Query 012289
Match_columns 466
No_of_seqs 355 out of 2030
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 01:03:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012289.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012289hhsearch_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 100.0 2.8E-34 6.1E-39 292.7 23.6 165 3-183 105-274 (346)
2 TIGR01661 ELAV_HUD_SF ELAV/HuD 100.0 1.5E-28 3.1E-33 251.2 20.0 154 4-173 2-157 (352)
3 KOG4205 RNA-binding protein mu 100.0 1.1E-28 2.4E-33 245.8 18.0 219 3-231 4-242 (311)
4 TIGR01645 half-pint poly-U bin 100.0 1.3E-28 2.8E-33 264.2 19.6 174 3-181 105-281 (612)
5 KOG0148 Apoptosis-promoting RN 100.0 3.4E-28 7.4E-33 231.0 17.2 176 5-186 62-240 (321)
6 KOG0117 Heterogeneous nuclear 100.0 3.9E-27 8.4E-32 236.7 24.8 172 4-183 82-330 (506)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 100.0 2.3E-27 4.9E-32 242.5 20.9 178 4-181 88-346 (352)
8 TIGR01622 SF-CC1 splicing fact 100.0 3.2E-27 6.9E-32 249.9 19.9 176 3-182 87-264 (457)
9 KOG0144 RNA-binding protein CU 99.9 5.9E-28 1.3E-32 241.6 12.1 153 3-171 32-189 (510)
10 TIGR01648 hnRNP-R-Q heterogene 99.9 2.1E-25 4.5E-30 239.2 22.4 161 3-182 136-305 (578)
11 TIGR01628 PABP-1234 polyadenyl 99.9 6.5E-26 1.4E-30 246.2 18.7 155 7-176 2-159 (562)
12 TIGR01628 PABP-1234 polyadenyl 99.9 1.6E-25 3.5E-30 243.1 18.9 177 4-182 177-362 (562)
13 TIGR01648 hnRNP-R-Q heterogene 99.9 8.9E-25 1.9E-29 234.3 16.4 153 4-179 57-217 (578)
14 KOG0127 Nucleolar protein fibr 99.9 1.7E-24 3.7E-29 221.9 15.9 163 5-168 117-355 (678)
15 KOG0145 RNA-binding protein EL 99.9 3.6E-24 7.7E-29 202.5 13.8 157 3-175 39-197 (360)
16 TIGR01642 U2AF_lg U2 snRNP aux 99.9 1.2E-23 2.6E-28 225.4 19.2 173 2-181 172-372 (509)
17 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.9 1.7E-23 3.6E-28 223.4 19.5 163 5-181 2-171 (481)
18 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.9 2.7E-23 6E-28 221.7 20.8 164 3-173 273-462 (481)
19 TIGR01642 U2AF_lg U2 snRNP aux 99.9 3.8E-23 8.2E-28 221.6 18.9 175 4-178 294-496 (509)
20 KOG0131 Splicing factor 3b, su 99.9 1E-23 2.2E-28 190.5 12.0 163 3-180 7-173 (203)
21 KOG0127 Nucleolar protein fibr 99.9 9E-23 1.9E-27 209.3 14.8 179 2-181 2-193 (678)
22 KOG4211 Splicing factor hnRNP- 99.9 3.1E-20 6.6E-25 189.6 31.4 166 4-178 9-176 (510)
23 KOG0109 RNA-binding protein LA 99.9 4.4E-23 9.5E-28 198.0 9.7 141 6-180 3-146 (346)
24 TIGR01622 SF-CC1 splicing fact 99.9 5.3E-21 1.1E-25 202.5 20.0 170 5-178 186-442 (457)
25 KOG0124 Polypyrimidine tract-b 99.9 9.6E-22 2.1E-26 193.4 8.6 168 5-178 113-284 (544)
26 KOG0145 RNA-binding protein EL 99.8 4.2E-20 9.1E-25 175.0 13.7 175 5-179 127-353 (360)
27 KOG0105 Alternative splicing f 99.8 7.9E-20 1.7E-24 165.6 14.5 162 3-174 4-177 (241)
28 KOG0144 RNA-binding protein CU 99.8 3E-20 6.4E-25 186.6 10.1 176 4-180 123-500 (510)
29 KOG0146 RNA-binding protein ET 99.8 4.6E-20 1E-24 175.3 9.6 176 4-180 18-361 (371)
30 KOG0123 Polyadenylate-binding 99.8 3E-19 6.5E-24 183.6 16.0 137 6-172 2-140 (369)
31 KOG0110 RNA-binding protein (R 99.8 1.5E-19 3.3E-24 191.0 13.1 172 4-182 514-691 (725)
32 KOG0148 Apoptosis-promoting RN 99.8 5.5E-19 1.2E-23 168.5 10.3 137 3-183 4-141 (321)
33 KOG0123 Polyadenylate-binding 99.8 2.1E-18 4.6E-23 177.4 15.2 159 3-173 74-234 (369)
34 KOG0147 Transcriptional coacti 99.8 1.5E-19 3.3E-24 186.6 5.4 181 3-185 177-359 (549)
35 KOG4212 RNA-binding protein hn 99.8 6.6E-18 1.4E-22 169.7 16.7 171 4-176 43-286 (608)
36 TIGR01645 half-pint poly-U bin 99.7 1.1E-16 2.4E-21 172.5 19.1 78 5-82 204-283 (612)
37 PLN03134 glycine-rich RNA-bind 99.7 5E-17 1.1E-21 146.5 11.2 82 3-84 32-115 (144)
38 KOG4211 Splicing factor hnRNP- 99.7 1.5E-15 3.2E-20 155.5 20.6 174 4-180 102-354 (510)
39 KOG4206 Spliceosomal protein s 99.7 8.5E-16 1.8E-20 144.2 14.8 158 5-170 9-206 (221)
40 PLN03134 glycine-rich RNA-bind 99.6 1.4E-15 3E-20 137.1 12.5 79 104-182 33-112 (144)
41 KOG0149 Predicted RNA-binding 99.6 2.7E-16 5.9E-21 147.9 7.1 79 4-82 11-90 (247)
42 COG0724 RNA-binding proteins ( 99.6 5.6E-15 1.2E-19 141.8 14.5 161 5-165 115-285 (306)
43 KOG0147 Transcriptional coacti 99.6 4.2E-15 9.2E-20 154.0 12.1 165 7-176 280-519 (549)
44 KOG0106 Alternative splicing f 99.6 1.1E-15 2.4E-20 144.5 6.8 157 6-178 2-165 (216)
45 KOG1457 RNA binding protein (c 99.6 7.4E-14 1.6E-18 130.4 14.8 165 5-173 34-274 (284)
46 KOG1365 RNA-binding protein Fu 99.6 5.3E-15 1.2E-19 147.0 7.3 173 4-178 160-356 (508)
47 KOG0149 Predicted RNA-binding 99.5 1.5E-14 3.2E-19 136.3 9.4 81 103-183 10-90 (247)
48 PF00076 RRM_1: RNA recognitio 99.5 4.3E-14 9.3E-19 109.8 8.9 68 8-76 1-70 (70)
49 KOG0129 Predicted RNA-binding 99.5 1.3E-13 2.9E-18 142.2 14.8 168 4-172 258-438 (520)
50 KOG0122 Translation initiation 99.5 4.4E-14 9.6E-19 133.6 9.4 81 3-83 187-269 (270)
51 TIGR01659 sex-lethal sex-letha 99.5 5.7E-14 1.2E-18 143.8 10.9 80 4-83 192-275 (346)
52 KOG1548 Transcription elongati 99.5 6.6E-13 1.4E-17 131.0 15.0 167 5-176 134-344 (382)
53 KOG0110 RNA-binding protein (R 99.5 2.6E-13 5.7E-18 144.2 12.0 172 3-180 383-594 (725)
54 PF14259 RRM_6: RNA recognitio 99.5 3.2E-13 7E-18 105.8 9.0 68 8-76 1-70 (70)
55 KOG0125 Ataxin 2-binding prote 99.4 3E-13 6.4E-18 132.6 7.8 81 4-86 95-177 (376)
56 PF00076 RRM_1: RNA recognitio 99.4 4.4E-13 9.6E-18 104.1 7.2 63 108-171 1-63 (70)
57 KOG0121 Nuclear cap-binding pr 99.4 3.7E-13 8.1E-18 115.8 7.1 82 3-84 34-117 (153)
58 PLN03120 nucleic acid binding 99.4 9.6E-13 2.1E-17 127.7 10.7 77 4-84 3-81 (260)
59 KOG0124 Polypyrimidine tract-b 99.4 3.5E-12 7.7E-17 126.3 13.8 77 5-81 210-288 (544)
60 KOG0113 U1 small nuclear ribon 99.4 2.1E-13 4.5E-18 132.2 4.1 78 103-180 99-177 (335)
61 KOG4207 Predicted splicing fac 99.4 1.3E-12 2.8E-17 120.9 8.5 87 100-186 8-95 (256)
62 KOG0107 Alternative splicing f 99.4 1.4E-12 3E-17 118.0 7.9 76 4-84 9-86 (195)
63 KOG0113 U1 small nuclear ribon 99.4 1.7E-12 3.6E-17 126.0 9.0 81 4-84 100-182 (335)
64 PLN03121 nucleic acid binding 99.4 5.6E-12 1.2E-16 120.7 12.0 80 1-83 1-81 (243)
65 KOG0121 Nuclear cap-binding pr 99.3 1.4E-12 3E-17 112.3 6.4 78 104-181 35-113 (153)
66 smart00362 RRM_2 RNA recogniti 99.3 5.4E-12 1.2E-16 96.8 8.9 70 7-78 1-72 (72)
67 KOG1190 Polypyrimidine tract-b 99.3 2.3E-12 4.9E-17 129.5 8.4 161 1-171 24-212 (492)
68 PLN03213 repressor of silencin 99.3 1.3E-12 2.8E-17 133.6 6.4 75 5-83 10-88 (759)
69 PF14259 RRM_6: RNA recognitio 99.3 2.1E-12 4.6E-17 101.1 6.2 67 108-175 1-68 (70)
70 KOG1190 Polypyrimidine tract-b 99.3 2.6E-11 5.7E-16 121.9 15.3 167 5-180 297-487 (492)
71 KOG0126 Predicted RNA-binding 99.3 2.1E-13 4.6E-18 123.8 0.2 80 3-82 33-114 (219)
72 smart00360 RRM RNA recognition 99.3 8.3E-12 1.8E-16 95.3 8.6 69 10-78 1-71 (71)
73 KOG4207 Predicted splicing fac 99.3 2.3E-12 5E-17 119.2 6.1 78 4-81 12-91 (256)
74 KOG0120 Splicing factor U2AF, 99.3 8.2E-12 1.8E-16 131.1 10.5 173 4-176 288-483 (500)
75 KOG0125 Ataxin 2-binding prote 99.3 6.7E-12 1.5E-16 123.2 7.8 78 102-181 93-171 (376)
76 PLN03120 nucleic acid binding 99.3 9.3E-12 2E-16 120.9 8.6 74 105-181 4-77 (260)
77 KOG0122 Translation initiation 99.3 8.3E-12 1.8E-16 118.3 7.7 78 103-180 187-265 (270)
78 KOG0114 Predicted RNA-binding 99.3 1.5E-11 3.3E-16 102.3 8.4 82 3-87 16-99 (124)
79 KOG0108 mRNA cleavage and poly 99.3 1.2E-11 2.5E-16 129.1 9.2 82 6-87 19-102 (435)
80 KOG1365 RNA-binding protein Fu 99.3 2.2E-11 4.7E-16 121.6 10.5 173 3-176 58-235 (508)
81 KOG4212 RNA-binding protein hn 99.3 8.1E-11 1.8E-15 119.1 14.6 65 3-68 213-277 (608)
82 cd00590 RRM RRM (RNA recogniti 99.3 3.9E-11 8.5E-16 92.5 9.5 72 7-79 1-74 (74)
83 COG0724 RNA-binding proteins ( 99.3 1.6E-11 3.5E-16 117.7 9.0 77 105-181 115-192 (306)
84 KOG0117 Heterogeneous nuclear 99.2 5.9E-11 1.3E-15 120.7 10.5 106 56-170 43-148 (506)
85 KOG0111 Cyclophilin-type pepti 99.2 1.1E-11 2.4E-16 115.7 4.9 85 1-85 6-92 (298)
86 KOG4205 RNA-binding protein mu 99.2 2.1E-11 4.5E-16 122.3 6.0 118 5-133 97-215 (311)
87 PLN03121 nucleic acid binding 99.2 6.3E-11 1.4E-15 113.5 8.5 73 104-179 4-76 (243)
88 smart00360 RRM RNA recognition 99.2 9.8E-11 2.1E-15 89.3 8.0 67 110-176 1-68 (71)
89 smart00362 RRM_2 RNA recogniti 99.2 8.8E-11 1.9E-15 90.0 7.7 68 107-176 1-69 (72)
90 KOG0107 Alternative splicing f 99.2 6.6E-11 1.4E-15 107.2 7.6 73 104-181 9-82 (195)
91 KOG0130 RNA-binding protein RB 99.2 5.4E-11 1.2E-15 103.4 6.2 81 5-85 72-154 (170)
92 KOG0105 Alternative splicing f 99.1 1.9E-10 4.1E-15 105.0 8.0 75 104-181 5-80 (241)
93 KOG0114 Predicted RNA-binding 99.1 2.7E-10 5.9E-15 94.9 7.9 74 102-178 15-89 (124)
94 PLN03213 repressor of silencin 99.1 1.7E-10 3.7E-15 118.3 8.1 75 103-181 8-85 (759)
95 cd00590 RRM RRM (RNA recogniti 99.1 5.9E-10 1.3E-14 85.8 8.5 69 107-176 1-70 (74)
96 KOG1456 Heterogeneous nuclear 99.1 3.5E-09 7.6E-14 105.7 16.0 172 4-186 286-482 (494)
97 KOG0131 Splicing factor 3b, su 99.1 1.1E-10 2.5E-15 106.3 4.3 80 103-182 7-87 (203)
98 KOG0120 Splicing factor U2AF, 99.1 3.3E-10 7.2E-15 119.1 8.1 165 3-173 173-357 (500)
99 KOG0111 Cyclophilin-type pepti 99.0 8E-11 1.7E-15 109.9 2.9 81 103-183 8-89 (298)
100 smart00361 RRM_1 RNA recogniti 99.0 6.7E-10 1.4E-14 87.6 7.7 60 18-77 1-69 (70)
101 KOG4454 RNA binding protein (R 99.0 1E-10 2.2E-15 109.3 3.1 136 3-170 7-148 (267)
102 KOG0132 RNA polymerase II C-te 99.0 3.9E-10 8.5E-15 121.1 7.8 106 5-127 421-528 (894)
103 KOG4210 Nuclear localization s 99.0 7.5E-10 1.6E-14 110.5 7.8 171 4-180 87-260 (285)
104 KOG0126 Predicted RNA-binding 99.0 7E-11 1.5E-15 107.5 -1.4 75 104-178 34-109 (219)
105 PF13893 RRM_5: RNA recognitio 99.0 2.6E-09 5.7E-14 80.2 7.4 54 22-80 1-56 (56)
106 KOG0108 mRNA cleavage and poly 98.9 1.4E-09 3E-14 113.7 7.2 78 106-183 19-97 (435)
107 KOG0415 Predicted peptidyl pro 98.9 1.6E-09 3.4E-14 107.5 6.5 82 1-82 235-318 (479)
108 KOG0116 RasGAP SH3 binding pro 98.9 7.3E-09 1.6E-13 107.7 11.4 74 105-178 288-361 (419)
109 smart00361 RRM_1 RNA recogniti 98.9 4.2E-09 9.2E-14 83.0 6.9 59 119-177 2-68 (70)
110 KOG0130 RNA-binding protein RB 98.9 3.5E-09 7.6E-14 92.2 6.4 77 104-180 71-148 (170)
111 KOG0146 RNA-binding protein ET 98.8 3E-09 6.5E-14 102.1 5.6 83 3-85 283-367 (371)
112 KOG4208 Nucleolar RNA-binding 98.8 3.1E-08 6.7E-13 92.3 11.1 80 4-83 48-130 (214)
113 KOG0128 RNA-binding protein SA 98.8 2.9E-10 6.3E-15 123.4 -3.8 134 4-170 666-800 (881)
114 KOG1456 Heterogeneous nuclear 98.8 4.5E-08 9.7E-13 97.9 11.8 147 4-170 30-182 (494)
115 KOG0226 RNA-binding proteins [ 98.8 6.5E-09 1.4E-13 99.3 5.6 159 7-176 98-262 (290)
116 KOG0109 RNA-binding protein LA 98.7 1.1E-08 2.4E-13 99.5 5.0 74 4-85 77-152 (346)
117 KOG0153 Predicted RNA-binding 98.7 3.3E-08 7.2E-13 98.2 7.8 74 3-82 226-302 (377)
118 KOG4307 RNA binding protein RB 98.7 3.1E-08 6.8E-13 105.4 6.5 165 3-169 309-498 (944)
119 KOG0415 Predicted peptidyl pro 98.6 3.5E-08 7.7E-13 98.0 5.8 79 100-178 234-313 (479)
120 PF13893 RRM_5: RNA recognitio 98.6 4.4E-08 9.5E-13 73.5 4.2 52 122-178 1-53 (56)
121 KOG0112 Large RNA-binding prot 98.6 4.2E-08 9.1E-13 107.3 4.8 156 3-183 370-530 (975)
122 KOG4661 Hsp27-ERE-TATA-binding 98.6 1.3E-07 2.9E-12 98.7 7.7 79 5-83 405-485 (940)
123 KOG0533 RRM motif-containing p 98.5 2.6E-07 5.7E-12 89.6 8.6 80 4-84 82-163 (243)
124 KOG0153 Predicted RNA-binding 98.5 1.8E-07 4E-12 93.0 6.7 81 97-183 220-302 (377)
125 KOG0116 RasGAP SH3 binding pro 98.5 2.4E-07 5.2E-12 96.5 7.0 81 4-84 287-368 (419)
126 KOG0132 RNA polymerase II C-te 98.5 2.4E-07 5.2E-12 100.1 7.0 71 105-181 421-492 (894)
127 KOG4208 Nucleolar RNA-binding 98.5 3.3E-07 7.1E-12 85.5 6.8 74 103-176 47-121 (214)
128 KOG4206 Spliceosomal protein s 98.5 5.5E-07 1.2E-11 85.2 8.1 77 104-183 8-89 (221)
129 PF04059 RRM_2: RNA recognitio 98.4 1.3E-06 2.8E-11 73.3 9.0 77 6-82 2-86 (97)
130 KOG4454 RNA binding protein (R 98.4 1.9E-07 4.2E-12 87.6 3.9 76 101-178 5-81 (267)
131 KOG4209 Splicing factor RNPS1, 98.3 5.7E-07 1.2E-11 87.2 5.7 82 2-83 98-180 (231)
132 KOG0533 RRM motif-containing p 98.3 9.8E-07 2.1E-11 85.7 7.1 75 103-178 81-156 (243)
133 KOG0226 RNA-binding proteins [ 98.3 5.3E-07 1.1E-11 86.4 4.1 80 2-81 187-268 (290)
134 KOG4209 Splicing factor RNPS1, 98.3 7.3E-07 1.6E-11 86.4 4.8 79 102-180 98-176 (231)
135 KOG4660 Protein Mei2, essentia 98.3 8.4E-07 1.8E-11 93.2 5.0 146 3-160 73-226 (549)
136 KOG4307 RNA binding protein RB 98.2 1.7E-06 3.8E-11 92.5 6.9 71 106-176 868-939 (944)
137 KOG4661 Hsp27-ERE-TATA-binding 98.1 3.4E-06 7.3E-11 88.5 6.2 72 105-176 405-476 (940)
138 KOG0128 RNA-binding protein SA 98.1 2.1E-07 4.5E-12 101.6 -3.4 162 6-173 572-735 (881)
139 PF04059 RRM_2: RNA recognitio 98.0 2.2E-05 4.9E-10 65.9 8.3 68 106-173 2-71 (97)
140 KOG1548 Transcription elongati 98.0 1.1E-05 2.4E-10 80.6 6.9 82 101-183 130-220 (382)
141 KOG1457 RNA binding protein (c 98.0 2.7E-05 5.9E-10 73.6 9.0 86 102-187 31-121 (284)
142 KOG4676 Splicing factor, argin 98.0 5.7E-06 1.2E-10 83.6 4.6 163 5-171 7-213 (479)
143 KOG0151 Predicted splicing reg 97.9 2.4E-05 5.2E-10 84.2 7.3 79 3-81 172-255 (877)
144 KOG1995 Conserved Zn-finger pr 97.9 7.5E-05 1.6E-09 75.2 10.1 80 102-181 63-151 (351)
145 KOG2193 IGF-II mRNA-binding pr 97.9 3.1E-06 6.7E-11 86.2 0.1 136 6-170 2-142 (584)
146 KOG4660 Protein Mei2, essentia 97.8 1.6E-05 3.5E-10 83.7 4.8 70 103-177 73-143 (549)
147 PF08777 RRM_3: RNA binding mo 97.8 2.4E-05 5.2E-10 66.8 4.9 59 106-170 2-60 (105)
148 KOG0151 Predicted splicing reg 97.8 5.7E-05 1.2E-09 81.4 7.8 81 102-182 171-255 (877)
149 PF08777 RRM_3: RNA binding mo 97.8 4.3E-05 9.2E-10 65.3 5.3 59 6-70 2-60 (105)
150 KOG1995 Conserved Zn-finger pr 97.7 3.1E-05 6.8E-10 77.9 4.4 83 3-85 64-156 (351)
151 KOG0106 Alternative splicing f 97.7 2.7E-05 5.9E-10 74.3 3.0 62 106-175 2-63 (216)
152 PF14605 Nup35_RRM_2: Nup53/35 97.6 0.00015 3.2E-09 54.1 5.3 53 5-64 1-53 (53)
153 PF11608 Limkain-b1: Limkain b 97.6 0.0003 6.6E-09 57.0 7.1 67 6-82 3-76 (90)
154 KOG4210 Nuclear localization s 97.4 8.3E-05 1.8E-09 74.5 3.1 81 6-86 185-267 (285)
155 KOG4849 mRNA cleavage factor I 97.4 0.00026 5.6E-09 70.8 6.1 73 104-176 79-153 (498)
156 KOG1855 Predicted RNA-binding 97.3 9.8E-05 2.1E-09 75.7 1.7 69 102-170 228-309 (484)
157 KOG2314 Translation initiation 97.2 0.00027 5.9E-09 74.7 4.4 74 5-79 58-140 (698)
158 PF14605 Nup35_RRM_2: Nup53/35 97.2 0.00062 1.3E-08 50.8 4.9 52 106-164 2-53 (53)
159 PF11608 Limkain-b1: Limkain b 97.0 0.0016 3.5E-08 52.9 5.9 65 106-180 3-73 (90)
160 KOG0129 Predicted RNA-binding 97.0 0.0022 4.7E-08 67.6 8.0 78 4-81 369-452 (520)
161 KOG1855 Predicted RNA-binding 96.9 0.0013 2.7E-08 67.8 5.7 66 4-69 230-308 (484)
162 KOG0115 RNA-binding protein p5 96.9 0.0023 4.9E-08 62.0 7.0 88 59-170 6-95 (275)
163 PF05172 Nup35_RRM: Nup53/35/4 96.7 0.0044 9.6E-08 52.4 6.3 79 3-82 4-91 (100)
164 KOG4849 mRNA cleavage factor I 96.5 0.0024 5.3E-08 64.1 4.2 72 6-77 81-156 (498)
165 PF10567 Nab6_mRNP_bdg: RNA-re 96.4 0.043 9.3E-07 54.4 11.9 165 5-170 15-214 (309)
166 PF10309 DUF2414: Protein of u 96.4 0.017 3.6E-07 44.5 7.1 56 104-167 4-62 (62)
167 KOG3152 TBP-binding protein, a 96.2 0.0048 1E-07 59.8 3.8 71 4-74 73-157 (278)
168 COG5175 MOT2 Transcriptional r 96.2 0.011 2.3E-07 59.4 6.2 79 104-182 113-201 (480)
169 PF08675 RNA_bind: RNA binding 96.0 0.02 4.4E-07 46.5 6.2 59 102-169 6-64 (87)
170 COG5175 MOT2 Transcriptional r 95.9 0.017 3.6E-07 58.0 6.5 79 5-83 114-203 (480)
171 PF10309 DUF2414: Protein of u 95.9 0.033 7.2E-07 42.8 6.6 55 5-67 5-62 (62)
172 KOG0921 Dosage compensation co 95.9 0.078 1.7E-06 59.7 11.8 15 224-238 1184-1198(1282)
173 KOG0115 RNA-binding protein p5 95.9 0.02 4.3E-07 55.7 6.4 62 6-68 32-93 (275)
174 KOG3152 TBP-binding protein, a 95.8 0.014 3E-07 56.6 5.3 74 104-177 73-158 (278)
175 KOG1996 mRNA splicing factor [ 95.6 0.026 5.6E-07 55.8 6.1 58 119-176 300-358 (378)
176 KOG0921 Dosage compensation co 95.5 0.096 2.1E-06 59.0 11.0 13 44-56 899-911 (1282)
177 KOG2314 Translation initiation 95.5 0.041 8.9E-07 58.7 7.7 68 104-172 57-130 (698)
178 KOG2591 c-Mpl binding protein, 95.4 0.025 5.3E-07 60.2 5.8 68 4-78 174-247 (684)
179 KOG2591 c-Mpl binding protein, 95.3 0.05 1.1E-06 58.0 7.5 66 104-176 174-244 (684)
180 KOG2416 Acinus (induces apopto 95.1 0.017 3.6E-07 61.9 3.5 68 101-174 440-508 (718)
181 PF05172 Nup35_RRM: Nup53/35/4 95.1 0.041 9E-07 46.5 5.0 71 105-176 6-83 (100)
182 PF07292 NID: Nmi/IFP 35 domai 95.0 0.018 3.8E-07 47.6 2.6 71 50-127 1-74 (88)
183 KOG2202 U2 snRNP splicing fact 95.0 0.013 2.9E-07 56.8 2.2 64 20-84 83-149 (260)
184 PF08675 RNA_bind: RNA binding 95.0 0.11 2.3E-06 42.4 6.9 56 5-69 9-64 (87)
185 KOG4676 Splicing factor, argin 94.9 0.018 3.9E-07 58.8 2.8 73 106-178 8-83 (479)
186 KOG1996 mRNA splicing factor [ 94.8 0.069 1.5E-06 52.9 6.5 64 18-81 299-365 (378)
187 PF15023 DUF4523: Protein of u 94.0 0.22 4.7E-06 44.6 7.2 73 101-180 82-158 (166)
188 KOG2135 Proteins containing th 93.9 0.033 7.1E-07 58.3 2.1 78 1-84 368-447 (526)
189 PF15023 DUF4523: Protein of u 93.5 0.36 7.7E-06 43.3 7.6 74 2-82 83-161 (166)
190 PF03467 Smg4_UPF3: Smg-4/UPF3 93.4 0.071 1.5E-06 49.7 3.4 67 104-170 6-78 (176)
191 KOG0804 Cytoplasmic Zn-finger 93.0 0.43 9.3E-06 50.0 8.5 64 4-69 73-137 (493)
192 PF07576 BRAP2: BRCA1-associat 92.8 1 2.2E-05 38.9 9.3 68 103-172 11-79 (110)
193 PF08952 DUF1866: Domain of un 92.8 0.3 6.5E-06 44.0 6.2 73 3-83 25-107 (146)
194 KOG2202 U2 snRNP splicing fact 92.6 0.057 1.2E-06 52.5 1.5 55 121-176 84-140 (260)
195 PF03467 Smg4_UPF3: Smg-4/UPF3 92.5 0.14 3E-06 47.9 3.9 67 3-69 5-77 (176)
196 KOG0112 Large RNA-binding prot 92.3 0.24 5.2E-06 55.8 6.0 74 4-83 454-531 (975)
197 KOG2068 MOT2 transcription fac 91.0 0.21 4.5E-06 50.5 3.5 80 5-84 77-164 (327)
198 KOG2416 Acinus (induces apopto 90.0 0.23 5E-06 53.5 3.0 72 4-81 443-520 (718)
199 PF07576 BRAP2: BRCA1-associat 89.7 3.5 7.6E-05 35.5 9.5 62 6-69 14-76 (110)
200 KOG2253 U1 snRNP complex, subu 89.3 0.27 5.8E-06 53.7 2.9 116 4-128 39-158 (668)
201 KOG2135 Proteins containing th 88.6 0.23 5E-06 52.2 1.8 67 108-180 375-442 (526)
202 KOG4285 Mitotic phosphoprotein 88.1 2.5 5.3E-05 42.4 8.4 73 5-84 197-271 (350)
203 KOG2068 MOT2 transcription fac 85.8 0.48 1E-05 47.9 2.1 79 103-181 75-160 (327)
204 PF08952 DUF1866: Domain of un 85.6 1 2.2E-05 40.6 3.9 52 121-180 52-103 (146)
205 KOG4285 Mitotic phosphoprotein 85.4 2.7 5.8E-05 42.1 7.0 63 107-176 199-261 (350)
206 PF14111 DUF4283: Domain of un 84.8 0.95 2.1E-05 40.4 3.5 109 16-139 28-139 (153)
207 PF04847 Calcipressin: Calcipr 84.4 2.1 4.5E-05 40.3 5.6 61 17-83 7-71 (184)
208 KOG2193 IGF-II mRNA-binding pr 83.1 0.98 2.1E-05 47.0 3.0 57 106-170 2-60 (584)
209 TIGR02542 B_forsyth_147 Bacter 83.1 2.2 4.8E-05 36.8 4.7 112 13-157 11-129 (145)
210 PF03880 DbpA: DbpA RNA bindin 82.8 4.6 0.0001 31.9 6.2 56 16-80 12-74 (74)
211 KOG0804 Cytoplasmic Zn-finger 81.8 5.2 0.00011 42.2 7.7 67 105-173 74-141 (493)
212 KOG4574 RNA-binding protein (c 81.0 1 2.2E-05 50.6 2.4 74 6-85 299-376 (1007)
213 KOG4410 5-formyltetrahydrofola 79.3 7 0.00015 39.0 7.2 59 105-168 330-395 (396)
214 KOG2253 U1 snRNP complex, subu 78.8 1.8 3.9E-05 47.5 3.4 60 103-171 38-97 (668)
215 PF02714 DUF221: Domain of unk 78.0 3.8 8.2E-05 41.5 5.4 56 50-127 1-56 (325)
216 KOG4483 Uncharacterized conser 77.2 3.6 7.8E-05 42.7 4.8 58 5-69 391-449 (528)
217 PF11767 SET_assoc: Histone ly 76.7 9.5 0.00021 29.8 6.0 45 16-69 11-55 (66)
218 COG5594 Uncharacterized integr 75.6 1.6 3.5E-05 49.2 2.0 28 3-30 206-234 (827)
219 KOG4574 RNA-binding protein (c 75.4 1.7 3.7E-05 48.9 2.1 70 107-182 300-372 (1007)
220 PF07530 PRE_C2HC: Associated 74.5 4.5 9.8E-05 31.7 3.7 63 20-83 2-65 (68)
221 PF04847 Calcipressin: Calcipr 74.2 4 8.8E-05 38.4 4.0 58 118-181 8-68 (184)
222 smart00596 PRE_C2HC PRE_C2HC d 70.3 4.8 0.0001 31.7 2.9 63 20-83 2-65 (69)
223 KOG2891 Surface glycoprotein [ 69.6 16 0.00035 36.3 7.0 36 104-139 148-195 (445)
224 KOG2318 Uncharacterized conser 69.2 18 0.00038 39.5 7.8 39 2-40 171-214 (650)
225 PF03468 XS: XS domain; Inter 68.5 6.9 0.00015 34.0 3.9 48 7-57 10-66 (116)
226 PF03468 XS: XS domain; Inter 67.5 13 0.00027 32.4 5.3 44 118-164 30-74 (116)
227 PF10567 Nab6_mRNP_bdg: RNA-re 61.2 17 0.00037 36.5 5.5 62 101-162 11-79 (309)
228 PF11767 SET_assoc: Histone ly 58.0 41 0.0009 26.2 6.1 48 115-171 10-57 (66)
229 KOG4019 Calcineurin-mediated s 56.8 10 0.00022 35.5 2.9 72 6-83 11-90 (193)
230 PRK14548 50S ribosomal protein 54.4 38 0.00081 27.8 5.6 55 9-66 24-80 (84)
231 PF00837 T4_deiodinase: Iodoth 51.6 4.6 9.9E-05 39.4 -0.2 108 18-129 120-236 (237)
232 TIGR02515 IV_pilus_PilQ type I 51.2 15 0.00033 38.8 3.6 141 16-168 7-159 (418)
233 PF08734 GYD: GYD domain; Int 50.0 94 0.002 25.6 7.4 63 18-84 21-84 (91)
234 KOG4483 Uncharacterized conser 48.4 60 0.0013 34.0 7.1 66 104-176 390-456 (528)
235 PF15513 DUF4651: Domain of un 48.1 38 0.00082 26.1 4.3 20 119-138 8-27 (62)
236 KOG4213 RNA-binding protein La 48.1 20 0.00044 33.5 3.4 50 16-67 120-170 (205)
237 PF08002 DUF1697: Protein of u 47.6 75 0.0016 28.2 7.0 123 6-138 4-132 (137)
238 KOG4410 5-formyltetrahydrofola 47.5 31 0.00068 34.5 4.8 47 6-57 331-377 (396)
239 KOG2891 Surface glycoprotein [ 47.2 12 0.00027 37.1 2.0 35 5-39 149-195 (445)
240 PF15513 DUF4651: Domain of un 47.2 37 0.00079 26.2 4.1 19 19-37 8-26 (62)
241 KOG4008 rRNA processing protei 46.4 14 0.00031 35.9 2.2 35 1-35 36-70 (261)
242 PF14893 PNMA: PNMA 42.6 22 0.00047 36.6 3.1 24 5-28 18-41 (331)
243 PF14026 DUF4242: Protein of u 42.0 1.8E+02 0.0038 23.2 8.2 58 108-167 3-67 (77)
244 TIGR03636 L23_arch archaeal ri 39.3 76 0.0016 25.5 5.1 56 8-66 16-73 (77)
245 PF07292 NID: Nmi/IFP 35 domai 38.9 16 0.00034 30.2 1.1 25 3-27 50-74 (88)
246 COG5193 LHP1 La protein, small 38.5 11 0.00025 39.2 0.3 61 5-65 174-244 (438)
247 PTZ00237 acetyl-CoA synthetase 38.4 3.7E+02 0.0081 29.8 12.3 41 15-55 523-564 (647)
248 COG3048 DsdA D-serine dehydrat 38.3 54 0.0012 33.4 4.9 29 103-134 239-267 (443)
249 PRK08279 long-chain-acyl-CoA s 37.8 2.3E+02 0.005 30.8 10.5 117 15-163 470-594 (600)
250 KOG2295 C2H2 Zn-finger protein 37.7 6.3 0.00014 42.6 -1.7 66 104-169 230-295 (648)
251 PF00403 HMA: Heavy-metal-asso 37.2 1.5E+02 0.0033 21.7 6.3 56 107-168 1-60 (62)
252 PTZ00191 60S ribosomal protein 36.1 97 0.0021 28.1 5.8 56 4-64 82-139 (145)
253 PRK14548 50S ribosomal protein 36.1 1.2E+02 0.0026 24.8 5.8 56 109-167 24-81 (84)
254 KOG1175 Acyl-CoA synthetase [L 35.9 56 0.0012 36.5 5.1 115 17-167 508-624 (626)
255 PRK08559 nusG transcription an 35.7 99 0.0021 28.0 6.0 63 1-69 1-68 (153)
256 COG5193 LHP1 La protein, small 35.7 20 0.00043 37.5 1.5 62 104-165 173-244 (438)
257 PF11411 DNA_ligase_IV: DNA li 34.2 28 0.00061 23.8 1.5 16 15-30 19-34 (36)
258 TIGR03636 L23_arch archaeal ri 33.3 1.5E+02 0.0033 23.8 5.9 57 108-167 16-74 (77)
259 PRK10629 EnvZ/OmpR regulon mod 32.9 1.6E+02 0.0035 26.0 6.6 52 117-176 50-102 (127)
260 cd00187 TOP4c DNA Topoisomeras 32.9 1.3E+02 0.0027 32.4 7.0 59 6-66 226-288 (445)
261 PRK11230 glycolate oxidase sub 32.7 3.6E+02 0.0079 29.3 10.7 50 18-68 202-255 (499)
262 PF09869 DUF2096: Uncharacteri 32.4 2E+02 0.0043 26.7 7.2 52 105-167 112-163 (169)
263 PF07876 Dabb: Stress responsi 32.3 2.1E+02 0.0046 22.8 7.0 52 111-162 7-69 (97)
264 COG4874 Uncharacterized protei 32.1 1.6E+02 0.0034 29.1 6.8 30 1-31 154-183 (318)
265 COG5638 Uncharacterized conser 31.8 1.3E+02 0.0028 31.8 6.5 36 4-39 145-185 (622)
266 CHL00123 rps6 ribosomal protei 31.7 1.5E+02 0.0033 24.7 6.0 63 13-75 14-90 (97)
267 KOG2014 SMT3/SUMO-activating c 31.2 53 0.0011 33.4 3.6 62 111-173 241-309 (331)
268 PF04278 Tic22: Tic22-like fam 29.6 4.9E+02 0.011 26.0 10.3 139 17-170 63-224 (274)
269 PHA00019 IV phage assembly pro 29.2 2E+02 0.0044 30.5 7.9 30 13-42 24-53 (428)
270 KOG1177 Long chain fatty acid 29.1 4.1E+02 0.0089 29.1 9.8 91 15-129 492-588 (596)
271 COG0445 GidA Flavin-dependent 29.1 1.1E+02 0.0024 33.7 5.8 91 49-139 238-335 (621)
272 TIGR01124 ilvA_2Cterm threonin 28.8 4.9E+02 0.011 28.3 10.9 107 44-157 360-468 (499)
273 KOG3973 Uncharacterized conser 28.7 2.5E+02 0.0054 29.1 7.8 9 118-126 199-207 (465)
274 PF01037 AsnC_trans_reg: AsnC 28.5 2.5E+02 0.0055 21.0 7.0 51 18-72 11-62 (74)
275 PF00521 DNA_topoisoIV: DNA gy 27.9 93 0.002 33.1 5.1 60 6-69 217-280 (426)
276 PRK11901 hypothetical protein; 27.6 1E+02 0.0022 31.6 4.9 56 115-172 252-309 (327)
277 PRK10905 cell division protein 27.4 96 0.0021 31.7 4.7 57 113-171 252-310 (328)
278 KOG2295 C2H2 Zn-finger protein 27.4 10 0.00023 41.0 -2.1 62 5-66 231-292 (648)
279 PF02426 MIase: Muconolactone 27.0 3.6E+02 0.0078 22.4 7.3 64 12-79 10-83 (91)
280 COG0351 ThiD Hydroxymethylpyri 26.8 1.4E+02 0.003 29.8 5.6 59 7-80 49-107 (263)
281 PF08734 GYD: GYD domain; Int 26.3 2.4E+02 0.0052 23.1 6.2 46 119-168 22-68 (91)
282 cd06313 PBP1_ABC_sugar_binding 26.0 2.8E+02 0.0061 26.6 7.8 22 48-69 97-118 (272)
283 PRK09631 DNA topoisomerase IV 25.6 1.5E+02 0.0033 33.3 6.3 60 4-67 219-282 (635)
284 PRK10560 hofQ outer membrane p 25.3 1.3E+02 0.0029 31.4 5.6 61 18-81 3-69 (386)
285 cd00874 RNA_Cyclase_Class_II R 25.3 4.8E+02 0.01 26.8 9.5 48 107-155 188-238 (326)
286 KOG3424 40S ribosomal protein 24.9 1.7E+02 0.0037 25.6 5.1 46 16-62 34-84 (132)
287 PF15063 TC1: Thyroid cancer p 24.5 30 0.00065 27.7 0.4 52 104-167 24-78 (79)
288 KOG3424 40S ribosomal protein 24.3 1.5E+02 0.0032 26.0 4.6 47 115-162 33-84 (132)
289 KOG4008 rRNA processing protei 23.9 58 0.0013 31.8 2.3 33 104-136 39-71 (261)
290 PRK12758 DNA topoisomerase IV 23.7 3.2E+02 0.007 31.9 8.5 60 4-67 240-303 (869)
291 COG4010 Uncharacterized protei 22.9 1.7E+02 0.0038 26.5 4.9 46 112-167 118-163 (170)
292 KOG2854 Possible pfkB family c 22.6 2.5E+02 0.0054 29.0 6.6 37 4-40 80-116 (343)
293 KOG3705 Glycoprotein 6-alpha-L 22.4 2.7E+02 0.0058 29.5 6.9 31 14-44 343-376 (580)
294 TIGR00387 glcD glycolate oxida 21.9 6.3E+02 0.014 26.5 10.0 52 16-68 143-198 (413)
295 COG1098 VacB Predicted RNA bin 21.8 3.8E+02 0.0082 23.7 6.7 48 29-81 5-62 (129)
296 PHA02531 20 portal vertex prot 21.8 1.4E+02 0.003 32.3 4.8 38 105-146 281-318 (514)
297 TIGR01061 parC_Gpos DNA topois 21.8 2.2E+02 0.0049 32.6 6.9 59 5-65 248-310 (738)
298 PRK11901 hypothetical protein; 21.7 1.7E+02 0.0036 30.1 5.2 50 17-68 254-305 (327)
299 PF03880 DbpA: DbpA RNA bindin 21.6 3E+02 0.0066 21.4 5.8 56 114-178 10-71 (74)
300 PF03108 DBD_Tnp_Mut: MuDR fam 21.5 1.2E+02 0.0027 22.9 3.4 32 52-83 8-39 (67)
301 COG0079 HisC Histidinol-phosph 21.4 9.1E+02 0.02 24.9 11.3 43 4-56 145-191 (356)
302 PF13721 SecD-TM1: SecD export 21.3 2E+02 0.0044 24.1 5.0 48 120-175 49-97 (101)
303 PRK05560 DNA gyrase subunit A; 21.2 2.3E+02 0.005 32.9 6.9 60 5-66 251-314 (805)
304 COG2061 ACT-domain-containing 21.0 6.6E+02 0.014 23.1 12.3 63 104-169 87-153 (170)
305 PF12829 Mhr1: Transcriptional 21.0 1.4E+02 0.0031 24.8 3.8 54 112-169 19-73 (91)
306 PLN02707 Soluble inorganic pyr 21.0 46 0.00099 33.2 1.0 42 19-69 207-249 (267)
307 KOG4213 RNA-binding protein La 20.8 53 0.0011 30.8 1.3 61 105-170 111-173 (205)
308 PF08544 GHMP_kinases_C: GHMP 20.7 2.7E+02 0.0058 21.5 5.4 44 20-68 37-80 (85)
309 PRK01178 rps24e 30S ribosomal 20.7 2.1E+02 0.0046 24.1 4.8 48 16-64 30-82 (99)
310 cd04908 ACT_Bt0572_1 N-termina 20.6 3.6E+02 0.0079 20.0 8.0 57 107-168 3-61 (66)
311 cd06308 PBP1_sensor_kinase_lik 20.3 5.3E+02 0.011 24.4 8.4 29 49-77 97-127 (270)
312 cd06314 PBP1_tmGBP Periplasmic 20.2 6.7E+02 0.015 23.7 9.2 22 48-69 94-115 (271)
313 cd06301 PBP1_rhizopine_binding 20.1 3.9E+02 0.0084 25.2 7.4 23 47-69 96-118 (272)
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=100.00 E-value=2.8e-34 Score=292.72 Aligned_cols=165 Identities=22% Similarity=0.416 Sum_probs=148.0
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
.+.++|||++||++++|++|+++|++||+|++|+|++|+.|+++||||||+|+++++|++||++++. |.+++|+|.++
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 4578999999999999999999999999999999999999999999999999999999999998876 88999999988
Q ss_pred CCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHH
Q 012289 81 VPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAV 160 (466)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A 160 (466)
.+.... ...++|||.|||+++||++|+++|++||+|++|+|++|+.|+++|+||||+|+++++|
T Consensus 185 ~p~~~~----------------~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A 248 (346)
T TIGR01659 185 RPGGES----------------IKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEA 248 (346)
T ss_pred cccccc----------------cccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHH
Confidence 754311 1345899999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHCCCCCCC---CCcccCCCCC
Q 012289 161 DKVKRAVPKELSP---GPTRSPLGGY 183 (466)
Q Consensus 161 ~~Ai~~l~~~~~~---~~~r~~~g~~ 183 (466)
++||++|+..+.. ++++|.+...
T Consensus 249 ~~Ai~~lng~~~~g~~~~l~V~~a~~ 274 (346)
T TIGR01659 249 QEAISALNNVIPEGGSQPLTVRLAEE 274 (346)
T ss_pred HHHHHHhCCCccCCCceeEEEEECCc
Confidence 9999999998543 4566666543
No 2
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.96 E-value=1.5e-28 Score=251.25 Aligned_cols=154 Identities=23% Similarity=0.508 Sum_probs=142.0
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
..++|||+|||++++|+||+++|++||+|++|+|++|+.++++||||||+|.++++|++||+.++. |.++.|.|+++.
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~ 81 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR 81 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence 478999999999999999999999999999999999999999999999999999999999998876 889999999987
Q ss_pred CcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHH
Q 012289 82 PRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVD 161 (466)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~ 161 (466)
+.... ...++|||+|||..+++++|+++|++||.|+.++|+.|+.++.+++||||+|++.++|+
T Consensus 82 ~~~~~----------------~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~ 145 (352)
T TIGR01661 82 PSSDS----------------IKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEAD 145 (352)
T ss_pred ccccc----------------cccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHH
Confidence 65421 23568999999999999999999999999999999999988999999999999999999
Q ss_pred HHHHHCCCCCCC
Q 012289 162 KVKRAVPKELSP 173 (466)
Q Consensus 162 ~Ai~~l~~~~~~ 173 (466)
+||+.|+.....
T Consensus 146 ~ai~~l~g~~~~ 157 (352)
T TIGR01661 146 RAIKTLNGTTPS 157 (352)
T ss_pred HHHHHhCCCccC
Confidence 999999987554
No 3
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.96 E-value=1.1e-28 Score=245.79 Aligned_cols=219 Identities=50% Similarity=0.915 Sum_probs=173.5
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHH-HhccCCCceEEEeecC
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQ-EKHNIDGRMVEAKKAV 81 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~-~~~~i~Gr~I~V~~a~ 81 (466)
.+.++|||++|+|+++||.|+++|.+||+|.+|+||+|+.++++|+|+||+|+++++..++|. ..|.|+++.|+++++.
T Consensus 4 ~~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av 83 (311)
T KOG4205|consen 4 GESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAV 83 (311)
T ss_pred cCCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceecc
Confidence 378999999999999999999999999999999999999999999999999999999999988 4688999999999999
Q ss_pred CcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHH
Q 012289 82 PRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVD 161 (466)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~ 161 (466)
++.++.+..+. ..+++|||+.||.++++++||++|++|+.|.++.++.|+.+.++|+|+||.|+++++++
T Consensus 84 ~r~~~~~~~~~----------~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVd 153 (311)
T KOG4205|consen 84 SREDQTKVGRH----------LRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVD 153 (311)
T ss_pred Ccccccccccc----------cceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccc
Confidence 99877654332 26889999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHCCCCCCCCCcccCCCCC------------------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCC
Q 012289 162 KVKRAVPKELSPGPTRSPLGGY------------------HYGLSRVNSFLNGYTQGYTPSTVGGYGLRMDG-RFSPVAG 222 (466)
Q Consensus 162 ~Ai~~l~~~~~~~~~r~~~g~~------------------~~~~~~~~~~~~g~~~G~~~~~~GgyG~r~~g-r~~~~~g 222 (466)
+++...-.++....+.|..+-. .++..+.+.++..+..++.+.....|+.++.+ ++++...
T Consensus 154 kv~~~~f~~~~gk~vevkrA~pk~~~~~~~~~~~~~~~~~~~g~~~~~~~l~~~~~g~~~~~~~~~~~~~~~~~~~~~~~ 233 (311)
T KOG4205|consen 154 KVTLQKFHDFNGKKVEVKRAIPKEVMQSTKSSVSTRGKGNNLGNGRTGFFLKKYFKGYGPVGMSDYGGRPVGRRYGPLFN 233 (311)
T ss_pred eecccceeeecCceeeEeeccchhhccccccccccccccccccccccccccchhccccCccccccccccccccccccccC
Confidence 9887776666666654432211 11112222233444556655544445444444 4444434
Q ss_pred CCCCCCCCC
Q 012289 223 GRSGFPPFG 231 (466)
Q Consensus 223 g~gG~~~~G 231 (466)
.+.+|..|+
T Consensus 234 ~g~g~~~~~ 242 (311)
T KOG4205|consen 234 GGSGYPEFG 242 (311)
T ss_pred CCccccccC
Confidence 445555554
No 4
>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=99.96 E-value=1.3e-28 Score=264.19 Aligned_cols=174 Identities=19% Similarity=0.395 Sum_probs=148.2
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
...++|||+|||++++|++|+++|++||+|++|+|++|+.|+++||||||+|.++++|++||++++. |++|.|+|.+.
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 3568999999999999999999999999999999999999999999999999999999999998876 88999999865
Q ss_pred CCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHH
Q 012289 81 VPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAV 160 (466)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A 160 (466)
........... .........++|||+|||+++++++|+++|++||+|++|+|++|+.++++||||||+|+++++|
T Consensus 185 ~~~p~a~~~~~-----~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A 259 (612)
T TIGR01645 185 SNMPQAQPIID-----MVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQ 259 (612)
T ss_pred ccccccccccc-----cccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHH
Confidence 43221110000 0011112457999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHCCCC-CCCCCcccCCC
Q 012289 161 DKVKRAVPKE-LSPGPTRSPLG 181 (466)
Q Consensus 161 ~~Ai~~l~~~-~~~~~~r~~~g 181 (466)
++||+.++.. +.++.+|+.+.
T Consensus 260 ~kAI~amNg~elgGr~LrV~kA 281 (612)
T TIGR01645 260 SEAIASMNLFDLGGQYLRVGKC 281 (612)
T ss_pred HHHHHHhCCCeeCCeEEEEEec
Confidence 9999999987 67777787543
No 5
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=3.4e-28 Score=231.01 Aligned_cols=176 Identities=26% Similarity=0.464 Sum_probs=151.5
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCC
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVP 82 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~ 82 (466)
.-.|||+.|..+|+-|+||+.|.+||+|.+++|++|.+|+++|||+||.|.++++||.||+.|+. |..|.|+-.||..
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATR 141 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATR 141 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeecccccc
Confidence 34699999999999999999999999999999999999999999999999999999999999998 8899999999987
Q ss_pred cchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHH
Q 012289 83 RDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDK 162 (466)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~ 162 (466)
+..........-...-....++.++|||+|++.-+||++||+.|++||+|.+|+|.+| +||+||+|+++|+|.+
T Consensus 142 Kp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~------qGYaFVrF~tkEaAah 215 (321)
T KOG0148|consen 142 KPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD------QGYAFVRFETKEAAAH 215 (321)
T ss_pred CccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc------cceEEEEecchhhHHH
Confidence 6633222222222222344567889999999999999999999999999999999988 6899999999999999
Q ss_pred HHHHCCCC-CCCCCcccCCCCCCCC
Q 012289 163 VKRAVPKE-LSPGPTRSPLGGYHYG 186 (466)
Q Consensus 163 Ai~~l~~~-~~~~~~r~~~g~~~~~ 186 (466)
||..++.+ +.+..+||.||+....
T Consensus 216 AIv~mNntei~G~~VkCsWGKe~~~ 240 (321)
T KOG0148|consen 216 AIVQMNNTEIGGQLVRCSWGKEGDD 240 (321)
T ss_pred HHHHhcCceeCceEEEEeccccCCC
Confidence 99999887 5555669999887554
No 6
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.96 E-value=3.9e-27 Score=236.72 Aligned_cols=172 Identities=24% Similarity=0.425 Sum_probs=140.2
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccC---CCceEEEeec
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNI---DGRMVEAKKA 80 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i---~Gr~I~V~~a 80 (466)
.-|.|||+.||.|+.|+||+.+|++.|+|.+++||+|+.++.+||||||.|+++++|++|++.+|.. .+|.|.|+.+
T Consensus 82 ~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~S 161 (506)
T KOG0117|consen 82 RGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVS 161 (506)
T ss_pred CCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEe
Confidence 3589999999999999999999999999999999999999999999999999999999999998774 5888887665
Q ss_pred CCc----------chhh--hh---c-------------------cCC---------------------------------
Q 012289 81 VPR----------DDQI--VL---N-------------------RSS--------------------------------- 93 (466)
Q Consensus 81 ~~~----------~~~~--~~---~-------------------~~~--------------------------------- 93 (466)
... .... .+ + ++.
T Consensus 162 van~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~t 241 (506)
T KOG0117|consen 162 VANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAIT 241 (506)
T ss_pred eecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcce
Confidence 321 1100 00 0 000
Q ss_pred ------CCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHC
Q 012289 94 ------GSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAV 167 (466)
Q Consensus 94 ------~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l 167 (466)
....+.....+.+.|||+||+.++|||.|+++|++||.|++|+.++| ||||+|.+.++|.+|++.+
T Consensus 242 VdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ 313 (506)
T KOG0117|consen 242 VDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKET 313 (506)
T ss_pred eeccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHh
Confidence 00011112345689999999999999999999999999999998866 9999999999999999999
Q ss_pred CCC-CCCCCcccCCCCC
Q 012289 168 PKE-LSPGPTRSPLGGY 183 (466)
Q Consensus 168 ~~~-~~~~~~r~~~g~~ 183 (466)
+.+ +.+.+|++.|++-
T Consensus 314 ngkeldG~~iEvtLAKP 330 (506)
T KOG0117|consen 314 NGKELDGSPIEVTLAKP 330 (506)
T ss_pred cCceecCceEEEEecCC
Confidence 886 7777888877654
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.95 E-value=2.3e-27 Score=242.47 Aligned_cols=178 Identities=20% Similarity=0.361 Sum_probs=144.0
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCC--ceEEEee
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDG--RMVEAKK 79 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~G--r~I~V~~ 79 (466)
..++|||+|||++++|++|+++|++||+|+.++|+.++.++.+++||||+|+++++|++||+.++. +.+ ++|.|++
T Consensus 88 ~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~ 167 (352)
T TIGR01661 88 KGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKF 167 (352)
T ss_pred ccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence 467899999999999999999999999999999999988889999999999999999999999877 444 5677777
Q ss_pred cCCcchhhhh---c-------cCCCC------------------------------------------------CCC---
Q 012289 80 AVPRDDQIVL---N-------RSSGS------------------------------------------------IHG--- 98 (466)
Q Consensus 80 a~~~~~~~~~---~-------~~~~~------------------------------------------------~~~--- 98 (466)
+......... . ..... ...
T Consensus 168 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (352)
T TIGR01661 168 ANNPSSSNSKGLLSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHAAQRASPP 247 (352)
T ss_pred CCCCCcCCchhcCchhhcccCcccCCCCccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccccccccCCCc
Confidence 6543311000 0 00000 000
Q ss_pred ---------------CCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHH
Q 012289 99 ---------------SPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKV 163 (466)
Q Consensus 99 ---------------~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~A 163 (466)
.......++|||+|||+++++++|+++|++||.|++|+|++|+.|+++||||||+|++.++|.+|
T Consensus 248 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~A 327 (352)
T TIGR01661 248 ATDGQTAGLAAGAQIAASDGAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMA 327 (352)
T ss_pred cccccccccccCCCCCCCCCCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHH
Confidence 00012234699999999999999999999999999999999999999999999999999999999
Q ss_pred HHHCCCC-CCCCCcccCCC
Q 012289 164 KRAVPKE-LSPGPTRSPLG 181 (466)
Q Consensus 164 i~~l~~~-~~~~~~r~~~g 181 (466)
|++|++. +.+++|++.+.
T Consensus 328 i~~lnG~~~~gr~i~V~~~ 346 (352)
T TIGR01661 328 ILSLNGYTLGNRVLQVSFK 346 (352)
T ss_pred HHHhCCCEECCeEEEEEEc
Confidence 9998886 77788887654
No 8
>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=99.95 E-value=3.2e-27 Score=249.93 Aligned_cols=176 Identities=24% Similarity=0.427 Sum_probs=148.5
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHh-ccCCCceEEEeecC
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEK-HNIDGRMVEAKKAV 81 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~-~~i~Gr~I~V~~a~ 81 (466)
.+.++|||+|||+++++++|+++|++||+|++|+|++++.++++||||||+|.++++|++||+.. ..+.++.|.|+.+.
T Consensus 87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~~~ 166 (457)
T TIGR01622 87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQSSQ 166 (457)
T ss_pred cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEeecc
Confidence 45789999999999999999999999999999999999999999999999999999999999732 23889999998765
Q ss_pred CcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHH
Q 012289 82 PRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVD 161 (466)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~ 161 (466)
............ .....+..++|||+|||+.+|+++|+++|++||.|+.|.|++|+.++++++||||+|.++++|+
T Consensus 167 ~~~~~~~~~~~~----~~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~ 242 (457)
T TIGR01622 167 AEKNRAAKAATH----QPGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAK 242 (457)
T ss_pred hhhhhhhhcccc----cCCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHH
Confidence 433222110100 0111123789999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHCCCC-CCCCCcccCCCC
Q 012289 162 KVKRAVPKE-LSPGPTRSPLGG 182 (466)
Q Consensus 162 ~Ai~~l~~~-~~~~~~r~~~g~ 182 (466)
+|++.|++. +.+++|++.+..
T Consensus 243 ~A~~~l~g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 243 EALEVMNGFELAGRPIKVGYAQ 264 (457)
T ss_pred HHHHhcCCcEECCEEEEEEEcc
Confidence 999988875 677788887754
No 9
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.95 E-value=5.9e-28 Score=241.57 Aligned_cols=153 Identities=31% Similarity=0.519 Sum_probs=139.5
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccCC-----CceEEE
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNID-----GRMVEA 77 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i~-----Gr~I~V 77 (466)
.+.-+|||+-||..++|+||+++|++||.|.+|.|++|+.|+.+||||||.|.+.++|.+|+..+|+++ ..+|.|
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 456689999999999999999999999999999999999999999999999999999999999998843 567788
Q ss_pred eecCCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCH
Q 012289 78 KKAVPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSE 157 (466)
Q Consensus 78 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~ 157 (466)
+.|..+.+.. ...++|||+-|+..+||+|++++|.+||.|++|.|++|.+ +.+||||||+|++.
T Consensus 112 k~Ad~E~er~---------------~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~-~~sRGcaFV~fstk 175 (510)
T KOG0144|consen 112 KYADGERERI---------------VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPD-GLSRGCAFVKFSTK 175 (510)
T ss_pred cccchhhhcc---------------ccchhhhhhhccccccHHHHHHHHHhhCccchhhheeccc-ccccceeEEEEehH
Confidence 8887654332 2467999999999999999999999999999999999987 89999999999999
Q ss_pred HHHHHHHHHCCCCC
Q 012289 158 EAVDKVKRAVPKEL 171 (466)
Q Consensus 158 e~A~~Ai~~l~~~~ 171 (466)
|.|..||++|+...
T Consensus 176 e~A~~Aika~ng~~ 189 (510)
T KOG0144|consen 176 EMAVAAIKALNGTQ 189 (510)
T ss_pred HHHHHHHHhhccce
Confidence 99999999999974
No 10
>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=99.94 E-value=2.1e-25 Score=239.16 Aligned_cols=161 Identities=24% Similarity=0.432 Sum_probs=132.4
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCC-eEEEEEe-ecCCCCCcccEEEEEeCCHHHHHHHHHHhc----cCCCceEE
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGE-VVEAVIM-KDRNTGRARGFGFVVFADPAVAEIVIQEKH----NIDGRMVE 76 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~-V~~v~i~-~d~~tg~srGfaFVeF~~~e~A~~Al~~~~----~i~Gr~I~ 76 (466)
.+.++|||+|||+++++++|+++|+++++ |+++.++ .+.++.++++||||+|+++++|++|+++++ .+.++.|.
T Consensus 136 ~~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~ 215 (578)
T TIGR01648 136 VDNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIA 215 (578)
T ss_pred ccCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEE
Confidence 35789999999999999999999999975 4444443 334457889999999999999999998764 27899999
Q ss_pred EeecCCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhc--CCeeEEEEEecCCCCCcceEEEEEe
Q 012289 77 AKKAVPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQF--GTITDVVVMYDHNTQRPRGFGFITY 154 (466)
Q Consensus 77 V~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~f--G~I~~v~i~~d~~tg~~rG~aFV~F 154 (466)
|+|+.++..... ......++|||+||+++++||+|+++|++| |+|++|+++ ++||||+|
T Consensus 216 VdwA~p~~~~d~-----------~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~--------rgfAFVeF 276 (578)
T TIGR01648 216 VDWAEPEEEVDE-----------DVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI--------RDYAFVHF 276 (578)
T ss_pred EEeecccccccc-----------cccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee--------cCeEEEEe
Confidence 999987653221 112345789999999999999999999999 999999876 35999999
Q ss_pred cCHHHHHHHHHHCCCC-CCCCCcccCCCC
Q 012289 155 DSEEAVDKVKRAVPKE-LSPGPTRSPLGG 182 (466)
Q Consensus 155 ~s~e~A~~Ai~~l~~~-~~~~~~r~~~g~ 182 (466)
+++++|++||++|+.. +.++.|++.+..
T Consensus 277 ~s~e~A~kAi~~lnG~~i~Gr~I~V~~Ak 305 (578)
T TIGR01648 277 EDREDAVKAMDELNGKELEGSEIEVTLAK 305 (578)
T ss_pred CCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence 9999999999988775 777777887653
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=99.94 E-value=6.5e-26 Score=246.23 Aligned_cols=155 Identities=25% Similarity=0.468 Sum_probs=136.9
Q ss_pred EEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCCcc
Q 012289 7 KLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVPRD 84 (466)
Q Consensus 7 ~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~~~ 84 (466)
.|||+|||+++||++|+++|++||+|++|+|++|+.|++++|||||+|.++++|++||+.++. |.++.|+|.|+....
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~ 81 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDP 81 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccccc
Confidence 699999999999999999999999999999999999999999999999999999999998765 899999999875332
Q ss_pred hhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHH
Q 012289 85 DQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVK 164 (466)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai 164 (466)
... .....+|||+|||+++++++|+++|++||.|+.|+|++|. ++++|+||||+|+++++|++|+
T Consensus 82 ~~~--------------~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~-~g~skg~afV~F~~~e~A~~Ai 146 (562)
T TIGR01628 82 SLR--------------RSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDE-NGKSRGYGFVHFEKEESAKAAI 146 (562)
T ss_pred ccc--------------ccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecC-CCCcccEEEEEECCHHHHHHHH
Confidence 111 1134579999999999999999999999999999999986 4889999999999999999999
Q ss_pred HHCCCC-CCCCCc
Q 012289 165 RAVPKE-LSPGPT 176 (466)
Q Consensus 165 ~~l~~~-~~~~~~ 176 (466)
++++.. +.++.+
T Consensus 147 ~~lng~~~~~~~i 159 (562)
T TIGR01628 147 QKVNGMLLNDKEV 159 (562)
T ss_pred HHhcccEecCceE
Confidence 999876 344444
No 12
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.93 E-value=1.6e-25 Score=243.14 Aligned_cols=177 Identities=27% Similarity=0.482 Sum_probs=147.4
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CC----CceEEE
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--ID----GRMVEA 77 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~----Gr~I~V 77 (466)
+.++|||+|||++++|++|+++|++||+|++++|+++. ++++||||||+|+++++|++|++.++. |. ++.|.|
T Consensus 177 ~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~-~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v 255 (562)
T TIGR01628 177 KFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDG-SGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYV 255 (562)
T ss_pred CCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECC-CCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEe
Confidence 35679999999999999999999999999999999986 589999999999999999999998876 66 889999
Q ss_pred eecCCcchhhhhccCC--CCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEec
Q 012289 78 KKAVPRDDQIVLNRSS--GSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYD 155 (466)
Q Consensus 78 ~~a~~~~~~~~~~~~~--~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~ 155 (466)
.++..+.+.....+.. .............+|||+||++++|+++|+++|++||+|++|+|+.| .++++|+||||+|+
T Consensus 256 ~~a~~k~er~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~ 334 (562)
T TIGR01628 256 GRAQKRAEREAELRRKFEELQQERKMKAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFS 334 (562)
T ss_pred ecccChhhhHHHHHhhHHhhhhhhhcccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeC
Confidence 8887665542211110 11111122345678999999999999999999999999999999999 66999999999999
Q ss_pred CHHHHHHHHHHCCCC-CCCCCcccCCCC
Q 012289 156 SEEAVDKVKRAVPKE-LSPGPTRSPLGG 182 (466)
Q Consensus 156 s~e~A~~Ai~~l~~~-~~~~~~r~~~g~ 182 (466)
++++|++|++.+++. +.++++++.+..
T Consensus 335 ~~~~A~~A~~~~~g~~~~gk~l~V~~a~ 362 (562)
T TIGR01628 335 NPEEANRAVTEMHGRMLGGKPLYVALAQ 362 (562)
T ss_pred CHHHHHHHHHHhcCCeeCCceeEEEecc
Confidence 999999999998876 567777776654
No 13
>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=99.92 E-value=8.9e-25 Score=234.30 Aligned_cols=153 Identities=26% Similarity=0.476 Sum_probs=125.9
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--C-CCceEEEeec
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--I-DGRMVEAKKA 80 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i-~Gr~I~V~~a 80 (466)
..++|||+|||++++|++|+++|++||+|.+|+|++| .++++||||||+|.++++|++||+.++. | .++.|.|.++
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence 3589999999999999999999999999999999999 6899999999999999999999998876 3 3566555443
Q ss_pred CCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCC-eeEEEEE-ecCCCCCcceEEEEEecCHH
Q 012289 81 VPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGT-ITDVVVM-YDHNTQRPRGFGFITYDSEE 158 (466)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~-I~~v~i~-~d~~tg~~rG~aFV~F~s~e 158 (466)
. ..++|||+|||+++++++|+++|+++.+ |+++.|+ .+.++.++++||||+|++++
T Consensus 136 ~----------------------~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~e 193 (578)
T TIGR01648 136 V----------------------DNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHR 193 (578)
T ss_pred c----------------------cCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHH
Confidence 2 2468999999999999999999999864 4444433 34455788999999999999
Q ss_pred HHHHHHHHCCC---CCCCCCcccC
Q 012289 159 AVDKVKRAVPK---ELSPGPTRSP 179 (466)
Q Consensus 159 ~A~~Ai~~l~~---~~~~~~~r~~ 179 (466)
+|.+|+++|.. .+.++.+++.
T Consensus 194 dAa~AirkL~~gki~l~Gr~I~Vd 217 (578)
T TIGR01648 194 AAAMARRKLMPGRIQLWGHVIAVD 217 (578)
T ss_pred HHHHHHHHhhccceEecCceEEEE
Confidence 99999988753 2445555443
No 14
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.92 E-value=1.7e-24 Score=221.89 Aligned_cols=163 Identities=26% Similarity=0.471 Sum_probs=135.4
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhc--cCCCceEEEeecCC
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKH--NIDGRMVEAKKAVP 82 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~--~i~Gr~I~V~~a~~ 82 (466)
.-+|+|+||||.|.+++|+.+|+.||.|++|.|++.++ ++-+|||||+|.+..+|++||+.++ .|++|+|.|.||++
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d-gklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~ 195 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD-GKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVD 195 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC-CCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecc
Confidence 56899999999999999999999999999999998877 4555999999999999999999765 49999999999987
Q ss_pred cchhhhhc--------cC-------C------------------------CC-----------------CCCC-------
Q 012289 83 RDDQIVLN--------RS-------S------------------------GS-----------------IHGS------- 99 (466)
Q Consensus 83 ~~~~~~~~--------~~-------~------------------------~~-----------------~~~~------- 99 (466)
+....... .. . .. ..+.
T Consensus 196 Kd~ye~ta~~~~~s~Kk~~~eEed~e~~~d~~~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~ 275 (678)
T KOG0127|consen 196 KDTYEDTAHEEKQSLKKAVKEEEDKEADEDDGKDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKE 275 (678)
T ss_pred cccccccchhhhhhhhhccchhhhcccccccccccchhcccccccccccccccchhhhccccccccccccccccccccCc
Confidence 64322100 00 0 00 0000
Q ss_pred -----------CCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCC
Q 012289 100 -----------PGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVP 168 (466)
Q Consensus 100 -----------~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~ 168 (466)
......++|||+|||+++|||+|+++|++||+|..+.|+.|+.|++++|+|||.|.++.++++||++..
T Consensus 276 ~~k~~q~k~~~en~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~As 355 (678)
T KOG0127|consen 276 SDKKAQNKTTRENITEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAAS 355 (678)
T ss_pred ccchhccccccccccccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcC
Confidence 000112689999999999999999999999999999999999999999999999999999999999883
No 15
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.91 E-value=3.6e-24 Score=202.53 Aligned_cols=157 Identities=24% Similarity=0.520 Sum_probs=145.5
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
+..+.|.|.=||..+|+||||.+|..+|+|++|++++|+-++.+-||+||.|-++++|++|+..++. +..++|+|..|
T Consensus 39 ~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyA 118 (360)
T KOG0145|consen 39 ESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYA 118 (360)
T ss_pred cccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEec
Confidence 4467899999999999999999999999999999999999999999999999999999999999987 77899999999
Q ss_pred CCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHH
Q 012289 81 VPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAV 160 (466)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A 160 (466)
.|..+.. +...|||.+||..+|..||+++|++||.|..-+|+.|..|+.+||.+||+|+..++|
T Consensus 119 RPSs~~I----------------k~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EA 182 (360)
T KOG0145|consen 119 RPSSDSI----------------KDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEA 182 (360)
T ss_pred cCChhhh----------------cccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHH
Confidence 8876543 456899999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHCCCCCCCCC
Q 012289 161 DKVKRAVPKELSPGP 175 (466)
Q Consensus 161 ~~Ai~~l~~~~~~~~ 175 (466)
+.||+.|+++...+.
T Consensus 183 e~AIk~lNG~~P~g~ 197 (360)
T KOG0145|consen 183 EEAIKGLNGQKPSGC 197 (360)
T ss_pred HHHHHhccCCCCCCC
Confidence 999999999865543
No 16
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.91 E-value=1.2e-23 Score=225.44 Aligned_cols=173 Identities=16% Similarity=0.315 Sum_probs=132.7
Q ss_pred CCCCCEEEEcCCCccCcHHHHHHHhhcC------------CCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc
Q 012289 2 QSDNGKLFIGGISWDTNEERLKEYFSTY------------GEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 2 ~~d~~~LfVgnLP~~~teeeL~~~F~~~------------G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~ 69 (466)
..+.++|||+|||+++++++|+++|+++ ..|..+.+ .+.++||||+|.++++|++||+ ++.
T Consensus 172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~~~kg~afVeF~~~e~A~~Al~-l~g 244 (509)
T TIGR01642 172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------NKEKNFAFLEFRTVEEATFAMA-LDS 244 (509)
T ss_pred CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------CCCCCEEEEEeCCHHHHhhhhc-CCC
Confidence 4567899999999999999999999875 23333333 3457899999999999999995 655
Q ss_pred --CCCceEEEeecCCcchhhhhc-----cCCC--------CCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeE
Q 012289 70 --IDGRMVEAKKAVPRDDQIVLN-----RSSG--------SIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITD 134 (466)
Q Consensus 70 --i~Gr~I~V~~a~~~~~~~~~~-----~~~~--------~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~ 134 (466)
|.++.|.|.+........... .... ...........++|||+|||+.+++++|+++|++||.|+.
T Consensus 245 ~~~~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~ 324 (509)
T TIGR01642 245 IIYSNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLKA 324 (509)
T ss_pred eEeeCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeE
Confidence 788999887654332111000 0000 0011112334679999999999999999999999999999
Q ss_pred EEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcccCCC
Q 012289 135 VVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRSPLG 181 (466)
Q Consensus 135 v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~~g 181 (466)
|.|++|+.+++++|||||+|+++++|++||+.|+.. +.++.+++.+.
T Consensus 325 ~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 325 FNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred EEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 999999999999999999999999999999999876 56666666543
No 17
>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=99.91 E-value=1.7e-23 Score=223.42 Aligned_cols=163 Identities=17% Similarity=0.229 Sum_probs=131.7
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhc----cCCCceEEEeec
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKH----NIDGRMVEAKKA 80 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~----~i~Gr~I~V~~a 80 (466)
+++|||+|||++++|++|+++|++||+|++|+|+++ |+||||+|+++++|++||+.++ .|.++.|.|+++
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s 75 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYS 75 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEec
Confidence 689999999999999999999999999999999864 4799999999999999998642 389999999998
Q ss_pred CCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHH
Q 012289 81 VPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAV 160 (466)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A 160 (466)
..++...... .......+....+|+|.||++.+|+++|+++|++||+|++|+|+++.. +++|||+|+++++|
T Consensus 76 ~~~~~~~~~~----~~~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~----~~~afVef~~~~~A 147 (481)
T TIGR01649 76 TSQEIKRDGN----SDFDSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKNN----VFQALVEFESVNSA 147 (481)
T ss_pred CCcccccCCC----CcccCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecCC----ceEEEEEECCHHHH
Confidence 7653221110 000111223456899999999999999999999999999999987653 46899999999999
Q ss_pred HHHHHHCCCCCC-CC--CcccCCC
Q 012289 161 DKVKRAVPKELS-PG--PTRSPLG 181 (466)
Q Consensus 161 ~~Ai~~l~~~~~-~~--~~r~~~g 181 (466)
++|++.|++... .+ .+++.+.
T Consensus 148 ~~A~~~Lng~~i~~~~~~l~v~~s 171 (481)
T TIGR01649 148 QHAKAALNGADIYNGCCTLKIEYA 171 (481)
T ss_pred HHHHHHhcCCcccCCceEEEEEEe
Confidence 999999998754 33 3455443
No 18
>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=99.91 E-value=2.7e-23 Score=221.72 Aligned_cols=164 Identities=18% Similarity=0.290 Sum_probs=130.2
Q ss_pred CCCCEEEEcCCCc-cCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEee
Q 012289 3 SDNGKLFIGGISW-DTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKK 79 (466)
Q Consensus 3 ~d~~~LfVgnLP~-~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~ 79 (466)
...++|||+|||+ ++++++|+++|++||+|++|+|++++ ++||||+|.++++|++||+.|+. |.++.|.|.+
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~ 347 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCP 347 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEE
Confidence 3568999999998 69999999999999999999999863 58999999999999999998876 8999999998
Q ss_pred cCCcchhhhhc----------c----CCCCCCCC-------CCCCCcceeeecCCCCCCCHHHHHHHHhhcCC--eeEEE
Q 012289 80 AVPRDDQIVLN----------R----SSGSIHGS-------PGPGRTRKIFVGGLASTVTESDFKKYFDQFGT--ITDVV 136 (466)
Q Consensus 80 a~~~~~~~~~~----------~----~~~~~~~~-------~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~--I~~v~ 136 (466)
++.+....... + ........ ...+++++|||.|||++++|++|+++|++||. |+.|+
T Consensus 348 s~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik 427 (481)
T TIGR01649 348 SKQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQPPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFK 427 (481)
T ss_pred cccccccCCCCCcCcCCCcccccccCCccccCCCcccccccccCCCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEE
Confidence 76442211100 0 00000000 01235679999999999999999999999998 88888
Q ss_pred EEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCC
Q 012289 137 VMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSP 173 (466)
Q Consensus 137 i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~ 173 (466)
|+.++. ..+++|||+|++.++|.+||.+|+.....
T Consensus 428 ~~~~~~--~~~~~gfVeF~~~e~A~~Al~~ln~~~l~ 462 (481)
T TIGR01649 428 FFPKDN--ERSKMGLLEWESVEDAVEALIALNHHQLN 462 (481)
T ss_pred EecCCC--CcceeEEEEcCCHHHHHHHHHHhcCCccC
Confidence 865443 25889999999999999999999887443
No 19
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.90 E-value=3.8e-23 Score=221.62 Aligned_cols=175 Identities=18% Similarity=0.372 Sum_probs=138.1
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
..++|||+|||+.+++++|+++|++||+|+.+.|++++.++.++|||||+|.++++|++||+.++. |.++.|.|+++.
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~ 373 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRAC 373 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECc
Confidence 357999999999999999999999999999999999999999999999999999999999998876 889999999986
Q ss_pred CcchhhhhccCC---------CC---CCCCCCCCCcceeeecCCCCC----------CCHHHHHHHHhhcCCeeEEEEEe
Q 012289 82 PRDDQIVLNRSS---------GS---IHGSPGPGRTRKIFVGGLAST----------VTESDFKKYFDQFGTITDVVVMY 139 (466)
Q Consensus 82 ~~~~~~~~~~~~---------~~---~~~~~~~~~~~~LfV~nLp~~----------vteedLk~~F~~fG~I~~v~i~~ 139 (466)
............ .. ........++++|+|.||... ...++|+++|++||.|+.|+|++
T Consensus 374 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~ 453 (509)
T TIGR01642 374 VGANQATIDTSNGMAPVTLLAKALSQSILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPR 453 (509)
T ss_pred cCCCCCCccccccccccccccccchhhhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeec
Confidence 443222111110 00 000111235688999999642 12368999999999999999987
Q ss_pred cC---CCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCccc
Q 012289 140 DH---NTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRS 178 (466)
Q Consensus 140 d~---~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~ 178 (466)
+. .+...+|++||+|+++++|++||++|++. +.++.|.+
T Consensus 454 ~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~v~~ 496 (509)
T TIGR01642 454 PNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVVVA 496 (509)
T ss_pred cCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeEEEE
Confidence 53 34566799999999999999999999986 55555544
No 20
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.90 E-value=1e-23 Score=190.52 Aligned_cols=163 Identities=30% Similarity=0.475 Sum_probs=143.7
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
..+.+|||+||+..++|+.|.++|-+.|+|++++|++|+.+...+|||||||.++|+|+-|++-++. +-+|+|+|..+
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka 86 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA 86 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence 3478999999999999999999999999999999999999999999999999999999999997765 77999999988
Q ss_pred CCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeE-EEEEecCCCCCcceEEEEEecCHHH
Q 012289 81 VPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITD-VVVMYDHNTQRPRGFGFITYDSEEA 159 (466)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~-v~i~~d~~tg~~rG~aFV~F~s~e~ 159 (466)
...... .....+|||+||.+.++|..|.+.|+.||.|.+ -+|++|++|+.+++|+||.|++.|+
T Consensus 87 s~~~~n---------------l~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfea 151 (203)
T KOG0131|consen 87 SAHQKN---------------LDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEA 151 (203)
T ss_pred cccccc---------------ccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHH
Confidence 722211 123478999999999999999999999998765 4899999999999999999999999
Q ss_pred HHHHHHHCCCCC-CCCCcccCC
Q 012289 160 VDKVKRAVPKEL-SPGPTRSPL 180 (466)
Q Consensus 160 A~~Ai~~l~~~~-~~~~~r~~~ 180 (466)
+++|+++++.++ ..+++.+..
T Consensus 152 sd~ai~s~ngq~l~nr~itv~y 173 (203)
T KOG0131|consen 152 SDAAIGSMNGQYLCNRPITVSY 173 (203)
T ss_pred HHHHHHHhccchhcCCceEEEE
Confidence 999999999985 455665544
No 21
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.89 E-value=9e-23 Score=209.35 Aligned_cols=179 Identities=20% Similarity=0.425 Sum_probs=150.7
Q ss_pred CCCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEee
Q 012289 2 QSDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKK 79 (466)
Q Consensus 2 ~~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~ 79 (466)
..+-.+|||++||++++.++|.++|+.+|+|..|.++.++.+..+|||+||.|+..|++++|+++... +.+|.|.|+.
T Consensus 2 n~~g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~ 81 (678)
T KOG0127|consen 2 NKSGATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDP 81 (678)
T ss_pred CCCCceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceeccccc
Confidence 44458999999999999999999999999999999999999999999999999999999999997766 9999999999
Q ss_pred cCCcchhhhhccCCCCCCC----------CCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceE
Q 012289 80 AVPRDDQIVLNRSSGSIHG----------SPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGF 149 (466)
Q Consensus 80 a~~~~~~~~~~~~~~~~~~----------~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~ 149 (466)
+.++............... .....+.-+|+|+|||+.|.+++|+.+|+.||.|..|.|++.++ ++.+||
T Consensus 82 A~~R~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d-gklcGF 160 (678)
T KOG0127|consen 82 AKKRARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD-GKLCGF 160 (678)
T ss_pred ccccccchhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC-CCccce
Confidence 9877665532221111000 00112245899999999999999999999999999999998777 555699
Q ss_pred EEEEecCHHHHHHHHHHCCCC-CCCCCcccCCC
Q 012289 150 GFITYDSEEAVDKVKRAVPKE-LSPGPTRSPLG 181 (466)
Q Consensus 150 aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~~g 181 (466)
|||+|.+..+|.+||+.++.. +.+|++-+.|+
T Consensus 161 aFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWA 193 (678)
T KOG0127|consen 161 AFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWA 193 (678)
T ss_pred EEEEEeeHHHHHHHHHhccCceecCceeEEeee
Confidence 999999999999999999886 77888877664
No 22
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=99.89 E-value=3.1e-20 Score=189.57 Aligned_cols=166 Identities=18% Similarity=0.364 Sum_probs=138.1
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc-CCCceEEEeecCC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN-IDGRMVEAKKAVP 82 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~-i~Gr~I~V~~a~~ 82 (466)
+...|.+++|||+||++||.+||+.+ .|+++++.+ .++|+.|-|||||+++|++++|||+..+ +..|.|+|-.+..
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r--~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~~ 85 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNC-GIENLEIPR--RNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAGG 85 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcC-ceeEEEEec--cCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccCC
Confidence 45678899999999999999999999 688866666 4699999999999999999999996655 8899999999877
Q ss_pred cchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeE-EEEEecCCCCCcceEEEEEecCHHHHH
Q 012289 83 RDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITD-VVVMYDHNTQRPRGFGFITYDSEEAVD 161 (466)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~-v~i~~d~~tg~~rG~aFV~F~s~e~A~ 161 (466)
.+.....+..... ......+|.+++||+.||++||.+||+..-.|.+ |.++.|+. +++.+.|||.|++.|.|+
T Consensus 86 ~e~d~~~~~~g~~-----s~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~r-gR~tGEAfVqF~sqe~ae 159 (510)
T KOG4211|consen 86 AEADWVMRPGGPN-----SSANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQR-GRPTGEAFVQFESQESAE 159 (510)
T ss_pred ccccccccCCCCC-----CCCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCC-CCcccceEEEecCHHHHH
Confidence 7654433332211 1135668999999999999999999999888777 44555555 889999999999999999
Q ss_pred HHHHHCCCCCCCCCccc
Q 012289 162 KVKRAVPKELSPGPTRS 178 (466)
Q Consensus 162 ~Ai~~l~~~~~~~~~r~ 178 (466)
+||.+..+.+..|.|++
T Consensus 160 ~Al~rhre~iGhRYIEv 176 (510)
T KOG4211|consen 160 IALGRHRENIGHRYIEV 176 (510)
T ss_pred HHHHHHHHhhccceEEe
Confidence 99999999999999855
No 23
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.88 E-value=4.4e-23 Score=198.04 Aligned_cols=141 Identities=26% Similarity=0.543 Sum_probs=128.1
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCCc
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVPR 83 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~~ 83 (466)
-+|||+|||.++++.+|+.+|++||+|++|.|+++ |+||..+++..|+.||+++|. |++..|.|+.++.+
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 36999999999999999999999999999999996 999999999999999999988 88999999988876
Q ss_pred chhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHH
Q 012289 84 DDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKV 163 (466)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~A 163 (466)
. ..+.+|||+||.+.++.++|++.|++||+|..|+|++| |+||+|+..++|..|
T Consensus 75 s------------------k~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~a 128 (346)
T KOG0109|consen 75 S------------------KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEA 128 (346)
T ss_pred C------------------CCccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHH
Confidence 3 24679999999999999999999999999999999965 999999999999999
Q ss_pred HHHCCCC-CCCCCcccCC
Q 012289 164 KRAVPKE-LSPGPTRSPL 180 (466)
Q Consensus 164 i~~l~~~-~~~~~~r~~~ 180 (466)
|+.|+.+ +.+.++.|.+
T Consensus 129 ir~l~~~~~~gk~m~vq~ 146 (346)
T KOG0109|consen 129 IRGLDNTEFQGKRMHVQL 146 (346)
T ss_pred Hhcccccccccceeeeee
Confidence 9988886 5666666655
No 24
>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=99.87 E-value=5.3e-21 Score=202.49 Aligned_cols=170 Identities=19% Similarity=0.330 Sum_probs=133.1
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCC
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVP 82 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~ 82 (466)
.++|||+|||.+++|++|+++|++||+|+.|.|++++.++++++||||+|.++++|++||+.++. |.++.|.|.++..
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~ 265 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQD 265 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccC
Confidence 58999999999999999999999999999999999999999999999999999999999998877 8899999999652
Q ss_pred cchhhhhc-----------------------------cCC----------------------C--CC-------------
Q 012289 83 RDDQIVLN-----------------------------RSS----------------------G--SI------------- 96 (466)
Q Consensus 83 ~~~~~~~~-----------------------------~~~----------------------~--~~------------- 96 (466)
........ ... . ..
T Consensus 266 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (457)
T TIGR01622 266 STYLLDAANTFEDIDKQQQMGKNLNTEEREQLMEKLDRDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGALA 345 (457)
T ss_pred CCccccchhhhccccccccCCcCCCccchHHHHHhhccCCCCccccCCCccchhhhhccccccccccccccccccccccc
Confidence 21100000 000 0 00
Q ss_pred --------CCCCCCCCcceeeecCCCCCCC----------HHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHH
Q 012289 97 --------HGSPGPGRTRKIFVGGLASTVT----------ESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEE 158 (466)
Q Consensus 97 --------~~~~~~~~~~~LfV~nLp~~vt----------eedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e 158 (466)
.........++|+|.||....+ ++||+++|++||.|+.|.|.. ...+|++||+|++++
T Consensus 346 ~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~~~~~~~~~~~~dv~~e~~k~G~v~~v~v~~----~~~~G~~fV~F~~~e 421 (457)
T TIGR01622 346 IMARNSFVPSTNNNLATTCLVLSNMFDPATEEEPNFDNEILDDVKEECSKYGGVVHIYVDT----KNSAGKIYLKFSSVD 421 (457)
T ss_pred cccCCCCCCcccCCCCCcEEEEecCCCCcccccchHHHHHHHHHHHHHHhcCCeeEEEEeC----CCCceeEEEEECCHH
Confidence 0000123567899999965544 378999999999999999863 345799999999999
Q ss_pred HHHHHHHHCCCCCCC-CCccc
Q 012289 159 AVDKVKRAVPKELSP-GPTRS 178 (466)
Q Consensus 159 ~A~~Ai~~l~~~~~~-~~~r~ 178 (466)
+|++|+++|++..+. +.|.+
T Consensus 422 ~A~~A~~~lnGr~f~gr~i~~ 442 (457)
T TIGR01622 422 AALAAFQALNGRYFGGKMITA 442 (457)
T ss_pred HHHHHHHHhcCcccCCeEEEE
Confidence 999999999998554 44443
No 25
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.85 E-value=9.6e-22 Score=193.36 Aligned_cols=168 Identities=20% Similarity=0.439 Sum_probs=141.6
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCC
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVP 82 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~ 82 (466)
-|+|||+.|.+++.||.||..|..||+|++|.+..|+.|+++|+||||||+-+|.|+.|++.|+. +.+|.|+|.+...
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsN 192 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSN 192 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCC
Confidence 38999999999999999999999999999999999999999999999999999999999999987 7899998875432
Q ss_pred cchhhh-hccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHH
Q 012289 83 RDDQIV-LNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVD 161 (466)
Q Consensus 83 ~~~~~~-~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~ 161 (466)
-...+. ...- ..+...-.+|||..+.++++|+|||.+|+.||+|++|.+.+++.+...|||+||+|++..+..
T Consensus 193 mpQAQpiID~v------qeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~ 266 (544)
T KOG0124|consen 193 MPQAQPIIDMV------QEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQS 266 (544)
T ss_pred CcccchHHHHH------HHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchH
Confidence 211110 0000 000123468999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHCCCC-CCCCCccc
Q 012289 162 KVKRAVPKE-LSPGPTRS 178 (466)
Q Consensus 162 ~Ai~~l~~~-~~~~~~r~ 178 (466)
.||.-+|-- +-+..+|+
T Consensus 267 eAiasMNlFDLGGQyLRV 284 (544)
T KOG0124|consen 267 EAIASMNLFDLGGQYLRV 284 (544)
T ss_pred HHhhhcchhhcccceEec
Confidence 999998876 44445565
No 26
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.83 E-value=4.2e-20 Score=175.03 Aligned_cols=175 Identities=25% Similarity=0.379 Sum_probs=140.8
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccC----CCceEEEeec
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNI----DGRMVEAKKA 80 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i----~Gr~I~V~~a 80 (466)
+-.|||.+||+.++.+||+++|++||.|..-+|+.|..|+.+||.+||.|...++|++||+.++.- .-.+|.|+.+
T Consensus 127 ~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFa 206 (360)
T KOG0145|consen 127 DANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFA 206 (360)
T ss_pred ccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEec
Confidence 457999999999999999999999999999999999999999999999999999999999988762 2557888887
Q ss_pred CCcchhhhhcc------CCCC-------------------------CCC----------------CCCCCCcceeeecCC
Q 012289 81 VPRDDQIVLNR------SSGS-------------------------IHG----------------SPGPGRTRKIFVGGL 113 (466)
Q Consensus 81 ~~~~~~~~~~~------~~~~-------------------------~~~----------------~~~~~~~~~LfV~nL 113 (466)
........... ...+ ... +..+...-+|||-||
T Consensus 207 nnPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~ciFvYNL 286 (360)
T KOG0145|consen 207 NNPSQKTNQALLSQLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWCIFVYNL 286 (360)
T ss_pred CCcccccchhhhHHhhcCccccCCCcccchhhhhccccccchhhhhccCCCccccccceeeeeccCCCCCCeeEEEEEec
Confidence 54322111000 0000 000 011122358999999
Q ss_pred CCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCC-CCCCcccC
Q 012289 114 ASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKEL-SPGPTRSP 179 (466)
Q Consensus 114 p~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~-~~~~~r~~ 179 (466)
.++++|.-|-++|.+||.|+.|+|++|..|.+.|||+||.+.+-++|..||..|++.- .++.+.+.
T Consensus 287 spd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVs 353 (360)
T KOG0145|consen 287 SPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVS 353 (360)
T ss_pred CCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEE
Confidence 9999999999999999999999999999999999999999999999999999999974 44444443
No 27
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.83 E-value=7.9e-20 Score=165.58 Aligned_cols=162 Identities=21% Similarity=0.345 Sum_probs=131.7
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
..+++|||+|||.+|.|+||+++|.+||.|++|.|...+ ....||||||+++.+|+.||...+. +++..|.|+++
T Consensus 4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfp 80 (241)
T KOG0105|consen 4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFP 80 (241)
T ss_pred cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEEEec
Confidence 468999999999999999999999999999999886543 3567999999999999999997665 88999999988
Q ss_pred CCcchhhhhcc----------CCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEE
Q 012289 81 VPRDDQIVLNR----------SSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFG 150 (466)
Q Consensus 81 ~~~~~~~~~~~----------~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~a 150 (466)
..-.......- ........+......+|.|.+||.+.+|+|||++..+-|.|+...|.+| +++
T Consensus 81 rggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~G 153 (241)
T KOG0105|consen 81 RGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVG 153 (241)
T ss_pred cCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cce
Confidence 65431111000 0111223444556678999999999999999999999999999999887 489
Q ss_pred EEEecCHHHHHHHHHHCCCCCCCC
Q 012289 151 FITYDSEEAVDKVKRAVPKELSPG 174 (466)
Q Consensus 151 FV~F~s~e~A~~Ai~~l~~~~~~~ 174 (466)
.|+|...|+++-|+++|+.+.+..
T Consensus 154 vV~~~r~eDMkYAvr~ld~~~~~s 177 (241)
T KOG0105|consen 154 VVEYLRKEDMKYAVRKLDDQKFRS 177 (241)
T ss_pred eeeeeehhhHHHHHHhhccccccC
Confidence 999999999999999998875543
No 28
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.82 E-value=3e-20 Score=186.56 Aligned_cols=176 Identities=23% Similarity=0.409 Sum_probs=144.5
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc---CCC--ceEEEe
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN---IDG--RMVEAK 78 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~---i~G--r~I~V~ 78 (466)
|+++|||+.|++.|+|+||+++|++||.|++|.|++|++ +.+||||||.|.++|.|..||+.+|. ++| .+|.|+
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~-~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVk 201 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPD-GLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVK 201 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccchhhheeccc-ccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEE
Confidence 588999999999999999999999999999999999976 89999999999999999999999876 554 588999
Q ss_pred ecCCcchhhhhccCC-----------------------------------------------------------------
Q 012289 79 KAVPRDDQIVLNRSS----------------------------------------------------------------- 93 (466)
Q Consensus 79 ~a~~~~~~~~~~~~~----------------------------------------------------------------- 93 (466)
+|.+++++.......
T Consensus 202 FADtqkdk~~~~lqq~~~~~~qql~~~~~~~n~~~~~~l~~~~~~~~Qq~~~sqn~g~l~g~~~L~~l~a~~~qq~~~~~ 281 (510)
T KOG0144|consen 202 FADTQKDKDGKRLQQLNPALLQQLGNGQNPQNLASLGALSNGYQGPQQQTQQSQNVGTLGGLPPLGPLNATQLQQAAALA 281 (510)
T ss_pred ecccCCCchHHHHHhhhHHHHHHhcCCCCccchhhhhccCcccCchhhhccccCCCcccccccCCCCcchhHHHHHHHhh
Confidence 998765533211100
Q ss_pred --------------C-------CCC---C---------------------------------------------------
Q 012289 94 --------------G-------SIH---G--------------------------------------------------- 98 (466)
Q Consensus 94 --------------~-------~~~---~--------------------------------------------------- 98 (466)
. +.. .
T Consensus 282 ~~~ta~q~~~~s~q~~pl~~qts~~~~~~~~~~~~~~ss~~~~s~~~~aq~~~~q~~p~t~~~~n~~~~~a~a~~~sp~a 361 (510)
T KOG0144|consen 282 AAATAAQKTASSTQGLPLRTQTSFPGSQTSPQSASAPSSSLSTSQNPLAQLGARQTFPGTPANYNLAGGMAGAGTTSPVA 361 (510)
T ss_pred hhcccccCCCCCcccCccccccCCccccCCCccccCccccCcccccchhhhhHhhcCCCCchhcccccccccccccCccc
Confidence 0 000 0
Q ss_pred --------------------------------------------------------CCCCCCcceeeecCCCCCCCHHHH
Q 012289 99 --------------------------------------------------------SPGPGRTRKIFVGGLASTVTESDF 122 (466)
Q Consensus 99 --------------------------------------------------------~~~~~~~~~LfV~nLp~~vteedL 122 (466)
..+-+....|||.+||.+.-+.||
T Consensus 362 a~~~~lq~~~ltp~~~~~~~~~tQa~q~~~q~a~~a~~~l~~q~~~~qq~~~~~~~q~eGpeGanlfiyhlPqefgdq~l 441 (510)
T KOG0144|consen 362 ASLANLQQIGLTPFAGAAALDHTQAMQQYAQSANLAAPGLVGQQATTQQAQMVGNGQVEGPEGANLFIYHLPQEFGDQDL 441 (510)
T ss_pred ccccccccccCCChhhhhhHhHHHhhhHhhhhhhhcccchhhhhHhhhhhhcccCccccCCCccceeeeeCchhhhhHHH
Confidence 000011146999999999999999
Q ss_pred HHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcccCC
Q 012289 123 KKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRSPL 180 (466)
Q Consensus 123 k~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~~ 180 (466)
-..|..||.|+..+|..|+.|+-+|+|+||.|++..+|.+||.++++. +...+++|.+
T Consensus 442 ~~~f~pfG~Vlsakvfidk~tnlskcfgfvSyen~~sa~~aI~amngfQig~KrlkVQl 500 (510)
T KOG0144|consen 442 IATFQPFGGVLSAKVFIDKVTNLSKCFGFVSYENAQSAQNAISAMNGFQIGSKRLKVQL 500 (510)
T ss_pred HHHhccccceeEEEEEEecccCHhhhcCcccccchhhhHHHHHHhcchhhccccceEEe
Confidence 999999999999999999999999999999999999999999999987 4455556654
No 29
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.81 E-value=4.6e-20 Score=175.34 Aligned_cols=176 Identities=20% Similarity=0.391 Sum_probs=143.6
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc---CC--CceEEEe
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN---ID--GRMVEAK 78 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~---i~--Gr~I~V~ 78 (466)
|+++|||+.|.+.-.|||++.+|..||+|++|.+++-++ +.+||||||.|.+..+|+.||..+|. +- -..|.|+
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~d-g~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK 96 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPD-GNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVK 96 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCC-CCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEE
Confidence 689999999999999999999999999999999999876 89999999999999999999999987 33 3456777
Q ss_pred ecCCcchhhhhccCC------------------------------------------C----------------------
Q 012289 79 KAVPRDDQIVLNRSS------------------------------------------G---------------------- 94 (466)
Q Consensus 79 ~a~~~~~~~~~~~~~------------------------------------------~---------------------- 94 (466)
.+..++++....... .
T Consensus 97 ~ADTdkER~lRRMQQma~qlGm~~Pl~l~~g~~~ay~qalmQqQa~~~at~~~~~L~p~~~~~~~~mQ~~aA~~angl~A 176 (371)
T KOG0146|consen 97 FADTDKERTLRRMQQMAGQLGMFNPLALPFGAYGAYAQALMQQQAALLATVAGPYLSPMAAFAAAQMQQMAALNANGLAA 176 (371)
T ss_pred eccchHHHHHHHHHHHHHHhcccCccccccchhHHHHHHHHHHHHHHHHhhcccccChhhhhHHHHHHHHHHHhhccccc
Confidence 776544322110000 0
Q ss_pred ---------C----------------------------------------------------------------------
Q 012289 95 ---------S---------------------------------------------------------------------- 95 (466)
Q Consensus 95 ---------~---------------------------------------------------------------------- 95 (466)
.
T Consensus 177 ~Pv~p~s~~~~pp~~~a~~~~~~~A~~g~ng~~~l~~q~~gqpa~~~vy~ng~~pypaQsp~va~~lq~a~~g~~~Y~Aa 256 (371)
T KOG0146|consen 177 APVTPASGGSTPPGIGATAVPGIPAPIGVNGFTGLPPQPNGQPAAEAVYANGLHPYPAQSPTVADPLQQAYAGVQQYAAA 256 (371)
T ss_pred CCcCccccCCCCCcccccccCCcccccccccccCCCCCCCCCcchhHHhhcCCccCCCCCccccchhhhhhhhHHHHhhh
Confidence 0
Q ss_pred -----------CCC--------CCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecC
Q 012289 96 -----------IHG--------SPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS 156 (466)
Q Consensus 96 -----------~~~--------~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s 156 (466)
... ..+-++.+.|||-.||.+..+.||.++|-.||.|+..+|..|+.|+.+|+|+||.|++
T Consensus 257 ypaays~v~~~~pq~p~~~~qqqreGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDN 336 (371)
T KOG0146|consen 257 YPAAYSPISQAFPQPPPLLPQQQREGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDN 336 (371)
T ss_pred cchhhhhhhhcCCCCcchhhhhhhcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCC
Confidence 000 0001234789999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHCCCC-CCCCCcccCC
Q 012289 157 EEAVDKVKRAVPKE-LSPGPTRSPL 180 (466)
Q Consensus 157 ~e~A~~Ai~~l~~~-~~~~~~r~~~ 180 (466)
+.++++||.++|+- |-..++++.+
T Consensus 337 p~SaQaAIqAMNGFQIGMKRLKVQL 361 (371)
T KOG0146|consen 337 PASAQAAIQAMNGFQIGMKRLKVQL 361 (371)
T ss_pred chhHHHHHHHhcchhhhhhhhhhhh
Confidence 99999999999985 5556666655
No 30
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.81 E-value=3e-19 Score=183.60 Aligned_cols=137 Identities=26% Similarity=0.462 Sum_probs=126.4
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCCc
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVPR 83 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~~ 83 (466)
..|||+ +++||..|.++|+++++|++|+|.+|. | +-|||||.|.++++|++||++++- +++++|+|-|+...
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd 75 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRD 75 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccC
Confidence 358999 899999999999999999999999998 6 999999999999999999998864 99999999998744
Q ss_pred chhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHH
Q 012289 84 DDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKV 163 (466)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~A 163 (466)
+. .|||.||+++++.++|.++|+.||.|+.|+|+.|++ + +++| ||+|+++++|++|
T Consensus 76 ~~---------------------~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~-g-~kg~-FV~f~~e~~a~~a 131 (369)
T KOG0123|consen 76 PS---------------------LVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN-G-SKGY-FVQFESEESAKKA 131 (369)
T ss_pred Cc---------------------eeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC-C-ceee-EEEeCCHHHHHHH
Confidence 32 299999999999999999999999999999999987 4 9999 9999999999999
Q ss_pred HHHCCCCCC
Q 012289 164 KRAVPKELS 172 (466)
Q Consensus 164 i~~l~~~~~ 172 (466)
|++++..+.
T Consensus 132 i~~~ng~ll 140 (369)
T KOG0123|consen 132 IEKLNGMLL 140 (369)
T ss_pred HHHhcCccc
Confidence 999999854
No 31
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.81 E-value=1.5e-19 Score=191.02 Aligned_cols=172 Identities=25% Similarity=0.392 Sum_probs=142.1
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCC---CCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEe
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNT---GRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAK 78 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~t---g~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~ 78 (466)
..++|||.||+++++.++|+++|.+.|.|+.|.|.+.++- -.+.||+||+|.++++|+.|++.|+. |+++.|+|+
T Consensus 514 ~~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk 593 (725)
T KOG0110|consen 514 TETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELK 593 (725)
T ss_pred cchhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEE
Confidence 3455999999999999999999999999999988766542 13569999999999999999999874 999999999
Q ss_pred ecCCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHH
Q 012289 79 KAVPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEE 158 (466)
Q Consensus 79 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e 158 (466)
.+..+...... ...+......+|+|+|||+.++..+++++|..||.|..|+|++-......||||||+|-+++
T Consensus 594 ~S~~k~~~~~g-------K~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ 666 (725)
T KOG0110|consen 594 ISENKPASTVG-------KKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPR 666 (725)
T ss_pred eccCccccccc-------cccccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcH
Confidence 98833222111 11222234679999999999999999999999999999999987666778999999999999
Q ss_pred HHHHHHHHCCCC-CCCCCcccCCCC
Q 012289 159 AVDKVKRAVPKE-LSPGPTRSPLGG 182 (466)
Q Consensus 159 ~A~~Ai~~l~~~-~~~~~~r~~~g~ 182 (466)
+|.+|+++|..+ +.+|.+-..|..
T Consensus 667 ea~nA~~al~STHlyGRrLVLEwA~ 691 (725)
T KOG0110|consen 667 EAKNAFDALGSTHLYGRRLVLEWAK 691 (725)
T ss_pred HHHHHHHhhcccceechhhheehhc
Confidence 999999999865 778877665543
No 32
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.78 E-value=5.5e-19 Score=168.48 Aligned_cols=137 Identities=20% Similarity=0.460 Sum_probs=117.2
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccCCCceEEEeecCC
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNIDGRMVEAKKAVP 82 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i~Gr~I~V~~a~~ 82 (466)
++.++|||+||+.++||+-|..||.++|.|++++|+.| +|+|.|+..
T Consensus 4 ~~prtlyvgnld~~vte~~i~~lf~qig~v~~~k~i~~---------------------------------e~~v~wa~~ 50 (321)
T KOG0148|consen 4 DEPRTLYVGNLDSTVTEDFIATLFNQIGSVTKTKVIFD---------------------------------ELKVNWATA 50 (321)
T ss_pred CCCceEEeeccChhhHHHHHHHHHHhccccccceeehh---------------------------------hhccccccC
Confidence 56799999999999999999999999999999999886 355556554
Q ss_pred cchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHH
Q 012289 83 RDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDK 162 (466)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~ 162 (466)
...+. .+.......|||+.|...++-|+||+.|.+||+|.+++|++|..|+++|||+||.|-+.++|+.
T Consensus 51 p~nQs-----------k~t~~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEn 119 (321)
T KOG0148|consen 51 PGNQS-----------KPTSNQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAEN 119 (321)
T ss_pred cccCC-----------CCccccceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHH
Confidence 32211 1222346689999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHCCCC-CCCCCcccCCCCC
Q 012289 163 VKRAVPKE-LSPGPTRSPLGGY 183 (466)
Q Consensus 163 Ai~~l~~~-~~~~~~r~~~g~~ 183 (466)
||+.|+++ |-.|.||..|...
T Consensus 120 AI~~MnGqWlG~R~IRTNWATR 141 (321)
T KOG0148|consen 120 AIQQMNGQWLGRRTIRTNWATR 141 (321)
T ss_pred HHHHhCCeeeccceeecccccc
Confidence 99999998 5667779888644
No 33
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.78 E-value=2.1e-18 Score=177.37 Aligned_cols=159 Identities=23% Similarity=0.465 Sum_probs=140.0
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
+|...|||.||+++++.++|.++|+.||+|++|+++.+++ + +||| ||+|+++++|++|++.+++ +.++.|.|-..
T Consensus 74 rd~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~-g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~ 150 (369)
T KOG0123|consen 74 RDPSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN-G-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLF 150 (369)
T ss_pred cCCceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC-C-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeec
Confidence 5666799999999999999999999999999999999975 4 9999 9999999999999999887 78999999888
Q ss_pred CCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHH
Q 012289 81 VPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAV 160 (466)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A 160 (466)
..+++....... .......++|.+++.++++++|+++|.++++|+.+.|+.+.. +++++|+||.|+++++|
T Consensus 151 ~~~~er~~~~~~--------~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~-g~~~~~gfv~f~~~e~a 221 (369)
T KOG0123|consen 151 ERKEEREAPLGE--------YKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSI-GKSKGFGFVNFENPEDA 221 (369)
T ss_pred cchhhhcccccc--------hhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCC-CCCCCccceeecChhHH
Confidence 876654432221 112456789999999999999999999999999999999987 66999999999999999
Q ss_pred HHHHHHCCCCCCC
Q 012289 161 DKVKRAVPKELSP 173 (466)
Q Consensus 161 ~~Ai~~l~~~~~~ 173 (466)
..|++.++..+.+
T Consensus 222 ~~av~~l~~~~~~ 234 (369)
T KOG0123|consen 222 KKAVETLNGKIFG 234 (369)
T ss_pred HHHHHhccCCcCC
Confidence 9999999998776
No 34
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.77 E-value=1.5e-19 Score=186.63 Aligned_cols=181 Identities=25% Similarity=0.429 Sum_probs=147.8
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHH-HhccCCCceEEEeecC
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQ-EKHNIDGRMVEAKKAV 81 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~-~~~~i~Gr~I~V~~a~ 81 (466)
.+.++||+--|+..+++.+|.+||+.+|+|.+|.|+.|+.+.++||.++|||.|.+....||. .-+.+.+.+|.|+...
T Consensus 177 Rd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~vq~sE 256 (549)
T KOG0147|consen 177 RDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIVQLSE 256 (549)
T ss_pred HhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhhhcCCcccCceeEecccH
Confidence 567889999999999999999999999999999999999999999999999999999888885 2344778888887765
Q ss_pred CcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHH
Q 012289 82 PRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVD 161 (466)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~ 161 (466)
....... ..........-..+..+|||+||.++++|++|+.+|++||.|+.|.+++|.+|++.|||+||+|.+.++|.
T Consensus 257 aeknr~a--~~s~a~~~k~~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar 334 (549)
T KOG0147|consen 257 AEKNRAA--NASPALQGKGFTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDAR 334 (549)
T ss_pred HHHHHHH--hccccccccccccchhhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHH
Confidence 4433311 11111111111223344999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHCCCC-CCCCCcccCCCCCCC
Q 012289 162 KVKRAVPKE-LSPGPTRSPLGGYHY 185 (466)
Q Consensus 162 ~Ai~~l~~~-~~~~~~r~~~g~~~~ 185 (466)
+|++.|+.- +.++.|+|.......
T Consensus 335 ~a~e~lngfelAGr~ikV~~v~~r~ 359 (549)
T KOG0147|consen 335 KALEQLNGFELAGRLIKVSVVTERV 359 (549)
T ss_pred HHHHHhccceecCceEEEEEeeeec
Confidence 999999984 678888886654443
No 35
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.77 E-value=6.6e-18 Score=169.73 Aligned_cols=171 Identities=24% Similarity=0.344 Sum_probs=138.4
Q ss_pred CCCEEEEcCCCccCcHHHHHHHh-hcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhc--cCCCceEEEeec
Q 012289 4 DNGKLFIGGISWDTNEERLKEYF-STYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKH--NIDGRMVEAKKA 80 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F-~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~--~i~Gr~I~V~~a 80 (466)
..+.+||.|||+++.|++||++| ++.|+|+.|.|+.|.. +++||||.|||+++|.++||+++++ ++++|+|.|+..
T Consensus 43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~-GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd 121 (608)
T KOG4212|consen 43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDES-GKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKED 121 (608)
T ss_pred ccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccC-CCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEecc
Confidence 45679999999999999999999 6789999999999974 9999999999999999999999765 589999999876
Q ss_pred CCcchhhhhcc------------------------------------------CCC-------C----------------
Q 012289 81 VPRDDQIVLNR------------------------------------------SSG-------S---------------- 95 (466)
Q Consensus 81 ~~~~~~~~~~~------------------------------------------~~~-------~---------------- 95 (466)
...+..+.... ... .
T Consensus 122 ~d~q~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~ 201 (608)
T KOG4212|consen 122 HDEQRDQYGRIVRDGGGGFGGGGGVQGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSA 201 (608)
T ss_pred CchhhhhhhheeeccCcccccCcceecccccccccCCCCccccCCCCcccccccccccCccccccccccchhhhcccchh
Confidence 54221110000 000 0
Q ss_pred ----CCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-
Q 012289 96 ----IHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE- 170 (466)
Q Consensus 96 ----~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~- 170 (466)
......++...++||.||.+.+..+.|++.|...|.|+.|.+-.|++ +.+++||.|+|+.+-.|..||.+++..
T Consensus 202 ~Flr~~h~f~pPl~~k~fvanl~~~vg~~kL~qvfgmAGkv~~vdf~idKe-G~s~G~~vi~y~hpveavqaIsml~~~g 280 (608)
T KOG4212|consen 202 SFLRSLHIFSPPLHNKVFVANLDYKVGNKKLKQVFGMAGKVQSVDFSIDKE-GNSRGFAVIEYDHPVEAVQAISMLDRQG 280 (608)
T ss_pred hhhhhccCCCCCccceeeeeccccccchHHHHHHhccceeeeeeceeeccc-cccCCeeEEEecchHHHHHHHHhhccCC
Confidence 00011234456899999999999999999999999999999999998 699999999999999999999999975
Q ss_pred CCCCCc
Q 012289 171 LSPGPT 176 (466)
Q Consensus 171 ~~~~~~ 176 (466)
++.++.
T Consensus 281 ~~~~~~ 286 (608)
T KOG4212|consen 281 LFDRRM 286 (608)
T ss_pred Cccccc
Confidence 445554
No 36
>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=99.73 E-value=1.1e-16 Score=172.49 Aligned_cols=78 Identities=18% Similarity=0.439 Sum_probs=73.8
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCC
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVP 82 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~ 82 (466)
.++|||+|||+++++++|+++|++||+|++|+|++++.++++||||||+|.++++|++||+.++. |.++.|+|.++.+
T Consensus 204 ~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~ 283 (612)
T TIGR01645 204 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVT 283 (612)
T ss_pred cceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCC
Confidence 47999999999999999999999999999999999999999999999999999999999999876 7899999988764
No 37
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.71 E-value=5e-17 Score=146.45 Aligned_cols=82 Identities=43% Similarity=0.801 Sum_probs=76.5
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
...++|||+|||++++|++|+++|++||+|++|+|++|+.|+++|+||||+|+++++|++||++++. |+++.|+|+++
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a 111 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA 111 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence 4578999999999999999999999999999999999999999999999999999999999998755 89999999998
Q ss_pred CCcc
Q 012289 81 VPRD 84 (466)
Q Consensus 81 ~~~~ 84 (466)
.++.
T Consensus 112 ~~~~ 115 (144)
T PLN03134 112 NDRP 115 (144)
T ss_pred CcCC
Confidence 7654
No 38
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=99.69 E-value=1.5e-15 Score=155.54 Aligned_cols=174 Identities=21% Similarity=0.313 Sum_probs=132.1
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEE-EEEeecCCCCCcccEEEEEeCCHHHHHHHHHHh-ccCCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVE-AVIMKDRNTGRARGFGFVVFADPAVAEIVIQEK-HNIDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~-v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~-~~i~Gr~I~V~~a~ 81 (466)
.+..|.+++||+.|||+||++||+.+-.|.. |.++.++ .+++.|.|||+|++++.|++||+.. ..|..|.|+|.++.
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~Ss 180 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRSS 180 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehhH
Confidence 4678999999999999999999999866666 4455554 4889999999999999999999855 45999999997764
Q ss_pred Ccchhhhhc------------------cC-------CC------------------------C---------------CC
Q 012289 82 PRDDQIVLN------------------RS-------SG------------------------S---------------IH 97 (466)
Q Consensus 82 ~~~~~~~~~------------------~~-------~~------------------------~---------------~~ 97 (466)
..+...... +. .. . ..
T Consensus 181 ~~e~~~~~~~~~~~~~rpGpy~~~~a~Rg~~d~~~~~~~~~~~~r~g~~~~g~~g~~~~~~~~d~~~~gs~~~~~~~~~~ 260 (510)
T KOG4211|consen 181 RAEVKRAAGPGDGRVGRPGPYDRPGAPRGGYDYGQGRDPGRNATRYGAGGEGYYGFSRYPSLQDYGNFGSYGGGRDPNYP 260 (510)
T ss_pred HHHHHhhccccccccCCCCccccccCCccccccccccCCCccccccccccCCccccccCccccccccccccccccccccC
Confidence 322211110 00 00 0 00
Q ss_pred CC--C-----------CCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHH
Q 012289 98 GS--P-----------GPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVK 164 (466)
Q Consensus 98 ~~--~-----------~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai 164 (466)
.+ + .......+++++||+..++.+|.++|...-.+ .|.|...++ ++..+-|+|+|++.++|..|+
T Consensus 261 ~~~g~~~~g~~g~~~~~~~~g~fv~MRGlpy~a~~~di~nfFspl~p~-~v~i~ig~d-Gr~TGEAdveF~t~edav~Am 338 (510)
T KOG4211|consen 261 VSSGPHRQGGAGDYGNGGPGGHFVHMRGLPYDATENDIANFFSPLNPY-RVHIEIGPD-GRATGEADVEFATGEDAVGAM 338 (510)
T ss_pred CCCCcccCCCcccccCCCCCCceeeecCCCccCCCcchhhhcCCCCce-eEEEEeCCC-CccCCcceeecccchhhHhhh
Confidence 00 0 00112578999999999999999999987766 677766654 999999999999999999999
Q ss_pred HHCCCCCCCCCcccCC
Q 012289 165 RAVPKELSPGPTRSPL 180 (466)
Q Consensus 165 ~~l~~~~~~~~~r~~~ 180 (466)
.+....+.++.++..+
T Consensus 339 skd~anm~hrYVElFl 354 (510)
T KOG4211|consen 339 GKDGANMGHRYVELFL 354 (510)
T ss_pred ccCCcccCcceeeecc
Confidence 9999999999887654
No 39
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.67 E-value=8.5e-16 Score=144.18 Aligned_cols=158 Identities=20% Similarity=0.356 Sum_probs=129.0
Q ss_pred CCEEEEcCCCccCcHHHHHH----HhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEe
Q 012289 5 NGKLFIGGISWDTNEERLKE----YFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAK 78 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~----~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~ 78 (466)
..+|||.||+..+..+||++ +|++||+|++|...+ |.+.||.|||.|++.+.|..|++.+++ +-++.+.|+
T Consensus 9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriq 85 (221)
T KOG4206|consen 9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQ 85 (221)
T ss_pred CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhhee
Confidence 44999999999999999998 999999999988776 467899999999999999999999988 679999999
Q ss_pred ecCCcchhhhhccCC-------------------C-----------CCCC----CCCCCCcceeeecCCCCCCCHHHHHH
Q 012289 79 KAVPRDDQIVLNRSS-------------------G-----------SIHG----SPGPGRTRKIFVGGLASTVTESDFKK 124 (466)
Q Consensus 79 ~a~~~~~~~~~~~~~-------------------~-----------~~~~----~~~~~~~~~LfV~nLp~~vteedLk~ 124 (466)
.|..+.+.....+.. . .... .+..++...||+.|||..++.+.|..
T Consensus 86 yA~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~ 165 (221)
T KOG4206|consen 86 YAKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESESEMLSD 165 (221)
T ss_pred cccCccchhhccCceeccccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcchhHHHHHH
Confidence 987655433321100 0 0000 12245678999999999999999999
Q ss_pred HHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC
Q 012289 125 YFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE 170 (466)
Q Consensus 125 ~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~ 170 (466)
+|++|.-.++|+++... ++.|||+|.++..+..|+.++..-
T Consensus 166 lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~ 206 (221)
T KOG4206|consen 166 LFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGF 206 (221)
T ss_pred HHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccc
Confidence 99999999999988643 579999999999999999888763
No 40
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.65 E-value=1.4e-15 Score=137.09 Aligned_cols=79 Identities=28% Similarity=0.554 Sum_probs=72.7
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcccCCCC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRSPLGG 182 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~~g~ 182 (466)
..++|||+|||+++||++|+++|++||+|++|+|++|+.|+++|+||||+|+++++|++||+.++.. +.++++++.+..
T Consensus 33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~ 112 (144)
T PLN03134 33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPAN 112 (144)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCC
Confidence 4678999999999999999999999999999999999999999999999999999999999987654 788888887754
No 41
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.64 E-value=2.7e-16 Score=147.92 Aligned_cols=79 Identities=42% Similarity=0.856 Sum_probs=74.4
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc-CCCceEEEeecCC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN-IDGRMVEAKKAVP 82 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~-i~Gr~I~V~~a~~ 82 (466)
.-++|||++|+|++.+|+|+++|++||+|++++|+.|+.|+|+|||+||+|+|.|.|++|+++.+- |+||+..+++|.-
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 357999999999999999999999999999999999999999999999999999999999998765 9999999988754
No 42
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.62 E-value=5.6e-15 Score=141.76 Aligned_cols=161 Identities=26% Similarity=0.474 Sum_probs=121.8
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCC
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVP 82 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~ 82 (466)
.++|||+|||+++++++|+++|.+||+|..|.|+.++.++++++||||+|.++++|++|++.++. |.++.|.|.++.+
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 48999999999999999999999999999999999998999999999999999999999998875 8999999999653
Q ss_pred ----cchhhhh-c---cCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEe
Q 012289 83 ----RDDQIVL-N---RSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY 154 (466)
Q Consensus 83 ----~~~~~~~-~---~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F 154 (466)
+...... . .................+++.+++..++++++..+|..++.+..+.+.............++.+
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 274 (306)
T COG0724 195 ASQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGN 274 (306)
T ss_pred ccccccccccccchhhhccccccccccccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccch
Confidence 2221100 0 0011111222334567899999999999999999999999997777766554444444444444
Q ss_pred cCHHHHHHHHH
Q 012289 155 DSEEAVDKVKR 165 (466)
Q Consensus 155 ~s~e~A~~Ai~ 165 (466)
.....+...+.
T Consensus 275 ~~~~~~~~~~~ 285 (306)
T COG0724 275 EASKDALESNS 285 (306)
T ss_pred hHHHhhhhhhc
Confidence 44444444333
No 43
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.60 E-value=4.2e-15 Score=153.99 Aligned_cols=165 Identities=21% Similarity=0.425 Sum_probs=125.4
Q ss_pred EEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCCcc
Q 012289 7 KLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVPRD 84 (466)
Q Consensus 7 ~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~~~ 84 (466)
+|||+||.++++|++|+.+|+.||.|+.|.+++|..|+++|||+||+|.++++|++|++.++. |-|+.|+|.....+.
T Consensus 280 rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~ 359 (549)
T KOG0147|consen 280 RLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERV 359 (549)
T ss_pred hhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeec
Confidence 389999999999999999999999999999999998999999999999999999999999887 669999886654332
Q ss_pred hhhhh-----ccC------------------------CC---------------------------CCCCCCCC------
Q 012289 85 DQIVL-----NRS------------------------SG---------------------------SIHGSPGP------ 102 (466)
Q Consensus 85 ~~~~~-----~~~------------------------~~---------------------------~~~~~~~~------ 102 (466)
+.... ... .. ......+.
T Consensus 360 ~~~~a~~~~~d~D~~d~~gl~~~~~g~~Ql~~kla~~~~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~ 439 (549)
T KOG0147|consen 360 DTKEAAVTQFDFDEDDRQGLSLGSGGRNQLMAKLAEGKGRSLPSTAISALLLLAKLASAAQFNGVVRVRSVDPADASPAF 439 (549)
T ss_pred ccccccccccccchhhccccccccccHHHHHHHHhccCCccccchhhhHHHhccccchHHhhcCCcCccccCcccccccc
Confidence 22110 000 00 00001111
Q ss_pred -CCcceeeecCC--CCCCC--------HHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCC
Q 012289 103 -GRTRKIFVGGL--ASTVT--------ESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKEL 171 (466)
Q Consensus 103 -~~~~~LfV~nL--p~~vt--------eedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~ 171 (466)
.++.++.+.|+ |.+.| +||+++.+.+||.|.+|.|.+. +-|+.||.|.++++|.+|+++|+...
T Consensus 440 ~i~t~C~lL~nMFdpstete~n~d~eI~edV~Eec~k~g~v~hi~vd~n-----s~g~VYvrc~s~~~A~~a~~alhgrW 514 (549)
T KOG0147|consen 440 DIPTQCLLLSNMFDPSTETEPNWDQEIREDVIEECGKHGKVCHIFVDKN-----SAGCVYVRCPSAEAAGTAVKALHGRW 514 (549)
T ss_pred CCccHHHHHhhcCCcccccCcchhhHHHHHHHHHHHhcCCeeEEEEccC-----CCceEEEecCcHHHHHHHHHHHhhhh
Confidence 34556777776 22223 3688888899999988877532 23999999999999999999999986
Q ss_pred CCCCc
Q 012289 172 SPGPT 176 (466)
Q Consensus 172 ~~~~~ 176 (466)
+.+++
T Consensus 515 F~gr~ 519 (549)
T KOG0147|consen 515 FAGRM 519 (549)
T ss_pred hccce
Confidence 66655
No 44
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.60 E-value=1.1e-15 Score=144.50 Aligned_cols=157 Identities=23% Similarity=0.403 Sum_probs=121.7
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCCc
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVPR 83 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~~ 83 (466)
.+|||++||+.+.+++|++||.+|++|.+|.|+. +|+||+|.++.+|+.|+..++. |.+..+.|.++...
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 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKN--------GFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceeec--------ccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 4799999999999999999999999999988755 5999999999999999998765 66666667776643
Q ss_pred chhhhhccC----CCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHH
Q 012289 84 DDQIVLNRS----SGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEA 159 (466)
Q Consensus 84 ~~~~~~~~~----~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~ 159 (466)
......... .......+.....+.|+|.+|+..+.|++|+++|.++|+++.+++ .+.++||+|+++++
T Consensus 74 ~~~~g~~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~d 145 (216)
T KOG0106|consen 74 RRGRGRPRGGDRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQED 145 (216)
T ss_pred ccccCCCCCCCccchhhccCCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhh
Confidence 222210000 011112222334578999999999999999999999999955554 25699999999999
Q ss_pred HHHHHHHCCCC-CCCCCccc
Q 012289 160 VDKVKRAVPKE-LSPGPTRS 178 (466)
Q Consensus 160 A~~Ai~~l~~~-~~~~~~r~ 178 (466)
|.+||.+|+.. ++.+.+.+
T Consensus 146 a~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 146 AKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred hhhcchhccchhhcCceeee
Confidence 99999999886 67777655
No 45
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.56 E-value=7.4e-14 Score=130.38 Aligned_cols=165 Identities=12% Similarity=0.231 Sum_probs=119.9
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEee-cCCCCCcccEEEEEeCCHHHHHHHHHHhccC-----CCceEEEe
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMK-DRNTGRARGFGFVVFADPAVAEIVIQEKHNI-----DGRMVEAK 78 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~-d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i-----~Gr~I~V~ 78 (466)
-++|||.+||.|++..||..+|++|--.+.+.|.. ++.....+-++||+|.++++|++|++.++++ .+..+.|+
T Consensus 34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiE 113 (284)
T KOG1457|consen 34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIE 113 (284)
T ss_pred cceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEee
Confidence 68999999999999999999999986666666543 3333345679999999999999999999883 37778887
Q ss_pred ecCCcchhhhhccCC---------------------CCC----------------CC-----------------------
Q 012289 79 KAVPRDDQIVLNRSS---------------------GSI----------------HG----------------------- 98 (466)
Q Consensus 79 ~a~~~~~~~~~~~~~---------------------~~~----------------~~----------------------- 98 (466)
.++...+..+.+... ... .+
T Consensus 114 lAKSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~~l~~p~~l~~~~~a~al~~~~~t~~~~l~a~~~~~P~a 193 (284)
T KOG1457|consen 114 LAKSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHDEGLSDPDELQEPGNADALKENDTTKSEALSAPDSKAPSA 193 (284)
T ss_pred ehhcCcccccCCCCCCCCCCccccccccChhhcccchhhccccccCccccCCccccccCCCccccchhhhhhhhhcCCcc
Confidence 765432221111000 000 00
Q ss_pred ----------CCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCC
Q 012289 99 ----------SPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVP 168 (466)
Q Consensus 99 ----------~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~ 168 (466)
......+.+|||.||..+|+|++||.+|++|--...++|... --...|||+|++.+.|..|+..|+
T Consensus 194 ~a~l~ks~q~~~~~~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~----~g~~vaf~~~~~~~~at~am~~lq 269 (284)
T KOG1457|consen 194 NAHLEKSSQGGSGARACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR----GGMPVAFADFEEIEQATDAMNHLQ 269 (284)
T ss_pred cchhhhhhcccccchhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC----CCcceEeecHHHHHHHHHHHHHhh
Confidence 000112358999999999999999999999987766666421 224689999999999999999998
Q ss_pred CCCCC
Q 012289 169 KELSP 173 (466)
Q Consensus 169 ~~~~~ 173 (466)
+.+..
T Consensus 270 g~~~s 274 (284)
T KOG1457|consen 270 GNLLS 274 (284)
T ss_pred cceec
Confidence 87543
No 46
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=99.55 E-value=5.3e-15 Score=146.96 Aligned_cols=173 Identities=21% Similarity=0.315 Sum_probs=134.0
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCC----CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc-CCCceEEEe
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYG----EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN-IDGRMVEAK 78 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G----~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~-i~Gr~I~V~ 78 (466)
+.-.|.+++||++|++.||++||..-- .++.|.+++.++ +|.+|-|||.|..+++|+.||.+... |.-|.|++-
T Consensus 160 ~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpd-grpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElF 238 (508)
T KOG1365|consen 160 NQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPD-GRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELF 238 (508)
T ss_pred cceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCC-CCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHH
Confidence 345678899999999999999996432 345666666654 99999999999999999999986654 777888888
Q ss_pred ecCCcchhhhhccCCCC---------------CCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCC-eeE--EEEEec
Q 012289 79 KAVPRDDQIVLNRSSGS---------------IHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGT-ITD--VVVMYD 140 (466)
Q Consensus 79 ~a~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~-I~~--v~i~~d 140 (466)
++...+.++..++.... ....+......+|.+++||+.++.|||-++|..|-. |.. |.++.+
T Consensus 239 RSTaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N 318 (508)
T KOG1365|consen 239 RSTAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLN 318 (508)
T ss_pred HHhHHHHHHHHHhhccccccCCCCCCCCCCCccccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEc
Confidence 88777666655443211 111222334678999999999999999999998864 433 666666
Q ss_pred CCCCCcceEEEEEecCHHHHHHHHHHCCCCCC-CCCccc
Q 012289 141 HNTQRPRGFGFITYDSEEAVDKVKRAVPKELS-PGPTRS 178 (466)
Q Consensus 141 ~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~-~~~~r~ 178 (466)
.+ +++.|.|||+|.++|+|.+|..+.++++. .|.|++
T Consensus 319 ~q-GrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEv 356 (508)
T KOG1365|consen 319 GQ-GRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEV 356 (508)
T ss_pred CC-CCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEE
Confidence 55 99999999999999999999999998866 666654
No 47
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.55 E-value=1.5e-14 Score=136.28 Aligned_cols=81 Identities=33% Similarity=0.612 Sum_probs=76.3
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCcccCCCC
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPTRSPLGG 182 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~r~~~g~ 182 (466)
..-+||||++|+|.+++|+|+++||+||+|++++|+.|+.|+|+|||+||+|+|.|+|++|++.-+-.|++|+..|.++-
T Consensus 10 T~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~ 89 (247)
T KOG0149|consen 10 TTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLAS 89 (247)
T ss_pred ceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhh
Confidence 35679999999999999999999999999999999999999999999999999999999999999999999999887765
Q ss_pred C
Q 012289 183 Y 183 (466)
Q Consensus 183 ~ 183 (466)
.
T Consensus 90 l 90 (247)
T KOG0149|consen 90 L 90 (247)
T ss_pred h
Confidence 4
No 48
>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=99.53 E-value=4.3e-14 Score=109.84 Aligned_cols=68 Identities=31% Similarity=0.733 Sum_probs=62.9
Q ss_pred EEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEE
Q 012289 8 LFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVE 76 (466)
Q Consensus 8 LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~ 76 (466)
|||+|||+++++++|+++|++||+|..++|+.+ .+++.+++|||+|.++++|++|++.+++ +.+++|+
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 799999999999999999999999999999998 5689999999999999999999998876 7777763
No 49
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=99.52 E-value=1.3e-13 Score=142.18 Aligned_cols=168 Identities=24% Similarity=0.420 Sum_probs=122.5
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCC---CCCccc---EEEEEeCCHHHHHHHHHHhccCCCc-eEE
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRN---TGRARG---FGFVVFADPAVAEIVIQEKHNIDGR-MVE 76 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~---tg~srG---faFVeF~~~e~A~~Al~~~~~i~Gr-~I~ 76 (466)
=+++|||++|||+++|++|.+.|..||.|. |......+ --.++| |+|+.|+++..+++.|.....-.++ .+.
T Consensus 258 ~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~~~~~~yf~ 336 (520)
T KOG0129|consen 258 YSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSEGEGNYYFK 336 (520)
T ss_pred cccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhhcccceEEE
Confidence 368999999999999999999999999875 44442211 123677 9999999999999988866542111 122
Q ss_pred EeecCCcch--hhh---hccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHh-hcCCeeEEEEEecCCCCCcceEE
Q 012289 77 AKKAVPRDD--QIV---LNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFD-QFGTITDVVVMYDHNTQRPRGFG 150 (466)
Q Consensus 77 V~~a~~~~~--~~~---~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~-~fG~I~~v~i~~d~~tg~~rG~a 150 (466)
|.....+.. +.. ...............+.++|||+.||..++.++|..+|+ .||.|+.|-|-.|++-+-+||-+
T Consensus 337 vss~~~k~k~VQIrPW~laDs~fv~d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaG 416 (520)
T KOG0129|consen 337 VSSPTIKDKEVQIRPWVLADSDFVLDHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAG 416 (520)
T ss_pred EecCcccccceeEEeeEeccchhhhccCcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcc
Confidence 221111111 111 001111122344556789999999999999999999998 69999999999998889999999
Q ss_pred EEEecCHHHHHHHHHHCCCCCC
Q 012289 151 FITYDSEEAVDKVKRAVPKELS 172 (466)
Q Consensus 151 FV~F~s~e~A~~Ai~~l~~~~~ 172 (466)
-|+|.+..+-.+||.+-=-++.
T Consensus 417 RVtFsnqqsYi~AIsarFvql~ 438 (520)
T KOG0129|consen 417 RVTFSNQQAYIKAISARFVQLD 438 (520)
T ss_pred eeeecccHHHHHHHhhheEEEe
Confidence 9999999999999987544433
No 50
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.51 E-value=4.4e-14 Score=133.57 Aligned_cols=81 Identities=25% Similarity=0.484 Sum_probs=77.3
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
.|.++|.|.|||.+++|++|+++|.+||.|..|.|.+|++|+.+||||||.|.+.++|++||+.++. ++...|.|+|+
T Consensus 187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws 266 (270)
T KOG0122|consen 187 DDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS 266 (270)
T ss_pred CccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence 5788999999999999999999999999999999999999999999999999999999999998876 88999999999
Q ss_pred CCc
Q 012289 81 VPR 83 (466)
Q Consensus 81 ~~~ 83 (466)
+|+
T Consensus 267 kP~ 269 (270)
T KOG0122|consen 267 KPS 269 (270)
T ss_pred CCC
Confidence 986
No 51
>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=5.7e-14 Score=143.79 Aligned_cols=80 Identities=25% Similarity=0.503 Sum_probs=72.8
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCC--ceEEEee
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDG--RMVEAKK 79 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~G--r~I~V~~ 79 (466)
.+++|||+|||++++|++|+++|++||+|++|+|++|+.++++|+||||+|+++++|++||+.++. +++ +.|+|++
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~ 271 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRL 271 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence 467899999999999999999999999999999999999999999999999999999999999877 444 6788888
Q ss_pred cCCc
Q 012289 80 AVPR 83 (466)
Q Consensus 80 a~~~ 83 (466)
+..+
T Consensus 272 a~~~ 275 (346)
T TIGR01659 272 AEEH 275 (346)
T ss_pred CCcc
Confidence 7754
No 52
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=99.48 E-value=6.6e-13 Score=131.03 Aligned_cols=167 Identities=15% Similarity=0.322 Sum_probs=125.5
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEE--------EEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCce
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVE--------AVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRM 74 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~--------v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~ 74 (466)
++.|||.+||.++|-+|+.++|++||.|.. |+|.++.. |..||-|++.|...++++.|++.+++ +.++.
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 NTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQ-GKLKGDALCCYIKRESVELAIKILDEDELRGKK 212 (382)
T ss_pred CceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCC-CCccCceEEEeecccHHHHHHHHhCcccccCcE
Confidence 466999999999999999999999997754 67777765 99999999999999999999998876 88999
Q ss_pred EEEeecCCcchh---------------hhhcc---C----CCCCCCCCCCCCcceeeecCCCC----CCC-------HHH
Q 012289 75 VEAKKAVPRDDQ---------------IVLNR---S----SGSIHGSPGPGRTRKIFVGGLAS----TVT-------ESD 121 (466)
Q Consensus 75 I~V~~a~~~~~~---------------~~~~~---~----~~~~~~~~~~~~~~~LfV~nLp~----~vt-------eed 121 (466)
|.|++|.-.... .+... . .............++|.|.||=. ..+ +++
T Consensus 213 ~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlked 292 (382)
T KOG1548|consen 213 LRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDRDDPSKARADRTVILKNMFTPEDFEKNPDLLNDLKED 292 (382)
T ss_pred EEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCccccccccCCcEEEeeecCCHHHhccCHHHHHHHHHH
Confidence 999987421100 00000 0 00011122234567888888732 122 467
Q ss_pred HHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCC-CCCc
Q 012289 122 FKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELS-PGPT 176 (466)
Q Consensus 122 Lk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~-~~~~ 176 (466)
|++.+++||.|.+|+|.- ..|.|.+-|.|.+.++|+.||+.|++..+ +|.+
T Consensus 293 l~eec~K~G~v~~vvv~d----~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql 344 (382)
T KOG1548|consen 293 LTEECEKFGQVRKVVVYD----RHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQL 344 (382)
T ss_pred HHHHHHHhCCcceEEEec----cCCCceeEEEeCChHHHHHHHHHhcCeeecceEE
Confidence 888899999999988753 34689999999999999999999999854 4444
No 53
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.47 E-value=2.6e-13 Score=144.20 Aligned_cols=172 Identities=17% Similarity=0.242 Sum_probs=123.5
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
..++.|+|+|||..+..++|.++|.+||+|..|.|+.. +. -++|+|.++.+|++|++.+.- +...++.+.|+
T Consensus 383 rs~~vil~kNlpa~t~~~elt~~F~~fG~i~rvllp~~---G~---~aiv~fl~p~eAr~Afrklaysr~k~~plyle~a 456 (725)
T KOG0110|consen 383 RSDTVILVKNLPAGTLSEELTEAFLRFGEIGRVLLPPG---GT---GAIVEFLNPLEARKAFRKLAYSRFKSAPLYLEWA 456 (725)
T ss_pred hhcceeeeccCccccccHHHHHHhhcccccceeecCcc---cc---eeeeeecCccchHHHHHHhchhhhccCccccccC
Confidence 45688999999999999999999999999999855422 11 499999999999999997643 55555555554
Q ss_pred CCcchh-------hhhcc-CC------------C---CCCCC-----------CCCCCcceeeecCCCCCCCHHHHHHHH
Q 012289 81 VPRDDQ-------IVLNR-SS------------G---SIHGS-----------PGPGRTRKIFVGGLASTVTESDFKKYF 126 (466)
Q Consensus 81 ~~~~~~-------~~~~~-~~------------~---~~~~~-----------~~~~~~~~LfV~nLp~~vteedLk~~F 126 (466)
...... ..... .. . ..... ......++|||.||++++|.++|+.+|
T Consensus 457 P~dvf~~~pka~~~~~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~ss~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~F 536 (725)
T KOG0110|consen 457 PEDVFTEDPKADDLSAESRSKMEENPSERVSAEDGQVEEDKDPTEESSLARVAEDEETETKLFVKNLNFDTTLEDLEDLF 536 (725)
T ss_pred hhhhccCCccccccccccccccccCcceecccccccccccCCccccccchhhhhccccchhhhhhcCCcccchhHHHHHH
Confidence 321111 00000 00 0 00000 011122349999999999999999999
Q ss_pred hhcCCeeEEEEEecCCC---CCcceEEEEEecCHHHHHHHHHHCCC-CCCCCCcccCC
Q 012289 127 DQFGTITDVVVMYDHNT---QRPRGFGFITYDSEEAVDKVKRAVPK-ELSPGPTRSPL 180 (466)
Q Consensus 127 ~~fG~I~~v~i~~d~~t---g~~rG~aFV~F~s~e~A~~Ai~~l~~-~~~~~~~r~~~ 180 (466)
.+.|.|..|.|.+.++. -.+.||+||+|.++++|++|+++|+. .+.+..+.+.+
T Consensus 537 ~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~ 594 (725)
T KOG0110|consen 537 SKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKI 594 (725)
T ss_pred HhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEe
Confidence 99999999988765542 12459999999999999999999995 47777775543
No 54
>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=99.46 E-value=3.2e-13 Score=105.79 Aligned_cols=68 Identities=32% Similarity=0.663 Sum_probs=61.6
Q ss_pred EEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhc--cCCCceEE
Q 012289 8 LFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKH--NIDGRMVE 76 (466)
Q Consensus 8 LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~--~i~Gr~I~ 76 (466)
|||+|||+++++++|+++|+.++.|..++++++++ ++.+++|||+|.++++|++|++.++ .++++.|+
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 79999999999999999999999999999999987 8999999999999999999999776 38888874
No 55
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.42 E-value=3e-13 Score=132.59 Aligned_cols=81 Identities=27% Similarity=0.560 Sum_probs=74.7
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
..++|+|.|||+...|-||+..|++||+|++|+|+.+. .-+|||+||+|+++++|++|.+++|+ |+||+|+|..+.
T Consensus 95 ~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~AT 172 (376)
T KOG0125|consen 95 TPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNAT 172 (376)
T ss_pred CCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccc
Confidence 36899999999999999999999999999999999874 45899999999999999999999998 999999999999
Q ss_pred Ccchh
Q 012289 82 PRDDQ 86 (466)
Q Consensus 82 ~~~~~ 86 (466)
.+...
T Consensus 173 arV~n 177 (376)
T KOG0125|consen 173 ARVHN 177 (376)
T ss_pred hhhcc
Confidence 87543
No 56
>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=99.42 E-value=4.4e-13 Score=104.08 Aligned_cols=63 Identities=30% Similarity=0.704 Sum_probs=59.2
Q ss_pred eeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCC
Q 012289 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKEL 171 (466)
Q Consensus 108 LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~ 171 (466)
|||+|||+++|+++|+++|++||.|+.+.++.+ .+++.+++|||+|+++++|++|++.++...
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~ 63 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKK 63 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCE
Confidence 799999999999999999999999999999998 668999999999999999999999887753
No 57
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.41 E-value=3.7e-13 Score=115.82 Aligned_cols=82 Identities=23% Similarity=0.340 Sum_probs=75.5
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
..+++|||+||++-++||+|.++|+++|+|..|.|=.|+.+.++.|||||||...++|+.||+-++. ++.++|.|.|.
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 4589999999999999999999999999999999999999999999999999999999999997765 89999999887
Q ss_pred CCcc
Q 012289 81 VPRD 84 (466)
Q Consensus 81 ~~~~ 84 (466)
.--.
T Consensus 114 ~GF~ 117 (153)
T KOG0121|consen 114 AGFV 117 (153)
T ss_pred ccch
Confidence 6443
No 58
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.41 E-value=9.6e-13 Score=127.73 Aligned_cols=77 Identities=21% Similarity=0.313 Sum_probs=69.2
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
..++|||+|||++++|++|+++|+.||+|++|+|++++. +++||||+|+++++|++||. ++. |.++.|.|.++.
T Consensus 3 ~~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 3 QVRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAE 78 (260)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEecc
Confidence 368999999999999999999999999999999999864 57899999999999999996 544 999999999987
Q ss_pred Ccc
Q 012289 82 PRD 84 (466)
Q Consensus 82 ~~~ 84 (466)
...
T Consensus 79 ~~~ 81 (260)
T PLN03120 79 DYQ 81 (260)
T ss_pred CCC
Confidence 543
No 59
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.40 E-value=3.5e-12 Score=126.32 Aligned_cols=77 Identities=18% Similarity=0.444 Sum_probs=70.5
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
-.+|||..+.+|.+|+||+.+|+.||+|+.|.+-+++.++.+|||+||||.+.....+|+..|+. +.++.++|-++.
T Consensus 210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~v 288 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 288 (544)
T ss_pred hheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccccc
Confidence 36899999999999999999999999999999999999899999999999999999999998776 568888886654
No 60
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.38 E-value=2.1e-13 Score=132.23 Aligned_cols=78 Identities=19% Similarity=0.424 Sum_probs=70.7
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcccCC
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRSPL 180 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~~ 180 (466)
.+-++|||.-|+++++|.+|+++|++||+|++|.|+.|+.|++++|||||+|+++.++.+|.+..++. |.++.|-|..
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDv 177 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDV 177 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEe
Confidence 56789999999999999999999999999999999999999999999999999999999999988776 6666664433
No 61
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.37 E-value=1.3e-12 Score=120.85 Aligned_cols=87 Identities=21% Similarity=0.424 Sum_probs=79.2
Q ss_pred CCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCccc
Q 012289 100 PGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRS 178 (466)
Q Consensus 100 ~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~ 178 (466)
|.......|.|.||.+.++.++|+.+|++||.|.+|.|+.|+.|..++|||||.|.+..+|+.|+++|+.. ++++.++|
T Consensus 8 Pdv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrV 87 (256)
T KOG4207|consen 8 PDVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRV 87 (256)
T ss_pred CCcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeee
Confidence 33445779999999999999999999999999999999999999999999999999999999999999987 67778899
Q ss_pred CCCCCCCC
Q 012289 179 PLGGYHYG 186 (466)
Q Consensus 179 ~~g~~~~~ 186 (466)
+++.+...
T Consensus 88 q~arygr~ 95 (256)
T KOG4207|consen 88 QMARYGRP 95 (256)
T ss_pred hhhhcCCC
Confidence 99877654
No 62
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.36 E-value=1.4e-12 Score=117.95 Aligned_cols=76 Identities=26% Similarity=0.481 Sum_probs=68.5
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
-+++|||+||+.++++.||+.+|.+||+|..|.|-+. +.|||||||+++.+|++|+..|+. |.+..|.|+.+.
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn-----PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~ 83 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN-----PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELST 83 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec-----CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeec
Confidence 3789999999999999999999999999999999775 458999999999999999998876 889989998877
Q ss_pred Ccc
Q 012289 82 PRD 84 (466)
Q Consensus 82 ~~~ 84 (466)
-+.
T Consensus 84 G~~ 86 (195)
T KOG0107|consen 84 GRP 86 (195)
T ss_pred CCc
Confidence 554
No 63
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.36 E-value=1.7e-12 Score=126.00 Aligned_cols=81 Identities=23% Similarity=0.534 Sum_probs=74.1
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
.-+||||.-|+++++|.+|++.|++||+|+.|.|++|+.|+++||||||||+++.+...|.++-+. |+++.|.|....
T Consensus 100 Py~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvER 179 (335)
T KOG0113|consen 100 PYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVER 179 (335)
T ss_pred ccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEecc
Confidence 358999999999999999999999999999999999999999999999999999999999997655 899999988765
Q ss_pred Ccc
Q 012289 82 PRD 84 (466)
Q Consensus 82 ~~~ 84 (466)
.+.
T Consensus 180 gRT 182 (335)
T KOG0113|consen 180 GRT 182 (335)
T ss_pred ccc
Confidence 443
No 64
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.36 E-value=5.6e-12 Score=120.67 Aligned_cols=80 Identities=16% Similarity=0.179 Sum_probs=70.7
Q ss_pred CCCCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHH-HhccCCCceEEEee
Q 012289 1 MQSDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQ-EKHNIDGRMVEAKK 79 (466)
Q Consensus 1 m~~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~-~~~~i~Gr~I~V~~ 79 (466)
|..+-.+|||+||+++++|++|++||+.||+|++|+|++|. +.++||||+|+++++|+.||. ....|.++.|.|.+
T Consensus 1 m~~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~ 77 (243)
T PLN03121 1 MYPGGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAVLLSGATIVDQRVCITR 77 (243)
T ss_pred CCCCceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEe
Confidence 77888999999999999999999999999999999999984 456899999999999999996 33449999999988
Q ss_pred cCCc
Q 012289 80 AVPR 83 (466)
Q Consensus 80 a~~~ 83 (466)
+...
T Consensus 78 ~~~y 81 (243)
T PLN03121 78 WGQY 81 (243)
T ss_pred Cccc
Confidence 6643
No 65
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.35 E-value=1.4e-12 Score=112.30 Aligned_cols=78 Identities=24% Similarity=0.467 Sum_probs=73.5
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcccCCC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRSPLG 181 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~~g 181 (466)
.+++|||+||.+.++||+|.++|++||+|.+|++-.|+.+..+.|||||+|-+.++|..|++.++.+ +..++|++.|.
T Consensus 35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence 5679999999999999999999999999999999999999999999999999999999999999987 78888888763
No 66
>smart00362 RRM_2 RNA recognition motif.
Probab=99.34 E-value=5.4e-12 Score=96.81 Aligned_cols=70 Identities=37% Similarity=0.649 Sum_probs=63.1
Q ss_pred EEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEe
Q 012289 7 KLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAK 78 (466)
Q Consensus 7 ~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~ 78 (466)
+|||.|||+++++++|+++|++||+|.+++++.++ +.++++|||+|.++++|++|++.++. +.++.|.|+
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 58999999999999999999999999999998876 67889999999999999999998764 777777663
No 67
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=99.34 E-value=2.3e-12 Score=129.46 Aligned_cols=161 Identities=16% Similarity=0.287 Sum_probs=119.6
Q ss_pred CCCCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc----CCCceEE
Q 012289 1 MQSDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN----IDGRMVE 76 (466)
Q Consensus 1 m~~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~----i~Gr~I~ 76 (466)
|...++.|.|+||||||+|+||.+++.+||+|+.+.+++-++ .|||||+|++.|...+..... +.+++|.
T Consensus 24 ~~~pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkGkn------QAflem~d~~sAvtmv~~y~~~~p~lr~~~~y 97 (492)
T KOG1190|consen 24 MAEPSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKGKN------QAFLEMADEESAVTMVNYYTSVTPVLRGQPIY 97 (492)
T ss_pred ccCCcceeEeccCCccccHHHHHHhcccccceeeeeeeccch------hhhhhhcchhhhhheeecccccCccccCccee
Confidence 345688999999999999999999999999999999888654 799999999998874443322 6788888
Q ss_pred EeecCCcchhhhhccC---------------------CC---CCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCe
Q 012289 77 AKKAVPRDDQIVLNRS---------------------SG---SIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTI 132 (466)
Q Consensus 77 V~~a~~~~~~~~~~~~---------------------~~---~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I 132 (466)
|+.+..++-....... .. ..-..+.+...-+++|.++-+.++.+-|.++|++||.|
T Consensus 98 iq~sn~~~lkt~s~p~q~r~~~vy~~~s~~q~~~~~~s~~~~~~G~~~~~n~vLr~iie~m~ypVslDVLHqvFS~fG~V 177 (492)
T KOG1190|consen 98 IQYSNHSELKTDSQPNQIRGQAVYQAVSSVQEIVLPLSASAVVVGNEDGPNPVLRTIIENMFYPVSLDVLHQVFSKFGFV 177 (492)
T ss_pred ehhhhHHHHhccCchhhhhhhhHHhhhhcccccccccccccccccccCCCceeEEEEeccceeeeEHHHHHHHHhhccee
Confidence 8775432211110000 00 00012223345678899999999999999999999999
Q ss_pred eEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCC
Q 012289 133 TDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKEL 171 (466)
Q Consensus 133 ~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~ 171 (466)
.+|.-..... .=-|+|.|.+++.|+.|+.+|+++-
T Consensus 178 lKIiTF~Knn----~FQALvQy~d~~sAq~AK~aLdGqn 212 (492)
T KOG1190|consen 178 LKIITFTKNN----GFQALVQYTDAVSAQAAKLALDGQN 212 (492)
T ss_pred EEEEEEeccc----chhhhhhccchhhHHHHHHhccCCc
Confidence 9887664322 1239999999999999999999873
No 68
>PLN03213 repressor of silencing 3; Provisional
Probab=99.33 E-value=1.3e-12 Score=133.60 Aligned_cols=75 Identities=20% Similarity=0.375 Sum_probs=68.8
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCH--HHHHHHHHHhcc--CCCceEEEeec
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADP--AVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~--e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
..+|||+||+++++++||+++|.+||.|.+|.|++ .|+ ||||||+|.+. +++++||..+++ |+|+.|+|..|
T Consensus 10 gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpR--ETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKA 85 (759)
T PLN03213 10 GVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVR--TKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKA 85 (759)
T ss_pred ceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEec--ccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeec
Confidence 46899999999999999999999999999999994 567 99999999987 789999999877 99999999999
Q ss_pred CCc
Q 012289 81 VPR 83 (466)
Q Consensus 81 ~~~ 83 (466)
++.
T Consensus 86 KP~ 88 (759)
T PLN03213 86 KEH 88 (759)
T ss_pred cHH
Confidence 864
No 69
>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=99.33 E-value=2.1e-12 Score=101.12 Aligned_cols=67 Identities=24% Similarity=0.613 Sum_probs=59.6
Q ss_pred eeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCC-CCCCCC
Q 012289 108 IFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPK-ELSPGP 175 (466)
Q Consensus 108 LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~-~~~~~~ 175 (466)
|||+|||+++++++|+++|++|+.|.+|.+.++++ ++++++|||+|.++++|++|++.+++ .+.++.
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~ 68 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRK 68 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEE
Confidence 79999999999999999999999999999999988 89999999999999999999999984 454443
No 70
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=99.33 E-value=2.6e-11 Score=121.89 Aligned_cols=167 Identities=14% Similarity=0.224 Sum_probs=125.3
Q ss_pred CCEEEEcCCCcc-CcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 5 NGKLFIGGISWD-TNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 5 ~~~LfVgnLP~~-~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
++.|.|.||..+ +|+|.|..+|.-||+|.+|+|++++. --|+|+|.|...|+.|++.+.+ |.+++|+|..++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 578889998754 79999999999999999999999754 3799999999999999997755 889999998877
Q ss_pred CcchhhhhccCCC-------------------CCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCC
Q 012289 82 PRDDQIVLNRSSG-------------------SIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHN 142 (466)
Q Consensus 82 ~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~ 142 (466)
....+....-... .......-+++.+|++.|+|.+++||||+++|.+.|-.++......
T Consensus 372 H~~vqlp~egq~d~glT~dy~~spLhrfkkpgsKN~~ni~PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff~-- 449 (492)
T KOG1190|consen 372 HTNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNYQNIFPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQ-- 449 (492)
T ss_pred CccccCCCCCCccccccccCCCCchhhccCcccccccccCCchhheeeccCCcccchhHHHHhhhcCCceEEeeeecC--
Confidence 5443322111100 0000112246789999999999999999999999887655544433
Q ss_pred CCCcceEEEEEecCHHHHHHHHHHCCCCCCCCC--cccCC
Q 012289 143 TQRPRGFGFITYDSEEAVDKVKRAVPKELSPGP--TRSPL 180 (466)
Q Consensus 143 tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~--~r~~~ 180 (466)
+.+-+|.+.+++.|+|..|+..++....+.. +|+++
T Consensus 450 --kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSF 487 (492)
T KOG1190|consen 450 --KDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSF 487 (492)
T ss_pred --CCcceeecccCChhHhhhhccccccccCCCCceEEEEe
Confidence 3356999999999999999988876643322 36654
No 71
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.32 E-value=2.1e-13 Score=123.79 Aligned_cols=80 Identities=26% Similarity=0.635 Sum_probs=75.2
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
+|+-.|||++||++.||.||..+|++||+|++|.|++|+.||+++||||+.|+|+.....|+.++++ |.+|+|.|...
T Consensus 33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv 112 (219)
T KOG0126|consen 33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV 112 (219)
T ss_pred ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence 5788999999999999999999999999999999999999999999999999999999999999988 77999999775
Q ss_pred CC
Q 012289 81 VP 82 (466)
Q Consensus 81 ~~ 82 (466)
..
T Consensus 113 ~~ 114 (219)
T KOG0126|consen 113 SN 114 (219)
T ss_pred cc
Confidence 43
No 72
>smart00360 RRM RNA recognition motif.
Probab=99.31 E-value=8.3e-12 Score=95.33 Aligned_cols=69 Identities=33% Similarity=0.690 Sum_probs=62.9
Q ss_pred EcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEe
Q 012289 10 IGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAK 78 (466)
Q Consensus 10 VgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~ 78 (466)
|.|||+++++++|+++|++||+|.++.|++++.+++++++|||+|.++++|++|++.++. +.++.|.|+
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 679999999999999999999999999999888889999999999999999999998764 778877763
No 73
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.31 E-value=2.3e-12 Score=119.25 Aligned_cols=78 Identities=31% Similarity=0.513 Sum_probs=73.9
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
....|.|-||.+-++.++|+.+|++||.|.+|.|++|+.|..++|||||.|.+..+|++||+.|+. ++++.|.|+.|.
T Consensus 12 gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar 91 (256)
T KOG4207|consen 12 GMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR 91 (256)
T ss_pred cceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence 457899999999999999999999999999999999999999999999999999999999999877 899999998876
No 74
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=99.30 E-value=8.2e-12 Score=131.07 Aligned_cols=173 Identities=18% Similarity=0.335 Sum_probs=129.1
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
..++|||++||..+++++++|+.+.||++....++.+..++-+|+|||.||.++...+.|+..++. +-++.+.|+.|.
T Consensus 288 ~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~ 367 (500)
T KOG0120|consen 288 SPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAI 367 (500)
T ss_pred ccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhh
Confidence 357899999999999999999999999999999999999999999999999999999999998887 567888888876
Q ss_pred CcchhhhhccC--C---CCCCC---CCCCCCcceeeecCC--CCCC-C-------HHHHHHHHhhcCCeeEEEEEec-C-
Q 012289 82 PRDDQIVLNRS--S---GSIHG---SPGPGRTRKIFVGGL--ASTV-T-------ESDFKKYFDQFGTITDVVVMYD-H- 141 (466)
Q Consensus 82 ~~~~~~~~~~~--~---~~~~~---~~~~~~~~~LfV~nL--p~~v-t-------eedLk~~F~~fG~I~~v~i~~d-~- 141 (466)
........... . ..... ...-.++.+|.+.|+ |.++ . .|++|..+.+|+.|+.|.|+++ .
T Consensus 368 ~g~~~~~~~~~~~~~~~~~i~~~~~q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~ 447 (500)
T KOG0120|consen 368 VGASNANVNFNISQSQVPGIPLLMTQMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPYPD 447 (500)
T ss_pred ccchhccccCCccccccccchhhhcccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCCCC
Confidence 55443332222 0 00000 111223444544443 1111 1 1456667778999999999887 2
Q ss_pred -CCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCc
Q 012289 142 -NTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPT 176 (466)
Q Consensus 142 -~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~ 176 (466)
+.....|..||+|.+.+++++|+++|++..+..++
T Consensus 448 ~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRt 483 (500)
T KOG0120|consen 448 ENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRT 483 (500)
T ss_pred CCcCCCcccEEEEecChHHHHHHHHHccCceeCCcE
Confidence 22345688999999999999999999998655544
No 75
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.28 E-value=6.7e-12 Score=123.18 Aligned_cols=78 Identities=17% Similarity=0.480 Sum_probs=70.0
Q ss_pred CCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcccCC
Q 012289 102 PGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRSPL 180 (466)
Q Consensus 102 ~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~~ 180 (466)
....++|||.|+|+...|.||+.+|++||+|.+|+|+... .-+|||+||+|+++++|++|.++|++. +.+|.|+|..
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 3456899999999999999999999999999999999864 568999999999999999999999998 6788887755
Q ss_pred C
Q 012289 181 G 181 (466)
Q Consensus 181 g 181 (466)
.
T Consensus 171 A 171 (376)
T KOG0125|consen 171 A 171 (376)
T ss_pred c
Confidence 4
No 76
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.28 E-value=9.3e-12 Score=120.91 Aligned_cols=74 Identities=15% Similarity=0.249 Sum_probs=67.2
Q ss_pred cceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCcccCCC
Q 012289 105 TRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPTRSPLG 181 (466)
Q Consensus 105 ~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~r~~~g 181 (466)
.++|||+|||+.+||++|+++|+.||+|++|+|++|++ .++||||+|+++++|+.||.+.+..+.++++++.+.
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a 77 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPA 77 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEec
Confidence 57999999999999999999999999999999999864 478999999999999999987777799999987654
No 77
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.27 E-value=8.3e-12 Score=118.31 Aligned_cols=78 Identities=23% Similarity=0.360 Sum_probs=69.2
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCC-CCCCcccCC
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKEL-SPGPTRSPL 180 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~-~~~~~r~~~ 180 (466)
.+..+|.|.||+.+++|++|+++|.+||.|.+|.|.+|++|+.+||||||+|++.++|++||+.|++.= ..--+++.|
T Consensus 187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEw 265 (270)
T KOG0122|consen 187 DDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEW 265 (270)
T ss_pred CccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEe
Confidence 356789999999999999999999999999999999999999999999999999999999999999863 332335544
No 78
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.27 E-value=1.5e-11 Score=102.25 Aligned_cols=82 Identities=23% Similarity=0.367 Sum_probs=71.4
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
+..+.|||+|||+++|.||+.++|.+||.|..|+|=.++ ..||-|||.|++..+|++|++++.. ++++.+.|-..
T Consensus 16 evnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k---~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyy 92 (124)
T KOG0114|consen 16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK---ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYY 92 (124)
T ss_pred hhheeEEEecCCccccHHHHHHHhhcccceEEEEecCcc---CcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEec
Confidence 346789999999999999999999999999999997654 4689999999999999999999877 78999988877
Q ss_pred CCcchhh
Q 012289 81 VPRDDQI 87 (466)
Q Consensus 81 ~~~~~~~ 87 (466)
.+.....
T Consensus 93 q~~~~~~ 99 (124)
T KOG0114|consen 93 QPEDAFK 99 (124)
T ss_pred CHHHHHH
Confidence 7655443
No 79
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.27 E-value=1.2e-11 Score=129.08 Aligned_cols=82 Identities=33% Similarity=0.602 Sum_probs=77.0
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCCc
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVPR 83 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~~ 83 (466)
+.|||+|||++++||+|.++|++.|.|.+++++.|++|+++|||+|++|.++++|++|++.++. +.+|+|+|.++..+
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 8999999999999999999999999999999999999999999999999999999999999976 88999999998766
Q ss_pred chhh
Q 012289 84 DDQI 87 (466)
Q Consensus 84 ~~~~ 87 (466)
+...
T Consensus 99 ~~~~ 102 (435)
T KOG0108|consen 99 KNAE 102 (435)
T ss_pred chhH
Confidence 5533
No 80
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=99.26 E-value=2.2e-11 Score=121.56 Aligned_cols=173 Identities=19% Similarity=0.300 Sum_probs=126.2
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHH-hccCCCceEEEeecC
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQE-KHNIDGRMVEAKKAV 81 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~-~~~i~Gr~I~V~~a~ 81 (466)
.++..|..++|||.-++.+|-.||+-.-.+.-.+.+.....++.-+++.|.|.++|.-+.|++. +|.+..|.|+|-.+.
T Consensus 58 ~~~vvvRaRglpwq~Sd~~ia~ff~gl~ia~gg~aKOG~~qgrRnge~lvrf~d~e~RdlalkRhkhh~g~ryievYka~ 137 (508)
T KOG1365|consen 58 DDNVVVRARGLPWQSSDQDIARFFKGLNIANGGRALCLNAQGRRNGEALVRFVDPEGRDLALKRHKHHMGTRYIEVYKAT 137 (508)
T ss_pred CcceEEEecCCCCCcccCCHHHHHhhhhccccceeeeehhhhccccceEEEecCchhhhhhhHhhhhhccCCceeeeccC
Confidence 4566778899999999999999998663333333344334577789999999999999999994 455889999999988
Q ss_pred CcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhc----CCeeEEEEEecCCCCCcceEEEEEecCH
Q 012289 82 PRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQF----GTITDVVVMYDHNTQRPRGFGFITYDSE 157 (466)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~f----G~I~~v~i~~d~~tg~~rG~aFV~F~s~ 157 (466)
..+......-.......-......-.|.+++||+++++.|+.++|.+. +.++.|.+++.++ +|++|-|||.|..+
T Consensus 138 ge~f~~iagg~s~e~~~flsk~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpd-grpTGdAFvlfa~e 216 (508)
T KOG1365|consen 138 GEEFLKIAGGTSNEAAPFLSKENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPD-GRPTGDAFVLFACE 216 (508)
T ss_pred chhheEecCCccccCCCCCCcccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCC-CCcccceEEEecCH
Confidence 765433222111111111122334567789999999999999999632 3455666665544 99999999999999
Q ss_pred HHHHHHHHHCCCCCCCCCc
Q 012289 158 EAVDKVKRAVPKELSPGPT 176 (466)
Q Consensus 158 e~A~~Ai~~l~~~~~~~~~ 176 (466)
++|+.||.+....+-.|.|
T Consensus 217 e~aq~aL~khrq~iGqRYI 235 (508)
T KOG1365|consen 217 EDAQFALRKHRQNIGQRYI 235 (508)
T ss_pred HHHHHHHHHHHHHHhHHHH
Confidence 9999999988776666655
No 81
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.26 E-value=8.1e-11 Score=119.14 Aligned_cols=65 Identities=23% Similarity=0.466 Sum_probs=59.1
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhc
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKH 68 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~ 68 (466)
....++||.||.+.+..+.|++.|.-.|+|+.|.+-.|+. +.++|||.|+|.++-+|-.||..+.
T Consensus 213 Pl~~k~fvanl~~~vg~~kL~qvfgmAGkv~~vdf~idKe-G~s~G~~vi~y~hpveavqaIsml~ 277 (608)
T KOG4212|consen 213 PLHNKVFVANLDYKVGNKKLKQVFGMAGKVQSVDFSIDKE-GNSRGFAVIEYDHPVEAVQAISMLD 277 (608)
T ss_pred CccceeeeeccccccchHHHHHHhccceeeeeeceeeccc-cccCCeeEEEecchHHHHHHHHhhc
Confidence 3467899999999999999999999999999999988886 7999999999999999999988665
No 82
>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=99.26 E-value=3.9e-11 Score=92.48 Aligned_cols=72 Identities=35% Similarity=0.656 Sum_probs=65.1
Q ss_pred EEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEee
Q 012289 7 KLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKK 79 (466)
Q Consensus 7 ~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~ 79 (466)
+|+|.+||+++++++|+++|+.+|+|..+.+++++.+ .++++|||+|.++++|+.|++.++. ++++.|.|.+
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 4899999999999999999999999999999988765 7799999999999999999998876 6788887753
No 83
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.26 E-value=1.6e-11 Score=117.71 Aligned_cols=77 Identities=35% Similarity=0.659 Sum_probs=72.4
Q ss_pred cceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCC-CCCCCCCcccCCC
Q 012289 105 TRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVP-KELSPGPTRSPLG 181 (466)
Q Consensus 105 ~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~-~~~~~~~~r~~~g 181 (466)
.++|||+|||+.+++++|+++|.+||+|..|.|+.|+.++++++||||+|.++++|..|++.++ ..+.++++++...
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~ 192 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKA 192 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecc
Confidence 6899999999999999999999999999999999999999999999999999999999999999 5588888877663
No 84
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.21 E-value=5.9e-11 Score=120.68 Aligned_cols=106 Identities=20% Similarity=0.344 Sum_probs=83.4
Q ss_pred CHHHHHHHHHHhccCCCceEEEeecCCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEE
Q 012289 56 DPAVAEIVIQEKHNIDGRMVEAKKAVPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDV 135 (466)
Q Consensus 56 ~~e~A~~Al~~~~~i~Gr~I~V~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v 135 (466)
+.++|.++|.+ -.+-.|+|+....+..-.... -..+.+...+.|||+.||.++.|++|+.+|++.|+|-++
T Consensus 43 ~~eaal~al~E---~tgy~l~ve~gqrk~ggPpP~------weg~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~el 113 (506)
T KOG0117|consen 43 SEEAALKALLE---RTGYTLVVENGQRKYGGPPPG------WEGPPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYEL 113 (506)
T ss_pred cHHHHHHHHHH---hcCceEEEeccccccCCCCCc------ccCCCCCCCceEEecCCCccccchhhHHHHHhccceeeE
Confidence 34555555543 456677776655433221111 123334678899999999999999999999999999999
Q ss_pred EEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC
Q 012289 136 VVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE 170 (466)
Q Consensus 136 ~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~ 170 (466)
++|.|+.++..||||||+|.+.++|++||+.|+..
T Consensus 114 RLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~ 148 (506)
T KOG0117|consen 114 RLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNY 148 (506)
T ss_pred EEeecccCCCCcceEEEEeecHHHHHHHHHHhhCc
Confidence 99999999999999999999999999999999886
No 85
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.21 E-value=1.1e-11 Score=115.65 Aligned_cols=85 Identities=27% Similarity=0.514 Sum_probs=79.4
Q ss_pred CCCCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEe
Q 012289 1 MQSDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAK 78 (466)
Q Consensus 1 m~~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~ 78 (466)
|-...++|||++|-.+++|.-|...|-+||.|++|.|+.|-.+.++|+|+||||...|+|..||.+|++ +.+|.|+|.
T Consensus 6 ~a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN 85 (298)
T KOG0111|consen 6 MANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVN 85 (298)
T ss_pred ccccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEe
Confidence 446789999999999999999999999999999999999999999999999999999999999999876 999999999
Q ss_pred ecCCcch
Q 012289 79 KAVPRDD 85 (466)
Q Consensus 79 ~a~~~~~ 85 (466)
.|+|..-
T Consensus 86 ~AkP~ki 92 (298)
T KOG0111|consen 86 LAKPEKI 92 (298)
T ss_pred ecCCccc
Confidence 9987653
No 86
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.19 E-value=2.1e-11 Score=122.26 Aligned_cols=118 Identities=36% Similarity=0.622 Sum_probs=95.7
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHH-HhccCCCceEEEeecCCc
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQ-EKHNIDGRMVEAKKAVPR 83 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~-~~~~i~Gr~I~V~~a~~~ 83 (466)
..+|||+.||.+++|++|+++|++||.|..+.||.|+.+.++|+|+||+|.+++.+++++. ..|.|.+++|+|++|.|+
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkrA~pk 176 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKRAIPK 176 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecccceeeecCceeeEeeccch
Confidence 4589999999999999999999999999999999999999999999999999999999987 668999999999999998
Q ss_pred chhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCee
Q 012289 84 DDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTIT 133 (466)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~ 133 (466)
+........ .....+..++....+.-.|..+|+-|+++.
T Consensus 177 ~~~~~~~~~-----------~~~~~~~~~~g~~~~~~~l~~~~~g~~~~~ 215 (311)
T KOG4205|consen 177 EVMQSTKSS-----------VSTRGKGNNLGNGRTGFFLKKYFKGYGPVG 215 (311)
T ss_pred hhccccccc-----------cccccccccccccccccccchhccccCccc
Confidence 765422111 111222225555556667778888887764
No 87
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.18 E-value=6.3e-11 Score=113.51 Aligned_cols=73 Identities=15% Similarity=0.182 Sum_probs=66.0
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCcccC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPTRSP 179 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~r~~ 179 (466)
...+|||+||++.+||+||+++|+.||+|++|+|++|. +.++||||+|+++++|+.|+.+....|.+++|.+.
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It 76 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAVLLSGATIVDQRVCIT 76 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEE
Confidence 45799999999999999999999999999999999984 44689999999999999999888888999988653
No 88
>smart00360 RRM RNA recognition motif.
Probab=99.17 E-value=9.8e-11 Score=89.30 Aligned_cols=67 Identities=34% Similarity=0.673 Sum_probs=60.2
Q ss_pred ecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCc
Q 012289 110 VGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPT 176 (466)
Q Consensus 110 V~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~ 176 (466)
|.+||..+++++|+++|++||.|..+.|..++.+.+++++|||+|.++++|++|++.+++. +.++.+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~ 68 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPL 68 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEE
Confidence 5799999999999999999999999999999888999999999999999999999999854 444443
No 89
>smart00362 RRM_2 RNA recognition motif.
Probab=99.17 E-value=8.8e-11 Score=89.98 Aligned_cols=68 Identities=37% Similarity=0.677 Sum_probs=60.5
Q ss_pred eeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCc
Q 012289 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPT 176 (466)
Q Consensus 107 ~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~ 176 (466)
+|+|.+||..+++++|+++|++||+|..+.++.++ +.++++|||+|.++++|++|++.++.. +.++++
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i 69 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPL 69 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEE
Confidence 58999999999999999999999999999999877 678899999999999999999999854 444444
No 90
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.16 E-value=6.6e-11 Score=107.21 Aligned_cols=73 Identities=23% Similarity=0.528 Sum_probs=65.4
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcccCCC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRSPLG 181 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~~g 181 (466)
..++|||+||+..+++.||+.+|..||+|..|.|.+ .+.|||||||+++.+|+.|+..|+.. +-+..++|.+-
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvAr-----nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S 82 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVAR-----NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELS 82 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEee-----cCCCceEEeccCcccHHHHHhhcCCccccCceEEEEee
Confidence 467999999999999999999999999999999975 45799999999999999999999986 66777777653
No 91
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.15 E-value=5.4e-11 Score=103.43 Aligned_cols=81 Identities=22% Similarity=0.414 Sum_probs=75.2
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCC
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVP 82 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~ 82 (466)
--.|||.+|..+++|++|.+.|..||+|++|.|-.|+.|+..||||+|||++.++|++|+..++. +.++.|.|.|+..
T Consensus 72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv 151 (170)
T KOG0130|consen 72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFV 151 (170)
T ss_pred eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEe
Confidence 34699999999999999999999999999999999999999999999999999999999999875 8899999999876
Q ss_pred cch
Q 012289 83 RDD 85 (466)
Q Consensus 83 ~~~ 85 (466)
+.+
T Consensus 152 ~gp 154 (170)
T KOG0130|consen 152 KGP 154 (170)
T ss_pred cCC
Confidence 543
No 92
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.11 E-value=1.9e-10 Score=104.95 Aligned_cols=75 Identities=17% Similarity=0.402 Sum_probs=64.9
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcccCCC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRSPLG 181 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~~g 181 (466)
..++|||+|||.++.|.||+++|.+||.|++|.+... ..+..||||+|+++.+|+.||..-+.. +.+-.+|+.+.
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r---~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfp 80 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNR---PGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFP 80 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccC---CCCCCeeEEEecCccchhhhhhcccccccCcceEEEEec
Confidence 4679999999999999999999999999999998543 456789999999999999999998886 55666687664
No 93
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.10 E-value=2.7e-10 Score=94.88 Aligned_cols=74 Identities=19% Similarity=0.337 Sum_probs=65.7
Q ss_pred CCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCccc
Q 012289 102 PGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRS 178 (466)
Q Consensus 102 ~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~ 178 (466)
+..++.|||+|||+++|.|++-++|.+||+|..|+|-.+++| +|.|||.|++..+|++|+++|... +.++++.+
T Consensus 15 pevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~T---rGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~v 89 (124)
T KOG0114|consen 15 PEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKET---RGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVV 89 (124)
T ss_pred hhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCc---CceEEEEehHhhhHHHHHHHhcccccCCceEEE
Confidence 346789999999999999999999999999999999877665 899999999999999999999986 56666644
No 94
>PLN03213 repressor of silencing 3; Provisional
Probab=99.10 E-value=1.7e-10 Score=118.30 Aligned_cols=75 Identities=24% Similarity=0.426 Sum_probs=66.1
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCH--HHHHHHHHHCCCC-CCCCCcccC
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSE--EAVDKVKRAVPKE-LSPGPTRSP 179 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~--e~A~~Ai~~l~~~-~~~~~~r~~ 179 (466)
....+|||+||++.++++||+++|.+||.|.+|.|+ ++|+ ||||||+|.+. +++++||..|++. ..+|.|++.
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVN 83 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLE 83 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEe
Confidence 346799999999999999999999999999999999 5566 99999999877 7899999999987 577888775
Q ss_pred CC
Q 012289 180 LG 181 (466)
Q Consensus 180 ~g 181 (466)
.+
T Consensus 84 KA 85 (759)
T PLN03213 84 KA 85 (759)
T ss_pred ec
Confidence 54
No 95
>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=99.08 E-value=5.9e-10 Score=85.80 Aligned_cols=69 Identities=33% Similarity=0.709 Sum_probs=62.2
Q ss_pred eeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCc
Q 012289 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPT 176 (466)
Q Consensus 107 ~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~ 176 (466)
+|+|.+||..+++++|+++|++|+.|..+.+..++.+ +++++|||+|.+.++|+.|++.++.. +.++.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~ 70 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPL 70 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEE
Confidence 4899999999999999999999999999999988775 78999999999999999999999987 444443
No 96
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=99.08 E-value=3.5e-09 Score=105.70 Aligned_cols=172 Identities=16% Similarity=0.200 Sum_probs=126.8
Q ss_pred CCCEEEEcCCCcc-CcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 4 DNGKLFIGGISWD-TNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 4 d~~~LfVgnLP~~-~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
+.+.++|-+|... ++-+.|..+|-.||.|+.|++|+.+. +-|.||+.|+.+.++|++.++. +.+.+|+|+.+
T Consensus 286 ~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~-----gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~S 360 (494)
T KOG1456|consen 286 PGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP-----GTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVS 360 (494)
T ss_pred CCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc-----ceeEEEcCcHHHHHHHHHHhccCccccceEEEeec
Confidence 4678899999865 68899999999999999999999764 6899999999999999999987 67999998876
Q ss_pred CCcchh----hhhccC----------CCCCCC-------CCCCCCcceeeecCCCCCCCHHHHHHHHhhcCC-eeEEEEE
Q 012289 81 VPRDDQ----IVLNRS----------SGSIHG-------SPGPGRTRKIFVGGLASTVTESDFKKYFDQFGT-ITDVVVM 138 (466)
Q Consensus 81 ~~~~~~----~~~~~~----------~~~~~~-------~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~-I~~v~i~ 138 (466)
+..-.. ..+... ...... .....++++|+.-|.|..+|||+|.++|..... -++|+|.
T Consensus 361 kQ~~v~~~~pflLpDgSpSfKdys~SkNnRFssp~qAsKNrIq~Ps~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvF 440 (494)
T KOG1456|consen 361 KQNFVSPVQPFLLPDGSPSFKDYSGSKNNRFSSPEQASKNRIQPPSNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVF 440 (494)
T ss_pred cccccccCCceecCCCCcchhhcccccccccCChhHhhcccccCCcceeEEecCCCccCHHHHHHHhhhcCCCcceEEee
Confidence 532111 111110 000111 112346789999999999999999999976653 4566666
Q ss_pred ecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCcccCCCCCCCC
Q 012289 139 YDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPTRSPLGGYHYG 186 (466)
Q Consensus 139 ~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~r~~~g~~~~~ 186 (466)
.-+. . ..--+.+||++.++|..||.+++.. +|+.+.+.+++.
T Consensus 441 p~ks-e-rSssGllEfe~~s~Aveal~~~NH~----pi~~p~gs~Pfi 482 (494)
T KOG1456|consen 441 PLKS-E-RSSSGLLEFENKSDAVEALMKLNHY----PIEGPNGSFPFI 482 (494)
T ss_pred cccc-c-ccccceeeeehHHHHHHHHHHhccc----cccCCCCCCCee
Confidence 5543 2 2346899999999999999999887 344455554443
No 97
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.06 E-value=1.1e-10 Score=106.29 Aligned_cols=80 Identities=25% Similarity=0.434 Sum_probs=73.7
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCC-CCCCCCcccCCC
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPK-ELSPGPTRSPLG 181 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~-~~~~~~~r~~~g 181 (466)
.+..+|||+||+..++++.|.++|-+.|+|+++.|++|+.|...+|||||+|.++|+|+-|++.|+. ++.+++||+...
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka 86 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA 86 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence 4567999999999999999999999999999999999999999999999999999999999999985 378999988654
Q ss_pred C
Q 012289 182 G 182 (466)
Q Consensus 182 ~ 182 (466)
.
T Consensus 87 s 87 (203)
T KOG0131|consen 87 S 87 (203)
T ss_pred c
Confidence 4
No 98
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=99.05 E-value=3.3e-10 Score=119.08 Aligned_cols=165 Identities=22% Similarity=0.386 Sum_probs=127.4
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcC-----------C-CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc-
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTY-----------G-EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN- 69 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~-----------G-~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~- 69 (466)
...++++|++||+.++|+++..+|..- | +|+.+.|-.. +.||||+|.+.++|..++...-.
T Consensus 173 ~q~~r~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~~s~~~n~~------~nfa~ie~~s~~~at~~~~~~~~~ 246 (500)
T KOG0120|consen 173 RQARRLYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSFVSVQLNLE------KNFAFIEFRSISEATEAMALDGII 246 (500)
T ss_pred hhhhhhcccccCCccCcHhhhhhhhhhhhhcccccCCCCCceeeeeeccc------ccceeEEecCCCchhhhhcccchh
Confidence 456889999999999999999999764 2 2555655444 45999999999999999875443
Q ss_pred CCCceEEEeecCCcchhhhhccC-------CCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCC
Q 012289 70 IDGRMVEAKKAVPRDDQIVLNRS-------SGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHN 142 (466)
Q Consensus 70 i~Gr~I~V~~a~~~~~~~~~~~~-------~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~ 142 (466)
+.++++.+............... .........+....+|+|++||..+++.+++++.+.|++++...++.|..
T Consensus 247 f~g~~~~~~r~~d~~~~p~~~~~~~~~~~~~~~~~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~ 326 (500)
T KOG0120|consen 247 FEGRPLKIRRPHDYQPVPGITLSPSQLGKVGLLPASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSA 326 (500)
T ss_pred hCCCCceecccccccCCccchhhhccccccCCcccccCcccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccc
Confidence 77888877654432222111111 11112223344567999999999999999999999999999999999999
Q ss_pred CCCcceEEEEEecCHHHHHHHHHHCCCCCCC
Q 012289 143 TQRPRGFGFITYDSEEAVDKVKRAVPKELSP 173 (466)
Q Consensus 143 tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~ 173 (466)
++-+++|||.+|.++...+.|+..|++...+
T Consensus 327 ~g~skg~af~ey~dpsvtd~A~agLnGm~lg 357 (500)
T KOG0120|consen 327 TGNSKGFAFCEYCDPSVTDQAIAGLNGMQLG 357 (500)
T ss_pred cccccceeeeeeeCCcchhhhhcccchhhhc
Confidence 9999999999999999999999999987444
No 99
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.05 E-value=8e-11 Score=109.95 Aligned_cols=81 Identities=31% Similarity=0.527 Sum_probs=75.0
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcccCCC
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRSPLG 181 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~~g 181 (466)
.+.++|||++|.+.|+|.-|...|-+||.|++|.|+.|.++++.|+|+||+|+..|+|.+||..++.. +.+|.|||.++
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~A 87 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLA 87 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeec
Confidence 35789999999999999999999999999999999999999999999999999999999999998875 88999998776
Q ss_pred CC
Q 012289 182 GY 183 (466)
Q Consensus 182 ~~ 183 (466)
..
T Consensus 88 kP 89 (298)
T KOG0111|consen 88 KP 89 (298)
T ss_pred CC
Confidence 43
No 100
>smart00361 RRM_1 RNA recognition motif.
Probab=99.05 E-value=6.7e-10 Score=87.61 Aligned_cols=60 Identities=30% Similarity=0.435 Sum_probs=52.7
Q ss_pred cHHHHHHHhh----cCCCeEEEE-EeecCCC--CCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEE
Q 012289 18 NEERLKEYFS----TYGEVVEAV-IMKDRNT--GRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEA 77 (466)
Q Consensus 18 teeeL~~~F~----~~G~V~~v~-i~~d~~t--g~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V 77 (466)
.+++|+++|+ +||+|.+|. |+.++.+ +++|||+||+|.++++|++|++.++. +.+|.|.+
T Consensus 1 ~~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 1 KDEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred CchhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 3688999998 999999996 7777666 89999999999999999999999877 78888865
No 101
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=99.04 E-value=1e-10 Score=109.30 Aligned_cols=136 Identities=24% Similarity=0.335 Sum_probs=114.4
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
+.+++|||.||...++|+-|.|+|-+-|+|..|.|..+++ ...| ||||+|+++-...-|++-++. +.++++.|
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~--- 81 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQD-QEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQR--- 81 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCcc-CCCc-eeeeecccccchhhhhhhcccchhccchhhc---
Confidence 4678999999999999999999999999999999988876 5667 999999999999999987665 33444433
Q ss_pred CCcchhhhhccCCCCCCCCCCCCCcceeeecC----CCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecC
Q 012289 81 VPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGG----LASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS 156 (466)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~n----Lp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s 156 (466)
+++.++ |...+++|.+.+.|+.-++|..+++..+.+ ++.+.+.||++..
T Consensus 82 --------------------------~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~d-~rnrn~~~~~~qr 134 (267)
T KOG4454|consen 82 --------------------------TLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDND-GRNRNFGFVTYQR 134 (267)
T ss_pred --------------------------ccccCCCcchhhhhcchhhheeeecccCCCCCcccccccc-CCccCccchhhhh
Confidence 233333 778899999999999999999999999987 8999999999988
Q ss_pred HHHHHHHHHHCCCC
Q 012289 157 EEAVDKVKRAVPKE 170 (466)
Q Consensus 157 ~e~A~~Ai~~l~~~ 170 (466)
..+.-.++......
T Consensus 135 ~~~~P~~~~~y~~l 148 (267)
T KOG4454|consen 135 LCAVPFALDLYQGL 148 (267)
T ss_pred hhcCcHHhhhhccc
Confidence 87777777766553
No 102
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.03 E-value=3.9e-10 Score=121.11 Aligned_cols=106 Identities=19% Similarity=0.339 Sum_probs=82.2
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCC
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVP 82 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~ 82 (466)
++||||+.|+..++|.||+.+|++||+|++|+++. +|+||||++...++|++||++|.+ +..+.|+|.|+..
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~------~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g 494 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP------PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVG 494 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeecc------CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeecc
Confidence 68999999999999999999999999999998876 467999999999999999998866 7899999999987
Q ss_pred cchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHh
Q 012289 83 RDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFD 127 (466)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~ 127 (466)
+-.+...+... ...|=|.-+|+..-.++|+.+++
T Consensus 495 ~G~kse~k~~w-----------D~~lGVt~IP~~kLt~dl~~~~e 528 (894)
T KOG0132|consen 495 KGPKSEYKDYW-----------DVELGVTYIPWEKLTDDLEAWCE 528 (894)
T ss_pred CCcchhhhhhh-----------hcccCeeEeehHhcCHHHHHhhh
Confidence 65443221111 11223344566654455777765
No 103
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=99.00 E-value=7.5e-10 Score=110.46 Aligned_cols=171 Identities=21% Similarity=0.265 Sum_probs=133.8
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhc--cCCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKH--NIDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~--~i~Gr~I~V~~a~ 81 (466)
..+++|++++.+.+.+.++..++.+.|.+..+.+........+++++.|.|+.++.+..+|+... .+..+.++.....
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 46889999999999999999999999998888888777778899999999999999999998543 3555555554444
Q ss_pred CcchhhhhccCCCCCCCCCCCCCcceee-ecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHH
Q 012289 82 PRDDQIVLNRSSGSIHGSPGPGRTRKIF-VGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAV 160 (466)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~Lf-V~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A 160 (466)
.+........ .........+++ |.+|++.+++++|+++|..++.|+.++++.++.++..++|++|.|.+...+
T Consensus 167 ~~~~~~~n~~------~~~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~ 240 (285)
T KOG4210|consen 167 RRGLRPKNKL------SRLSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSK 240 (285)
T ss_pred cccccccchh------cccccCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhH
Confidence 3331110000 001112233444 999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHCCCCCCCCCcccCC
Q 012289 161 DKVKRAVPKELSPGPTRSPL 180 (466)
Q Consensus 161 ~~Ai~~l~~~~~~~~~r~~~ 180 (466)
.+++..-...+..+++++-.
T Consensus 241 ~~~~~~~~~~~~~~~~~~~~ 260 (285)
T KOG4210|consen 241 KLALNDQTRSIGGRPLRLEE 260 (285)
T ss_pred HHHhhcccCcccCccccccc
Confidence 99998844556777665543
No 104
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.95 E-value=7e-11 Score=107.54 Aligned_cols=75 Identities=25% Similarity=0.487 Sum_probs=69.8
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCccc
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRS 178 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~ 178 (466)
+..-|||++||+.+||-||--+|++||+|++|.+++|+.|++++||||+.|++..+...|+..+++. +.+|.|||
T Consensus 34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirV 109 (219)
T KOG0126|consen 34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRV 109 (219)
T ss_pred cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEe
Confidence 4568999999999999999999999999999999999999999999999999999999999988885 77777776
No 105
>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=98.95 E-value=2.6e-09 Score=80.18 Aligned_cols=54 Identities=37% Similarity=0.600 Sum_probs=47.9
Q ss_pred HHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 22 LKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 22 L~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
|+++|++||+|+++.+.+++ +++|||+|.++++|++|++.++. +.+++|+|+++
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 78999999999999997754 57999999999999999998877 89999999875
No 106
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.93 E-value=1.4e-09 Score=113.67 Aligned_cols=78 Identities=24% Similarity=0.517 Sum_probs=73.5
Q ss_pred ceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCC-CCCCCCcccCCCCC
Q 012289 106 RKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPK-ELSPGPTRSPLGGY 183 (466)
Q Consensus 106 ~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~-~~~~~~~r~~~g~~ 183 (466)
+.|||+|+|++++||+|.++|+..|.|..++++.|++|+++|||+||+|.+++++.+|++.|+. ++.++++|+.+...
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~ 97 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN 97 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence 7999999999999999999999999999999999999999999999999999999999999995 57888889877544
No 107
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=1.6e-09 Score=107.47 Aligned_cols=82 Identities=24% Similarity=0.446 Sum_probs=76.4
Q ss_pred CCCCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEe
Q 012289 1 MQSDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAK 78 (466)
Q Consensus 1 m~~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~ 78 (466)
|...++.|||-.|.+-++.++|+-+|+.||+|+.|.|++|..|+.+-.||||||.+++++++|.-+|.. |+.+.|.|.
T Consensus 235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVD 314 (479)
T KOG0415|consen 235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVD 314 (479)
T ss_pred cCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEee
Confidence 446788999999999999999999999999999999999999999999999999999999999998877 999999998
Q ss_pred ecCC
Q 012289 79 KAVP 82 (466)
Q Consensus 79 ~a~~ 82 (466)
.+..
T Consensus 315 FSQS 318 (479)
T KOG0415|consen 315 FSQS 318 (479)
T ss_pred hhhh
Confidence 7654
No 108
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.91 E-value=7.3e-09 Score=107.74 Aligned_cols=74 Identities=24% Similarity=0.408 Sum_probs=62.9
Q ss_pred cceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCccc
Q 012289 105 TRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPTRS 178 (466)
Q Consensus 105 ~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~r~ 178 (466)
...|||+|||+++++++|+++|.+||+|+...|..-...++..+|+||+|++.++++.||++..-.+..+.+.+
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~V 361 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNV 361 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEE
Confidence 34599999999999999999999999999998876442344449999999999999999999977777777744
No 109
>smart00361 RRM_1 RNA recognition motif.
Probab=98.89 E-value=4.2e-09 Score=83.01 Aligned_cols=59 Identities=19% Similarity=0.401 Sum_probs=50.6
Q ss_pred HHHHHHHHh----hcCCeeEEE-EEecCCC--CCcceEEEEEecCHHHHHHHHHHCCCCC-CCCCcc
Q 012289 119 ESDFKKYFD----QFGTITDVV-VMYDHNT--QRPRGFGFITYDSEEAVDKVKRAVPKEL-SPGPTR 177 (466)
Q Consensus 119 eedLk~~F~----~fG~I~~v~-i~~d~~t--g~~rG~aFV~F~s~e~A~~Ai~~l~~~~-~~~~~r 177 (466)
+++|+++|+ +||.|.+|. |+.|+.+ +++||++||+|+++++|.+|++.|+... .++.++
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~ 68 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVK 68 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence 678888888 999999995 7788777 8999999999999999999999998874 455443
No 110
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.88 E-value=3.5e-09 Score=92.23 Aligned_cols=77 Identities=22% Similarity=0.381 Sum_probs=71.3
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCC-CCCCCCcccCC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPK-ELSPGPTRSPL 180 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~-~~~~~~~r~~~ 180 (466)
..-.|||.++.+.+||+||.+.|..||+|+.|.+-.|+.|+-.||||+|+|++.+.|++||.+++. .+.++.+.|.|
T Consensus 71 EGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw 148 (170)
T KOG0130|consen 71 EGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDW 148 (170)
T ss_pred eeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEE
Confidence 456899999999999999999999999999999999999999999999999999999999999996 57888887654
No 111
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.85 E-value=3e-09 Score=102.08 Aligned_cols=83 Identities=29% Similarity=0.524 Sum_probs=76.3
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
.|-|.|||-.||.+..+.||.+.|-.||.|++.++..|+.|..+|.|+||.|.++..|+.||+.|+. |.-++|+|...
T Consensus 283 PeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLK 362 (371)
T KOG0146|consen 283 PEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLK 362 (371)
T ss_pred CCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhc
Confidence 5789999999999999999999999999999999999999999999999999999999999999988 56777788777
Q ss_pred CCcch
Q 012289 81 VPRDD 85 (466)
Q Consensus 81 ~~~~~ 85 (466)
+|++.
T Consensus 363 RPkda 367 (371)
T KOG0146|consen 363 RPKDA 367 (371)
T ss_pred Ccccc
Confidence 76653
No 112
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.82 E-value=3.1e-08 Score=92.29 Aligned_cols=80 Identities=24% Similarity=0.495 Sum_probs=72.5
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcC-CCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTY-GEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~-G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
...-++|..||.-+.|.+|..+|.+| |.|..+++.+++.||.+|+||||||++++.|+-|.+.||. +.++.|++..-
T Consensus 48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vm 127 (214)
T KOG4208|consen 48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVM 127 (214)
T ss_pred CccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEe
Confidence 45678999999999999999999988 7888888989999999999999999999999999999998 77888888776
Q ss_pred CCc
Q 012289 81 VPR 83 (466)
Q Consensus 81 ~~~ 83 (466)
.|.
T Consensus 128 ppe 130 (214)
T KOG4208|consen 128 PPE 130 (214)
T ss_pred Cch
Confidence 665
No 113
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=98.79 E-value=2.9e-10 Score=123.38 Aligned_cols=134 Identities=23% Similarity=0.347 Sum_probs=115.3
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc-CCCceEEEeecCC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN-IDGRMVEAKKAVP 82 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~-i~Gr~I~V~~a~~ 82 (466)
+.+++||.||+..+.+++|++.|..++.+..+.|....+.++.||.|+|+|.+++++.+||..... +.+
T Consensus 666 ~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g---------- 735 (881)
T KOG0128|consen 666 DLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG---------- 735 (881)
T ss_pred HHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh----------
Confidence 456899999999999999999999999888877776667799999999999999999999974322 222
Q ss_pred cchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHH
Q 012289 83 RDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDK 162 (466)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~ 162 (466)
..+|+|.|+|+..|.++|+.+|.+++.++++.++..+. ++++|.|+|.|.++.++.+
T Consensus 736 ----------------------K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~-gkpkg~a~v~y~~ea~~s~ 792 (881)
T KOG0128|consen 736 ----------------------KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRA-GKPKGKARVDYNTEADASR 792 (881)
T ss_pred ----------------------hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhc-cccccceeccCCCcchhhh
Confidence 23789999999999999999999999999999887776 9999999999999999988
Q ss_pred HHHHCCCC
Q 012289 163 VKRAVPKE 170 (466)
Q Consensus 163 Ai~~l~~~ 170 (466)
+....+..
T Consensus 793 ~~~s~d~~ 800 (881)
T KOG0128|consen 793 KVASVDVA 800 (881)
T ss_pred hcccchhh
Confidence 77666554
No 114
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.79 E-value=4.5e-08 Score=97.94 Aligned_cols=147 Identities=16% Similarity=0.205 Sum_probs=108.1
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHh--cc--CCCceEEEee
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEK--HN--IDGRMVEAKK 79 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~--~~--i~Gr~I~V~~ 79 (466)
.+-.|.|++|-..++|.||.+.+++||+|.-+.+|..+ ..|.|||+|.+-|+.++.-. +. +.++.-.+..
T Consensus 30 ~spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~~------r~alvefedi~~akn~Vnfaa~n~i~i~gq~Al~Ny 103 (494)
T KOG1456|consen 30 PSPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPHK------RQALVEFEDIEGAKNCVNFAADNQIYIAGQQALFNY 103 (494)
T ss_pred CCceEEEeccccccchhHHHHHHhcCCceEEEEecccc------ceeeeeeccccchhhheehhccCcccccCchhhccc
Confidence 35678999999999999999999999999888776643 37999999999999988621 11 4455544444
Q ss_pred cCCcchhhhhccCCCCCCCCCCCCCcceee--ecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCH
Q 012289 80 AVPRDDQIVLNRSSGSIHGSPGPGRTRKIF--VGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSE 157 (466)
Q Consensus 80 a~~~~~~~~~~~~~~~~~~~~~~~~~~~Lf--V~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~ 157 (466)
+..+.- .+.. .++. ...+.|. |-|--+.+|.+-|..++..+|+|.+|+|++.. + =-|+|||++.
T Consensus 104 Stsq~i----~R~g---~es~--~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkkn--g---VQAmVEFdsv 169 (494)
T KOG1456|consen 104 STSQCI----ERPG---DESA--TPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKKN--G---VQAMVEFDSV 169 (494)
T ss_pred chhhhh----ccCC---CCCC--CCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEecc--c---eeeEEeechh
Confidence 432211 1100 1111 2233443 45666789999999999999999999998652 2 3599999999
Q ss_pred HHHHHHHHHCCCC
Q 012289 158 EAVDKVKRAVPKE 170 (466)
Q Consensus 158 e~A~~Ai~~l~~~ 170 (466)
+.|++|+.+|++.
T Consensus 170 ~~AqrAk~alNGA 182 (494)
T KOG1456|consen 170 EVAQRAKAALNGA 182 (494)
T ss_pred HHHHHHHhhcccc
Confidence 9999999999985
No 115
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.79 E-value=6.5e-09 Score=99.35 Aligned_cols=159 Identities=21% Similarity=0.337 Sum_probs=118.4
Q ss_pred EEEEcCCCccCcHHH-H--HHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 7 KLFIGGISWDTNEER-L--KEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 7 ~LfVgnLP~~~teee-L--~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
.+|+.++-.++..+- | ...|+.+-.+...++++++. ..-++++|+.|+....-.++-.+... +.-+.|++....
T Consensus 98 ~p~~~~~g~~v~pep~lp~~~~f~~~p~L~ktk~v~~~p-~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a~gt 176 (290)
T KOG0226|consen 98 RPFQSNAGATVNPEPPLPLPVVFSEYPSLVKTKLVRDRP-QPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRLAAGT 176 (290)
T ss_pred cccccccccccCCCCCCcchhhhccchhhhhhhhhhcCC-CccCcccccCcchhhhhhhhccccccccccCcceeecccc
Confidence 345566555555444 3 67788887777777777765 66788999999876665555443222 444445555555
Q ss_pred CcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHH
Q 012289 82 PRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVD 161 (466)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~ 161 (466)
.+++.... ..+....+||++.|-.+++++.|...|.+|-.....+|++|+.|++++||+||.|.++.++.
T Consensus 177 swedPsl~----------ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~ 246 (290)
T KOG0226|consen 177 SWEDPSLA----------EWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYV 246 (290)
T ss_pred ccCCcccc----------cCccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHH
Confidence 55544332 22346779999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHCCCC-CCCCCc
Q 012289 162 KVKRAVPKE-LSPGPT 176 (466)
Q Consensus 162 ~Ai~~l~~~-~~~~~~ 176 (466)
+|++.++.. ...++|
T Consensus 247 rAmrem~gkyVgsrpi 262 (290)
T KOG0226|consen 247 RAMREMNGKYVGSRPI 262 (290)
T ss_pred HHHHhhcccccccchh
Confidence 999988876 444555
No 116
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.73 E-value=1.1e-08 Score=99.46 Aligned_cols=74 Identities=30% Similarity=0.466 Sum_probs=68.4
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
.+++|+|+||.+.|+-+||++.|++||+|++|+|++| |+||.|...++|..|++.+++ ++++++.|+.+.
T Consensus 77 ~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~st 148 (346)
T KOG0109|consen 77 ASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLST 148 (346)
T ss_pred CccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhcccccccccceeeeeeec
Confidence 5789999999999999999999999999999999986 999999999999999998765 999999999988
Q ss_pred Ccch
Q 012289 82 PRDD 85 (466)
Q Consensus 82 ~~~~ 85 (466)
.+..
T Consensus 149 srlr 152 (346)
T KOG0109|consen 149 SRLR 152 (346)
T ss_pred cccc
Confidence 7654
No 117
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.70 E-value=3.3e-08 Score=98.20 Aligned_cols=74 Identities=28% Similarity=0.511 Sum_probs=66.5
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc---CCCceEEEee
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN---IDGRMVEAKK 79 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~---i~Gr~I~V~~ 79 (466)
...++|||++|-..++|.+|+++|.+||+|+.|+++..+ ++|||+|.+.+.|++|.++.-. |++++|.|+|
T Consensus 226 ~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~W 299 (377)
T KOG0153|consen 226 TSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKW 299 (377)
T ss_pred cceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHhhcceeeecceEEEEEe
Confidence 346799999999999999999999999999999998754 4999999999999999986533 8999999999
Q ss_pred cCC
Q 012289 80 AVP 82 (466)
Q Consensus 80 a~~ 82 (466)
..+
T Consensus 300 g~~ 302 (377)
T KOG0153|consen 300 GRP 302 (377)
T ss_pred CCC
Confidence 988
No 118
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.66 E-value=3.1e-08 Score=105.44 Aligned_cols=165 Identities=12% Similarity=0.033 Sum_probs=117.3
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc-CCCceEEEeecC
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN-IDGRMVEAKKAV 81 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~-i~Gr~I~V~~a~ 81 (466)
.|++.|-+..++++.++.|+++||... .|..+.|.+++......|.++|+|..++++++|++.... +-.|.|+|..+.
T Consensus 309 ~d~~y~~~~gm~fn~~~nd~rkfF~g~-~~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~~rn~~~~~~R~~q~~P~g 387 (944)
T KOG4307|consen 309 SDKYYNNYKGMEFNNDFNDGRKFFPGR-NAQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAFTRNPSDDVNRPFQTGPPG 387 (944)
T ss_pred chhheeeecccccccccchhhhhcCcc-cccccchhhhhcCCCcCCceEEEecCcchHHHHHhcCchhhhhcceeecCCC
Confidence 578899999999999999999999755 455666666654333488999999999999999986554 557888876654
Q ss_pred Ccchhhhhc-----c--CCCC----------------CCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeE-EEE
Q 012289 82 PRDDQIVLN-----R--SSGS----------------IHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITD-VVV 137 (466)
Q Consensus 82 ~~~~~~~~~-----~--~~~~----------------~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~-v~i 137 (466)
.....-... . .... ...........+|||..||..+++.++.++|...-.|++ |.|
T Consensus 388 ~~~~~~a~~~~~~~~~~~~~~~hg~p~~~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~l 467 (944)
T KOG4307|consen 388 NLGRNGAPPFQAGVPPPVIQNNHGRPIAPPRAMVRPGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIEL 467 (944)
T ss_pred ccccccCccccccCCCCcccccCCCCCCCcccccCCCCCCCCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEe
Confidence 332111100 0 0000 000111234578999999999999999999999888888 555
Q ss_pred EecCCCCCcceEEEEEecCHHHHHHHHHHCCC
Q 012289 138 MYDHNTQRPRGFGFITYDSEEAVDKVKRAVPK 169 (466)
Q Consensus 138 ~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~ 169 (466)
.+- -+.+.+..|||+|..++++.+|+.-..+
T Consensus 468 t~~-P~~~~~~~afv~F~~~~a~~~a~~~~~k 498 (944)
T KOG4307|consen 468 TRL-PTDLLRPAAFVAFIHPTAPLTASSVKTK 498 (944)
T ss_pred ccC-Ccccccchhhheeccccccchhhhcccc
Confidence 444 4478899999999997777765554444
No 119
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=3.5e-08 Score=98.03 Aligned_cols=79 Identities=19% Similarity=0.336 Sum_probs=71.2
Q ss_pred CCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCccc
Q 012289 100 PGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRS 178 (466)
Q Consensus 100 ~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~ 178 (466)
...++...|||..|.+-+|+|||.-+|++||+|+.|.|++|..|+.+-.||||+|++.+++++|.-+|+.. +..++|-|
T Consensus 234 d~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHV 313 (479)
T KOG0415|consen 234 DVKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHV 313 (479)
T ss_pred ccCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEe
Confidence 34456789999999999999999999999999999999999999999999999999999999998888776 66777744
No 120
>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=98.60 E-value=4.4e-08 Score=73.47 Aligned_cols=52 Identities=23% Similarity=0.530 Sum_probs=43.4
Q ss_pred HHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCccc
Q 012289 122 FKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRS 178 (466)
Q Consensus 122 Lk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~ 178 (466)
|+++|++||+|++|.+.+++ +++|||+|++.++|++|++.|++. +.++++++
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V 53 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKV 53 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence 78999999999999997654 589999999999999999998876 55555554
No 121
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.58 E-value=4.2e-08 Score=107.33 Aligned_cols=156 Identities=21% Similarity=0.310 Sum_probs=119.5
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
..+++||++||+..+++.+|+..|.++|.|.+|.|...+. ++---|+||.|.+.+.+-+|+.++.. |..-.+.+..-
T Consensus 370 ~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~-~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG 448 (975)
T KOG0112|consen 370 RATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHI-KTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLG 448 (975)
T ss_pred hhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCC-CcccchhhhhhhccccCcccchhhcCCccccCccccccc
Confidence 3578999999999999999999999999999999866532 44445899999998888777765443 22222222222
Q ss_pred CCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHH
Q 012289 81 VPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAV 160 (466)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A 160 (466)
.+ ....++.|+|++|..++....|..+|..||.|..|.+-.. .-||+|.|++...+
T Consensus 449 ~~------------------kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg------q~yayi~yes~~~a 504 (975)
T KOG0112|consen 449 QP------------------KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG------QPYAYIQYESPPAA 504 (975)
T ss_pred cc------------------ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecccC------CcceeeecccCccc
Confidence 22 1135678999999999999999999999999999877432 34999999999999
Q ss_pred HHHHHHCCCCCCCCC---cccCCCCC
Q 012289 161 DKVKRAVPKELSPGP---TRSPLGGY 183 (466)
Q Consensus 161 ~~Ai~~l~~~~~~~~---~r~~~g~~ 183 (466)
++|+..+-...++.+ +|+.+...
T Consensus 505 q~a~~~~rgap~G~P~~r~rvdla~~ 530 (975)
T KOG0112|consen 505 QAATHDMRGAPLGGPPRRLRVDLASP 530 (975)
T ss_pred hhhHHHHhcCcCCCCCcccccccccC
Confidence 999998888765443 46666543
No 122
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.56 E-value=1.3e-07 Score=98.73 Aligned_cols=79 Identities=34% Similarity=0.572 Sum_probs=72.4
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCC
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVP 82 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~ 82 (466)
.+.|||.+|+..+...+|+.+|++||+|+-++|+.+..+--.|.|+||++.+.++|.++|.++|. +.+++|.|..++.
T Consensus 405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKN 484 (940)
T KOG4661|consen 405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKN 484 (940)
T ss_pred ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeeccc
Confidence 47899999999999999999999999999999999877777899999999999999999998875 9999999998764
Q ss_pred c
Q 012289 83 R 83 (466)
Q Consensus 83 ~ 83 (466)
.
T Consensus 485 E 485 (940)
T KOG4661|consen 485 E 485 (940)
T ss_pred C
Confidence 3
No 123
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.53 E-value=2.6e-07 Score=89.61 Aligned_cols=80 Identities=24% Similarity=0.405 Sum_probs=71.1
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
..++|+|.|||..|+++||+++|++|++++.+.|-.++ .+++.|.|-|.|...++|++|++.++. ++++.|++....
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 35789999999999999999999999988888887776 499999999999999999999999987 889999887765
Q ss_pred Ccc
Q 012289 82 PRD 84 (466)
Q Consensus 82 ~~~ 84 (466)
+..
T Consensus 161 ~~~ 163 (243)
T KOG0533|consen 161 SPS 163 (243)
T ss_pred Ccc
Confidence 443
No 124
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.50 E-value=1.8e-07 Score=92.99 Aligned_cols=81 Identities=22% Similarity=0.438 Sum_probs=67.8
Q ss_pred CCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC--CCCC
Q 012289 97 HGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE--LSPG 174 (466)
Q Consensus 97 ~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~--~~~~ 174 (466)
..++.+..-++|||++|-..++|.+|+++|.+||+|+.|+|+.. +++|||+|.+.++|+.|.++.-.. +.+.
T Consensus 220 lepPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~ 293 (377)
T KOG0153|consen 220 LEPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVINGF 293 (377)
T ss_pred cCCCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc------cccceeeehhhHHHHHHHHhhcceeeecce
Confidence 33455556789999999999999999999999999999999865 459999999999999998888765 5677
Q ss_pred CcccCCCCC
Q 012289 175 PTRSPLGGY 183 (466)
Q Consensus 175 ~~r~~~g~~ 183 (466)
++.+.|+..
T Consensus 294 Rl~i~Wg~~ 302 (377)
T KOG0153|consen 294 RLKIKWGRP 302 (377)
T ss_pred EEEEEeCCC
Confidence 777777643
No 125
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.48 E-value=2.4e-07 Score=96.54 Aligned_cols=81 Identities=26% Similarity=0.436 Sum_probs=66.4
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHh-ccCCCceEEEeecCC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEK-HNIDGRMVEAKKAVP 82 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~-~~i~Gr~I~V~~a~~ 82 (466)
+-.+|||+|||.++++++|+++|.+||+|++..|....-.++...|+||+|.+.++++.||+.. ..|.+++|.|+...+
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~ 366 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRP 366 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEeccc
Confidence 3456999999999999999999999999999888654322344489999999999999999954 448899998887665
Q ss_pred cc
Q 012289 83 RD 84 (466)
Q Consensus 83 ~~ 84 (466)
..
T Consensus 367 ~~ 368 (419)
T KOG0116|consen 367 GF 368 (419)
T ss_pred cc
Confidence 43
No 126
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.47 E-value=2.4e-07 Score=100.11 Aligned_cols=71 Identities=25% Similarity=0.576 Sum_probs=62.6
Q ss_pred cceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcccCCC
Q 012289 105 TRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRSPLG 181 (466)
Q Consensus 105 ~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~~g 181 (466)
+++|||+.|+..++|+||+++|++||+|..|.++. +|+||||++....+|.+|+.+|.+. +....|++.|+
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~------~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa 492 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP------PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWA 492 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeecc------CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeee
Confidence 57999999999999999999999999999999854 4889999999999999999999875 66666666554
No 127
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.46 E-value=3.3e-07 Score=85.51 Aligned_cols=74 Identities=22% Similarity=0.400 Sum_probs=66.7
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhc-CCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCc
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQF-GTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPT 176 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~f-G~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~ 176 (466)
.....++|..+|.-+-+.+|..+|.+| |.|+++++-+.+.|+.+|+||||+|+++|.|..|-+.||..|+...+
T Consensus 47 ~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~l 121 (214)
T KOG4208|consen 47 EIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHL 121 (214)
T ss_pred CCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhhe
Confidence 455689999999999999999999988 78888888899999999999999999999999999999998765544
No 128
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.45 E-value=5.5e-07 Score=85.21 Aligned_cols=77 Identities=22% Similarity=0.437 Sum_probs=67.3
Q ss_pred CcceeeecCCCCCCCHHHHHH----HHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCccc
Q 012289 104 RTRKIFVGGLASTVTESDFKK----YFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRS 178 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~----~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~ 178 (466)
+..+|||.||++.+..++|++ +|++||+|.+|...+. .+.||-|||.|++.++|-.|+++|++. +.+.++|+
T Consensus 8 pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt---~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mri 84 (221)
T KOG4206|consen 8 PNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKT---PKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRI 84 (221)
T ss_pred CCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCC---CCccCceEEEecChhHHHHHHHHhcCCcccCchhhe
Confidence 344999999999999999998 9999999999988754 678999999999999999999999997 56777787
Q ss_pred CCCCC
Q 012289 179 PLGGY 183 (466)
Q Consensus 179 ~~g~~ 183 (466)
+.+..
T Consensus 85 qyA~s 89 (221)
T KOG4206|consen 85 QYAKS 89 (221)
T ss_pred ecccC
Confidence 76544
No 129
>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=1.3e-06 Score=73.28 Aligned_cols=77 Identities=18% Similarity=0.163 Sum_probs=64.1
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcC--CCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--C----CCceEEE
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTY--GEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--I----DGRMVEA 77 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~--G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i----~Gr~I~V 77 (466)
++|+|+|||...+.++|.+++.+. ++..-+.++.|..+..+.|||||-|.+++.|.+..+.++. + ..+..+|
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 789999999999999999999553 5677788999988899999999999999999999998765 2 2455566
Q ss_pred eecCC
Q 012289 78 KKAVP 82 (466)
Q Consensus 78 ~~a~~ 82 (466)
.+|.-
T Consensus 82 ~yAri 86 (97)
T PF04059_consen 82 SYARI 86 (97)
T ss_pred ehhHh
Confidence 66653
No 130
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.41 E-value=1.9e-07 Score=87.61 Aligned_cols=76 Identities=18% Similarity=0.307 Sum_probs=66.6
Q ss_pred CCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCccc
Q 012289 101 GPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRS 178 (466)
Q Consensus 101 ~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~ 178 (466)
..+..++|||.||-..|+||.|.++|-+-|+|.+|.|+.+++ ++.| ||||+|+++..+.-|++.++.. +..+.+.+
T Consensus 5 aae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d-~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~ 81 (267)
T KOG4454|consen 5 AAEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQD-QEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQR 81 (267)
T ss_pred CcchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCcc-CCCc-eeeeecccccchhhhhhhcccchhccchhhc
Confidence 345678999999999999999999999999999999999887 5566 9999999999999999999985 56666643
No 131
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.35 E-value=5.7e-07 Score=87.20 Aligned_cols=82 Identities=18% Similarity=0.402 Sum_probs=73.6
Q ss_pred CCCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHH-HhccCCCceEEEeec
Q 012289 2 QSDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQ-EKHNIDGRMVEAKKA 80 (466)
Q Consensus 2 ~~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~-~~~~i~Gr~I~V~~a 80 (466)
+.+.+.|||+|+...++.++|+.+|+.||.|..+.|++|+.++.+|+|+||+|.+.+.++++++ +...|.++.++|.+.
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~~ 177 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTLK 177 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeeee
Confidence 3578899999999999999999999999999999999999999999999999999999999999 334488999988776
Q ss_pred CCc
Q 012289 81 VPR 83 (466)
Q Consensus 81 ~~~ 83 (466)
...
T Consensus 178 r~~ 180 (231)
T KOG4209|consen 178 RTN 180 (231)
T ss_pred eee
Confidence 644
No 132
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.34 E-value=9.8e-07 Score=85.67 Aligned_cols=75 Identities=24% Similarity=0.454 Sum_probs=67.0
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCccc
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRS 178 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~ 178 (466)
....+|+|.|||+.|+++||+++|++|++++.+-|.+|+. +++.|.|-|.|+..++|.+|++.++.. +.++++++
T Consensus 81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~-G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~ 156 (243)
T KOG0533|consen 81 TRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRA-GRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKI 156 (243)
T ss_pred CCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCC-CCCCccceeeecchHhHHHHHHHhcCcccCCceeee
Confidence 3457899999999999999999999999999999999987 999999999999999999999999886 55555533
No 133
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.30 E-value=5.3e-07 Score=86.45 Aligned_cols=80 Identities=26% Similarity=0.570 Sum_probs=70.9
Q ss_pred CCCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEee
Q 012289 2 QSDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKK 79 (466)
Q Consensus 2 ~~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~ 79 (466)
+.++-+||++.|..+++.|.|-..|.+|-.....++++|+.|++++||+||.|.+++++..|+++|+. +..|.|.++.
T Consensus 187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk 266 (290)
T KOG0226|consen 187 DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK 266 (290)
T ss_pred ccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence 35688999999999999999999999998888899999999999999999999999999999999876 6666666554
Q ss_pred cC
Q 012289 80 AV 81 (466)
Q Consensus 80 a~ 81 (466)
+.
T Consensus 267 S~ 268 (290)
T KOG0226|consen 267 SE 268 (290)
T ss_pred hh
Confidence 43
No 134
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.28 E-value=7.3e-07 Score=86.44 Aligned_cols=79 Identities=23% Similarity=0.360 Sum_probs=69.9
Q ss_pred CCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCcccCC
Q 012289 102 PGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPTRSPL 180 (466)
Q Consensus 102 ~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~r~~~ 180 (466)
..+.+.+||+|+.+.+|.++++.+|+.|+.|..|.|++|+.++.+|+|+||+|++.+.+++++++....+..+.+.+.+
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~ 176 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTL 176 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeee
Confidence 3467799999999999999999999999999999999999999999999999999999999999555556667665533
No 135
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.26 E-value=8.4e-07 Score=93.18 Aligned_cols=146 Identities=18% Similarity=0.233 Sum_probs=92.7
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
..+++|+|-|||..|++++|+++|+.||+|++|+..+ ..++.+||+|-|..+|++|+++++. |.++.|.....
T Consensus 73 ~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~-----~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k~~~~ 147 (549)
T KOG4660|consen 73 MNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETP-----NKRGIVFVEFYDVRDAERALKALNRREIAGKRIKRPGG 147 (549)
T ss_pred CccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccc-----ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhcCCCc
Confidence 4578999999999999999999999999999965533 3568999999999999999998754 77777762111
Q ss_pred CCcchhhhhcc------CCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEe
Q 012289 81 VPRDDQIVLNR------SSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITY 154 (466)
Q Consensus 81 ~~~~~~~~~~~------~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F 154 (466)
..+........ ........+..-....++. .|++.+....++..|.-++.++. +.. ...+---||+|
T Consensus 148 ~~~~~~~~~~~~~~~~~~~p~a~s~pgg~~~~~~~g-~l~P~~s~~~~~~~~~~~~~~~~-~~~-----~~~~hq~~~~~ 220 (549)
T KOG4660|consen 148 ARRAMGLQSGTSFLNHFGSPLANSPPGGWPRGQLFG-MLSPTRSSILLEHISSVDGSSPG-RET-----PLLNHQRFVEF 220 (549)
T ss_pred ccccchhcccchhhhhccchhhcCCCCCCcCCccee-eeccchhhhhhhcchhccCcccc-ccc-----cchhhhhhhhh
Confidence 11111000000 0000011111111223333 29998888788888887887755 222 22223556777
Q ss_pred cCHHHH
Q 012289 155 DSEEAV 160 (466)
Q Consensus 155 ~s~e~A 160 (466)
.+..++
T Consensus 221 ~~~~s~ 226 (549)
T KOG4660|consen 221 ADNRSY 226 (549)
T ss_pred ccccch
Confidence 666666
No 136
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.24 E-value=1.7e-06 Score=92.47 Aligned_cols=71 Identities=13% Similarity=0.287 Sum_probs=59.8
Q ss_pred ceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCc
Q 012289 106 RKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPT 176 (466)
Q Consensus 106 ~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~ 176 (466)
+.|-|.|+|++++.|||.+||..|-.+-.-++++-.+.++++|.|.|.|++.|+|.+|..-|+++ |..+.+
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V 939 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVV 939 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeE
Confidence 47889999999999999999999987766555555566999999999999999999999888776 555544
No 137
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.13 E-value=3.4e-06 Score=88.48 Aligned_cols=72 Identities=24% Similarity=0.478 Sum_probs=65.3
Q ss_pred cceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCc
Q 012289 105 TRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPT 176 (466)
Q Consensus 105 ~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~ 176 (466)
.+.|+|.+|...+...|||.+|++||+|+-.+|+....+--.|+|+||++.+.++|.+||+.|+++...++|
T Consensus 405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrm 476 (940)
T KOG4661|consen 405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRM 476 (940)
T ss_pred ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhccee
Confidence 367999999999999999999999999999999998877778999999999999999999999997555444
No 138
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=98.11 E-value=2.1e-07 Score=101.62 Aligned_cols=162 Identities=16% Similarity=0.117 Sum_probs=121.4
Q ss_pred CEEEEcCCCccCcHH-HHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHh-ccCCCceEEEeecCCc
Q 012289 6 GKLFIGGISWDTNEE-RLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEK-HNIDGRMVEAKKAVPR 83 (466)
Q Consensus 6 ~~LfVgnLP~~~tee-eL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~-~~i~Gr~I~V~~a~~~ 83 (466)
.++.+.++.+...+. .+++.|+.++.|+.|++......-...-+.++++..+.+++.|...- ..+..+.+.|..+.++
T Consensus 572 ~e~~s~~v~p~~~~ke~~~~~~k~~~~vekv~~p~~g~k~h~q~~~~~~~s~~~~~esat~pa~~~~a~~~~av~~ad~~ 651 (881)
T KOG0128|consen 572 REKESTNVYPEQQKKEIQRRQFKGEGNVEKVNGPKRGFKAHEQPQQQKVQSKHGSAESATVPAGGALANRSAAVGLADAE 651 (881)
T ss_pred hhhcccCCCcchhhHHhhHHHhhcccccccccCccccccccccchhhhhhccccchhhcccccccccCCccccCCCCCch
Confidence 456677777777655 67888999999999998773321122228899999999999988733 3477777777766665
Q ss_pred chhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHH
Q 012289 84 DDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKV 163 (466)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~A 163 (466)
+...... ..+.......++||.||+..+.+++|++.|..++.|..+.|....++++.||.|+|+|..++.+.+|
T Consensus 652 ~~~~~~k------vs~n~~R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aa 725 (881)
T KOG0128|consen 652 EKEENFK------VSPNEIRDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAA 725 (881)
T ss_pred hhhhccC------cCchHHHHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhh
Confidence 5221110 0111123456899999999999999999999999988888877777899999999999999999999
Q ss_pred HHHCCCCCCC
Q 012289 164 KRAVPKELSP 173 (466)
Q Consensus 164 i~~l~~~~~~ 173 (466)
+....+.+++
T Consensus 726 V~f~d~~~~g 735 (881)
T KOG0128|consen 726 VAFRDSCFFG 735 (881)
T ss_pred hhhhhhhhhh
Confidence 9988886554
No 139
>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=98.04 E-value=2.2e-05 Score=65.87 Aligned_cols=68 Identities=15% Similarity=0.291 Sum_probs=61.0
Q ss_pred ceeeecCCCCCCCHHHHHHHHhhc--CCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCC
Q 012289 106 RKIFVGGLASTVTESDFKKYFDQF--GTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSP 173 (466)
Q Consensus 106 ~~LfV~nLp~~vteedLk~~F~~f--G~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~ 173 (466)
++|.|+|+|...|.++|.+++.+. +...-+.++.|..+....|||||.|.++++|.+-.+..++....
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~ 71 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWP 71 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccc
Confidence 589999999999999999999664 67888899999999999999999999999999999998886543
No 140
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.02 E-value=1.1e-05 Score=80.56 Aligned_cols=82 Identities=20% Similarity=0.353 Sum_probs=70.2
Q ss_pred CCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeE--------EEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-C
Q 012289 101 GPGRTRKIFVGGLASTVTESDFKKYFDQFGTITD--------VVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-L 171 (466)
Q Consensus 101 ~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~--------v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~ 171 (466)
.+...+.|||.+||.++|.+++.++|.+||.|.+ |++.++.. +..||-|+|.|--.|+++.||+.|+.. +
T Consensus 130 ~~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~-G~lKGDaLc~y~K~ESVeLA~~ilDe~~~ 208 (382)
T KOG1548|consen 130 EPKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQ-GKLKGDALCCYIKRESVELAIKILDEDEL 208 (382)
T ss_pred ccccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCC-CCccCceEEEeecccHHHHHHHHhCcccc
Confidence 3455678999999999999999999999998754 77888876 999999999999999999999999987 5
Q ss_pred CCCCcccCCCCC
Q 012289 172 SPGPTRSPLGGY 183 (466)
Q Consensus 172 ~~~~~r~~~g~~ 183 (466)
.+..+||..+.+
T Consensus 209 rg~~~rVerAkf 220 (382)
T KOG1548|consen 209 RGKKLRVERAKF 220 (382)
T ss_pred cCcEEEEehhhh
Confidence 566678876654
No 141
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.01 E-value=2.7e-05 Score=73.60 Aligned_cols=86 Identities=20% Similarity=0.248 Sum_probs=67.0
Q ss_pred CCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEE-EecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCc----
Q 012289 102 PGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVV-MYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPT---- 176 (466)
Q Consensus 102 ~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i-~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~---- 176 (466)
+...++|||.+||.++...+|..+|.+|---+.+.+ +.++..+..+-++||+|.+..+|++|+++|++..++..+
T Consensus 31 ~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stL 110 (284)
T KOG1457|consen 31 PGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTL 110 (284)
T ss_pred ccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCcee
Confidence 445899999999999999999999999866555544 344544556689999999999999999999997554433
Q ss_pred ccCCCCCCCCC
Q 012289 177 RSPLGGYHYGL 187 (466)
Q Consensus 177 r~~~g~~~~~~ 187 (466)
++.+.+.+-.+
T Consensus 111 hiElAKSNtK~ 121 (284)
T KOG1457|consen 111 HIELAKSNTKR 121 (284)
T ss_pred EeeehhcCccc
Confidence 66666655443
No 142
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=98.00 E-value=5.7e-06 Score=83.56 Aligned_cols=163 Identities=13% Similarity=0.161 Sum_probs=112.4
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCC---CCcccEEEEEeCCHHHHHHHHHHhcc-CCCceEEEeec
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNT---GRARGFGFVVFADPAVAEIVIQEKHN-IDGRMVEAKKA 80 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~t---g~srGfaFVeF~~~e~A~~Al~~~~~-i~Gr~I~V~~a 80 (466)
...|-|.||.+.++.|++..+|..+|+|.++.|+..... ....-.|||.|.|.+++..|..--+. +-++.|.|.+.
T Consensus 7 ~~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~ 86 (479)
T KOG4676|consen 7 LGVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPY 86 (479)
T ss_pred CceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEec
Confidence 457999999999999999999999999999999774322 23456899999999988877653232 55666655543
Q ss_pred CCc--chhhhhc---cCC-------------------------CCCCCCCC----------CCCcceeeecCCCCCCCHH
Q 012289 81 VPR--DDQIVLN---RSS-------------------------GSIHGSPG----------PGRTRKIFVGGLASTVTES 120 (466)
Q Consensus 81 ~~~--~~~~~~~---~~~-------------------------~~~~~~~~----------~~~~~~LfV~nLp~~vtee 120 (466)
... ++..... ... ......|. +...++|+|.+|+..+...
T Consensus 87 ~~~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~~A~kleeirRt~~v~sl~~~~~l~ 166 (479)
T KOG4676|consen 87 GDEVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKINHSPNAILKTPELPPQAAAKKLEEIRRTREVQSLISAAILP 166 (479)
T ss_pred CCCCCccHHHHHhcCcccccccccCCCCccCCCCccccccCCccceecCCCCChHhhhhhhHHHHhhhhhhcchhhhcch
Confidence 211 1110000 000 00000010 1113679999999999999
Q ss_pred HHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCC
Q 012289 121 DFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKEL 171 (466)
Q Consensus 121 dLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~ 171 (466)
++-+.|+.+|+|....+... ...-+|.|+|........|+++++.++
T Consensus 167 e~~e~f~r~Gev~ya~~ask----~~s~~c~~sf~~qts~~halr~~gre~ 213 (479)
T KOG4676|consen 167 ESGESFERKGEVSYAHTASK----SRSSSCSHSFRKQTSSKHALRSHGRER 213 (479)
T ss_pred hhhhhhhhcchhhhhhhhcc----CCCcchhhhHhhhhhHHHHHHhcchhh
Confidence 99999999999988776532 224577899999888888888887654
No 143
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=97.89 E-value=2.4e-05 Score=84.23 Aligned_cols=79 Identities=24% Similarity=0.367 Sum_probs=67.6
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCC---CCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEE
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRN---TGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEA 77 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~---tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V 77 (466)
...+.|||+||++.++|+.|...|..||+|..|+||..+. ..+.+-|+||-|-+..+|++|++.++. +....+++
T Consensus 172 P~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~ 251 (877)
T KOG0151|consen 172 PQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKL 251 (877)
T ss_pred CcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeee
Confidence 3468899999999999999999999999999999987642 346678999999999999999999987 56667777
Q ss_pred eecC
Q 012289 78 KKAV 81 (466)
Q Consensus 78 ~~a~ 81 (466)
-|.+
T Consensus 252 gWgk 255 (877)
T KOG0151|consen 252 GWGK 255 (877)
T ss_pred cccc
Confidence 6653
No 144
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=97.88 E-value=7.5e-05 Score=75.18 Aligned_cols=80 Identities=23% Similarity=0.331 Sum_probs=68.5
Q ss_pred CCCcceeeecCCCCCCCHHHHHHHHhhcCCeeE--------EEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCC-
Q 012289 102 PGRTRKIFVGGLASTVTESDFKKYFDQFGTITD--------VVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELS- 172 (466)
Q Consensus 102 ~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~--------v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~- 172 (466)
.....+|||-.||..+++++|.++|.+|+.|+. |.|-+|++|+++|+-|.|.|++..+|++||+.+....+
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~ 142 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC 142 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence 345678999999999999999999999998853 77889999999999999999999999999999988744
Q ss_pred CCCcccCCC
Q 012289 173 PGPTRSPLG 181 (466)
Q Consensus 173 ~~~~r~~~g 181 (466)
...|++.+.
T Consensus 143 gn~ikvs~a 151 (351)
T KOG1995|consen 143 GNTIKVSLA 151 (351)
T ss_pred CCCchhhhh
Confidence 444566554
No 145
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.87 E-value=3.1e-06 Score=86.16 Aligned_cols=136 Identities=21% Similarity=0.356 Sum_probs=107.1
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcCC-CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc---CCCceEEEeecC
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTYG-EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN---IDGRMVEAKKAV 81 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~G-~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~---i~Gr~I~V~~a~ 81 (466)
.+|||+||.+.++.++|+.+|...- .+..-.|++ .+|+||.+.+...|.+|++.++. +.++++++....
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 4799999999999999999996541 111112233 36999999999999999997754 889999999888
Q ss_pred CcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEE-ecCCCCCcceEEEEEecCHHHH
Q 012289 82 PRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVM-YDHNTQRPRGFGFITYDSEEAV 160 (466)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~-~d~~tg~~rG~aFV~F~s~e~A 160 (466)
++..+ .+++-|+|+|+...||-|..++.+|+.++.|.++ .|.+| -..-|+|...+.+
T Consensus 75 ~kkqr------------------srk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~et----avvnvty~~~~~~ 132 (584)
T KOG2193|consen 75 PKKQR------------------SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSET----AVVNVTYSAQQQH 132 (584)
T ss_pred hHHHH------------------hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHH----HHHHHHHHHHHHH
Confidence 77643 4568899999999999999999999999988653 34332 2334677888899
Q ss_pred HHHHHHCCCC
Q 012289 161 DKVKRAVPKE 170 (466)
Q Consensus 161 ~~Ai~~l~~~ 170 (466)
+.||.++++.
T Consensus 133 ~~ai~kl~g~ 142 (584)
T KOG2193|consen 133 RQAIHKLNGP 142 (584)
T ss_pred HHHHHhhcch
Confidence 9999998874
No 146
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.84 E-value=1.6e-05 Score=83.71 Aligned_cols=70 Identities=14% Similarity=0.331 Sum_probs=60.4
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcc
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTR 177 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r 177 (466)
...++|+|-|||.+|++++|+++|+.||+|+.|+.. -..++..||+|-|..+|++|+++|+.. +.+++++
T Consensus 73 ~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t-----~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 73 MNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRET-----PNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred CccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcc-----cccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 457899999999999999999999999999986543 445789999999999999999999986 5555555
No 147
>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=97.83 E-value=2.4e-05 Score=66.79 Aligned_cols=59 Identities=22% Similarity=0.376 Sum_probs=40.0
Q ss_pred ceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC
Q 012289 106 RKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE 170 (466)
Q Consensus 106 ~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~ 170 (466)
..|+|.+++..++.++|+++|++|+.|..|++.+.. -.|+|.|.++++|++|++++...
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHHHhc
Confidence 468899999999999999999999999999997653 37999999999999999877655
No 148
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=97.78 E-value=5.7e-05 Score=81.42 Aligned_cols=81 Identities=20% Similarity=0.432 Sum_probs=69.4
Q ss_pred CCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecC---CCCCcceEEEEEecCHHHHHHHHHHCCCCC-CCCCcc
Q 012289 102 PGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDH---NTQRPRGFGFITYDSEEAVDKVKRAVPKEL-SPGPTR 177 (466)
Q Consensus 102 ~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~---~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~-~~~~~r 177 (466)
.+.++.|||+||++.+++++|-..|.+||+|..|+|+..+ +..+.+-|+||.|-+..+|++|++.|+..+ ....++
T Consensus 171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K 250 (877)
T KOG0151|consen 171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMK 250 (877)
T ss_pred CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeee
Confidence 5678999999999999999999999999999999999754 446778999999999999999999999974 444556
Q ss_pred cCCCC
Q 012289 178 SPLGG 182 (466)
Q Consensus 178 ~~~g~ 182 (466)
..|++
T Consensus 251 ~gWgk 255 (877)
T KOG0151|consen 251 LGWGK 255 (877)
T ss_pred ecccc
Confidence 66653
No 149
>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=97.75 E-value=4.3e-05 Score=65.28 Aligned_cols=59 Identities=27% Similarity=0.410 Sum_probs=39.5
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccC
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNI 70 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i 70 (466)
+.|.|.+++.+|+.++|+++|++|++|..|.+.+... .|+|.|.+++.|++|++.+...
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~------~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDT------EGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-S------EEEEEESS---HHHHHHHHHHT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCC------EEEEEECCcchHHHHHHHHHhc
Confidence 4688999999999999999999999999998877543 7999999999999999966443
No 150
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=97.71 E-value=3.1e-05 Score=77.86 Aligned_cols=83 Identities=25% Similarity=0.370 Sum_probs=71.4
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEE--------EEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCC
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVE--------AVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDG 72 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~--------v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~G 72 (466)
+..-+|||-.||..+++++|.++|.+++.|.. |+|-+|++|.++|+-|.|.|.++.+|+.|+.-+.. +.+
T Consensus 64 s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~g 143 (351)
T KOG1995|consen 64 SDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCG 143 (351)
T ss_pred cccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccC
Confidence 34668999999999999999999999998743 67888899999999999999999999999996644 778
Q ss_pred ceEEEeecCCcch
Q 012289 73 RMVEAKKAVPRDD 85 (466)
Q Consensus 73 r~I~V~~a~~~~~ 85 (466)
.+|+|..+..+..
T Consensus 144 n~ikvs~a~~r~~ 156 (351)
T KOG1995|consen 144 NTIKVSLAERRTG 156 (351)
T ss_pred CCchhhhhhhccC
Confidence 8888877766553
No 151
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.67 E-value=2.7e-05 Score=74.26 Aligned_cols=62 Identities=23% Similarity=0.561 Sum_probs=55.8
Q ss_pred ceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCC
Q 012289 106 RKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGP 175 (466)
Q Consensus 106 ~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~ 175 (466)
.+|||++||+.+.+++|+++|..|+.|.+|.+. .+|+||+|++..+|+.|+..++..+....
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~~~l~~e 63 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGKELCGE 63 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCceecce
Confidence 479999999999999999999999999999875 46999999999999999999998865543
No 152
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.58 E-value=0.00015 Score=54.14 Aligned_cols=53 Identities=19% Similarity=0.372 Sum_probs=43.1
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHH
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVI 64 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al 64 (466)
.+.|-|.+.+.+..+ +|.++|..||+|+++.+.... -+.+|+|+++.+|++||
T Consensus 1 ~~wI~V~Gf~~~~~~-~vl~~F~~fGeI~~~~~~~~~------~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 1 STWISVSGFPPDLAE-EVLEHFASFGEIVDIYVPEST------NWMYLKYKSRKDAEKAL 53 (53)
T ss_pred CcEEEEEeECchHHH-HHHHHHHhcCCEEEEEcCCCC------cEEEEEECCHHHHHhhC
Confidence 367889999987665 555599999999998886333 38999999999999986
No 153
>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=97.56 E-value=0.0003 Score=57.01 Aligned_cols=67 Identities=13% Similarity=0.266 Sum_probs=45.8
Q ss_pred CEEEEcCCCccCcHHH----HHHHhhcCC-CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEe
Q 012289 6 GKLFIGGISWDTNEER----LKEYFSTYG-EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAK 78 (466)
Q Consensus 6 ~~LfVgnLP~~~teee----L~~~F~~~G-~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~ 78 (466)
..|+|.|||.+++... |++++..+| +|.+| . .+.|+|.|.+++.|++|++.|+. +.+++|.|+
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~--------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~ 72 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--S--------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--e--------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEE
Confidence 4699999999987665 556666776 56554 1 25799999999999999998875 889999998
Q ss_pred ecCC
Q 012289 79 KAVP 82 (466)
Q Consensus 79 ~a~~ 82 (466)
....
T Consensus 73 ~~~~ 76 (90)
T PF11608_consen 73 FSPK 76 (90)
T ss_dssp SS--
T ss_pred EcCC
Confidence 7743
No 154
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.44 E-value=8.3e-05 Score=74.47 Aligned_cols=81 Identities=23% Similarity=0.551 Sum_probs=71.8
Q ss_pred CEEE-EcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHH-HhccCCCceEEEeecCCc
Q 012289 6 GKLF-IGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQ-EKHNIDGRMVEAKKAVPR 83 (466)
Q Consensus 6 ~~Lf-VgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~-~~~~i~Gr~I~V~~a~~~ 83 (466)
.++| |.+|+.++++++|+++|..+++|+.++++.++.++..++|++|+|.+.+++.+++. ..+.+.++++.+....++
T Consensus 185 ~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 264 (285)
T KOG4210|consen 185 DTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALNDQTRSIGGRPLRLEEDEPR 264 (285)
T ss_pred ccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhcccCcccCcccccccCCCC
Confidence 4455 99999999999999999999999999999999999999999999999999999998 445588999988888776
Q ss_pred chh
Q 012289 84 DDQ 86 (466)
Q Consensus 84 ~~~ 86 (466)
...
T Consensus 265 ~~~ 267 (285)
T KOG4210|consen 265 PKS 267 (285)
T ss_pred ccc
Confidence 543
No 155
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=97.41 E-value=0.00026 Score=70.84 Aligned_cols=73 Identities=21% Similarity=0.406 Sum_probs=64.4
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcC--CeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCc
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFG--TITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPT 176 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG--~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~ 176 (466)
+.-++||+||-|.+|++||.+..+..| .|.+++++..+..+.+||||+|...++.++++.++.|+++...++.
T Consensus 79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~ 153 (498)
T KOG4849|consen 79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQS 153 (498)
T ss_pred ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCC
Confidence 456799999999999999999998876 5778888888989999999999999999999999999987655544
No 156
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.30 E-value=9.8e-05 Score=75.70 Aligned_cols=69 Identities=19% Similarity=0.309 Sum_probs=58.6
Q ss_pred CCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEec---CCCC--Cc--------ceEEEEEecCHHHHHHHHHHCC
Q 012289 102 PGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYD---HNTQ--RP--------RGFGFITYDSEEAVDKVKRAVP 168 (466)
Q Consensus 102 ~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d---~~tg--~~--------rG~aFV~F~s~e~A~~Ai~~l~ 168 (466)
+.+.++|.+-|||.+-.-|.|.++|..||.|+.|+|.+. ++.. .+ +=+|||+|+..++|.+|.+.++
T Consensus 228 el~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~ 307 (484)
T KOG1855|consen 228 ELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLN 307 (484)
T ss_pred ccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhc
Confidence 347889999999999999999999999999999999876 3222 11 4579999999999999999996
Q ss_pred CC
Q 012289 169 KE 170 (466)
Q Consensus 169 ~~ 170 (466)
.+
T Consensus 308 ~e 309 (484)
T KOG1855|consen 308 PE 309 (484)
T ss_pred hh
Confidence 64
No 157
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.25 E-value=0.00027 Score=74.66 Aligned_cols=74 Identities=18% Similarity=0.250 Sum_probs=58.0
Q ss_pred CCEEEEcCCCccC------cHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc---CCCceE
Q 012289 5 NGKLFIGGISWDT------NEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN---IDGRMV 75 (466)
Q Consensus 5 ~~~LfVgnLP~~~------teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~---i~Gr~I 75 (466)
+..|+|-|+|.-- -+.-|.++|+++|+|+.+.++.+...+ .+||.|+||++..+|++|++.+++ -+.++.
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 5679999999532 223356899999999999999887755 999999999999999999999776 234455
Q ss_pred EEee
Q 012289 76 EAKK 79 (466)
Q Consensus 76 ~V~~ 79 (466)
.|..
T Consensus 137 ~v~~ 140 (698)
T KOG2314|consen 137 FVRL 140 (698)
T ss_pred Eeeh
Confidence 5543
No 158
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.22 E-value=0.00062 Score=50.77 Aligned_cols=52 Identities=25% Similarity=0.417 Sum_probs=41.7
Q ss_pred ceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHH
Q 012289 106 RKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVK 164 (466)
Q Consensus 106 ~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai 164 (466)
+.|-|.+.+.+..++- .++|..||+|+++.+... +...+|+|+++.+|++|+
T Consensus 2 ~wI~V~Gf~~~~~~~v-l~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEEV-LEHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHHHH-HHHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 4577888887777554 458889999999988632 458999999999999985
No 159
>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=97.03 E-value=0.0016 Score=52.86 Aligned_cols=65 Identities=14% Similarity=0.317 Sum_probs=43.7
Q ss_pred ceeeecCCCCCCCHH----HHHHHHhhcC-CeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCcccC
Q 012289 106 RKIFVGGLASTVTES----DFKKYFDQFG-TITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPTRSP 179 (466)
Q Consensus 106 ~~LfV~nLp~~vtee----dLk~~F~~fG-~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~r~~ 179 (466)
..|+|.|||.+.+.. .|+++++-|| .|..|. .+.|+|.|.++|.|++|++.|+++ .++..|-+.
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 468999999998865 4567777785 565552 368999999999999999999876 678777554
Q ss_pred C
Q 012289 180 L 180 (466)
Q Consensus 180 ~ 180 (466)
+
T Consensus 73 ~ 73 (90)
T PF11608_consen 73 F 73 (90)
T ss_dssp S
T ss_pred E
Confidence 3
No 160
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.99 E-value=0.0022 Score=67.56 Aligned_cols=78 Identities=23% Similarity=0.289 Sum_probs=65.9
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhh-cCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHh-cc----CCCceEEE
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFS-TYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEK-HN----IDGRMVEA 77 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~-~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~-~~----i~Gr~I~V 77 (466)
..+||||+.||--++-+||-.+|+ .||.|+-+-|=.|++-+.+||-+=|.|.+.+.-.+||... -. =-.|+|+|
T Consensus 369 prrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsarFvql~h~d~~KRVEI 448 (520)
T KOG0129|consen 369 PRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISARFVQLDHTDIDKRVEI 448 (520)
T ss_pred ccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhhheEEEeccccceeeee
Confidence 468999999999999999999998 7999999999999888999999999999999999999842 22 22446666
Q ss_pred eecC
Q 012289 78 KKAV 81 (466)
Q Consensus 78 ~~a~ 81 (466)
++-.
T Consensus 449 kPYv 452 (520)
T KOG0129|consen 449 KPYV 452 (520)
T ss_pred ccee
Confidence 6544
No 161
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=96.94 E-value=0.0013 Score=67.77 Aligned_cols=66 Identities=15% Similarity=0.181 Sum_probs=56.6
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeec---CCCC--C--------cccEEEEEeCCHHHHHHHHHHhcc
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKD---RNTG--R--------ARGFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d---~~tg--~--------srGfaFVeF~~~e~A~~Al~~~~~ 69 (466)
..++|.+-|||.+-.-+.|.++|..+|.|..|+|.+. +... . .+-+|||||...+.|++|.+.++.
T Consensus 230 ~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~ 308 (484)
T KOG1855|consen 230 PSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP 308 (484)
T ss_pred ccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence 4789999999999999999999999999999999776 3322 1 256899999999999999998754
No 162
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.93 E-value=0.0023 Score=62.04 Aligned_cols=88 Identities=22% Similarity=0.370 Sum_probs=73.4
Q ss_pred HHHHHHHHhcc--CCCceEEEeecCCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEE
Q 012289 59 VAEIVIQEKHN--IDGRMVEAKKAVPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVV 136 (466)
Q Consensus 59 ~A~~Al~~~~~--i~Gr~I~V~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~ 136 (466)
-|+.|..++.. ..++.++|..+.. ..|+|.||+.-++-|.|++.|+.|++|...+
T Consensus 6 ~ae~ak~eLd~~~~~~~~lr~rfa~~-----------------------a~l~V~nl~~~~sndll~~~f~~fg~~e~av 62 (275)
T KOG0115|consen 6 LAEIAKRELDGRFPKGRSLRVRFAMH-----------------------AELYVVNLMQGASNDLLEQAFRRFGPIERAV 62 (275)
T ss_pred HHHHHHHhcCCCCCCCCceEEEeecc-----------------------ceEEEEecchhhhhHHHHHhhhhcCccchhe
Confidence 34455555544 7789999988874 3799999999999999999999999999988
Q ss_pred EEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC
Q 012289 137 VMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE 170 (466)
Q Consensus 137 i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~ 170 (466)
+..|.. +++.+-.+|+|...-.+.+|+......
T Consensus 63 ~~vD~r-~k~t~eg~v~~~~k~~a~~a~rr~~~~ 95 (275)
T KOG0115|consen 63 AKVDDR-GKPTREGIVEFAKKPNARKAARRCREG 95 (275)
T ss_pred eeeccc-ccccccchhhhhcchhHHHHHHHhccC
Confidence 888765 888999999999999999999887543
No 163
>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=96.70 E-value=0.0044 Score=52.40 Aligned_cols=79 Identities=16% Similarity=0.338 Sum_probs=50.8
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEE-EeecC------CCCCcccEEEEEeCCHHHHHHHHHHhcc-CCCc-
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFSTYGEVVEAV-IMKDR------NTGRARGFGFVVFADPAVAEIVIQEKHN-IDGR- 73 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~-i~~d~------~tg~srGfaFVeF~~~e~A~~Al~~~~~-i~Gr- 73 (466)
.+++.|.|=+.|+. ....|.++|++||+|++.. +.++. ..-...-+-.|+|.++.+|++||++.-. +.+.
T Consensus 4 ~~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~ 82 (100)
T PF05172_consen 4 DSETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSL 82 (100)
T ss_dssp GGCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCE
T ss_pred cCCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcE
Confidence 45778999999988 6778899999999998875 11110 0011234899999999999999986433 6554
Q ss_pred eEEEeecCC
Q 012289 74 MVEAKKAVP 82 (466)
Q Consensus 74 ~I~V~~a~~ 82 (466)
++-|++.++
T Consensus 83 mvGV~~~~~ 91 (100)
T PF05172_consen 83 MVGVKPCDP 91 (100)
T ss_dssp EEEEEE-HH
T ss_pred EEEEEEcHH
Confidence 445666643
No 164
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=96.53 E-value=0.0024 Score=64.06 Aligned_cols=72 Identities=17% Similarity=0.428 Sum_probs=59.3
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcCC--CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHh--ccCCCceEEE
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTYG--EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEK--HNIDGRMVEA 77 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~G--~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~--~~i~Gr~I~V 77 (466)
-.+||+||-|-+|++||.+.+...| .+.++++..++..+.+||||+|...+.+..++.++-+ .+|.++.-.|
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 4689999999999999999998776 5778888899999999999999999988888877754 3366655444
No 165
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=96.41 E-value=0.043 Score=54.40 Aligned_cols=165 Identities=10% Similarity=0.167 Sum_probs=103.1
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCC-------CCCcccEEEEEeCCHHHHHH----HHHHhcc----
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRN-------TGRARGFGFVVFADPAVAEI----VIQEKHN---- 69 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~-------tg~srGfaFVeF~~~e~A~~----Al~~~~~---- 69 (466)
.|.|.+.||..+++-.++.+.|.+|++|+.|.++.+.. .-.......+-|-+.+.+-. .|+++.+
T Consensus 15 TRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~~ 94 (309)
T PF10567_consen 15 TRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKTK 94 (309)
T ss_pred eHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHHh
Confidence 46688899999999999999999999999999988751 12334578899988888754 3444443
Q ss_pred CCCceEEEeecCCcchhhhh-ccC---------CCCCCCCCCCCCcceeeecCCCCCCCHHH-HHHHHh---hcC----C
Q 012289 70 IDGRMVEAKKAVPRDDQIVL-NRS---------SGSIHGSPGPGRTRKIFVGGLASTVTESD-FKKYFD---QFG----T 131 (466)
Q Consensus 70 i~Gr~I~V~~a~~~~~~~~~-~~~---------~~~~~~~~~~~~~~~LfV~nLp~~vteed-Lk~~F~---~fG----~ 131 (466)
++-..+.+....-+-..... +.. ............+|.|.|- +...+.+++ |.+.+. .-. .
T Consensus 95 L~S~~L~lsFV~l~y~~~~~~~~~~~~~~~~~~~~L~~~i~~~gATRSl~Ie-F~~~~~~~dl~~~kL~fL~~~~n~RYV 173 (309)
T PF10567_consen 95 LKSESLTLSFVSLNYQKKTDPNDEEADFSDYLVASLQYNIINRGATRSLAIE-FKDPVDKDDLIEKKLPFLKNSNNKRYV 173 (309)
T ss_pred cCCcceeEEEEEEeccccccccccccchhhHHhhhhhheeecCCcceEEEEE-ecCccchhHHHHHhhhhhccCCCceEE
Confidence 55666666554321111000 000 0011122234457778774 445554443 333321 112 3
Q ss_pred eeEEEEEe--cCCCCCcceEEEEEecCHHHHHHHHHHCCCC
Q 012289 132 ITDVVVMY--DHNTQRPRGFGFITYDSEEAVDKVKRAVPKE 170 (466)
Q Consensus 132 I~~v~i~~--d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~ 170 (466)
|+.|.|+. .+...-++.||.++|-+...|..+++.+...
T Consensus 174 lEsIDlVna~~~~~~Fp~~YaILtFlnIsMAiEV~dYlk~~ 214 (309)
T PF10567_consen 174 LESIDLVNADEPSKHFPKNYAILTFLNISMAIEVLDYLKSN 214 (309)
T ss_pred EEEEEEeccCcccccCCcceEEEeehhHHhHHHHHHHHHhc
Confidence 66777764 2334567899999999999999999887754
No 166
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.38 E-value=0.017 Score=44.51 Aligned_cols=56 Identities=18% Similarity=0.357 Sum_probs=45.3
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhc---CCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQF---GTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAV 167 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~f---G~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l 167 (466)
...+|+|++|+ +++.+||+.+|..| ....+|..+-|. .|-|.|.+++.|.+||.+|
T Consensus 4 rpeavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 4 RPEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eeceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 34589999985 58888999999988 234577777664 5899999999999999876
No 167
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=96.17 E-value=0.0048 Score=59.82 Aligned_cols=71 Identities=27% Similarity=0.435 Sum_probs=57.4
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCC--------CCcccE----EEEEeCCHHHHHHHHHHhcc--
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNT--------GRARGF----GFVVFADPAVAEIVIQEKHN-- 69 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~t--------g~srGf----aFVeF~~~e~A~~Al~~~~~-- 69 (466)
....|||++||+.++...|+++|+.||+|-.|.|.....+ +.++.. +.|||.+...|.++.+.+|.
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 4578999999999999999999999999999998776555 333333 55999999999999887665
Q ss_pred CCCce
Q 012289 70 IDGRM 74 (466)
Q Consensus 70 i~Gr~ 74 (466)
|.++.
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 55543
No 168
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.16 E-value=0.011 Score=59.41 Aligned_cols=79 Identities=23% Similarity=0.467 Sum_probs=57.8
Q ss_pred CcceeeecCCCCCCCHHH----H--HHHHhhcCCeeEEEEEecCCCCC-cceE--EEEEecCHHHHHHHHHHCCCCCCCC
Q 012289 104 RTRKIFVGGLASTVTESD----F--KKYFDQFGTITDVVVMYDHNTQR-PRGF--GFITYDSEEAVDKVKRAVPKELSPG 174 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteed----L--k~~F~~fG~I~~v~i~~d~~tg~-~rG~--aFV~F~s~e~A~~Ai~~l~~~~~~~ 174 (466)
+..-+||-+|++.+..|+ | .++|.+||.|.+|+|-+...... ..+. .+|+|.+.|+|.+||.++++.+.++
T Consensus 113 QKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DG 192 (480)
T COG5175 113 QKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDG 192 (480)
T ss_pred ecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccC
Confidence 345689999999987776 3 38999999999998865431111 1122 3999999999999999999986554
Q ss_pred C-cccCCCC
Q 012289 175 P-TRSPLGG 182 (466)
Q Consensus 175 ~-~r~~~g~ 182 (466)
+ ++...|.
T Consensus 193 r~lkatYGT 201 (480)
T COG5175 193 RVLKATYGT 201 (480)
T ss_pred ceEeeecCc
Confidence 4 4665543
No 169
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=96.03 E-value=0.02 Score=46.48 Aligned_cols=59 Identities=22% Similarity=0.377 Sum_probs=44.0
Q ss_pred CCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCC
Q 012289 102 PGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPK 169 (466)
Q Consensus 102 ~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~ 169 (466)
+...+..||. .|......||.++|+.||.|. |..+-| --|||...+.+.|..|++.+.+
T Consensus 6 P~RdHVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~d-------TSAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 6 PSRDHVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWIND-------TSAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp -SGCCEEEEE---TT--HHHHHHHCCCCCCEE-EEEECT-------TEEEEEECCCHHHHHHHHHHTT
T ss_pred CCcceEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcC-------CcEEEEeecHHHHHHHHHHhcc
Confidence 3456677776 999999999999999999984 444433 2799999999999999998876
No 170
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.94 E-value=0.017 Score=58.00 Aligned_cols=79 Identities=23% Similarity=0.482 Sum_probs=58.8
Q ss_pred CCEEEEcCCCccCcHHH----H--HHHhhcCCCeEEEEEeecCCC-CCcccEE--EEEeCCHHHHHHHHHHhcc--CCCc
Q 012289 5 NGKLFIGGISWDTNEER----L--KEYFSTYGEVVEAVIMKDRNT-GRARGFG--FVVFADPAVAEIVIQEKHN--IDGR 73 (466)
Q Consensus 5 ~~~LfVgnLP~~~teee----L--~~~F~~~G~V~~v~i~~d~~t-g~srGfa--FVeF~~~e~A~~Al~~~~~--i~Gr 73 (466)
.+-|||-+||+.+-.|+ | .++|.+||+|..|.|-+.... ....+.+ +|+|.+.|+|.++|.+.++ ++||
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 35689999999886666 2 389999999998887554211 1112223 9999999999999998776 8899
Q ss_pred eEEEeecCCc
Q 012289 74 MVEAKKAVPR 83 (466)
Q Consensus 74 ~I~V~~a~~~ 83 (466)
.|+...-..+
T Consensus 194 ~lkatYGTTK 203 (480)
T COG5175 194 VLKATYGTTK 203 (480)
T ss_pred eEeeecCchH
Confidence 9988765543
No 171
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=95.90 E-value=0.033 Score=42.84 Aligned_cols=55 Identities=24% Similarity=0.348 Sum_probs=44.5
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcC---CCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHh
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTY---GEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEK 67 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~---G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~ 67 (466)
..+|+|.+|. +++.+||+.+|..| .....|..+.|. -|=|.|.+++.|.+||..+
T Consensus 5 peavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 3579999995 68899999999988 124467777774 4889999999999999763
No 172
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=95.87 E-value=0.078 Score=59.72 Aligned_cols=15 Identities=47% Similarity=0.762 Sum_probs=8.1
Q ss_pred CCCCCCCCCCCCCCC
Q 012289 224 RSGFPPFGSGYGMGM 238 (466)
Q Consensus 224 ~gG~~~~GgGyG~g~ 238 (466)
|++....|+|||.++
T Consensus 1184 RGgssysgGGYGggy 1198 (1282)
T KOG0921|consen 1184 RGGSSYSGGGYGGGY 1198 (1282)
T ss_pred cCCCCCCCCCcCCCC
Confidence 344444566777544
No 173
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=95.86 E-value=0.02 Score=55.67 Aligned_cols=62 Identities=21% Similarity=0.343 Sum_probs=55.2
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhc
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKH 68 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~ 68 (466)
..|+|.||+.-++-|.|++.|+.|++|...+++.|. .++..+-.+|+|...-.|.+|+....
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~~ 93 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRCR 93 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHHhc
Confidence 579999999999999999999999999988777664 47888999999999999999998663
No 174
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=95.82 E-value=0.014 Score=56.63 Aligned_cols=74 Identities=9% Similarity=0.296 Sum_probs=60.9
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCC--------CCcc----eEEEEEecCHHHHHHHHHHCCCCC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNT--------QRPR----GFGFITYDSEEAVDKVKRAVPKEL 171 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~t--------g~~r----G~aFV~F~s~e~A~~Ai~~l~~~~ 171 (466)
.+-+||++++|+.+....|+++|.+||.|-+|.+.+...+ +..+ --+.|+|.+...|.++...||.+.
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 4568999999999999999999999999999998775544 1122 337899999999999999999987
Q ss_pred CCCCcc
Q 012289 172 SPGPTR 177 (466)
Q Consensus 172 ~~~~~r 177 (466)
.++.-+
T Consensus 153 Iggkk~ 158 (278)
T KOG3152|consen 153 IGGKKK 158 (278)
T ss_pred cCCCCC
Confidence 665543
No 175
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=95.58 E-value=0.026 Score=55.78 Aligned_cols=58 Identities=14% Similarity=0.212 Sum_probs=47.1
Q ss_pred HHHHHHHHhhcCCeeEEEEEecCCCCCcc-eEEEEEecCHHHHHHHHHHCCCCCCCCCc
Q 012289 119 ESDFKKYFDQFGTITDVVVMYDHNTQRPR-GFGFITYDSEEAVDKVKRAVPKELSPGPT 176 (466)
Q Consensus 119 eedLk~~F~~fG~I~~v~i~~d~~tg~~r-G~aFV~F~s~e~A~~Ai~~l~~~~~~~~~ 176 (466)
++++++.+++||.|..|.|..++..-..+ --.||+|+..++|.+|+-.|++.+++++.
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~ 358 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRV 358 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceeccee
Confidence 46788999999999999998875432211 24899999999999999999999887765
No 176
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=95.55 E-value=0.096 Score=59.03 Aligned_cols=13 Identities=38% Similarity=0.539 Sum_probs=5.5
Q ss_pred CCcccEEEEEeCC
Q 012289 44 GRARGFGFVVFAD 56 (466)
Q Consensus 44 g~srGfaFVeF~~ 56 (466)
++.++|+--.|++
T Consensus 899 g~q~~~~g~kfsd 911 (1282)
T KOG0921|consen 899 GTQRKFAGNKFSD 911 (1282)
T ss_pred cchhhcccccccc
Confidence 3334444444444
No 177
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=95.51 E-value=0.041 Score=58.71 Aligned_cols=68 Identities=18% Similarity=0.277 Sum_probs=55.4
Q ss_pred CcceeeecCCCCCCC------HHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCC
Q 012289 104 RTRKIFVGGLASTVT------ESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELS 172 (466)
Q Consensus 104 ~~~~LfV~nLp~~vt------eedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~ 172 (466)
-...|+|.|+|---. ..-|.++|+++|+|+.+.++.|.+++ .+|+.|++|++..+|+.|++.+++.-.
T Consensus 57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~l 130 (698)
T KOG2314|consen 57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRL 130 (698)
T ss_pred cceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhccccee
Confidence 455788888874322 23466889999999999999998855 999999999999999999999998643
No 178
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=95.45 E-value=0.025 Score=60.20 Aligned_cols=68 Identities=16% Similarity=0.236 Sum_probs=56.1
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhh--cCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHh----ccCCCceEEE
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFS--TYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEK----HNIDGRMVEA 77 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~--~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~----~~i~Gr~I~V 77 (466)
+.|.|+|+-||..+-+|+||.||+ .+-++++|.+-.+.. =||+|++.+||++|.+.+ ++|.++.|..
T Consensus 174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~n-------WyITfesd~DAQqAykylreevk~fqgKpImA 246 (684)
T KOG2591|consen 174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDN-------WYITFESDTDAQQAYKYLREEVKTFQGKPIMA 246 (684)
T ss_pred ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCc-------eEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence 468899999999999999999995 578899998877643 599999999999998754 4488888754
Q ss_pred e
Q 012289 78 K 78 (466)
Q Consensus 78 ~ 78 (466)
+
T Consensus 247 R 247 (684)
T KOG2591|consen 247 R 247 (684)
T ss_pred h
Confidence 4
No 179
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=95.32 E-value=0.05 Score=57.99 Aligned_cols=66 Identities=11% Similarity=0.198 Sum_probs=54.2
Q ss_pred CcceeeecCCCCCCCHHHHHHHHh--hcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCC---CCCCCCc
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFD--QFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPK---ELSPGPT 176 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~--~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~---~~~~~~~ 176 (466)
+.+.|+|+.+|+++-+|++|.+|+ .|-+++.|.+-... -=||+|+++.+|+.|.+.|.. ++.+.+|
T Consensus 174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKpI 244 (684)
T KOG2591|consen 174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKPI 244 (684)
T ss_pred ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcch
Confidence 456788999999999999999995 58889899886543 269999999999999888765 4666666
No 180
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=95.14 E-value=0.017 Score=61.90 Aligned_cols=68 Identities=15% Similarity=0.280 Sum_probs=55.9
Q ss_pred CCCCcceeeecCCCCCCCHHHHHHHHh-hcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCC
Q 012289 101 GPGRTRKIFVGGLASTVTESDFKKYFD-QFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPG 174 (466)
Q Consensus 101 ~~~~~~~LfV~nLp~~vteedLk~~F~-~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~ 174 (466)
....+..|||.||-.-.|.-+|++++. .++.|+...| | +-|-.|||.|.+.++|.+.+.+|++..++.
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~Wm--D----kIKShCyV~yss~eEA~atr~AlhnV~WP~ 508 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWM--D----KIKSHCYVSYSSVEEAAATREALHNVQWPP 508 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHHHH--H----HhhcceeEecccHHHHHHHHHHHhccccCC
Confidence 345678999999999999999999998 5677777643 3 336689999999999999999999976553
No 181
>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=95.06 E-value=0.041 Score=46.52 Aligned_cols=71 Identities=18% Similarity=0.228 Sum_probs=46.4
Q ss_pred cceeeecCCCCCCCHHHHHHHHhhcCCeeEEE-EEecC------CCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCc
Q 012289 105 TRKIFVGGLASTVTESDFKKYFDQFGTITDVV-VMYDH------NTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPT 176 (466)
Q Consensus 105 ~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~-i~~d~------~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~ 176 (466)
.+-|.|-+.|+. ....|.++|++||+|++.. +.++. ..........|+|+++.+|++||++....+.+.-+
T Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~m 83 (100)
T PF05172_consen 6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSLM 83 (100)
T ss_dssp CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCEE
T ss_pred CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcEE
Confidence 456788899988 4557778899999998775 11100 00123458999999999999999998877655433
No 182
>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=95.02 E-value=0.018 Score=47.56 Aligned_cols=71 Identities=15% Similarity=0.323 Sum_probs=46.0
Q ss_pred EEEEeCCHHHHHHHHHHh-cc--CCCceEEEeecCCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHH
Q 012289 50 GFVVFADPAVAEIVIQEK-HN--IDGRMVEAKKAVPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYF 126 (466)
Q Consensus 50 aFVeF~~~e~A~~Al~~~-~~--i~Gr~I~V~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F 126 (466)
|+|+|.+++.|++.++.. |. ++.+.+.|+...-....... .........++|.|.+||..+++|+|++.+
T Consensus 1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~P~~~~~~~k-------~qv~~~vs~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVSPVTLGHLQK-------FQVFSGVSKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEEeEecCCceE-------EEEEEcccCCEEEEeCCCCCCChhhheeeE
Confidence 689999999999999843 43 66666655443221111000 000111346789999999999999998875
Q ss_pred h
Q 012289 127 D 127 (466)
Q Consensus 127 ~ 127 (466)
+
T Consensus 74 e 74 (88)
T PF07292_consen 74 E 74 (88)
T ss_pred E
Confidence 4
No 183
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=95.01 E-value=0.013 Score=56.81 Aligned_cols=64 Identities=23% Similarity=0.338 Sum_probs=49.1
Q ss_pred HHHHHHhh-cCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecCCcc
Q 012289 20 ERLKEYFS-TYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAVPRD 84 (466)
Q Consensus 20 eeL~~~F~-~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~~~~ 84 (466)
+||...|+ +||+|++++|-.+.. -.-+|-++|.|..+|+|++|++.++. +.+++|.........
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl~-~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~ 149 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNLG-DHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTD 149 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccc-hhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCc
Confidence 34444444 899999987765532 34678999999999999999999988 889998877765443
No 184
>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=95.00 E-value=0.11 Score=42.41 Aligned_cols=56 Identities=14% Similarity=0.323 Sum_probs=41.5
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~ 69 (466)
++..+|. .|.++...||.++|+.||.|. |..+.|. -|||...+.+.|..|+..+..
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~dT-------SAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWINDT-------SAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCEE-EEEECTT-------EEEEEECCCHHHHHHHHHHTT
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcCC-------cEEEEeecHHHHHHHHHHhcc
Confidence 4445555 999999999999999999884 5555553 699999999999999886543
No 185
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=94.88 E-value=0.018 Score=58.83 Aligned_cols=73 Identities=10% Similarity=0.176 Sum_probs=61.1
Q ss_pred ceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCC---CCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCccc
Q 012289 106 RKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHN---TQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPTRS 178 (466)
Q Consensus 106 ~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~---tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~r~ 178 (466)
..|.|.||.+.+|.++++.+|.-+|+|.++.|+.... -....-.|||.|.|...+..|.-+.+..+.++.+-|
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv 83 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIV 83 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEE
Confidence 4899999999999999999999999999999876322 133457899999999999999888888777776643
No 186
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=94.82 E-value=0.069 Score=52.85 Aligned_cols=64 Identities=23% Similarity=0.230 Sum_probs=49.8
Q ss_pred cHHHHHHHhhcCCCeEEEEEeecCCCCCccc-EEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 18 NEERLKEYFSTYGEVVEAVIMKDRNTGRARG-FGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 18 teeeL~~~F~~~G~V~~v~i~~d~~tg~srG-faFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
-|+++++-.++||+|.+|.|..++..-..+- -.||+|...++|.+|+-.++. |.+|.|...+-.
T Consensus 299 lede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 299 LEDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 4568889999999999999877754332222 379999999999999999887 778887665543
No 187
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=93.99 E-value=0.22 Score=44.63 Aligned_cols=73 Identities=16% Similarity=0.177 Sum_probs=54.7
Q ss_pred CCCCcceeeecCCCCCCC-HHHHHHH---HhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCc
Q 012289 101 GPGRTRKIFVGGLASTVT-ESDFKKY---FDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPT 176 (466)
Q Consensus 101 ~~~~~~~LfV~nLp~~vt-eedLk~~---F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~ 176 (466)
.+++..+|.|+=|..++. .|||+.+ ++.||+|..|... + |-.|.|.|+|..+|-+|+.+++....+..+
T Consensus 82 kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-----G--rqsavVvF~d~~SAC~Av~Af~s~~pgtm~ 154 (166)
T PF15023_consen 82 KEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-----G--RQSAVVVFKDITSACKAVSAFQSRAPGTMF 154 (166)
T ss_pred CCCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-----C--CceEEEEehhhHHHHHHHHhhcCCCCCceE
Confidence 345667888887776663 4566654 4679999999775 2 447999999999999999999987666665
Q ss_pred ccCC
Q 012289 177 RSPL 180 (466)
Q Consensus 177 r~~~ 180 (466)
++.|
T Consensus 155 qCsW 158 (166)
T PF15023_consen 155 QCSW 158 (166)
T ss_pred Eeec
Confidence 6654
No 188
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=93.88 E-value=0.033 Score=58.33 Aligned_cols=78 Identities=15% Similarity=0.168 Sum_probs=62.5
Q ss_pred CCCCCCEEEEcCCCccC-cHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHH-hccCCCceEEEe
Q 012289 1 MQSDNGKLFIGGISWDT-NEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQE-KHNIDGRMVEAK 78 (466)
Q Consensus 1 m~~d~~~LfVgnLP~~~-teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~-~~~i~Gr~I~V~ 78 (466)
|+.+.+.|-+.-+|+.. +-++|..+|.+||+|++|.|-... --|.|+|++..+|-+|... ---|++|.|+|.
T Consensus 368 ~~~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~~s~~avlnnr~iKl~ 441 (526)
T KOG2135|consen 368 AVVDHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAYASHGAVLNNRFIKLF 441 (526)
T ss_pred hhcccchhhhhccCCCCchHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchhccccceecCceeEEE
Confidence 45677788888888776 678999999999999999886653 3699999999999666653 334999999999
Q ss_pred ecCCcc
Q 012289 79 KAVPRD 84 (466)
Q Consensus 79 ~a~~~~ 84 (466)
|..+..
T Consensus 442 whnps~ 447 (526)
T KOG2135|consen 442 WHNPSP 447 (526)
T ss_pred EecCCc
Confidence 988744
No 189
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=93.46 E-value=0.36 Score=43.27 Aligned_cols=74 Identities=14% Similarity=0.188 Sum_probs=55.5
Q ss_pred CCCCCEEEEcCCCccC----cHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc-CCCceEE
Q 012289 2 QSDNGKLFIGGISWDT----NEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN-IDGRMVE 76 (466)
Q Consensus 2 ~~d~~~LfVgnLP~~~----teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~-i~Gr~I~ 76 (466)
+..-.+|.|+-|..++ +.+.|...++.||+|.+|.+.- |.-|.|+|+|...|-+|+..++. .-+..+.
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG-------rqsavVvF~d~~SAC~Av~Af~s~~pgtm~q 155 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG-------RQSAVVVFKDITSACKAVSAFQSRAPGTMFQ 155 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC-------CceEEEEehhhHHHHHHHHhhcCCCCCceEE
Confidence 4455688888777665 3334556678899999886633 34699999999999999998866 7788888
Q ss_pred EeecCC
Q 012289 77 AKKAVP 82 (466)
Q Consensus 77 V~~a~~ 82 (466)
..|...
T Consensus 156 CsWqqr 161 (166)
T PF15023_consen 156 CSWQQR 161 (166)
T ss_pred eecccc
Confidence 877653
No 190
>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=93.43 E-value=0.071 Score=49.75 Aligned_cols=67 Identities=12% Similarity=0.165 Sum_probs=43.8
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhh-cCCe---eEEEEEecC--CCCCcceEEEEEecCHHHHHHHHHHCCCC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQ-FGTI---TDVVVMYDH--NTQRPRGFGFITYDSEEAVDKVKRAVPKE 170 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~-fG~I---~~v~i~~d~--~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~ 170 (466)
...+|.|++||+.+||+++.+.+.. ++.. ..+.-..+. .......-|+|.|.+.+++...++.+++.
T Consensus 6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~ 78 (176)
T PF03467_consen 6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGH 78 (176)
T ss_dssp ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTE
T ss_pred cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCc
Confidence 4569999999999999999987776 5555 333311221 11223467999999999999999999874
No 191
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=92.97 E-value=0.43 Score=50.00 Aligned_cols=64 Identities=17% Similarity=0.220 Sum_probs=53.6
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCC-CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYG-EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G-~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~ 69 (466)
.++.|+|--+|.-++-.||..|...+- .|.+|+|++|.. .++=..+|+|.+.++|....+++++
T Consensus 73 ~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~--pnrymvLIkFr~q~da~~Fy~efNG 137 (493)
T KOG0804|consen 73 SSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGM--PNRYMVLIKFRDQADADTFYEEFNG 137 (493)
T ss_pred CCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCC--CceEEEEEEeccchhHHHHHHHcCC
Confidence 368899999999999999999997654 588999999643 3444588999999999999998766
No 192
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=92.80 E-value=1 Score=38.86 Aligned_cols=68 Identities=12% Similarity=0.102 Sum_probs=52.5
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhcC-CeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCC
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQFG-TITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELS 172 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~fG-~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~ 172 (466)
.....+.+...|+.++.++|..+.+.+- .|..++|++|.. ..+=.+.|+|++.++|++-.+..|++.+
T Consensus 11 ~~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~--pnrymVLikF~~~~~Ad~Fy~~fNGk~F 79 (110)
T PF07576_consen 11 RRSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGT--PNRYMVLIKFRDQESADEFYEEFNGKPF 79 (110)
T ss_pred CCceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCC--CceEEEEEEECCHHHHHHHHHHhCCCcc
Confidence 3455566666777778888887777764 578899998753 3566899999999999999999987643
No 193
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=92.77 E-value=0.3 Score=44.01 Aligned_cols=73 Identities=22% Similarity=0.322 Sum_probs=49.1
Q ss_pred CCCCEEEEcCCC-----ccCcH----HHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHH-hccCCC
Q 012289 3 SDNGKLFIGGIS-----WDTNE----ERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQE-KHNIDG 72 (466)
Q Consensus 3 ~d~~~LfVgnLP-----~~~te----eeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~-~~~i~G 72 (466)
..+.+|.|.=+. ...-. ++|.+.|+.||+|+-|+++.+ .-.|+|.+-+.|-+|+.. ...+.+
T Consensus 25 PpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals~dg~~v~g 96 (146)
T PF08952_consen 25 PPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALSLDGIQVNG 96 (146)
T ss_dssp -TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHHGCCSEETT
T ss_pred CCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHccCCcEECC
Confidence 345667776555 11222 267788999999988877765 468999999999999984 355899
Q ss_pred ceEEEeecCCc
Q 012289 73 RMVEAKKAVPR 83 (466)
Q Consensus 73 r~I~V~~a~~~ 83 (466)
+.|.|+...|.
T Consensus 97 ~~l~i~LKtpd 107 (146)
T PF08952_consen 97 RTLKIRLKTPD 107 (146)
T ss_dssp EEEEEEE----
T ss_pred EEEEEEeCCcc
Confidence 99999876643
No 194
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=92.57 E-value=0.057 Score=52.54 Aligned_cols=55 Identities=16% Similarity=0.309 Sum_probs=42.0
Q ss_pred HHHHHHh-hcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC-CCCCCc
Q 012289 121 DFKKYFD-QFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE-LSPGPT 176 (466)
Q Consensus 121 dLk~~F~-~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~-~~~~~~ 176 (466)
||...|+ +||+|+.++|-.... -..+|-++|+|..+|+|++|++.|+.. +.+++|
T Consensus 84 d~f~E~~~kygEiee~~Vc~Nl~-~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi 140 (260)
T KOG2202|consen 84 DVFTELEDKYGEIEELNVCDNLG-DHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPI 140 (260)
T ss_pred HHHHHHHHHhhhhhhhhhhcccc-hhhhhhhhhhcccHHHHHHHHHHHcCccccCCcc
Confidence 3444444 899999987654332 455789999999999999999999987 566666
No 195
>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=92.53 E-value=0.14 Score=47.87 Aligned_cols=67 Identities=12% Similarity=0.047 Sum_probs=40.8
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhhc-CCCe---EEEEEeecC-CCC-CcccEEEEEeCCHHHHHHHHHHhcc
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFST-YGEV---VEAVIMKDR-NTG-RARGFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~~-~G~V---~~v~i~~d~-~tg-~srGfaFVeF~~~e~A~~Al~~~~~ 69 (466)
.+..+|.|+.||+.+||+++.+.+.. +++. ..+.-.... ... ..-.-|+|.|.+.+++...++.+++
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g 77 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDG 77 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTT
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCC
Confidence 56789999999999999999997776 5554 233211221 111 1233599999999998888887655
No 196
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=92.30 E-value=0.24 Score=55.75 Aligned_cols=74 Identities=16% Similarity=0.297 Sum_probs=61.3
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccCC----CceEEEee
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNID----GRMVEAKK 79 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i~----Gr~I~V~~ 79 (466)
..++|||++|+..+....|...|..||.|..|.+-+-. -||+|.|++...|+.|++.+..+. .+.+.|.+
T Consensus 454 ~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq------~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdl 527 (975)
T KOG0112|consen 454 PTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQ------PYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDL 527 (975)
T ss_pred cceeeccCCCCCCChHHHHHHHhhccCcceeeecccCC------cceeeecccCccchhhHHHHhcCcCCCCCccccccc
Confidence 46889999999999999999999999999998775543 399999999999999999876632 45577777
Q ss_pred cCCc
Q 012289 80 AVPR 83 (466)
Q Consensus 80 a~~~ 83 (466)
+.+.
T Consensus 528 a~~~ 531 (975)
T KOG0112|consen 528 ASPP 531 (975)
T ss_pred ccCC
Confidence 6543
No 197
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=90.95 E-value=0.21 Score=50.52 Aligned_cols=80 Identities=21% Similarity=0.409 Sum_probs=56.9
Q ss_pred CCEEEEcCCCccCcHHHHH---HHhhcCCCeEEEEEeecCC--CCC-cccEEEEEeCCHHHHHHHHHHhcc--CCCceEE
Q 012289 5 NGKLFIGGISWDTNEERLK---EYFSTYGEVVEAVIMKDRN--TGR-ARGFGFVVFADPAVAEIVIQEKHN--IDGRMVE 76 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~---~~F~~~G~V~~v~i~~d~~--tg~-srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~ 76 (466)
.+.+||-+|+.+...+++. ++|.+||.|..|.+-+++. ... ..--++|+|...|+|..||+..+. ++++.++
T Consensus 77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lk 156 (327)
T KOG2068|consen 77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALK 156 (327)
T ss_pred hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhH
Confidence 3567888898877544443 5889999999988877652 111 111288999999999999998877 5677766
Q ss_pred EeecCCcc
Q 012289 77 AKKAVPRD 84 (466)
Q Consensus 77 V~~a~~~~ 84 (466)
+.....+.
T Consensus 157 a~~gttky 164 (327)
T KOG2068|consen 157 ASLGTTKY 164 (327)
T ss_pred HhhCCCcc
Confidence 66655443
No 198
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=90.02 E-value=0.23 Score=53.48 Aligned_cols=72 Identities=21% Similarity=0.216 Sum_probs=56.9
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhh-cCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccC-----CCceEEE
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFS-TYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNI-----DGRMVEA 77 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~-~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i-----~Gr~I~V 77 (466)
-++.|+|.||-.-.|.-+|++++. ..+.|+++.|-+ -|-.|||.|.+.++|...+..||++ +.+.|.|
T Consensus 443 ~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDk------IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~a 516 (718)
T KOG2416|consen 443 PSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDK------IKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIA 516 (718)
T ss_pred ccceEeeecccccchHHHHHHHHhhccCchHHHHHHH------hhcceeEecccHHHHHHHHHHHhccccCCCCCceeEe
Confidence 467899999999999999999997 566777764422 2347999999999999999999984 3566666
Q ss_pred eecC
Q 012289 78 KKAV 81 (466)
Q Consensus 78 ~~a~ 81 (466)
.+..
T Consensus 517 df~~ 520 (718)
T KOG2416|consen 517 DFVR 520 (718)
T ss_pred eecc
Confidence 6543
No 199
>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=89.73 E-value=3.5 Score=35.50 Aligned_cols=62 Identities=16% Similarity=0.164 Sum_probs=44.7
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcCCC-eEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTYGE-VVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~G~-V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~ 69 (466)
..+.+.-+|+-++-++|..+.+.+-+ |..++|++|.. .++=-+.|+|.++++|++..++.++
T Consensus 14 ~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~--pnrymVLikF~~~~~Ad~Fy~~fNG 76 (110)
T PF07576_consen 14 TLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGT--PNRYMVLIKFRDQESADEFYEEFNG 76 (110)
T ss_pred eEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCC--CceEEEEEEECCHHHHHHHHHHhCC
Confidence 33444455556666777777676654 77888888743 4566789999999999999998665
No 200
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=89.35 E-value=0.27 Score=53.69 Aligned_cols=116 Identities=17% Similarity=0.111 Sum_probs=73.8
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
..-+|||+||...|..+-++.+...+|-|..++.+. |+|.+|..+..+.+|+..++. ++++.+.++...
T Consensus 39 ~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~d~ 109 (668)
T KOG2253|consen 39 PRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELNIDDQKLIENVDE 109 (668)
T ss_pred CCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccCCCcchhhccchh
Confidence 457899999999999999999999999987766544 999999999999999886655 667766554421
Q ss_pred Ccchh-hhhccC-CCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhh
Q 012289 82 PRDDQ-IVLNRS-SGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQ 128 (466)
Q Consensus 82 ~~~~~-~~~~~~-~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~ 128 (466)
..-.. ...... ....+.-..+...+.++|.++|-...+...++.|.-
T Consensus 110 q~~~n~~k~~~~~~~~~~~f~p~~srr~e~i~~k~~~l~~~~~~~~~~i 158 (668)
T KOG2253|consen 110 QTIENADKEKSIANKESHKFVPSSSRRQESIQNKPLSLDEQIHKKSLQI 158 (668)
T ss_pred hhhcCccccccchhhhhcccCCchhHHHHHhhccccchhHHHHHHHHhc
Confidence 00000 000000 000011111112455677777777666666555543
No 201
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=88.62 E-value=0.23 Score=52.19 Aligned_cols=67 Identities=16% Similarity=0.196 Sum_probs=51.2
Q ss_pred eeecCCCCCC-CHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCcccCC
Q 012289 108 IFVGGLASTV-TESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPTRSPL 180 (466)
Q Consensus 108 LfV~nLp~~v-teedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~r~~~ 180 (466)
|-+.-.|+.+ |.++|..+|.+||+|+.|.|-... --|.|+|.+..+|-+|...-.-.+..|.|++.|
T Consensus 375 l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~~s~~avlnnr~iKl~w 442 (526)
T KOG2135|consen 375 LALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAYASHGAVLNNRFIKLFW 442 (526)
T ss_pred hhhhccCCCCchHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchhccccceecCceeEEEE
Confidence 3344444444 568999999999999999886542 369999999999988777777778888887755
No 202
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=88.14 E-value=2.5 Score=42.40 Aligned_cols=73 Identities=19% Similarity=0.283 Sum_probs=50.5
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc-CCCc-eEEEeecCC
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN-IDGR-MVEAKKAVP 82 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~-i~Gr-~I~V~~a~~ 82 (466)
+..|-|-++|+.- -.-|..+|++||+|++.+...+- -+-+|.|.+..+|+|||.+.-. |++. .|-|+....
T Consensus 197 D~WVTVfGFppg~-~s~vL~~F~~cG~Vvkhv~~~ng------NwMhirYssr~~A~KALskng~ii~g~vmiGVkpCtD 269 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQ-VSIVLNLFSRCGEVVKHVTPSNG------NWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPCTD 269 (350)
T ss_pred cceEEEeccCccc-hhHHHHHHHhhCeeeeeecCCCC------ceEEEEecchhHHHHhhhhcCeeeccceEEeeeecCC
Confidence 4566677777653 34677899999999887665333 3899999999999999986544 4433 334455444
Q ss_pred cc
Q 012289 83 RD 84 (466)
Q Consensus 83 ~~ 84 (466)
+.
T Consensus 270 ks 271 (350)
T KOG4285|consen 270 KS 271 (350)
T ss_pred HH
Confidence 43
No 203
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=85.77 E-value=0.48 Score=47.93 Aligned_cols=79 Identities=25% Similarity=0.434 Sum_probs=56.1
Q ss_pred CCcceeeecCCCCCCCHHHHH---HHHhhcCCeeEEEEEecCCC---CCcceEEEEEecCHHHHHHHHHHCCCCCCCC-C
Q 012289 103 GRTRKIFVGGLASTVTESDFK---KYFDQFGTITDVVVMYDHNT---QRPRGFGFITYDSEEAVDKVKRAVPKELSPG-P 175 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk---~~F~~fG~I~~v~i~~d~~t---g~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~-~ 175 (466)
.+...+||-.|+..+..+++- +.|.+||.|.+|.+..++.. --...-++|+|+.+|+|+.||...+..+... .
T Consensus 75 Vqknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~ 154 (327)
T KOG2068|consen 75 VQKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRA 154 (327)
T ss_pred hhhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhh
Confidence 344678888998887655443 67888999999999887631 1122348999999999999999998875443 3
Q ss_pred cccCCC
Q 012289 176 TRSPLG 181 (466)
Q Consensus 176 ~r~~~g 181 (466)
++..++
T Consensus 155 lka~~g 160 (327)
T KOG2068|consen 155 LKASLG 160 (327)
T ss_pred hHHhhC
Confidence 344444
No 204
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=85.59 E-value=1 Score=40.63 Aligned_cols=52 Identities=13% Similarity=0.175 Sum_probs=42.4
Q ss_pred HHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCcccCC
Q 012289 121 DFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPTRSPL 180 (466)
Q Consensus 121 dLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~r~~~ 180 (466)
+|-+.|.+||+++=|+++-+ .-+|+|.+-++|.+|+.+...++.++.+++.+
T Consensus 52 ~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals~dg~~v~g~~l~i~L 103 (146)
T PF08952_consen 52 ELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALSLDGIQVNGRTLKIRL 103 (146)
T ss_dssp HHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHHGCCSEETTEEEEEEE
T ss_pred HHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHccCCcEECCEEEEEEe
Confidence 56677788999888877744 58999999999999999999999888876543
No 205
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=85.44 E-value=2.7 Score=42.12 Aligned_cols=63 Identities=16% Similarity=0.117 Sum_probs=46.5
Q ss_pred eeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCc
Q 012289 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPT 176 (466)
Q Consensus 107 ~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~ 176 (466)
=|-|-++|+.-. .-|..+|++||+|++.+... .-.+-.|+|.+.-+|++||.+..+.|.+-.+
T Consensus 199 WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~~------ngNwMhirYssr~~A~KALskng~ii~g~vm 261 (350)
T KOG4285|consen 199 WVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTPS------NGNWMHIRYSSRTHAQKALSKNGTIIDGDVM 261 (350)
T ss_pred eEEEeccCccch-hHHHHHHHhhCeeeeeecCC------CCceEEEEecchhHHHHhhhhcCeeeccceE
Confidence 345556766544 35667899999998876642 2358999999999999999998876655433
No 206
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=84.84 E-value=0.95 Score=40.37 Aligned_cols=109 Identities=12% Similarity=0.039 Sum_probs=70.0
Q ss_pred cCcHHHHHHHhhc-CCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHh-ccCCCceEEEeecCCcchhhhhccCC
Q 012289 16 DTNEERLKEYFST-YGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEK-HNIDGRMVEAKKAVPRDDQIVLNRSS 93 (466)
Q Consensus 16 ~~teeeL~~~F~~-~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~-~~i~Gr~I~V~~a~~~~~~~~~~~~~ 93 (466)
+.+-+.|++.+.+ +.....+.+..- ..++..++|.++++++++++.. ..+++..+.++...+........
T Consensus 28 ~~~~~~l~~~l~~~W~~~~~~~i~~l-----~~~~fl~~F~~~~d~~~vl~~~p~~~~~~~~~l~~W~~~~~~~~~~--- 99 (153)
T PF14111_consen 28 PISLSALEQELAKIWKLKGGVKIRDL-----GDNLFLFQFESEEDRQRVLKGGPWNFNGHFLILQRWSPDFNPSEVK--- 99 (153)
T ss_pred CCCHHHHHHHHHHHhCCCCcEEEEEe-----CCCeEEEEEEeccceeEEEecccccccccchhhhhhcccccccccc---
Confidence 4566667766654 233323333332 1258899999999999999844 34777778777766544322100
Q ss_pred CCCCCCCCCCCcceeeecCCCCC-CCHHHHHHHHhhcCCeeEEEEEe
Q 012289 94 GSIHGSPGPGRTRKIFVGGLAST-VTESDFKKYFDQFGTITDVVVMY 139 (466)
Q Consensus 94 ~~~~~~~~~~~~~~LfV~nLp~~-vteedLk~~F~~fG~I~~v~i~~ 139 (466)
......=|.|.+||.. .+++-|+++.+.+|++.+++...
T Consensus 100 -------~~~~~vWVri~glP~~~~~~~~~~~i~~~iG~~i~vD~~t 139 (153)
T PF14111_consen 100 -------FEHIPVWVRIYGLPLHLWSEEILKAIGSKIGEPIEVDENT 139 (153)
T ss_pred -------eeccchhhhhccCCHHHhhhHHHHHHHHhcCCeEEEEcCC
Confidence 0011223666799988 57888999999999998887643
No 207
>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=84.37 E-value=2.1 Score=40.29 Aligned_cols=61 Identities=30% Similarity=0.311 Sum_probs=42.2
Q ss_pred CcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhc--c--CCCceEEEeecCCc
Q 012289 17 TNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKH--N--IDGRMVEAKKAVPR 83 (466)
Q Consensus 17 ~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~--~--i~Gr~I~V~~a~~~ 83 (466)
-.+++|+++|..+.++..+.+++.- +-..|.|.+.++|++|.+.++ . +.+..+++..+.+.
T Consensus 7 ~~~~~l~~l~~~~~~~~~~~~L~sF------rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~ 71 (184)
T PF04847_consen 7 DNLAELEELFSTYDPPVQFSPLKSF------RRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT 71 (184)
T ss_dssp --HHHHHHHHHTT-SS-EEEEETTT------TEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred hhHHHHHHHHHhcCCceEEEEcCCC------CEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence 3568999999999998888776642 247899999999999999877 3 78888888777433
No 208
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=83.12 E-value=0.98 Score=47.02 Aligned_cols=57 Identities=19% Similarity=0.430 Sum_probs=45.2
Q ss_pred ceeeecCCCCCCCHHHHHHHHhhc--CCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC
Q 012289 106 RKIFVGGLASTVTESDFKKYFDQF--GTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE 170 (466)
Q Consensus 106 ~~LfV~nLp~~vteedLk~~F~~f--G~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~ 170 (466)
.+||++||.+.++..||+.+|... +--..+ ++ ..+|+||.+.+...|.+|++.++.+
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~f-l~-------k~gyafvd~pdq~wa~kaie~~sgk 60 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQF-LV-------KSGYAFVDCPDQQWANKAIETLSGK 60 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcce-ee-------ecceeeccCCchhhhhhhHHhhchh
Confidence 478999999999999999999654 111111 11 2579999999999999999999875
No 209
>TIGR02542 B_forsyth_147 Bacteroides forsythus 147-residue repeat. The longest predicted protein in Bacteroides forsythus ATCC 43037 is over 3000 residues long and lacks homology to other known proteins. Immediately after the signal sequence are four tandem repeats, approximately 147 residues long. This model describes that repeat. This model describes that repeat.
Probab=83.08 E-value=2.2 Score=36.82 Aligned_cols=112 Identities=19% Similarity=0.334 Sum_probs=63.0
Q ss_pred CCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc----CCCceEEEeecCCcchhhh
Q 012289 13 ISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN----IDGRMVEAKKAVPRDDQIV 88 (466)
Q Consensus 13 LP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~----i~Gr~I~V~~a~~~~~~~~ 88 (466)
||+-++ .|.++|+.-|+|.+|..+.. |.| .+ |+-.+|. +++. |.|-..........
T Consensus 11 lPPYTn--KLSDYfeSPGKI~svItvtq-------------ypd-nd---al~~~~G~lE~vDg~-i~IGs~q~~~sV~i 70 (145)
T TIGR02542 11 LPPYTN--KLSDYFESPGKIQSVITVTQ-------------YPD-ND---ALLYVHGTLEQVDGN-IRIGSGQTPASVRI 70 (145)
T ss_pred cCCccc--hhhHHhcCCCceEEEEEEec-------------cCC-ch---hhheeeeehhhccCc-EEEccCCCcccEEE
Confidence 565444 68999999999998765442 221 12 3333332 5665 55544332211110
Q ss_pred hccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhh---cCCeeEEEEEecCCCCCcceEEEEEecCH
Q 012289 89 LNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQ---FGTITDVVVMYDHNTQRPRGFGFITYDSE 157 (466)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~---fG~I~~v~i~~d~~tg~~rG~aFV~F~s~ 157 (466)
...+.-..++| -|+.+|-.+|+++|++ |--|++-.|.+|--..-+-..||..|...
T Consensus 71 ----------~gTPsgnnv~F---~PYTlT~~e~r~iF~Epm~YQGITReQV~rdGLP~GsYRiCFrL~~~~ 129 (145)
T TIGR02542 71 ----------QGTPSGNNVIF---PPYTLTYNELRQIFREPMVYQGITREQVQRDGLPEGSYRICFRLFNAT 129 (145)
T ss_pred ----------ecCCCCCceec---CceeeeHHHHHHHHhhhhhhccccHHHHhhcCCCCCceEEEEEEeccc
Confidence 00111122333 4889999999999964 56677766766632223345688888554
No 210
>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=82.76 E-value=4.6 Score=31.87 Aligned_cols=56 Identities=21% Similarity=0.357 Sum_probs=33.6
Q ss_pred cCcHHHHHHHhhcCC-----CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCceEEEeec
Q 012289 16 DTNEERLKEYFSTYG-----EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGRMVEAKKA 80 (466)
Q Consensus 16 ~~teeeL~~~F~~~G-----~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr~I~V~~a 80 (466)
.++..+|..++.... +|-.|+|..+ |+||+-... .|+++++.++. +++++|.|+.|
T Consensus 12 g~~~~~iv~~i~~~~gi~~~~IG~I~I~~~--------~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 12 GLTPRDIVGAICNEAGIPGRDIGRIDIFDN--------FSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp T--HHHHHHHHHTCTTB-GGGEEEEEE-SS---------EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred CCCHHHHHHHHHhccCCCHHhEEEEEEeee--------EEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence 478889999997664 3556666553 899998764 67888887764 89999999875
No 211
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=81.83 E-value=5.2 Score=42.23 Aligned_cols=67 Identities=13% Similarity=0.238 Sum_probs=56.2
Q ss_pred cceeeecCCCCCCCHHHHHHHHhhc-CCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCC
Q 012289 105 TRKIFVGGLASTVTESDFKKYFDQF-GTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSP 173 (466)
Q Consensus 105 ~~~LfV~nLp~~vteedLk~~F~~f-G~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~ 173 (466)
...|+|--+|..++-.||-.|...| -.|.+++|++|... .+=..+|+|.+.++|+.-.+.+++..+.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~p--nrymvLIkFr~q~da~~Fy~efNGk~Fn 141 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMP--NRYMVLIKFRDQADADTFYEEFNGKQFN 141 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCC--ceEEEEEEeccchhHHHHHHHcCCCcCC
Confidence 6788999999999999999999776 46999999997543 3446899999999999999999886443
No 212
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=80.99 E-value=1 Score=50.55 Aligned_cols=74 Identities=19% Similarity=0.214 Sum_probs=60.0
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc----CCCceEEEeecC
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN----IDGRMVEAKKAV 81 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~----i~Gr~I~V~~a~ 81 (466)
.+..+.|.+-..+..-|..+|.+||+|.+++.+++.+ .|.|+|...+.|..|++.+++ +.+-+.+|..++
T Consensus 299 p~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~N------~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak 372 (1007)
T KOG4574|consen 299 PKQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDLN------MALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAK 372 (1007)
T ss_pred chhhhhcccccchHHHHHHHHHhhcchhhheeccccc------chhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecc
Confidence 3445556666778888999999999999999999876 799999999999999998876 447777787776
Q ss_pred Ccch
Q 012289 82 PRDD 85 (466)
Q Consensus 82 ~~~~ 85 (466)
+-+.
T Consensus 373 ~~~~ 376 (1007)
T KOG4574|consen 373 TLPM 376 (1007)
T ss_pred cccc
Confidence 5544
No 213
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=79.29 E-value=7 Score=38.95 Aligned_cols=59 Identities=15% Similarity=0.295 Sum_probs=41.6
Q ss_pred cceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecC-------HHHHHHHHHHCC
Q 012289 105 TRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS-------EEAVDKVKRAVP 168 (466)
Q Consensus 105 ~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s-------~e~A~~Ai~~l~ 168 (466)
..-|+|.||+.++.-.|||..+.+.+.+ -..|.. .-+++-||++|-+ .+++++++..++
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~-pm~isw----kg~~~k~flh~~~~~~~~~~~~~~~~~~~s~~ 395 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECT-PMSISW----KGHFGKCFLHFGNRKGVPSTQDDMDKVLKSLN 395 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCC-ceeEee----ecCCcceeEecCCccCCCCCchHHHHHhccCC
Confidence 4569999999999999999999887643 122221 2346789999965 456666665543
No 214
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=78.76 E-value=1.8 Score=47.46 Aligned_cols=60 Identities=17% Similarity=0.221 Sum_probs=52.7
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCC
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKEL 171 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~ 171 (466)
++..++||+|+-..+..+-++.+...||.|..+.... |+|++|..+.....|+..+....
T Consensus 38 ~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~ 97 (668)
T KOG2253|consen 38 PPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELN 97 (668)
T ss_pred CCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccC
Confidence 4567899999999999999999999999998876653 99999999999999998887753
No 215
>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=78.00 E-value=3.8 Score=41.46 Aligned_cols=56 Identities=18% Similarity=0.173 Sum_probs=38.3
Q ss_pred EEEEeCCHHHHHHHHHHhccCCCceEEEeecCCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHh
Q 012289 50 GFVVFADPAVAEIVIQEKHNIDGRMVEAKKAVPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFD 127 (466)
Q Consensus 50 aFVeF~~~e~A~~Al~~~~~i~Gr~I~V~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~ 127 (466)
|||+|+++++|+.|++..+..+.+.+.++.|.+.+ -|+-.||..+..+..+|.++.
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~~~~~v~~APeP~----------------------DI~W~NL~~~~~~r~~R~~~~ 56 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRPNSWRVSPAPEPD----------------------DIIWENLSISSKQRFLRRIIV 56 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCCCCceEeeCCCcc----------------------cccccccCCChHHHHHHHHHH
Confidence 79999999999999997666666666666665433 345556655555555555443
No 216
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=77.22 E-value=3.6 Score=42.69 Aligned_cols=58 Identities=22% Similarity=0.224 Sum_probs=46.8
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCC-eEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGE-VVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~-V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~ 69 (466)
.+.|-|-++|.....+||...|+.|.. -.+|++|.|. .||-.|.+...|..||...|.
T Consensus 391 pHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt~kh~ 449 (528)
T KOG4483|consen 391 PHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALTLKHD 449 (528)
T ss_pred cceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhhccCc
Confidence 467889999999999999999999964 3455555554 699999999999999985443
No 217
>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=76.65 E-value=9.5 Score=29.77 Aligned_cols=45 Identities=29% Similarity=0.477 Sum_probs=34.0
Q ss_pred cCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc
Q 012289 16 DTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 16 ~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~ 69 (466)
.++-++|+..+++|.- .+|+.|+. || ||.|.+.++|+++.+..+.
T Consensus 11 ~~~v~d~K~~Lr~y~~---~~I~~d~t-----Gf-YIvF~~~~Ea~rC~~~~~~ 55 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW---DRIRDDRT-----GF-YIVFNDSKEAERCFRAEDG 55 (66)
T ss_pred CccHHHHHHHHhcCCc---ceEEecCC-----EE-EEEECChHHHHHHHHhcCC
Confidence 5788999999999953 34455543 33 8999999999999986443
No 218
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=75.57 E-value=1.6 Score=49.16 Aligned_cols=28 Identities=25% Similarity=0.470 Sum_probs=24.1
Q ss_pred CCCCEEEEcCCCccC-cHHHHHHHhhcCC
Q 012289 3 SDNGKLFIGGISWDT-NEERLKEYFSTYG 30 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~-teeeL~~~F~~~G 30 (466)
..+++|+|..||.++ ++++|+++|.+..
T Consensus 206 ~ssRTvlis~LP~~~~~~e~L~~~~~kl~ 234 (827)
T COG5594 206 LSSRTVLISGLPSELRSDEELKELFDKLK 234 (827)
T ss_pred CCCceEEeecCChhhcCchhHHHHHhhcC
Confidence 358999999999987 7778999999874
No 219
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=75.37 E-value=1.7 Score=48.90 Aligned_cols=70 Identities=17% Similarity=0.301 Sum_probs=56.9
Q ss_pred eeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCC---CCCCCcccCCCC
Q 012289 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKE---LSPGPTRSPLGG 182 (466)
Q Consensus 107 ~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~---~~~~~~r~~~g~ 182 (466)
+..+.|.+-..+-..|..+|.+||.|..++.++|-+ .|.|+|.+.|.|..|+++++++ +.+.+.||.+.+
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~N------~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak 372 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDLN------MALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAK 372 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhheeccccc------chhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecc
Confidence 455566667777888999999999999999988755 8999999999999999999886 345666665543
No 220
>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=74.47 E-value=4.5 Score=31.69 Aligned_cols=63 Identities=22% Similarity=0.272 Sum_probs=46.6
Q ss_pred HHHHHHhhcCC-CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccCCCceEEEeecCCc
Q 012289 20 ERLKEYFSTYG-EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNIDGRMVEAKKAVPR 83 (466)
Q Consensus 20 eeL~~~F~~~G-~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i~Gr~I~V~~a~~~ 83 (466)
++|++-|...| +|.+|.-|+.+.+..+--.-||+.+...+..++ -....+.++.|+|++...+
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~i-~~Ik~l~~~~V~vE~~~k~ 65 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKEI-YKIKTLCGQRVKVERPRKR 65 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccce-eehHhhCCeEEEEecCCCC
Confidence 57888888887 588888888876777777888988876663333 3445588888988877654
No 221
>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=74.19 E-value=4 Score=38.37 Aligned_cols=58 Identities=9% Similarity=0.199 Sum_probs=40.5
Q ss_pred CHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCC--CC-CCCCCcccCCC
Q 012289 118 TESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVP--KE-LSPGPTRSPLG 181 (466)
Q Consensus 118 teedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~--~~-~~~~~~r~~~g 181 (466)
..+.|+++|..+..+..+.+++.- +-..|.|.++++|.+|+..++ .. +.+..+|+.++
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sF------rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~ 68 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSF------RRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFG 68 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTT------TEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE--
T ss_pred hHHHHHHHHHhcCCceEEEEcCCC------CEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEc
Confidence 457999999999999888887532 358999999999999999998 44 44445566443
No 222
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=70.30 E-value=4.8 Score=31.65 Aligned_cols=63 Identities=19% Similarity=0.222 Sum_probs=45.8
Q ss_pred HHHHHHhhcCC-CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccCCCceEEEeecCCc
Q 012289 20 ERLKEYFSTYG-EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNIDGRMVEAKKAVPR 83 (466)
Q Consensus 20 eeL~~~F~~~G-~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i~Gr~I~V~~a~~~ 83 (466)
++|++.|++.| +|..|.-|..+++..+--.-||+.....+-.. +-+++.+.++.|.|++...+
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~-Il~ik~Lg~~~V~VEr~~k~ 65 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE-ILNIKTLGGQRVTVERPHKR 65 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc-eEeehhhCCeeEEEecCccc
Confidence 57889998888 58889888888877666677888866544333 33445588888988876644
No 223
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=69.64 E-value=16 Score=36.33 Aligned_cols=36 Identities=28% Similarity=0.551 Sum_probs=28.3
Q ss_pred CcceeeecCCCCC------------CCHHHHHHHHhhcCCeeEEEEEe
Q 012289 104 RTRKIFVGGLAST------------VTESDFKKYFDQFGTITDVVVMY 139 (466)
Q Consensus 104 ~~~~LfV~nLp~~------------vteedLk~~F~~fG~I~~v~i~~ 139 (466)
...+||+.+||-. .+++.|+..|+.||.|..|+|+.
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 3457888877732 46789999999999999998864
No 224
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.19 E-value=18 Score=39.54 Aligned_cols=39 Identities=18% Similarity=0.486 Sum_probs=31.4
Q ss_pred CCCCCEEEEcCCCcc-CcHHHHHHHhhcC----CCeEEEEEeec
Q 012289 2 QSDNGKLFIGGISWD-TNEERLKEYFSTY----GEVVEAVIMKD 40 (466)
Q Consensus 2 ~~d~~~LfVgnLP~~-~teeeL~~~F~~~----G~V~~v~i~~d 40 (466)
+...++|-|-||.|+ +.-++|.-+|..| |.|.+|.|...
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpS 214 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPS 214 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechh
Confidence 356789999999997 5888999999877 57888877553
No 225
>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=68.49 E-value=6.9 Score=33.99 Aligned_cols=48 Identities=17% Similarity=0.262 Sum_probs=28.4
Q ss_pred EEEEcCCCccC---------cHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCH
Q 012289 7 KLFIGGISWDT---------NEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADP 57 (466)
Q Consensus 7 ~LfVgnLP~~~---------teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~ 57 (466)
.+.|-|+|.+. +-++|++.|+.|.+++ ++.+..+. -++++++|+|...
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~k-v~~l~~~~--gh~g~aiv~F~~~ 66 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLK-VKPLYGKQ--GHTGFAIVEFNKD 66 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SE-EEEEEETT--EEEEEEEEE--SS
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCce-eEECcCCC--CCcEEEEEEECCC
Confidence 46778887653 5678999999998774 66666653 5789999999653
No 226
>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=67.54 E-value=13 Score=32.38 Aligned_cols=44 Identities=11% Similarity=0.373 Sum_probs=26.2
Q ss_pred CHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecC-HHHHHHHH
Q 012289 118 TESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDS-EEAVDKVK 164 (466)
Q Consensus 118 teedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s-~e~A~~Ai 164 (466)
+-++|++.|..|.+++ |+.+.++. -.+++++|+|.. -.-...|+
T Consensus 30 ~~~~l~~~l~~f~p~k-v~~l~~~~--gh~g~aiv~F~~~w~Gf~~A~ 74 (116)
T PF03468_consen 30 SNEELLDKLAEFNPLK-VKPLYGKQ--GHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp -SHHHHHHHHH---SE-EEEEEETT--EEEEEEEEE--SSHHHHHHHH
T ss_pred CHHHHHHHHHhcCCce-eEECcCCC--CCcEEEEEEECCChHHHHHHH
Confidence 4578999999998874 66666653 568999999954 33333333
No 227
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=61.25 E-value=17 Score=36.46 Aligned_cols=62 Identities=18% Similarity=0.307 Sum_probs=50.4
Q ss_pred CCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecC-------CCCCcceEEEEEecCHHHHHH
Q 012289 101 GPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDH-------NTQRPRGFGFITYDSEEAVDK 162 (466)
Q Consensus 101 ~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~-------~tg~~rG~aFV~F~s~e~A~~ 162 (466)
..-++|.|...||..+++-..+-..|.+|++|+.|.++.+. +..+......+-|-+.+.+..
T Consensus 11 D~YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLd 79 (309)
T PF10567_consen 11 DEYRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLD 79 (309)
T ss_pred ccceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHH
Confidence 34578899999999999999999999999999999999876 112345778899988776654
No 228
>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=58.01 E-value=41 Score=26.20 Aligned_cols=48 Identities=25% Similarity=0.349 Sum_probs=36.9
Q ss_pred CCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCC
Q 012289 115 STVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKEL 171 (466)
Q Consensus 115 ~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~ 171 (466)
..++-++||..+.+|.-. +|..|+ .| -||.|.+.++|+++.++.+...
T Consensus 10 ~~~~v~d~K~~Lr~y~~~---~I~~d~-----tG-fYIvF~~~~Ea~rC~~~~~~~~ 57 (66)
T PF11767_consen 10 HGVTVEDFKKRLRKYRWD---RIRDDR-----TG-FYIVFNDSKEAERCFRAEDGTL 57 (66)
T ss_pred CCccHHHHHHHHhcCCcc---eEEecC-----CE-EEEEECChHHHHHHHHhcCCCE
Confidence 356788999999999743 344443 23 4899999999999999998764
No 229
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=56.78 E-value=10 Score=35.50 Aligned_cols=72 Identities=14% Similarity=0.186 Sum_probs=47.4
Q ss_pred CEEEEcCCCccC-----cHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc--CCCc-eEEE
Q 012289 6 GKLFIGGISWDT-----NEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN--IDGR-MVEA 77 (466)
Q Consensus 6 ~~LfVgnLP~~~-----teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~--i~Gr-~I~V 77 (466)
+.+++.+|+.++ .+...+.+|..|-+.....+++ +.++.-|.|.+++.|..|..++|. +.++ .+..
T Consensus 11 ~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lr------sfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~ 84 (193)
T KOG4019|consen 11 TAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLR------SFRRVRINFSNPEAAADARIKLHSTSFNGKNELKL 84 (193)
T ss_pred ceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHH------hhceeEEeccChhHHHHHHHHhhhcccCCCceEEE
Confidence 457778888765 2333455666666555444443 334566889999999999988876 7777 6666
Q ss_pred eecCCc
Q 012289 78 KKAVPR 83 (466)
Q Consensus 78 ~~a~~~ 83 (466)
-.+.+.
T Consensus 85 yfaQ~~ 90 (193)
T KOG4019|consen 85 YFAQPG 90 (193)
T ss_pred EEccCC
Confidence 555543
No 230
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=54.45 E-value=38 Score=27.75 Aligned_cols=55 Identities=11% Similarity=0.110 Sum_probs=40.1
Q ss_pred EEcCCCccCcHHHHHHHhhc-CC-CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHH
Q 012289 9 FIGGISWDTNEERLKEYFST-YG-EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQE 66 (466)
Q Consensus 9 fVgnLP~~~teeeL~~~F~~-~G-~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~ 66 (466)
|+=-++.+.++.+|++.+++ |+ +|..|..+..+. ..--|||.+..-++|.+...+
T Consensus 24 y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~~---~~KKA~V~L~~g~~A~~va~k 80 (84)
T PRK14548 24 LTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPK---GEKKAYVKLAEEYDAEEIASR 80 (84)
T ss_pred EEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCC---CcEEEEEEeCCCCcHHHHHHh
Confidence 33347789999999999987 44 577777766542 223599999998888877554
No 231
>PF00837 T4_deiodinase: Iodothyronine deiodinase; InterPro: IPR000643 Iodothyronine deiodinase (1.97.1.10 from EC) (DI) [] is the vertebrate enzyme responsible for the deiodination of the prohormone thyroxine (T4 or 3,5,3',5'-tetraiodothyronine) into the biologically active hormone T3 (3,5,3'-triiodothyronine) and of T3 into the inactive metabolite T2 (3,3'-diiodothyronine). All known DI are proteins of about 250 residues that contain a selenocysteine at their active site. Three types of DI are known, type II is essential for providing the brain with the appropriate levels of T3 during the critical period of development, and type III is essential for the regulation of thyroid hormone inactivation during embryological development.; GO: 0004800 thyroxine 5'-deiodinase activity, 0055114 oxidation-reduction process
Probab=51.56 E-value=4.6 Score=39.44 Aligned_cols=108 Identities=6% Similarity=0.110 Sum_probs=58.0
Q ss_pred cHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEE----EEeC---CHHHHHHHHHHhcc-CCCceEEEeecCCcchhhhh
Q 012289 18 NEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGF----VVFA---DPAVAEIVIQEKHN-IDGRMVEAKKAVPRDDQIVL 89 (466)
Q Consensus 18 teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaF----VeF~---~~e~A~~Al~~~~~-i~Gr~I~V~~a~~~~~~~~~ 89 (466)
.-++++++.++|..|.+..+++-++-..+.|++| +++. +.|+-.+|.+.+.+ ....+|.|+.-....... .
T Consensus 120 ~l~~f~~l~~~f~d~adFl~VYI~EAHpsDgW~~~~~~~~i~qh~sledR~~aA~~l~~~~~~~pi~vD~mdN~~~~~-Y 198 (237)
T PF00837_consen 120 KLDAFKRLVEDFSDVADFLIVYIEEAHPSDGWAFGNNPYEIPQHRSLEDRLRAAKLLKEEFPQCPIVVDTMDNNFNKA-Y 198 (237)
T ss_pred HHHHHHHHHHHhhhhhheehhhHhhhCcCCCccCCCCceeecCCCCHHHHHHHHHHHHhhCCCCCEEEEccCCHHHHH-h
Confidence 5677888899999888877776555444444443 4443 33443333333322 334455554322111100 0
Q ss_pred ccCCCCCCCCCCCCCcceeeecCC-CCCCCHHHHHHHHhhc
Q 012289 90 NRSSGSIHGSPGPGRTRKIFVGGL-ASTVTESDFKKYFDQF 129 (466)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~LfV~nL-p~~vteedLk~~F~~f 129 (466)
..-..+ --.-.+.+.+|+++. |+....+||++.++++
T Consensus 199 gA~PeR---lyIi~~gkv~Y~Gg~GP~~y~~~e~r~~L~~~ 236 (237)
T PF00837_consen 199 GALPER---LYIIQDGKVVYKGGPGPFGYSPEELREWLEKY 236 (237)
T ss_pred CCCcce---EEEEECCEEEEeCCCCCCcCCHHHHHHHHHhc
Confidence 000000 000124578888877 7778999999998875
No 232
>TIGR02515 IV_pilus_PilQ type IV pilus secretin (or competence protein) PilQ. A number of proteins homologous to PilQ are involved in type IV pilus formation, competence for transformation, type III secretion, and type II secretion (also called the main terminal branch of the general secretion pathway). Members of this family include PilQ itself, which is a component of the type IV pilus structure, from a number of species. In Haemophilus influenzae, the member of this family is associated with competence for transformation with exogenous DNA rather than with formation of a type IV pilus; the surface structure required for competence may be considered an unusual, incomplete type IV pilus structure.
Probab=51.17 E-value=15 Score=38.82 Aligned_cols=141 Identities=15% Similarity=0.103 Sum_probs=69.2
Q ss_pred cCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeC--CHHHHHHHHHHhcc----CCCceEEEeecCCcchhhhh
Q 012289 16 DTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFA--DPAVAEIVIQEKHN----IDGRMVEAKKAVPRDDQIVL 89 (466)
Q Consensus 16 ~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~--~~e~A~~Al~~~~~----i~Gr~I~V~~a~~~~~~~~~ 89 (466)
++.+.+|+++|+.+.+...+.|+.++.- .+..-+.|. +.++|-++|.+.+. +++..+.|..+.+.......
T Consensus 7 ~~~~~~l~dvL~~la~~~g~NiVi~~~V---~g~Vtl~~~~v~~~~al~~Il~~~gl~~~~~gnvi~V~~~~~~~~~~~~ 83 (418)
T TIGR02515 7 NFQDIPVRTVLQVIAEFTNLNIVVSDSV---QGNITLRLKNVPWDQALDIILKSKGLDKRRDGNIIYIAPLDELAAQEKD 83 (418)
T ss_pred EEeCCCHHHHHHHHHHHhCCeEEECCCC---cceEEEEEeCCCHHHHHHHHHHhCCCCEEEECCEEEEecHHHHHHHHHH
Confidence 4556678888877777777777766542 344555665 45566666655554 45677777654332111000
Q ss_pred ccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhc----CCe--eEEEEEecCCCCCcceEEEEEecCHHHHHHH
Q 012289 90 NRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQF----GTI--TDVVVMYDHNTQRPRGFGFITYDSEEAVDKV 163 (466)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~f----G~I--~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~A 163 (466)
............+...+.+.+.. .+-+++.+..+.+ ..+ ..-.|..|..+ -.+|...+++..+++
T Consensus 84 ~~~~~~~~~~~~~l~t~~f~l~y----~~a~~v~~~l~~~~~~~~~~l~~~~~v~~d~~~-----n~lvv~~~~~~~~~i 154 (418)
T TIGR02515 84 ELEAKKQIENLEPLQTELIQLNY----AKASDIAKVLTGDDGGKGSLLSPRGSVTVDPRT-----NTLIVTDIPENLARI 154 (418)
T ss_pred HHHHHhhhhhccCcEEEEEEEeC----CcHHHHHHHHhhcccccccccCCCeeEEEECCc-----CeEEEEeCHHHHHHH
Confidence 00000000011111222333332 4567777777654 111 12344455543 256666776666554
Q ss_pred HHHCC
Q 012289 164 KRAVP 168 (466)
Q Consensus 164 i~~l~ 168 (466)
.+.+.
T Consensus 155 ~~~i~ 159 (418)
T TIGR02515 155 RKLIA 159 (418)
T ss_pred HHHHH
Confidence 44333
No 233
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=50.04 E-value=94 Score=25.57 Aligned_cols=63 Identities=16% Similarity=0.114 Sum_probs=41.3
Q ss_pred cHHHHHHHhhcCC-CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccCCCceEEEeecCCcc
Q 012289 18 NEERLKEYFSTYG-EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNIDGRMVEAKKAVPRD 84 (466)
Q Consensus 18 teeeL~~~F~~~G-~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i~Gr~I~V~~a~~~~ 84 (466)
-++.++++++++| +|+++.+.. |+.--...+++.|.+.|.++.........-..+.-++.+.+
T Consensus 21 R~~a~~~~~e~~Gg~l~~~y~t~----G~yD~v~i~eaPD~~~a~~~~l~i~~~G~v~~et~~a~~~~ 84 (91)
T PF08734_consen 21 RAEAVRALIEALGGKLKSFYWTL----GEYDFVVIVEAPDDETAAAASLAIRSSGNVRTETLRAFPWD 84 (91)
T ss_pred HHHHHHHHHHHcCCEEEEEEEec----CCCCEEEEEEcCCHHHHHHHHHHHHcCCceEEEEEecCCHH
Confidence 3456778888876 677777765 44556788999999998887765544433333444444443
No 234
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.36 E-value=60 Score=34.03 Aligned_cols=66 Identities=12% Similarity=0.120 Sum_probs=50.9
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCC-eeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCc
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGT-ITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPT 176 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~-I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~ 176 (466)
-.+.|-|-++|.....|||-..|+.|+. =.+|..+.|. .||-.|.+...|..||.+-+-.+.-|++
T Consensus 390 lpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt~kh~~lKiRpL 456 (528)
T KOG4483|consen 390 LPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALTLKHDWLKIRPL 456 (528)
T ss_pred ccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhhccCceEEeeeh
Confidence 3568889999999999999999999964 4556666553 6999999999999999885554444443
No 235
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=48.10 E-value=38 Score=26.14 Aligned_cols=20 Identities=25% Similarity=0.605 Sum_probs=16.3
Q ss_pred HHHHHHHHhhcCCeeEEEEE
Q 012289 119 ESDFKKYFDQFGTITDVVVM 138 (466)
Q Consensus 119 eedLk~~F~~fG~I~~v~i~ 138 (466)
.++||++|++.|+|.-+.|-
T Consensus 8 ~~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 8 TAEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHHhcCcEEEEEEc
Confidence 36899999999999766653
No 236
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=48.07 E-value=20 Score=33.48 Aligned_cols=50 Identities=18% Similarity=0.139 Sum_probs=34.1
Q ss_pred cCcHHHHHHHhhcCCCeEEEEEeecCCC-CCcccEEEEEeCCHHHHHHHHHHh
Q 012289 16 DTNEERLKEYFSTYGEVVEAVIMKDRNT-GRARGFGFVVFADPAVAEIVIQEK 67 (466)
Q Consensus 16 ~~teeeL~~~F~~~G~V~~v~i~~d~~t-g~srGfaFVeF~~~e~A~~Al~~~ 67 (466)
+...++|.++-+ +++..|.+.+..+. ...+|-.||+|.+.+.|.+.++..
T Consensus 120 d~ql~~l~qw~~--~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~~~ 170 (205)
T KOG4213|consen 120 DDQLDDLNQWAS--GKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDDTH 170 (205)
T ss_pred HHHHHHHHHHhc--ccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhhhh
Confidence 333444444444 68888877554331 257899999999999999988753
No 237
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=47.59 E-value=75 Score=28.23 Aligned_cols=123 Identities=12% Similarity=0.054 Sum_probs=52.1
Q ss_pred CEEEEcCCC----ccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEE-eCCHHHHHHHHHH-hccCCCceEEEee
Q 012289 6 GKLFIGGIS----WDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVV-FADPAVAEIVIQE-KHNIDGRMVEAKK 79 (466)
Q Consensus 6 ~~LfVgnLP----~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVe-F~~~e~A~~Al~~-~~~i~Gr~I~V~~ 79 (466)
.-+++++|. ..+.-+|||++|++.| ..+|+..- .+ |-.+.+ =.++++.+..|++ +....+..+.|-.
T Consensus 4 yiaLLRGINVGG~nki~MaeLr~~l~~~G-f~~V~Tyi--~S----GNvvf~~~~~~~~l~~~ie~~l~~~fG~~v~v~v 76 (137)
T PF08002_consen 4 YIALLRGINVGGKNKIKMAELREALEDLG-FTNVRTYI--QS----GNVVFESDRDPAELAAKIEKALEERFGFDVPVIV 76 (137)
T ss_dssp EEEEESS-SBTTBS---HHHHHHHHHHCT--EEEEEET--TT----TEEEEEESS-HHHHHHHHHHHHHHH-TT---EEE
T ss_pred EEEEEcceecCCCCcccHHHHHHHHHHcC-CCCceEEE--ee----CCEEEecCCChHHHHHHHHHHHHHhcCCCeEEEE
Confidence 456788874 3478999999999997 45554322 22 333333 2233334444442 2333343344332
Q ss_pred cCCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEE
Q 012289 80 AVPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVM 138 (466)
Q Consensus 80 a~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~ 138 (466)
-...+-.......+.. .....+.++++|-=|....+.+.+.++-..-...+++.+.
T Consensus 77 rs~~el~~i~~~nPf~---~~~~~~~~~~~v~fl~~~~~~~~~~~l~~~~~~~E~~~~~ 132 (137)
T PF08002_consen 77 RSAEELRAIIAANPFP---WEAEADPKRLYVTFLSGPPDAEALEELAAYDTGPERFRVG 132 (137)
T ss_dssp EEHHHHHHHHTT--GG---GGS----SEEEEEEE-TT--HHHHHHHHTS---SEEEEE-
T ss_pred eeHHHHHHHHHHCCCc---ccccCCcceEEEEEeCCCCCHHHHHHHhccCCCCcEEEEe
Confidence 2211111111111100 0011245677777788888888888887665555666653
No 238
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=47.52 E-value=31 Score=34.51 Aligned_cols=47 Identities=17% Similarity=0.110 Sum_probs=35.1
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCH
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADP 57 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~ 57 (466)
+-|+|+|||.++.-.||+..+.+.+-+. ..|.. .-+++-||+.|.+.
T Consensus 331 ~di~~~nl~rd~rv~dlk~~lr~~~~~p-m~isw----kg~~~k~flh~~~~ 377 (396)
T KOG4410|consen 331 TDIKLTNLSRDIRVKDLKSELRKRECTP-MSISW----KGHFGKCFLHFGNR 377 (396)
T ss_pred cceeeccCccccchHHHHHHHHhcCCCc-eeEee----ecCCcceeEecCCc
Confidence 4599999999999999999998875432 23333 23567899999764
No 239
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=47.20 E-value=12 Score=37.09 Aligned_cols=35 Identities=26% Similarity=0.493 Sum_probs=28.5
Q ss_pred CCEEEEcCCCccC------------cHHHHHHHhhcCCCeEEEEEee
Q 012289 5 NGKLFIGGISWDT------------NEERLKEYFSTYGEVVEAVIMK 39 (466)
Q Consensus 5 ~~~LfVgnLP~~~------------teeeL~~~F~~~G~V~~v~i~~ 39 (466)
..+|++..||-.| +|+.|+..|+.||+|..|.|+.
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipi 195 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPI 195 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcc
Confidence 3578888888543 7889999999999999988743
No 240
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=47.18 E-value=37 Score=26.21 Aligned_cols=19 Identities=21% Similarity=0.599 Sum_probs=15.6
Q ss_pred HHHHHHHhhcCCCeEEEEE
Q 012289 19 EERLKEYFSTYGEVVEAVI 37 (466)
Q Consensus 19 eeeL~~~F~~~G~V~~v~i 37 (466)
.++||++|+.+|+|.-+.|
T Consensus 8 ~~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 8 TAEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHHhcCcEEEEEE
Confidence 3689999999999876555
No 241
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=46.37 E-value=14 Score=35.87 Aligned_cols=35 Identities=29% Similarity=0.434 Sum_probs=29.9
Q ss_pred CCCCCCEEEEcCCCccCcHHHHHHHhhcCCCeEEE
Q 012289 1 MQSDNGKLFIGGISWDTNEERLKEYFSTYGEVVEA 35 (466)
Q Consensus 1 m~~d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v 35 (466)
|..+...||+-|||..++++.|+++...+|.|..+
T Consensus 36 ~~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 36 NSNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred ccccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 45677889999999999999999999999865443
No 242
>PF14893 PNMA: PNMA
Probab=42.61 E-value=22 Score=36.59 Aligned_cols=24 Identities=25% Similarity=0.390 Sum_probs=21.0
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhc
Q 012289 5 NGKLFIGGISWDTNEERLKEYFST 28 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~ 28 (466)
.+.|.|.+||.+|+++||++.+..
T Consensus 18 ~r~lLv~giP~dc~~~ei~e~l~~ 41 (331)
T PF14893_consen 18 QRALLVLGIPEDCEEAEIEEALQA 41 (331)
T ss_pred hhhheeecCCCCCCHHHHHHHHHH
Confidence 567899999999999999988754
No 243
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=41.99 E-value=1.8e+02 Score=23.20 Aligned_cols=58 Identities=14% Similarity=0.152 Sum_probs=40.5
Q ss_pred eeecCCCCCCCHHHHHHHHhh-------cCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHC
Q 012289 108 IFVGGLASTVTESDFKKYFDQ-------FGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAV 167 (466)
Q Consensus 108 LfV~nLp~~vteedLk~~F~~-------fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l 167 (466)
|..++||..+|.++|.+...+ +..|.-++-..+++.+ |-||+.+=.|+|++.++-+.-
T Consensus 3 mver~~p~~it~e~l~~~~~~~~~~~~~~~~V~w~~s~v~~d~~--k~~Cly~Ap~~eaV~~~~~~a 67 (77)
T PF14026_consen 3 MVERDFPGGITAEDLAAAHAKSCAVQAEMPGVQWLRSYVSEDDG--KIFCLYEAPDEEAVREHARRA 67 (77)
T ss_pred EEEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeEEEEEEEecCCC--eEEEEEECCCHHHHHHHHHHc
Confidence 556789998999998877653 3455555555554322 567777778999998887765
No 244
>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=39.26 E-value=76 Score=25.52 Aligned_cols=56 Identities=11% Similarity=0.115 Sum_probs=39.8
Q ss_pred EEEcCCCccCcHHHHHHHhhc-CC-CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHH
Q 012289 8 LFIGGISWDTNEERLKEYFST-YG-EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQE 66 (466)
Q Consensus 8 LfVgnLP~~~teeeL~~~F~~-~G-~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~ 66 (466)
-|+-.++.+.++.||++.+++ |+ +|..|..+..+. ..--|||.+..-+.|.+.-.+
T Consensus 16 ~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~---~~KKA~VtL~~g~~a~~va~k 73 (77)
T TIGR03636 16 KLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPR---GEKKAYVKLAEEYAAEEIASR 73 (77)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCC---CceEEEEEECCCCcHHHHHHh
Confidence 344457889999999999987 44 577777666542 223599999888887775543
No 245
>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=38.94 E-value=16 Score=30.22 Aligned_cols=25 Identities=20% Similarity=0.369 Sum_probs=21.4
Q ss_pred CCCCEEEEcCCCccCcHHHHHHHhh
Q 012289 3 SDNGKLFIGGISWDTNEERLKEYFS 27 (466)
Q Consensus 3 ~d~~~LfVgnLP~~~teeeL~~~F~ 27 (466)
...++|.|.+||...+||+|+|.++
T Consensus 50 vs~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 50 VSKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred ccCCEEEEeCCCCCCChhhheeeEE
Confidence 4578999999999999999997654
No 246
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=38.49 E-value=11 Score=39.19 Aligned_cols=61 Identities=16% Similarity=0.116 Sum_probs=49.7
Q ss_pred CCEEEEcCCCccCcHH--------HHHHHhhc--CCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHH
Q 012289 5 NGKLFIGGISWDTNEE--------RLKEYFST--YGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQ 65 (466)
Q Consensus 5 ~~~LfVgnLP~~~tee--------eL~~~F~~--~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~ 65 (466)
.+.+|+.++..+...+ +|...|.. .+++..|.+.++.....++|-.|++|+..+.|++++.
T Consensus 174 qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 174 QRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hhhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 4567777777766554 89999988 6778888888876557789999999999999999995
No 247
>PTZ00237 acetyl-CoA synthetase; Provisional
Probab=38.38 E-value=3.7e+02 Score=29.83 Aligned_cols=41 Identities=10% Similarity=0.037 Sum_probs=29.6
Q ss_pred ccCcHHHHHHHhhcCCCeEEEEEeecCCC-CCcccEEEEEeC
Q 012289 15 WDTNEERLKEYFSTYGEVVEAVIMKDRNT-GRARGFGFVVFA 55 (466)
Q Consensus 15 ~~~teeeL~~~F~~~G~V~~v~i~~d~~t-g~srGfaFVeF~ 55 (466)
..+.-.||++.+.++..|.++.++-.++. ....-.+||...
T Consensus 523 ~rI~p~eIE~~l~~~p~V~eaavvg~~~~~~g~~~~a~Vv~~ 564 (647)
T PTZ00237 523 NKVQLNTIETSILKHPLVLECCSIGIYDPDCYNVPIGLLVLK 564 (647)
T ss_pred EEeCHHHHHHHHHhCCCceeeEEEeeEcCCCCCEEEEEEEec
Confidence 46789999999999988998877544321 123457888876
No 248
>COG3048 DsdA D-serine dehydratase [Amino acid transport and metabolism]
Probab=38.29 E-value=54 Score=33.45 Aligned_cols=29 Identities=34% Similarity=0.666 Sum_probs=22.1
Q ss_pred CCcceeeecCCCCCCCHHHHHHHHhhcCCeeE
Q 012289 103 GRTRKIFVGGLASTVTESDFKKYFDQFGTITD 134 (466)
Q Consensus 103 ~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~ 134 (466)
..+++||++ +.|..+.||+.|.+-+.+++
T Consensus 239 E~S~~LFLG---YaVAa~Rlk~Q~d~~gi~vd 267 (443)
T COG3048 239 ENSRTLFLG---YAVAAQRLKKQFDEQGIVVD 267 (443)
T ss_pred cchhhhhhh---HHHHHHHHHHHHHhcCceec
Confidence 456677754 67888999999998887655
No 249
>PRK08279 long-chain-acyl-CoA synthetase; Validated
Probab=37.81 E-value=2.3e+02 Score=30.80 Aligned_cols=117 Identities=16% Similarity=0.134 Sum_probs=62.9
Q ss_pred ccCcHHHHHHHhhcCCCeEEEEEee--cCCCCCcccEEEEEeCC-HH-HHHHHHHHhccCCCceEEEeecCCcchhhhhc
Q 012289 15 WDTNEERLKEYFSTYGEVVEAVIMK--DRNTGRARGFGFVVFAD-PA-VAEIVIQEKHNIDGRMVEAKKAVPRDDQIVLN 90 (466)
Q Consensus 15 ~~~teeeL~~~F~~~G~V~~v~i~~--d~~tg~srGfaFVeF~~-~e-~A~~Al~~~~~i~Gr~I~V~~a~~~~~~~~~~ 90 (466)
..+.-+||++.+.++..|.++.++- ++........++|...+ .+ +.++..+.+.. .+
T Consensus 470 ~~i~p~eIE~~l~~~p~V~~a~v~gv~~~~~~~~~~~~~vv~~~~~~~~~~~l~~~l~~----~L--------------- 530 (600)
T PRK08279 470 ENVATTEVENALSGFPGVEEAVVYGVEVPGTDGRAGMAAIVLADGAEFDLAALAAHLYE----RL--------------- 530 (600)
T ss_pred cccCHHHHHHHHhcCCCcceEEEEEeecCCCCCccceeEEEecCCccCCHHHHHHHHHh----hC---------------
Confidence 3578899999999998898887643 22222234566666542 11 11111111110 00
Q ss_pred cCCCCCCCCCCCCCcceeeecCCCCC----CCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHH
Q 012289 91 RSSGSIHGSPGPGRTRKIFVGGLAST----VTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKV 163 (466)
Q Consensus 91 ~~~~~~~~~~~~~~~~~LfV~nLp~~----vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~A 163 (466)
.....+...++|..||.+ +...+|++.+...-.|..+..+.|+.. -+.+...++-.|+-+
T Consensus 531 --------~~~~~P~~i~~v~~lP~t~~GKi~r~~L~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~ 594 (600)
T PRK08279 531 --------PAYAVPLFVRLVPELETTGTFKYRKVDLRKEGFDPSKVDDPLYVLDPGS-----GGYVPLTAELYAEIA 594 (600)
T ss_pred --------ccccCCeEEEeecCCCCCcchhhhHHHHhhcCCCccccCCeeEEEecCC-----CceEecCHHHHHHHh
Confidence 001113445666677765 456777776665555666666666542 245566665555543
No 250
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=37.74 E-value=6.3 Score=42.62 Aligned_cols=66 Identities=5% Similarity=0.094 Sum_probs=51.5
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPK 169 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~ 169 (466)
.++.|||.|++++++-++|..+++.+--+.++-+-.+....+...+..|+|+---.+..|+.+|++
T Consensus 230 ke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~ 295 (648)
T KOG2295|consen 230 KECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNG 295 (648)
T ss_pred HHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhh
Confidence 467899999999999999999999987777776655544455667889999776666666666665
No 251
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=37.18 E-value=1.5e+02 Score=21.71 Aligned_cols=56 Identities=16% Similarity=0.198 Sum_probs=40.6
Q ss_pred eeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCH----HHHHHHHHHCC
Q 012289 107 KIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSE----EAVDKVKRAVP 168 (466)
Q Consensus 107 ~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~----e~A~~Ai~~l~ 168 (466)
+|.|.+|.=.--...|++.+.+.-.|..+.+-.. ...+-|+|+.. +++.++|+++.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~------~~~v~v~~~~~~~~~~~i~~~i~~~G 60 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLE------TKTVTVTYDPDKTSIEKIIEAIEKAG 60 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETT------TTEEEEEESTTTSCHHHHHHHHHHTT
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECC------CCEEEEEEecCCCCHHHHHHHHHHhC
Confidence 3556666655567889999999988988888544 34788898643 67777777654
No 252
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=36.13 E-value=97 Score=28.05 Aligned_cols=56 Identities=20% Similarity=0.293 Sum_probs=36.9
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhc-CC-CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHH
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFST-YG-EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVI 64 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~-~G-~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al 64 (466)
+++-+|+ ++...++.||++.+++ |+ +|..|..+..+. + .--|||.+....+|.+..
T Consensus 82 ~N~yvF~--Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p~-g--~KKA~V~L~~~~~aidva 139 (145)
T PTZ00191 82 NNTLVFI--VDQRANKTQIKKAVEKLYDVKVVKVNTLITPD-G--LKKAYIRLSPDVDALDVA 139 (145)
T ss_pred CCEEEEE--EcCCCCHHHHHHHHHHHhCCeeEEEEeEEcCC-C--ceEEEEEECCCCcHHHHH
Confidence 3455555 6678999999999987 44 466676655443 1 125999997766655443
No 253
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=36.11 E-value=1.2e+02 Score=24.81 Aligned_cols=56 Identities=11% Similarity=0.231 Sum_probs=40.9
Q ss_pred eecCCCCCCCHHHHHHHHhh-cC-CeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHC
Q 012289 109 FVGGLASTVTESDFKKYFDQ-FG-TITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAV 167 (466)
Q Consensus 109 fV~nLp~~vteedLk~~F~~-fG-~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l 167 (466)
|+--++..++..+|++.+++ |+ .|.+|..+.-+ ...--|+|++...++|..+...+
T Consensus 24 y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~---~~~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 24 LTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP---KGEKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred EEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCcEEEEEEeCCCCcHHHHHHhh
Confidence 34456889999999999988 45 57777766543 23457999998888887776554
No 254
>KOG1175 consensus Acyl-CoA synthetase [Lipid transport and metabolism]
Probab=35.89 E-value=56 Score=36.54 Aligned_cols=115 Identities=13% Similarity=0.158 Sum_probs=67.3
Q ss_pred CcHHHHHHHhhcCCCeEEEEEeecCC-CCCcccEEEEEeCCHHHHHHHHH-HhccCCCceEEEeecCCcchhhhhccCCC
Q 012289 17 TNEERLKEYFSTYGEVVEAVIMKDRN-TGRARGFGFVVFADPAVAEIVIQ-EKHNIDGRMVEAKKAVPRDDQIVLNRSSG 94 (466)
Q Consensus 17 ~teeeL~~~F~~~G~V~~v~i~~d~~-tg~srGfaFVeF~~~e~A~~Al~-~~~~i~Gr~I~V~~a~~~~~~~~~~~~~~ 94 (466)
+...||+.....+..|.++-++-.++ ..-..-+|||.+++.......|+ ++... |+..
T Consensus 508 igtaEIE~al~~hp~VaEsAvVg~p~~~~ge~v~aFvvl~~g~~~~~~L~kel~~~------VR~~-------------- 567 (626)
T KOG1175|consen 508 IGTAEIESALVEHPAVAESAVVGSPDPIKGEVVLAFVVLKSGSHDPEQLTKELVKH------VRSV-------------- 567 (626)
T ss_pred ecHHHHHHHHhhCcchhheeeecCCCCCCCeEEEEEEEEcCCCCChHHHHHHHHHH------HHhh--------------
Confidence 47889999999999998877654432 22234479999977544433333 21110 0000
Q ss_pred CCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHC
Q 012289 95 SIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAV 167 (466)
Q Consensus 95 ~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l 167 (466)
-.+-..+.+.++|.+||++.+-..+|....+.=.=+. +.|. -+++|++..+..++..
T Consensus 568 ---igp~a~P~~I~~v~~LPkTrSGKimRr~lrki~~g~~---~~d~----------st~~dp~v~~~~~~~~ 624 (626)
T KOG1175|consen 568 ---IGPYAVPRLIVFVPGLPKTRSGKIMRRALRKIASGKA---VGDT----------STLADPSVIDHLRSIL 624 (626)
T ss_pred ---cCcccccceeEecCCCCccccchhHHHHHHHHhccCc---cccc----------cccCChHHHHHHHHhh
Confidence 0112234568899999999988777777765411111 1111 1456777777666554
No 255
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=35.72 E-value=99 Score=27.96 Aligned_cols=63 Identities=11% Similarity=0.151 Sum_probs=40.5
Q ss_pred CCCCCCEEEEcCCCccCcHHHHHHHhhc----CC-CeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhcc
Q 012289 1 MQSDNGKLFIGGISWDTNEERLKEYFST----YG-EVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 1 m~~d~~~LfVgnLP~~~teeeL~~~F~~----~G-~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~ 69 (466)
|+.++++.||-..-.. .|+.+++.+.+ .+ +|.+|.++.. .+||.||+....+++..+++....
T Consensus 1 ~~~~~~~WYvv~t~sG-~E~~V~~~L~~~~~~~~~~i~~i~vp~~-----fpGYVfVe~~~~~~~~~~i~~v~~ 68 (153)
T PRK08559 1 MKPEMSMIFAVKTTAG-QERNVALMLAMRAKKENLPIYAILAPPE-----LKGYVLVEAESKGAVEEAIRGIPH 68 (153)
T ss_pred CCCCCCcEEEEEeECC-hHHHHHHHHHHHHHhCCCcEEEEEccCC-----CCcEEEEEEEChHHHHHHHhcCCC
Confidence 6777788887644222 35555555433 22 2555554442 689999999988888999876543
No 256
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=35.72 E-value=20 Score=37.47 Aligned_cols=62 Identities=13% Similarity=0.236 Sum_probs=50.1
Q ss_pred CcceeeecCCCCCCCH--------HHHHHHHhh--cCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHH
Q 012289 104 RTRKIFVGGLASTVTE--------SDFKKYFDQ--FGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKR 165 (466)
Q Consensus 104 ~~~~LfV~nLp~~vte--------edLk~~F~~--fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~ 165 (466)
..+.+|+.++....+. ++|+.+|.. ++++..|..-+|......+|..|++|...+.+++.+.
T Consensus 173 ~qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 173 MQRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred HhhhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 3466777777766554 499999988 6778888888887667889999999999999999884
No 257
>PF11411 DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536 DNA ligase IV along with Xrcc4 functions in DNA non-homologous end joining. This process is required to mend double-strand breaks. Upon ligase binding to an Xrcc4 dimer, the helical tails unwind leading to a flat interaction surface []. ; GO: 0003910 DNA ligase (ATP) activity; PDB: 3II6_Y 2E2W_A 1IK9_C.
Probab=34.17 E-value=28 Score=23.85 Aligned_cols=16 Identities=44% Similarity=0.630 Sum_probs=10.6
Q ss_pred ccCcHHHHHHHhhcCC
Q 012289 15 WDTNEERLKEYFSTYG 30 (466)
Q Consensus 15 ~~~teeeL~~~F~~~G 30 (466)
.++++++|+++|.++.
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 3689999999999764
No 258
>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=33.32 E-value=1.5e+02 Score=23.80 Aligned_cols=57 Identities=12% Similarity=0.217 Sum_probs=40.1
Q ss_pred eeecCCCCCCCHHHHHHHHhh-cC-CeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHC
Q 012289 108 IFVGGLASTVTESDFKKYFDQ-FG-TITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAV 167 (466)
Q Consensus 108 LfV~nLp~~vteedLk~~F~~-fG-~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l 167 (466)
-|+-.++..++..||++.+++ |+ .|..|..+.-+. ..--|||++...+.|..+-.++
T Consensus 16 ~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~---~~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 16 KLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPR---GEKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCC---CceEEEEEECCCCcHHHHHHhh
Confidence 345567889999999999988 44 466776655432 2346999998877776655443
No 259
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=32.90 E-value=1.6e+02 Score=25.98 Aligned_cols=52 Identities=19% Similarity=0.172 Sum_probs=38.9
Q ss_pred CCHHHHHHHHhhcCC-eeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCCc
Q 012289 117 VTESDFKKYFDQFGT-ITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGPT 176 (466)
Q Consensus 117 vteedLk~~F~~fG~-I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~~ 176 (466)
.+.+++++..++-+. ++.+.... ....|+|+++|+-.+|++.+...+....+
T Consensus 50 ~~~~~v~~~L~~~gI~~ksi~~~~--------~~~~irf~~~~~Ql~Ak~vL~~~L~~~y~ 102 (127)
T PRK10629 50 PDGFYVYQHLDANGIHIKSITPEN--------DSLLIRFDSPEQSAAAKEVLDRTLPHGYI 102 (127)
T ss_pred chHHHHHHHHHHCCCCcceEEeeC--------CEEEEEECCHHHHHHHHHHHHHHcCCCCE
Confidence 566788888888774 55554432 26899999999999999999888766543
No 260
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=32.88 E-value=1.3e+02 Score=32.43 Aligned_cols=59 Identities=24% Similarity=0.438 Sum_probs=36.0
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcC---CCeEEEEEeecCCCCCcccEEEEE-eCCHHHHHHHHHH
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTY---GEVVEAVIMKDRNTGRARGFGFVV-FADPAVAEIVIQE 66 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~---G~V~~v~i~~d~~tg~srGfaFVe-F~~~e~A~~Al~~ 66 (466)
++|.|..||+.++.+++++...+. +++..|.=++|..+ + .++.||. ++....++..+..
T Consensus 226 ~~i~ItElP~~~~~~~~~e~i~~l~~~~k~~~I~~~~D~s~-~-~~vrivI~lk~~~~~~~~~~~ 288 (445)
T cd00187 226 NTIEITELPYQVNKAKLKEKIAELVKDKKIEGISDVRDESD-R-EGIRFVIELKRGAMAEVVLNG 288 (445)
T ss_pred ceEEEEeCCCcccHHHHHHHHHHHHhcCCCcccceeeeccC-C-CceEEEEEECCCccHHHHHHH
Confidence 689999999999999988876432 23333333444322 2 2677754 5555555554443
No 261
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=32.74 E-value=3.6e+02 Score=29.29 Aligned_cols=50 Identities=14% Similarity=0.087 Sum_probs=36.2
Q ss_pred cHHHHHHHhh----cCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhc
Q 012289 18 NEERLKEYFS----TYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKH 68 (466)
Q Consensus 18 teeeL~~~F~----~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~ 68 (466)
+.-+|..+|. .+|-|+++.|...+. -+.+...++.|.+.++|.+++.++.
T Consensus 202 ~g~dl~~l~~Gs~GtlGIIt~atlkl~p~-p~~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 202 PGFDLLALFTGSEGMLGVVTEVTVKLLPK-PPVARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred CccchHhhhccCCCccEEEEEEEEEEEcC-CcceEEEEEECCCHHHHHHHHHHHH
Confidence 3457777775 578888888765543 2345577889999999999988653
No 262
>PF09869 DUF2096: Uncharacterized protein conserved in archaea (DUF2096); InterPro: IPR017098 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=32.42 E-value=2e+02 Score=26.68 Aligned_cols=52 Identities=15% Similarity=0.202 Sum_probs=40.2
Q ss_pred cceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHC
Q 012289 105 TRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAV 167 (466)
Q Consensus 105 ~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l 167 (466)
...+.| +|+..+.+|.|+++.+=+|.|... .+. .-.+.|-+.+..++|++.+
T Consensus 112 ~~~iRv-~l~~~i~~erl~ei~E~~gvI~Ef---ee~-------~~V~I~Gdke~Ik~aLKe~ 163 (169)
T PF09869_consen 112 FETIRV-KLKKPIQEERLQEISEWHGVIFEF---EED-------DKVVIEGDKERIKKALKEF 163 (169)
T ss_pred ceeEEE-ecCccchHHHHHHHHHHhceeEEe---cCC-------cEEEEeccHHHHHHHHHHH
Confidence 334445 799999999999999999988665 221 2377889999999999865
No 263
>PF07876 Dabb: Stress responsive A/B Barrel Domain; InterPro: IPR013097 The stress-response A/B barrel domain is found in a class of stress-response proteins in plants. It is also found in some bacterial fructose-bisphosphate aldolase such as at the C terminus of a fructose 1,6-bisphosphate aldolase from Hydrogenophilus thermoluteolus (Q9ZA13 from SWISSPROT) []. Q93NG5 from SWISSPROT is found in the pA01 plasmid, which encodes genes for molybdopterin uptake and degradation of plant alkaloid nicotine. The stress-response A/B barrel domain forms a very stable dimer. This dimer belongs to the superfamily of dimeric alpha+beta barrels in which the two beta-sheets form a beta-barrel. The two molecules in the dimer are related by a 2-fold axis parallel to helix H1 and beta-strands B3 and B4. C-terminal residues extending from the beta4 strand of each monomer wrap around and connect with the beta2 strand and alpha1 helix of the opposing monomer to form the dimer interface [, , ].The outer surface of the beta-sheets of the two molecules forms a beta-barrel-like structure defining a central pore. The function of the stress-response A/B barrel domain is unknown [, , ], but it is upregulated in response to salt stress in Populus balsamifera (balsam poplar) []. Some proteins known to contain a stress response A/B barrel domain are listed below: - Arabidopsis thaliana At3g17210 - Arabidopsis thaliana At5g22580 -Populus tremula stable protein 1 (SP-1)(Populus species), a thermostable stress-responsive protein. - Pseudomonas hydrogenothermophila fructose 1,6-bisphosphate aldolase (cbbA). The structure of one of these proteins has been solved (Q9LUV2 from SWISSPROT) and the domain forms an alpha-beta barrel dimer [].; PDB: 3BB5_E 3FMB_A 3BDE_B 2QYC_A 1Q53_B 2Q3P_A 1Q4R_A 3BN7_A 3BGU_B 1RJJ_B ....
Probab=32.34 E-value=2.1e+02 Score=22.84 Aligned_cols=52 Identities=19% Similarity=0.243 Sum_probs=34.1
Q ss_pred cCCCCCCCHHHHHHHHh-------hcCCeeEEEEEecCCCCC-cc---eEEEEEecCHHHHHH
Q 012289 111 GGLASTVTESDFKKYFD-------QFGTITDVVVMYDHNTQR-PR---GFGFITYDSEEAVDK 162 (466)
Q Consensus 111 ~nLp~~vteedLk~~F~-------~fG~I~~v~i~~d~~tg~-~r---G~aFV~F~s~e~A~~ 162 (466)
-.|.+.+++++++++.+ +...|+.+.+-++..... .+ -.-+++|++.++.++
T Consensus 7 fklk~~~~~~~~~~~~~~l~~l~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~~~l~~ 69 (97)
T PF07876_consen 7 FKLKPDATEEEIEEVLEALRALKDKIPGIVSFEVGRNFSPEDLAKGYDHALVSTFESEEDLDA 69 (97)
T ss_dssp EEESTTTCHHHHHHHHHHHHHHHHHSTTECEEEEEEESSTSSTSTT-SEEEEEEESSHHHHHH
T ss_pred EEECCCCCHHHHHHHHHHHHhcccCCCceEEEEEEcccCcccccCCCcEEEEEEECCHHHHHH
Confidence 35788888887755443 456688888876654332 12 234568899988876
No 264
>COG4874 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]
Probab=32.06 E-value=1.6e+02 Score=29.10 Aligned_cols=30 Identities=23% Similarity=0.385 Sum_probs=22.1
Q ss_pred CCCCCCEEEEcCCCccCcHHHHHHHhhcCCC
Q 012289 1 MQSDNGKLFIGGISWDTNEERLKEYFSTYGE 31 (466)
Q Consensus 1 m~~d~~~LfVgnLP~~~teeeL~~~F~~~G~ 31 (466)
|+...+++|++ |+..++++-|+-|.+++|-
T Consensus 154 ~Dh~nr~aY~~-lS~Rad~~lLe~fc~~~gy 183 (318)
T COG4874 154 MDHPNRTAYAG-LSQRADRELLEVFCEQIGY 183 (318)
T ss_pred ecccchhhhhh-hhcccCHHHHHHHHHHcCC
Confidence 45566777775 8888888877777787763
No 265
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=31.76 E-value=1.3e+02 Score=31.81 Aligned_cols=36 Identities=22% Similarity=0.526 Sum_probs=28.1
Q ss_pred CCCEEEEcCCCcc-CcHHHHHHHhhcC----CCeEEEEEee
Q 012289 4 DNGKLFIGGISWD-TNEERLKEYFSTY----GEVVEAVIMK 39 (466)
Q Consensus 4 d~~~LfVgnLP~~-~teeeL~~~F~~~----G~V~~v~i~~ 39 (466)
...+|-|-||.|+ +..++|..+|+.| |+|..|.|..
T Consensus 145 ~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iyp 185 (622)
T COG5638 145 PTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYP 185 (622)
T ss_pred cccceeEeecccccchHHHHHHHHHhhCCCCCccceeEech
Confidence 4678899999997 6888999999877 5677776654
No 266
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=31.75 E-value=1.5e+02 Score=24.66 Aligned_cols=63 Identities=13% Similarity=0.207 Sum_probs=37.3
Q ss_pred CCccCcHHHHHHHhhcC--------CCeEEEEEeec-----CCCCCccc-EEEEEeCCHHHHHHHHHHhccCCCceE
Q 012289 13 ISWDTNEERLKEYFSTY--------GEVVEAVIMKD-----RNTGRARG-FGFVVFADPAVAEIVIQEKHNIDGRMV 75 (466)
Q Consensus 13 LP~~~teeeL~~~F~~~--------G~V~~v~i~~d-----~~tg~srG-faFVeF~~~e~A~~Al~~~~~i~Gr~I 75 (466)
|.++++++++.++.+++ |+|.++...-. +-.+..+| |.++.|.-+.++-+.++..-.++...|
T Consensus 14 l~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~eler~lri~e~Vl 90 (97)
T CHL00123 14 LKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLEKALKLDENVL 90 (97)
T ss_pred ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHHHHhCCCCCeE
Confidence 56677787777665554 46666552111 11245566 577889877777777775444554444
No 267
>KOG2014 consensus SMT3/SUMO-activating complex, AOS1/RAD31 component [Posttranslational modification, protein turnover, chaperones]
Probab=31.23 E-value=53 Score=33.36 Aligned_cols=62 Identities=16% Similarity=0.234 Sum_probs=36.3
Q ss_pred cCCCCCCCHHHHHHHHhhcCCeeE-EEEEecCCCCCcceEEEEEecCHHH------HHHHHHHCCCCCCC
Q 012289 111 GGLASTVTESDFKKYFDQFGTITD-VVVMYDHNTQRPRGFGFITYDSEEA------VDKVKRAVPKELSP 173 (466)
Q Consensus 111 ~nLp~~vteedLk~~F~~fG~I~~-v~i~~d~~tg~~rG~aFV~F~s~e~------A~~Ai~~l~~~~~~ 173 (466)
++.|-.++++||+.+..---++.. ..|+.|.-- +.-...|.+|.-..+ |+.||+.+.+...+
T Consensus 241 ~r~pg~~~~~d~erl~~I~~ell~s~~i~pd~~~-~f~~~~~~ef~Pv~AvVGGivaQevIk~isk~~~P 309 (331)
T KOG2014|consen 241 GRDPGETSEEDLERLLQIRNELLESETIIPDELL-EFLSLIFTEFAPVCAVVGGILAQEVIKAISKKGPP 309 (331)
T ss_pred CCCCccccHHHHHHHHHHHHhhccccccCCchHH-HHHHhcccccCchhhhhhhHhHHHHHHHhhcCCCc
Confidence 466777899888877754333332 555554332 233456677755443 46677777766544
No 268
>PF04278 Tic22: Tic22-like family; InterPro: IPR007378 Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accompished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex loacted at the inner membrane []. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic22, a core member of the Tic complex. It is believed to act as a link between both protein complexes, contacting the translocated protein in the intermembrane space after transport through the Toc complex, and directing it to the Tic complex [].; PDB: 4EV1_A.
Probab=29.60 E-value=4.9e+02 Score=25.98 Aligned_cols=139 Identities=8% Similarity=0.037 Sum_probs=62.1
Q ss_pred CcHHHHHHHhhcCCCeEEEEEeecC----------CCCCcccEEEEEeCCHHHHHHHHHHhccCC---CceEEEeecCCc
Q 012289 17 TNEERLKEYFSTYGEVVEAVIMKDR----------NTGRARGFGFVVFADPAVAEIVIQEKHNID---GRMVEAKKAVPR 83 (466)
Q Consensus 17 ~teeeL~~~F~~~G~V~~v~i~~d~----------~tg~srGfaFVeF~~~e~A~~Al~~~~~i~---Gr~I~V~~a~~~ 83 (466)
.++++|.+.+... + |.++.|. +.+ .+. ....|-++++|+++++++...+ ...++|....-.
T Consensus 63 L~~~~V~~kL~~V-P---VF~itn~~G~p~l~~~~~~~-~~~-v~~~F~s~~dA~~~L~~lk~~~p~~~~~~kV~pvsL~ 136 (274)
T PF04278_consen 63 LPEEEVEEKLAGV-P---VFTITNSQGEPVLVSGPDQG-GKS-VGLFFFSQQDAEAFLAQLKKSNPELASGAKVVPVSLG 136 (274)
T ss_dssp --HHHHHHHHTTS-E---EEEEE-TT--B-----TTS---SE-EEEEES-HHHHHHHHHHHHH-SSHHHTT-EEEEEEHH
T ss_pred CCHHHHHHHhcCc-e---EEEEECCCCCEEEeccCCCC-Cce-EEEEEecHHHHHHHHHHHhhhCccccCceEEEEecHH
Confidence 4789999988865 2 2222221 111 233 3456779999999998765432 233344332211
Q ss_pred chhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHHHHHHHhhcCCe-e-----EEEEEec----CCCCCcceEEEEE
Q 012289 84 DDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESDFKKYFDQFGTI-T-----DVVVMYD----HNTQRPRGFGFIT 153 (466)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteedLk~~F~~fG~I-~-----~v~i~~d----~~tg~~rG~aFV~ 153 (466)
.-.+...... .....|...=+|.....+.-++++++-|.- . -|-+.+. -...+...-..-.
T Consensus 137 ~vY~l~~~~~---------~k~~~~~F~~vP~~~qV~~A~~ll~~~g~~~~~f~GVPvF~~~~~~~~Lti~~~~~~~iPl 207 (274)
T PF04278_consen 137 KVYQLAQENK---------KKPEGLQFRFVPDPKQVEAALELLKKQGQKVKQFQGVPVFYAEGGKGYLTIKQDNKRIIPL 207 (274)
T ss_dssp HHHHHHHHTT---------T-TT-EEEEEE--HHHHHHHHHHHHTTT---S---S-EEEEEESST-B-EETTTTEEEEEE
T ss_pred HHHHHHHHhh---------cCCcCceEEEcCCHHHHHHHHHHHHhcCCCcccCCCeEEEEEcCCCceEEEeeCCeEEEEE
Confidence 1111111100 023345554556655555555554433321 1 1111111 0001122345556
Q ss_pred ecCHHHHHHHHHHCCCC
Q 012289 154 YDSEEAVDKVKRAVPKE 170 (466)
Q Consensus 154 F~s~e~A~~Ai~~l~~~ 170 (466)
|-+.+++++++++..++
T Consensus 208 FF~kedL~~~l~k~~kq 224 (274)
T PF04278_consen 208 FFDKEDLQAALEKAKKQ 224 (274)
T ss_dssp ESSHHHHHHHHHHHTTT
T ss_pred EecHHHHHHHHHHHHHh
Confidence 78889999999888665
No 269
>PHA00019 IV phage assembly protein
Probab=29.23 E-value=2e+02 Score=30.51 Aligned_cols=30 Identities=13% Similarity=0.326 Sum_probs=24.2
Q ss_pred CCccCcHHHHHHHhhcCCCeEEEEEeecCC
Q 012289 13 ISWDTNEERLKEYFSTYGEVVEAVIMKDRN 42 (466)
Q Consensus 13 LP~~~teeeL~~~F~~~G~V~~v~i~~d~~ 42 (466)
+|.+....+|+++|+-++++..+.++-++.
T Consensus 24 ~~l~f~~~dI~~vl~~la~~~g~NiVidp~ 53 (428)
T PHA00019 24 LPVELNNSPIREFVSWYSQQTGKSVVLGPD 53 (428)
T ss_pred eEEEecCCCHHHHHHHHHHhcCceEEECCC
Confidence 455677888999999888888888888765
No 270
>KOG1177 consensus Long chain fatty acid acyl-CoA ligase [Lipid transport and metabolism]
Probab=29.09 E-value=4.1e+02 Score=29.11 Aligned_cols=91 Identities=13% Similarity=0.115 Sum_probs=52.0
Q ss_pred ccCcHHHHHHHhhcCCCeEEEEEeecCCCCC-cccEEEEEeCCHHHHHHHHHHhcc-CCCceEEEeecCCcchhhhhccC
Q 012289 15 WDTNEERLKEYFSTYGEVVEAVIMKDRNTGR-ARGFGFVVFADPAVAEIVIQEKHN-IDGRMVEAKKAVPRDDQIVLNRS 92 (466)
Q Consensus 15 ~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~-srGfaFVeF~~~e~A~~Al~~~~~-i~Gr~I~V~~a~~~~~~~~~~~~ 92 (466)
.++-..||++||.+.-.|+++.|+-.++... --=||.|.....++-.-..++++. .+++ | ....
T Consensus 492 ENVyP~ElE~fL~~hp~V~~a~VVGV~D~R~GE~VCA~vRLqe~~e~~~t~E~lKa~Ck~k-l-aHFK------------ 557 (596)
T KOG1177|consen 492 ENVYPTELEDFLNKHPLVKEAHVVGVPDERLGEEVCACVRLQEGAEGKTTAETLKAMCKGK-L-AHFK------------ 557 (596)
T ss_pred cccChHHHHHHHhhCCCeeeEEEEccCCCcccceEEEEEEeeccccccccHHHHHHHHhcc-c-cccc------------
Confidence 3578899999999999999999876654321 122566665443331101111111 1121 1 0000
Q ss_pred CCCCCCCCCCCCcceeeecCCCCCCC----HHHHHHHHhhc
Q 012289 93 SGSIHGSPGPGRTRKIFVGGLASTVT----ESDFKKYFDQF 129 (466)
Q Consensus 93 ~~~~~~~~~~~~~~~LfV~nLp~~vt----eedLk~~F~~f 129 (466)
.+...|||...|..+| +.+|++.++..
T Consensus 558 ----------iPky~vf~~~FPlT~tGKIqKFeir~~~k~~ 588 (596)
T KOG1177|consen 558 ----------IPKYFVFVDEFPLTTTGKIQKFEIREMSKGH 588 (596)
T ss_pred ----------CCcEEEEeccCcccccccchhHHHHHHHHhh
Confidence 1345778888887766 67888888754
No 271
>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]
Probab=29.08 E-value=1.1e+02 Score=33.73 Aligned_cols=91 Identities=14% Similarity=0.283 Sum_probs=55.1
Q ss_pred EEEEEeCCHHHHHHHHHHhcc--CCCceEE-E--eecCCcchhhh--hccCCCCCCCCCCCCCcceeeecCCCCCCCHHH
Q 012289 49 FGFVVFADPAVAEIVIQEKHN--IDGRMVE-A--KKAVPRDDQIV--LNRSSGSIHGSPGPGRTRKIFVGGLASTVTESD 121 (466)
Q Consensus 49 faFVeF~~~e~A~~Al~~~~~--i~Gr~I~-V--~~a~~~~~~~~--~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteed 121 (466)
-|+|++.+++.-+-..+++|. +..-.|+ | +.....+++.. ..+......-+|+-..+..||+.+|..++.++-
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 689999887776666666554 2222222 1 11111122111 112222233355556788999999999999887
Q ss_pred HHHHHhhcCCeeEEEEEe
Q 012289 122 FKKYFDQFGTITDVVVMY 139 (466)
Q Consensus 122 Lk~~F~~fG~I~~v~i~~ 139 (466)
-.++....--++.++|++
T Consensus 318 Q~~~irsipGlEna~i~r 335 (621)
T COG0445 318 QEQIIRSIPGLENAEILR 335 (621)
T ss_pred HHHHHHhCcccccceeec
Confidence 778888777778888775
No 272
>TIGR01124 ilvA_2Cterm threonine ammonia-lyase, biosynthetic, long form. Forms scoring between the trusted and noise cutoff tend to branch with this subgroup of threonine ammonia-lyase phylogenetically but have only a single copy of the C-terminal domain.
Probab=28.80 E-value=4.9e+02 Score=28.35 Aligned_cols=107 Identities=7% Similarity=0.090 Sum_probs=56.6
Q ss_pred CCcccEEEEEeC--CHHHHHHHHHHhccCCCceEEEeecCCcchhhhhccCCCCCCCCCCCCCcceeeecCCCCCCCHHH
Q 012289 44 GRARGFGFVVFA--DPAVAEIVIQEKHNIDGRMVEAKKAVPRDDQIVLNRSSGSIHGSPGPGRTRKIFVGGLASTVTESD 121 (466)
Q Consensus 44 g~srGfaFVeF~--~~e~A~~Al~~~~~i~Gr~I~V~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~LfV~nLp~~vteed 121 (466)
.......||.++ ++++.++.++.+....-..+.+ ...+..+....-.-.... .....-+||--.+|..-- -
T Consensus 360 ~~~~a~v~vgie~~~~~~~~~l~~~L~~~Gy~~~dl--s~ne~~k~h~r~~~g~~~---~~~~~e~~~~~~fperpg--a 432 (499)
T TIGR01124 360 DRKDAHIFVGVQLSNPQERQEILARLNDGGYSVVDL--TDDELAKLHVRYMVGGRP---PHVENERLYSFEFPERPG--A 432 (499)
T ss_pred CCCeEEEEEEEEeCCHHHHHHHHHHHHHcCCCeEEC--CCCHHHHHHHHhccCCCC---CCCCCceEEEEeCCCCcc--H
Confidence 344455665554 5677777777765533333222 111111111111101100 011224667667777554 6
Q ss_pred HHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCH
Q 012289 122 FKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSE 157 (466)
Q Consensus 122 Lk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~ 157 (466)
|++|.+..++--+|.+..-++.++..|-++|-|+-+
T Consensus 433 L~~Fl~~l~~~~~It~f~Yr~~~~~~g~~l~gi~~~ 468 (499)
T TIGR01124 433 LLRFLNTLQGYWNISLFHYRNHGADYGRVLAGFQVP 468 (499)
T ss_pred HHHHHHhcCCCCceeeEEEecCCcccCCEEEEEecC
Confidence 888888888755555544466688888888888643
No 273
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=28.66 E-value=2.5e+02 Score=29.12 Aligned_cols=9 Identities=22% Similarity=0.158 Sum_probs=3.9
Q ss_pred CHHHHHHHH
Q 012289 118 TESDFKKYF 126 (466)
Q Consensus 118 teedLk~~F 126 (466)
+|++|+++.
T Consensus 199 ~w~~iE~~~ 207 (465)
T KOG3973|consen 199 TWPEIEKQC 207 (465)
T ss_pred hHHHHHHHH
Confidence 444444433
No 274
>PF01037 AsnC_trans_reg: AsnC family; InterPro: IPR019887 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One such family is the AsnC/Lrp subfamily []. The Lrp family of transcriptional regulators appears to be widely distributed among bacteria and archaea, as an important regulatory system of the amino acid metabolism and related processes []. Members of the Lrp family are small DNA-binding proteins with molecular masses of around 15 kDa. Target promoters often contain a number of binding sites that typically lack obvious inverted repeat elements, and to which binding is usually co-operative. LrpA from Pyrococcus furiosus is the first Lrp-like protein to date of which a three-dimensional structure has been solved. In the crystal structure LrpA forms an octamer consisting of four dimers. The structure revealed that the N-terminal part of the protein consists of a helix-turn-helix (HTH) domain, a fold generally involved in DNA binding. The C terminus of Lrp-like proteins has a beta-fold, where the two alpha-helices are located at one side of the four-stranded antiparallel beta-sheet. LrpA forms a homodimer mainly through interactions between the beta-strands of this C-terminal domain, and an octamer through further interactions between the second alpha-helix and fourth beta-strand of the motif. Hence, the C-terminal domain of Lrp-like proteins appears to be involved in ligand-response and activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2DJW_F 2GQQ_A 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2CG4_B 2DBB_B 1I1G_A ....
Probab=28.53 E-value=2.5e+02 Score=20.97 Aligned_cols=51 Identities=25% Similarity=0.182 Sum_probs=40.4
Q ss_pred cHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHH-hccCCC
Q 012289 18 NEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQE-KHNIDG 72 (466)
Q Consensus 18 teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~-~~~i~G 72 (466)
..+++.+.+.++-+|.+|..+. |..-=...|.+.+.++.++.+.+ +..+.+
T Consensus 11 ~~~~~~~~l~~~p~V~~~~~vt----G~~d~~~~v~~~d~~~l~~~i~~~l~~~~g 62 (74)
T PF01037_consen 11 AYDEFAEALAEIPEVVECYSVT----GEYDLILKVRARDMEELEEFIREKLRSIPG 62 (74)
T ss_dssp HHHHHHHHHHTSTTEEEEEEES----SSSSEEEEEEESSHHHHHHHHHHTHHTSTT
T ss_pred hHHHHHHHHHcCCCEEEEEEEe----CCCCEEEEEEECCHHHHHHHHHHHhhcCCC
Confidence 4788999999999999998765 55555788999999999999776 555443
No 275
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=27.90 E-value=93 Score=33.07 Aligned_cols=60 Identities=17% Similarity=0.244 Sum_probs=35.1
Q ss_pred CEEEEcCCCccCcHHHHHHHhhcC---CCeEEEEEeecCCCCCcccEEEE-EeCCHHHHHHHHHHhcc
Q 012289 6 GKLFIGGISWDTNEERLKEYFSTY---GEVVEAVIMKDRNTGRARGFGFV-VFADPAVAEIVIQEKHN 69 (466)
Q Consensus 6 ~~LfVgnLP~~~teeeL~~~F~~~---G~V~~v~i~~d~~tg~srGfaFV-eF~~~e~A~~Al~~~~~ 69 (466)
++|.|..||+.++.+++++...+. +.|. |.=++|. |.+ ++-|| +++...+++..++.+..
T Consensus 217 ~~i~ITELP~~~~t~~~~e~i~~l~~~~~i~-I~d~~D~-Sd~--~v~ivI~lk~~~~~~~~~~~L~k 280 (426)
T PF00521_consen 217 NTIVITELPYGVWTEKYKEKIEELVEDKKIK-ISDYRDE-SDR--GVRIVIELKRGADPEKILEGLYK 280 (426)
T ss_dssp EEEEEEE--TT--HHHHHHHHHHHHHTTSST-EEEEEE--BBT--BS-EEEEESTTSHHHHHHHHHHH
T ss_pred cEEEEEeCCccccHHHHHHHHHHHhccCcch-hhHHHhc-CCC--ceeEEEEecCCccHHHHHHHHHH
Confidence 689999999999988888776543 4566 5555664 444 67774 55655456666654433
No 276
>PRK11901 hypothetical protein; Reviewed
Probab=27.55 E-value=1e+02 Score=31.64 Aligned_cols=56 Identities=14% Similarity=0.308 Sum_probs=38.5
Q ss_pred CCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEE--EecCHHHHHHHHHHCCCCCC
Q 012289 115 STVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFI--TYDSEEAVDKVKRAVPKELS 172 (466)
Q Consensus 115 ~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV--~F~s~e~A~~Ai~~l~~~~~ 172 (466)
-.-.++.|++|.+++. +..++|.+....+++ -|..| .|.+.++|++|++.|+..+.
T Consensus 252 Aas~~~~L~~f~~~~~-L~~~~VYqT~RnGkp-WYVVvyG~Y~Sr~eAk~Ai~sLPa~lq 309 (327)
T PRK11901 252 SASRSDTLNAYAKKQN-LSHYHVYETKRDGKP-WYVLVSGNYASSAEAKRAIATLPAEVQ 309 (327)
T ss_pred cCCCHHHHHHHHHHcC-cCceEEEEEEECCce-EEEEEecCcCCHHHHHHHHHhCCHHHH
Confidence 3456888999888875 455655554332332 34444 57999999999999998753
No 277
>PRK10905 cell division protein DamX; Validated
Probab=27.45 E-value=96 Score=31.70 Aligned_cols=57 Identities=16% Similarity=0.327 Sum_probs=36.9
Q ss_pred CCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEE--EecCHHHHHHHHHHCCCCC
Q 012289 113 LASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFI--TYDSEEAVDKVKRAVPKEL 171 (466)
Q Consensus 113 Lp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV--~F~s~e~A~~Ai~~l~~~~ 171 (466)
|--..+++.|++|..+++. ....+......+++ -|-.| .|.+.++|++|++.|+..+
T Consensus 252 L~A~Ss~~~l~~fakKlgL-~~y~vy~TtRnGkp-WYVV~yG~YaSraeAk~AiakLPa~v 310 (328)
T PRK10905 252 LSSSSNYDNLNGWAKKENL-KNYVVYETTRNGQP-WYVLVSGVYASKEEAKRAVSTLPADV 310 (328)
T ss_pred EEecCCHHHHHHHHHHcCC-CceEEEEeccCCce-EEEEEecCCCCHHHHHHHHHHCCHHH
Confidence 3334567899999888854 33334333222332 23322 5799999999999999876
No 278
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=27.43 E-value=10 Score=40.99 Aligned_cols=62 Identities=6% Similarity=-0.019 Sum_probs=45.0
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHH
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQE 66 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~ 66 (466)
.|.||+.||++.++-++|..+++.+--+..+-+..+....+...+..|.|+.--....|+..
T Consensus 231 e~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~a 292 (648)
T KOG2295|consen 231 ECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWA 292 (648)
T ss_pred HHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHH
Confidence 57899999999999999999999987676666655433345566788999754443444433
No 279
>PF02426 MIase: Muconolactone delta-isomerase; InterPro: IPR003464 This small enzyme forms a homodecameric complex, that catalyses the third step in the catabolism of catechol to succinate- and acetyl-coa in the beta-ketoadipate pathway (5.3.3.4 from EC). The protein has a ferredoxin-like fold according to SCOP.; GO: 0006725 cellular aromatic compound metabolic process
Probab=27.01 E-value=3.6e+02 Score=22.37 Aligned_cols=64 Identities=11% Similarity=0.027 Sum_probs=46.2
Q ss_pred CCCccCcHHHHHHHh----------hcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccCCCceEEEee
Q 012289 12 GISWDTNEERLKEYF----------STYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNIDGRMVEAKK 79 (466)
Q Consensus 12 nLP~~~teeeL~~~F----------~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i~Gr~I~V~~ 79 (466)
+||.+++.+++.++- .+-|.+..+.-+ .|+.+.++.+.-++.++-.+.|..+--+.-..|+|..
T Consensus 10 ~~P~~~~~~~~~~~~a~E~~~a~eLq~~G~~~~lWr~----~G~~~n~~Ifdv~d~~eLh~lL~sLPL~p~m~i~Vtp 83 (91)
T PF02426_consen 10 NVPPDMPPEEVDRLKAREKARAQELQRQGKWRHLWRV----VGRYANVSIFDVEDNDELHELLSSLPLFPYMDIEVTP 83 (91)
T ss_pred eCCCCCCHHHHHHHHHHHHHHHHHHHHCCeeeEEEEe----cCCcceEEEEECCCHHHHHHHHHhCCCccceeeeEEe
Confidence 678888777655443 334777765543 3677788999999999998888887777777777754
No 280
>COG0351 ThiD Hydroxymethylpyrimidine/phosphomethylpyrimidine kinase [Coenzyme metabolism]
Probab=26.83 E-value=1.4e+02 Score=29.84 Aligned_cols=59 Identities=14% Similarity=0.041 Sum_probs=36.2
Q ss_pred EEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhccCCCceEEEeec
Q 012289 7 KLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKHNIDGRMVEAKKA 80 (466)
Q Consensus 7 ~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~~i~Gr~I~V~~a 80 (466)
.--|-.||+++=+++|+.+|+.+ +|.-+++=. ..+.|..+...+.+..+.-.+|.+++.
T Consensus 49 V~~v~~v~~~~v~~Ql~av~~D~-~v~avKtGM--------------L~~~eiie~va~~l~~~~~~~vV~DPV 107 (263)
T COG0351 49 VHGVHPVPPEFVEAQLDAVFSDI-PVDAVKTGM--------------LGSAEIIEVVAEKLKKYGIGPVVLDPV 107 (263)
T ss_pred eeeEEeCCHHHHHHHHHHHhhcC-CCCEEEECC--------------cCCHHHHHHHHHHHHhcCCCcEEECce
Confidence 34577899999999999999988 344444311 125566666666555544233555543
No 281
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=26.28 E-value=2.4e+02 Score=23.13 Aligned_cols=46 Identities=7% Similarity=0.088 Sum_probs=34.1
Q ss_pred HHHHHHHHhhcC-CeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCC
Q 012289 119 ESDFKKYFDQFG-TITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVP 168 (466)
Q Consensus 119 eedLk~~F~~fG-~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~ 168 (466)
++.++++++++| +++.+.+.. ++-.-...+++.|.++|.++.-.+.
T Consensus 22 ~~a~~~~~e~~Gg~l~~~y~t~----G~yD~v~i~eaPD~~~a~~~~l~i~ 68 (91)
T PF08734_consen 22 AEAVRALIEALGGKLKSFYWTL----GEYDFVVIVEAPDDETAAAASLAIR 68 (91)
T ss_pred HHHHHHHHHHcCCEEEEEEEec----CCCCEEEEEEcCCHHHHHHHHHHHH
Confidence 466788888875 688887775 4446788899999998888765543
No 282
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=26.04 E-value=2.8e+02 Score=26.55 Aligned_cols=22 Identities=18% Similarity=0.072 Sum_probs=17.0
Q ss_pred cEEEEEeCCHHHHHHHHHHhcc
Q 012289 48 GFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 48 GfaFVeF~~~e~A~~Al~~~~~ 69 (466)
.+.+|...+.+.++.+++.+.+
T Consensus 97 ~~~~v~~d~~~~g~~~~~~l~~ 118 (272)
T cd06313 97 VHSFLAPDNYFMGASVAQALCN 118 (272)
T ss_pred eEEEECCCcHHHHHHHHHHHHH
Confidence 3567888888888888887655
No 283
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=25.59 E-value=1.5e+02 Score=33.29 Aligned_cols=60 Identities=20% Similarity=0.262 Sum_probs=38.0
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhc---CCCeEEEEEeecCCCCCcccEEE-EEeCCHHHHHHHHHHh
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFST---YGEVVEAVIMKDRNTGRARGFGF-VVFADPAVAEIVIQEK 67 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~---~G~V~~v~i~~d~~tg~srGfaF-VeF~~~e~A~~Al~~~ 67 (466)
+.++|.|..||+.++.+.|.+...+ -+++. |.-++|. |. +.+.| |+++....++..+..+
T Consensus 219 ~~~~ivItEiP~~~~~~~li~~i~~~~~~~ki~-I~~i~D~-s~--~~v~i~i~l~~~~~~~~~~~~L 282 (635)
T PRK09631 219 DEKTIVIREIPFGTTTESLIASIEKAARKGKIK-ISSINDY-TA--ENVEIEIKLPRGVYASEVIEAL 282 (635)
T ss_pred cCCEEEEEeCCCcccHHHHHHHHHHHHHcCCCc-cceeEeC-CC--CcEEEEEEECCCCCHHHHHHHH
Confidence 3578999999999999998886543 24444 4445553 22 24655 4455555566555544
No 284
>PRK10560 hofQ outer membrane porin HofQ; Provisional
Probab=25.32 E-value=1.3e+02 Score=31.39 Aligned_cols=61 Identities=8% Similarity=0.119 Sum_probs=36.8
Q ss_pred cHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCC--HHHHHHHHHHhcc----CCCceEEEeecC
Q 012289 18 NEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFAD--PAVAEIVIQEKHN----IDGRMVEAKKAV 81 (466)
Q Consensus 18 teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~--~e~A~~Al~~~~~----i~Gr~I~V~~a~ 81 (466)
++.+|+++|+.+.++..+.++-++.- +|..=+.+.+ .++|-.++.+.+. ..+..+.|....
T Consensus 3 ~~adI~~vl~~la~~~g~NiVidp~V---~G~VTl~~~~V~~~qal~~iL~~~gl~~~~~g~i~~I~p~~ 69 (386)
T PRK10560 3 DDVPVAQVLQALAEQEKLNLVVSPDV---SGTVSLHLTDVPWKQALQTVVKSAGLILRQEGNILSVHSQA 69 (386)
T ss_pred cCCCHHHHHHHHHHhcCceEEECCCC---cceEEEEEeCCCHHHHHHHHHHhCCCcEEEeCCEEEEEchh
Confidence 45678888888888888888887653 3444444543 3444444444444 346666665543
No 285
>cd00874 RNA_Cyclase_Class_II RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine residue is found in all members of this subfamily.
Probab=25.29 E-value=4.8e+02 Score=26.78 Aligned_cols=48 Identities=10% Similarity=0.137 Sum_probs=30.5
Q ss_pred eeeecCCCCCCCHHHHH---HHHhhcCCeeEEEEEecCCCCCcceEEEEEec
Q 012289 107 KIFVGGLASTVTESDFK---KYFDQFGTITDVVVMYDHNTQRPRGFGFITYD 155 (466)
Q Consensus 107 ~LfV~nLp~~vteedLk---~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~ 155 (466)
..++.+||..+.+.+++ +++++. .+.+|.|..|.+.+.++|++.+.+.
T Consensus 188 ~~~~~~l~~~va~r~~~~a~~~L~~~-~~~dv~i~~~~~~~~s~G~~i~L~a 238 (326)
T cd00874 188 ISHAANLPPHVAERQAEAAAALLRKA-LGLQIEIEPEDQSALGPGSGIVLWA 238 (326)
T ss_pred EEEEccCCHHHHHHHHHHHHHHHhhc-cCCCeEEEEEecCCCCCCEEEEEEE
Confidence 56778899888776554 445552 3345666666655677787766553
No 286
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=24.92 E-value=1.7e+02 Score=25.59 Aligned_cols=46 Identities=15% Similarity=0.347 Sum_probs=28.4
Q ss_pred cCcHHHHHHHhhcCCC-eEEEE----EeecCCCCCcccEEEEEeCCHHHHHH
Q 012289 16 DTNEERLKEYFSTYGE-VVEAV----IMKDRNTGRARGFGFVVFADPAVAEI 62 (466)
Q Consensus 16 ~~teeeL~~~F~~~G~-V~~v~----i~~d~~tg~srGfaFVeF~~~e~A~~ 62 (466)
.++++||+|-+.+.=+ -.++. +...-..+++.|||.| |.+.|.|.+
T Consensus 34 ~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~akk 84 (132)
T KOG3424|consen 34 NVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAKK 84 (132)
T ss_pred CCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHHh
Confidence 5788899887755311 12222 2333345789999987 677766655
No 287
>PF15063 TC1: Thyroid cancer protein 1
Probab=24.49 E-value=30 Score=27.71 Aligned_cols=52 Identities=13% Similarity=0.248 Sum_probs=35.4
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCCe---eEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGTI---TDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAV 167 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~I---~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l 167 (466)
..++--+.|+=.++..++|+.+|++-|.. ++++|+.. .-.|+|+..+||.+|
T Consensus 24 ~~RKkasaNIFe~vn~~qlqrLF~~sGD~kAEeRA~iI~~------------~~~d~ee~a~AL~~L 78 (79)
T PF15063_consen 24 ASRKKASANIFENVNLDQLQRLFQKSGDKKAEERARIIWE------------CAQDPEEKARALMAL 78 (79)
T ss_pred HHhhhhhhhhhhccCHHHHHHHHHHccchhHHHHHHHHHh------------hCCCHHHHHHHHHhc
Confidence 34555667888899999999999998864 23333322 225667677777665
No 288
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=24.34 E-value=1.5e+02 Score=25.96 Aligned_cols=47 Identities=26% Similarity=0.555 Sum_probs=29.4
Q ss_pred CCCCHHHHHHHHhh-cCCeeEEEEEec----CCCCCcceEEEEEecCHHHHHH
Q 012289 115 STVTESDFKKYFDQ-FGTITDVVVMYD----HNTQRPRGFGFITYDSEEAVDK 162 (466)
Q Consensus 115 ~~vteedLk~~F~~-fG~I~~v~i~~d----~~tg~~rG~aFV~F~s~e~A~~ 162 (466)
..++.+||++-+.+ |-.-.+++++.+ --++++.+||.| |++.|.|.+
T Consensus 33 a~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~akk 84 (132)
T KOG3424|consen 33 ANVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAKK 84 (132)
T ss_pred CCCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHHh
Confidence 45678888876644 544445555443 344688889976 666666553
No 289
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=23.87 E-value=58 Score=31.82 Aligned_cols=33 Identities=18% Similarity=0.450 Sum_probs=28.1
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcCCeeEEE
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFGTITDVV 136 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~ 136 (466)
..++||+-|||..+|++.|+++..+++.+..+.
T Consensus 39 eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~ 71 (261)
T KOG4008|consen 39 EKDCLFLVNVPLLSTEEHLKRFVSQLGHVQELL 71 (261)
T ss_pred cccceeeecccccccHHHHHHHHHHhhhhhhee
Confidence 456899999999999999999999998665443
No 290
>PRK12758 DNA topoisomerase IV subunit A; Provisional
Probab=23.73 E-value=3.2e+02 Score=31.87 Aligned_cols=60 Identities=20% Similarity=0.242 Sum_probs=37.5
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhc---CCCeEEEEEeecCCCCCcccEEE-EEeCCHHHHHHHHHHh
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFST---YGEVVEAVIMKDRNTGRARGFGF-VVFADPAVAEIVIQEK 67 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~---~G~V~~v~i~~d~~tg~srGfaF-VeF~~~e~A~~Al~~~ 67 (466)
+.++|.|..||+.++.+.|.+-..+ -+.|. |.-++|. |. ++.-| |+++....++..+..+
T Consensus 240 ~~~~ivItEiPy~~~t~~lie~I~~~~~~~ki~-I~di~D~-s~--~~vrivI~lk~~~~~~~~~~~L 303 (869)
T PRK12758 240 DKKTLVITEIPYGTTTSSLIDSILKANDKGKIK-IKKVEDN-TA--ADVEILVHLAPGVSPDKTIDAL 303 (869)
T ss_pred CCCEEEEEecCCcccHHHHHHHHHHHHhcCCCc-eeeeEec-CC--CceEEEEEeCCCCCHHHHHHHH
Confidence 4678999999999988887766643 34555 4445553 22 34656 4455554555555544
No 291
>COG4010 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.92 E-value=1.7e+02 Score=26.46 Aligned_cols=46 Identities=20% Similarity=0.357 Sum_probs=37.4
Q ss_pred CCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHC
Q 012289 112 GLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAV 167 (466)
Q Consensus 112 nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l 167 (466)
.|+..+.+|.|+++.+-+|.|.... ..| -.+.|-|.+.+.+|++.+
T Consensus 118 ~L~epl~~eRlqDi~E~hgvIiE~~-E~D---------~V~i~Gd~drVk~aLke~ 163 (170)
T COG4010 118 HLREPLAEERLQDIAETHGVIIEFE-EYD---------LVAIYGDSDRVKKALKEI 163 (170)
T ss_pred ecCchhHHHHHHHHHHhhheeEEee-ecc---------EEEEeccHHHHHHHHHHH
Confidence 5788999999999999999887765 333 346789999999999865
No 292
>KOG2854 consensus Possible pfkB family carbohydrate kinase [Carbohydrate transport and metabolism]
Probab=22.63 E-value=2.5e+02 Score=29.00 Aligned_cols=37 Identities=24% Similarity=0.279 Sum_probs=25.7
Q ss_pred CCCEEEEcCCCccCcHHHHHHHhhcCCCeEEEEEeec
Q 012289 4 DNGKLFIGGISWDTNEERLKEYFSTYGEVVEAVIMKD 40 (466)
Q Consensus 4 d~~~LfVgnLP~~~teeeL~~~F~~~G~V~~v~i~~d 40 (466)
...++|++-+-.|---+.|++-.++-|--..-.+.++
T Consensus 80 p~~~~f~GsvG~Dk~ge~l~~~~~~aGv~~~yq~~~d 116 (343)
T KOG2854|consen 80 PGATVFFGSVGKDKFGELLKSKARAAGVNVHYQVKED 116 (343)
T ss_pred CCceEEEeeccCchHHHHHHHHHHhcCceEEEEeccC
Confidence 3478999999888888888888877764333333443
No 293
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=22.36 E-value=2.7e+02 Score=29.53 Aligned_cols=31 Identities=16% Similarity=0.370 Sum_probs=23.2
Q ss_pred CccCcHHHHHHHhhcCC---CeEEEEEeecCCCC
Q 012289 14 SWDTNEERLKEYFSTYG---EVVEAVIMKDRNTG 44 (466)
Q Consensus 14 P~~~teeeL~~~F~~~G---~V~~v~i~~d~~tg 44 (466)
|..+++++|.+..++.| +|+-+.|.+....|
T Consensus 343 pqp~t~~~l~~a~k~lg~~~PivGvhvRRTDKVG 376 (580)
T KOG3705|consen 343 PQPATQEKLDKALKSLGLDKPIVGVHVRRTDKVG 376 (580)
T ss_pred CChhhHHHHHHHHHhCCCCCceeeEEEEeccccc
Confidence 55689999999998877 67778887654433
No 294
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=21.90 E-value=6.3e+02 Score=26.48 Aligned_cols=52 Identities=17% Similarity=0.093 Sum_probs=36.2
Q ss_pred cCcHHHHHHHhhc----CCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhc
Q 012289 16 DTNEERLKEYFST----YGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKH 68 (466)
Q Consensus 16 ~~teeeL~~~F~~----~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~ 68 (466)
+..--+|..+|.. +|-|+++.|...+. -+.+...++.|.+.++|.+++.++.
T Consensus 143 ~~~g~dl~~l~~Gs~GtlGiit~~~lkl~p~-p~~~~~~~~~f~~~~~~~~~~~~~~ 198 (413)
T TIGR00387 143 DVAGYDLTGLFVGSEGTLGIVTEATLKLLPK-PENIVVALAFFDSIEKAMQAVYDII 198 (413)
T ss_pred CCCCCChhhhcccCCccceEEEEEEEEeecC-CCccEEEEEECCCHHHHHHHHHHHH
Confidence 3344467788743 77888888755543 3345577889999999999987543
No 295
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=21.78 E-value=3.8e+02 Score=23.73 Aligned_cols=48 Identities=19% Similarity=0.196 Sum_probs=30.6
Q ss_pred CCCeEEEEEeecCCCCCcccEEEEEeCC--------HHHHHHHHHHhcc--CCCceEEEeecC
Q 012289 29 YGEVVEAVIMKDRNTGRARGFGFVVFAD--------PAVAEIVIQEKHN--IDGRMVEAKKAV 81 (466)
Q Consensus 29 ~G~V~~v~i~~d~~tg~srGfaFVeF~~--------~e~A~~Al~~~~~--i~Gr~I~V~~a~ 81 (466)
.|.++.-+|..-..- =|||+|.. .|.|...+++.|. -.+..|.|+.-.
T Consensus 5 vG~~l~GkItgI~~y-----GAFV~l~~g~tGLVHISEIa~~fVkdI~d~L~vG~eV~vKVl~ 62 (129)
T COG1098 5 VGSKLKGKITGITPY-----GAFVELEGGKTGLVHISEIADGFVKDIHDHLKVGQEVKVKVLD 62 (129)
T ss_pred ccceEEEEEEeeEec-----ceEEEecCCCcceEEehHhhhhhHHhHHHHhcCCCEEEEEEEe
Confidence 466666666433221 28999987 6778888887665 347777776543
No 296
>PHA02531 20 portal vertex protein; Provisional
Probab=21.77 E-value=1.4e+02 Score=32.33 Aligned_cols=38 Identities=26% Similarity=0.348 Sum_probs=29.7
Q ss_pred cceeeecCCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCc
Q 012289 105 TRKIFVGGLASTVTESDFKKYFDQFGTITDVVVMYDHNTQRP 146 (466)
Q Consensus 105 ~~~LfV~nLp~~vteedLk~~F~~fG~I~~v~i~~d~~tg~~ 146 (466)
..-|=|+|||..-.|+-|+++..+| +-+++.|..|+.-
T Consensus 281 vFYiDVGNlPk~KAeqYlr~vm~~y----kNklvYDa~TGei 318 (514)
T PHA02531 281 VFYIDVGNLPKRKAEEYLNNVMQRY----KNRVVYDANTGKV 318 (514)
T ss_pred EEEEEcCCCChhhHHHHHHHHHHHh----hhhEEEeCCCCee
Confidence 3445589999999999999999998 4556677776653
No 297
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=21.75 E-value=2.2e+02 Score=32.61 Aligned_cols=59 Identities=17% Similarity=0.303 Sum_probs=36.4
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcC---CCeEEEEEeecCCCCCcccEEEE-EeCCHHHHHHHHH
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTY---GEVVEAVIMKDRNTGRARGFGFV-VFADPAVAEIVIQ 65 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~---G~V~~v~i~~d~~tg~srGfaFV-eF~~~e~A~~Al~ 65 (466)
..+|.|..||+.++.++|++...+. .++..|.=++|.. . ..++.|| +++....++..+.
T Consensus 248 ~~~i~ItEiP~~~~~~~~~~~i~~l~~~~~~~~i~~~~Des-~-~~~vrivi~lk~~~~~~~~~~ 310 (738)
T TIGR01061 248 LNQIVITEIPYETNKANIVKKIEEIIFDNKVAGIEEVRDES-D-RNGIRIIIELKKDANAEKILN 310 (738)
T ss_pred CcEEEEEecCCccCHHHHHHHHHHHHhcCCccccceeeecc-C-CCceEEEEEECCCCCHHHHHH
Confidence 4579999999999999988876543 2233333344432 2 2467775 4555555555554
No 298
>PRK11901 hypothetical protein; Reviewed
Probab=21.71 E-value=1.7e+02 Score=30.08 Aligned_cols=50 Identities=16% Similarity=0.278 Sum_probs=32.3
Q ss_pred CcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEE--EeCCHHHHHHHHHHhc
Q 012289 17 TNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFV--VFADPAVAEIVIQEKH 68 (466)
Q Consensus 17 ~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFV--eF~~~e~A~~Al~~~~ 68 (466)
-+++.|++|.+++. +..++|.+....++.- |..| +|.+.++|++|++.|-
T Consensus 254 s~~~~L~~f~~~~~-L~~~~VYqT~RnGkpW-YVVvyG~Y~Sr~eAk~Ai~sLP 305 (327)
T PRK11901 254 SRSDTLNAYAKKQN-LSHYHVYETKRDGKPW-YVLVSGNYASSAEAKRAIATLP 305 (327)
T ss_pred CCHHHHHHHHHHcC-cCceEEEEEEECCceE-EEEEecCcCCHHHHHHHHHhCC
Confidence 46888999988874 4555555432223221 2222 3799999999999763
No 299
>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=21.61 E-value=3e+02 Score=21.36 Aligned_cols=56 Identities=18% Similarity=0.224 Sum_probs=30.5
Q ss_pred CCCCCHHHHHHHHhhcC-----CeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCC-CCCCCCccc
Q 012289 114 ASTVTESDFKKYFDQFG-----TITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPK-ELSPGPTRS 178 (466)
Q Consensus 114 p~~vteedLk~~F~~fG-----~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~-~~~~~~~r~ 178 (466)
-..++..+|..++.... .|-+|+|.. .|+||+-... .|+++++++++ .+.++++++
T Consensus 10 ~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~--------~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~v 71 (74)
T PF03880_consen 10 KDGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------NFSFVEVPEE-VAEKVLEALNGKKIKGKKVRV 71 (74)
T ss_dssp GGT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------S-EEEEE-TT--HHHHHHHHTT--SSS----E
T ss_pred ccCCCHHHHHHHHHhccCCCHHhEEEEEEee--------eEEEEEECHH-HHHHHHHHhcCCCCCCeeEEE
Confidence 45678888888886653 466777763 3889988665 56666666654 566666654
No 300
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=21.46 E-value=1.2e+02 Score=22.91 Aligned_cols=32 Identities=16% Similarity=0.129 Sum_probs=25.8
Q ss_pred EEeCCHHHHHHHHHHhccCCCceEEEeecCCc
Q 012289 52 VVFADPAVAEIVIQEKHNIDGRMVEAKKAVPR 83 (466)
Q Consensus 52 VeF~~~e~A~~Al~~~~~i~Gr~I~V~~a~~~ 83 (466)
.+|.+.++.+.||.+..-...+.+.+.+..+.
T Consensus 8 ~~F~~~~e~k~av~~yai~~~~~~~v~ksd~~ 39 (67)
T PF03108_consen 8 QTFPSKEEFKEAVREYAIKNGFEFKVKKSDKK 39 (67)
T ss_pred CEECCHHHHHHHHHHHHHhcCcEEEEeccCCE
Confidence 46999999999999887777778877776643
No 301
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=21.35 E-value=9.1e+02 Score=24.90 Aligned_cols=43 Identities=14% Similarity=0.244 Sum_probs=30.9
Q ss_pred CCCEEEEcCCCc----cCcHHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCC
Q 012289 4 DNGKLFIGGISW----DTNEERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFAD 56 (466)
Q Consensus 4 d~~~LfVgnLP~----~~teeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~ 56 (466)
+.+-|||.|=.- -++.+||+++.+.... .+.|+-| .||++|..
T Consensus 145 ~~~lv~i~nPNNPTG~~~~~~~l~~l~~~~~~--~~~vVvD--------EAY~eF~~ 191 (356)
T COG0079 145 KTKLVFLCNPNNPTGTLLPREELRALLEALPE--GGLVVID--------EAYIEFSP 191 (356)
T ss_pred CCCEEEEeCCCCCCCCCCCHHHHHHHHHhCCC--CcEEEEe--------CchhhcCC
Confidence 456688876543 2599999999998766 3444444 58999998
No 302
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=21.33 E-value=2e+02 Score=24.13 Aligned_cols=48 Identities=17% Similarity=0.176 Sum_probs=35.8
Q ss_pred HHHHHHHhhcCC-eeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCCCCCCCC
Q 012289 120 SDFKKYFDQFGT-ITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPKELSPGP 175 (466)
Q Consensus 120 edLk~~F~~fG~-I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~~~~~~~ 175 (466)
+++++.+++-+. ++.+... .+.-.|+|+++++-.+|++.+.+.+.+..
T Consensus 49 ~~v~~~L~~~~I~~k~i~~~--------~~~llirf~~~~~Ql~Ak~~L~~~L~~~y 97 (101)
T PF13721_consen 49 FQVEQALKAAGIAVKSIEQE--------GDSLLIRFDSTDQQLKAKDVLSKALGDDY 97 (101)
T ss_pred HHHHHHHHHCCCCcceEEee--------CCEEEEEECCHHHHHHHHHHHHHHcCCCC
Confidence 588888888774 4444432 23688999999999999999988875543
No 303
>PRK05560 DNA gyrase subunit A; Validated
Probab=21.16 E-value=2.3e+02 Score=32.88 Aligned_cols=60 Identities=20% Similarity=0.390 Sum_probs=35.7
Q ss_pred CCEEEEcCCCccCcHHHHHHHhhcC---CCeEEEEEeecCCCCCcccEEEEE-eCCHHHHHHHHHH
Q 012289 5 NGKLFIGGISWDTNEERLKEYFSTY---GEVVEAVIMKDRNTGRARGFGFVV-FADPAVAEIVIQE 66 (466)
Q Consensus 5 ~~~LfVgnLP~~~teeeL~~~F~~~---G~V~~v~i~~d~~tg~srGfaFVe-F~~~e~A~~Al~~ 66 (466)
.++|.|..||+.+..++|.+...+. .++..+.=++|..+ ..++.||. ++...+++..++.
T Consensus 251 ~~~i~iteiP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~--~~~~~~~i~~~~~~~~~~~~~~ 314 (805)
T PRK05560 251 REAIIVTEIPYQVNKARLIEKIAELVKEKKIEGISDLRDESD--RDGMRIVIELKRDAVPEVVLNN 314 (805)
T ss_pred CcEEEEEeCCCccCHHHHHHHHHHHHhcCCCCccccchhcCC--CCceEEEEEECCCCCHHHHHHH
Confidence 5689999999999988877766432 23333333344322 44677754 5544455555543
No 304
>COG2061 ACT-domain-containing protein, predicted allosteric regulator of homoserine dehydrogenase [Amino acid transport and metabolism]
Probab=21.05 E-value=6.6e+02 Score=23.13 Aligned_cols=63 Identities=16% Similarity=0.276 Sum_probs=37.7
Q ss_pred CcceeeecCCCCCCCHHHHHHHHhhcC--CeeEEEEEecCCCCCcceEEEEEe--cCHHHHHHHHHHCCC
Q 012289 104 RTRKIFVGGLASTVTESDFKKYFDQFG--TITDVVVMYDHNTQRPRGFGFITY--DSEEAVDKVKRAVPK 169 (466)
Q Consensus 104 ~~~~LfV~nLp~~vteedLk~~F~~fG--~I~~v~i~~d~~tg~~rG~aFV~F--~s~e~A~~Ai~~l~~ 169 (466)
...+|.|+.+-..--.+.+..+ ..-| .|+++.+......+.+ .|.++| .++++.++|++.++.
T Consensus 87 ~~~vvLIGhiv~tdiqDTId~I-n~ig~A~vvDl~L~Mp~~e~~S--sA~iti~a~~~e~l~ea~~~l~e 153 (170)
T COG2061 87 KTDVVLIGHIVHTDIQDTIDRI-NSIGGAEVVDLSLSMPGIEGES--SARITIIAVGKEKLDEALRRLKE 153 (170)
T ss_pred eEeEEEEEeeecCcHHHHHHHh-hccCCEEEEEEEeecCCCCCCc--ceeEEEEEcChhHHHHHHHHHHH
Confidence 3457888876554333333333 3334 6777766554333544 456655 678999998887654
No 305
>PF12829 Mhr1: Transcriptional regulation of mitochondrial recombination; InterPro: IPR024629 These proteins are involved in regulation of RNA polymerase II-dependent transcription. They are also involved in regulation of mitochondrial DNA recombination, maintenance, repair, and generation of homoplasmic cells [, , , ].
Probab=21.04 E-value=1.4e+02 Score=24.81 Aligned_cols=54 Identities=11% Similarity=0.066 Sum_probs=38.1
Q ss_pred CCCCCCCHHHHHHHHhhcCC-eeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCCC
Q 012289 112 GLASTVTESDFKKYFDQFGT-ITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVPK 169 (466)
Q Consensus 112 nLp~~vteedLk~~F~~fG~-I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~~ 169 (466)
-+-+.+++..|.+.|...+. -+...+-+|.. +.+|.|+|.+.+.+.+|.+.|-.
T Consensus 19 S~~p~l~~~~i~~Q~~~~gkk~~pp~lRkD~W----~pm~vv~f~~~~~g~~~yq~Lre 73 (91)
T PF12829_consen 19 SQTPNLDNNQILKQFPFPGKKNKPPSLRKDYW----RPMCVVNFPNYEVGVSAYQKLRE 73 (91)
T ss_pred ecCcccChhHHHHhccCCCcccCCchhccccc----eEeEEEECCChHHHHHHHHHHHH
Confidence 35566777787777765553 33444555554 67999999999999999887653
No 306
>PLN02707 Soluble inorganic pyrophosphatase
Probab=20.97 E-value=46 Score=33.21 Aligned_cols=42 Identities=24% Similarity=0.397 Sum_probs=28.5
Q ss_pred HHHHHHHhhcCCCeEEEEEeecCCCCCcccEEEE-EeCCHHHHHHHHHHhcc
Q 012289 19 EERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFV-VFADPAVAEIVIQEKHN 69 (466)
Q Consensus 19 eeeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFV-eF~~~e~A~~Al~~~~~ 69 (466)
-++|+++|+.| ++.+ . +..+-|+|+ +|.+.+.|.+.|++.++
T Consensus 207 l~~I~~fF~~Y-K~~e-----G---K~~n~~~~~~~~~~~~~A~~vI~e~~~ 249 (267)
T PLN02707 207 LTAIRDWFRDY-KIPD-----G---KPANKFGLDNKPMDKDYALKVIEETNE 249 (267)
T ss_pred HHHHHHHHHHh-cCCC-----C---CceeeccccCCcCCHHHHHHHHHHHHH
Confidence 47889999988 2222 1 112236665 79999999999987655
No 307
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=20.82 E-value=53 Score=30.80 Aligned_cols=61 Identities=13% Similarity=0.167 Sum_probs=38.5
Q ss_pred cceeeecCCCCCCCHHHHHHHHhhc-CCeeEEEEEecCCC-CCcceEEEEEecCHHHHHHHHHHCCCC
Q 012289 105 TRKIFVGGLASTVTESDFKKYFDQF-GTITDVVVMYDHNT-QRPRGFGFITYDSEEAVDKVKRAVPKE 170 (466)
Q Consensus 105 ~~~LfV~nLp~~vteedLk~~F~~f-G~I~~v~i~~d~~t-g~~rG~aFV~F~s~e~A~~Ai~~l~~~ 170 (466)
.+++|.. .|+++|.++.+=- +.+..|.+-+..+. ...+|-.||+|.+.+.|.+.++.-...
T Consensus 111 ~r~v~~K-----~td~ql~~l~qw~~~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~~~e~~ 173 (205)
T KOG4213|consen 111 ERTVYKK-----ITDDQLDDLNQWASGKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDDTHEEK 173 (205)
T ss_pred Hhhhhcc-----CCHHHHHHHHHHhcccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhhhhhhh
Confidence 3456655 5555555554322 57766665443221 256899999999999999876655443
No 308
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=20.71 E-value=2.7e+02 Score=21.48 Aligned_cols=44 Identities=23% Similarity=0.180 Sum_probs=29.1
Q ss_pred HHHHHHhhcCCCeEEEEEeecCCCCCcccEEEEEeCCHHHHHHHHHHhc
Q 012289 20 ERLKEYFSTYGEVVEAVIMKDRNTGRARGFGFVVFADPAVAEIVIQEKH 68 (466)
Q Consensus 20 eeL~~~F~~~G~V~~v~i~~d~~tg~srGfaFVeF~~~e~A~~Al~~~~ 68 (466)
++|++.++++| +.-+.|.-. -.-++.|+.+.+++.++++++.+.
T Consensus 37 ~~~~~~~~~~G-a~~~~~sGs----G~G~~v~~l~~~~~~~~~v~~~l~ 80 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMSGS----GGGPTVFALCKDEDDAERVAEALR 80 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEETT----SSSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecCCC----CCCCeEEEEECCHHHHHHHHHHHH
Confidence 45777778888 444444221 013588888889999988887653
No 309
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=20.65 E-value=2.1e+02 Score=24.14 Aligned_cols=48 Identities=15% Similarity=0.342 Sum_probs=27.6
Q ss_pred cCcHHHHHHHhh-cCCCeEEEEEeecCC----CCCcccEEEEEeCCHHHHHHHH
Q 012289 16 DTNEERLKEYFS-TYGEVVEAVIMKDRN----TGRARGFGFVVFADPAVAEIVI 64 (466)
Q Consensus 16 ~~teeeL~~~F~-~~G~V~~v~i~~d~~----tg~srGfaFVeF~~~e~A~~Al 64 (466)
..+..||++-+. .+..=.+..++..-. .++++|||.| |.+.+.|++.-
T Consensus 30 tpsr~eirekLa~~~~~~~~~vvv~~~~t~fG~g~s~G~a~I-Yds~e~~kk~E 82 (99)
T PRK01178 30 TPSRKDVRKKLAAMLNADKELVVVRKIKTEYGMGKSKGYAKV-YDDKERARKIE 82 (99)
T ss_pred CCCHHHHHHHHHHHHCcCCCEEEEEccCccCCCceEEEEEEE-ECCHHHHHhhC
Confidence 457788887664 454333344433322 2567777776 67777666543
No 310
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=20.61 E-value=3.6e+02 Score=19.99 Aligned_cols=57 Identities=9% Similarity=0.100 Sum_probs=36.0
Q ss_pred eeeecCCCCCC-CHHHHHHHHhhcC-CeeEEEEEecCCCCCcceEEEEEecCHHHHHHHHHHCC
Q 012289 107 KIFVGGLASTV-TESDFKKYFDQFG-TITDVVVMYDHNTQRPRGFGFITYDSEEAVDKVKRAVP 168 (466)
Q Consensus 107 ~LfV~nLp~~v-teedLk~~F~~fG-~I~~v~i~~d~~tg~~rG~aFV~F~s~e~A~~Ai~~l~ 168 (466)
+|.| -++... .-.+|-++|.+.+ .|+.+.+....+ +....|.+++.+.+.++++...
T Consensus 3 ri~v-~v~d~pG~La~v~~~l~~~~inI~~i~~~~~~~----~~~~rl~~~~~~~~~~~L~~~G 61 (66)
T cd04908 3 QLSV-FLENKPGRLAAVTEILSEAGINIRALSIADTSE----FGILRLIVSDPDKAKEALKEAG 61 (66)
T ss_pred EEEE-EEcCCCChHHHHHHHHHHCCCCEEEEEEEecCC----CCEEEEEECCHHHHHHHHHHCC
Confidence 3444 244433 4467888887776 477777654322 4566666777778888877654
No 311
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=20.33 E-value=5.3e+02 Score=24.36 Aligned_cols=29 Identities=3% Similarity=-0.041 Sum_probs=20.2
Q ss_pred EEEEEeCCHHHHHHHHHHhccC--CCceEEE
Q 012289 49 FGFVVFADPAVAEIVIQEKHNI--DGRMVEA 77 (466)
Q Consensus 49 faFVeF~~~e~A~~Al~~~~~i--~Gr~I~V 77 (466)
+.+|...+.+.+..+.+.+.+. ..++|-+
T Consensus 97 ~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~ 127 (270)
T cd06308 97 TAYIGADNYEIGRQAGEYIANLLPGKGNILE 127 (270)
T ss_pred eEEeecCcHHHHHHHHHHHHHHcCCCceEEE
Confidence 5689998888888888776653 3444443
No 312
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=20.24 E-value=6.7e+02 Score=23.68 Aligned_cols=22 Identities=5% Similarity=-0.002 Sum_probs=17.9
Q ss_pred cEEEEEeCCHHHHHHHHHHhcc
Q 012289 48 GFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 48 GfaFVeF~~~e~A~~Al~~~~~ 69 (466)
.+.+|.+.+.+.++.+.+.+..
T Consensus 94 ~~~~V~~D~~~~g~~a~~~l~~ 115 (271)
T cd06314 94 RYVYIGTDNYAAGRTAGEIMKK 115 (271)
T ss_pred eeEEEccChHHHHHHHHHHHHH
Confidence 4678999999988888887655
No 313
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=20.07 E-value=3.9e+02 Score=25.23 Aligned_cols=23 Identities=9% Similarity=0.193 Sum_probs=18.3
Q ss_pred ccEEEEEeCCHHHHHHHHHHhcc
Q 012289 47 RGFGFVVFADPAVAEIVIQEKHN 69 (466)
Q Consensus 47 rGfaFVeF~~~e~A~~Al~~~~~ 69 (466)
..+.+|.+.+.+.+..+.+.+..
T Consensus 96 ~~~~~V~~d~~~~g~~~~~~l~~ 118 (272)
T cd06301 96 KGVAYVGSDEVVAGRLQAEYVAD 118 (272)
T ss_pred CeeEEEecChHHHHHHHHHHHHH
Confidence 45889999998888888776654
Done!