid 137 (145)
T PTZ00191 83 NTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITPD-GL--KKAYIRLSPDVDALD 137 (145)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcCC-Cc--eEEEEEECCCCcHHH
Confidence 3556667888999999999998 4 667776655442 22 249999977666443
No 254
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.99 E-value=14 Score=34.35 Aligned_cols=77 Identities=4% Similarity=-0.172 Sum_probs=56.0
Q ss_pred CCEEEEcCCCCCCCHHHHHhhccC-CceeEEEEeecCCCCCceeEEEEEecCHHHHHHHH-hcCCceeCCeEeEEEEcCC
Q 021488 63 YNRIYIGNLSWDITEEDLKKLFSD-CKISSLRFGTNKETGEFRGYAHVDFSDSLSLSMAL-KLDQEVVRGRPVKISCAVP 140 (311)
Q Consensus 63 ~~~l~V~~L~~~~t~~~l~~~f~~-g~i~~i~v~~~~~~~~~~G~afV~f~~~~~a~~al-~l~~~~i~g~~i~v~~a~~ 140 (311)
+.+.++..||..+++.++.-.|.. +-|..+.+.+.-..+...-.+||+... ..+...| .+....+.+..+++.++..
T Consensus 3 s~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~q~~~~~~~r~~~~~~ 81 (572)
T KOG4365|consen 3 SMKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKRQTTFESQDRKAVSPS 81 (572)
T ss_pred chhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccCHHHHhhhhhhhhhhhcCch
Confidence 356778899999999999999999 888888776665566667778888754 3344455 4555566677777777654
No 255
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=22.99 E-value=71 Score=23.44 Aligned_cols=20 Identities=20% Similarity=0.463 Sum_probs=13.7
Q ss_pred CCCccceEEEEeCCHHHHHHH
Q 021488 6 TGKFRGIAIINFRTEGAVKRA 26 (311)
Q Consensus 6 tg~skG~afV~F~~~~~A~~A 26 (311)
.|+|.|||.| |.+.+.|.+.
T Consensus 62 ~g~s~G~a~I-Yds~e~~kk~ 81 (99)
T PRK01178 62 MGKSKGYAKV-YDDKERARKI 81 (99)
T ss_pred CceEEEEEEE-ECCHHHHHhh
Confidence 5788888888 6666655443
No 256
>COG1644 RPB10 DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription]
Probab=22.36 E-value=41 Score=22.18 Aligned_cols=11 Identities=45% Similarity=1.355 Sum_probs=8.9
Q ss_pred CceeecCCC-Cc
Q 021488 211 RTCYECGEK-GH 221 (311)
Q Consensus 211 ~~C~~Cg~~-GH 221 (311)
.+||.||++ ||
T Consensus 5 iRCFsCGkvi~~ 16 (63)
T COG1644 5 VRCFSCGKVIGH 16 (63)
T ss_pred eEeecCCCCHHH
Confidence 579999998 44
No 257
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=22.27 E-value=71 Score=27.96 Aligned_cols=35 Identities=17% Similarity=0.295 Sum_probs=26.9
Q ss_pred CCCEEEEcCCCCC------------CCHHHHHhhccC-CceeEEEEee
Q 021488 62 GYNRIYIGNLSWD------------ITEEDLKKLFSD-CKISSLRFGT 96 (311)
Q Consensus 62 ~~~~l~V~~L~~~------------~t~~~l~~~f~~-g~i~~i~v~~ 96 (311)
.+.|||+.+||-. .+++-|+.+|.. |.|..|.|+.
T Consensus 148 rpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipi 195 (445)
T KOG2891|consen 148 RPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPI 195 (445)
T ss_pred CCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcc
Confidence 3468999888732 467789999999 9998887763
No 258
>PF03802 CitX: Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; InterPro: IPR005551 Members of this protein family are annotated as CitX, containing the CitX domain, the domain is also found in the CitXG bifunctional protein, of the citrate lyase system. CitX transfers the prosthetic group 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA to the citrate lyase gamma chain, an acyl carrier protein. This enzyme may be designated holo-ACP synthase, holo-citrate lyase synthase, or apo-citrate lyase phosphoribosyl-dephospho-CoA transferase. In a few genera, including Haemophilus, this protein occurs as a fusion protein with CitG (2.7.8.25 from EC), an enzyme involved in prosthetic group biosynthesis. This CitX family is easily separated from the holo-ACP synthases of other enzyme systems.; GO: 0051191 prosthetic group biosynthetic process
Probab=21.84 E-value=4.3e+02 Score=21.35 Aligned_cols=70 Identities=14% Similarity=0.096 Sum_probs=39.6
Q ss_pred EEEEEec-CHHHHHHHH-hcCCceeCCeEeEEEEcCCCCCCCCCCCCCCCchhhcccccccccCCCCCcccCCCCchhhh
Q 021488 106 YAHVDFS-DSLSLSMAL-KLDQEVVRGRPVKISCAVPPKKGINSKSRSLPSNKRATSKVTDSAGLGTSNDADNSGAVTSN 183 (311)
Q Consensus 106 ~afV~f~-~~~~a~~al-~l~~~~i~g~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~c~~c~~~gh~~~~ 183 (311)
.+|+... ++....+.+ .+-.....|+-+-+..-......- ++.......+.|+.|+++ +..
T Consensus 82 e~~~~v~~~a~~vK~~~i~iEe~hplGRL~DiDV~~~~g~~i--------------SR~~lg~~~R~CliC~~~---Ak~ 144 (170)
T PF03802_consen 82 EAFLVVDGDAEEVKRIMIEIEESHPLGRLFDIDVLDPDGKQI--------------SREDLGLPPRRCLICGRP---AKE 144 (170)
T ss_pred eeeEEeCCCHHHHHHHHHHHHccCcchheEEEeeecCCCCcc--------------CHHHcCCCCCcccCCChh---HHH
Confidence 3455444 444555555 676666778877777653322211 122223346889999988 667
Q ss_pred hhcccCCCc
Q 021488 184 VAANAGSGT 192 (311)
Q Consensus 184 c~~~~~~~~ 192 (311)
|......+.
T Consensus 145 CaRsr~Hs~ 153 (170)
T PF03802_consen 145 CARSRRHSV 153 (170)
T ss_pred HHHcCCCCH
Confidence 755444443
No 259
>PF04026 SpoVG: SpoVG; InterPro: IPR007170 This is a stage V sporulation protein G. It is essential for sporulation and specific to stage V sporulation in Bacillus megaterium and Bacillus subtilis []. In B. subtilis, expression decreases after 30-60 minutes of cold shock [].; GO: 0030435 sporulation resulting in formation of a cellular spore; PDB: 2IA9_F 2I9X_B 2I9Z_A.
Probab=21.69 E-value=2e+02 Score=20.34 Aligned_cols=26 Identities=31% Similarity=0.635 Sum_probs=20.9
Q ss_pred ceeEEEEeecCCCCCceeEEEEEecC
Q 021488 88 KISSLRFGTNKETGEFRGYAHVDFSD 113 (311)
Q Consensus 88 ~i~~i~v~~~~~~~~~~G~afV~f~~ 113 (311)
.|++|+|..-...++-++||-|+|.+
T Consensus 2 ~itdVri~~~~~~~~lka~asV~~dd 27 (84)
T PF04026_consen 2 KITDVRIRKIEPEGKLKAFASVTFDD 27 (84)
T ss_dssp -EEEEEEEETTSSSSEEEEEEEEETT
T ss_pred ccEEEEEEEecCCCCEEEEEEEEECC
Confidence 36788888777678899999999965
No 260
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=21.26 E-value=27 Score=27.38 Aligned_cols=19 Identities=32% Similarity=0.789 Sum_probs=17.4
Q ss_pred ccccccCCccccCCCCCCc
Q 021488 278 RTCYECGEKGHLSSACPKK 296 (311)
Q Consensus 278 ~~Cy~Cg~~gH~~~~Cp~~ 296 (311)
..|-+|=+.|||.-+|.++
T Consensus 28 ~rCQKClq~GHWtYECk~k 46 (177)
T KOG3116|consen 28 ARCQKCLQAGHWTYECKNK 46 (177)
T ss_pred hhHHHHHhhccceeeecCc
Confidence 5799999999999999876
No 261
>CHL00030 rpl23 ribosomal protein L23
Probab=20.99 E-value=2.2e+02 Score=20.57 Aligned_cols=33 Identities=12% Similarity=0.079 Sum_probs=25.3
Q ss_pred EEEEcCCCCCCCHHHHHhhccC--C-ceeEEEEeec
Q 021488 65 RIYIGNLSWDITEEDLKKLFSD--C-KISSLRFGTN 97 (311)
Q Consensus 65 ~l~V~~L~~~~t~~~l~~~f~~--g-~i~~i~v~~~ 97 (311)
.-|+.-++...+..+|+++++. + .|..|..+.-
T Consensus 20 n~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt~~~ 55 (93)
T CHL00030 20 NQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNSHRL 55 (93)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEc
Confidence 3566667889999999999998 3 6777766554
No 262
>PLN00032 DNA-directed RNA polymerase; Provisional
Probab=20.68 E-value=41 Score=22.89 Aligned_cols=9 Identities=33% Similarity=1.180 Sum_probs=8.0
Q ss_pred CceeecCCC
Q 021488 211 RTCYECGEK 219 (311)
Q Consensus 211 ~~C~~Cg~~ 219 (311)
.+||.||++
T Consensus 5 VRCFTCGkv 13 (71)
T PLN00032 5 VRCFTCGKV 13 (71)
T ss_pred eeecCCCCC
Confidence 579999998
No 263
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=20.57 E-value=1.3e+02 Score=29.48 Aligned_cols=35 Identities=9% Similarity=0.054 Sum_probs=26.9
Q ss_pred cceEEEEeCCHHHHHHHH-HcCCCCcC---CeeEEEEEC
Q 021488 10 RGIAIINFRTEGAVKRAL-ALDGSEMD---GLFLKIQPY 44 (311)
Q Consensus 10 kG~afV~F~~~~~A~~Al-~l~g~~~~---g~~i~V~~~ 44 (311)
|..|||.|.+.++|.+-. +|||.... .+.|.+.+.
T Consensus 481 KShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~ 519 (718)
T KOG2416|consen 481 KSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFV 519 (718)
T ss_pred hcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeec
Confidence 457999999999998888 49988764 466666543
No 264
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=20.49 E-value=85 Score=22.49 Aligned_cols=32 Identities=13% Similarity=0.119 Sum_probs=24.7
Q ss_pred EEEcCCCCCCCHHHHHhhccC--C-ceeEEEEeec
Q 021488 66 IYIGNLSWDITEEDLKKLFSD--C-KISSLRFGTN 97 (311)
Q Consensus 66 l~V~~L~~~~t~~~l~~~f~~--g-~i~~i~v~~~ 97 (311)
.|+.-++..++..||+++|.. + .|.+|..+.-
T Consensus 22 ~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~ 56 (91)
T PF00276_consen 22 QYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNY 56 (91)
T ss_dssp EEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEE
T ss_pred EEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEe
Confidence 455567889999999999998 4 7777765543
No 265
>PHA01632 hypothetical protein
Probab=20.22 E-value=70 Score=20.58 Aligned_cols=21 Identities=33% Similarity=0.514 Sum_probs=16.9
Q ss_pred EEEcCCCCCCCHHHHHhhccC
Q 021488 66 IYIGNLSWDITEEDLKKLFSD 86 (311)
Q Consensus 66 l~V~~L~~~~t~~~l~~~f~~ 86 (311)
|.|..+|...|+++|+..+.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 445688999999999988764
No 266
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=20.16 E-value=59 Score=30.18 Aligned_cols=21 Identities=38% Similarity=0.838 Sum_probs=18.5
Q ss_pred CCccccccCCccccCCCCCCc
Q 021488 276 RRRTCYECGEKGHLSSACPKK 296 (311)
Q Consensus 276 ~~~~Cy~Cg~~gH~~~~Cp~~ 296 (311)
....|--||.-||--.|||+=
T Consensus 569 ~~kGCayCgGLGHRItdCPKl 589 (610)
T KOG0341|consen 569 GEKGCAYCGGLGHRITDCPKL 589 (610)
T ss_pred CccccccccCCCcccccCchh
Confidence 346799999999999999986
No 267
>PF01194 RNA_pol_N: RNA polymerases N / 8 kDa subunit; InterPro: IPR000268 In eukaryotes, there are three different forms of DNA-dependent RNA polymerases (2.7.7.6 from EC) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. Archaebacterial subunit N (gene rpoN) [] is a small protein of about 8 kDa, it is evolutionary related [] to a 8.3 kDa component shared by all three forms of eukaryotic RNA polymerases (gene RPB10 in yeast and POLR2J in mammals) as well as to African swine fever virus (ASFV) protein CP80R []. There is a conserved region which is located at the N-terminal extremity of these polymerase subunits; this region contains two cysteines that binds a zinc ion [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_N 3HKZ_N 1EF4_A 3H0G_V 2Y0S_N 2R92_J 3M4O_J 3S2D_J 1R9S_J 1Y1W_J ....
Probab=20.14 E-value=39 Score=22.25 Aligned_cols=9 Identities=33% Similarity=1.180 Sum_probs=7.0
Q ss_pred CceeecCCC
Q 021488 211 RTCYECGEK 219 (311)
Q Consensus 211 ~~C~~Cg~~ 219 (311)
.+||.||++
T Consensus 5 VRCFTCGkv 13 (60)
T PF01194_consen 5 VRCFTCGKV 13 (60)
T ss_dssp SS-STTTSB
T ss_pred eecCCCCCC
Confidence 579999998
No 268
>KOG3497 consensus DNA-directed RNA polymerase, subunit RPB10 [Transcription]
Probab=20.06 E-value=46 Score=21.81 Aligned_cols=9 Identities=33% Similarity=1.165 Sum_probs=7.7
Q ss_pred CceeecCCC
Q 021488 211 RTCYECGEK 219 (311)
Q Consensus 211 ~~C~~Cg~~ 219 (311)
.+||.||+.
T Consensus 5 iRCFtCGKv 13 (69)
T KOG3497|consen 5 IRCFTCGKV 13 (69)
T ss_pred eEeeecccc
Confidence 579999987
Done!