Query 025499
Match_columns 252
No_of_seqs 212 out of 2317
Neff 10.6
Searched_HMMs 46136
Date Fri Mar 29 06:28:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025499.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025499hhsearch_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 1.9E-34 4.2E-39 232.6 20.4 163 4-203 105-274 (346)
2 TIGR01661 ELAV_HUD_SF ELAV/HuD 100.0 1.6E-32 3.5E-37 226.1 24.4 197 4-204 1-349 (352)
3 KOG0105 Alternative splicing f 100.0 2.7E-32 5.9E-37 191.8 21.4 203 1-215 1-203 (241)
4 TIGR01645 half-pint poly-U bin 100.0 1.8E-32 3.9E-37 232.2 21.1 174 4-205 105-285 (612)
5 TIGR01622 SF-CC1 splicing fact 100.0 6.5E-31 1.4E-35 223.6 21.1 172 4-203 87-265 (457)
6 TIGR01649 hnRNP-L_PTB hnRNP-L/ 100.0 3.5E-30 7.7E-35 218.9 21.8 170 5-202 1-172 (481)
7 TIGR01649 hnRNP-L_PTB hnRNP-L/ 100.0 1.4E-29 2.9E-34 215.3 24.4 192 4-202 273-478 (481)
8 KOG0148 Apoptosis-promoting RN 100.0 1.2E-30 2.7E-35 193.9 13.9 169 7-200 63-234 (321)
9 TIGR01648 hnRNP-R-Q heterogene 100.0 1.2E-28 2.5E-33 208.8 24.4 190 6-203 58-306 (578)
10 TIGR01628 PABP-1234 polyadenyl 100.0 2.5E-29 5.4E-34 218.6 20.0 158 8-202 2-165 (562)
11 TIGR01642 U2AF_lg U2 snRNP aux 100.0 4.8E-28 1E-32 208.7 22.5 185 4-202 173-373 (509)
12 TIGR01628 PABP-1234 polyadenyl 100.0 1.2E-28 2.5E-33 214.4 18.5 178 5-203 177-363 (562)
13 KOG0117 Heterogeneous nuclear 100.0 2E-28 4.3E-33 193.8 16.5 185 6-202 83-329 (506)
14 KOG0144 RNA-binding protein CU 100.0 5.5E-29 1.2E-33 196.1 12.6 167 5-206 33-208 (510)
15 TIGR01642 U2AF_lg U2 snRNP aux 100.0 1.8E-27 3.8E-32 205.3 22.0 188 4-202 293-500 (509)
16 KOG0145 RNA-binding protein EL 100.0 1E-27 2.3E-32 177.5 14.6 164 4-204 39-209 (360)
17 KOG0131 Splicing factor 3b, su 100.0 7.5E-28 1.6E-32 169.1 12.6 165 4-206 7-179 (203)
18 TIGR01622 SF-CC1 splicing fact 100.0 1.3E-26 2.9E-31 197.2 23.0 193 6-202 186-446 (457)
19 KOG0109 RNA-binding protein LA 100.0 5.1E-28 1.1E-32 181.7 10.7 146 7-202 3-148 (346)
20 KOG0127 Nucleolar protein fibr 99.9 8E-26 1.7E-30 183.2 16.2 182 6-202 5-194 (678)
21 KOG0127 Nucleolar protein fibr 99.9 4.1E-25 8.8E-30 179.1 19.6 194 5-202 116-376 (678)
22 KOG0145 RNA-binding protein EL 99.9 5.7E-25 1.2E-29 163.1 16.7 193 6-202 127-356 (360)
23 KOG0106 Alternative splicing f 99.9 3.6E-25 7.7E-30 163.4 12.1 165 7-199 2-166 (216)
24 KOG0123 Polyadenylate-binding 99.9 5.1E-24 1.1E-28 173.1 16.4 150 7-204 2-153 (369)
25 KOG0124 Polypyrimidine tract-b 99.9 2.6E-24 5.7E-29 166.8 12.0 171 7-205 114-291 (544)
26 KOG0146 RNA-binding protein ET 99.9 1.1E-23 2.3E-28 157.0 14.5 194 5-202 18-363 (371)
27 KOG0144 RNA-binding protein CU 99.9 7.2E-24 1.6E-28 167.4 10.6 194 5-202 123-502 (510)
28 KOG0110 RNA-binding protein (R 99.9 2.5E-23 5.5E-28 173.6 13.4 165 8-202 517-691 (725)
29 KOG4206 Spliceosomal protein s 99.9 1E-21 2.2E-26 143.7 19.4 196 1-201 4-219 (221)
30 TIGR01645 half-pint poly-U bin 99.9 3.6E-21 7.7E-26 163.8 22.7 79 5-83 203-284 (612)
31 KOG0123 Polyadenylate-binding 99.9 1.7E-21 3.7E-26 158.4 14.9 168 4-203 74-245 (369)
32 KOG1457 RNA binding protein (c 99.9 5.5E-21 1.2E-25 138.9 14.9 184 5-188 33-274 (284)
33 KOG4205 RNA-binding protein mu 99.9 1.4E-21 3E-26 153.6 12.2 168 1-203 1-175 (311)
34 KOG0147 Transcriptional coacti 99.9 3.4E-21 7.4E-26 156.9 13.8 190 8-202 280-526 (549)
35 KOG0107 Alternative splicing f 99.9 1.6E-20 3.5E-25 131.5 15.0 78 4-83 8-85 (195)
36 KOG0107 Alternative splicing f 99.9 9.5E-21 2.1E-25 132.7 12.7 75 124-203 10-84 (195)
37 PLN03134 glycine-rich RNA-bind 99.9 2.8E-20 6.1E-25 132.4 14.6 81 4-84 32-115 (144)
38 KOG0148 Apoptosis-promoting RN 99.8 1.4E-20 3E-25 140.6 11.1 139 1-205 1-143 (321)
39 KOG1190 Polypyrimidine tract-b 99.8 5.2E-19 1.1E-23 139.3 18.0 192 6-202 297-489 (492)
40 KOG0147 Transcriptional coacti 99.8 2.5E-21 5.5E-26 157.6 4.8 173 4-202 177-356 (549)
41 KOG1548 Transcription elongati 99.8 1.8E-18 3.9E-23 133.6 14.6 193 5-203 133-351 (382)
42 KOG4212 RNA-binding protein hn 99.8 3.6E-18 7.8E-23 135.7 16.7 192 6-201 44-291 (608)
43 KOG4207 Predicted splicing fac 99.8 1.3E-18 2.9E-23 125.1 11.4 76 123-202 12-91 (256)
44 KOG4211 Splicing factor hnRNP- 99.8 1.8E-17 3.9E-22 133.7 16.2 167 5-202 9-180 (510)
45 KOG0121 Nuclear cap-binding pr 99.8 9E-19 1.9E-23 116.4 6.9 80 4-83 34-116 (153)
46 KOG0110 RNA-binding protein (R 99.8 1.1E-17 2.3E-22 140.3 14.3 192 4-202 383-596 (725)
47 PF00076 RRM_1: RNA recognitio 99.8 2.6E-18 5.7E-23 107.9 7.6 68 9-76 1-70 (70)
48 KOG1190 Polypyrimidine tract-b 99.8 2.6E-18 5.7E-23 135.3 9.2 194 3-202 25-226 (492)
49 KOG4207 Predicted splicing fac 99.8 9.8E-18 2.1E-22 120.7 10.7 80 4-83 11-93 (256)
50 KOG4676 Splicing factor, argin 99.8 1.6E-18 3.4E-23 135.8 6.4 183 4-188 5-214 (479)
51 KOG0113 U1 small nuclear ribon 99.7 8.9E-17 1.9E-21 122.0 15.5 81 3-83 98-181 (335)
52 PLN03120 nucleic acid binding 99.7 1.3E-17 2.8E-22 126.7 10.6 77 6-83 4-80 (260)
53 TIGR01648 hnRNP-R-Q heterogene 99.7 1.9E-17 4.2E-22 141.0 12.6 137 5-153 232-370 (578)
54 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 1.6E-17 3.5E-22 137.0 11.3 78 6-83 269-349 (352)
55 TIGR01659 sex-lethal sex-letha 99.7 1.4E-16 3.1E-21 129.1 14.7 79 5-83 192-275 (346)
56 PLN03121 nucleic acid binding 99.7 4.8E-17 1.1E-21 121.7 10.8 81 1-83 1-81 (243)
57 KOG0122 Translation initiation 99.7 7.6E-17 1.6E-21 119.1 9.1 80 4-83 187-269 (270)
58 PLN03134 glycine-rich RNA-bind 99.7 7.1E-16 1.5E-20 109.8 13.9 83 119-205 29-115 (144)
59 PF14259 RRM_6: RNA recognitio 99.7 1.7E-16 3.7E-21 99.6 7.6 68 9-76 1-70 (70)
60 KOG0114 Predicted RNA-binding 99.7 3.6E-16 7.8E-21 100.2 8.9 80 4-83 16-95 (124)
61 KOG0124 Polypyrimidine tract-b 99.7 6.1E-15 1.3E-19 115.1 17.2 77 7-83 211-290 (544)
62 KOG0149 Predicted RNA-binding 99.7 1.8E-16 3.9E-21 116.7 7.3 75 7-82 13-90 (247)
63 KOG0125 Ataxin 2-binding prote 99.7 3.2E-16 6.9E-21 120.5 8.5 80 4-83 94-174 (376)
64 COG0724 RNA-binding proteins ( 99.7 4.4E-15 9.5E-20 118.7 14.4 145 6-162 115-263 (306)
65 KOG4212 RNA-binding protein hn 99.6 3E-14 6.4E-19 113.7 18.1 74 122-200 534-607 (608)
66 KOG1456 Heterogeneous nuclear 99.6 4.3E-14 9.3E-19 110.7 18.1 193 4-199 285-484 (494)
67 KOG0120 Splicing factor U2AF, 99.6 1.6E-15 3.5E-20 125.4 10.3 182 5-202 288-490 (500)
68 PLN03213 repressor of silencin 99.6 1.7E-15 3.7E-20 122.5 9.5 78 4-82 8-87 (759)
69 smart00362 RRM_2 RNA recogniti 99.6 4.2E-15 9.2E-20 93.4 9.3 71 8-78 1-72 (72)
70 KOG0130 RNA-binding protein RB 99.6 1E-15 2.2E-20 102.9 6.4 79 5-83 71-152 (170)
71 PF00076 RRM_1: RNA recognitio 99.6 8.4E-15 1.8E-19 91.8 8.3 67 127-197 1-70 (70)
72 KOG0111 Cyclophilin-type pepti 99.6 3.3E-15 7.2E-20 108.8 5.4 83 4-86 8-93 (298)
73 KOG0126 Predicted RNA-binding 99.6 3.1E-16 6.7E-21 110.8 -0.1 79 5-83 34-115 (219)
74 KOG0415 Predicted peptidyl pro 99.6 4.3E-15 9.3E-20 115.5 5.8 80 4-83 237-319 (479)
75 KOG0130 RNA-binding protein RB 99.6 2.9E-14 6.2E-19 96.0 8.6 85 119-207 67-156 (170)
76 KOG0113 U1 small nuclear ribon 99.6 9.3E-14 2E-18 105.7 12.3 77 122-202 99-179 (335)
77 cd00590 RRM RRM (RNA recogniti 99.6 6.1E-14 1.3E-18 88.5 9.6 72 8-79 1-74 (74)
78 PF13893 RRM_5: RNA recognitio 99.5 4.7E-14 1E-18 84.2 7.8 56 23-80 1-56 (56)
79 smart00360 RRM RNA recognition 99.5 5.1E-14 1.1E-18 88.1 8.2 68 11-78 1-71 (71)
80 PLN03120 nucleic acid binding 99.5 9.7E-14 2.1E-18 105.8 10.0 75 124-203 4-79 (260)
81 KOG0125 Ataxin 2-binding prote 99.5 6.6E-14 1.4E-18 107.9 8.8 76 123-202 95-172 (376)
82 KOG0105 Alternative splicing f 99.5 1.9E-13 4E-18 97.2 10.1 79 123-205 5-84 (241)
83 KOG1365 RNA-binding protein Fu 99.5 2.5E-14 5.4E-19 112.3 6.0 187 6-201 161-359 (508)
84 KOG1456 Heterogeneous nuclear 99.5 1E-11 2.2E-16 97.6 19.4 193 3-202 117-361 (494)
85 KOG0108 mRNA cleavage and poly 99.5 1.5E-13 3.2E-18 113.2 9.0 78 7-84 19-99 (435)
86 PF14259 RRM_6: RNA recognitio 99.5 1.9E-13 4.2E-18 85.6 7.3 67 127-197 1-70 (70)
87 KOG0129 Predicted RNA-binding 99.5 2.1E-12 4.5E-17 105.5 14.8 158 4-180 257-431 (520)
88 KOG0109 RNA-binding protein LA 99.5 8.5E-14 1.8E-18 105.6 6.2 93 4-101 76-168 (346)
89 KOG0121 Nuclear cap-binding pr 99.5 2.3E-13 5E-18 90.9 7.1 77 122-202 34-114 (153)
90 KOG0117 Heterogeneous nuclear 99.4 2.9E-13 6.4E-18 108.4 7.7 78 6-88 259-336 (506)
91 PLN03121 nucleic acid binding 99.4 1.1E-12 2.3E-17 98.6 10.2 76 123-203 4-80 (243)
92 KOG0114 Predicted RNA-binding 99.4 1.4E-12 3.1E-17 83.8 9.0 80 119-202 13-93 (124)
93 PLN03213 repressor of silencin 99.4 9.1E-13 2E-17 107.0 10.2 76 123-202 9-86 (759)
94 smart00361 RRM_1 RNA recogniti 99.4 1.9E-12 4.2E-17 80.8 7.9 58 20-77 2-69 (70)
95 KOG0132 RNA polymerase II C-te 99.4 9.1E-13 2E-17 112.1 8.3 78 4-84 419-496 (894)
96 KOG0120 Splicing factor U2AF, 99.4 1.9E-12 4.1E-17 107.4 10.0 179 4-202 173-367 (500)
97 smart00362 RRM_2 RNA recogniti 99.4 2.7E-12 5.9E-17 80.4 8.6 69 126-198 1-71 (72)
98 KOG0146 RNA-binding protein ET 99.4 6E-13 1.3E-17 100.0 5.5 81 3-83 282-365 (371)
99 KOG0122 Translation initiation 99.4 5.4E-12 1.2E-16 93.7 10.1 79 120-202 185-267 (270)
100 KOG0112 Large RNA-binding prot 99.3 1.3E-12 2.8E-17 112.9 5.1 158 4-202 370-529 (975)
101 KOG4454 RNA binding protein (R 99.3 1.7E-12 3.8E-17 94.7 4.4 140 4-188 7-151 (267)
102 smart00360 RRM RNA recognition 99.3 1.5E-11 3.2E-16 76.7 8.0 66 129-198 1-70 (71)
103 cd00590 RRM RRM (RNA recogniti 99.3 3E-11 6.4E-16 76.0 9.2 70 126-199 1-73 (74)
104 KOG0131 Splicing factor 3b, su 99.3 8.2E-12 1.8E-16 88.7 6.2 79 120-202 5-87 (203)
105 PF13893 RRM_5: RNA recognitio 99.3 1.4E-11 3E-16 73.4 6.4 56 141-201 1-56 (56)
106 KOG0153 Predicted RNA-binding 99.3 3.1E-11 6.8E-16 94.0 8.8 77 4-83 226-303 (377)
107 KOG4208 Nucleolar RNA-binding 99.2 3.8E-11 8.3E-16 87.1 7.7 80 4-83 47-130 (214)
108 KOG0533 RRM motif-containing p 99.2 5.6E-10 1.2E-14 85.0 14.0 78 6-83 83-162 (243)
109 KOG0415 Predicted peptidyl pro 99.2 4.4E-11 9.5E-16 93.4 7.2 77 120-200 235-315 (479)
110 KOG0111 Cyclophilin-type pepti 99.2 1.9E-11 4.1E-16 89.4 4.8 79 123-205 9-91 (298)
111 KOG0126 Predicted RNA-binding 99.2 1.6E-12 3.4E-17 92.2 -0.9 74 125-202 36-113 (219)
112 KOG0116 RasGAP SH3 binding pro 99.2 2.7E-10 5.8E-15 93.6 10.9 77 6-83 288-367 (419)
113 KOG0149 Predicted RNA-binding 99.2 7.8E-11 1.7E-15 87.3 6.8 58 124-181 12-73 (247)
114 KOG4211 Splicing factor hnRNP- 99.2 7.8E-10 1.7E-14 90.2 12.8 188 4-198 101-352 (510)
115 KOG4661 Hsp27-ERE-TATA-binding 99.2 2.2E-10 4.7E-15 94.9 9.5 80 5-84 404-486 (940)
116 KOG0108 mRNA cleavage and poly 99.2 9.4E-11 2E-15 96.9 7.4 82 125-210 19-104 (435)
117 COG0724 RNA-binding proteins ( 99.1 4.7E-10 1E-14 89.5 9.5 75 124-202 115-193 (306)
118 KOG4660 Protein Mei2, essentia 99.1 1.8E-10 3.8E-15 95.2 5.8 167 3-188 72-238 (549)
119 KOG2193 IGF-II mRNA-binding pr 99.1 3.9E-11 8.5E-16 95.8 1.1 148 7-200 2-153 (584)
120 smart00361 RRM_1 RNA recogniti 99.0 1.5E-09 3.2E-14 67.7 7.3 57 138-198 2-69 (70)
121 KOG4205 RNA-binding protein mu 99.0 6.1E-10 1.3E-14 88.3 6.6 81 6-87 97-180 (311)
122 KOG0128 RNA-binding protein SA 99.0 2E-11 4.4E-16 105.2 -2.2 132 5-188 666-803 (881)
123 KOG4210 Nuclear localization s 99.0 1.2E-09 2.6E-14 86.3 6.6 176 5-211 87-271 (285)
124 KOG4206 Spliceosomal protein s 98.9 5E-09 1.1E-13 77.5 8.1 75 125-203 10-89 (221)
125 KOG0106 Alternative splicing f 98.9 4.4E-09 9.6E-14 78.5 7.3 70 125-202 2-71 (216)
126 PF04059 RRM_2: RNA recognitio 98.9 1.5E-08 3.2E-13 66.3 8.9 76 7-82 2-86 (97)
127 KOG0151 Predicted splicing reg 98.9 1.7E-08 3.7E-13 85.9 11.4 80 4-83 172-257 (877)
128 KOG4661 Hsp27-ERE-TATA-binding 98.8 4.2E-08 9.2E-13 81.7 10.8 79 122-204 403-485 (940)
129 KOG4307 RNA binding protein RB 98.8 5.6E-08 1.2E-12 82.7 10.4 188 5-200 310-510 (944)
130 KOG4209 Splicing factor RNPS1, 98.8 1.2E-08 2.6E-13 78.1 5.6 79 4-83 99-180 (231)
131 KOG4307 RNA binding protein RB 98.8 4.1E-07 9E-12 77.6 14.7 76 5-80 433-511 (944)
132 PF11608 Limkain-b1: Limkain b 98.7 8.5E-08 1.8E-12 59.7 7.7 70 7-83 3-77 (90)
133 KOG1365 RNA-binding protein Fu 98.7 8.3E-08 1.8E-12 76.2 9.1 170 4-198 58-237 (508)
134 KOG0132 RNA polymerase II C-te 98.7 5.6E-08 1.2E-12 83.6 7.3 73 124-202 421-493 (894)
135 KOG0116 RasGAP SH3 binding pro 98.7 1.9E-06 4.2E-11 71.3 15.3 76 123-203 287-366 (419)
136 KOG0153 Predicted RNA-binding 98.6 1.5E-07 3.2E-12 73.9 8.1 79 116-200 220-299 (377)
137 KOG0533 RRM motif-containing p 98.6 1.7E-07 3.6E-12 71.7 8.1 75 124-202 83-160 (243)
138 KOG1457 RNA binding protein (c 98.6 6.6E-07 1.4E-11 66.2 10.1 82 123-205 33-119 (284)
139 KOG0226 RNA-binding proteins [ 98.6 1E-07 2.2E-12 71.8 5.2 161 9-202 99-268 (290)
140 KOG4454 RNA binding protein (R 98.6 3.5E-08 7.6E-13 72.6 2.5 75 122-200 7-83 (267)
141 KOG2416 Acinus (induces apopto 98.6 4.1E-07 8.8E-12 76.3 8.8 76 4-82 442-521 (718)
142 PF04059 RRM_2: RNA recognitio 98.6 1.4E-06 3E-11 57.1 9.6 78 125-202 2-85 (97)
143 KOG4208 Nucleolar RNA-binding 98.5 4.1E-07 8.8E-12 66.5 7.6 79 118-200 43-126 (214)
144 KOG0226 RNA-binding proteins [ 98.5 1.5E-07 3.2E-12 70.8 5.0 78 4-81 188-268 (290)
145 KOG2202 U2 snRNP splicing fact 98.5 3.4E-08 7.3E-13 74.5 1.5 62 21-82 83-147 (260)
146 KOG4660 Protein Mei2, essentia 98.5 2.6E-07 5.5E-12 76.9 5.9 71 122-197 73-143 (549)
147 KOG1548 Transcription elongati 98.5 9.8E-07 2.1E-11 69.4 8.2 77 122-202 132-219 (382)
148 PF08777 RRM_3: RNA binding mo 98.5 4.6E-07 1E-11 60.7 5.6 71 7-80 2-77 (105)
149 KOG4209 Splicing factor RNPS1, 98.4 1.6E-06 3.5E-11 66.4 8.4 76 122-202 99-178 (231)
150 PF11608 Limkain-b1: Limkain b 98.4 4.8E-06 1E-10 52.0 7.8 69 125-203 3-76 (90)
151 KOG1995 Conserved Zn-finger pr 98.3 7.6E-07 1.7E-11 70.5 4.6 81 4-84 64-155 (351)
152 PF08777 RRM_3: RNA binding mo 98.3 1.3E-06 2.9E-11 58.5 4.9 59 125-185 2-60 (105)
153 KOG0151 Predicted splicing reg 98.2 5E-06 1.1E-10 71.3 8.2 84 114-201 164-254 (877)
154 KOG4676 Splicing factor, argin 98.2 2.3E-06 5.1E-11 68.3 5.9 61 126-187 9-76 (479)
155 COG5175 MOT2 Transcriptional r 98.2 4.7E-06 1E-10 65.4 6.5 76 6-81 114-201 (480)
156 KOG3152 TBP-binding protein, a 98.1 1.3E-06 2.9E-11 65.9 2.6 70 5-74 73-157 (278)
157 PF14605 Nup35_RRM_2: Nup53/35 98.1 8.7E-06 1.9E-10 47.3 5.3 53 6-62 1-53 (53)
158 KOG4210 Nuclear localization s 98.1 4.4E-06 9.5E-11 66.3 4.7 80 3-83 181-264 (285)
159 KOG4849 mRNA cleavage factor I 98.0 4.1E-06 9E-11 66.0 3.5 77 5-81 79-160 (498)
160 KOG1855 Predicted RNA-binding 97.9 2.7E-05 5.9E-10 63.2 6.6 63 5-67 230-308 (484)
161 PF05172 Nup35_RRM: Nup53/35/4 97.9 8.5E-05 1.8E-09 49.1 7.6 76 4-81 4-90 (100)
162 KOG2202 U2 snRNP splicing fact 97.9 3.4E-05 7.4E-10 58.6 5.9 58 139-200 83-144 (260)
163 KOG0115 RNA-binding protein p5 97.9 7.4E-05 1.6E-09 56.7 7.5 101 58-200 7-110 (275)
164 KOG2314 Translation initiation 97.8 6.9E-05 1.5E-09 63.0 7.1 76 5-80 57-141 (698)
165 PF08952 DUF1866: Domain of un 97.8 0.0002 4.3E-09 50.2 7.5 74 4-83 25-107 (146)
166 KOG0128 RNA-binding protein SA 97.7 6.6E-05 1.4E-09 66.0 6.1 78 6-83 736-815 (881)
167 KOG0129 Predicted RNA-binding 97.7 0.00011 2.5E-09 61.1 7.0 60 4-63 368-431 (520)
168 PF14605 Nup35_RRM_2: Nup53/35 97.7 0.00012 2.6E-09 42.4 5.0 52 125-179 2-53 (53)
169 KOG1995 Conserved Zn-finger pr 97.7 0.00022 4.7E-09 56.9 7.6 78 121-202 63-152 (351)
170 KOG1996 mRNA splicing factor [ 97.6 0.00027 5.9E-09 54.7 6.7 60 138-201 300-364 (378)
171 KOG1855 Predicted RNA-binding 97.5 0.00054 1.2E-08 55.9 8.0 66 122-187 229-311 (484)
172 KOG0112 Large RNA-binding prot 97.5 0.00043 9.4E-09 61.5 7.8 78 3-83 452-531 (975)
173 COG5175 MOT2 Transcriptional r 97.5 0.00036 7.8E-09 55.1 6.3 76 122-201 112-200 (480)
174 KOG2314 Translation initiation 97.4 0.00066 1.4E-08 57.3 7.7 66 123-188 57-131 (698)
175 KOG2253 U1 snRNP complex, subu 97.4 5.2E-06 1.1E-10 70.8 -4.6 71 4-80 38-108 (668)
176 KOG2416 Acinus (induces apopto 97.4 0.00014 3E-09 61.6 3.5 77 121-200 441-518 (718)
177 KOG1996 mRNA splicing factor [ 97.4 0.00058 1.2E-08 53.0 6.4 63 20-82 300-366 (378)
178 KOG3152 TBP-binding protein, a 97.3 0.00018 3.8E-09 54.7 2.9 64 125-188 75-154 (278)
179 PF08675 RNA_bind: RNA binding 97.2 0.0019 4E-08 40.6 6.0 55 6-66 9-63 (87)
180 KOG0115 RNA-binding protein p5 97.2 0.0023 4.9E-08 48.9 7.6 75 7-81 32-112 (275)
181 PF15023 DUF4523: Protein of u 97.2 0.0043 9.3E-08 43.1 8.0 76 3-83 83-162 (166)
182 PF05172 Nup35_RRM: Nup53/35/4 97.2 0.0018 3.9E-08 42.8 6.0 63 124-188 6-79 (100)
183 PF08952 DUF1866: Domain of un 97.1 0.0034 7.3E-08 44.2 7.2 71 123-202 26-105 (146)
184 PF03467 Smg4_UPF3: Smg-4/UPF3 97.1 0.00059 1.3E-08 50.4 3.5 79 4-82 5-97 (176)
185 PF07576 BRAP2: BRCA1-associat 97.0 0.0092 2E-07 40.3 8.3 76 5-80 12-92 (110)
186 PF10309 DUF2414: Protein of u 96.9 0.011 2.4E-07 35.2 7.0 53 7-65 6-62 (62)
187 PF10309 DUF2414: Protein of u 96.9 0.014 2.9E-07 34.8 7.3 54 125-182 6-62 (62)
188 PF07576 BRAP2: BRCA1-associat 96.5 0.038 8.2E-07 37.3 8.6 64 125-188 14-80 (110)
189 PF03880 DbpA: DbpA RNA bindin 96.5 0.022 4.9E-07 35.5 7.0 66 8-80 2-74 (74)
190 KOG2135 Proteins containing th 96.5 0.0024 5.2E-08 52.9 3.2 76 5-84 371-447 (526)
191 KOG4285 Mitotic phosphoprotein 96.5 0.012 2.6E-07 46.2 6.6 71 8-83 199-270 (350)
192 KOG0835 Cyclin L [General func 96.4 0.0037 8.1E-08 49.5 3.5 19 45-63 173-191 (367)
193 PF11767 SET_assoc: Histone ly 96.3 0.032 6.9E-07 33.8 6.6 55 17-77 11-65 (66)
194 KOG2068 MOT2 transcription fac 96.3 0.0017 3.7E-08 51.6 1.3 77 7-83 78-163 (327)
195 KOG2591 c-Mpl binding protein, 96.3 0.007 1.5E-07 51.3 4.8 71 5-79 174-248 (684)
196 KOG2135 Proteins containing th 96.3 0.0067 1.5E-07 50.4 4.4 72 122-200 370-442 (526)
197 PF04847 Calcipressin: Calcipr 96.2 0.02 4.4E-07 42.5 6.5 62 19-83 8-71 (184)
198 PF06495 Transformer: Fruit fl 96.2 0.004 8.6E-08 44.6 2.5 6 244-249 102-107 (182)
199 KOG2193 IGF-II mRNA-binding pr 96.2 0.00055 1.2E-08 55.8 -2.0 78 6-83 80-157 (584)
200 KOG2591 c-Mpl binding protein, 96.1 0.032 7E-07 47.5 7.9 56 124-182 175-232 (684)
201 KOG0804 Cytoplasmic Zn-finger 96.1 0.035 7.6E-07 46.0 7.7 65 124-188 74-141 (493)
202 KOG0804 Cytoplasmic Zn-finger 96.0 0.035 7.6E-07 46.1 7.2 68 5-72 73-142 (493)
203 PF08675 RNA_bind: RNA binding 95.8 0.03 6.4E-07 35.3 4.8 56 125-184 9-64 (87)
204 KOG0835 Cyclin L [General func 95.7 0.016 3.5E-07 46.1 4.1 12 135-146 212-223 (367)
205 PF15023 DUF4523: Protein of u 95.2 0.049 1.1E-06 38.0 4.7 59 125-186 87-149 (166)
206 KOG4849 mRNA cleavage factor I 95.2 0.045 9.8E-07 43.9 5.1 66 123-188 79-150 (498)
207 PF03467 Smg4_UPF3: Smg-4/UPF3 94.5 0.041 8.9E-07 40.7 3.2 79 124-202 7-96 (176)
208 KOG4574 RNA-binding protein (c 94.3 0.034 7.5E-07 49.7 2.7 72 10-84 302-375 (1007)
209 KOG4574 RNA-binding protein (c 94.1 0.044 9.6E-07 49.0 2.9 73 126-202 300-372 (1007)
210 PF04847 Calcipressin: Calcipr 93.9 0.27 6E-06 36.5 6.4 60 137-202 8-69 (184)
211 PF07292 NID: Nmi/IFP 35 domai 93.9 0.15 3.3E-06 32.8 4.4 71 48-145 1-73 (88)
212 KOG2318 Uncharacterized conser 93.4 0.6 1.3E-05 40.4 8.2 78 3-80 171-305 (650)
213 KOG4246 Predicted DNA-binding 93.4 0.031 6.6E-07 49.9 0.7 31 222-252 330-362 (1194)
214 KOG2253 U1 snRNP complex, subu 93.3 0.23 5E-06 43.4 5.8 66 118-188 34-99 (668)
215 KOG4285 Mitotic phosphoprotein 92.6 0.29 6.2E-06 38.7 4.9 59 126-188 199-257 (350)
216 KOG2068 MOT2 transcription fac 91.8 0.075 1.6E-06 42.6 1.0 70 125-198 78-157 (327)
217 PF14111 DUF4283: Domain of un 91.7 0.19 4.1E-06 36.1 3.0 120 9-160 18-141 (153)
218 PF10567 Nab6_mRNP_bdg: RNA-re 91.1 0.51 1.1E-05 37.3 4.9 168 6-183 15-212 (309)
219 KOG2888 Putative RNA binding p 90.2 0.12 2.6E-06 41.2 0.8 22 228-249 380-401 (453)
220 PF03880 DbpA: DbpA RNA bindin 89.6 1.7 3.6E-05 27.0 5.5 59 134-201 11-74 (74)
221 KOG2891 Surface glycoprotein [ 89.2 0.16 3.4E-06 39.6 0.7 66 5-70 148-247 (445)
222 PRK14548 50S ribosomal protein 88.7 2.3 5E-05 27.2 5.7 57 9-65 23-81 (84)
223 KOG2888 Putative RNA binding p 88.2 0.21 4.5E-06 40.0 0.8 8 22-29 173-180 (453)
224 TIGR03636 L23_arch archaeal ri 88.0 2.9 6.4E-05 26.2 5.7 58 8-65 15-74 (77)
225 KOG3580 Tight junction protein 87.7 3.8 8.1E-05 36.0 7.9 40 121-160 58-98 (1027)
226 KOG4246 Predicted DNA-binding 84.9 0.51 1.1E-05 42.6 1.5 12 46-57 60-71 (1194)
227 KOG4019 Calcineurin-mediated s 83.8 1.4 2.9E-05 32.4 3.0 75 6-83 10-90 (193)
228 KOG4483 Uncharacterized conser 82.8 4.3 9.4E-05 33.7 5.8 62 4-70 389-451 (528)
229 PF08734 GYD: GYD domain; Int 81.4 9.3 0.0002 24.8 6.1 46 138-183 22-68 (91)
230 PF03468 XS: XS domain; Inter 81.0 1.9 4.2E-05 29.5 2.9 55 9-63 11-75 (116)
231 PF02714 DUF221: Domain of unk 80.2 3.9 8.4E-05 33.5 5.0 33 48-82 1-33 (325)
232 KOG4213 RNA-binding protein La 79.8 2.6 5.6E-05 30.9 3.3 46 18-63 118-168 (205)
233 PF14893 PNMA: PNMA 78.4 3.1 6.7E-05 34.1 3.8 55 1-55 13-72 (331)
234 KOG2318 Uncharacterized conser 78.4 18 0.00038 31.9 8.2 78 121-200 171-304 (650)
235 KOG4410 5-formyltetrahydrofola 77.7 5.8 0.00013 31.4 4.8 47 6-55 330-377 (396)
236 KOG1295 Nonsense-mediated deca 77.7 2.6 5.6E-05 34.8 3.1 67 4-70 5-77 (376)
237 PF11767 SET_assoc: Histone ly 76.7 14 0.00031 22.4 5.4 49 135-188 11-59 (66)
238 PF15513 DUF4651: Domain of un 75.3 8.5 0.00018 22.9 4.0 18 21-38 9-26 (62)
239 PRK14548 50S ribosomal protein 73.8 21 0.00045 22.9 6.7 56 127-182 23-81 (84)
240 KOG4008 rRNA processing protei 73.6 3.5 7.6E-05 31.6 2.7 35 4-38 38-72 (261)
241 KOG4483 Uncharacterized conser 72.4 12 0.00027 31.1 5.7 54 125-181 392-446 (528)
242 PF03468 XS: XS domain; Inter 70.4 16 0.00035 24.9 5.2 50 125-174 9-68 (116)
243 PTZ00191 60S ribosomal protein 69.6 21 0.00044 25.5 5.6 55 9-63 84-140 (145)
244 TIGR03636 L23_arch archaeal ri 68.5 26 0.00057 21.9 6.7 56 127-182 16-74 (77)
245 PF09707 Cas_Cas2CT1978: CRISP 67.6 16 0.00035 23.5 4.4 50 4-53 23-72 (86)
246 KOG2295 C2H2 Zn-finger protein 66.4 0.65 1.4E-05 39.9 -2.7 66 5-70 230-298 (648)
247 PF02829 3H: 3H domain; Inter 64.7 27 0.00058 23.1 5.1 52 16-67 7-58 (98)
248 PRK05738 rplW 50S ribosomal pr 55.7 54 0.0012 21.3 5.4 31 8-38 21-53 (92)
249 cd04889 ACT_PDH-BS-like C-term 54.2 39 0.00084 19.1 6.3 43 20-62 12-55 (56)
250 smart00596 PRE_C2HC PRE_C2HC d 54.1 38 0.00083 20.7 4.1 58 139-203 2-64 (69)
251 KOG1295 Nonsense-mediated deca 53.9 15 0.00032 30.5 3.0 64 125-188 8-78 (376)
252 PF12091 DUF3567: Protein of u 53.1 18 0.00038 23.1 2.6 17 133-149 59-75 (85)
253 KOG2146 Splicing coactivator S 52.7 20 0.00044 28.5 3.4 30 49-78 56-86 (354)
254 KOG3580 Tight junction protein 51.6 28 0.0006 31.0 4.4 7 125-131 40-46 (1027)
255 PRK11558 putative ssRNA endonu 51.1 38 0.00083 22.3 4.0 52 4-55 25-76 (97)
256 KOG4410 5-formyltetrahydrofola 49.8 1.4E+02 0.0029 24.1 8.6 47 125-172 331-377 (396)
257 PTZ00191 60S ribosomal protein 49.5 95 0.0021 22.2 6.5 54 127-180 84-140 (145)
258 PF03439 Spt5-NGN: Early trans 49.2 42 0.0009 21.3 4.0 27 41-67 40-66 (84)
259 KOG2146 Splicing coactivator S 48.9 19 0.00042 28.6 2.8 7 242-248 219-225 (354)
260 COG0445 GidA Flavin-dependent 48.8 99 0.0022 27.6 7.2 45 122-170 299-343 (621)
261 PRK10629 EnvZ/OmpR regulon mod 48.8 90 0.002 21.8 8.0 72 5-81 34-109 (127)
262 COG0018 ArgS Arginyl-tRNA synt 48.7 1.3E+02 0.0029 27.1 8.2 99 20-161 60-167 (577)
263 KOG4019 Calcineurin-mediated s 45.7 22 0.00048 26.3 2.5 71 126-202 12-88 (193)
264 PF01071 GARS_A: Phosphoribosy 45.2 90 0.0019 23.6 5.8 47 18-65 24-70 (194)
265 PF02714 DUF221: Domain of unk 44.9 29 0.00063 28.3 3.6 22 165-186 1-22 (325)
266 PF08544 GHMP_kinases_C: GHMP 43.3 79 0.0017 19.5 6.0 44 139-183 37-80 (85)
267 COG5227 SMT3 Ubiquitin-like pr 43.3 84 0.0018 20.3 4.5 64 3-67 31-100 (103)
268 cd04908 ACT_Bt0572_1 N-termina 42.6 71 0.0015 18.8 7.9 44 137-180 14-58 (66)
269 PF11823 DUF3343: Protein of u 42.2 37 0.0008 20.8 2.9 25 46-70 2-26 (73)
270 KOG0156 Cytochrome P450 CYP2 s 42.2 66 0.0014 28.3 5.4 59 10-75 36-97 (489)
271 PRK11634 ATP-dependent RNA hel 42.1 2.8E+02 0.006 25.4 9.9 68 8-82 488-562 (629)
272 PF10567 Nab6_mRNP_bdg: RNA-re 41.7 18 0.0004 28.9 1.8 36 125-160 16-51 (309)
273 COG4274 Uncharacterized conser 41.2 1.1E+02 0.0023 20.4 5.5 45 138-182 32-77 (104)
274 PHA01632 hypothetical protein 41.1 40 0.00087 19.4 2.6 22 126-147 18-39 (64)
275 PF15407 Spo7_2_N: Sporulation 41.1 10 0.00022 23.1 0.2 25 4-28 25-49 (67)
276 PF00403 HMA: Heavy-metal-asso 40.3 74 0.0016 18.3 5.8 54 8-64 1-58 (62)
277 TIGR01873 cas_CT1978 CRISPR-as 40.1 70 0.0015 20.6 3.9 50 4-54 23-74 (87)
278 PF07530 PRE_C2HC: Associated 39.7 88 0.0019 19.0 4.3 58 139-203 2-64 (68)
279 PF12829 Mhr1: Transcriptional 38.1 76 0.0016 20.7 3.9 53 132-184 20-73 (91)
280 PRK08559 nusG transcription an 37.5 1.4E+02 0.003 21.5 5.7 28 157-184 41-68 (153)
281 COG3254 Uncharacterized conser 37.4 1.3E+02 0.0027 20.2 5.4 42 138-179 26-68 (105)
282 PF11411 DNA_ligase_IV: DNA li 37.2 28 0.0006 18.2 1.4 16 16-31 19-34 (36)
283 PF08442 ATP-grasp_2: ATP-gras 36.5 1E+02 0.0023 23.4 5.1 54 18-71 25-81 (202)
284 COG0030 KsgA Dimethyladenosine 36.3 58 0.0013 25.9 3.8 30 7-36 96-125 (259)
285 KOG4365 Uncharacterized conser 36.3 5.4 0.00012 33.6 -1.9 76 6-82 3-81 (572)
286 KOG2295 C2H2 Zn-finger protein 35.2 8.2 0.00018 33.6 -1.1 67 122-188 229-299 (648)
287 PRK11230 glycolate oxidase sub 34.6 1.4E+02 0.003 26.4 6.2 59 7-65 190-254 (499)
288 PF14111 DUF4283: Domain of un 34.5 45 0.00097 23.6 2.8 33 9-41 107-140 (153)
289 PF00276 Ribosomal_L23: Riboso 34.2 1.3E+02 0.0028 19.4 5.0 30 9-38 22-53 (91)
290 PF14893 PNMA: PNMA 32.8 41 0.00089 27.8 2.6 48 124-171 18-71 (331)
291 cd00027 BRCT Breast Cancer Sup 31.1 85 0.0018 17.9 3.3 26 7-32 2-27 (72)
292 PRK11901 hypothetical protein; 31.0 1.4E+02 0.003 24.6 5.1 62 122-187 243-309 (327)
293 TIGR02542 B_forsyth_147 Bacter 30.9 1.1E+02 0.0025 20.8 3.9 24 13-38 10-33 (145)
294 COG0150 PurM Phosphoribosylami 30.2 22 0.00048 29.2 0.7 49 19-68 274-322 (345)
295 PF00398 RrnaAD: Ribosomal RNA 28.9 64 0.0014 25.5 3.1 23 6-28 97-119 (262)
296 PRK11634 ATP-dependent RNA hel 28.7 4.6E+02 0.01 24.0 11.4 61 133-202 496-561 (629)
297 CHL00030 rpl23 ribosomal prote 28.2 1.8E+02 0.0038 19.1 5.5 32 8-39 20-53 (93)
298 KOG0862 Synaptobrevin/VAMP-lik 28.0 55 0.0012 25.0 2.3 13 43-55 107-119 (216)
299 PF15063 TC1: Thyroid cancer p 28.0 45 0.00098 20.7 1.5 27 126-152 27-53 (79)
300 PF02222 ATP-grasp: ATP-grasp 27.8 1.9E+02 0.004 21.4 5.1 49 136-184 15-63 (172)
301 COG3254 Uncharacterized conser 27.2 2E+02 0.0043 19.3 5.7 42 21-63 27-69 (105)
302 COG5638 Uncharacterized conser 26.7 97 0.0021 26.2 3.7 39 2-40 142-185 (622)
303 COG0150 PurM Phosphoribosylami 26.7 28 0.00061 28.6 0.7 49 137-185 274-322 (345)
304 KOG2855 Ribokinase [Carbohydra 26.6 1.2E+02 0.0025 25.2 4.1 50 121-170 58-108 (330)
305 COG5353 Uncharacterized protei 26.0 2.5E+02 0.0055 20.2 5.9 52 6-57 87-154 (161)
306 PF14026 DUF4242: Protein of u 25.7 1.8E+02 0.0038 18.2 7.9 61 9-70 3-71 (77)
307 PRK15464 cold shock-like prote 25.3 50 0.0011 20.2 1.5 11 44-54 15-25 (70)
308 PRK10905 cell division protein 25.0 2.7E+02 0.0059 22.9 5.8 61 123-186 246-310 (328)
309 TIGR00387 glcD glycolate oxida 24.9 2.2E+02 0.0047 24.4 5.7 59 7-65 132-197 (413)
310 PF01037 AsnC_trans_reg: AsnC 24.2 1.7E+02 0.0036 17.4 5.9 45 137-181 11-55 (74)
311 cd04879 ACT_3PGDH-like ACT_3PG 23.7 1.6E+02 0.0034 16.9 5.8 48 135-183 10-60 (71)
312 COG5193 LHP1 La protein, small 23.7 39 0.00085 28.4 1.0 58 6-63 174-244 (438)
313 PTZ00338 dimethyladenosine tra 23.6 95 0.0021 25.2 3.1 24 8-31 103-126 (294)
314 cd04909 ACT_PDH-BS C-terminal 23.5 1.7E+02 0.0036 17.2 6.0 47 19-65 14-62 (69)
315 KOG2891 Surface glycoprotein [ 23.3 1.2E+02 0.0025 24.3 3.4 79 124-202 149-266 (445)
316 COG5507 Uncharacterized conser 22.5 89 0.0019 20.5 2.2 22 44-65 65-86 (117)
317 PF05036 SPOR: Sporulation rel 22.5 1.8E+02 0.0039 17.2 3.7 59 125-183 5-65 (76)
318 PRK15463 cold shock-like prote 22.2 64 0.0014 19.7 1.5 39 44-82 15-58 (70)
319 PF10281 Ish1: Putative stress 22.2 98 0.0021 16.1 2.1 17 17-33 3-19 (38)
320 PRK10943 cold shock-like prote 22.0 66 0.0014 19.6 1.5 11 44-54 14-24 (69)
321 TIGR00755 ksgA dimethyladenosi 21.9 1.1E+02 0.0023 24.1 3.1 24 8-31 96-119 (253)
322 KOG4008 rRNA processing protei 21.8 1.1E+02 0.0024 23.9 2.9 32 124-155 40-71 (261)
323 PRK09937 stationary phase/star 21.8 74 0.0016 19.7 1.7 10 44-53 12-21 (74)
324 KOG2854 Possible pfkB family c 21.8 4.7E+02 0.01 21.8 7.1 53 3-55 78-130 (343)
325 PRK09507 cspE cold shock prote 21.5 69 0.0015 19.5 1.5 11 44-54 14-24 (69)
326 PF05189 RTC_insert: RNA 3'-te 21.5 2.3E+02 0.005 18.6 4.2 46 8-53 12-65 (103)
327 TIGR02381 cspD cold shock doma 21.4 75 0.0016 19.2 1.7 40 44-83 12-56 (68)
328 PRK14998 cold shock-like prote 21.4 78 0.0017 19.5 1.8 11 44-54 12-22 (73)
329 PRK00274 ksgA 16S ribosomal RN 20.4 1.3E+02 0.0028 24.0 3.3 22 8-29 107-128 (272)
330 KOG2187 tRNA uracil-5-methyltr 20.2 54 0.0012 28.8 1.1 39 45-83 63-101 (534)
331 cd04882 ACT_Bt0572_2 C-termina 20.2 1.9E+02 0.004 16.5 5.7 43 21-63 14-58 (65)
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=1.9e-34 Score=232.58 Aligned_cols=163 Identities=23% Similarity=0.328 Sum_probs=143.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
...++|||+|||+++|+++|+++|+.||+|++|+|+. ++.+++||||+|.++++|++|+..|++..|.+++|.|.++
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 4678999999999999999999999999999999954 5678999999999999999999999999999999999988
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCC
Q 025499 81 HGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDS 160 (252)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~ 160 (252)
.+... .....+|||.|||..+++++|+++|++||.|+.+.++.+.
T Consensus 185 ~p~~~-----------------------------------~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~ 229 (346)
T TIGR01659 185 RPGGE-----------------------------------SIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDK 229 (346)
T ss_pred ccccc-----------------------------------ccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecC
Confidence 64310 1123589999999999999999999999999999999876
Q ss_pred CC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCC
Q 025499 161 EG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDR 203 (252)
Q Consensus 161 ~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~ 203 (252)
.+ ++|||+|++.++|++||+.||+..+.+. ...|+|+.++.
T Consensus 230 ~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~--~~~l~V~~a~~ 274 (346)
T TIGR01659 230 LTGTPRGVAFVRFNKREEAQEAISALNNVIPEGG--SQPLTVRLAEE 274 (346)
T ss_pred CCCccceEEEEEECCHHHHHHHHHHhCCCccCCC--ceeEEEEECCc
Confidence 43 6999999999999999999999988721 46888887773
No 2
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=100.00 E-value=1.6e-32 Score=226.14 Aligned_cols=197 Identities=22% Similarity=0.289 Sum_probs=147.2
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
++.++|||+|||+++|+++|+++|+.||+|.+|.++. ++.++|||||+|.+.++|.+||..|+|..|.|++|.|.++
T Consensus 1 ~~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a 80 (352)
T TIGR01661 1 ESKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYA 80 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEee
Confidence 4688999999999999999999999999999999964 4678999999999999999999999999999999999987
Q ss_pred CCCCCCCCCC--------------------------------CCCCC----------------------CCCCCCCCCC-
Q 025499 81 HGGSGRGPSS--------------------------------SDRRG----------------------GYGGGGAGGA- 105 (252)
Q Consensus 81 ~~~~~~~~~~--------------------------------~~~~~----------------------~~~~~~~~~~- 105 (252)
.+........ ..... .+++....+.
T Consensus 81 ~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~ 160 (352)
T TIGR01661 81 RPSSDSIKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCT 160 (352)
T ss_pred cccccccccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCc
Confidence 5432100000 00000 0000000000
Q ss_pred ----------CC------------------CCC------------C----------------------------------
Q 025499 106 ----------GG------------------AGA------------G---------------------------------- 111 (252)
Q Consensus 106 ----------~~------------------~~~------------~---------------------------------- 111 (252)
.. ... +
T Consensus 161 ~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (352)
T TIGR01661 161 EPITVKFANNPSSSNSKGLLSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHA 240 (352)
T ss_pred eeEEEEECCCCCcCCchhcCchhhcccCcccCCCCccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccccc
Confidence 00 000 0
Q ss_pred -CCC---------------CCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC----CcEEEEEcCC
Q 025499 112 -AGA---------------GRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE----GTYGVVDYTN 171 (252)
Q Consensus 112 -~~~---------------~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~----~~~afv~f~~ 171 (252)
... .........+.+|||+|||..+++++|.++|++||.|+.+.++.+.. .|||||+|.+
T Consensus 241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~ 320 (352)
T TIGR01661 241 AQRASPPATDGQTAGLAAGAQIAASDGAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTN 320 (352)
T ss_pred cccCCCccccccccccccCCCCCCCCCCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECC
Confidence 000 00000012234799999999999999999999999999999998863 3799999999
Q ss_pred hhHHHHHHHHhcCccccCCCCCceeEeeecCCC
Q 025499 172 PEDMKYAIRKLDDTEFRNPWARGRITVKRYDRS 204 (252)
Q Consensus 172 ~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~~ 204 (252)
.++|..||..|||..+. |+.|+|.+....
T Consensus 321 ~~~A~~Ai~~lnG~~~~----gr~i~V~~~~~~ 349 (352)
T TIGR01661 321 YDEAAMAILSLNGYTLG----NRVLQVSFKTNK 349 (352)
T ss_pred HHHHHHHHHHhCCCEEC----CeEEEEEEccCC
Confidence 99999999999999999 999999987743
No 3
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=100.00 E-value=2.7e-32 Score=191.83 Aligned_cols=203 Identities=64% Similarity=1.055 Sum_probs=166.4
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 1 MSGRFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 1 m~~~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
|+++.++.|||+|||.++.+.+|..+|-+||.|.+|.++......+||||+|+++.+|+.||..-+|..++|..|.|+++
T Consensus 1 ~~gr~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfp 80 (241)
T KOG0105|consen 1 MSGRNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFP 80 (241)
T ss_pred CCCcccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEec
Confidence 88999999999999999999999999999999999999877667899999999999999999999999999999999998
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCC
Q 025499 81 HGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDS 160 (252)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~ 160 (252)
.... ........+++++. ++.+.+....++.......+.|.+||.+-+|++|++++.+.|.|....+..+
T Consensus 81 rggr----~s~~~~G~y~gggr-----gGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD- 150 (241)
T KOG0105|consen 81 RGGR----SSSDRRGSYSGGGR-----GGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD- 150 (241)
T ss_pred cCCC----cccccccccCCCCC-----CCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-
Confidence 7652 22222233333222 2333444555777788899999999999999999999999999999999988
Q ss_pred CCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCCCCCCCCCCCCCC
Q 025499 161 EGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDRSPSRSRSRSRSR 215 (252)
Q Consensus 161 ~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~~~~r~r~r~rs~ 215 (252)
+++.|+|-..+++..|+..|....+........|.|...........++.++.
T Consensus 151 --g~GvV~~~r~eDMkYAvr~ld~~~~~seGe~~yirv~~~~~~~~~g~~~a~a~ 203 (241)
T KOG0105|consen 151 --GVGVVEYLRKEDMKYAVRKLDDQKFRSEGETAYIRVRGDENRDQGGISGARAG 203 (241)
T ss_pred --cceeeeeeehhhHHHHHHhhccccccCcCcEeeEEecccCCCcccccccCccc
Confidence 49999999999999999999999988665566777777664443333333333
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=100.00 E-value=1.8e-32 Score=232.21 Aligned_cols=174 Identities=20% Similarity=0.321 Sum_probs=146.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
...++|||+|||+++++++|+++|..||+|.+|.+.. +++++|||||+|.+.++|.+|+..|||..|+|+.|.|.+.
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 3568999999999999999999999999999999954 5789999999999999999999999999999999999864
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCC
Q 025499 81 HGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDS 160 (252)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~ 160 (252)
.......... ...........+|||+||+..+++++|+++|+.||.|+.+.+..+.
T Consensus 185 ~~~p~a~~~~------------------------~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~ 240 (612)
T TIGR01645 185 SNMPQAQPII------------------------DMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAP 240 (612)
T ss_pred cccccccccc------------------------ccccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecC
Confidence 3321100000 0001111234699999999999999999999999999999999875
Q ss_pred C----CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCCCC
Q 025499 161 E----GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDRSP 205 (252)
Q Consensus 161 ~----~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~~~ 205 (252)
. .|||||+|.+.++|..|+..||+..++ |+.|+|..+..++
T Consensus 241 ~tgksKGfGFVeFe~~e~A~kAI~amNg~elg----Gr~LrV~kAi~pP 285 (612)
T TIGR01645 241 TGRGHKGYGFIEYNNLQSQSEAIASMNLFDLG----GQYLRVGKCVTPP 285 (612)
T ss_pred CCCCcCCeEEEEECCHHHHHHHHHHhCCCeeC----CeEEEEEecCCCc
Confidence 4 379999999999999999999999999 9999999887543
No 5
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.98 E-value=6.5e-31 Score=223.59 Aligned_cols=172 Identities=21% Similarity=0.307 Sum_probs=145.9
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
.+.++|||+|||..+|+++|.++|+.||+|.+|.++. ++.++|||||+|.+.++|.+||. |+|..+.|++|.|.++
T Consensus 87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~~ 165 (457)
T TIGR01622 87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQSS 165 (457)
T ss_pred cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEeec
Confidence 4678999999999999999999999999999999965 46789999999999999999998 9999999999999987
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCC
Q 025499 81 HGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDS 160 (252)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~ 160 (252)
.............. ....+...+|||+|||..+++++|.++|+.||.|..|.+..+.
T Consensus 166 ~~~~~~~~~~~~~~-----------------------~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~ 222 (457)
T TIGR01622 166 QAEKNRAAKAATHQ-----------------------PGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDP 222 (457)
T ss_pred chhhhhhhhccccc-----------------------CCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcC
Confidence 64422111100000 0001125799999999999999999999999999999999876
Q ss_pred CC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCC
Q 025499 161 EG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDR 203 (252)
Q Consensus 161 ~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~ 203 (252)
.+ |||||+|.+.++|..|+..|+|..+. |+.|.|..+..
T Consensus 223 ~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~----g~~i~v~~a~~ 265 (457)
T TIGR01622 223 ETGRSKGFGFIQFHDAEEAKEALEVMNGFELA----GRPIKVGYAQD 265 (457)
T ss_pred CCCccceEEEEEECCHHHHHHHHHhcCCcEEC----CEEEEEEEccC
Confidence 54 69999999999999999999999998 99999999763
No 6
>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=99.97 E-value=3.5e-30 Score=218.89 Aligned_cols=170 Identities=15% Similarity=0.143 Sum_probs=140.6
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhc--CCcccCCeeEEEEecCC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGR--DGYNFDGCRLRVELAHG 82 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l--~~~~~~g~~i~v~~~~~ 82 (252)
|+++|||+|||+++|+++|+++|++||+|.+|.++. .++||||+|.+.++|.+|+..| ++..|.|++|.|+|+..
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~---~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~ 77 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLP---GKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTS 77 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEEC---CCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCC
Confidence 689999999999999999999999999999999875 3789999999999999999864 77899999999999975
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC
Q 025499 83 GSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG 162 (252)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~ 162 (252)
........ ... .........+|+|.||++.+++++|.++|+.||.|..|.++.+...
T Consensus 78 ~~~~~~~~----~~~-------------------~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~~ 134 (481)
T TIGR01649 78 QEIKRDGN----SDF-------------------DSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKNNV 134 (481)
T ss_pred cccccCCC----Ccc-------------------cCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecCCc
Confidence 52111100 000 0001123458999999999999999999999999999999887766
Q ss_pred cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 163 TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 163 ~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
++|||+|.+.++|.+|++.|||..+.+. +..|+|..++
T Consensus 135 ~~afVef~~~~~A~~A~~~Lng~~i~~~--~~~l~v~~sk 172 (481)
T TIGR01649 135 FQALVEFESVNSAQHAKAALNGADIYNG--CCTLKIEYAK 172 (481)
T ss_pred eEEEEEECCHHHHHHHHHHhcCCcccCC--ceEEEEEEec
Confidence 7999999999999999999999999732 3567777765
No 7
>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=99.97 E-value=1.4e-29 Score=215.34 Aligned_cols=192 Identities=16% Similarity=0.190 Sum_probs=143.2
Q ss_pred CCCcEEEEcCCCC-CCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 4 RFSRTIYVGNLPS-DIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 4 ~~~~~l~v~~lp~-~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
.++++|||+|||+ .+|+++|+++|+.||.|..|+++.+ .+|||||+|.+.++|..|+..|+|..|.|++|.|.+++.
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~--~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~ 350 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKN--KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQ 350 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeC--CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccc
Confidence 4788999999998 6999999999999999999999765 369999999999999999999999999999999999876
Q ss_pred CCCCCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCC--ceEEEEe
Q 025499 83 GSGRGPSSSD---RRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGD--VCFAEVS 157 (252)
Q Consensus 83 ~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~--v~~~~~~ 157 (252)
.......... ....+..... ...................+..+|||.|||..+++++|+++|+.||. |..+++.
T Consensus 351 ~~~~~~~~~~~~~~~~~~~d~~~-~~~~r~~~~~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~ 429 (481)
T TIGR01649 351 QNVQPPREGQLDDGLTSYKDYSS-SRNHRFKKPGSANKNNIQPPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFF 429 (481)
T ss_pred ccccCCCCCcCcCCCcccccccC-CccccCCCcccccccccCCCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEEe
Confidence 5321111100 0000000000 00000000000111112346679999999999999999999999997 8888876
Q ss_pred eCCC--CcEEEEEcCChhHHHHHHHHhcCccccCCCCCc------eeEeeecC
Q 025499 158 RDSE--GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARG------RITVKRYD 202 (252)
Q Consensus 158 ~~~~--~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~------~i~v~~~~ 202 (252)
.... .++|||+|.+.++|..|+..|||..|. ++ .|+|.+++
T Consensus 430 ~~~~~~~~~gfVeF~~~e~A~~Al~~ln~~~l~----~~~~~~~~~lkv~fs~ 478 (481)
T TIGR01649 430 PKDNERSKMGLLEWESVEDAVEALIALNHHQLN----EPNGSAPYHLKVSFST 478 (481)
T ss_pred cCCCCcceeEEEEcCCHHHHHHHHHHhcCCccC----CCCCCccceEEEEecc
Confidence 5432 369999999999999999999999998 55 47777765
No 8
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=1.2e-30 Score=193.88 Aligned_cols=169 Identities=20% Similarity=0.289 Sum_probs=145.7
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
--|||+.|.+.++-++|++.|.+||+|.+++|+. |++++|||||.|.+.++|+.||+.|+|.+|.++.|+-.|+.-+
T Consensus 63 fhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRK 142 (321)
T KOG0148|consen 63 FHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRK 142 (321)
T ss_pred eeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccC
Confidence 4599999999999999999999999999999955 5899999999999999999999999999999999999999866
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCc
Q 025499 84 SGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGT 163 (252)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~ 163 (252)
+......+ -.-...+....+.+++||++|++..+++++|++.|+.||.|..|+++.++ |
T Consensus 143 p~e~n~~~-------------------ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q--G 201 (321)
T KOG0148|consen 143 PSEMNGKP-------------------LTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ--G 201 (321)
T ss_pred ccccCCCC-------------------ccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc--c
Confidence 41110000 11122334455678999999999999999999999999999999999988 8
Q ss_pred EEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 164 YGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 164 ~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
|+||.|++.|.|..||..+||.+|. |..++..=
T Consensus 202 YaFVrF~tkEaAahAIv~mNntei~----G~~VkCsW 234 (321)
T KOG0148|consen 202 YAFVRFETKEAAAHAIVQMNNTEIG----GQLVRCSW 234 (321)
T ss_pred eEEEEecchhhHHHHHHHhcCceeC----ceEEEEec
Confidence 9999999999999999999999999 77766543
No 9
>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=99.97 E-value=1.2e-28 Score=208.80 Aligned_cols=190 Identities=22% Similarity=0.277 Sum_probs=139.7
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec--CCCCCeEEEEEECCHHHHHHHHHhcCCcccC-CeeEEEEecCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI--PPRPPCYCFVEFENARDAEDAIRGRDGYNFD-GCRLRVELAHG 82 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~--~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~-g~~i~v~~~~~ 82 (252)
.++|||+|||++++|++|.++|++||+|.+|.|+. ++.++|||||+|.+.++|++||+.|++..|. |+.|.|.++..
T Consensus 58 ~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~~ 137 (578)
T TIGR01648 58 GCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISVD 137 (578)
T ss_pred CCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccccc
Confidence 58999999999999999999999999999999965 4789999999999999999999999998884 77777766532
Q ss_pred CCCC-----CCCC------------C---------CCC--CCCCCCCCC---------------CCCCC----C------
Q 025499 83 GSGR-----GPSS------------S---------DRR--GGYGGGGAG---------------GAGGA----G------ 109 (252)
Q Consensus 83 ~~~~-----~~~~------------~---------~~~--~~~~~~~~~---------------~~~~~----~------ 109 (252)
.... .... . ... .....+-+. ..... +
T Consensus 138 ~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~Vd 217 (578)
T TIGR01648 138 NCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVD 217 (578)
T ss_pred CceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEE
Confidence 1100 0000 0 000 000000000 00000 0
Q ss_pred -CCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHh--CCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCcc
Q 025499 110 -AGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKA--GDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTE 186 (252)
Q Consensus 110 -~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~--g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~ 186 (252)
................+|||+||+..+++++|+++|+.| |.|+.|.+.. +||||+|++.++|.+|++.|||..
T Consensus 218 wA~p~~~~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r----gfAFVeF~s~e~A~kAi~~lnG~~ 293 (578)
T TIGR01648 218 WAEPEEEVDEDVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR----DYAFVHFEDREDAVKAMDELNGKE 293 (578)
T ss_pred eecccccccccccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec----CeEEEEeCCHHHHHHHHHHhCCCE
Confidence 000000001112335689999999999999999999999 9999998775 499999999999999999999999
Q ss_pred ccCCCCCceeEeeecCC
Q 025499 187 FRNPWARGRITVKRYDR 203 (252)
Q Consensus 187 ~~~~~~g~~i~v~~~~~ 203 (252)
|. ++.|+|..++.
T Consensus 294 i~----Gr~I~V~~Akp 306 (578)
T TIGR01648 294 LE----GSEIEVTLAKP 306 (578)
T ss_pred EC----CEEEEEEEccC
Confidence 99 99999998873
No 10
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.97 E-value=2.5e-29 Score=218.60 Aligned_cols=158 Identities=27% Similarity=0.435 Sum_probs=139.5
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCCC
Q 025499 8 TIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGGS 84 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~~ 84 (252)
+|||+|||+++||++|+++|++||+|.+|.|.. +++++|||||+|.+.++|.+|++.|++..|.|++|.|.|+...+
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 799999999999999999999999999999965 46789999999999999999999999999999999999986431
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC---
Q 025499 85 GRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE--- 161 (252)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~--- 161 (252)
... .....+|||+|||.++++++|.++|+.||.|..|++..+..
T Consensus 82 ~~~---------------------------------~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~s 128 (562)
T TIGR01628 82 SLR---------------------------------RSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKS 128 (562)
T ss_pred ccc---------------------------------ccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCc
Confidence 100 01124799999999999999999999999999999988753
Q ss_pred CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 162 GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 162 ~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
.|||||+|++.++|..|++.|||..+. ++.|.|....
T Consensus 129 kg~afV~F~~~e~A~~Ai~~lng~~~~----~~~i~v~~~~ 165 (562)
T TIGR01628 129 RGYGFVHFEKEESAKAAIQKVNGMLLN----DKEVYVGRFI 165 (562)
T ss_pred ccEEEEEECCHHHHHHHHHHhcccEec----CceEEEeccc
Confidence 379999999999999999999999999 8999886554
No 11
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.96 E-value=4.8e-28 Score=208.73 Aligned_cols=185 Identities=19% Similarity=0.301 Sum_probs=137.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhc------------CceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKY------------GRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFD 71 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~------------G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~ 71 (252)
...++|||||||+.+|+++|.++|..| +.|..+.+. ..+|||||+|.+.++|..||. |+|+.|.
T Consensus 173 ~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~---~~kg~afVeF~~~e~A~~Al~-l~g~~~~ 248 (509)
T TIGR01642 173 RQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN---KEKNFAFLEFRTVEEATFAMA-LDSIIYS 248 (509)
T ss_pred ccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC---CCCCEEEEEeCCHHHHhhhhc-CCCeEee
Confidence 567899999999999999999999975 345555443 458999999999999999996 9999999
Q ss_pred CeeEEEEecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCc
Q 025499 72 GCRLRVELAHGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDV 151 (252)
Q Consensus 72 g~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v 151 (252)
|++|.|................ ...... ...... ..............+|||+|||..+++++|.++|+.||.|
T Consensus 249 g~~l~v~r~~~~~~~~~~~~~~-~~~~~~--~~~~~~---~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i 322 (509)
T TIGR01642 249 NVFLKIRRPHDYIPVPQITPEV-SQKNPD--DNAKNV---EKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDL 322 (509)
T ss_pred CceeEecCccccCCccccCCCC-CCCCCc--cccccc---ccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCe
Confidence 9999997654332111000000 000000 000000 0000111122345799999999999999999999999999
Q ss_pred eEEEEeeCCC----CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 152 CFAEVSRDSE----GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 152 ~~~~~~~~~~----~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
..+.++.+.. .|||||+|.+.++|..|+..|+|..+. ++.|.|..+.
T Consensus 323 ~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~----~~~l~v~~a~ 373 (509)
T TIGR01642 323 KAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTG----DNKLHVQRAC 373 (509)
T ss_pred eEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEEC----CeEEEEEECc
Confidence 9999987653 379999999999999999999999999 9999998876
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=99.96 E-value=1.2e-28 Score=214.42 Aligned_cols=178 Identities=22% Similarity=0.347 Sum_probs=146.9
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC--CCCCeEEEEEECCHHHHHHHHHhcCCcccC----CeeEEEE
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP--PRPPCYCFVEFENARDAEDAIRGRDGYNFD----GCRLRVE 78 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~--~~~~g~afV~f~~~~~a~~a~~~l~~~~~~----g~~i~v~ 78 (252)
..++|||+|||+++|+++|+++|+.||+|.++.+..+ +.++|||||+|.+.++|.+|++.|+|..|. |..|.|.
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~ 256 (562)
T TIGR01628 177 KFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYVG 256 (562)
T ss_pred CCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEee
Confidence 4578999999999999999999999999999999654 577899999999999999999999999999 9999999
Q ss_pred ecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEee
Q 025499 79 LAHGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSR 158 (252)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~ 158 (252)
++..+..+............ ..........+|||+||+..+++++|+++|+.||.|+.+.++.
T Consensus 257 ~a~~k~er~~~~~~~~~~~~-----------------~~~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~ 319 (562)
T TIGR01628 257 RAQKRAEREAELRRKFEELQ-----------------QERKMKAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVML 319 (562)
T ss_pred cccChhhhHHHHHhhHHhhh-----------------hhhhcccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEE
Confidence 88765332111100000000 0011123456899999999999999999999999999999998
Q ss_pred CCC---CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCC
Q 025499 159 DSE---GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDR 203 (252)
Q Consensus 159 ~~~---~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~ 203 (252)
+.. .|||||+|.+.++|.+|+..|||..+. |+.|.|..+.+
T Consensus 320 d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~----gk~l~V~~a~~ 363 (562)
T TIGR01628 320 DEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLG----GKPLYVALAQR 363 (562)
T ss_pred CCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeC----CceeEEEeccC
Confidence 753 379999999999999999999999999 99999988774
No 13
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.96 E-value=2e-28 Score=193.80 Aligned_cols=185 Identities=23% Similarity=0.304 Sum_probs=143.1
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC---CCCCeEEEEEECCHHHHHHHHHhcCCccc-CCeeEEEEecC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP---PRPPCYCFVEFENARDAEDAIRGRDGYNF-DGCRLRVELAH 81 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~---~~~~g~afV~f~~~~~a~~a~~~l~~~~~-~g~~i~v~~~~ 81 (252)
.+.||||.||.++.|++|.-+|++.|+|-++.++.+ |.++|||||+|.+.++|++|+..||++.| .|+.|.|..+.
T Consensus 83 G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Sv 162 (506)
T KOG0117|consen 83 GCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSV 162 (506)
T ss_pred CceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEee
Confidence 578999999999999999999999999999999664 78999999999999999999999999998 68999998875
Q ss_pred CCCC-----CCCCC-----------------------------C------------------------CCCCCCCCCCCC
Q 025499 82 GGSG-----RGPSS-----------------------------S------------------------DRRGGYGGGGAG 103 (252)
Q Consensus 82 ~~~~-----~~~~~-----------------------------~------------------------~~~~~~~~~~~~ 103 (252)
..-- ....+ . .+..-++....-
T Consensus 163 an~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tV 242 (506)
T KOG0117|consen 163 ANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITV 242 (506)
T ss_pred ecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCccee
Confidence 3210 00000 0 000000000000
Q ss_pred CCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhc
Q 025499 104 GAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLD 183 (252)
Q Consensus 104 ~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~ 183 (252)
.++.. ..............|||.||+.++|++.|+++|+.||.|+.|+.+.| ||||.|.+.++|.+|++.+|
T Consensus 243 dWAep----~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD----YaFVHf~eR~davkAm~~~n 314 (506)
T KOG0117|consen 243 DWAEP----EEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD----YAFVHFAEREDAVKAMKETN 314 (506)
T ss_pred eccCc----ccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc----eeEEeecchHHHHHHHHHhc
Confidence 00000 00000111233468999999999999999999999999999999976 99999999999999999999
Q ss_pred CccccCCCCCceeEeeecC
Q 025499 184 DTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 184 g~~~~~~~~g~~i~v~~~~ 202 (252)
|++|. |..|.|..++
T Consensus 315 gkeld----G~~iEvtLAK 329 (506)
T KOG0117|consen 315 GKELD----GSPIEVTLAK 329 (506)
T ss_pred Cceec----CceEEEEecC
Confidence 99999 9999999988
No 14
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.96 E-value=5.5e-29 Score=196.10 Aligned_cols=167 Identities=23% Similarity=0.386 Sum_probs=143.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcc-cCC--eeEEEE
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYN-FDG--CRLRVE 78 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~-~~g--~~i~v~ 78 (252)
..-+||||.||..++|.||+++|++||.|.+|.+.+ ++.++|||||+|.+.++|.+|+..|++.. |.| .+|.|.
T Consensus 33 ~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk 112 (510)
T KOG0144|consen 33 SAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVK 112 (510)
T ss_pred hhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeec
Confidence 445799999999999999999999999999999955 57899999999999999999999999844 444 789999
Q ss_pred ecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEee
Q 025499 79 LAHGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSR 158 (252)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~ 158 (252)
++....++. ....+|||+-|+..++|.+++++|++||.|++|.|.+
T Consensus 113 ~Ad~E~er~----------------------------------~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilr 158 (510)
T KOG0144|consen 113 YADGERERI----------------------------------VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILR 158 (510)
T ss_pred ccchhhhcc----------------------------------ccchhhhhhhccccccHHHHHHHHHhhCccchhhhee
Confidence 887653221 2346999999999999999999999999999999999
Q ss_pred CCCC---cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCCCCC
Q 025499 159 DSEG---TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDRSPS 206 (252)
Q Consensus 159 ~~~~---~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~~~~ 206 (252)
+.+. |||||+|.+.+-|..||+.|||..-. ..+...|-|++++..+.
T Consensus 159 d~~~~sRGcaFV~fstke~A~~Aika~ng~~tm-eGcs~PLVVkFADtqkd 208 (510)
T KOG0144|consen 159 DPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTM-EGCSQPLVVKFADTQKD 208 (510)
T ss_pred cccccccceeEEEEehHHHHHHHHHhhccceee-ccCCCceEEEecccCCC
Confidence 8765 79999999999999999999998754 23367788999984443
No 15
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.96 E-value=1.8e-27 Score=205.25 Aligned_cols=188 Identities=18% Similarity=0.280 Sum_probs=141.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
++.++|||+|||..+|+++|.++|+.||.|..+.+.. ++.++|||||+|.+.++|..|+..|+|..|.|+.|.|.++
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 3468999999999999999999999999999999854 5778999999999999999999999999999999999998
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCC----------CHHHHHHHHHHhCC
Q 025499 81 HGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSA----------SWQDLKDHMRKAGD 150 (252)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~----------t~~~l~~~f~~~g~ 150 (252)
............. ..... .. ...............+..+|+|.|+...- ..++|+++|.+||.
T Consensus 373 ~~~~~~~~~~~~~--~~~~~-~~----~~~~~~~~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~ 445 (509)
T TIGR01642 373 CVGANQATIDTSN--GMAPV-TL----LAKALSQSILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGP 445 (509)
T ss_pred ccCCCCCCccccc--ccccc-cc----ccccchhhhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCC
Confidence 6542211111000 00000 00 00000000111223345789999986421 23679999999999
Q ss_pred ceEEEEeeCC-------CCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 151 VCFAEVSRDS-------EGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 151 v~~~~~~~~~-------~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
|+.|.++.+. ..|+|||+|++.++|..|+..|||..|. |+.|.+.+..
T Consensus 446 v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~----gr~v~~~~~~ 500 (509)
T TIGR01642 446 LINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFN----DRVVVAAFYG 500 (509)
T ss_pred eeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEEC----CeEEEEEEeC
Confidence 9999998652 1279999999999999999999999999 9999988755
No 16
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.96 E-value=1e-27 Score=177.52 Aligned_cols=164 Identities=22% Similarity=0.325 Sum_probs=146.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
+..+.|.|.-||..+|+++|+.+|...|+|++|++.. +|.+.||+||.|-++++|++|+..|||..+..+.|+|.|+
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 5567899999999999999999999999999999955 5899999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCC
Q 025499 81 HGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDS 160 (252)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~ 160 (252)
.+... ...+..|||.+||..+|..||+++|++||.|.-.++..+.
T Consensus 119 RPSs~-----------------------------------~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dq 163 (360)
T KOG0145|consen 119 RPSSD-----------------------------------SIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQ 163 (360)
T ss_pred cCChh-----------------------------------hhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhc
Confidence 87521 2344699999999999999999999999998887777665
Q ss_pred CC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCCC
Q 025499 161 EG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDRS 204 (252)
Q Consensus 161 ~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~~ 204 (252)
-+ |.+||.|+..++|..||..|||..-.+. ...|.|+++..+
T Consensus 164 vtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~--tepItVKFannP 209 (360)
T KOG0145|consen 164 VTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGC--TEPITVKFANNP 209 (360)
T ss_pred ccceecceeEEEecchhHHHHHHHhccCCCCCCC--CCCeEEEecCCc
Confidence 44 6999999999999999999999987643 678999998854
No 17
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.95 E-value=7.5e-28 Score=169.14 Aligned_cols=165 Identities=22% Similarity=0.309 Sum_probs=142.4
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
+...+||||||+..++++.|+++|-+.|+|.++++.. +...+|||||+|.++|+|+-|+..|+...+.|++|+|..+
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 5678999999999999999999999999999999943 4678999999999999999999999999999999999987
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEE-EEeeC
Q 025499 81 HGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFA-EVSRD 159 (252)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~-~~~~~ 159 (252)
... ......+..|||+||...+++..|.+.|+.||.+... +++.+
T Consensus 87 s~~----------------------------------~~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd 132 (203)
T KOG0131|consen 87 SAH----------------------------------QKNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRD 132 (203)
T ss_pred ccc----------------------------------cccccccccccccccCcchhHHHHHHHHHhccccccCCccccc
Confidence 622 1111223689999999999999999999999987763 55555
Q ss_pred CCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCCCCC
Q 025499 160 SEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDRSPS 206 (252)
Q Consensus 160 ~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~~~~ 206 (252)
.++ +++||.|++.+.+.+|+..|||+.+. .+.|+|..+.+...
T Consensus 133 ~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~----nr~itv~ya~k~~~ 179 (203)
T KOG0131|consen 133 PDTGNPKGFGFINYASFEASDAAIGSMNGQYLC----NRPITVSYAFKKDT 179 (203)
T ss_pred ccCCCCCCCeEEechhHHHHHHHHHHhccchhc----CCceEEEEEEecCC
Confidence 543 59999999999999999999999999 99999988875443
No 18
>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=1.3e-26 Score=197.22 Aligned_cols=193 Identities=21% Similarity=0.306 Sum_probs=141.7
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
+++|||+|||+.+|+++|.++|+.||.|..|.+.. ++.++|||||+|.+.++|.+|+..|+|..|.|++|.|.++..
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 58999999999999999999999999999999965 357899999999999999999999999999999999999763
Q ss_pred CCCCCCCCCCC----CCCCCC------------------C--CCCCCCCCCC------------------C-----CC--
Q 025499 83 GSGRGPSSSDR----RGGYGG------------------G--GAGGAGGAGA------------------G-----AG-- 113 (252)
Q Consensus 83 ~~~~~~~~~~~----~~~~~~------------------~--~~~~~~~~~~------------------~-----~~-- 113 (252)
........... .....+ . ++...+.... + ..
T Consensus 266 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (457)
T TIGR01622 266 STYLLDAANTFEDIDKQQQMGKNLNTEEREQLMEKLDRDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGALA 345 (457)
T ss_pred CCccccchhhhccccccccCCcCCCccchHHHHHhhccCCCCccccCCCccchhhhhccccccccccccccccccccccc
Confidence 32111100000 000000 0 0000000000 0 00
Q ss_pred ---CCCCCC---CCCCccEEEEeCCCCCCC----------HHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHH
Q 025499 114 ---AGRFGI---SRHSEYRVIVRGLPSSAS----------WQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKY 177 (252)
Q Consensus 114 ---~~~~~~---~~~~~~~l~v~nl~~~~t----------~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~ 177 (252)
.....+ ......+|+|.||....+ .++|.+.|++||.|+.|.+......|++||+|.+.++|..
T Consensus 346 ~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~~~~~~~~~~~~dv~~e~~k~G~v~~v~v~~~~~~G~~fV~F~~~e~A~~ 425 (457)
T TIGR01622 346 IMARNSFVPSTNNNLATTCLVLSNMFDPATEEEPNFDNEILDDVKEECSKYGGVVHIYVDTKNSAGKIYLKFSSVDAALA 425 (457)
T ss_pred cccCCCCCCcccCCCCCcEEEEecCCCCcccccchHHHHHHHHHHHHHHhcCCeeEEEEeCCCCceeEEEEECCHHHHHH
Confidence 000000 113457899999855444 3689999999999999999877777999999999999999
Q ss_pred HHHHhcCccccCCCCCceeEeeecC
Q 025499 178 AIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 178 a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
|+..|||..|+ |+.|.+.+..
T Consensus 426 A~~~lnGr~f~----gr~i~~~~~~ 446 (457)
T TIGR01622 426 AFQALNGRYFG----GKMITAAFVV 446 (457)
T ss_pred HHHHhcCcccC----CeEEEEEEEc
Confidence 99999999999 9999998755
No 19
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.95 E-value=5.1e-28 Score=181.72 Aligned_cols=146 Identities=33% Similarity=0.595 Sum_probs=135.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCCCCC
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGGSGR 86 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~~~~ 86 (252)
-+|||||||..+++.+|+.+|++||+|..|.|+ |.||||-.++...|..|+..|+|..|+|..|.|+.++.+.
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv-----KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKs-- 75 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIV-----KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKS-- 75 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeee-----cccceEEeecccccHHHHhhcccceecceEEEEEeccccC--
Confidence 369999999999999999999999999999998 7899999999999999999999999999999999988761
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEE
Q 025499 87 GPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGV 166 (252)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~af 166 (252)
....+|+|+||...++.+||+..|++||.|+.+++..+ |+|
T Consensus 76 -----------------------------------k~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd----y~f 116 (346)
T KOG0109|consen 76 -----------------------------------KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD----YAF 116 (346)
T ss_pred -----------------------------------CCccccccCCCCccccCHHHhhhhcccCCceeeeeecc----eeE
Confidence 12368999999999999999999999999999999986 999
Q ss_pred EEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 167 VDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 167 v~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
|.|+-.++|..|+..|+|.++. |..+.|..+.
T Consensus 117 vh~d~~eda~~air~l~~~~~~----gk~m~vq~st 148 (346)
T KOG0109|consen 117 VHFDRAEDAVEAIRGLDNTEFQ----GKRMHVQLST 148 (346)
T ss_pred EEEeeccchHHHHhcccccccc----cceeeeeeec
Confidence 9999999999999999999999 8888887655
No 20
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.94 E-value=8e-26 Score=183.18 Aligned_cols=182 Identities=19% Similarity=0.290 Sum_probs=145.9
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC---CCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP---PRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~---~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
..||||++||+.++.++|.++|+.+|+|..+.+... +.++||+||+|.-.++++.|+..+.+..|+|+.|.|.++..
T Consensus 5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~ 84 (678)
T KOG0127|consen 5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKK 84 (678)
T ss_pred CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccc
Confidence 389999999999999999999999999999999553 46799999999999999999999999999999999999986
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC--CCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCC
Q 025499 83 GSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFG--ISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDS 160 (252)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~ 160 (252)
.................. -...... ....+.+.|+|.|||+.+...+|+.+|+.||.|..|.|+...
T Consensus 85 R~r~e~~~~~e~~~veK~-----------~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~ 153 (678)
T KOG0127|consen 85 RARSEEVEKGENKAVEKP-----------IEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKK 153 (678)
T ss_pred cccchhcccccchhhhcc-----------cccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCC
Confidence 532221110000000000 0000000 011236899999999999999999999999999999999877
Q ss_pred CC---cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 161 EG---TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 161 ~~---~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
++ |||||+|....+|..|++.+||..|. |+.|.|+-+-
T Consensus 154 dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~----gR~VAVDWAV 194 (678)
T KOG0127|consen 154 DGKLCGFAFVQFKEKKDAEKALEFFNGNKID----GRPVAVDWAV 194 (678)
T ss_pred CCCccceEEEEEeeHHHHHHHHHhccCceec----CceeEEeeec
Confidence 66 79999999999999999999999999 9999986644
No 21
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.94 E-value=4.1e-25 Score=179.10 Aligned_cols=194 Identities=20% Similarity=0.332 Sum_probs=141.3
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEE--ecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIEL--KIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~--~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
+.-.|.|.|||+.+.+.+|..+|+.||.|..|.| ..++.-.|||||+|.+..+|..|+..+|+..|+|++|.|.|+.+
T Consensus 116 ~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~ 195 (678)
T KOG0127|consen 116 PKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVD 195 (678)
T ss_pred ccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecc
Confidence 4567999999999999999999999999999999 44667779999999999999999999999999999999999976
Q ss_pred CCCCCCCC-------------CCCCCCCCCCCC-----------------CC---------C--------CCCC-CCCCC
Q 025499 83 GSGRGPSS-------------SDRRGGYGGGGA-----------------GG---------A--------GGAG-AGAGA 114 (252)
Q Consensus 83 ~~~~~~~~-------------~~~~~~~~~~~~-----------------~~---------~--------~~~~-~~~~~ 114 (252)
+..-.... ..........+. .+ . .... .+...
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 53211100 000000000000 00 0 0000 00000
Q ss_pred ----CCC---CCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHh-
Q 025499 115 ----GRF---GISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKL- 182 (252)
Q Consensus 115 ----~~~---~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l- 182 (252)
... ......+.+|||.|||+++|+++|.++|++||.|.++.++.++.+ |.|||.|.+..+|+.||...
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 000 111123479999999999999999999999999999999988876 69999999999999999876
Q ss_pred ----cC-ccccCCCCCceeEeeecC
Q 025499 183 ----DD-TEFRNPWARGRITVKRYD 202 (252)
Q Consensus 183 ----~g-~~~~~~~~g~~i~v~~~~ 202 (252)
.| ..+. |+.|.|..+-
T Consensus 356 pa~e~g~~ll~----GR~Lkv~~Av 376 (678)
T KOG0127|consen 356 PASEDGSVLLD----GRLLKVTLAV 376 (678)
T ss_pred ccCCCceEEEe----ccEEeeeecc
Confidence 22 3444 8888776543
No 22
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.94 E-value=5.7e-25 Score=163.08 Aligned_cols=193 Identities=22% Similarity=0.286 Sum_probs=146.1
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEe---cCCCCCeEEEEEECCHHHHHHHHHhcCCcccCC--eeEEEEec
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELK---IPPRPPCYCFVEFENARDAEDAIRGRDGYNFDG--CRLRVELA 80 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~---~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~i~v~~~ 80 (252)
...|||.+||+.+|..||.++|++||.|..-.+. .++.++|.+||.|...++|+.|+..|||..-.| .+|.|+++
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 4579999999999999999999999988776663 357899999999999999999999999988765 69999999
Q ss_pred CCCCCCCCCC--CCCCCCCCCCCCCC--------------------------CCCCCCCCCCCCCCCCCCCccEEEEeCC
Q 025499 81 HGGSGRGPSS--SDRRGGYGGGGAGG--------------------------AGGAGAGAGAGRFGISRHSEYRVIVRGL 132 (252)
Q Consensus 81 ~~~~~~~~~~--~~~~~~~~~~~~~~--------------------------~~~~~~~~~~~~~~~~~~~~~~l~v~nl 132 (252)
..+....... .+....+....++. ..++-.+-.+...+.....+++|||.||
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 7653211110 00000000000000 0000000011122333345799999999
Q ss_pred CCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 133 PSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 133 ~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
.+++++..|.++|.+||.|..|++++|..+ ||+||.+.+-++|..||..|||..++ ++.|.|.+..
T Consensus 287 spd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg----~rvLQVsFKt 356 (360)
T KOG0145|consen 287 SPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLG----DRVLQVSFKT 356 (360)
T ss_pred CCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCcccc----ceEEEEEEec
Confidence 999999999999999999999999998653 79999999999999999999999999 9999998765
No 23
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.93 E-value=3.6e-25 Score=163.45 Aligned_cols=165 Identities=39% Similarity=0.699 Sum_probs=136.0
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCCCCC
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGGSGR 86 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~~~~ 86 (252)
..||||+||+.+.+.+|..+|..||.|.+|.++ .+|+||+|.+..+|..|+..|++..|.|..+.|+++......
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk-----~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~~ 76 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK-----NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRRG 76 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee-----cccceeccCchhhhhcccchhcCceecceeeeeecccccccc
Confidence 368999999999999999999999999999997 689999999999999999999999999988888888754111
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEE
Q 025499 87 GPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGV 166 (252)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~af 166 (252)
. + ..++++..+.......+....+.++|.+++..+.|.+|.++|..+|.+....+.. +++|
T Consensus 77 ~-----------g----~~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~~----~~~~ 137 (216)
T KOG0106|consen 77 R-----------G----RPRGGDRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDARR----NFAF 137 (216)
T ss_pred c-----------C----CCCCCCccchhhccCCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhhhc----cccc
Confidence 1 0 0000001112334455667788999999999999999999999999996655522 5899
Q ss_pred EEcCChhHHHHHHHHhcCccccCCCCCceeEee
Q 025499 167 VDYTNPEDMKYAIRKLDDTEFRNPWARGRITVK 199 (252)
Q Consensus 167 v~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~ 199 (252)
|+|.+.++|..|+..|+|..+. ++.|++.
T Consensus 138 v~Fs~~~da~ra~~~l~~~~~~----~~~l~~~ 166 (216)
T KOG0106|consen 138 VEFSEQEDAKRALEKLDGKKLN----GRRISVE 166 (216)
T ss_pred eeehhhhhhhhcchhccchhhc----Cceeeec
Confidence 9999999999999999999999 9999883
No 24
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.92 E-value=5.1e-24 Score=173.06 Aligned_cols=150 Identities=26% Similarity=0.407 Sum_probs=136.0
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCCCCC
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGGSGR 86 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~~~~ 86 (252)
..|||| +++|+.+|.++|+++|+|.+|.+..+-.+.|||||.|.++++|.+||..||...+.|++|.|-|+...+
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~-- 76 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDATSLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP-- 76 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecCCccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC--
Confidence 479999 999999999999999999999993321389999999999999999999999999999999999997651
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC--cE
Q 025499 87 GPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG--TY 164 (252)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~--~~ 164 (252)
..+||.||+.+++..+|.+.|+.||.|+.|++..+.++ ||
T Consensus 77 --------------------------------------~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~ 118 (369)
T KOG0123|consen 77 --------------------------------------SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY 118 (369)
T ss_pred --------------------------------------ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee
Confidence 12999999999999999999999999999999998766 68
Q ss_pred EEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCCC
Q 025499 165 GVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDRS 204 (252)
Q Consensus 165 afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~~ 204 (252)
||+|+++++|..|+..|||..+. +..|.|....+.
T Consensus 119 -FV~f~~e~~a~~ai~~~ng~ll~----~kki~vg~~~~~ 153 (369)
T KOG0123|consen 119 -FVQFESEESAKKAIEKLNGMLLN----GKKIYVGLFERK 153 (369)
T ss_pred -EEEeCCHHHHHHHHHHhcCcccC----CCeeEEeeccch
Confidence 99999999999999999999999 999988766643
No 25
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.92 E-value=2.6e-24 Score=166.76 Aligned_cols=171 Identities=20% Similarity=0.341 Sum_probs=142.0
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
|.||||.|..++.|+.|+..|..||+|++|.+-. |++.+|||||+|+-+|.|+.|++.|||.++.|+.|+|.....-
T Consensus 114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsNm 193 (544)
T KOG0124|consen 114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNM 193 (544)
T ss_pred HheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCCC
Confidence 6799999999999999999999999999999943 5789999999999999999999999999999999999843221
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC-
Q 025499 84 SGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG- 162 (252)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~- 162 (252)
+...+ .. .........-+.|||..+.++.+++||+..|+-||+|++|.+..++..
T Consensus 194 pQAQp----iI--------------------D~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~ 249 (544)
T KOG0124|consen 194 PQAQP----II--------------------DMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGR 249 (544)
T ss_pred cccch----HH--------------------HHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCC
Confidence 00000 00 000001122368999999999999999999999999999999988754
Q ss_pred ---cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCCCC
Q 025499 163 ---TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDRSP 205 (252)
Q Consensus 163 ---~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~~~ 205 (252)
||+||+|.+..+...||..||-..++ |..|+|...-.++
T Consensus 250 ~HkGyGfiEy~n~qs~~eAiasMNlFDLG----GQyLRVGk~vTPP 291 (544)
T KOG0124|consen 250 GHKGYGFIEYNNLQSQSEAIASMNLFDLG----GQYLRVGKCVTPP 291 (544)
T ss_pred CccceeeEEeccccchHHHhhhcchhhcc----cceEecccccCCC
Confidence 79999999999999999999999999 9999887665443
No 26
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.92 E-value=1.1e-23 Score=156.96 Aligned_cols=194 Identities=22% Similarity=0.282 Sum_probs=143.8
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec--CCCCCeEEEEEECCHHHHHHHHHhcCCc-ccC--CeeEEEEe
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI--PPRPPCYCFVEFENARDAEDAIRGRDGY-NFD--GCRLRVEL 79 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~--~~~~~g~afV~f~~~~~a~~a~~~l~~~-~~~--g~~i~v~~ 79 (252)
..++||||.|.+.-.|+|++.+|..||+|.+|.+.. ++.++|||||.|.+.-+|..||..|+|. .+. ...|.|++
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ 97 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKF 97 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEe
Confidence 578999999999999999999999999999999965 6889999999999999999999999993 343 47889999
Q ss_pred cCCCCCCCC-----------------------------------------------------------------------
Q 025499 80 AHGGSGRGP----------------------------------------------------------------------- 88 (252)
Q Consensus 80 ~~~~~~~~~----------------------------------------------------------------------- 88 (252)
+...+++.-
T Consensus 98 ADTdkER~lRRMQQma~qlGm~~Pl~l~~g~~~ay~qalmQqQa~~~at~~~~~L~p~~~~~~~~mQ~~aA~~angl~A~ 177 (371)
T KOG0146|consen 98 ADTDKERTLRRMQQMAGQLGMFNPLALPFGAYGAYAQALMQQQAALLATVAGPYLSPMAAFAAAQMQQMAALNANGLAAA 177 (371)
T ss_pred ccchHHHHHHHHHHHHHHhcccCccccccchhHHHHHHHHHHHHHHHHhhcccccChhhhhHHHHHHHHHHHhhcccccC
Confidence 854431000
Q ss_pred -CCC-CCCCCCCCCCC----------CCCCCCCCCCCC------------------------------------------
Q 025499 89 -SSS-DRRGGYGGGGA----------GGAGGAGAGAGA------------------------------------------ 114 (252)
Q Consensus 89 -~~~-~~~~~~~~~~~----------~~~~~~~~~~~~------------------------------------------ 114 (252)
-.. .........+. +..+........
T Consensus 178 Pv~p~s~~~~pp~~~a~~~~~~~A~~g~ng~~~l~~q~~gqpa~~~vy~ng~~pypaQsp~va~~lq~a~~g~~~Y~Aay 257 (371)
T KOG0146|consen 178 PVTPASGGSTPPGIGATAVPGIPAPIGVNGFTGLPPQPNGQPAAEAVYANGLHPYPAQSPTVADPLQQAYAGVQQYAAAY 257 (371)
T ss_pred CcCccccCCCCCcccccccCCcccccccccccCCCCCCCCCcchhHHhhcCCccCCCCCccccchhhhhhhhHHHHhhhc
Confidence 000 00000000000 000000000000
Q ss_pred ------------------CCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCCh
Q 025499 115 ------------------GRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNP 172 (252)
Q Consensus 115 ------------------~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~ 172 (252)
.......+.+|+|||..||....+.||.+.|-.||.|+..+++.|.-+ .|+||.|+++
T Consensus 258 paays~v~~~~pq~p~~~~qqqreGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp 337 (371)
T KOG0146|consen 258 PAAYSPISQAFPQPPPLLPQQQREGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNP 337 (371)
T ss_pred chhhhhhhhcCCCCcchhhhhhhcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCc
Confidence 000111266899999999999999999999999999999999988755 4999999999
Q ss_pred hHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 173 EDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 173 ~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
.+|+.||..|||.+|+ .+.|+|...+
T Consensus 338 ~SaQaAIqAMNGFQIG----MKRLKVQLKR 363 (371)
T KOG0146|consen 338 ASAQAAIQAMNGFQIG----MKRLKVQLKR 363 (371)
T ss_pred hhHHHHHHHhcchhhh----hhhhhhhhcC
Confidence 9999999999999999 8888887765
No 27
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.91 E-value=7.2e-24 Score=167.42 Aligned_cols=194 Identities=23% Similarity=0.309 Sum_probs=144.5
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC--CCCCeEEEEEECCHHHHHHHHHhcCCc-ccC--CeeEEEEe
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP--PRPPCYCFVEFENARDAEDAIRGRDGY-NFD--GCRLRVEL 79 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~--~~~~g~afV~f~~~~~a~~a~~~l~~~-~~~--g~~i~v~~ 79 (252)
++++||||.|++.+||.+++++|++||.|++|.|..+ +.++|||||+|.+.+.|..|++.|||. .+. ..+|.|.|
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkF 202 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKF 202 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEe
Confidence 4789999999999999999999999999999999774 689999999999999999999999994 444 47999999
Q ss_pred cCCCCCCCCCCC----------------------------------------CCCCCCCCCC--CC--------------
Q 025499 80 AHGGSGRGPSSS----------------------------------------DRRGGYGGGG--AG-------------- 103 (252)
Q Consensus 80 ~~~~~~~~~~~~----------------------------------------~~~~~~~~~~--~~-------------- 103 (252)
+.+.+.+....- .....+.+.. +.
T Consensus 203 ADtqkdk~~~~lqq~~~~~~qql~~~~~~~n~~~~~~l~~~~~~~~Qq~~~sqn~g~l~g~~~L~~l~a~~~qq~~~~~~ 282 (510)
T KOG0144|consen 203 ADTQKDKDGKRLQQLNPALLQQLGNGQNPQNLASLGALSNGYQGPQQQTQQSQNVGTLGGLPPLGPLNATQLQQAAALAA 282 (510)
T ss_pred cccCCCchHHHHHhhhHHHHHHhcCCCCccchhhhhccCcccCchhhhccccCCCcccccccCCCCcchhHHHHHHHhhh
Confidence 976542111000 0000000000 00
Q ss_pred ---------CCC-C------CCCCCC---------------------------------C--------------------
Q 025499 104 ---------GAG-G------AGAGAG---------------------------------A-------------------- 114 (252)
Q Consensus 104 ---------~~~-~------~~~~~~---------------------------------~-------------------- 114 (252)
... + .+.++. +
T Consensus 283 ~~ta~q~~~~s~q~~pl~~qts~~~~~~~~~~~~~~ss~~~~s~~~~aq~~~~q~~p~t~~~~n~~~~~a~a~~~sp~aa 362 (510)
T KOG0144|consen 283 AATAAQKTASSTQGLPLRTQTSFPGSQTSPQSASAPSSSLSTSQNPLAQLGARQTFPGTPANYNLAGGMAGAGTTSPVAA 362 (510)
T ss_pred hcccccCCCCCcccCccccccCCccccCCCccccCccccCcccccchhhhhHhhcCCCCchhcccccccccccccCcccc
Confidence 000 0 000000 0
Q ss_pred ----------------------------------------------------CCCCCCCCCccEEEEeCCCCCCCHHHHH
Q 025499 115 ----------------------------------------------------GRFGISRHSEYRVIVRGLPSSASWQDLK 142 (252)
Q Consensus 115 ----------------------------------------------------~~~~~~~~~~~~l~v~nl~~~~t~~~l~ 142 (252)
.......+.+..|||.+||.+.-+.+|-
T Consensus 363 ~~~~lq~~~ltp~~~~~~~~~tQa~q~~~q~a~~a~~~l~~q~~~~qq~~~~~~~q~eGpeGanlfiyhlPqefgdq~l~ 442 (510)
T KOG0144|consen 363 SLANLQQIGLTPFAGAAALDHTQAMQQYAQSANLAAPGLVGQQATTQQAQMVGNGQVEGPEGANLFIYHLPQEFGDQDLI 442 (510)
T ss_pred cccccccccCCChhhhhhHhHHHhhhHhhhhhhhcccchhhhhHhhhhhhcccCccccCCCccceeeeeCchhhhhHHHH
Confidence 0000011456789999999999999999
Q ss_pred HHHHHhCCceEEEEeeCCCCc----EEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 143 DHMRKAGDVCFAEVSRDSEGT----YGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 143 ~~f~~~g~v~~~~~~~~~~~~----~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
..|..||.|+..+++.++.++ |+||.|++..+|..||..|||..++ .+.++|...+
T Consensus 443 ~~f~pfG~Vlsakvfidk~tnlskcfgfvSyen~~sa~~aI~amngfQig----~KrlkVQlk~ 502 (510)
T KOG0144|consen 443 ATFQPFGGVLSAKVFIDKVTNLSKCFGFVSYENAQSAQNAISAMNGFQIG----SKRLKVQLKR 502 (510)
T ss_pred HHhccccceeEEEEEEecccCHhhhcCcccccchhhhHHHHHHhcchhhc----cccceEEeee
Confidence 999999999999999998775 9999999999999999999999999 7778876654
No 28
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.90 E-value=2.5e-23 Score=173.61 Aligned_cols=165 Identities=23% Similarity=0.421 Sum_probs=139.1
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeEEEEe--cCC----CCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 8 TIYVGNLPSDIREYEVEDLFYKYGRILDIELK--IPP----RPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~--~~~----~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
+|||.||+.++|.++|...|...|.|+.+.|. .++ .+.|||||+|.++++|+.|+..|+|+.++|+.|.|.++.
T Consensus 517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE 596 (725)
T ss_pred hhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence 39999999999999999999999999999883 233 245999999999999999999999999999999999998
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC
Q 025499 82 GGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE 161 (252)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~ 161 (252)
..+..... ...........|+|.|||...+..+++++|..||.|..|.++....
T Consensus 597 ~k~~~~~g--------------------------K~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~ 650 (725)
T KOG0110|consen 597 NKPASTVG--------------------------KKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIG 650 (725)
T ss_pred Cccccccc--------------------------cccccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhc
Confidence 33211110 1122223357999999999999999999999999999999987632
Q ss_pred ----CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 162 ----GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 162 ----~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
.|||||+|-++.+|..|+.+|.+..+. |+.|-+..+.
T Consensus 651 k~a~rGF~Fv~f~t~~ea~nA~~al~STHly----GRrLVLEwA~ 691 (725)
T KOG0110|consen 651 KGAHRGFGFVDFLTPREAKNAFDALGSTHLY----GRRLVLEWAK 691 (725)
T ss_pred chhhccceeeeccCcHHHHHHHHhhccccee----chhhheehhc
Confidence 269999999999999999999999999 9998776655
No 29
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.90 E-value=1e-21 Score=143.74 Aligned_cols=196 Identities=18% Similarity=0.238 Sum_probs=147.1
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHH----HHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEE
Q 025499 1 MSGRFSRTIYVGNLPSDIREYEVED----LFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLR 76 (252)
Q Consensus 1 m~~~~~~~l~v~~lp~~~t~~~l~~----~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~ 76 (252)
|+.+|+.||||.||+..+..++|+. +|++||+|.+|....+.+.+|-|||.|.+.+.|-.|+..|+|..+.|++++
T Consensus 4 ~~~~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mr 83 (221)
T KOG4206|consen 4 MSVNPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMR 83 (221)
T ss_pred cccCCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhh
Confidence 4457888999999999999999888 999999999999988999999999999999999999999999999999999
Q ss_pred EEecCCCCCCCCCCC----CCCCC----------CCCCCCCCCCC--CCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHH
Q 025499 77 VELAHGGSGRGPSSS----DRRGG----------YGGGGAGGAGG--AGAGAGAGRFGISRHSEYRVIVRGLPSSASWQD 140 (252)
Q Consensus 77 v~~~~~~~~~~~~~~----~~~~~----------~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~ 140 (252)
|+|++.+........ .+... ......+.... ...-+.+. .....++...+|+.|||..++.+.
T Consensus 84 iqyA~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~-~~~~~ppn~ilf~~niP~es~~e~ 162 (221)
T KOG4206|consen 84 IQYAKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPF-LAQMAPPNNILFLTNIPSESESEM 162 (221)
T ss_pred eecccCccchhhccCceeccccCccccccccccCCcccccccccccccccCCCCc-cccCCCCceEEEEecCCcchhHHH
Confidence 999986642211110 00000 00000000000 00000001 133356678999999999999999
Q ss_pred HHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeec
Q 025499 141 LKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRY 201 (252)
Q Consensus 141 l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~ 201 (252)
+..+|..|.....+.+..... +.|||+|.+...|..|...++|..+.. ...+.+..+
T Consensus 163 l~~lf~qf~g~keir~i~~~~-~iAfve~~~d~~a~~a~~~lq~~~it~---~~~m~i~~a 219 (221)
T KOG4206|consen 163 LSDLFEQFPGFKEIRLIPPRS-GIAFVEFLSDRQASAAQQALQGFKITK---KNTMQITFA 219 (221)
T ss_pred HHHHHhhCcccceeEeccCCC-ceeEEecchhhhhHHHhhhhccceecc---CceEEeccc
Confidence 999999999888888877543 599999999999999999999999873 344444443
No 30
>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=99.89 E-value=3.6e-21 Score=163.84 Aligned_cols=79 Identities=24% Similarity=0.418 Sum_probs=73.3
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
..++|||+|||+++++++|+++|+.||+|.++.+.. ++.++|||||+|.+.++|.+|+..||+..|+|+.|.|.++.
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi 282 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 282 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecC
Confidence 457999999999999999999999999999999965 36789999999999999999999999999999999999987
Q ss_pred CC
Q 025499 82 GG 83 (252)
Q Consensus 82 ~~ 83 (252)
.+
T Consensus 283 ~p 284 (612)
T TIGR01645 283 TP 284 (612)
T ss_pred CC
Confidence 54
No 31
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.88 E-value=1.7e-21 Score=158.40 Aligned_cols=168 Identities=27% Similarity=0.437 Sum_probs=144.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC-CCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP-PRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~-~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
+....|||.||+++++..+|..+|+.||+|++|++..+ ..++|| ||+|+++++|++|++.|||..+.|++|.|.....
T Consensus 74 rd~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~ 152 (369)
T KOG0123|consen 74 RDPSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFER 152 (369)
T ss_pred cCCceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccc
Confidence 33444999999999999999999999999999999664 348999 9999999999999999999999999999999887
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC
Q 025499 83 GSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG 162 (252)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~ 162 (252)
...+...... ....-..+++.|++..++++.|.+.|..+|.|..+.++.+..+
T Consensus 153 ~~er~~~~~~---------------------------~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g 205 (369)
T KOG0123|consen 153 KEEREAPLGE---------------------------YKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIG 205 (369)
T ss_pred hhhhcccccc---------------------------hhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCCC
Confidence 6544333211 1223358899999999999999999999999999999987544
Q ss_pred ---cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCC
Q 025499 163 ---TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDR 203 (252)
Q Consensus 163 ---~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~ 203 (252)
+|+||.|++.++|..|+..|++..+. +..+.|..+.+
T Consensus 206 ~~~~~gfv~f~~~e~a~~av~~l~~~~~~----~~~~~V~~aqk 245 (369)
T KOG0123|consen 206 KSKGFGFVNFENPEDAKKAVETLNGKIFG----DKELYVGRAQK 245 (369)
T ss_pred CCCCccceeecChhHHHHHHHhccCCcCC----ccceeeccccc
Confidence 69999999999999999999999998 77887776664
No 32
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.87 E-value=5.5e-21 Score=138.92 Aligned_cols=184 Identities=18% Similarity=0.273 Sum_probs=133.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCC----CCeEEEEEECCHHHHHHHHHhcCCcccC---CeeEEE
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPR----PPCYCFVEFENARDAEDAIRGRDGYNFD---GCRLRV 77 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~----~~g~afV~f~~~~~a~~a~~~l~~~~~~---g~~i~v 77 (252)
.-+||||.+||.++...+|..+|..|---+...++.+.+ ++.+|||+|.+..+|.+|+..|||+.|+ +..|+|
T Consensus 33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhi 112 (284)
T KOG1457|consen 33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHI 112 (284)
T ss_pred ccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEe
Confidence 358999999999999999999999998888888877643 4589999999999999999999999985 789999
Q ss_pred EecCCCCCCCCCCCCCCCCCCC---CCCC----------------CCCCC----CCCCC---------------------
Q 025499 78 ELAHGGSGRGPSSSDRRGGYGG---GGAG----------------GAGGA----GAGAG--------------------- 113 (252)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~---~~~~----------------~~~~~----~~~~~--------------------- 113 (252)
++++.................. ..+. ..+.. +....
T Consensus 113 ElAKSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~~l~~p~~l~~~~~a~al~~~~~t~~~~l~a~~~~~P~ 192 (284)
T KOG1457|consen 113 ELAKSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHDEGLSDPDELQEPGNADALKENDTTKSEALSAPDSKAPS 192 (284)
T ss_pred eehhcCcccccCCCCCCCCCCccccccccChhhcccchhhccccccCccccCCccccccCCCccccchhhhhhhhhcCCc
Confidence 9997653322211111000000 0000 00000 00000
Q ss_pred -------CCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCcc
Q 025499 114 -------AGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTE 186 (252)
Q Consensus 114 -------~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~ 186 (252)
............+|||.||..++++++|+++|+.|.....+++........||++|++.+.|..|+..|+|..
T Consensus 193 a~a~l~ks~q~~~~~~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg~~ 272 (284)
T KOG1457|consen 193 ANAHLEKSSQGGSGARACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNL 272 (284)
T ss_pred ccchhhhhhcccccchhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHHHHHHHHHHHHhhcce
Confidence 0000011122358999999999999999999999988887777766655699999999999999999999999
Q ss_pred cc
Q 025499 187 FR 188 (252)
Q Consensus 187 ~~ 188 (252)
+.
T Consensus 273 ~s 274 (284)
T KOG1457|consen 273 LS 274 (284)
T ss_pred ec
Confidence 87
No 33
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.87 E-value=1.4e-21 Score=153.59 Aligned_cols=168 Identities=18% Similarity=0.309 Sum_probs=142.9
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEE
Q 025499 1 MSGRFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRV 77 (252)
Q Consensus 1 m~~~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v 77 (252)
|+....++|||++|+++++++.|++.|.+||+|.++.++. ++.+++|+||+|++++.+.++|. ...+.|+|+.|.+
T Consensus 1 ~~~~~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~ 79 (311)
T KOG4205|consen 1 SESGESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEP 79 (311)
T ss_pred CCccCCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccc
Confidence 4456889999999999999999999999999999999966 47889999999999999999998 6668999999999
Q ss_pred EecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEe
Q 025499 78 ELAHGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVS 157 (252)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~ 157 (252)
..+.+........ .......|||++||..++++++++.|.+||.|..+.++
T Consensus 80 k~av~r~~~~~~~-----------------------------~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~ 130 (311)
T KOG4205|consen 80 KRAVSREDQTKVG-----------------------------RHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIM 130 (311)
T ss_pred eeccCcccccccc-----------------------------cccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEe
Confidence 9887663221111 11134699999999999999999999999999999888
Q ss_pred eCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCC
Q 025499 158 RDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDR 203 (252)
Q Consensus 158 ~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~ 203 (252)
.+..+ +|+||.|++.+.+.+++. .+-..|. ++.+.|+.+..
T Consensus 131 ~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~----gk~vevkrA~p 175 (311)
T KOG4205|consen 131 YDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFN----GKKVEVKRAIP 175 (311)
T ss_pred ecccccccccceeeEeccccccceecc-cceeeec----CceeeEeeccc
Confidence 88765 699999999999999887 7777777 88888888773
No 34
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.87 E-value=3.4e-21 Score=156.88 Aligned_cols=190 Identities=24% Similarity=0.363 Sum_probs=136.0
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCCC
Q 025499 8 TIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGGS 84 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~~ 84 (252)
.||||||-.++|+++|+.+|++||.|+.|.+.. +|.++|||||+|.+.++|.+|+.+|||..|.|+.|+|.......
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 399999999999999999999999999999944 68999999999999999999999999999999999998875442
Q ss_pred CCCCC---CCCCC----CCCCCCCCC----------CCCC-------------CCCCCC---CC----CCCCCC------
Q 025499 85 GRGPS---SSDRR----GGYGGGGAG----------GAGG-------------AGAGAG---AG----RFGISR------ 121 (252)
Q Consensus 85 ~~~~~---~~~~~----~~~~~~~~~----------~~~~-------------~~~~~~---~~----~~~~~~------ 121 (252)
..... ..+.. .....+.++ +.+. ...... .+ ....+.
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 22211 00000 000000000 0000 000000 00 011111
Q ss_pred -CCccEEEEeCCCCCCC----------HHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCC
Q 025499 122 -HSEYRVIVRGLPSSAS----------WQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNP 190 (252)
Q Consensus 122 -~~~~~l~v~nl~~~~t----------~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~ 190 (252)
.+..++.+.|+-...+ .+++.+.|.+||+|..|.+..... |+.||.|.+++.|..|+.+|||.+|.
T Consensus 440 ~i~t~C~lL~nMFdpstete~n~d~eI~edV~Eec~k~g~v~hi~vd~ns~-g~VYvrc~s~~~A~~a~~alhgrWF~-- 516 (549)
T KOG0147|consen 440 DIPTQCLLLSNMFDPSTETEPNWDQEIREDVIEECGKHGKVCHIFVDKNSA-GCVYVRCPSAEAAGTAVKALHGRWFA-- 516 (549)
T ss_pred CCccHHHHHhhcCCcccccCcchhhHHHHHHHHHHHhcCCeeEEEEccCCC-ceEEEecCcHHHHHHHHHHHhhhhhc--
Confidence 3445677777643332 267889999999999998876654 89999999999999999999999999
Q ss_pred CCCceeEeeecC
Q 025499 191 WARGRITVKRYD 202 (252)
Q Consensus 191 ~~g~~i~v~~~~ 202 (252)
|+-|+..+-.
T Consensus 517 --gr~Ita~~~~ 526 (549)
T KOG0147|consen 517 --GRMITAKYLP 526 (549)
T ss_pred --cceeEEEEee
Confidence 9999887654
No 35
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.87 E-value=1.6e-20 Score=131.55 Aligned_cols=78 Identities=45% Similarity=0.715 Sum_probs=72.9
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
+-.++||||||+..+++.||..+|..||+|.+|+|.. .+.|||||+|+++.+|+.|+..|+|..|.|..|.|+++...
T Consensus 8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvAr--nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~ 85 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVAR--NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGR 85 (195)
T ss_pred CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEee--cCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCC
Confidence 4578999999999999999999999999999999955 45899999999999999999999999999999999999765
No 36
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.86 E-value=9.5e-21 Score=132.70 Aligned_cols=75 Identities=27% Similarity=0.372 Sum_probs=69.9
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCC
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDR 203 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~ 203 (252)
.+.|||+||+..+++.||+.+|..||.|..|.|.. +..|||||||+++.+|..|+..|+|..|. |..|+|+....
T Consensus 10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvAr-nPPGfAFVEFed~RDA~DAvr~LDG~~~c----G~r~rVE~S~G 84 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVAR-NPPGFAFVEFEDPRDAEDAVRYLDGKDIC----GSRIRVELSTG 84 (195)
T ss_pred CceEEeccCCCCcchHHHHHHHHhcCcceeEEEee-cCCCceEEeccCcccHHHHHhhcCCcccc----CceEEEEeecC
Confidence 57999999999999999999999999999998888 44579999999999999999999999999 99999988773
No 37
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.86 E-value=2.8e-20 Score=132.36 Aligned_cols=81 Identities=25% Similarity=0.484 Sum_probs=75.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
..+++|||+|||+++|+++|+++|++||.|.+|.+.. ++.+++||||+|.+.++|++|+..|++..|+|++|+|.++
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 4578999999999999999999999999999999954 4678999999999999999999999999999999999998
Q ss_pred CCCC
Q 025499 81 HGGS 84 (252)
Q Consensus 81 ~~~~ 84 (252)
....
T Consensus 112 ~~~~ 115 (144)
T PLN03134 112 NDRP 115 (144)
T ss_pred CcCC
Confidence 7653
No 38
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.85 E-value=1.4e-20 Score=140.56 Aligned_cols=139 Identities=27% Similarity=0.417 Sum_probs=117.1
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 1 MSGRFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 1 m~~~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
|.++.-++|||+||...+||+-|..||++.|.|+.++|+.+ .|+|.|+
T Consensus 1 ~~~~~prtlyvgnld~~vte~~i~~lf~qig~v~~~k~i~~--------------------------------e~~v~wa 48 (321)
T KOG0148|consen 1 NGSDEPRTLYVGNLDSTVTEDFIATLFNQIGSVTKTKVIFD--------------------------------ELKVNWA 48 (321)
T ss_pred CCCCCCceEEeeccChhhHHHHHHHHHHhccccccceeehh--------------------------------hhccccc
Confidence 45678899999999999999999999999999999998754 4556665
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCC
Q 025499 81 HGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDS 160 (252)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~ 160 (252)
....... .+.......+||+.|...++.++|++.|.+||+|..+++++|.
T Consensus 49 ~~p~nQs------------------------------k~t~~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~ 98 (321)
T KOG0148|consen 49 TAPGNQS------------------------------KPTSNQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDM 98 (321)
T ss_pred cCcccCC------------------------------CCccccceeEEehhcchhcchHHHHHHhccccccccceEeecc
Confidence 4431111 1112224689999999999999999999999999999999997
Q ss_pred CC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCCCC
Q 025499 161 EG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDRSP 205 (252)
Q Consensus 161 ~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~~~ 205 (252)
.+ ||+||-|.+.++|+.||..|||..|+ +|.|+..=+.+.+
T Consensus 99 ~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG----~R~IRTNWATRKp 143 (321)
T KOG0148|consen 99 NTGKSKGYGFVSFPNKEDAENAIQQMNGQWLG----RRTIRTNWATRKP 143 (321)
T ss_pred cCCcccceeEEeccchHHHHHHHHHhCCeeec----cceeeccccccCc
Confidence 65 69999999999999999999999999 9999987777665
No 39
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=99.83 E-value=5.2e-19 Score=139.28 Aligned_cols=192 Identities=16% Similarity=0.184 Sum_probs=146.1
Q ss_pred CcEEEEcCCCCC-CCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCCC
Q 025499 6 SRTIYVGNLPSD-IREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGGS 84 (252)
Q Consensus 6 ~~~l~v~~lp~~-~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~~ 84 (252)
+..|.|.||.++ +|++-|..+|.-||.|..|+|.... +-.|.|+|.+...|+-|++.|+|..|.|++|+|.+++...
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk--kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~ 374 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK--KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTN 374 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC--CcceeeeecchhHHHHHHHHhhcceecCceEEEeeccCcc
Confidence 688999999876 8999999999999999999997643 3679999999999999999999999999999999998764
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcE
Q 025499 85 GRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTY 164 (252)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~ 164 (252)
-.-+...+....+........-....-++...+...-++..+|++.|+|.++++++|+.+|...|..........++..+
T Consensus 375 vqlp~egq~d~glT~dy~~spLhrfkkpgsKN~~ni~PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff~kd~km 454 (492)
T KOG1190|consen 375 VQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNYQNIFPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQKDRKM 454 (492)
T ss_pred ccCCCCCCccccccccCCCCchhhccCcccccccccCCchhheeeccCCcccchhHHHHhhhcCCceEEeeeecCCCcce
Confidence 33333222222222111110000111111112222335667999999999999999999999999877776666666679
Q ss_pred EEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 165 GVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 165 afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
|++.+++.|+|..|+..+|...++. +..|+|.+++
T Consensus 455 al~q~~sveeA~~ali~~hnh~lge---n~hlRvSFSk 489 (492)
T KOG1190|consen 455 ALPQLESVEEAIQALIDLHNHYLGE---NHHLRVSFSK 489 (492)
T ss_pred eecccCChhHhhhhccccccccCCC---CceEEEEeec
Confidence 9999999999999999999999983 5578888765
No 40
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.83 E-value=2.5e-21 Score=157.64 Aligned_cols=173 Identities=22% Similarity=0.302 Sum_probs=141.0
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC---CCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP---PRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~---~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
+..++||+-.|+..+++.+|.++|+.+|+|.+|.++.+ +.++|.|||+|.+.+.+-.|+. |.|..+.|.+|.|+.+
T Consensus 177 Rd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~pv~vq~s 255 (549)
T KOG0147|consen 177 RDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPVIVQLS 255 (549)
T ss_pred HhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCceeEeccc
Confidence 44578888899999999999999999999999999654 5789999999999999999997 9999999999999987
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCC
Q 025499 81 HGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDS 160 (252)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~ 160 (252)
............. +.+ ..-..+-..|||+||..++++++|+.+|+.||.|..|.+..+.
T Consensus 256 Eaeknr~a~~s~a---~~~------------------k~~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~ 314 (549)
T KOG0147|consen 256 EAEKNRAANASPA---LQG------------------KGFTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDS 314 (549)
T ss_pred HHHHHHHHhcccc---ccc------------------cccccchhhhhhcccccCchHHHHhhhccCcccceeeeecccc
Confidence 6553331111000 000 0001111239999999999999999999999999999999886
Q ss_pred CC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 161 EG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 161 ~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
.+ ||+||+|.+.++|..|+.+|||.++. |+.|+|-...
T Consensus 315 ~tG~skgfGfi~f~~~~~ar~a~e~lngfelA----Gr~ikV~~v~ 356 (549)
T KOG0147|consen 315 ETGRSKGFGFITFVNKEDARKALEQLNGFELA----GRLIKVSVVT 356 (549)
T ss_pred ccccccCcceEEEecHHHHHHHHHHhccceec----CceEEEEEee
Confidence 33 69999999999999999999999999 9999885533
No 41
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=99.80 E-value=1.8e-18 Score=133.55 Aligned_cols=193 Identities=20% Similarity=0.184 Sum_probs=138.8
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeE--------EEEec--CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCee
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILD--------IELKI--PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCR 74 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~--------v~~~~--~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~ 74 (252)
-++.|||.|||.++|.+++.++|++||.|.. |+++. .|..+|=|.+.|-..+++..|+..|++..+.|+.
T Consensus 133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~ 212 (382)
T KOG1548|consen 133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKK 212 (382)
T ss_pred cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcE
Confidence 4567999999999999999999999997765 55544 4788999999999999999999999999999999
Q ss_pred EEEEecCCCCCCCCCCCCCC--CCCCCCC---CCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCC----CC-------H
Q 025499 75 LRVELAHGGSGRGPSSSDRR--GGYGGGG---AGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSS----AS-------W 138 (252)
Q Consensus 75 i~v~~~~~~~~~~~~~~~~~--~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~----~t-------~ 138 (252)
|+|+.|+-..........+. .+..--. .......-.+.. ..+-.....++|.+.|+-.. .+ +
T Consensus 213 ~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~--~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlk 290 (382)
T KOG1548|consen 213 LRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDR--DDPSKARADRTVILKNMFTPEDFEKNPDLLNDLK 290 (382)
T ss_pred EEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCc--cccccccCCcEEEeeecCCHHHhccCHHHHHHHH
Confidence 99999864311100000000 0000000 000000000000 00111233568889997432 22 3
Q ss_pred HHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCC
Q 025499 139 QDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDR 203 (252)
Q Consensus 139 ~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~ 203 (252)
++|.+.+.+||.|..|.+...+..|.+.|.|.+.++|..+|..|+|+.|. |+.|.......
T Consensus 291 edl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fd----gRql~A~i~DG 351 (382)
T KOG1548|consen 291 EDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFD----GRQLTASIWDG 351 (382)
T ss_pred HHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeec----ceEEEEEEeCC
Confidence 67788899999999999998888899999999999999999999999999 99998877663
No 42
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.80 E-value=3.6e-18 Score=135.72 Aligned_cols=192 Identities=28% Similarity=0.444 Sum_probs=138.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHh-hcCceeEEEEecC--CCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFY-KYGRILDIELKIP--PRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~-~~G~v~~v~~~~~--~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
.+.+||.|||+++.+.+|+.||. +.|+|+.|.+..+ ++++|||.|+|+++|.+++|++.||.+.+.|++|.|+-...
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d 123 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD 123 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence 46699999999999999999996 5789999999765 78999999999999999999999999999999999987654
Q ss_pred CCCCCCCCCCCC--CCCCCC------------CCCCCCCCCCCCC----------------C------------------
Q 025499 83 GSGRGPSSSDRR--GGYGGG------------GAGGAGGAGAGAG----------------A------------------ 114 (252)
Q Consensus 83 ~~~~~~~~~~~~--~~~~~~------------~~~~~~~~~~~~~----------------~------------------ 114 (252)
.........-+. ..+..+ ..+..+....+.. .
T Consensus 124 ~q~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~F 203 (608)
T KOG4212|consen 124 EQRDQYGRIVRDGGGGFGGGGGVQGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSASF 203 (608)
T ss_pred hhhhhhhheeeccCcccccCcceecccccccccCCCCccccCCCCcccccccccccCccccccccccchhhhcccchhhh
Confidence 211000000000 000000 0000000000000 0
Q ss_pred --CCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC---cEEEEEcCChhHHHHHHHHhcCccccC
Q 025499 115 --GRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG---TYGVVDYTNPEDMKYAIRKLDDTEFRN 189 (252)
Q Consensus 115 --~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~---~~afv~f~~~~~a~~a~~~l~g~~~~~ 189 (252)
.......+....+||.||.+.+....|.+.|...|.|..+.+-.++.. +++.++|.++-+|.+||..+++.-+.
T Consensus 204 lr~~h~f~pPl~~k~fvanl~~~vg~~kL~qvfgmAGkv~~vdf~idKeG~s~G~~vi~y~hpveavqaIsml~~~g~~- 282 (608)
T KOG4212|consen 204 LRSLHIFSPPLHNKVFVANLDYKVGNKKLKQVFGMAGKVQSVDFSIDKEGNSRGFAVIEYDHPVEAVQAISMLDRQGLF- 282 (608)
T ss_pred hhhccCCCCCccceeeeeccccccchHHHHHHhccceeeeeeceeeccccccCCeeEEEecchHHHHHHHHhhccCCCc-
Confidence 000112344568999999999999999999999999999998887654 69999999999999999999986655
Q ss_pred CCCCceeEeeec
Q 025499 190 PWARGRITVKRY 201 (252)
Q Consensus 190 ~~~g~~i~v~~~ 201 (252)
.+...++..
T Consensus 283 ---~~~~~~Rl~ 291 (608)
T KOG4212|consen 283 ---DRRMTVRLD 291 (608)
T ss_pred ---cccceeecc
Confidence 555555443
No 43
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.79 E-value=1.3e-18 Score=125.11 Aligned_cols=76 Identities=20% Similarity=0.234 Sum_probs=71.7
Q ss_pred CccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEe
Q 025499 123 SEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITV 198 (252)
Q Consensus 123 ~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v 198 (252)
.-.+|.|.||.+-++.++|..+|++||.|-+|.|..+..+ |||||.|....+|+.|+++|+|..|. |+.|+|
T Consensus 12 gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ld----gRelrV 87 (256)
T KOG4207|consen 12 GMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLD----GRELRV 87 (256)
T ss_pred cceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeec----cceeee
Confidence 3468999999999999999999999999999999999876 69999999999999999999999999 999999
Q ss_pred eecC
Q 025499 199 KRYD 202 (252)
Q Consensus 199 ~~~~ 202 (252)
+.++
T Consensus 88 q~ar 91 (256)
T KOG4207|consen 88 QMAR 91 (256)
T ss_pred hhhh
Confidence 8877
No 44
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=99.77 E-value=1.8e-17 Score=133.71 Aligned_cols=167 Identities=23% Similarity=0.273 Sum_probs=130.0
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec-CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI-PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~-~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
....|-+.+||+.+|++||.++|+.|+ |.++.+.. +++..|-|||+|.+++++++|++ .+...+..+-|.|..+...
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~~~ 86 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAGGA 86 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccCCc
Confidence 445688899999999999999999997 88887755 58999999999999999999999 7888888899999887665
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceE-EEEeeC---
Q 025499 84 SGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCF-AEVSRD--- 159 (252)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~-~~~~~~--- 159 (252)
+...... ....+ .....-.|.+.+||+.+|++||.++|+-.-.|.. +.+..+
T Consensus 87 e~d~~~~---~~g~~---------------------s~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rg 142 (510)
T KOG4211|consen 87 EADWVMR---PGGPN---------------------SSANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRG 142 (510)
T ss_pred ccccccc---CCCCC---------------------CCCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCC
Confidence 3321111 00000 0123458999999999999999999998765555 333333
Q ss_pred CCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 160 SEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 160 ~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
+.++.|||.|++.+.|+.|+. -|...|+ .+.|.|-.+.
T Consensus 143 R~tGEAfVqF~sqe~ae~Al~-rhre~iG----hRYIEvF~Ss 180 (510)
T KOG4211|consen 143 RPTGEAFVQFESQESAEIALG-RHRENIG----HRYIEVFRSS 180 (510)
T ss_pred CcccceEEEecCHHHHHHHHH-HHHHhhc----cceEEeehhH
Confidence 345799999999999999998 6777888 8888885543
No 45
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.77 E-value=9e-19 Score=116.42 Aligned_cols=80 Identities=38% Similarity=0.562 Sum_probs=74.2
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEE---ecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIEL---KIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~---~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
..+++||||||+..+||++|.++|+.||+|..|.| ..+..+.|||||+|.+.++|..||..++|+.++.++|.|.|.
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 46899999999999999999999999999999998 445567899999999999999999999999999999999998
Q ss_pred CCC
Q 025499 81 HGG 83 (252)
Q Consensus 81 ~~~ 83 (252)
...
T Consensus 114 ~GF 116 (153)
T KOG0121|consen 114 AGF 116 (153)
T ss_pred ccc
Confidence 755
No 46
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.77 E-value=1.1e-17 Score=140.34 Aligned_cols=192 Identities=22% Similarity=0.286 Sum_probs=139.2
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
...+.|+|+|||..+..++|..+|..||+|..|.+... ..-|+|+|.++.+|.+|+..|....+...++++.|+...
T Consensus 383 rs~~vil~kNlpa~t~~~elt~~F~~fG~i~rvllp~~---G~~aiv~fl~p~eAr~Afrklaysr~k~~plyle~aP~d 459 (725)
T KOG0110|consen 383 RSDTVILVKNLPAGTLSEELTEAFLRFGEIGRVLLPPG---GTGAIVEFLNPLEARKAFRKLAYSRFKSAPLYLEWAPED 459 (725)
T ss_pred hhcceeeeccCccccccHHHHHHhhcccccceeecCcc---cceeeeeecCccchHHHHHHhchhhhccCccccccChhh
Confidence 34578999999999999999999999999999955321 234999999999999999999999999999999998643
Q ss_pred CCCCCCCCCCC-CCCCCC--CCCC---CC-----CCCCC--C-CCCCCC-CCCCCccEEEEeCCCCCCCHHHHHHHHHHh
Q 025499 84 SGRGPSSSDRR-GGYGGG--GAGG---AG-----GAGAG--A-GAGRFG-ISRHSEYRVIVRGLPSSASWQDLKDHMRKA 148 (252)
Q Consensus 84 ~~~~~~~~~~~-~~~~~~--~~~~---~~-----~~~~~--~-~~~~~~-~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~ 148 (252)
.-......... ...... .+.. .. ..... . ...... ......+.|||.||++.++.++|..+|...
T Consensus 460 vf~~~pka~~~~~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~ss~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~F~k~ 539 (725)
T KOG0110|consen 460 VFTEDPKADDLSAESRSKMEENPSERVSAEDGQVEEDKDPTEESSLARVAEDEETETKLFVKNLNFDTTLEDLEDLFSKQ 539 (725)
T ss_pred hccCCccccccccccccccccCcceecccccccccccCCccccccchhhhhccccchhhhhhcCCcccchhHHHHHHHhc
Confidence 21111000000 000000 0000 00 00000 0 000000 011122349999999999999999999999
Q ss_pred CCceEEEEeeCCCC-------cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 149 GDVCFAEVSRDSEG-------TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 149 g~v~~~~~~~~~~~-------~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
|.|..+.|...++. |||||+|.++++|+.|+..|+|..+. |..|.|+.+.
T Consensus 540 G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvld----GH~l~lk~S~ 596 (725)
T KOG0110|consen 540 GTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLD----GHKLELKISE 596 (725)
T ss_pred CeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceec----CceEEEEecc
Confidence 99999988776654 89999999999999999999999999 9999999988
No 47
>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=99.76 E-value=2.6e-18 Score=107.93 Aligned_cols=68 Identities=40% Similarity=0.764 Sum_probs=64.1
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcCceeEEEEec--CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEE
Q 025499 9 IYVGNLPSDIREYEVEDLFYKYGRILDIELKI--PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLR 76 (252)
Q Consensus 9 l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~--~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~ 76 (252)
|||+|||+++|+++|+++|++||.|..+.+.. ++..+++|||+|.+.++|++|++.|+|..++|++|+
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 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 79999999999999999999999999999965 467889999999999999999999999999999885
No 48
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=99.76 E-value=2.6e-18 Score=135.33 Aligned_cols=194 Identities=16% Similarity=0.147 Sum_probs=140.1
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCC--cccCCeeEEEEec
Q 025499 3 GRFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDG--YNFDGCRLRVELA 80 (252)
Q Consensus 3 ~~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~--~~~~g~~i~v~~~ 80 (252)
..+++.|+++|||.+++|+||..++.+||.|.++.+... +..|||+|.++++|...+..+.. -.+.|++|.|+|+
T Consensus 25 ~~pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkG---knQAflem~d~~sAvtmv~~y~~~~p~lr~~~~yiq~s 101 (492)
T KOG1190|consen 25 AEPSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKG---KNQAFLEMADEESAVTMVNYYTSVTPVLRGQPIYIQYS 101 (492)
T ss_pred cCCcceeEeccCCccccHHHHHHhcccccceeeeeeecc---chhhhhhhcchhhhhheeecccccCccccCcceeehhh
Confidence 368999999999999999999999999999999988643 44799999999999886665554 3357999999998
Q ss_pred CCCCCCCCCCCC-CCC-----CCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEE
Q 025499 81 HGGSGRGPSSSD-RRG-----GYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFA 154 (252)
Q Consensus 81 ~~~~~~~~~~~~-~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~ 154 (252)
....-....... .+. .+........+-.+.+...+ .......-..++|+|+-+.++-+.|.++|++||.|..|
T Consensus 102 n~~~lkt~s~p~q~r~~~vy~~~s~~q~~~~~~s~~~~~~G-~~~~~n~vLr~iie~m~ypVslDVLHqvFS~fG~VlKI 180 (492)
T KOG1190|consen 102 NHSELKTDSQPNQIRGQAVYQAVSSVQEIVLPLSASAVVVG-NEDGPNPVLRTIIENMFYPVSLDVLHQVFSKFGFVLKI 180 (492)
T ss_pred hHHHHhccCchhhhhhhhHHhhhhccccccccccccccccc-ccCCCceeEEEEeccceeeeEHHHHHHHHhhcceeEEE
Confidence 644211111110 000 00000000000000000001 12222344678899999999999999999999999999
Q ss_pred EEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 155 EVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 155 ~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
..+....+..|+|+|.+++.|+.|...|+|+.|.+. .+.|++++++
T Consensus 181 iTF~Knn~FQALvQy~d~~sAq~AK~aLdGqnIyng--cCtLrId~Sk 226 (492)
T KOG1190|consen 181 ITFTKNNGFQALVQYTDAVSAQAAKLALDGQNIYNG--CCTLRIDFSK 226 (492)
T ss_pred EEEecccchhhhhhccchhhHHHHHHhccCCcccCc--eeEEEeehhh
Confidence 888888777999999999999999999999999853 5667777766
No 49
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.76 E-value=9.8e-18 Score=120.69 Aligned_cols=80 Identities=34% Similarity=0.545 Sum_probs=74.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEE---ecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIEL---KIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~---~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
+.-++|.|-||.+-+|.++|+.+|++||.|-+|+| ..|+.++|||||.|....+|+.|++.|+|.+++|+.|.|+++
T Consensus 11 ~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~a 90 (256)
T KOG4207|consen 11 EGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMA 90 (256)
T ss_pred ccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhh
Confidence 45578999999999999999999999999999999 456889999999999999999999999999999999999998
Q ss_pred CCC
Q 025499 81 HGG 83 (252)
Q Consensus 81 ~~~ 83 (252)
.-.
T Consensus 91 ryg 93 (256)
T KOG4207|consen 91 RYG 93 (256)
T ss_pred hcC
Confidence 644
No 50
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=99.75 E-value=1.6e-18 Score=135.79 Aligned_cols=183 Identities=17% Similarity=0.152 Sum_probs=125.6
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC------CCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEE
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP------PRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRV 77 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~------~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v 77 (252)
.....|.|.||.+.+|.++++.||...|+|.++.|+.+ ......|||.|.+...+..|.. |.++.|-|+.|.|
T Consensus 5 ~~~~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdraliv 83 (479)
T KOG4676|consen 5 SSLGVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALIV 83 (479)
T ss_pred CCCceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEEE
Confidence 44559999999999999999999999999999999663 1235689999999999988877 8889999998888
Q ss_pred EecCCCCCCCC---------CCCCCCCCCCCCCCCCCCCCCCCCCCCC-C-CCCC----------CCccEEEEeCCCCCC
Q 025499 78 ELAHGGSGRGP---------SSSDRRGGYGGGGAGGAGGAGAGAGAGR-F-GISR----------HSEYRVIVRGLPSSA 136 (252)
Q Consensus 78 ~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~----------~~~~~l~v~nl~~~~ 136 (252)
.++........ ...+....+.+...+...-.-.+..+.. . .++- .-..+++|.+|+..+
T Consensus 84 ~p~~~~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~~A~kleeirRt~~v~sl~~~~ 163 (479)
T KOG4676|consen 84 RPYGDEVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKINHSPNAILKTPELPPQAAAKKLEEIRRTREVQSLISAA 163 (479)
T ss_pred EecCCCCCccHHHHHhcCcccccccccCCCCccCCCCccccccCCccceecCCCCChHhhhhhhHHHHhhhhhhcchhhh
Confidence 87654321110 0000000111100000000000000000 0 0000 112579999999999
Q ss_pred CHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 137 SWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 137 t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
...++.+.|..+|.|.+..+.......+|.++|....+...|+. ++|..+.
T Consensus 164 ~l~e~~e~f~r~Gev~ya~~ask~~s~~c~~sf~~qts~~halr-~~gre~k 214 (479)
T KOG4676|consen 164 ILPESGESFERKGEVSYAHTASKSRSSSCSHSFRKQTSSKHALR-SHGRERK 214 (479)
T ss_pred cchhhhhhhhhcchhhhhhhhccCCCcchhhhHhhhhhHHHHHH-hcchhhh
Confidence 99999999999999999988877766788899998888888887 7777664
No 51
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.75 E-value=8.9e-17 Score=121.95 Aligned_cols=81 Identities=33% Similarity=0.565 Sum_probs=76.1
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEe
Q 025499 3 GRFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVEL 79 (252)
Q Consensus 3 ~~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~ 79 (252)
++|=+||||+-|+++++|..|+..|+.||+|+.|.|+. |++++|||||+|+++-+...|....+|.+|+|+.|.|.+
T Consensus 98 gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDv 177 (335)
T KOG0113|consen 98 GDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDV 177 (335)
T ss_pred CCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEe
Confidence 57889999999999999999999999999999999944 689999999999999999999999999999999999998
Q ss_pred cCCC
Q 025499 80 AHGG 83 (252)
Q Consensus 80 ~~~~ 83 (252)
-...
T Consensus 178 ERgR 181 (335)
T KOG0113|consen 178 ERGR 181 (335)
T ss_pred cccc
Confidence 7654
No 52
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.75 E-value=1.3e-17 Score=126.73 Aligned_cols=77 Identities=21% Similarity=0.293 Sum_probs=72.6
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
.++|||+|||+.+|+++|+++|+.||+|.+|.|..++..+|||||+|.++++|..||. |+|..|.|+.|.|.++...
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~~ 80 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAEDY 80 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccCC
Confidence 6899999999999999999999999999999998777678999999999999999996 9999999999999998754
No 53
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.74 E-value=1.9e-17 Score=140.97 Aligned_cols=137 Identities=20% Similarity=0.279 Sum_probs=101.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhc--CceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKY--GRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~--G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
..++|||+|||.++|+++|+++|+.| |+|+.|.+. ++||||+|.+.++|.+|+..||+..|.|+.|.|.|+.+
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~-----rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp 306 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI-----RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKP 306 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee-----cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence 45789999999999999999999999 999999876 57999999999999999999999999999999999987
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceE
Q 025499 83 GSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCF 153 (252)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~ 153 (252)
....... .+..+..+ .................+...++++.|++++.+++.+.++|..+|.|..
T Consensus 307 ~~~~~~~------~~~rg~gg-~~~~~~~~~~~~g~~~sp~s~~~~~g~~~~~~~~~~~~~~f~~~g~~~~ 370 (578)
T TIGR01648 307 VDKKSYV------RYTRGTGG-RGKERQAARQSLGQVYDPASRSLAYEDYYYHPPYAPSLHFPRMPGPIRG 370 (578)
T ss_pred CCccccc------ccccccCC-CcccccccccccCcccCccccccccccccccccccchhhccccCccccC
Confidence 5321110 01110000 0000000011111223345679999999999999999999999987653
No 54
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.74 E-value=1.6e-17 Score=137.02 Aligned_cols=78 Identities=26% Similarity=0.364 Sum_probs=73.4
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
+.+|||+|||+++++++|+++|++||.|.+|.|.. ++.++|||||+|.+.++|.+|+..|||..|+|+.|+|.|...
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~ 348 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTN 348 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccC
Confidence 45799999999999999999999999999999965 578999999999999999999999999999999999999876
Q ss_pred C
Q 025499 83 G 83 (252)
Q Consensus 83 ~ 83 (252)
+
T Consensus 349 ~ 349 (352)
T TIGR01661 349 K 349 (352)
T ss_pred C
Confidence 6
No 55
>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=99.73 E-value=1.4e-16 Score=129.09 Aligned_cols=79 Identities=29% Similarity=0.478 Sum_probs=71.9
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCC--eeEEEEe
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDG--CRLRVEL 79 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~i~v~~ 79 (252)
..++|||+|||+.+|+++|+++|++||+|+.|.+.. ++.+++||||+|.+.++|++||+.|++..+.| ++|.|.+
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 467899999999999999999999999999999854 56788999999999999999999999998866 7899999
Q ss_pred cCCC
Q 025499 80 AHGG 83 (252)
Q Consensus 80 ~~~~ 83 (252)
+...
T Consensus 272 a~~~ 275 (346)
T TIGR01659 272 AEEH 275 (346)
T ss_pred CCcc
Confidence 8765
No 56
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.72 E-value=4.8e-17 Score=121.65 Aligned_cols=81 Identities=25% Similarity=0.245 Sum_probs=74.9
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 1 MSGRFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 1 m~~~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
|. ....+|||+||++.+|+++|+++|+.||+|.+|.|..++...+||||+|.++++|..|+. |+|..|.|++|.|...
T Consensus 1 m~-~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~ 78 (243)
T PLN03121 1 MY-PGGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRW 78 (243)
T ss_pred CC-CCceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeC
Confidence 44 356899999999999999999999999999999999888888999999999999999997 9999999999999987
Q ss_pred CCC
Q 025499 81 HGG 83 (252)
Q Consensus 81 ~~~ 83 (252)
...
T Consensus 79 ~~y 81 (243)
T PLN03121 79 GQY 81 (243)
T ss_pred ccc
Confidence 654
No 57
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.70 E-value=7.6e-17 Score=119.10 Aligned_cols=80 Identities=36% Similarity=0.540 Sum_probs=75.8
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEE---ecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIEL---KIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~---~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
+.+++|-|.||+.+++|++|++||.+||.|..|++ +.||.++|||||.|.+.++|.+|+..|||+-++.-.|.|+|+
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 56788999999999999999999999999999999 457899999999999999999999999999999999999999
Q ss_pred CCC
Q 025499 81 HGG 83 (252)
Q Consensus 81 ~~~ 83 (252)
++.
T Consensus 267 kP~ 269 (270)
T KOG0122|consen 267 KPS 269 (270)
T ss_pred CCC
Confidence 875
No 58
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.70 E-value=7.1e-16 Score=109.80 Aligned_cols=83 Identities=25% Similarity=0.369 Sum_probs=74.3
Q ss_pred CCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCc
Q 025499 119 ISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARG 194 (252)
Q Consensus 119 ~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~ 194 (252)
.......+|||+|||..+++++|+++|++||.|..+.+..+..+ +||||+|.+.++|+.|++.|++..|. ++
T Consensus 29 ~~~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~----Gr 104 (144)
T PLN03134 29 SLRLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELN----GR 104 (144)
T ss_pred cccCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEEC----CE
Confidence 33455679999999999999999999999999999999987643 69999999999999999999999999 99
Q ss_pred eeEeeecCCCC
Q 025499 195 RITVKRYDRSP 205 (252)
Q Consensus 195 ~i~v~~~~~~~ 205 (252)
.|+|..+...+
T Consensus 105 ~l~V~~a~~~~ 115 (144)
T PLN03134 105 HIRVNPANDRP 115 (144)
T ss_pred EEEEEeCCcCC
Confidence 99999887443
No 59
>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=99.68 E-value=1.7e-16 Score=99.55 Aligned_cols=68 Identities=29% Similarity=0.605 Sum_probs=61.0
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC--CCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEE
Q 025499 9 IYVGNLPSDIREYEVEDLFYKYGRILDIELKIP--PRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLR 76 (252)
Q Consensus 9 l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~--~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~ 76 (252)
|||+|||+.+++++|.++|+.||.|..+.+... +..+++|||+|.++++|..|++.+++..|+|+.|.
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 799999999999999999999999999999553 56789999999999999999999999999999874
No 60
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.68 E-value=3.6e-16 Score=100.18 Aligned_cols=80 Identities=34% Similarity=0.445 Sum_probs=74.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
+-++.|||.|||.++|.+++.++|.+||.|..|.+=.+...+|.|||.|++..+|.+|+..|+|..+.++.|.|-+.++.
T Consensus 16 evnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~ 95 (124)
T KOG0114|consen 16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPE 95 (124)
T ss_pred hhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHH
Confidence 45678999999999999999999999999999999666666999999999999999999999999999999999998765
No 61
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.68 E-value=6.1e-15 Score=115.12 Aligned_cols=77 Identities=25% Similarity=0.455 Sum_probs=70.2
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
+.|||..+.++.+|+||...|+.||+|+.|.+.. .+..+||+||+|.+..+-..|+..||=..+.|+-|+|..+...
T Consensus 211 nRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vTP 290 (544)
T KOG0124|consen 211 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTP 290 (544)
T ss_pred heEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecccccCC
Confidence 5799999999999999999999999999999944 3578999999999999999999999989999999999887544
No 62
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.67 E-value=1.8e-16 Score=116.68 Aligned_cols=75 Identities=25% Similarity=0.399 Sum_probs=68.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
++||||+|+++++.+.|+++|++||+|++..|+. +++++|||||+|.+.++|.+|++ -.+..|+|++..|.++.-
T Consensus 13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~-dp~piIdGR~aNcnlA~l 90 (247)
T KOG0149|consen 13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACK-DPNPIIDGRKANCNLASL 90 (247)
T ss_pred EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhc-CCCCcccccccccchhhh
Confidence 6899999999999999999999999999988854 68999999999999999999999 556889999999998864
No 63
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.66 E-value=3.2e-16 Score=120.47 Aligned_cols=80 Identities=26% Similarity=0.472 Sum_probs=74.7
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec-CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI-PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~-~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
+.-+.|+|.|||....|-||+.+|.+||+|.+|.|+. +..+||||||+|+++++|++|-++|+|..|.|++|.|..+..
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATa 173 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATA 173 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccch
Confidence 4557899999999999999999999999999999976 467899999999999999999999999999999999999876
Q ss_pred C
Q 025499 83 G 83 (252)
Q Consensus 83 ~ 83 (252)
.
T Consensus 174 r 174 (376)
T KOG0125|consen 174 R 174 (376)
T ss_pred h
Confidence 5
No 64
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.65 E-value=4.4e-15 Score=118.68 Aligned_cols=145 Identities=28% Similarity=0.458 Sum_probs=109.5
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
.++|||+|||.++|+++|.++|..||.|..+.+.. ++.++|||||+|.+.++|..|+..+++..|.|++|.|.++..
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 59999999999999999999999999999998854 478999999999999999999999999999999999999764
Q ss_pred -CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC
Q 025499 83 -GSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE 161 (252)
Q Consensus 83 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~ 161 (252)
...+........... .................+++.+++..++..++...|..+|.+....+.....
T Consensus 195 ~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 262 (306)
T COG0724 195 ASQPRSELSNNLDASF------------AKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKD 262 (306)
T ss_pred ccccccccccccchhh------------hccccccccccccccceeeccccccccchhHHHHhccccccceeeeccCCCC
Confidence 111111000000000 0000111123334567899999999999999999999999997766665543
Q ss_pred C
Q 025499 162 G 162 (252)
Q Consensus 162 ~ 162 (252)
.
T Consensus 263 ~ 263 (306)
T COG0724 263 G 263 (306)
T ss_pred C
Confidence 3
No 65
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.65 E-value=3e-14 Score=113.74 Aligned_cols=74 Identities=28% Similarity=0.544 Sum_probs=66.2
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
...|+|||.|||.++||+.|++-|..||.|.++.++. +..-.+.|.|.++++|+.|+..|+|..+. |+.|.|++
T Consensus 534 rKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime-~GkskGVVrF~s~edAEra~a~Mngs~l~----Gr~I~V~y 607 (608)
T KOG4212|consen 534 RKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME-NGKSKGVVRFFSPEDAERACALMNGSRLD----GRNIKVTY 607 (608)
T ss_pred ccccEEEEecCCccccHHHHHHHHHhccceehhhhhc-cCCccceEEecCHHHHHHHHHHhccCccc----Cceeeeee
Confidence 5568999999999999999999999999999998843 32235699999999999999999999999 99999976
No 66
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=99.64 E-value=4.3e-14 Score=110.67 Aligned_cols=193 Identities=15% Similarity=0.127 Sum_probs=142.5
Q ss_pred CCCcEEEEcCCCCC-CCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 4 RFSRTIYVGNLPSD-IREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 4 ~~~~~l~v~~lp~~-~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
-+++.++|-+|... ++-+.|.++|..||.|+.|+++.+. .|.|.|++.+..+.+.|++.||+..+.|.+|.|.+++.
T Consensus 285 ~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk--~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ 362 (494)
T KOG1456|consen 285 APGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK--PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQ 362 (494)
T ss_pred CCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc--cceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccc
Confidence 56889999999875 7889999999999999999998764 57899999999999999999999999999999999976
Q ss_pred CCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhC-CceEEEEee
Q 025499 83 GSGRGPS---SSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAG-DVCFAEVSR 158 (252)
Q Consensus 83 ~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g-~v~~~~~~~ 158 (252)
.--.... ..+....+..-.......-..+..+.+ .....+.+.|+.-|.|..+||+.|..+|...+ ..+.++++.
T Consensus 363 ~~v~~~~pflLpDgSpSfKdys~SkNnRFssp~qAsK-NrIq~Ps~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvFp 441 (494)
T KOG1456|consen 363 NFVSPVQPFLLPDGSPSFKDYSGSKNNRFSSPEQASK-NRIQPPSNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVFP 441 (494)
T ss_pred cccccCCceecCCCCcchhhcccccccccCChhHhhc-ccccCCcceeEEecCCCccCHHHHHHHhhhcCCCcceEEeec
Confidence 5221111 011111111111111111112222222 23345678999999999999999999999876 456677776
Q ss_pred CCCC--cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEee
Q 025499 159 DSEG--TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVK 199 (252)
Q Consensus 159 ~~~~--~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~ 199 (252)
.+.. -.+.+||++.++|..||..+|...+.++...-...++
T Consensus 442 ~kserSssGllEfe~~s~Aveal~~~NH~pi~~p~gs~PfilK 484 (494)
T KOG1456|consen 442 LKSERSSSGLLEFENKSDAVEALMKLNHYPIEGPNGSFPFILK 484 (494)
T ss_pred ccccccccceeeeehHHHHHHHHHHhccccccCCCCCCCeeee
Confidence 6543 4899999999999999999999999866555544443
No 67
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=99.63 E-value=1.6e-15 Score=125.39 Aligned_cols=182 Identities=20% Similarity=0.304 Sum_probs=131.9
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
..+.+||++||...++.++.+++..||.+....+.. ++.++||||.+|.++.-+..|+..|||+.+.+.+|.|+.+-
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 456799999999999999999999999999988844 46889999999999999999999999999999999999986
Q ss_pred CCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCC--CCCC-CH-------HHHHHHHHHhCC
Q 025499 82 GGSGRGPSSSDRRG-GYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGL--PSSA-SW-------QDLKDHMRKAGD 150 (252)
Q Consensus 82 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl--~~~~-t~-------~~l~~~f~~~g~ 150 (252)
.............. ...+ -..-+......+...|.+.|+ |... .+ ++++..|.+||.
T Consensus 368 ~g~~~~~~~~~~~~~~~~~------------i~~~~~q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~ 435 (500)
T KOG0120|consen 368 VGASNANVNFNISQSQVPG------------IPLLMTQMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGA 435 (500)
T ss_pred ccchhccccCCcccccccc------------chhhhcccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCc
Confidence 55322222111000 0000 000000112223334444443 1111 12 355677788999
Q ss_pred ceEEEEeeC-CC------CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 151 VCFAEVSRD-SE------GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 151 v~~~~~~~~-~~------~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
|..|.+..+ .. .|..||+|.+.+++++|+.+|+|..+. ++.+...+..
T Consensus 436 v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~----nRtVvtsYyd 490 (500)
T KOG0120|consen 436 VRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFA----NRTVVASYYD 490 (500)
T ss_pred eeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeC----CcEEEEEecC
Confidence 999999887 22 269999999999999999999999999 8888766544
No 68
>PLN03213 repressor of silencing 3; Provisional
Probab=99.63 E-value=1.7e-15 Score=122.54 Aligned_cols=78 Identities=18% Similarity=0.330 Sum_probs=71.0
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCH--HHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENA--RDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~--~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
....+||||||++.+|+++|..+|..||.|.+|.|..... +|||||+|.+. .++.+|+..|||..|.|+.|+|+.++
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETG-RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAK 86 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKG-RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAK 86 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccC-CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeecc
Confidence 4567899999999999999999999999999999965322 99999999987 78999999999999999999999996
Q ss_pred C
Q 025499 82 G 82 (252)
Q Consensus 82 ~ 82 (252)
+
T Consensus 87 P 87 (759)
T PLN03213 87 E 87 (759)
T ss_pred H
Confidence 4
No 69
>smart00362 RRM_2 RNA recognition motif.
Probab=99.62 E-value=4.2e-15 Score=93.39 Aligned_cols=71 Identities=41% Similarity=0.739 Sum_probs=65.3
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC-CCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEE
Q 025499 8 TIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP-PRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVE 78 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~-~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~ 78 (252)
+|||+|||+.+++++|+++|.+||+|..+.+..+ +.++++|||+|.+.++|+.|+..+++..+.|++|.|.
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 5899999999999999999999999999988654 5677999999999999999999999999999998873
No 70
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.62 E-value=1e-15 Score=102.92 Aligned_cols=79 Identities=25% Similarity=0.396 Sum_probs=73.2
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEe---cCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELK---IPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~---~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
+.-.|||.++.+.+||++|...|..||+|++|.+. .++..+|||+|+|++.++|++|+..|||..+.|++|.|.|+-
T Consensus 71 EGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~F 150 (170)
T KOG0130|consen 71 EGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCF 150 (170)
T ss_pred eeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEE
Confidence 44579999999999999999999999999999994 467889999999999999999999999999999999999986
Q ss_pred CC
Q 025499 82 GG 83 (252)
Q Consensus 82 ~~ 83 (252)
..
T Consensus 151 v~ 152 (170)
T KOG0130|consen 151 VK 152 (170)
T ss_pred ec
Confidence 55
No 71
>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=99.59 E-value=8.4e-15 Score=91.81 Aligned_cols=67 Identities=24% Similarity=0.452 Sum_probs=61.3
Q ss_pred EEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC---CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeE
Q 025499 127 VIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE---GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRIT 197 (252)
Q Consensus 127 l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~---~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~ 197 (252)
|||+|||..+++++|.++|+.||.|..+.+..+.. .++|||+|.+.++|..|++.|+|..+. ++.|+
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 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKIN----GRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEET----TEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEEC----ccCcC
Confidence 79999999999999999999999999999998622 269999999999999999999999999 87764
No 72
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.57 E-value=3.3e-15 Score=108.79 Aligned_cols=83 Identities=33% Similarity=0.522 Sum_probs=76.6
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
...++||||+|..++||.-|...|-+||.|.+|++.. +++.+|||||+|...|+|.+|+..||+..+.|+.|+|.++
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~A 87 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLA 87 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeec
Confidence 4578999999999999999999999999999999943 5788999999999999999999999999999999999999
Q ss_pred CCCCCC
Q 025499 81 HGGSGR 86 (252)
Q Consensus 81 ~~~~~~ 86 (252)
.+....
T Consensus 88 kP~kik 93 (298)
T KOG0111|consen 88 KPEKIK 93 (298)
T ss_pred CCcccc
Confidence 987543
No 73
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.57 E-value=3.1e-16 Score=110.79 Aligned_cols=79 Identities=28% Similarity=0.470 Sum_probs=73.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
.+.-|||||||++.||.||.-.|++||+|.+|.++. ||+++||||+.|++..+...|+..|||..|.|+.|+|....
T Consensus 34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~ 113 (219)
T KOG0126|consen 34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS 113 (219)
T ss_pred cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence 466799999999999999999999999999999954 68999999999999999999999999999999999999876
Q ss_pred CC
Q 025499 82 GG 83 (252)
Q Consensus 82 ~~ 83 (252)
..
T Consensus 114 ~Y 115 (219)
T KOG0126|consen 114 NY 115 (219)
T ss_pred cc
Confidence 55
No 74
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.56 E-value=4.3e-15 Score=115.45 Aligned_cols=80 Identities=24% Similarity=0.388 Sum_probs=75.9
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
.|.++|||..|+|.+|++||.-+|+.||+|.+|.++. ++.+..||||+|.+.++|++|...|++.+|+++.|+|.++
T Consensus 237 PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFS 316 (479)
T KOG0415|consen 237 PPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFS 316 (479)
T ss_pred CCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehh
Confidence 6899999999999999999999999999999999954 6888999999999999999999999999999999999999
Q ss_pred CCC
Q 025499 81 HGG 83 (252)
Q Consensus 81 ~~~ 83 (252)
+.-
T Consensus 317 QSV 319 (479)
T KOG0415|consen 317 QSV 319 (479)
T ss_pred hhh
Confidence 865
No 75
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.56 E-value=2.9e-14 Score=95.97 Aligned_cols=85 Identities=20% Similarity=0.360 Sum_probs=75.4
Q ss_pred CCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCc
Q 025499 119 ISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARG 194 (252)
Q Consensus 119 ~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~ 194 (252)
.....++.|||.++....++++|.+.|..||.|+.+.+..+..+ |||+|+|++.++|+.|+..|||..+- +.
T Consensus 67 qrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll----~q 142 (170)
T KOG0130|consen 67 QRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELL----GQ 142 (170)
T ss_pred ccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhh----CC
Confidence 33456799999999999999999999999999999999998776 59999999999999999999999999 89
Q ss_pred eeEeeecC-CCCCC
Q 025499 195 RITVKRYD-RSPSR 207 (252)
Q Consensus 195 ~i~v~~~~-~~~~r 207 (252)
.|.|...- +.|.+
T Consensus 143 ~v~VDw~Fv~gp~~ 156 (170)
T KOG0130|consen 143 NVSVDWCFVKGPER 156 (170)
T ss_pred ceeEEEEEecCCcc
Confidence 99887766 44433
No 76
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.55 E-value=9.3e-14 Score=105.75 Aligned_cols=77 Identities=23% Similarity=0.292 Sum_probs=69.9
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeE
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRIT 197 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~ 197 (252)
.+-+||||.-|++++++..|+..|+.||.|+.|.|+.+.-+ |||||+|++..+...|.+..+|..|. ++.|-
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Id----grri~ 174 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKID----GRRIL 174 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceec----CcEEE
Confidence 34579999999999999999999999999999999988644 69999999999999999999999999 99988
Q ss_pred eeecC
Q 025499 198 VKRYD 202 (252)
Q Consensus 198 v~~~~ 202 (252)
|+..+
T Consensus 175 VDvER 179 (335)
T KOG0113|consen 175 VDVER 179 (335)
T ss_pred EEecc
Confidence 86644
No 77
>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=99.55 E-value=6.1e-14 Score=88.53 Aligned_cols=72 Identities=38% Similarity=0.741 Sum_probs=66.0
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCC--CCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEe
Q 025499 8 TIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPP--RPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVEL 79 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~--~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~ 79 (252)
+|+|+|||+.+++++|.++|..||.|..+.+.... .+.++|||+|.+.++|..|+..+++..++|+.|.|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 58999999999999999999999999999996543 4589999999999999999999999999999999864
No 78
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=99.54 E-value=4.7e-14 Score=84.15 Aligned_cols=56 Identities=34% Similarity=0.584 Sum_probs=50.9
Q ss_pred HHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 23 VEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 23 l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
|.++|++||+|..|.+..+. .++|||+|.+.++|..|+..|||..+.|++|+|.||
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 68899999999999997653 599999999999999999999999999999999985
No 79
>smart00360 RRM RNA recognition motif.
Probab=99.54 E-value=5.1e-14 Score=88.07 Aligned_cols=68 Identities=41% Similarity=0.732 Sum_probs=62.2
Q ss_pred EcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEE
Q 025499 11 VGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVE 78 (252)
Q Consensus 11 v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~ 78 (252)
|+|||..+++++|+++|++||.|..+.+.. ++.++++|||+|.+.++|..|+..|++..+.|+.|.|.
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 689999999999999999999999999855 35678999999999999999999999999999998873
No 80
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.52 E-value=9.7e-14 Score=105.79 Aligned_cols=75 Identities=19% Similarity=0.337 Sum_probs=69.8
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC-CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE-GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~-~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
..+|||+|||+.+++++|+++|+.||.|+.|.+..+.. .+||||+|.++++|..|+. |+|..|. |+.|.|..+.
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-LnG~~l~----gr~V~Vt~a~ 78 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-LSGATIV----DQSVTITPAE 78 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-hcCCeeC----CceEEEEecc
Confidence 36999999999999999999999999999999998864 4899999999999999996 9999999 9999999987
Q ss_pred C
Q 025499 203 R 203 (252)
Q Consensus 203 ~ 203 (252)
.
T Consensus 79 ~ 79 (260)
T PLN03120 79 D 79 (260)
T ss_pred C
Confidence 4
No 81
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.52 E-value=6.6e-14 Score=107.88 Aligned_cols=76 Identities=26% Similarity=0.333 Sum_probs=70.7
Q ss_pred CccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC--cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 123 SEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG--TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 123 ~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~--~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
....|+|.|||...-+.||+.+|.+||+|.+|.|+.+..+ ||+||+|++.+||.+|-.+|||..+. ||+|+|..
T Consensus 95 ~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VE----GRkIEVn~ 170 (376)
T KOG0125|consen 95 TPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVE----GRKIEVNN 170 (376)
T ss_pred CCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceee----ceEEEEec
Confidence 3469999999999999999999999999999999987543 89999999999999999999999999 99999987
Q ss_pred cC
Q 025499 201 YD 202 (252)
Q Consensus 201 ~~ 202 (252)
+.
T Consensus 171 AT 172 (376)
T KOG0125|consen 171 AT 172 (376)
T ss_pred cc
Confidence 76
No 82
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=1.9e-13 Score=97.17 Aligned_cols=79 Identities=20% Similarity=0.323 Sum_probs=72.4
Q ss_pred CccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC-CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeec
Q 025499 123 SEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE-GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRY 201 (252)
Q Consensus 123 ~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~-~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~ 201 (252)
..++|||+|||.++.+.+|+++|-+||.|..|.+...+. ..||||+|+++.+|..||..-+|..+. |..|+|++.
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdyd----g~rLRVEfp 80 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYD----GCRLRVEFP 80 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccC----cceEEEEec
Confidence 457999999999999999999999999999999887665 369999999999999999999999999 999999999
Q ss_pred CCCC
Q 025499 202 DRSP 205 (252)
Q Consensus 202 ~~~~ 205 (252)
+...
T Consensus 81 rggr 84 (241)
T KOG0105|consen 81 RGGR 84 (241)
T ss_pred cCCC
Confidence 9543
No 83
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=99.51 E-value=2.5e-14 Score=112.34 Aligned_cols=187 Identities=20% Similarity=0.228 Sum_probs=125.1
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhc----CceeEEEE-ec-CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEe
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKY----GRILDIEL-KI-PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVEL 79 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~----G~v~~v~~-~~-~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~ 79 (252)
--.|-+.+||.++|+.|+.++|.+- |.++.|-+ .. +++..|-|||.|..+++|+.||. -+...+.-+-|.+..
T Consensus 161 qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~-khrq~iGqRYIElFR 239 (508)
T KOG1365|consen 161 QVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALR-KHRQNIGQRYIELFR 239 (508)
T ss_pred ceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHH-HHHHHHhHHHHHHHH
Confidence 3457789999999999999999632 23344444 33 78899999999999999999998 344455545444443
Q ss_pred cCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhC-CceE--EEE
Q 025499 80 AHGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAG-DVCF--AEV 156 (252)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g-~v~~--~~~ 156 (252)
+....-...-. +. ...+..+.......+..+....++.....+|.+.+||+..+.++|.++|..|. .|.. |+|
T Consensus 240 STaaEvqqvln--r~--~s~pLi~~~~sp~~p~~p~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHm 315 (508)
T KOG1365|consen 240 STAAEVQQVLN--RE--VSEPLIPGLTSPLLPGGPARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHM 315 (508)
T ss_pred HhHHHHHHHHH--hh--ccccccCCCCCCCCCCCccccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEE
Confidence 32110000000 00 00000000011111122444455555567899999999999999999999997 3444 666
Q ss_pred eeCCCC---cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeec
Q 025499 157 SRDSEG---TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRY 201 (252)
Q Consensus 157 ~~~~~~---~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~ 201 (252)
..+..+ |.|||+|.++++|..|....|++... .+.|.|-..
T Consensus 316 v~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk----~RYiEvfp~ 359 (508)
T KOG1365|consen 316 VLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMK----SRYIEVFPC 359 (508)
T ss_pred EEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcc----cceEEEeec
Confidence 665433 79999999999999999999999987 899988553
No 84
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=99.49 E-value=1e-11 Score=97.62 Aligned_cols=193 Identities=17% Similarity=0.174 Sum_probs=138.2
Q ss_pred CCCCcEEEEcCCCC--CCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCccc--CCeeEEEE
Q 025499 3 GRFSRTIYVGNLPS--DIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNF--DGCRLRVE 78 (252)
Q Consensus 3 ~~~~~~l~v~~lp~--~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~--~g~~i~v~ 78 (252)
..++..|.+.=|.+ .+|.+-|..+...+|+|..|.|... ..-.|.|+|++.+.|++|...|||..| .-..|+|+
T Consensus 117 ~~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk--ngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIe 194 (494)
T KOG1456|consen 117 ATPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK--NGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIE 194 (494)
T ss_pred CCCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec--cceeeEEeechhHHHHHHHhhcccccccccceeEEEE
Confidence 35677888777765 4899999999999999999988542 245799999999999999999999777 44899999
Q ss_pred ecCCCCCC-----CCCC-------------------CCCCCCCCCCC----CCCCCCCCCC-----C-------------
Q 025499 79 LAHGGSGR-----GPSS-------------------SDRRGGYGGGG----AGGAGGAGAG-----A------------- 112 (252)
Q Consensus 79 ~~~~~~~~-----~~~~-------------------~~~~~~~~~~~----~~~~~~~~~~-----~------------- 112 (252)
++++..-. .+.+ .++...+.+.. +++..+...+ .
T Consensus 195 yAkP~rlnV~knd~DtwDyTlp~~~~~~~~g~~~~~r~~~p~~~~~~pss~~G~h~~y~sg~~~~p~~~~P~r~~~~~~~ 274 (494)
T KOG1456|consen 195 YAKPTRLNVQKNDKDTWDYTLPDLRGPYDPGRNHYDRQRQPAPLGYHPSSRGGGHSGYYSGDRHGPPHPPPSRYRDGYRD 274 (494)
T ss_pred ecCcceeeeeecCCccccccCCCCCCCCCCCCCCCccccCCCccCCChhhcCCCCCCCcccccCCCCCCCCCCCcccccc
Confidence 99865311 0001 00000000000 0000000000 0
Q ss_pred -CCCCCCCCCCCccEEEEeCCCCC-CCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCC
Q 025499 113 -GAGRFGISRHSEYRVIVRGLPSS-ASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNP 190 (252)
Q Consensus 113 -~~~~~~~~~~~~~~l~v~nl~~~-~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~ 190 (252)
.+...+....+++.+.|.+|... ++-+.|..+|-.||.|+.|+++..+. +-|.|++.++.+.++|+..||+..+.
T Consensus 275 ~~g~a~p~g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~-gtamVemgd~~aver~v~hLnn~~lf-- 351 (494)
T KOG1456|consen 275 GRGYASPGGGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP-GTAMVEMGDAYAVERAVTHLNNIPLF-- 351 (494)
T ss_pred CCCCCCCCCCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc-ceeEEEcCcHHHHHHHHHHhccCccc--
Confidence 01111234456789999999865 46788999999999999999998664 58999999999999999999999998
Q ss_pred CCCceeEeeecC
Q 025499 191 WARGRITVKRYD 202 (252)
Q Consensus 191 ~~g~~i~v~~~~ 202 (252)
|.+|.|..++
T Consensus 352 --G~kl~v~~Sk 361 (494)
T KOG1456|consen 352 --GGKLNVCVSK 361 (494)
T ss_pred --cceEEEeecc
Confidence 8898887766
No 85
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.48 E-value=1.5e-13 Score=113.21 Aligned_cols=78 Identities=32% Similarity=0.585 Sum_probs=74.1
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
+.|||||||+++++++|..+|+..|.|.++++.. +|+++||||++|.+.++|..|+..|||..+.|++|+|.|+...
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 8999999999999999999999999999999965 5789999999999999999999999999999999999999765
Q ss_pred C
Q 025499 84 S 84 (252)
Q Consensus 84 ~ 84 (252)
.
T Consensus 99 ~ 99 (435)
T KOG0108|consen 99 K 99 (435)
T ss_pred c
Confidence 4
No 86
>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=99.48 E-value=1.9e-13 Score=85.56 Aligned_cols=67 Identities=22% Similarity=0.446 Sum_probs=60.0
Q ss_pred EEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC---CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeE
Q 025499 127 VIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE---GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRIT 197 (252)
Q Consensus 127 l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~---~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~ 197 (252)
|+|+|||..+++++|.++|+.||.|..+.+...+. .++|||+|.++++|..|+..++|..+. |+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~----g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEID----GRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEET----TEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEEC----CEEcC
Confidence 78999999999999999999999999999998864 369999999999999999999999998 88764
No 87
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=99.47 E-value=2.1e-12 Score=105.54 Aligned_cols=158 Identities=21% Similarity=0.286 Sum_probs=111.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC-----CCCCe---EEEEEECCHHHHHHHHHhcCCcccCCeeE
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP-----PRPPC---YCFVEFENARDAEDAIRGRDGYNFDGCRL 75 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~-----~~~~g---~afV~f~~~~~a~~a~~~l~~~~~~g~~i 75 (252)
.-+++||||+||++++|+.|...|..||.+.-=+-... -.++| |+|+.|+++.+++..+..+.- .+..+
T Consensus 257 ~~S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~---~~~~~ 333 (520)
T KOG0129|consen 257 RYSRKVFVGGLPWDITEAQINASFGQFGSVKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSE---GEGNY 333 (520)
T ss_pred ccccceeecCCCccccHHHHHhhcccccceEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhh---cccce
Confidence 45789999999999999999999999997643221111 13466 999999999999998876542 44455
Q ss_pred EEEecCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHH-HhCC
Q 025499 76 RVELAHGGSGRGP----SSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMR-KAGD 150 (252)
Q Consensus 76 ~v~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~-~~g~ 150 (252)
.+.++.+...... ++......+- .....+-.+..||||++||..++.++|..+|+ -||.
T Consensus 334 yf~vss~~~k~k~VQIrPW~laDs~fv----------------~d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGg 397 (520)
T KOG0129|consen 334 YFKVSSPTIKDKEVQIRPWVLADSDFV----------------LDHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGG 397 (520)
T ss_pred EEEEecCcccccceeEEeeEeccchhh----------------hccCcccCccceEEecCCCCcchHHHHHHHHHHhcCc
Confidence 5555443311110 0000000000 00122334567999999999999999999999 6999
Q ss_pred ceEEEEeeCCCC----cEEEEEcCChhHHHHHHH
Q 025499 151 VCFAEVSRDSEG----TYGVVDYTNPEDMKYAIR 180 (252)
Q Consensus 151 v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~ 180 (252)
|.++.|-.|+.- |-|-|+|.+..+=.+||.
T Consensus 398 V~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs 431 (520)
T KOG0129|consen 398 VLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS 431 (520)
T ss_pred eEEEEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence 999999998432 689999999999999997
No 88
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.47 E-value=8.5e-14 Score=105.61 Aligned_cols=93 Identities=33% Similarity=0.588 Sum_probs=82.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
..+++|+||||.+.+|.++|+..|++||+|.++.|. ++|+||.|...++|..|+..|+++.|.|++++|+++...
T Consensus 76 k~stkl~vgNis~tctn~ElRa~fe~ygpviecdiv-----kdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsr 150 (346)
T KOG0109|consen 76 KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIV-----KDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSR 150 (346)
T ss_pred CCccccccCCCCccccCHHHhhhhcccCCceeeeee-----cceeEEEEeeccchHHHHhcccccccccceeeeeeeccc
Confidence 478999999999999999999999999999999998 789999999999999999999999999999999999887
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 025499 84 SGRGPSSSDRRGGYGGGG 101 (252)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~ 101 (252)
-...+...+..+++.-+.
T Consensus 151 lrtapgmgDq~~cyrcGk 168 (346)
T KOG0109|consen 151 LRTAPGMGDQSGCYRCGK 168 (346)
T ss_pred cccCCCCCCHHHheeccc
Confidence 666666655555555443
No 89
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.46 E-value=2.3e-13 Score=90.86 Aligned_cols=77 Identities=18% Similarity=0.230 Sum_probs=71.5
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeE
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRIT 197 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~ 197 (252)
..+++|||+||...++|++|.++|+++|.|..|.|-.++.+ |||||+|.+.++|..|+.-++|..+. .+.|+
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLd----dr~ir 109 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLD----DRPIR 109 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCccc----cccee
Confidence 45689999999999999999999999999999998877655 79999999999999999999999999 99999
Q ss_pred eeecC
Q 025499 198 VKRYD 202 (252)
Q Consensus 198 v~~~~ 202 (252)
++.+.
T Consensus 110 ~D~D~ 114 (153)
T KOG0121|consen 110 IDWDA 114 (153)
T ss_pred eeccc
Confidence 98776
No 90
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.44 E-value=2.9e-13 Score=108.37 Aligned_cols=78 Identities=27% Similarity=0.493 Sum_probs=71.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCCCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGGSG 85 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~~~ 85 (252)
-..|||.||+.++|++.|.++|++||.|+.|+.. +-||||-|.+-++|.+||..+||..|+|..|.|.++++...
T Consensus 259 VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~-----rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~k 333 (506)
T KOG0117|consen 259 VKVLYVRNLMESTTEETLKKLFNEFGKVERVKKP-----RDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVDK 333 (506)
T ss_pred eeeeeeeccchhhhHHHHHHHHHhccceEEeecc-----cceeEEeecchHHHHHHHHHhcCceecCceEEEEecCChhh
Confidence 3579999999999999999999999999999876 55999999999999999999999999999999999998754
Q ss_pred CCC
Q 025499 86 RGP 88 (252)
Q Consensus 86 ~~~ 88 (252)
...
T Consensus 334 ~k~ 336 (506)
T KOG0117|consen 334 KKK 336 (506)
T ss_pred hcc
Confidence 433
No 91
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.44 E-value=1.1e-12 Score=98.56 Aligned_cols=76 Identities=20% Similarity=0.337 Sum_probs=69.7
Q ss_pred CccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC-cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeec
Q 025499 123 SEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG-TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRY 201 (252)
Q Consensus 123 ~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~-~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~ 201 (252)
.+.+|||+||++.+|+++|+++|+.||.|.+|.+..+... ++|||+|.++++|..|+. |+|..|. +..|.|...
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAll-LnGa~l~----d~~I~It~~ 78 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVL-LSGATIV----DQRVCITRW 78 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHh-cCCCeeC----CceEEEEeC
Confidence 4579999999999999999999999999999999988654 699999999999999995 9999999 999999887
Q ss_pred CC
Q 025499 202 DR 203 (252)
Q Consensus 202 ~~ 203 (252)
..
T Consensus 79 ~~ 80 (243)
T PLN03121 79 GQ 80 (243)
T ss_pred cc
Confidence 63
No 92
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.44 E-value=1.4e-12 Score=83.78 Aligned_cols=80 Identities=19% Similarity=0.229 Sum_probs=71.6
Q ss_pred CCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC-cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeE
Q 025499 119 ISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG-TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRIT 197 (252)
Q Consensus 119 ~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~-~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~ 197 (252)
.+......|||.|||..+|.++.-++|.+||.|..|.+-..+.+ |-|||.|++..+|.+|++.|.|..+. ++.+.
T Consensus 13 lppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~----~ryl~ 88 (124)
T KOG0114|consen 13 LPPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVD----NRYLV 88 (124)
T ss_pred CChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccC----CceEE
Confidence 33445678999999999999999999999999999999887766 79999999999999999999999999 99998
Q ss_pred eeecC
Q 025499 198 VKRYD 202 (252)
Q Consensus 198 v~~~~ 202 (252)
|-+..
T Consensus 89 vlyyq 93 (124)
T KOG0114|consen 89 VLYYQ 93 (124)
T ss_pred EEecC
Confidence 86543
No 93
>PLN03213 repressor of silencing 3; Provisional
Probab=99.44 E-value=9.1e-13 Score=106.99 Aligned_cols=76 Identities=18% Similarity=0.337 Sum_probs=70.9
Q ss_pred CccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCCh--hHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 123 SEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNP--EDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 123 ~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~--~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
...+|||+||++.+++++|..+|..||.|..|.|++....|||||+|.+. .++.+||..|||.... |+.|+|..
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWK----GR~LKVNK 84 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWK----GGRLRLEK 84 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeec----CceeEEee
Confidence 34799999999999999999999999999999999777678999999987 7899999999999999 99999988
Q ss_pred cC
Q 025499 201 YD 202 (252)
Q Consensus 201 ~~ 202 (252)
++
T Consensus 85 AK 86 (759)
T PLN03213 85 AK 86 (759)
T ss_pred cc
Confidence 77
No 94
>smart00361 RRM_1 RNA recognition motif.
Probab=99.40 E-value=1.9e-12 Score=80.75 Aligned_cols=58 Identities=26% Similarity=0.438 Sum_probs=51.4
Q ss_pred HHHHHHHHh----hcCceeEEE-Eec---C--CCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEE
Q 025499 20 EYEVEDLFY----KYGRILDIE-LKI---P--PRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRV 77 (252)
Q Consensus 20 ~~~l~~~f~----~~G~v~~v~-~~~---~--~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v 77 (252)
+++|+++|+ +||.|.+|. +.. + +.++|||||+|.+.++|.+|+..|||..+.|+.|.+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 578889998 999999985 422 3 678999999999999999999999999999999976
No 95
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.40 E-value=9.1e-13 Score=112.11 Aligned_cols=78 Identities=27% Similarity=0.498 Sum_probs=73.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
.-++|||||+|+..+++.||.++|+.||+|.+|.++.. ++||||.+.+-.+|.+|++.|++..+.++.|+|.|+..+
T Consensus 419 V~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~---R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~ 495 (894)
T KOG0132|consen 419 VCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP---RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGK 495 (894)
T ss_pred EeeeeeeeccccchhhHHHHHHHHHhcccceeEeeccC---CceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccC
Confidence 35799999999999999999999999999999999754 899999999999999999999999999999999999876
Q ss_pred C
Q 025499 84 S 84 (252)
Q Consensus 84 ~ 84 (252)
.
T Consensus 496 G 496 (894)
T KOG0132|consen 496 G 496 (894)
T ss_pred C
Confidence 3
No 96
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=99.40 E-value=1.9e-12 Score=107.42 Aligned_cols=179 Identities=22% Similarity=0.343 Sum_probs=135.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhc-----------C-ceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKY-----------G-RILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFD 71 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~-----------G-~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~ 71 (252)
.....+||+++|+.++++.+..+|..- | .|..+++.. .+.||||+|.+.++|..|+. +++..+.
T Consensus 173 ~q~~r~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~~s~~~n~---~~nfa~ie~~s~~~at~~~~-~~~~~f~ 248 (500)
T KOG0120|consen 173 RQARRLYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSFVSVQLNL---EKNFAFIEFRSISEATEAMA-LDGIIFE 248 (500)
T ss_pred hhhhhhcccccCCccCcHhhhhhhhhhhhhcccccCCCCCceeeeeecc---cccceeEEecCCCchhhhhc-ccchhhC
Confidence 445779999999999999999999754 3 466666643 37899999999999999999 8999999
Q ss_pred CeeEEEEecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCc
Q 025499 72 GCRLRVELAHGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDV 151 (252)
Q Consensus 72 g~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v 151 (252)
|.++++..-.....-...... ... .+..+..............++|++||..+++.++.++...||.+
T Consensus 249 g~~~~~~r~~d~~~~p~~~~~----~~~--------~~~~~~~~~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~l 316 (500)
T KOG0120|consen 249 GRPLKIRRPHDYQPVPGITLS----PSQ--------LGKVGLLPASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPL 316 (500)
T ss_pred CCCceecccccccCCccchhh----hcc--------ccccCCcccccCcccccchhhhccCcCccCHHHHHHHHHhcccc
Confidence 999988755433111100000 000 00000011112222345689999999999999999999999999
Q ss_pred eEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 152 CFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 152 ~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
....++.+... +|||.+|.++.....|+..|||++++ +..|.|..+-
T Consensus 317 k~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lg----d~~lvvq~A~ 367 (500)
T KOG0120|consen 317 KAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLG----DKKLVVQRAI 367 (500)
T ss_pred hhheeecccccccccceeeeeeeCCcchhhhhcccchhhhc----CceeEeehhh
Confidence 99888877653 69999999999999999999999999 8999887765
No 97
>smart00362 RRM_2 RNA recognition motif.
Probab=99.40 E-value=2.7e-12 Score=80.39 Aligned_cols=69 Identities=25% Similarity=0.442 Sum_probs=62.9
Q ss_pred EEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCC--CCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEe
Q 025499 126 RVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDS--EGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITV 198 (252)
Q Consensus 126 ~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~--~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v 198 (252)
+|+|.|||..+++++|.++|..||.|..+.+..+. ..++|||+|.+.++|..|+..++|..+. ++.|.|
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~----~~~i~v 71 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLG----GRPLRV 71 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEEC----CEEEee
Confidence 58999999999999999999999999999888765 3379999999999999999999999998 888776
No 98
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.38 E-value=6e-13 Score=99.95 Aligned_cols=81 Identities=25% Similarity=0.554 Sum_probs=75.5
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEe
Q 025499 3 GRFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVEL 79 (252)
Q Consensus 3 ~~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~ 79 (252)
+.+.|+|||-.||.+..+.+|.+.|-.||.|.+.++.. |+.+++|+||.|.++.+|++||+.|||..|.-++|+|+.
T Consensus 282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQL 361 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQL 361 (371)
T ss_pred CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhh
Confidence 46789999999999999999999999999999988843 678999999999999999999999999999999999998
Q ss_pred cCCC
Q 025499 80 AHGG 83 (252)
Q Consensus 80 ~~~~ 83 (252)
..++
T Consensus 362 KRPk 365 (371)
T KOG0146|consen 362 KRPK 365 (371)
T ss_pred cCcc
Confidence 8776
No 99
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.38 E-value=5.4e-12 Score=93.71 Aligned_cols=79 Identities=23% Similarity=0.314 Sum_probs=71.6
Q ss_pred CCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCce
Q 025499 120 SRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGR 195 (252)
Q Consensus 120 ~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~ 195 (252)
.....++|.|.||+.++++++|+++|.+||.|..+.+..++.+ |||||.|.+.++|++||..|||.-+. .--
T Consensus 185 ~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd----~LI 260 (270)
T KOG0122|consen 185 ERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYD----NLI 260 (270)
T ss_pred cCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccc----eEE
Confidence 4446679999999999999999999999999999999999877 59999999999999999999999988 777
Q ss_pred eEeeecC
Q 025499 196 ITVKRYD 202 (252)
Q Consensus 196 i~v~~~~ 202 (252)
|+|.-++
T Consensus 261 LrvEwsk 267 (270)
T KOG0122|consen 261 LRVEWSK 267 (270)
T ss_pred EEEEecC
Confidence 7777655
No 100
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.33 E-value=1.3e-12 Score=112.87 Aligned_cols=158 Identities=21% Similarity=0.365 Sum_probs=133.2
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC--CCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP--PRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~--~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
..+++||+|||+..+++.+|+..|..+|.|..|.|+.+ +.-..||||.|.+...+-.|...+.+..|..-.+.+.+..
T Consensus 370 ~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~ 449 (975)
T KOG0112|consen 370 RATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQ 449 (975)
T ss_pred hhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCcccccccc
Confidence 46789999999999999999999999999999999654 3345699999999999999999999888866566665543
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC
Q 025499 82 GGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE 161 (252)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~ 161 (252)
+. ......+++++|+..+....|...|..||.|..|.+....
T Consensus 450 ~k-------------------------------------st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq- 491 (975)
T KOG0112|consen 450 PK-------------------------------------STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQ- 491 (975)
T ss_pred cc-------------------------------------cccceeeccCCCCCCChHHHHHHHhhccCcceeeecccCC-
Confidence 22 2234689999999999999999999999999997765543
Q ss_pred CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 162 GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 162 ~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
-||+|.|++...|+.|+..|.|..++++ .+.|+|.++.
T Consensus 492 -~yayi~yes~~~aq~a~~~~rgap~G~P--~~r~rvdla~ 529 (975)
T KOG0112|consen 492 -PYAYIQYESPPAAQAATHDMRGAPLGGP--PRRLRVDLAS 529 (975)
T ss_pred -cceeeecccCccchhhHHHHhcCcCCCC--Cccccccccc
Confidence 5999999999999999999999999966 4558887766
No 101
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=99.32 E-value=1.7e-12 Score=94.72 Aligned_cols=140 Identities=20% Similarity=0.311 Sum_probs=112.8
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec--CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI--PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~--~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
+..++|||+||...++|+-|.++|-+.|+|..|.|.. +++.+ ||||.|.++.++.-|++.+||..+.+..+.|++-.
T Consensus 7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~ 85 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRC 85 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccchhccchhhccccc
Confidence 5678999999999999999999999999999999944 45555 99999999999999999999999999999988654
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC
Q 025499 82 GGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE 161 (252)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~ 161 (252)
.... .-|...++++.+...|+..|.+..+.+..+.+
T Consensus 86 G~sh--------------------------------------------apld~r~~~ei~~~v~s~a~p~~~~R~~~~~d 121 (267)
T KOG4454|consen 86 GNSH--------------------------------------------APLDERVTEEILYEVFSQAGPIEGVRIPTDND 121 (267)
T ss_pred CCCc--------------------------------------------chhhhhcchhhheeeecccCCCCCcccccccc
Confidence 3200 01444567777778888888888888877765
Q ss_pred C---cEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 162 G---TYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 162 ~---~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
+ ++.|+.+--.-+.-.++....+....
T Consensus 122 ~rnrn~~~~~~qr~~~~P~~~~~y~~l~~~ 151 (267)
T KOG4454|consen 122 GRNRNFGFVTYQRLCAVPFALDLYQGLELF 151 (267)
T ss_pred CCccCccchhhhhhhcCcHHhhhhcccCcC
Confidence 3 48888887777777788777777665
No 102
>smart00360 RRM RNA recognition motif.
Probab=99.31 E-value=1.5e-11 Score=76.70 Aligned_cols=66 Identities=23% Similarity=0.439 Sum_probs=60.1
Q ss_pred EeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC----CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEe
Q 025499 129 VRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE----GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITV 198 (252)
Q Consensus 129 v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~----~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v 198 (252)
|.|||..+++++|+++|+.||.|..+.+..+.. .++|||+|.+.++|..|+..|++..+. ++.|.|
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~----~~~~~v 70 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELD----GRPLKV 70 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeC----CcEEEe
Confidence 578999999999999999999999999988765 369999999999999999999999998 888766
No 103
>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=99.30 E-value=3e-11 Score=76.01 Aligned_cols=70 Identities=24% Similarity=0.451 Sum_probs=64.3
Q ss_pred EEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC---CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEee
Q 025499 126 RVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE---GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVK 199 (252)
Q Consensus 126 ~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~---~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~ 199 (252)
+|+|.|||..+++++|.++|+.+|.|..+.+..+.. .++|||+|.+.++|..|+..+++..+. ++.+.|.
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~----~~~~~v~ 73 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELG----GRPLRVE 73 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeEC----CeEEEEe
Confidence 478999999999999999999999999999998764 479999999999999999999999988 8888775
No 104
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.28 E-value=8.2e-12 Score=88.73 Aligned_cols=79 Identities=24% Similarity=0.354 Sum_probs=72.1
Q ss_pred CCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC----CcEEEEEcCChhHHHHHHHHhcCccccCCCCCce
Q 025499 120 SRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE----GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGR 195 (252)
Q Consensus 120 ~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~----~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~ 195 (252)
+.....+|||+||+..++++.|.++|-+.|.|+.+++..+.- .||||++|.+.++|+.|++.||.-.+. |+.
T Consensus 5 ~rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLY----grp 80 (203)
T KOG0131|consen 5 ERNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLY----GRP 80 (203)
T ss_pred ccCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhc----Cce
Confidence 344567999999999999999999999999999999998753 479999999999999999999988888 999
Q ss_pred eEeeecC
Q 025499 196 ITVKRYD 202 (252)
Q Consensus 196 i~v~~~~ 202 (252)
|+|..+.
T Consensus 81 Irv~kas 87 (203)
T KOG0131|consen 81 IRVNKAS 87 (203)
T ss_pred eEEEecc
Confidence 9998877
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=99.28 E-value=1.4e-11 Score=73.41 Aligned_cols=56 Identities=21% Similarity=0.345 Sum_probs=50.3
Q ss_pred HHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeec
Q 025499 141 LKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRY 201 (252)
Q Consensus 141 l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~ 201 (252)
|.++|++||.|..+.+.... .++|||+|.+.++|..|+..|||..+. |+.|+|..+
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-RGFAFVEFASVEDAQKAIEQLNGRQFN----GRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-TTEEEEEESSHHHHHHHHHHHTTSEET----TEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-CCEEEEEECCHHHHHHHHHHhCCCEEC----CcEEEEEEC
Confidence 67899999999999998766 579999999999999999999999999 999998763
No 106
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.26 E-value=3.1e-11 Score=94.02 Aligned_cols=77 Identities=27% Similarity=0.509 Sum_probs=68.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhc-CCcccCCeeEEEEecCC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGR-DGYNFDGCRLRVELAHG 82 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l-~~~~~~g~~i~v~~~~~ 82 (252)
...++|||++|...++|.+|++.|.+||+|..|.+... +++|||+|.+.++|+.|...+ +...|+|.+|.|.|..+
T Consensus 226 ~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~---~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 226 TSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR---KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred cceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc---cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 45679999999999999999999999999999999653 679999999999999988654 55778999999999987
Q ss_pred C
Q 025499 83 G 83 (252)
Q Consensus 83 ~ 83 (252)
.
T Consensus 303 ~ 303 (377)
T KOG0153|consen 303 K 303 (377)
T ss_pred c
Confidence 3
No 107
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.24 E-value=3.8e-11 Score=87.15 Aligned_cols=80 Identities=24% Similarity=0.374 Sum_probs=72.4
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhc-CceeEEEE---ecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEe
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKY-GRILDIEL---KIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVEL 79 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~-G~v~~v~~---~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~ 79 (252)
.....+||+.+|.-+.+.++..+|.+| |.|..+.+ +.||.++|||||+|++++.|.-|-+.||++++.|+-|.|.+
T Consensus 47 ~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~v 126 (214)
T KOG4208|consen 47 EIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHV 126 (214)
T ss_pred CCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEE
Confidence 345678999999999999999999999 68888888 56899999999999999999999999999999999999998
Q ss_pred cCCC
Q 025499 80 AHGG 83 (252)
Q Consensus 80 ~~~~ 83 (252)
-.+.
T Consensus 127 mppe 130 (214)
T KOG4208|consen 127 MPPE 130 (214)
T ss_pred eCch
Confidence 7654
No 108
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.23 E-value=5.6e-10 Score=85.04 Aligned_cols=78 Identities=24% Similarity=0.465 Sum_probs=71.9
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec--CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI--PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~--~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
...|+|.|||+.++++||+++|..||.++.+.+.+ .+.+.|.|-|.|...++|..|++.++|..++|.+|.+......
T Consensus 83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~ 162 (243)
T KOG0533|consen 83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSP 162 (243)
T ss_pred cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCc
Confidence 47899999999999999999999999999988866 4788999999999999999999999999999999999987655
No 109
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=4.4e-11 Score=93.45 Aligned_cols=77 Identities=25% Similarity=0.324 Sum_probs=71.5
Q ss_pred CCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCc----EEEEEcCChhHHHHHHHHhcCccccCCCCCce
Q 025499 120 SRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGT----YGVVDYTNPEDMKYAIRKLDDTEFRNPWARGR 195 (252)
Q Consensus 120 ~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~----~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~ 195 (252)
..++.+.|||-.|.+-+++++|.-+|+.||.|..|.++.+..+| ||||+|++.+++.+|.-+|++..|. .+.
T Consensus 235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLID----DrR 310 (479)
T KOG0415|consen 235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLID----DRR 310 (479)
T ss_pred cCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeec----cce
Confidence 34677899999999999999999999999999999999998875 9999999999999999999999999 888
Q ss_pred eEeee
Q 025499 196 ITVKR 200 (252)
Q Consensus 196 i~v~~ 200 (252)
|.|.+
T Consensus 311 IHVDF 315 (479)
T KOG0415|consen 311 IHVDF 315 (479)
T ss_pred EEeeh
Confidence 88855
No 110
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=1.9e-11 Score=89.42 Aligned_cols=79 Identities=22% Similarity=0.311 Sum_probs=72.6
Q ss_pred CccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEe
Q 025499 123 SEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITV 198 (252)
Q Consensus 123 ~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v 198 (252)
...+|||++|...+++.-|...|-+||.|..|.++.+-.. +|+||+|+-.|+|..||..||+.++. |+.|+|
T Consensus 9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~----GrtirV 84 (298)
T KOG0111|consen 9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELF----GRTIRV 84 (298)
T ss_pred cceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhc----ceeEEE
Confidence 4479999999999999999999999999999999987543 79999999999999999999999999 999999
Q ss_pred eecCCCC
Q 025499 199 KRYDRSP 205 (252)
Q Consensus 199 ~~~~~~~ 205 (252)
.+++..+
T Consensus 85 N~AkP~k 91 (298)
T KOG0111|consen 85 NLAKPEK 91 (298)
T ss_pred eecCCcc
Confidence 9988443
No 111
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.20 E-value=1.6e-12 Score=92.23 Aligned_cols=74 Identities=16% Similarity=0.267 Sum_probs=70.3
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
.-|||+|||+..|+-+|...|++||.|+.|.++++..+ ||||+-|++..+..-|+..|||..|. |+.|+|++
T Consensus 36 A~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~----gRtirVDH 111 (219)
T KOG0126|consen 36 AYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKIL----GRTIRVDH 111 (219)
T ss_pred eEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceec----ceeEEeee
Confidence 57999999999999999999999999999999999877 59999999999999999999999999 99999988
Q ss_pred cC
Q 025499 201 YD 202 (252)
Q Consensus 201 ~~ 202 (252)
-.
T Consensus 112 v~ 113 (219)
T KOG0126|consen 112 VS 113 (219)
T ss_pred cc
Confidence 65
No 112
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.18 E-value=2.7e-10 Score=93.63 Aligned_cols=77 Identities=35% Similarity=0.613 Sum_probs=66.7
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEE--ec-CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIEL--KI-PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~--~~-~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
..+|||+|||.++++++|.++|..||+|+...| +. .+...+||||+|.+.+++..|++ -+-..+++++|.|+--..
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~-Asp~~ig~~kl~Veek~~ 366 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIE-ASPLEIGGRKLNVEEKRP 366 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhh-cCccccCCeeEEEEeccc
Confidence 345999999999999999999999999999777 22 24445999999999999999999 558889999999998766
Q ss_pred C
Q 025499 83 G 83 (252)
Q Consensus 83 ~ 83 (252)
.
T Consensus 367 ~ 367 (419)
T KOG0116|consen 367 G 367 (419)
T ss_pred c
Confidence 4
No 113
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.17 E-value=7.8e-11 Score=87.25 Aligned_cols=58 Identities=22% Similarity=0.345 Sum_probs=54.1
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHH
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRK 181 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~ 181 (252)
-++|||++|++.+..+.|+.+|++||+|+...++.|+.+ ||+||+|.+.++|.+|++.
T Consensus 12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d 73 (247)
T KOG0149|consen 12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD 73 (247)
T ss_pred EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC
Confidence 368999999999999999999999999999999998766 6999999999999999973
No 114
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=99.16 E-value=7.8e-10 Score=90.18 Aligned_cols=188 Identities=24% Similarity=0.311 Sum_probs=118.8
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeE-EEEec--CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILD-IELKI--PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~-v~~~~--~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
.+..+|-+.+||..||++||.++|+..-.|.+ |.+.. -+.+.|-|||+|++.+.|+.||. -+...|.-+-|.|..+
T Consensus 101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVFRS 179 (510)
T ss_pred CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEeehh
Confidence 35678999999999999999999998776666 32322 35678999999999999999998 5667777788888776
Q ss_pred CCCC---------CCCC--CCCCC----CC--CCCCCCC-------------CC---------C---CCCCC-CCC----
Q 025499 81 HGGS---------GRGP--SSSDR----RG--GYGGGGA-------------GG---------A---GGAGA-GAG---- 113 (252)
Q Consensus 81 ~~~~---------~~~~--~~~~~----~~--~~~~~~~-------------~~---------~---~~~~~-~~~---- 113 (252)
.... .... ..-.. +. .+..+.. +. . ..++. +..
T Consensus 180 s~~e~~~~~~~~~~~~~rpGpy~~~~a~Rg~~d~~~~~~~~~~~~r~g~~~~g~~g~~~~~~~~d~~~~gs~~~~~~~~~ 259 (510)
T KOG4211|consen 180 SRAEVKRAAGPGDGRVGRPGPYDRPGAPRGGYDYGQGRDPGRNATRYGAGGEGYYGFSRYPSLQDYGNFGSYGGGRDPNY 259 (510)
T ss_pred HHHHHHhhccccccccCCCCccccccCCccccccccccCCCccccccccccCCccccccCcccccccccccccccccccc
Confidence 3110 0000 00000 00 0000000 00 0 00000 000
Q ss_pred -----------CCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC---CcEEEEEcCChhHHHHHH
Q 025499 114 -----------AGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE---GTYGVVDYTNPEDMKYAI 179 (252)
Q Consensus 114 -----------~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~---~~~afv~f~~~~~a~~a~ 179 (252)
.+....-......++..+||+..++.+|..+|+..-.+ .|.+-..++ ++-|+|+|.+-++|..|+
T Consensus 260 ~~~~g~~~~g~~g~~~~~~~~g~fv~MRGlpy~a~~~di~nfFspl~p~-~v~i~ig~dGr~TGEAdveF~t~edav~Am 338 (510)
T KOG4211|consen 260 PVSSGPHRQGGAGDYGNGGPGGHFVHMRGLPYDATENDIANFFSPLNPY-RVHIEIGPDGRATGEADVEFATGEDAVGAM 338 (510)
T ss_pred CCCCCcccCCCcccccCCCCCCceeeecCCCccCCCcchhhhcCCCCce-eEEEEeCCCCccCCcceeecccchhhHhhh
Confidence 00000011122578889999999999999999876443 555555443 479999999999999999
Q ss_pred HHhcCccccCCCCCceeEe
Q 025499 180 RKLDDTEFRNPWARGRITV 198 (252)
Q Consensus 180 ~~l~g~~~~~~~~g~~i~v 198 (252)
. -++..+. .+.|.+
T Consensus 339 s-kd~anm~----hrYVEl 352 (510)
T KOG4211|consen 339 G-KDGANMG----HRYVEL 352 (510)
T ss_pred c-cCCcccC----cceeee
Confidence 7 5666666 666554
No 115
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.16 E-value=2.2e-10 Score=94.92 Aligned_cols=80 Identities=26% Similarity=0.531 Sum_probs=72.6
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
-+++|||.+|...+...+|.+||++||+|+..+|+. +...++|+||++.+.++|.++|..|+.+.++|+-|.|+.++
T Consensus 404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 357899999999999999999999999999999854 34568999999999999999999999999999999999987
Q ss_pred CCC
Q 025499 82 GGS 84 (252)
Q Consensus 82 ~~~ 84 (252)
..+
T Consensus 484 NEp 486 (940)
T KOG4661|consen 484 NEP 486 (940)
T ss_pred cCc
Confidence 553
No 116
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.16 E-value=9.4e-11 Score=96.87 Aligned_cols=82 Identities=26% Similarity=0.368 Sum_probs=75.7
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
+.+||+|+|+++++++|.++|+..|.|..+++..|..+ ||+|++|.+.++|..|+..|||.++. |+.|+|..
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~----gr~l~v~~ 94 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFN----GRKLRVNY 94 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccC----CceEEeec
Confidence 79999999999999999999999999999999998876 59999999999999999999999999 99999999
Q ss_pred cCCCCCCCCC
Q 025499 201 YDRSPSRSRS 210 (252)
Q Consensus 201 ~~~~~~r~r~ 210 (252)
+.....+.+.
T Consensus 95 ~~~~~~~~~~ 104 (435)
T KOG0108|consen 95 ASNRKNAERS 104 (435)
T ss_pred ccccchhHHH
Confidence 8866655443
No 117
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.11 E-value=4.7e-10 Score=89.47 Aligned_cols=75 Identities=24% Similarity=0.414 Sum_probs=69.7
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC----CcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEee
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE----GTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVK 199 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~----~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~ 199 (252)
..+|||+|||..+++++|.++|..||.|..+.+..+.. .|+|||+|.+.++|..|+..++|..+. |+.|.|.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~----~~~~~v~ 190 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELE----GRPLRVQ 190 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeEC----CceeEee
Confidence 58999999999999999999999999999999988753 279999999999999999999999999 9999998
Q ss_pred ecC
Q 025499 200 RYD 202 (252)
Q Consensus 200 ~~~ 202 (252)
...
T Consensus 191 ~~~ 193 (306)
T COG0724 191 KAQ 193 (306)
T ss_pred ccc
Confidence 864
No 118
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.08 E-value=1.8e-10 Score=95.24 Aligned_cols=167 Identities=17% Similarity=0.139 Sum_probs=104.7
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 3 GRFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 3 ~~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
+-++.+|+|-|||..+++++|..+|+.||+|..|.. +....+.+||+|.+..+|+.|+..|++..+.|+.|+......
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~--t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k~~~~~~ 149 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRE--TPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIKRPGGAR 149 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhc--ccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhcCCCccc
Confidence 357889999999999999999999999999999654 444578999999999999999999999999999998111111
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC
Q 025499 83 GSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG 162 (252)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~ 162 (252)
. .........-+... ...-... .+..-..-.+++- |++..+..-++..++-+|.+.. .-.....
T Consensus 150 ~---~~~~~~~~~~~~~~---~~p~a~s-------~pgg~~~~~~~g~-l~P~~s~~~~~~~~~~~~~~~~-~~~~~~~- 213 (549)
T KOG4660|consen 150 R---AMGLQSGTSFLNHF---GSPLANS-------PPGGWPRGQLFGM-LSPTRSSILLEHISSVDGSSPG-RETPLLN- 213 (549)
T ss_pred c---cchhcccchhhhhc---cchhhcC-------CCCCCcCCcceee-eccchhhhhhhcchhccCcccc-ccccchh-
Confidence 0 00000000000000 0000000 0000001233333 7777777777777777776665 2211111
Q ss_pred cEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 163 TYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 163 ~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
-.-|++|.+..++..+...+ |..+.
T Consensus 214 hq~~~~~~~~~s~a~~~~~~-G~~~s 238 (549)
T KOG4660|consen 214 HQRFVEFADNRSYAFSEPRG-GFLIS 238 (549)
T ss_pred hhhhhhhccccchhhcccCC-ceecC
Confidence 16778888888886666644 55555
No 119
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=99.06 E-value=3.9e-11 Score=95.79 Aligned_cols=148 Identities=24% Similarity=0.373 Sum_probs=118.4
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcC--ceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCC-cccCCeeEEEEecCCC
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYG--RILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDG-YNFDGCRLRVELAHGG 83 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G--~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~-~~~~g~~i~v~~~~~~ 83 (252)
+.|||+||.+.++..||..+|...- --..+.++ .||+||.+.+...|.+|++.++| ..+.|.++.|..+.++
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k-----~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~k 76 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK-----SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPK 76 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeee-----cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhH
Confidence 4799999999999999999997542 11222222 68999999999999999999998 5689999999988765
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEe-eCCCC
Q 025499 84 SGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVS-RDSEG 162 (252)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~-~~~~~ 162 (252)
.. ....+-|.|+|....|+.|..+...||.|+.|... .+..+
T Consensus 77 kq-------------------------------------rsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~et 119 (584)
T KOG2193|consen 77 KQ-------------------------------------RSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSET 119 (584)
T ss_pred HH-------------------------------------HhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHH
Confidence 21 22457799999999999999999999999998654 33333
Q ss_pred cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 163 TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 163 ~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
...-|+|.+.+.+..||..|+|.++. .-.+.+.+
T Consensus 120 avvnvty~~~~~~~~ai~kl~g~Q~e----n~~~k~~Y 153 (584)
T KOG2193|consen 120 AVVNVTYSAQQQHRQAIHKLNGPQLE----NQHLKVGY 153 (584)
T ss_pred HHHHHHHHHHHHHHHHHHhhcchHhh----hhhhhccc
Confidence 46667899999999999999999998 55555544
No 120
>smart00361 RRM_1 RNA recognition motif.
Probab=99.03 E-value=1.5e-09 Score=67.65 Aligned_cols=57 Identities=18% Similarity=0.218 Sum_probs=48.1
Q ss_pred HHHHHHHHH----HhCCceEEE-EeeCC------CCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEe
Q 025499 138 WQDLKDHMR----KAGDVCFAE-VSRDS------EGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITV 198 (252)
Q Consensus 138 ~~~l~~~f~----~~g~v~~~~-~~~~~------~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v 198 (252)
+++|.++|. +||.|..+. +..++ ..|+|||+|.+.++|..|+..|||..+. |+.|.+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~----gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFD----GRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEEC----CEEEEe
Confidence 567888888 999999985 44433 2379999999999999999999999999 888875
No 121
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.02 E-value=6.1e-10 Score=88.25 Aligned_cols=81 Identities=25% Similarity=0.498 Sum_probs=73.1
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC---CCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP---PRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~---~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
..+|||++||.++++++|+++|++||.|..+.++.| ..+++|+||+|.+++.+++++. ..-+.|+|+.+.|..+.+
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~p 175 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAIP 175 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeeccc
Confidence 568999999999999999999999999999988664 5789999999999999999998 788999999999999988
Q ss_pred CCCCC
Q 025499 83 GSGRG 87 (252)
Q Consensus 83 ~~~~~ 87 (252)
+....
T Consensus 176 k~~~~ 180 (311)
T KOG4205|consen 176 KEVMQ 180 (311)
T ss_pred hhhcc
Confidence 75443
No 122
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=99.02 E-value=2e-11 Score=105.18 Aligned_cols=132 Identities=23% Similarity=0.278 Sum_probs=112.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEe---cCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELK---IPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~---~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
..+++||.||++.+.+.+|...|..+|.+..+++. ..+..+|+|||+|..++++.+|+...+++.+.
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 34678999999999999999999999988887773 35678999999999999999999955544333
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCC
Q 025499 82 GGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSE 161 (252)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~ 161 (252)
+ ..++|.|.|...|.++++.++..+|.+..+.++....
T Consensus 736 -K-----------------------------------------~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~ 773 (881)
T KOG0128|consen 736 -K-----------------------------------------ISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRA 773 (881)
T ss_pred -h-----------------------------------------hhhheeCCCCCCchHHHHhhccccCCccccchhhhhc
Confidence 1 3788999999999999999999999999987766554
Q ss_pred ---CcEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 162 ---GTYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 162 ---~~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
.|.|+|.|.+..+|.+++..+.+..+.
T Consensus 774 gkpkg~a~v~y~~ea~~s~~~~s~d~~~~r 803 (881)
T KOG0128|consen 774 GKPKGKARVDYNTEADASRKVASVDVAGKR 803 (881)
T ss_pred cccccceeccCCCcchhhhhcccchhhhhh
Confidence 379999999999999999988887777
No 123
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.98 E-value=1.2e-09 Score=86.34 Aligned_cols=176 Identities=19% Similarity=0.252 Sum_probs=131.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEE---ecCCCCCeEEEEEECCHHHHHHHHHhcCC-cccCCeeEEEEec
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIEL---KIPPRPPCYCFVEFENARDAEDAIRGRDG-YNFDGCRLRVELA 80 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~---~~~~~~~g~afV~f~~~~~a~~a~~~l~~-~~~~g~~i~v~~~ 80 (252)
..+++|++++...+.+.++..++..+|.+....+ .....+++++++.|+..+.+..|+. +.+ ..+.+..+.....
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~-~s~~~~~~~~~~~~dl~ 165 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALE-ESGSKVLDGNKGEKDLN 165 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHH-hhhccccccccccCccc
Confidence 3578999999999999999999999997777665 2245679999999999999999999 554 4556665555444
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEE-EeCCCCCCCHHHHHHHHHHhCCceEEEEeeC
Q 025499 81 HGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVI-VRGLPSSASWQDLKDHMRKAGDVCFAEVSRD 159 (252)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~ 159 (252)
............ ........+++ +.+|+..++.++|..+|..+|.|..+.+...
T Consensus 166 ~~~~~~~~n~~~-------------------------~~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~ 220 (285)
T KOG4210|consen 166 TRRGLRPKNKLS-------------------------RLSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTD 220 (285)
T ss_pred ccccccccchhc-------------------------ccccCccccceeecccccccchHHHhhhccCcCcceeeccCCC
Confidence 433200000000 11111223444 9999999999999999999999999999988
Q ss_pred CCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCCCCCCCCCC
Q 025499 160 SEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDRSPSRSRSR 211 (252)
Q Consensus 160 ~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~~~~r~r~r 211 (252)
... ++|+|.|.....+..++.. ....+. ++.+.+.+.+..+..++..
T Consensus 221 ~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~----~~~~~~~~~~~~~~~~~~~ 271 (285)
T KOG4210|consen 221 EESGDSKGFAYVDFSAGNSKKLALND-QTRSIG----GRPLRLEEDEPRPKSDGGL 271 (285)
T ss_pred CCccchhhhhhhhhhhchhHHHHhhc-ccCccc----CcccccccCCCCccccccc
Confidence 766 5999999999999999987 888888 8888888887655554433
No 124
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.94 E-value=5e-09 Score=77.50 Aligned_cols=75 Identities=13% Similarity=0.144 Sum_probs=68.2
Q ss_pred cEEEEeCCCCCCCHHHHHH----HHHHhCCceEEEEeeC-CCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEee
Q 025499 125 YRVIVRGLPSSASWQDLKD----HMRKAGDVCFAEVSRD-SEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVK 199 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~----~f~~~g~v~~~~~~~~-~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~ 199 (252)
.+|||.||+..+..++|+. +|+.||.|..|..... +-.|.|||.|.+.+.|..|+.+|+|..+. |+.+++.
T Consensus 10 ~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFy----gK~mriq 85 (221)
T KOG4206|consen 10 GTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFY----GKPMRIQ 85 (221)
T ss_pred ceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCccc----Cchhhee
Confidence 3999999999999999887 9999999999988754 44589999999999999999999999999 9999998
Q ss_pred ecCC
Q 025499 200 RYDR 203 (252)
Q Consensus 200 ~~~~ 203 (252)
++..
T Consensus 86 yA~s 89 (221)
T KOG4206|consen 86 YAKS 89 (221)
T ss_pred cccC
Confidence 8884
No 125
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.92 E-value=4.4e-09 Score=78.48 Aligned_cols=70 Identities=26% Similarity=0.445 Sum_probs=61.0
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
..+||++||+.+.+.+|..+|..||.+..+.+.. +|+||+|++..+|..|+..||+..|. +-.+.|..++
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~----gf~fv~fed~rda~Dav~~l~~~~l~----~e~~vve~~r 71 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKN----GFGFVEFEDPRDADDAVHDLDGKELC----GERLVVEHAR 71 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceeec----ccceeccCchhhhhcccchhcCceec----ceeeeeeccc
Confidence 3689999999999999999999999999998876 58999999999999999999999998 4444444443
No 126
>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=98.92 E-value=1.5e-08 Score=66.32 Aligned_cols=76 Identities=17% Similarity=0.210 Sum_probs=63.1
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhc--CceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccC----CeeEEE
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKY--GRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFD----GCRLRV 77 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~--G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~----g~~i~v 77 (252)
+||.|.|||...|.++|.+++... |...-+.+.. ++.+.|||||.|.+++.|....+.++|..|. .+.+.|
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 689999999999999999999764 4555555533 4678999999999999999999999998885 567788
Q ss_pred EecCC
Q 025499 78 ELAHG 82 (252)
Q Consensus 78 ~~~~~ 82 (252)
.+|.-
T Consensus 82 ~yAri 86 (97)
T PF04059_consen 82 SYARI 86 (97)
T ss_pred ehhHh
Confidence 87764
No 127
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.91 E-value=1.7e-08 Score=85.90 Aligned_cols=80 Identities=24% Similarity=0.380 Sum_probs=72.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC------CCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEE
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP------PRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRV 77 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~------~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v 77 (252)
..++.|||+||++.++++.|...|..||+|..|+++.. .....||||.|.+-.+|++|+..|+|..+.+..+++
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 34678999999999999999999999999999999653 245679999999999999999999999999999999
Q ss_pred EecCCC
Q 025499 78 ELAHGG 83 (252)
Q Consensus 78 ~~~~~~ 83 (252)
.|++.-
T Consensus 252 gWgk~V 257 (877)
T KOG0151|consen 252 GWGKAV 257 (877)
T ss_pred cccccc
Confidence 999644
No 128
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.83 E-value=4.2e-08 Score=81.69 Aligned_cols=79 Identities=27% Similarity=0.363 Sum_probs=70.8
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeE
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRIT 197 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~ 197 (252)
..+.+|||.+|...+-..+|+.+|++||+|+-.+++.+... .|+||++.+.++|.++|..||..+|. |+-|.
T Consensus 403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELH----GrmIS 478 (940)
T KOG4661|consen 403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELH----GRMIS 478 (940)
T ss_pred ccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhc----ceeee
Confidence 34579999999999999999999999999999999887543 39999999999999999999999999 99999
Q ss_pred eeecCCC
Q 025499 198 VKRYDRS 204 (252)
Q Consensus 198 v~~~~~~ 204 (252)
|..++..
T Consensus 479 VEkaKNE 485 (940)
T KOG4661|consen 479 VEKAKNE 485 (940)
T ss_pred eeecccC
Confidence 9887643
No 129
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.79 E-value=5.6e-08 Score=82.69 Aligned_cols=188 Identities=11% Similarity=-0.054 Sum_probs=126.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEE--ecCCCC-CeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIEL--KIPPRP-PCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~--~~~~~~-~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
..+.+-+.+++.++.+.|++++|...- |..+.+ ..-+.+ .|.++|+|....++++|++ -+.+.+-.+.+.|....
T Consensus 310 d~~y~~~~gm~fn~~~nd~rkfF~g~~-~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~~-rn~~~~~~R~~q~~P~g 387 (944)
T KOG4307|consen 310 DKYYNNYKGMEFNNDFNDGRKFFPGRN-AQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAFT-RNPSDDVNRPFQTGPPG 387 (944)
T ss_pred hhheeeecccccccccchhhhhcCccc-ccccchhhhhcCCCcCCceEEEecCcchHHHHHh-cCchhhhhcceeecCCC
Confidence 356677789999999999999986532 333333 222333 7899999999999999998 67788888888888765
Q ss_pred CCCCCCCCCCCCCCCCCCCCCC------CCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceE-E
Q 025499 82 GGSGRGPSSSDRRGGYGGGGAG------GAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCF-A 154 (252)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~-~ 154 (252)
...-............ ..... +......+ .++.-..+...+..|||..||..+++.++.++|...-.|++ |
T Consensus 388 ~~~~~~a~~~~~~~~~-~~~~~~hg~p~~~pr~~~~-~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I 465 (944)
T KOG4307|consen 388 NLGRNGAPPFQAGVPP-PVIQNNHGRPIAPPRAMVR-PGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFI 465 (944)
T ss_pred ccccccCccccccCCC-CcccccCCCCCCCcccccC-CCCCCCCCCCccceEEeccCCccccccchhhhhhhhhhhhhee
Confidence 4311100000000000 00000 01111111 22233455566789999999999999999999999888887 5
Q ss_pred EEeeCCCC---cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 155 EVSRDSEG---TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 155 ~~~~~~~~---~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
.+...+.. +.|||.|..++++..|...-+...++ .+.|+|+.
T Consensus 466 ~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G----~r~irv~s 510 (944)
T KOG4307|consen 466 ELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPG----HRIIRVDS 510 (944)
T ss_pred EeccCCcccccchhhheeccccccchhhhcccccccC----ceEEEeec
Confidence 55544433 69999999999999999877888777 88888854
No 130
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.78 E-value=1.2e-08 Score=78.07 Aligned_cols=79 Identities=23% Similarity=0.331 Sum_probs=71.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
.+...+||+|+...+|.+++...|+.||.|..+.+.. .+.+++|+||+|.+.+.+..|+. |++..|.|..+.|.+.
T Consensus 99 ~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~ 177 (231)
T KOG4209|consen 99 VDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLK 177 (231)
T ss_pred cCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeee
Confidence 4678899999999999999999999999998887744 35789999999999999999999 9999999999999987
Q ss_pred CCC
Q 025499 81 HGG 83 (252)
Q Consensus 81 ~~~ 83 (252)
...
T Consensus 178 r~~ 180 (231)
T KOG4209|consen 178 RTN 180 (231)
T ss_pred eee
Confidence 654
No 131
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.76 E-value=4.1e-07 Score=77.57 Aligned_cols=76 Identities=20% Similarity=0.128 Sum_probs=63.0
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeE-EEEe--cCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILD-IELK--IPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~-v~~~--~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
.+.+|||..||..+++.++.++|...-.|++ |.+- .++...+.|||+|.+++++..|+..-+.+.+.-+.|+|...
T Consensus 433 ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si 511 (944)
T KOG4307|consen 433 AGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSI 511 (944)
T ss_pred ccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeech
Confidence 4678999999999999999999999888888 6663 35677889999999999999998866666666677777765
No 132
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=98.75 E-value=8.5e-08 Score=59.71 Aligned_cols=70 Identities=23% Similarity=0.378 Sum_probs=49.4
Q ss_pred cEEEEcCCCCCCCHHH----HHHHHhhcC-ceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecC
Q 025499 7 RTIYVGNLPSDIREYE----VEDLFYKYG-RILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAH 81 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~----l~~~f~~~G-~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~ 81 (252)
..|||.|||.+..... |++++..|| .|..|. .+.|+|.|.+++.|.+|...|+|..+.|.+|.|.+..
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~-------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~ 75 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS-------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSP 75 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE---------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS-
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe-------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcC
Confidence 4699999999988765 566777887 777762 4679999999999999999999999999999999985
Q ss_pred CC
Q 025499 82 GG 83 (252)
Q Consensus 82 ~~ 83 (252)
..
T Consensus 76 ~~ 77 (90)
T PF11608_consen 76 KN 77 (90)
T ss_dssp -S
T ss_pred Cc
Confidence 43
No 133
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=98.73 E-value=8.3e-08 Score=76.24 Aligned_cols=170 Identities=16% Similarity=0.158 Sum_probs=113.0
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEE---EecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIE---LKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~---~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
+.+..|-..+||+..++.+|..+|.-.-...-.. +...+.-.|.|.|.|.++|.-+-|++ -+.+.+.++.|.|--+
T Consensus 58 ~~~vvvRaRglpwq~Sd~~ia~ff~gl~ia~gg~aKOG~~qgrRnge~lvrf~d~e~Rdlalk-Rhkhh~g~ryievYka 136 (508)
T KOG1365|consen 58 DDNVVVRARGLPWQSSDQDIARFFKGLNIANGGRALCLNAQGRRNGEALVRFVDPEGRDLALK-RHKHHMGTRYIEVYKA 136 (508)
T ss_pred CcceEEEecCCCCCcccCCHHHHHhhhhccccceeeeehhhhccccceEEEecCchhhhhhhH-hhhhhccCCceeeecc
Confidence 5667788999999999999999997543221111 12224456899999999999999998 5667778888888765
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHh----CCceEEEE
Q 025499 81 HGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKA----GDVCFAEV 156 (252)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~----g~v~~~~~ 156 (252)
....--.-. + .+.-......+......|.+.+||+++++.++.++|... |..+.+.+
T Consensus 137 ~ge~f~~ia---------g----------g~s~e~~~flsk~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLF 197 (508)
T KOG1365|consen 137 TGEEFLKIA---------G----------GTSNEAAPFLSKENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLF 197 (508)
T ss_pred CchhheEec---------C----------CccccCCCCCCcccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEE
Confidence 543110000 0 000011112222334577789999999999999999632 23444444
Q ss_pred eeC---CCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEe
Q 025499 157 SRD---SEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITV 198 (252)
Q Consensus 157 ~~~---~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v 198 (252)
+.. +.+|-|||.|..+++|+.|+. -|...++ .++|.+
T Consensus 198 V~rpdgrpTGdAFvlfa~ee~aq~aL~-khrq~iG----qRYIEl 237 (508)
T KOG1365|consen 198 VTRPDGRPTGDAFVLFACEEDAQFALR-KHRQNIG----QRYIEL 237 (508)
T ss_pred EECCCCCcccceEEEecCHHHHHHHHH-HHHHHHh----HHHHHH
Confidence 444 445899999999999999997 4555555 555554
No 134
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.68 E-value=5.6e-08 Score=83.61 Aligned_cols=73 Identities=16% Similarity=0.241 Sum_probs=66.9
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
++||||++|+..+++.||..+|+.||.|..|.++... ++|||.+....+|.+|+.+|.+..+. .+.|++.-+.
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R--~cAfI~M~~RqdA~kalqkl~n~kv~----~k~Iki~Wa~ 493 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPR--GCAFIKMVRRQDAEKALQKLSNVKVA----DKTIKIAWAV 493 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccCC--ceeEEEEeehhHHHHHHHHHhccccc----ceeeEEeeec
Confidence 4699999999999999999999999999999998776 79999999999999999999988888 8888776555
No 135
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.65 E-value=1.9e-06 Score=71.29 Aligned_cols=76 Identities=18% Similarity=0.337 Sum_probs=63.7
Q ss_pred CccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCC----CCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEe
Q 025499 123 SEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDS----EGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITV 198 (252)
Q Consensus 123 ~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~----~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v 198 (252)
...+|||.|||.+++..+|+++|..||.|+...|.... ...||||+|++.++++.||.+- -..++ ++.+.|
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig----~~kl~V 361 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-PLEIG----GRKLNV 361 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-ccccC----CeeEEE
Confidence 34469999999999999999999999999987666533 2269999999999999999965 56666 999999
Q ss_pred eecCC
Q 025499 199 KRYDR 203 (252)
Q Consensus 199 ~~~~~ 203 (252)
++.+.
T Consensus 362 eek~~ 366 (419)
T KOG0116|consen 362 EEKRP 366 (419)
T ss_pred Eeccc
Confidence 88774
No 136
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.65 E-value=1.5e-07 Score=73.92 Aligned_cols=79 Identities=19% Similarity=0.191 Sum_probs=65.9
Q ss_pred CCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHh-cCccccCCCCCc
Q 025499 116 RFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKL-DDTEFRNPWARG 194 (252)
Q Consensus 116 ~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l-~g~~~~~~~~g~ 194 (252)
..++....-.+|||++|...+++.+|+++|.+||.|..+.+.... ++|||+|.+.+.|+.|.+++ +...|. |.
T Consensus 220 lepPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~--~CAFv~ftTR~aAE~Aae~~~n~lvI~----G~ 293 (377)
T KOG0153|consen 220 LEPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK--GCAFVTFTTREAAEKAAEKSFNKLVIN----GF 293 (377)
T ss_pred cCCCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc--ccceeeehhhHHHHHHHHhhcceeeec----ce
Confidence 334555566799999999999999999999999999999988876 69999999999999998865 444445 88
Q ss_pred eeEeee
Q 025499 195 RITVKR 200 (252)
Q Consensus 195 ~i~v~~ 200 (252)
.|.+.=
T Consensus 294 Rl~i~W 299 (377)
T KOG0153|consen 294 RLKIKW 299 (377)
T ss_pred EEEEEe
Confidence 887763
No 137
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.64 E-value=1.7e-07 Score=71.68 Aligned_cols=75 Identities=20% Similarity=0.290 Sum_probs=67.5
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC---cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG---TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~---~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
...|+|.|||+.+++++|+++|..||.+..+.+..++.+ |.|-|.|...++|..|++.++|..+. |..+.+..
T Consensus 83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ld----G~~mk~~~ 158 (243)
T KOG0533|consen 83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALD----GRPMKIEI 158 (243)
T ss_pred cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccC----CceeeeEE
Confidence 378999999999999999999999999999999988776 79999999999999999999998888 77777655
Q ss_pred cC
Q 025499 201 YD 202 (252)
Q Consensus 201 ~~ 202 (252)
..
T Consensus 159 i~ 160 (243)
T KOG0533|consen 159 IS 160 (243)
T ss_pred ec
Confidence 44
No 138
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.61 E-value=6.6e-07 Score=66.18 Aligned_cols=82 Identities=15% Similarity=0.213 Sum_probs=66.1
Q ss_pred CccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC-----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeE
Q 025499 123 SEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG-----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRIT 197 (252)
Q Consensus 123 ~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~-----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~ 197 (252)
..++|||.+||.++...||..+|..|-..+-+.+...... -+||+.|.+..+|..|++.|||..|+ +-.+..|+
T Consensus 33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFD-pE~~stLh 111 (284)
T KOG1457|consen 33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFD-PETGSTLH 111 (284)
T ss_pred ccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeec-cccCceeE
Confidence 3579999999999999999999999966555544433222 49999999999999999999999997 33477888
Q ss_pred eeecCCCC
Q 025499 198 VKRYDRSP 205 (252)
Q Consensus 198 v~~~~~~~ 205 (252)
++.++-..
T Consensus 112 iElAKSNt 119 (284)
T KOG1457|consen 112 IELAKSNT 119 (284)
T ss_pred eeehhcCc
Confidence 88888433
No 139
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.58 E-value=1e-07 Score=71.76 Aligned_cols=161 Identities=16% Similarity=0.238 Sum_probs=109.9
Q ss_pred EEEcCCCCCCCHHH-H--HHHHhhcCceeEEEEec--CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 9 IYVGNLPSDIREYE-V--EDLFYKYGRILDIELKI--PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 9 l~v~~lp~~~t~~~-l--~~~f~~~G~v~~v~~~~--~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
++++++-..+..+- | ...|+.+-.....++.. .+.-.+++|+.|.....-.++-..-++..+.-.+|++.-...-
T Consensus 99 p~~~~~g~~v~pep~lp~~~~f~~~p~L~ktk~v~~~p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a~gtsw 178 (290)
T KOG0226|consen 99 PFQSNAGATVNPEPPLPLPVVFSEYPSLVKTKLVRDRPQPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRLAAGTSW 178 (290)
T ss_pred ccccccccccCCCCCCcchhhhccchhhhhhhhhhcCCCccCcccccCcchhhhhhhhccccccccccCcceeecccccc
Confidence 44555555554444 2 55666665554444433 3456789999999877776666655555555555443322111
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC-
Q 025499 84 SGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG- 162 (252)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~- 162 (252)
.. .....-...+..||-+.|...++++.|...|.+|-.....+++++..+
T Consensus 179 -------ed----------------------Psl~ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTg 229 (290)
T KOG0226|consen 179 -------ED----------------------PSLAEWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTG 229 (290)
T ss_pred -------CC----------------------cccccCccccceeecccccccccHHHHHHHHHhccchhhcccccccccc
Confidence 00 011122234579999999999999999999999988777777777544
Q ss_pred ---cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 163 ---TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 163 ---~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
||+||-|.++.++..|+..|+|+.++ .+.|.++...
T Consensus 230 KSkgygfVSf~~pad~~rAmrem~gkyVg----srpiklRkS~ 268 (290)
T KOG0226|consen 230 KSKGYGFVSFRDPADYVRAMREMNGKYVG----SRPIKLRKSE 268 (290)
T ss_pred ccccceeeeecCHHHHHHHHHhhcccccc----cchhHhhhhh
Confidence 69999999999999999999999999 7777765543
No 140
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.56 E-value=3.5e-08 Score=72.55 Aligned_cols=75 Identities=13% Similarity=0.172 Sum_probs=66.2
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC--cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEee
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG--TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVK 199 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~--~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~ 199 (252)
....+|||.|+...++++.|.++|-..|.|..|.|..+.+. .||||.|+++....-|++.+||-.+. +..|.+.
T Consensus 7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~----~~e~q~~ 82 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLE----EDEEQRT 82 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhc----cchhhcc
Confidence 44579999999999999999999999999999999987765 59999999999999999999999987 6665553
Q ss_pred e
Q 025499 200 R 200 (252)
Q Consensus 200 ~ 200 (252)
.
T Consensus 83 ~ 83 (267)
T KOG4454|consen 83 L 83 (267)
T ss_pred c
Confidence 3
No 141
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=98.56 E-value=4.1e-07 Score=76.26 Aligned_cols=76 Identities=12% Similarity=0.236 Sum_probs=65.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHh-hcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCccc---CCeeEEEEe
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFY-KYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNF---DGCRLRVEL 79 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~-~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~---~g~~i~v~~ 79 (252)
.+++.|||.||-.-.|.-+|++++. .+|.|...+|- +-+..|||.|.+.++|.+....|+|..| +++.|.+.|
T Consensus 442 ~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmD---kIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf 518 (718)
T KOG2416|consen 442 EPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMD---KIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADF 518 (718)
T ss_pred CccceEeeecccccchHHHHHHHHhhccCchHHHHHH---HhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeee
Confidence 5789999999999999999999999 67788888661 1156799999999999999999999887 678888888
Q ss_pred cCC
Q 025499 80 AHG 82 (252)
Q Consensus 80 ~~~ 82 (252)
...
T Consensus 519 ~~~ 521 (718)
T KOG2416|consen 519 VRA 521 (718)
T ss_pred cch
Confidence 753
No 142
>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=98.56 E-value=1.4e-06 Score=57.08 Aligned_cols=78 Identities=15% Similarity=0.252 Sum_probs=63.9
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHh--CCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEe
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKA--GDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITV 198 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~--g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v 198 (252)
+||.|.|+|...+.++|.+++... |....+.++.|-.+ |||||.|.+++.|..-.+.++|.....-.+.+...+
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 589999999999999999999775 56666777766443 799999999999999999999999875555666666
Q ss_pred eecC
Q 025499 199 KRYD 202 (252)
Q Consensus 199 ~~~~ 202 (252)
..++
T Consensus 82 ~yAr 85 (97)
T PF04059_consen 82 SYAR 85 (97)
T ss_pred ehhH
Confidence 6654
No 143
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.55 E-value=4.1e-07 Score=66.53 Aligned_cols=79 Identities=18% Similarity=0.203 Sum_probs=65.9
Q ss_pred CCCCCCccEEEEeCCCCCCCHHHHHHHHHHh-CCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCC
Q 025499 118 GISRHSEYRVIVRGLPSSASWQDLKDHMRKA-GDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWA 192 (252)
Q Consensus 118 ~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~-g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~ 192 (252)
.+.....-.++|..+|..+.+.++...|.+| |.|..+.+.++..+ |||||+|++.+.|.-|.+.||+..+.
T Consensus 43 ~p~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~---- 118 (214)
T KOG4208|consen 43 KPEQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLM---- 118 (214)
T ss_pred CCccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhh----
Confidence 3444455688999999999999999999999 67777888666544 69999999999999999999999999
Q ss_pred CceeEeee
Q 025499 193 RGRITVKR 200 (252)
Q Consensus 193 g~~i~v~~ 200 (252)
++-|.+..
T Consensus 119 e~lL~c~v 126 (214)
T KOG4208|consen 119 EHLLECHV 126 (214)
T ss_pred hheeeeEE
Confidence 77776644
No 144
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.52 E-value=1.5e-07 Score=70.83 Aligned_cols=78 Identities=18% Similarity=0.322 Sum_probs=68.4
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEE---ecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIEL---KIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~---~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
+....||.|.|..+++++.|-..|.+|-.....++ ..+++++||+||.|.++.++..|+..|+|..++.++|++.-+
T Consensus 188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS 267 (290)
T KOG0226|consen 188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKS 267 (290)
T ss_pred cccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhh
Confidence 44568999999999999999999999986655555 557899999999999999999999999999999999987655
Q ss_pred C
Q 025499 81 H 81 (252)
Q Consensus 81 ~ 81 (252)
.
T Consensus 268 ~ 268 (290)
T KOG0226|consen 268 E 268 (290)
T ss_pred h
Confidence 3
No 145
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=98.52 E-value=3.4e-08 Score=74.48 Aligned_cols=62 Identities=23% Similarity=0.301 Sum_probs=51.4
Q ss_pred HHHHHHHh-hcCceeEEEEec--CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 21 YEVEDLFY-KYGRILDIELKI--PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 21 ~~l~~~f~-~~G~v~~v~~~~--~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
++|...|+ +||+|+++.|-. ...-.|.+||.|..+++|++|++.||+.+|.|++|++.++.-
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pv 147 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPV 147 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCc
Confidence 44445555 999999998732 235688999999999999999999999999999999998753
No 146
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.48 E-value=2.6e-07 Score=76.95 Aligned_cols=71 Identities=20% Similarity=0.244 Sum_probs=62.2
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeE
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRIT 197 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~ 197 (252)
....+|+|-|||..+++++|..+|+.||+|..|..-... .+.+||+|.+..+|++|+++|++.++. ++.|.
T Consensus 73 ~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~-~~~~~v~FyDvR~A~~Alk~l~~~~~~----~~~~k 143 (549)
T KOG4660|consen 73 MNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNK-RGIVFVEFYDVRDAERALKALNRREIA----GKRIK 143 (549)
T ss_pred CccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccccc-CceEEEEEeehHhHHHHHHHHHHHHhh----hhhhc
Confidence 344699999999999999999999999999996554433 369999999999999999999999999 77765
No 147
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.46 E-value=9.8e-07 Score=69.38 Aligned_cols=77 Identities=27% Similarity=0.447 Sum_probs=68.6
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceE--------EEEeeCCCC---cEEEEEcCChhHHHHHHHHhcCccccCC
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCF--------AEVSRDSEG---TYGVVDYTNPEDMKYAIRKLDDTEFRNP 190 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~--------~~~~~~~~~---~~afv~f~~~~~a~~a~~~l~g~~~~~~ 190 (252)
..+..|||.|||.++|.+++.++|++||.|.. |++..+..+ |-|+|.|--.++...|+..|++..+.
T Consensus 132 ~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~r-- 209 (382)
T KOG1548|consen 132 KVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELR-- 209 (382)
T ss_pred ccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCccccc--
Confidence 34567999999999999999999999997643 788877665 69999999999999999999999999
Q ss_pred CCCceeEeeecC
Q 025499 191 WARGRITVKRYD 202 (252)
Q Consensus 191 ~~g~~i~v~~~~ 202 (252)
|..|+|..+.
T Consensus 210 --g~~~rVerAk 219 (382)
T KOG1548|consen 210 --GKKLRVERAK 219 (382)
T ss_pred --CcEEEEehhh
Confidence 9999998877
No 148
>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=98.45 E-value=4.6e-07 Score=60.75 Aligned_cols=71 Identities=13% Similarity=0.286 Sum_probs=44.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCC-----cccCCeeEEEEec
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDG-----YNFDGCRLRVELA 80 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~-----~~~~g~~i~v~~~ 80 (252)
+.|+|.+++..++.++|.+.|+.||.|..|.+... -..|||-|.++++|++|+..+.. ..|.+..+.+..-
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G---~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vL 77 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG---DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVL 77 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT----SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE--
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC---CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEEC
Confidence 67999999999999999999999999999988653 34699999999999999976643 4566766666653
No 149
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.41 E-value=1.6e-06 Score=66.45 Aligned_cols=76 Identities=18% Similarity=0.215 Sum_probs=68.7
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeE
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRIT 197 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~ 197 (252)
.....+||+|+...++.+++..+|+.||.|..+.+..+... +|+||+|.+.+.++.|+. |+|..+. ++.|.
T Consensus 99 ~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~----~~~i~ 173 (231)
T KOG4209|consen 99 VDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIP----GPAIE 173 (231)
T ss_pred cCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccc----cccce
Confidence 34579999999999999999999999999998888877655 599999999999999999 9999999 99998
Q ss_pred eeecC
Q 025499 198 VKRYD 202 (252)
Q Consensus 198 v~~~~ 202 (252)
|...+
T Consensus 174 vt~~r 178 (231)
T KOG4209|consen 174 VTLKR 178 (231)
T ss_pred eeeee
Confidence 87777
No 150
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=98.35 E-value=4.8e-06 Score=52.04 Aligned_cols=69 Identities=16% Similarity=0.269 Sum_probs=48.1
Q ss_pred cEEEEeCCCCCCCHHHH----HHHHHHhC-CceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEee
Q 025499 125 YRVIVRGLPSSASWQDL----KDHMRKAG-DVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVK 199 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l----~~~f~~~g-~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~ 199 (252)
..|+|.|||.+.+...| ++++..+| +|..|. ++-|+|.|.+.+.|.+|.+.|+|..+. |..|.|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~------~~tAilrF~~~~~A~RA~KRmegEdVf----G~kI~v~ 72 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS------GGTAILRFPNQEFAERAQKRMEGEDVF----GNKISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE--------TT-EEEEESSHHHHHHHHHHHTT--SS----SS--EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe------CCEEEEEeCCHHHHHHHHHhhcccccc----cceEEEE
Confidence 47999999999987654 56666786 777762 258999999999999999999999999 9999999
Q ss_pred ecCC
Q 025499 200 RYDR 203 (252)
Q Consensus 200 ~~~~ 203 (252)
+...
T Consensus 73 ~~~~ 76 (90)
T PF11608_consen 73 FSPK 76 (90)
T ss_dssp SS--
T ss_pred EcCC
Confidence 8863
No 151
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.31 E-value=7.6e-07 Score=70.45 Aligned_cols=81 Identities=28% Similarity=0.385 Sum_probs=70.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeE--------EEE---ecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILD--------IEL---KIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDG 72 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~--------v~~---~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g 72 (252)
...-+|||.+||..+++++|..+|.+||.|.. |++ +.|+.+++-|.|.|.+...|++|+..+++..+.|
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 34568999999999999999999999997754 333 4467889999999999999999999999999999
Q ss_pred eeEEEEecCCCC
Q 025499 73 CRLRVELAHGGS 84 (252)
Q Consensus 73 ~~i~v~~~~~~~ 84 (252)
.+|+|.++....
T Consensus 144 n~ikvs~a~~r~ 155 (351)
T KOG1995|consen 144 NTIKVSLAERRT 155 (351)
T ss_pred CCchhhhhhhcc
Confidence 999999887553
No 152
>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=98.30 E-value=1.3e-06 Score=58.54 Aligned_cols=59 Identities=29% Similarity=0.517 Sum_probs=40.7
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCc
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDT 185 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~ 185 (252)
+.|+|.+++..++.++|++.|+.||.|.+|.+.... ..|+|.|.+++.|+.|+..+...
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 678999999999999999999999999999888755 48999999999999999987655
No 153
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.25 E-value=5e-06 Score=71.32 Aligned_cols=84 Identities=15% Similarity=0.166 Sum_probs=71.0
Q ss_pred CCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC-------cEEEEEcCChhHHHHHHHHhcCcc
Q 025499 114 AGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG-------TYGVVDYTNPEDMKYAIRKLDDTE 186 (252)
Q Consensus 114 ~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~-------~~afv~f~~~~~a~~a~~~l~g~~ 186 (252)
++.+....+..++|||+||++.++++.|...|..||.|..++++..... .++||-|-+..+|++|++.|+|..
T Consensus 164 ~gsfDdgDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~i 243 (877)
T KOG0151|consen 164 PGSFDDGDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGII 243 (877)
T ss_pred CCcCCCCCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhccee
Confidence 4455555666789999999999999999999999999999999876532 599999999999999999999999
Q ss_pred ccCCCCCceeEeeec
Q 025499 187 FRNPWARGRITVKRY 201 (252)
Q Consensus 187 ~~~~~~g~~i~v~~~ 201 (252)
+. +..+++.-.
T Consensus 244 v~----~~e~K~gWg 254 (877)
T KOG0151|consen 244 VM----EYEMKLGWG 254 (877)
T ss_pred ee----eeeeeeccc
Confidence 88 666655443
No 154
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=98.24 E-value=2.3e-06 Score=68.34 Aligned_cols=61 Identities=15% Similarity=0.227 Sum_probs=51.2
Q ss_pred EEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC-------cEEEEEcCChhHHHHHHHHhcCccc
Q 025499 126 RVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG-------TYGVVDYTNPEDMKYAIRKLDDTEF 187 (252)
Q Consensus 126 ~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~-------~~afv~f~~~~~a~~a~~~l~g~~~ 187 (252)
.|.|.||.++++.++++.+|.-.|+|..+.++...+. ..|||.|.+...+..|.. |.+..+
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvf 76 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVF 76 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hcccee
Confidence 7889999999999999999999999999999885543 399999999888887776 444333
No 155
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.19 E-value=4.7e-06 Score=65.41 Aligned_cols=76 Identities=24% Similarity=0.451 Sum_probs=61.4
Q ss_pred CcEEEEcCCCCCCCHHHH------HHHHhhcCceeEEEEe-cCC---CCCeE--EEEEECCHHHHHHHHHhcCCcccCCe
Q 025499 6 SRTIYVGNLPSDIREYEV------EDLFYKYGRILDIELK-IPP---RPPCY--CFVEFENARDAEDAIRGRDGYNFDGC 73 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l------~~~f~~~G~v~~v~~~-~~~---~~~g~--afV~f~~~~~a~~a~~~l~~~~~~g~ 73 (252)
.+-+||-+||+.+..+++ .++|.+||.|..|.+. .+. ...+. .||+|.+.++|..++...+|..++|+
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 345899999999877773 5799999999999883 221 11111 49999999999999999999999999
Q ss_pred eEEEEecC
Q 025499 74 RLRVELAH 81 (252)
Q Consensus 74 ~i~v~~~~ 81 (252)
.|+..|..
T Consensus 194 ~lkatYGT 201 (480)
T COG5175 194 VLKATYGT 201 (480)
T ss_pred eEeeecCc
Confidence 99999864
No 156
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=98.15 E-value=1.3e-06 Score=65.89 Aligned_cols=70 Identities=17% Similarity=0.274 Sum_probs=59.3
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC-----------CCCC----eEEEEEECCHHHHHHHHHhcCCcc
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP-----------PRPP----CYCFVEFENARDAEDAIRGRDGYN 69 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~-----------~~~~----g~afV~f~~~~~a~~a~~~l~~~~ 69 (252)
..-.||+++|||.+....|+++|+.||+|-.|++... +.+. .-|+|+|.+...|......||+..
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 3468999999999999999999999999999999432 1111 237899999999999999999999
Q ss_pred cCCee
Q 025499 70 FDGCR 74 (252)
Q Consensus 70 ~~g~~ 74 (252)
|.|++
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 99875
No 157
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=98.13 E-value=8.7e-06 Score=47.26 Aligned_cols=53 Identities=30% Similarity=0.567 Sum_probs=43.2
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHH
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAI 62 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~ 62 (252)
++.|-|.+.+++.. +++...|..||+|..+.+- ....+.||.|.+..+|++||
T Consensus 1 ~~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~---~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 1 STWISVSGFPPDLA-EEVLEHFASFGEIVDIYVP---ESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred CcEEEEEeECchHH-HHHHHHHHhcCCEEEEEcC---CCCcEEEEEECCHHHHHhhC
Confidence 35788899998877 4455688899999998774 23678999999999999985
No 158
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.09 E-value=4.4e-06 Score=66.29 Aligned_cols=80 Identities=21% Similarity=0.353 Sum_probs=70.5
Q ss_pred CCCCcEEE-EcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEE
Q 025499 3 GRFSRTIY-VGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVE 78 (252)
Q Consensus 3 ~~~~~~l~-v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~ 78 (252)
..++.++| |++|+..+++++|...|..+|.|..+.+.. ++.++|||||.|.....+..++.. +...+.++++.+.
T Consensus 181 ~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ 259 (285)
T KOG4210|consen 181 SGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLE 259 (285)
T ss_pred cCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccc
Confidence 34556666 999999999999999999999999999843 578899999999999999999996 8899999999999
Q ss_pred ecCCC
Q 025499 79 LAHGG 83 (252)
Q Consensus 79 ~~~~~ 83 (252)
...+.
T Consensus 260 ~~~~~ 264 (285)
T KOG4210|consen 260 EDEPR 264 (285)
T ss_pred cCCCC
Confidence 88765
No 159
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.04 E-value=4.1e-06 Score=66.02 Aligned_cols=77 Identities=13% Similarity=0.157 Sum_probs=64.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcC--ceeEEEE---ecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEe
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYG--RILDIEL---KIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVEL 79 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G--~v~~v~~---~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~ 79 (252)
...++|||||-+.+|++||.+.+...| .+.++++ ...|.++|||+|...+..++++.++.|....|+|+.-.|..
T Consensus 79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~ 158 (498)
T KOG4849|consen 79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLS 158 (498)
T ss_pred ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeec
Confidence 345799999999999999999998877 4555555 33579999999999999999999999999999998766665
Q ss_pred cC
Q 025499 80 AH 81 (252)
Q Consensus 80 ~~ 81 (252)
+.
T Consensus 159 ~N 160 (498)
T KOG4849|consen 159 YN 160 (498)
T ss_pred cc
Confidence 53
No 160
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.95 E-value=2.7e-05 Score=63.17 Aligned_cols=63 Identities=29% Similarity=0.282 Sum_probs=54.6
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCC--------C--------CCeEEEEEECCHHHHHHHHHhcCC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPP--------R--------PPCYCFVEFENARDAEDAIRGRDG 67 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~--------~--------~~g~afV~f~~~~~a~~a~~~l~~ 67 (252)
++++|.+-|||.+-.-+.|.++|..||.|+.|.|...+ . .+-+|+|+|.+.+.|.+|.+.|+.
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 78999999999998889999999999999999994431 1 255799999999999999997744
No 161
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=97.93 E-value=8.5e-05 Score=49.08 Aligned_cols=76 Identities=20% Similarity=0.292 Sum_probs=53.7
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEe----------cCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCe
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELK----------IPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGC 73 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~----------~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~ 73 (252)
..++-|.|-+.|+.. ...|.+.|++||.|.+..-. .......+..|+|.++.+|.+||. .||..+.|.
T Consensus 4 ~~~~wVtVFGfp~~~-~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~ 81 (100)
T PF05172_consen 4 DSETWVTVFGFPPSA-SNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGS 81 (100)
T ss_dssp GGCCEEEEE---GGG-HHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTC
T ss_pred cCCeEEEEEccCHHH-HHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCc
Confidence 345678888999985 57788999999999887510 011236789999999999999999 899999886
Q ss_pred eE-EEEecC
Q 025499 74 RL-RVELAH 81 (252)
Q Consensus 74 ~i-~v~~~~ 81 (252)
-| -|.+++
T Consensus 82 ~mvGV~~~~ 90 (100)
T PF05172_consen 82 LMVGVKPCD 90 (100)
T ss_dssp EEEEEEE-H
T ss_pred EEEEEEEcH
Confidence 44 466653
No 162
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.88 E-value=3.4e-05 Score=58.57 Aligned_cols=58 Identities=17% Similarity=0.240 Sum_probs=46.5
Q ss_pred HHHHHHHH-HhCCceEEEEeeCCCC---cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 139 QDLKDHMR-KAGDVCFAEVSRDSEG---TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 139 ~~l~~~f~-~~g~v~~~~~~~~~~~---~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
++|...|+ +||.|+.+.+..+-.. |-++|.|...++|++|+..||+..+. |+.|....
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~----G~pi~ae~ 144 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYN----GRPIHAEL 144 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCcccc----CCcceeee
Confidence 34444455 8999999877665433 68999999999999999999999999 88887654
No 163
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=97.88 E-value=7.4e-05 Score=56.74 Aligned_cols=101 Identities=26% Similarity=0.270 Sum_probs=82.8
Q ss_pred HHHHHHhcCCcccCCeeEEEEecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCC
Q 025499 58 AEDAIRGRDGYNFDGCRLRVELAHGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSAS 137 (252)
Q Consensus 58 a~~a~~~l~~~~~~g~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t 137 (252)
|..|-..|++....|+.+.|.|+... .|+|.||...++
T Consensus 7 ae~ak~eLd~~~~~~~~lr~rfa~~a------------------------------------------~l~V~nl~~~~s 44 (275)
T KOG0115|consen 7 AEIAKRELDGRFPKGRSLRVRFAMHA------------------------------------------ELYVVNLMQGAS 44 (275)
T ss_pred HHHHHHhcCCCCCCCCceEEEeeccc------------------------------------------eEEEEecchhhh
Confidence 55666679999999999999998654 899999999999
Q ss_pred HHHHHHHHHHhCCceEEEEeeCC---CCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 138 WQDLKDHMRKAGDVCFAEVSRDS---EGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 138 ~~~l~~~f~~~g~v~~~~~~~~~---~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
.+.+.+.|+.||.|....+..|. .++-++|+|...-.|..|+..+...-+.....++..-|..
T Consensus 45 ndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP 110 (275)
T KOG0115|consen 45 NDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEP 110 (275)
T ss_pred hHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCCh
Confidence 99999999999999886555543 2369999999999999999988666666555566665543
No 164
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.82 E-value=6.9e-05 Score=62.98 Aligned_cols=76 Identities=26% Similarity=0.417 Sum_probs=60.2
Q ss_pred CCcEEEEcCCCCCCC------HHHHHHHHhhcCceeEEEEec--CCCCCeEEEEEECCHHHHHHHHHhcCCcccC-CeeE
Q 025499 5 FSRTIYVGNLPSDIR------EYEVEDLFYKYGRILDIELKI--PPRPPCYCFVEFENARDAEDAIRGRDGYNFD-GCRL 75 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t------~~~l~~~f~~~G~v~~v~~~~--~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~-g~~i 75 (252)
....|+|.|+|.--. ..-|..+|+++|+|.++.+.. .+..+||.|++|++..+|+.|+..|||..++ .+.+
T Consensus 57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf 136 (698)
T KOG2314|consen 57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTF 136 (698)
T ss_pred cceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceE
Confidence 456899999987532 233677899999999998854 3678999999999999999999999998875 4566
Q ss_pred EEEec
Q 025499 76 RVELA 80 (252)
Q Consensus 76 ~v~~~ 80 (252)
.|..-
T Consensus 137 ~v~~f 141 (698)
T KOG2314|consen 137 FVRLF 141 (698)
T ss_pred Eeehh
Confidence 55543
No 165
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.76 E-value=0.0002 Score=50.25 Aligned_cols=74 Identities=20% Similarity=0.277 Sum_probs=52.5
Q ss_pred CCCcEEEEcCCCC-----CCCH----HHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCee
Q 025499 4 RFSRTIYVGNLPS-----DIRE----YEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCR 74 (252)
Q Consensus 4 ~~~~~l~v~~lp~-----~~t~----~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~ 74 (252)
.|.-||.|.-+.+ ..-+ .+|.+.|..||+|.=|++.. +.-+|+|.+-++|.+|+. ++|..+.|+.
T Consensus 25 PpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~-----~~mwVTF~dg~sALaals-~dg~~v~g~~ 98 (146)
T PF08952_consen 25 PPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVG-----DTMWVTFRDGQSALAALS-LDGIQVNGRT 98 (146)
T ss_dssp -TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEET-----TCEEEEESSCHHHHHHHH-GCCSEETTEE
T ss_pred CCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeC-----CeEEEEECccHHHHHHHc-cCCcEECCEE
Confidence 4666777755551 1223 36788899999988777763 357999999999999999 9999999999
Q ss_pred EEEEecCCC
Q 025499 75 LRVELAHGG 83 (252)
Q Consensus 75 i~v~~~~~~ 83 (252)
|.|....+.
T Consensus 99 l~i~LKtpd 107 (146)
T PF08952_consen 99 LKIRLKTPD 107 (146)
T ss_dssp EEEEE----
T ss_pred EEEEeCCcc
Confidence 999987654
No 166
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.74 E-value=6.6e-05 Score=66.00 Aligned_cols=78 Identities=15% Similarity=0.170 Sum_probs=70.1
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEE--ecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIEL--KIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~--~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
...|+|.|+|+..|.++|..++..+|.+.++.+ ...|+++|.|||.|.++.+|..++...+...+....+.|+.+.+.
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp~ 815 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNPE 815 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCCc
Confidence 457999999999999999999999999999887 346889999999999999999999989988888888888887663
No 167
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.73 E-value=0.00011 Score=61.11 Aligned_cols=60 Identities=25% Similarity=0.366 Sum_probs=55.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHh-hcCceeEEEEecC---CCCCeEEEEEECCHHHHHHHHH
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFY-KYGRILDIELKIP---PRPPCYCFVEFENARDAEDAIR 63 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~-~~G~v~~v~~~~~---~~~~g~afV~f~~~~~a~~a~~ 63 (252)
+|.+|||||+||.-+|.++|..+|+ -||.|..+-|-.| +.++|-|=|+|.+..+-.+||.
T Consensus 368 DprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs 431 (520)
T KOG0129|consen 368 DPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS 431 (520)
T ss_pred CccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence 7899999999999999999999999 7999999988555 4578999999999999999997
No 168
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.70 E-value=0.00012 Score=42.44 Aligned_cols=52 Identities=17% Similarity=0.369 Sum_probs=40.8
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHH
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAI 179 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~ 179 (252)
..|-|.+.+.... +++..+|..||.|..+.+... ....+|+|.+..+|++|+
T Consensus 2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~~--~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVPES--TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcCCC--CcEEEEEECCHHHHHhhC
Confidence 3567788776655 445568999999999888733 259999999999999985
No 169
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=97.67 E-value=0.00022 Score=56.91 Aligned_cols=78 Identities=23% Similarity=0.305 Sum_probs=65.2
Q ss_pred CCCccEEEEeCCCCCCCHHHHHHHHHHhCCceE--------EEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 121 RHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCF--------AEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 121 ~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~--------~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
.....+|||.+||..+++.+|.++|.++|.|.. |.+.+++.+ +-|.|.|++...|+.|+..++++.+.
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 445679999999999999999999999997754 445555443 69999999999999999999999998
Q ss_pred CCCCCceeEeeecC
Q 025499 189 NPWARGRITVKRYD 202 (252)
Q Consensus 189 ~~~~g~~i~v~~~~ 202 (252)
+..|+|..+.
T Consensus 143 ----gn~ikvs~a~ 152 (351)
T KOG1995|consen 143 ----GNTIKVSLAE 152 (351)
T ss_pred ----CCCchhhhhh
Confidence 6777776555
No 170
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.58 E-value=0.00027 Score=54.74 Aligned_cols=60 Identities=17% Similarity=0.128 Sum_probs=51.1
Q ss_pred HHHHHHHHHHhCCceEEEEeeCCCC-----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeec
Q 025499 138 WQDLKDHMRKAGDVCFAEVSRDSEG-----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRY 201 (252)
Q Consensus 138 ~~~l~~~f~~~g~v~~~~~~~~~~~-----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~ 201 (252)
++++.+.|.+||+|..|.++..++. --.||+|+..++|.+|+-.|||..|+ |+.+..-+.
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFG----Gr~v~A~Fy 364 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFG----GRVVSACFY 364 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceec----ceeeeheec
Confidence 3578899999999999998887654 27899999999999999999999999 887765443
No 171
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.52 E-value=0.00054 Score=55.89 Aligned_cols=66 Identities=17% Similarity=0.305 Sum_probs=56.8
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeC---CCC--------------cEEEEEcCChhHHHHHHHHhcC
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRD---SEG--------------TYGVVDYTNPEDMKYAIRKLDD 184 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~---~~~--------------~~afv~f~~~~~a~~a~~~l~g 184 (252)
-+..+|.+.|||.+-.-+.|.++|..+|.|..|.+... +.. -+|+|+|+..+.|.+|.+.|+.
T Consensus 229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~ 308 (484)
T KOG1855|consen 229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP 308 (484)
T ss_pred cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence 45689999999999999999999999999999999876 211 2899999999999999998865
Q ss_pred ccc
Q 025499 185 TEF 187 (252)
Q Consensus 185 ~~~ 187 (252)
...
T Consensus 309 e~~ 311 (484)
T KOG1855|consen 309 EQN 311 (484)
T ss_pred hhh
Confidence 444
No 172
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.51 E-value=0.00043 Score=61.45 Aligned_cols=78 Identities=23% Similarity=0.332 Sum_probs=70.1
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCC--eeEEEEec
Q 025499 3 GRFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDG--CRLRVELA 80 (252)
Q Consensus 3 ~~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~i~v~~~ 80 (252)
..+++.+|+++|++-+....|...|..||.|..|.+... ..||+|+|.+...|+.|+..|-|..|.| +.|.|.++
T Consensus 452 st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg---q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla 528 (975)
T KOG0112|consen 452 STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG---QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLA 528 (975)
T ss_pred cccceeeccCCCCCCChHHHHHHHhhccCcceeeecccC---CcceeeecccCccchhhHHHHhcCcCCCCCcccccccc
Confidence 357899999999999999999999999999999988544 6799999999999999999999999975 78899988
Q ss_pred CCC
Q 025499 81 HGG 83 (252)
Q Consensus 81 ~~~ 83 (252)
...
T Consensus 529 ~~~ 531 (975)
T KOG0112|consen 529 SPP 531 (975)
T ss_pred cCC
Confidence 765
No 173
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.47 E-value=0.00036 Score=55.15 Aligned_cols=76 Identities=14% Similarity=0.210 Sum_probs=61.8
Q ss_pred CCccEEEEeCCCCCCCHHHH------HHHHHHhCCceEEEEeeCCCC-----c--EEEEEcCChhHHHHHHHHhcCcccc
Q 025499 122 HSEYRVIVRGLPSSASWQDL------KDHMRKAGDVCFAEVSRDSEG-----T--YGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l------~~~f~~~g~v~~~~~~~~~~~-----~--~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
....-+||-+|++.+..+++ .++|.+||+|..|.+...... + -.||+|.+.++|.++|.+.+|..+.
T Consensus 112 vQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~D 191 (480)
T COG5175 112 VQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLD 191 (480)
T ss_pred eecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhcccccc
Confidence 34467899999998877763 589999999999888765422 2 3499999999999999999999999
Q ss_pred CCCCCceeEeeec
Q 025499 189 NPWARGRITVKRY 201 (252)
Q Consensus 189 ~~~~g~~i~v~~~ 201 (252)
|+.|+..+.
T Consensus 192 ----Gr~lkatYG 200 (480)
T COG5175 192 ----GRVLKATYG 200 (480)
T ss_pred ----CceEeeecC
Confidence 999887553
No 174
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.44 E-value=0.00066 Score=57.31 Aligned_cols=66 Identities=27% Similarity=0.383 Sum_probs=55.6
Q ss_pred CccEEEEeCCCCCCC------HHHHHHHHHHhCCceEEEEeeCCCC---cEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 123 SEYRVIVRGLPSSAS------WQDLKDHMRKAGDVCFAEVSRDSEG---TYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 123 ~~~~l~v~nl~~~~t------~~~l~~~f~~~g~v~~~~~~~~~~~---~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
....|+|.|+|---. ...|..+|+++|+++.+.++.+..+ ||.|++|+++.+|+.|++.|||..+.
T Consensus 57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ld 131 (698)
T KOG2314|consen 57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLD 131 (698)
T ss_pred cceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceec
Confidence 456888999885332 2456789999999999999977665 69999999999999999999999997
No 175
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=97.43 E-value=5.2e-06 Score=70.78 Aligned_cols=71 Identities=20% Similarity=0.190 Sum_probs=63.8
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
.+..+|||+|+...+..+-+..+...||.|.++.... |||..|..+..+..|+..|+-..++|..+.+..-
T Consensus 38 ~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~d 108 (668)
T KOG2253|consen 38 PPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK------FGFCEFLKHIGDLRASRLLTELNIDDQKLIENVD 108 (668)
T ss_pred CCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh------hcccchhhHHHHHHHHHHhcccCCCcchhhccch
Confidence 4667899999999999999999999999998876642 9999999999999999999999999999888775
No 176
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=97.41 E-value=0.00014 Score=61.56 Aligned_cols=77 Identities=14% Similarity=0.170 Sum_probs=59.9
Q ss_pred CCCccEEEEeCCCCCCCHHHHHHHHHH-hCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEee
Q 025499 121 RHSEYRVIVRGLPSSASWQDLKDHMRK-AGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVK 199 (252)
Q Consensus 121 ~~~~~~l~v~nl~~~~t~~~l~~~f~~-~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~ 199 (252)
......|+|.||-..+|.-+|+.++.. .|.|+.. ..++-...|||.|.+.++|...+.+|||-.-. ...++.|-+.
T Consensus 441 ~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~--WmDkIKShCyV~yss~eEA~atr~AlhnV~WP-~sNPK~L~ad 517 (718)
T KOG2416|consen 441 KEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF--WMDKIKSHCYVSYSSVEEAAATREALHNVQWP-PSNPKHLIAD 517 (718)
T ss_pred CCccceEeeecccccchHHHHHHHHhhccCchHHH--HHHHhhcceeEecccHHHHHHHHHHHhccccC-CCCCceeEee
Confidence 345679999999999999999999995 5567766 33333358999999999999999999998765 1225666655
Q ss_pred e
Q 025499 200 R 200 (252)
Q Consensus 200 ~ 200 (252)
+
T Consensus 518 f 518 (718)
T KOG2416|consen 518 F 518 (718)
T ss_pred e
Confidence 4
No 177
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.40 E-value=0.00058 Score=53.00 Aligned_cols=63 Identities=24% Similarity=0.280 Sum_probs=51.3
Q ss_pred HHHHHHHHhhcCceeEEEEecC-C---CCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 20 EYEVEDLFYKYGRILDIELKIP-P---RPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 20 ~~~l~~~f~~~G~v~~v~~~~~-~---~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
++++.+..++||.|.+|.|... + .-.--.||+|...++|.+|+-.|||..|.|+.+...+..-
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~ 366 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNL 366 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccH
Confidence 4667888899999999988442 1 1123479999999999999999999999999999887653
No 178
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.32 E-value=0.00018 Score=54.70 Aligned_cols=64 Identities=16% Similarity=0.202 Sum_probs=58.4
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC---------c-------EEEEEcCChhHHHHHHHHhcCcccc
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG---------T-------YGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~---------~-------~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
-.||+++||+.+...-|+++|+.||.|-.|.+...... + -+.|+|.+...|..+...|||.+|+
T Consensus 75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Ig 154 (278)
T KOG3152|consen 75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIG 154 (278)
T ss_pred eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccC
Confidence 48999999999999999999999999999998876543 1 6899999999999999999999998
No 179
>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=97.20 E-value=0.0019 Score=40.60 Aligned_cols=55 Identities=16% Similarity=0.311 Sum_probs=40.9
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRD 66 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~ 66 (252)
.+..||+ .|..+...||.++|+.||.|---.+- -.-|||...+.+.|..++..+.
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I~VsWi~-----dTSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQIYVSWIN-----DTSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCEEEEEEC-----TTEEEEEECCCHHHHHHHHHHT
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcEEEEEEc-----CCcEEEEeecHHHHHHHHHHhc
Confidence 3456775 99999999999999999988444443 2469999999999999998765
No 180
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=97.20 E-value=0.0023 Score=48.89 Aligned_cols=75 Identities=25% Similarity=0.283 Sum_probs=60.4
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC--CCCCeEEEEEECCHHHHHHHHHhcCC----cccCCeeEEEEec
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP--PRPPCYCFVEFENARDAEDAIRGRDG----YNFDGCRLRVELA 80 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~--~~~~g~afV~f~~~~~a~~a~~~l~~----~~~~g~~i~v~~~ 80 (252)
..|||.||+..++-+.|.+.|+.||+|....++.+ ++..+-++|.|...-.|.+|+..+.- ....+.+.-|.+.
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP~ 111 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEPM 111 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCChh
Confidence 67999999999999999999999999988666543 56778899999999999999987732 2335566666655
Q ss_pred C
Q 025499 81 H 81 (252)
Q Consensus 81 ~ 81 (252)
.
T Consensus 112 e 112 (275)
T KOG0115|consen 112 E 112 (275)
T ss_pred h
Confidence 3
No 181
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=97.17 E-value=0.0043 Score=43.13 Aligned_cols=76 Identities=17% Similarity=0.115 Sum_probs=58.3
Q ss_pred CCCCcEEEEcCCCCCCCH----HHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEE
Q 025499 3 GRFSRTIYVGNLPSDIRE----YEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVE 78 (252)
Q Consensus 3 ~~~~~~l~v~~lp~~~t~----~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~ 78 (252)
+-|-.+|.|.=|..++.. ..+...++.||+|.+|.+.- +.-|.|.|.+..+|.+|+.+++. ...|..+++.
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG----rqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCs 157 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG----RQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCS 157 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC----CceEEEEehhhHHHHHHHHhhcC-CCCCceEEee
Confidence 345668888777766532 33556678999999997742 56799999999999999998875 7788888888
Q ss_pred ecCCC
Q 025499 79 LAHGG 83 (252)
Q Consensus 79 ~~~~~ 83 (252)
|-+..
T Consensus 158 WqqrF 162 (166)
T PF15023_consen 158 WQQRF 162 (166)
T ss_pred ccccc
Confidence 86543
No 182
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=97.16 E-value=0.0018 Score=42.81 Aligned_cols=63 Identities=25% Similarity=0.320 Sum_probs=45.5
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHHhCCceEEE-----------EeeCCCCcEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRKAGDVCFAE-----------VSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~-----------~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
..-|.|-+.|.. ....|.++|++||.|.... .......+...|+|+++.+|.+||. .||..+.
T Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~ 79 (100)
T PF05172_consen 6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFS 79 (100)
T ss_dssp CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEET
T ss_pred CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEc
Confidence 356888888877 5677889999999987764 0112223699999999999999998 8999987
No 183
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.11 E-value=0.0034 Score=44.17 Aligned_cols=71 Identities=15% Similarity=0.190 Sum_probs=52.4
Q ss_pred CccEEEEeCCCC------CCCH---HHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCC
Q 025499 123 SEYRVIVRGLPS------SASW---QDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWAR 193 (252)
Q Consensus 123 ~~~~l~v~nl~~------~~t~---~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g 193 (252)
+.-+|.|.-+.+ ...+ .+|.+.|..||.++-+++..+ .-+|+|.+.+.|.+|+. ++|.++. |
T Consensus 26 pDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~----~mwVTF~dg~sALaals-~dg~~v~----g 96 (146)
T PF08952_consen 26 PDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD----TMWVTFRDGQSALAALS-LDGIQVN----G 96 (146)
T ss_dssp TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT----CEEEEESSCHHHHHHHH-GCCSEET----T
T ss_pred CCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC----eEEEEECccHHHHHHHc-cCCcEEC----C
Confidence 345666665541 2222 367788888999999988875 58999999999999998 9999999 9
Q ss_pred ceeEeeecC
Q 025499 194 GRITVKRYD 202 (252)
Q Consensus 194 ~~i~v~~~~ 202 (252)
+.|+++...
T Consensus 97 ~~l~i~LKt 105 (146)
T PF08952_consen 97 RTLKIRLKT 105 (146)
T ss_dssp EEEEEEE--
T ss_pred EEEEEEeCC
Confidence 999988765
No 184
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=97.07 E-value=0.00059 Score=50.37 Aligned_cols=79 Identities=19% Similarity=0.182 Sum_probs=51.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhh-cCcee---EEEEecC-----CCCCeEEEEEECCHHHHHHHHHhcCCcccCC--
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYK-YGRIL---DIELKIP-----PRPPCYCFVEFENARDAEDAIRGRDGYNFDG-- 72 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~-~G~v~---~v~~~~~-----~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g-- 72 (252)
.....|.|++|||.+|++++++.+.. ++... .+.-..+ ...-.-|||.|.+.+++......++|+.|.+
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~k 84 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSK 84 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TT
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCC
Confidence 56679999999999999999998887 66552 2321121 1223569999999999999999999977733
Q ss_pred ---eeEEEEecCC
Q 025499 73 ---CRLRVELAHG 82 (252)
Q Consensus 73 ---~~i~v~~~~~ 82 (252)
.+..|++|.-
T Consensus 85 g~~~~~~VE~Apy 97 (176)
T PF03467_consen 85 GNEYPAVVEFAPY 97 (176)
T ss_dssp S-EEEEEEEE-SS
T ss_pred CCCcceeEEEcch
Confidence 3556666654
No 185
>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=96.99 E-value=0.0092 Score=40.26 Aligned_cols=76 Identities=12% Similarity=0.058 Sum_probs=53.0
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcC-ceeEEEEecCCC-CCeEEEEEECCHHHHHHHHHhcCCcccCC---eeEEEEe
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYG-RILDIELKIPPR-PPCYCFVEFENARDAEDAIRGRDGYNFDG---CRLRVEL 79 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G-~v~~v~~~~~~~-~~g~afV~f~~~~~a~~a~~~l~~~~~~g---~~i~v~~ 79 (252)
.+..+.+...|.-++.++|..+.+.+- .|..+.+..++. ++-.+.|+|.+.++|+.+...+||..++. ..++|.+
T Consensus 12 ~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~FnslEpE~Chvvf 91 (110)
T PF07576_consen 12 RSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFNSLEPETCHVVF 91 (110)
T ss_pred CceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccCCCCCceeEEEE
Confidence 344455545555566677776666655 566778877764 55678899999999999999999988753 3444444
Q ss_pred c
Q 025499 80 A 80 (252)
Q Consensus 80 ~ 80 (252)
.
T Consensus 92 V 92 (110)
T PF07576_consen 92 V 92 (110)
T ss_pred E
Confidence 3
No 186
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.88 E-value=0.011 Score=35.18 Aligned_cols=53 Identities=19% Similarity=0.357 Sum_probs=42.0
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhc----CceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhc
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKY----GRILDIELKIPPRPPCYCFVEFENARDAEDAIRGR 65 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~----G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l 65 (252)
..|+|.++. +++.++|..+|..| + ...|..+-+ .-|-|.|.+.+.|.+||..|
T Consensus 6 eavhirGvd-~lsT~dI~~y~~~y~~~~~-~~~IEWIdD----tScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEG-PFRIEWIDD----TSCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCC-CCCHHHHHHHHHHhcccCC-CceEEEecC----CcEEEEECCHHHHHHHHHcC
Confidence 468999984 57789999999999 4 446666543 24789999999999999854
No 187
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.87 E-value=0.014 Score=34.82 Aligned_cols=54 Identities=22% Similarity=0.170 Sum_probs=45.0
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHh---CCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHh
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKA---GDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKL 182 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~---g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l 182 (252)
..|+|.++. .++.++|+.+|..| .....|..+.+. .|-|.|.+.+.|.+|+.+|
T Consensus 6 eavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt---ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT---SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC---cEEEEECCHHHHHHHHHcC
Confidence 589999985 57889999999999 246677888775 7889999999999999865
No 188
>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=96.53 E-value=0.038 Score=37.32 Aligned_cols=64 Identities=11% Similarity=0.053 Sum_probs=49.2
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhC-CceEEEEeeCCCC--cEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAG-DVCFAEVSRDSEG--TYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g-~v~~~~~~~~~~~--~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
..+.+...|+.++-++|..+.+.+- .|..+++.++... ..++++|.+.++|..-...+||+.+.
T Consensus 14 ~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 14 TLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred eEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 3444445555666677776767664 6778888887654 38999999999999999999999997
No 189
>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=96.50 E-value=0.022 Score=35.52 Aligned_cols=66 Identities=21% Similarity=0.377 Sum_probs=40.0
Q ss_pred EEEEcCCC--CCCCHHHHHHHHhhcC-----ceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 8 TIYVGNLP--SDIREYEVEDLFYKYG-----RILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 8 ~l~v~~lp--~~~t~~~l~~~f~~~G-----~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
++|| |+- ..++..+|..++...+ .|-.|.+. ..|+||+-... .|..++..|++..+.|++|.|+.+
T Consensus 2 rl~i-n~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~-----~~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 2 RLFI-NVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIF-----DNFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp EEEE-S-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE------SS-EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred EEEE-EcccccCCCHHHHHHHHHhccCCCHHhEEEEEEe-----eeEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence 4566 333 2488999999998775 55567776 46899999866 778899999999999999999864
No 190
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=96.50 E-value=0.0024 Score=52.93 Aligned_cols=76 Identities=13% Similarity=0.223 Sum_probs=62.6
Q ss_pred CCcEEEEcCCCCCC-CHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 5 FSRTIYVGNLPSDI-REYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 5 ~~~~l~v~~lp~~~-t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
..+.|-+..+|... |-++|...|.+||+|.+|++-+. .--|.|+|.+..+|-.|.. ..+..|+++.|+|.|..+.
T Consensus 371 dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~---~~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnps 446 (526)
T KOG2135|consen 371 DHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS---SLHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNPS 446 (526)
T ss_pred ccchhhhhccCCCCchHhhhhhhhhhcCccccccccCc---hhhheeeeeccccccchhc-cccceecCceeEEEEecCC
Confidence 44556666667664 56899999999999999999543 3458999999999988877 7899999999999998875
Q ss_pred C
Q 025499 84 S 84 (252)
Q Consensus 84 ~ 84 (252)
+
T Consensus 447 ~ 447 (526)
T KOG2135|consen 447 P 447 (526)
T ss_pred c
Confidence 4
No 191
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=96.47 E-value=0.012 Score=46.16 Aligned_cols=71 Identities=17% Similarity=0.252 Sum_probs=53.8
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCe-eEEEEecCCC
Q 025499 8 TIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGC-RLRVELAHGG 83 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~-~i~v~~~~~~ 83 (252)
=|-|-++|+..+ ..|..+|++||+|++...- ....+-+|.|.+.-+|++||. .+|+.|+|. -|=|..+..+
T Consensus 199 WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~---~ngNwMhirYssr~~A~KALs-kng~ii~g~vmiGVkpCtDk 270 (350)
T KOG4285|consen 199 WVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTP---SNGNWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKPCTDK 270 (350)
T ss_pred eEEEeccCccch-hHHHHHHHhhCeeeeeecC---CCCceEEEEecchhHHHHhhh-hcCeeeccceEEeeeecCCH
Confidence 355667777654 5678899999999886553 346799999999999999999 899999874 3445554433
No 192
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=96.39 E-value=0.0037 Score=49.52 Aligned_cols=19 Identities=21% Similarity=0.156 Sum_probs=10.8
Q ss_pred CeEEEEEECCHHHHHHHHH
Q 025499 45 PCYCFVEFENARDAEDAIR 63 (252)
Q Consensus 45 ~g~afV~f~~~~~a~~a~~ 63 (252)
+.-.||-|.-+.-|.+++.
T Consensus 173 RT~v~vry~pe~iACaciy 191 (367)
T KOG0835|consen 173 RTDVFVRYSPESIACACIY 191 (367)
T ss_pred ccceeeecCHHHHHHHHHH
Confidence 4456777765555554444
No 193
>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=96.34 E-value=0.032 Score=33.79 Aligned_cols=55 Identities=20% Similarity=0.367 Sum_probs=44.9
Q ss_pred CCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEE
Q 025499 17 DIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRV 77 (252)
Q Consensus 17 ~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v 77 (252)
.++-++|+..+..|+- ..|..-. .|| ||.|.+..+|+++....+|..+.+..|.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~I~~d~----tGf-YIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DRIRDDR----TGF-YIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-ceEEecC----CEE-EEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 4788999999999983 3444433 566 99999999999999999999998888765
No 194
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.31 E-value=0.0017 Score=51.60 Aligned_cols=77 Identities=30% Similarity=0.534 Sum_probs=60.0
Q ss_pred cEEEEcCCCCCCCHHHHH---HHHhhcCceeEEEEecCC------CCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEE
Q 025499 7 RTIYVGNLPSDIREYEVE---DLFYKYGRILDIELKIPP------RPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRV 77 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~---~~f~~~G~v~~v~~~~~~------~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v 77 (252)
+-+||-+|+.....+.+. +.|.+||.|..|.+..+. ....-++|+|...++|..||...+|+.++|+.|++
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka 157 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKA 157 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHH
Confidence 457888999887666654 488899999998884422 12234899999999999999999999999999877
Q ss_pred EecCCC
Q 025499 78 ELAHGG 83 (252)
Q Consensus 78 ~~~~~~ 83 (252)
.+...+
T Consensus 158 ~~gttk 163 (327)
T KOG2068|consen 158 SLGTTK 163 (327)
T ss_pred hhCCCc
Confidence 776543
No 195
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=96.29 E-value=0.007 Score=51.29 Aligned_cols=71 Identities=17% Similarity=0.263 Sum_probs=56.3
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhh--cCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCC--cccCCeeEEEEe
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYK--YGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDG--YNFDGCRLRVEL 79 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~--~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~--~~~~g~~i~v~~ 79 (252)
.-|.|.|.-||..+..|+++.||+. |-++.+|.+-.. -+ =||+|++..||+.|...|.. ..|.|++|...+
T Consensus 174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N---~n-WyITfesd~DAQqAykylreevk~fqgKpImARI 248 (684)
T KOG2591|consen 174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHN---DN-WYITFESDTDAQQAYKYLREEVKTFQGKPIMARI 248 (684)
T ss_pred ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeec---Cc-eEEEeecchhHHHHHHHHHHHHHhhcCcchhhhh
Confidence 4577899999999999999999975 789999998442 23 49999999999999987754 456676665443
No 196
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=96.25 E-value=0.0067 Score=50.40 Aligned_cols=72 Identities=15% Similarity=0.146 Sum_probs=55.3
Q ss_pred CCccEEEEeCCCCCC-CHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 122 HSEYRVIVRGLPSSA-SWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~-t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
...+.|-+...|... +-++|..+|.+||.|..|.+-... --|.|+|.+..+|-.|.. .++..|+ ++.|+|.-
T Consensus 370 ~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~--~~a~vTF~t~aeag~a~~-s~~avln----nr~iKl~w 442 (526)
T KOG2135|consen 370 VDHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS--LHAVVTFKTRAEAGEAYA-SHGAVLN----NRFIKLFW 442 (526)
T ss_pred cccchhhhhccCCCCchHhhhhhhhhhcCccccccccCch--hhheeeeeccccccchhc-cccceec----CceeEEEE
Confidence 334555566666655 678999999999999999887763 379999999999977665 7888888 77777643
No 197
>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=96.23 E-value=0.02 Score=42.49 Aligned_cols=62 Identities=27% Similarity=0.288 Sum_probs=45.7
Q ss_pred CHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcC--CcccCCeeEEEEecCCC
Q 025499 19 REYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRD--GYNFDGCRLRVELAHGG 83 (252)
Q Consensus 19 t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~--~~~~~g~~i~v~~~~~~ 83 (252)
..+.|+++|..|+.+..+.+... -+=..|.|.+.++|.+|...|+ +..+.|..|.|.++...
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s---FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~ 71 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS---FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT 71 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT---TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred hHHHHHHHHHhcCCceEEEEcCC---CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence 45789999999998888877532 3447999999999999999999 89999999999998544
No 198
>PF06495 Transformer: Fruit fly transformer protein; InterPro: IPR010519 This family consists of transformer proteins from several Drosophila species and also from Ceratitis capitata (Mediterranean fruit fly). The transformer locus (tra) produces an RNA processing protein that alternatively splices the doublesex pre-mRNA in the sex determination hierarchy of Drosophila melanogaster [].; GO: 0006397 mRNA processing, 0046660 female sex differentiation, 0005634 nucleus
Probab=96.19 E-value=0.004 Score=44.55 Aligned_cols=6 Identities=33% Similarity=0.202 Sum_probs=2.3
Q ss_pred CCCCCC
Q 025499 244 SASPVK 249 (252)
Q Consensus 244 s~s~~~ 249 (252)
|+|+.+
T Consensus 102 SRS~~R 107 (182)
T PF06495_consen 102 SRSRHR 107 (182)
T ss_pred ccCccc
Confidence 334333
No 199
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.19 E-value=0.00055 Score=55.78 Aligned_cols=78 Identities=19% Similarity=0.309 Sum_probs=66.1
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
++.+.|.|+|+...++.|-.|+..||.|++|....+..-.-..-|+|...+.+.-|+..|+|..+....++|.|-...
T Consensus 80 srk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiPde 157 (584)
T KOG2193|consen 80 SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIPDE 157 (584)
T ss_pred hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCchh
Confidence 567889999999999999999999999999987554433344557899999999999999999999999999886544
No 200
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=96.14 E-value=0.032 Score=47.46 Aligned_cols=56 Identities=18% Similarity=0.275 Sum_probs=48.4
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHH--hCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHh
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRK--AGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKL 182 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~--~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l 182 (252)
.|.|+|..||..+..|+++.+|.. +-+++.|.+..+. -=||+|++..||+.|.+.|
T Consensus 175 RcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~---nWyITfesd~DAQqAykyl 232 (684)
T KOG2591|consen 175 RCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND---NWYITFESDTDAQQAYKYL 232 (684)
T ss_pred eeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC---ceEEEeecchhHHHHHHHH
Confidence 488999999999999999999976 5688888887765 4689999999999998754
No 201
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=96.09 E-value=0.035 Score=46.04 Aligned_cols=65 Identities=11% Similarity=0.171 Sum_probs=59.1
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHHhC-CceEEEEeeCCCC--cEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRKAG-DVCFAEVSRDSEG--TYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~~g-~v~~~~~~~~~~~--~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
+..|+|-.+|..++-.||..++..+- .|..+.++++... ..++|+|.+.++|......+||+.|.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn 141 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFN 141 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCC
Confidence 67999999999999999999999886 6888999987655 38999999999999999999999998
No 202
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=95.97 E-value=0.035 Score=46.07 Aligned_cols=68 Identities=16% Similarity=0.280 Sum_probs=58.8
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcC-ceeEEEEecCCCC-CeEEEEEECCHHHHHHHHHhcCCcccCC
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYG-RILDIELKIPPRP-PCYCFVEFENARDAEDAIRGRDGYNFDG 72 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G-~v~~v~~~~~~~~-~g~afV~f~~~~~a~~a~~~l~~~~~~g 72 (252)
+++.|.|=.+|..+|-.||..+...+- .|.+|.+..++.+ +=.+.|.|.+.++|..+.+.+||..|+.
T Consensus 73 ~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 73 SSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 378899999999999999999988765 7888999887644 4468999999999999999999988853
No 203
>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=95.80 E-value=0.03 Score=35.32 Aligned_cols=56 Identities=18% Similarity=0.203 Sum_probs=41.3
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcC
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDD 184 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g 184 (252)
..+|--..|..+...||.++|+.||.|.- ..+.+ ..|||.....+.|..|+..+.-
T Consensus 9 dHVFhltFPkeWK~~DI~qlFspfG~I~V-sWi~d---TSAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 9 DHVFHLTFPKEWKTSDIYQLFSPFGQIYV-SWIND---TSAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp CCEEEEE--TT--HHHHHHHCCCCCCEEE-EEECT---TEEEEEECCCHHHHHHHHHHTT
T ss_pred ceEEEEeCchHhhhhhHHHHhccCCcEEE-EEEcC---CcEEEEeecHHHHHHHHHHhcc
Confidence 34444459999999999999999998764 44444 3899999999999999988754
No 204
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=95.69 E-value=0.016 Score=46.07 Aligned_cols=12 Identities=0% Similarity=0.125 Sum_probs=7.4
Q ss_pred CCCHHHHHHHHH
Q 025499 135 SASWQDLKDHMR 146 (252)
Q Consensus 135 ~~t~~~l~~~f~ 146 (252)
.+++++|.+++-
T Consensus 212 d~~k~eid~ic~ 223 (367)
T KOG0835|consen 212 DTTKREIDEICY 223 (367)
T ss_pred CCcHHHHHHHHH
Confidence 566677666654
No 205
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=95.21 E-value=0.049 Score=38.02 Aligned_cols=59 Identities=12% Similarity=0.162 Sum_probs=46.2
Q ss_pred cEEEEeCCCCCC----CHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCcc
Q 025499 125 YRVIVRGLPSSA----SWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTE 186 (252)
Q Consensus 125 ~~l~v~nl~~~~----t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~ 186 (252)
.+|.|.-|..++ +...+.+.++.||.|..|.+.... .|.|.|.+..+|..|+.+++...
T Consensus 87 sTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGrq---savVvF~d~~SAC~Av~Af~s~~ 149 (166)
T PF15023_consen 87 STIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGRQ---SAVVVFKDITSACKAVSAFQSRA 149 (166)
T ss_pred eeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecCCc---eEEEEehhhHHHHHHHHhhcCCC
Confidence 577777665554 334456677889999999887664 89999999999999999987743
No 206
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=95.18 E-value=0.045 Score=43.90 Aligned_cols=66 Identities=14% Similarity=0.179 Sum_probs=55.7
Q ss_pred CccEEEEeCCCCCCCHHHHHHHHHHhC--CceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 123 SEYRVIVRGLPSSASWQDLKDHMRKAG--DVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 123 ~~~~l~v~nl~~~~t~~~l~~~f~~~g--~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
...++||+||-+.+|++||.+.....| .+..++++.+..+ |||+|-..+.....+.++.|-.+.|.
T Consensus 79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iH 150 (498)
T KOG4849|consen 79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIH 150 (498)
T ss_pred ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceec
Confidence 346899999999999999999998877 5666777665433 69999999999999999998888887
No 207
>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=94.55 E-value=0.041 Score=40.70 Aligned_cols=79 Identities=15% Similarity=0.247 Sum_probs=50.6
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHH-hCCc---eEEEEeeCCCC------cEEEEEcCChhHHHHHHHHhcCccccCCC-C
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRK-AGDV---CFAEVSRDSEG------TYGVVDYTNPEDMKYAIRKLDDTEFRNPW-A 192 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~-~g~v---~~~~~~~~~~~------~~afv~f~~~~~a~~a~~~l~g~~~~~~~-~ 192 (252)
...|.|.+||+.+|++++.+.++. ++.. .++........ .-|+|.|.+.+++..-...++|..+-... .
T Consensus 7 ~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg~ 86 (176)
T PF03467_consen 7 GTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSKGN 86 (176)
T ss_dssp --EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TTS-
T ss_pred CceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCCCC
Confidence 468999999999999999987776 5544 23332222111 38999999999999999999998886322 2
Q ss_pred CceeEeeecC
Q 025499 193 RGRITVKRYD 202 (252)
Q Consensus 193 g~~i~v~~~~ 202 (252)
...-.|..+.
T Consensus 87 ~~~~~VE~Ap 96 (176)
T PF03467_consen 87 EYPAVVEFAP 96 (176)
T ss_dssp EEEEEEEE-S
T ss_pred CcceeEEEcc
Confidence 2333455555
No 208
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=94.31 E-value=0.034 Score=49.67 Aligned_cols=72 Identities=18% Similarity=0.185 Sum_probs=59.3
Q ss_pred EEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCccc--CCeeEEEEecCCCC
Q 025499 10 YVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNF--DGCRLRVELAHGGS 84 (252)
Q Consensus 10 ~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~--~g~~i~v~~~~~~~ 84 (252)
++-|.+-..+-.-|..+|..||.|.+++...+ -..|.|+|...+.|-.|++.|+|..+ .|-+.+|.+++.-+
T Consensus 302 ~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~---~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~ 375 (1007)
T KOG4574|consen 302 SLENNAVNLTSSSLATLCSDYGSVASAWTLRD---LNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLP 375 (1007)
T ss_pred hhhcccccchHHHHHHHHHhhcchhhheeccc---ccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccccc
Confidence 33444556777889999999999999998654 45799999999999999999999775 68889999987653
No 209
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=94.08 E-value=0.044 Score=49.01 Aligned_cols=73 Identities=16% Similarity=0.125 Sum_probs=59.7
Q ss_pred EEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 126 RVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 126 ~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
+..+.|.+-..+-..|..+|..||.|.......+- +.|.|+|.+.+.|..|+++|+|+++-.. |...+|.+++
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 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL--NMALVSFSSVESAILALDALQGKEVSVT--GAPSRVSFAK 372 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhheecccc--cchhhhhHHHHHHHHhhhhhcCCccccc--CCceeEEecc
Confidence 34444556667778899999999999999887665 5899999999999999999999998732 6667787777
No 210
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=93.89 E-value=0.27 Score=36.55 Aligned_cols=60 Identities=17% Similarity=0.114 Sum_probs=44.7
Q ss_pred CHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhc--CccccCCCCCceeEeeecC
Q 025499 137 SWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLD--DTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 137 t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~--g~~~~~~~~g~~i~v~~~~ 202 (252)
..+.|+++|..++.+..+.....- +-..|.|.+.++|..|...|+ +..+. |..+++.++.
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sF--rRi~v~f~~~~~A~~~r~~l~~~~~~~~----g~~l~~yf~~ 69 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSF--RRIRVVFESPESAQRARQLLHWDGTSFN----GKRLRVYFGQ 69 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTT--TEEEEE-SSTTHHHHHHHTST--TSEET----TEE-EEE---
T ss_pred hHHHHHHHHHhcCCceEEEEcCCC--CEEEEEeCCHHHHHHHHHHhcccccccC----CCceEEEEcc
Confidence 457899999999988877666543 578999999999999999999 88888 8888887774
No 211
>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=93.89 E-value=0.15 Score=32.78 Aligned_cols=71 Identities=21% Similarity=0.365 Sum_probs=45.3
Q ss_pred EEEEECCHHHHHHHHHhcCC--cccCCeeEEEEecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcc
Q 025499 48 CFVEFENARDAEDAIRGRDG--YNFDGCRLRVELAHGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEY 125 (252)
Q Consensus 48 afV~f~~~~~a~~a~~~l~~--~~~~g~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 125 (252)
|+|+|.++.-|+..+. +.. ..+++..+.|....-....... ..........
T Consensus 1 AlITF~e~~VA~~i~~-~~~~~v~l~~~~~~V~v~P~~~~~~~k--------------------------~qv~~~vs~r 53 (88)
T PF07292_consen 1 ALITFEEEGVAQRILK-KKKHPVPLEDCCVRVKVSPVTLGHLQK--------------------------FQVFSGVSKR 53 (88)
T ss_pred CEEEeCcHHHHHHHHh-CCEEEEEECCEEEEEEEEeEecCCceE--------------------------EEEEEcccCC
Confidence 6899999999999987 433 3346666666654322110000 0011123446
Q ss_pred EEEEeCCCCCCCHHHHHHHH
Q 025499 126 RVIVRGLPSSASWQDLKDHM 145 (252)
Q Consensus 126 ~l~v~nl~~~~t~~~l~~~f 145 (252)
+|.|.|||...++++|++..
T Consensus 54 tVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 54 TVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred EEEEeCCCCCCChhhheeeE
Confidence 99999999999999988654
No 212
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.37 E-value=0.6 Score=40.37 Aligned_cols=78 Identities=22% Similarity=0.385 Sum_probs=61.5
Q ss_pred CCCCcEEEEcCCCCC-CCHHHHHHHHhhc----CceeEEEEecC-------------CC---------------------
Q 025499 3 GRFSRTIYVGNLPSD-IREYEVEDLFYKY----GRILDIELKIP-------------PR--------------------- 43 (252)
Q Consensus 3 ~~~~~~l~v~~lp~~-~t~~~l~~~f~~~----G~v~~v~~~~~-------------~~--------------------- 43 (252)
+.+++.|-|.||.++ +...||.-+|+.| |.|++|.|+.+ |.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 467899999999997 8899999999866 58999988432 11
Q ss_pred ----------------CCeEEEEEECCHHHHHHHHHhcCCcccCC--eeEEEEec
Q 025499 44 ----------------PPCYCFVEFENARDAEDAIRGRDGYNFDG--CRLRVELA 80 (252)
Q Consensus 44 ----------------~~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~i~v~~~ 80 (252)
..=||.|+|.+.+.|.+.+..|+|..|.. ..|-+.|-
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRFI 305 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRFI 305 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeeec
Confidence 01279999999999999999999999854 45555554
No 213
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=93.35 E-value=0.031 Score=49.87 Aligned_cols=31 Identities=35% Similarity=0.404 Sum_probs=15.7
Q ss_pred CCCCCCCCCC--cCCCCCCCCCCCCCCCCCCCC
Q 025499 222 IVRRNRSKSL--ERSVSRSVSRSMSASPVKSSR 252 (252)
Q Consensus 222 ~r~r~rsrs~--~r~rsr~~~rsrs~s~~~~~r 252 (252)
-+.|+|.||+ .|+|.|+++|-|.++|+|+.|
T Consensus 330 er~r~RERspqr~rsr~rs~rRErer~prRr~R 362 (1194)
T KOG4246|consen 330 ERERDRERSPQRERSRQRSRRRERERIPRRRER 362 (1194)
T ss_pred hhhhhhhcccccccccccccchhhhcchHhhhh
Confidence 3334444454 344445555666666666543
No 214
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=93.28 E-value=0.23 Score=43.44 Aligned_cols=66 Identities=17% Similarity=0.080 Sum_probs=57.5
Q ss_pred CCCCCCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 118 GISRHSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 118 ~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
..+.++..++||+|+-+.+.++-++.+...+|.|..+.... |+|.+|..+.-+..|+..++-..++
T Consensus 34 ~~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~-----fgf~~f~~~~~~~ra~r~~t~~~~~ 99 (668)
T KOG2253|consen 34 FQPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK-----FGFCEFLKHIGDLRASRLLTELNID 99 (668)
T ss_pred ccCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh-----hcccchhhHHHHHHHHHHhcccCCC
Confidence 34445667999999999999999999999999988876554 9999999999999999998888876
No 215
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=92.55 E-value=0.29 Score=38.72 Aligned_cols=59 Identities=19% Similarity=0.280 Sum_probs=46.1
Q ss_pred EEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 126 RVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 126 ~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
=|.|.++|..- -.-|..+|.+||.|+..... ..+++-+|.|.+.-+|.+||. .+|+.|+
T Consensus 199 WVTVfGFppg~-~s~vL~~F~~cG~Vvkhv~~--~ngNwMhirYssr~~A~KALs-kng~ii~ 257 (350)
T KOG4285|consen 199 WVTVFGFPPGQ-VSIVLNLFSRCGEVVKHVTP--SNGNWMHIRYSSRTHAQKALS-KNGTIID 257 (350)
T ss_pred eEEEeccCccc-hhHHHHHHHhhCeeeeeecC--CCCceEEEEecchhHHHHhhh-hcCeeec
Confidence 45555665543 34577899999999887655 444699999999999999998 7888887
No 216
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=91.81 E-value=0.075 Score=42.57 Aligned_cols=70 Identities=17% Similarity=0.191 Sum_probs=54.4
Q ss_pred cEEEEeCCCCCCCHHHH---HHHHHHhCCceEEEEeeCCC----C---cEEEEEcCChhHHHHHHHHhcCccccCCCCCc
Q 025499 125 YRVIVRGLPSSASWQDL---KDHMRKAGDVCFAEVSRDSE----G---TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARG 194 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l---~~~f~~~g~v~~~~~~~~~~----~---~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~ 194 (252)
.-+||.+|+..+..+.+ .+.|.+||.|..|.+..+.. . --++|+|...++|..||...+|..+. ++
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~d----g~ 153 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDD----GR 153 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhh----hh
Confidence 46777888877755544 36788899999998888662 1 27999999999999999999999888 55
Q ss_pred eeEe
Q 025499 195 RITV 198 (252)
Q Consensus 195 ~i~v 198 (252)
.++.
T Consensus 154 ~lka 157 (327)
T KOG2068|consen 154 ALKA 157 (327)
T ss_pred hhHH
Confidence 5443
No 217
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=91.71 E-value=0.19 Score=36.11 Aligned_cols=120 Identities=18% Similarity=0.146 Sum_probs=76.8
Q ss_pred EEEcCCC--CCCCHHHHHHHHhh-cCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCCCC
Q 025499 9 IYVGNLP--SDIREYEVEDLFYK-YGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGGSG 85 (252)
Q Consensus 9 l~v~~lp--~~~t~~~l~~~f~~-~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~~~ 85 (252)
..|+.+. ...+-..|.+.+.. .+....+.+..-+ .++..++|.+.+++.+++. .....++|..+.++...+...
T Consensus 18 ~lVg~~l~~~~~~~~~l~~~l~~~W~~~~~~~i~~l~--~~~fl~~F~~~~d~~~vl~-~~p~~~~~~~~~l~~W~~~~~ 94 (153)
T PF14111_consen 18 CLVGRVLSPKPISLSALEQELAKIWKLKGGVKIRDLG--DNLFLFQFESEEDRQRVLK-GGPWNFNGHFLILQRWSPDFN 94 (153)
T ss_pred EEEEEECCCCCCCHHHHHHHHHHHhCCCCcEEEEEeC--CCeEEEEEEeccceeEEEe-cccccccccchhhhhhccccc
Confidence 4444442 33566666666654 3433344443211 5788999999999999988 555777888888776654311
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCC-CCHHHHHHHHHHhCCceEEEEeeCC
Q 025499 86 RGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSS-ASWQDLKDHMRKAGDVCFAEVSRDS 160 (252)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~-~t~~~l~~~f~~~g~v~~~~~~~~~ 160 (252)
... ........=|.|.|||.. .+++-+..+.+.+|.+..+......
T Consensus 95 ~~~-----------------------------~~~~~~~vWVri~glP~~~~~~~~~~~i~~~iG~~i~vD~~t~~ 141 (153)
T PF14111_consen 95 PSE-----------------------------VKFEHIPVWVRIYGLPLHLWSEEILKAIGSKIGEPIEVDENTLK 141 (153)
T ss_pred ccc-----------------------------cceeccchhhhhccCCHHHhhhHHHHHHHHhcCCeEEEEcCCCC
Confidence 000 000011234667899986 4888899999999999998776654
No 218
>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=91.14 E-value=0.51 Score=37.27 Aligned_cols=168 Identities=13% Similarity=0.135 Sum_probs=96.5
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCC----------CCCeEEEEEECCHHHHHHHH----HhcCC--cc
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPP----------RPPCYCFVEFENARDAEDAI----RGRDG--YN 69 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~----------~~~g~afV~f~~~~~a~~a~----~~l~~--~~ 69 (252)
++.|.+.||..+++-..+...|-+||+|++|++.... .....+.+.|-+.+.|-... +.|+. ..
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 5678899999999999999999999999999995532 34577899999998887755 23332 33
Q ss_pred cCCeeEEEEecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHH-HHHHHH--
Q 025499 70 FDGCRLRVELAHGGSGRGPSSSDRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQD-LKDHMR-- 146 (252)
Q Consensus 70 ~~g~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~-l~~~f~-- 146 (252)
+....|.+.+..-.-............+.. .....-..........+.|.|. +...+..++ +.+.+.
T Consensus 95 L~S~~L~lsFV~l~y~~~~~~~~~~~~~~~---------~~~~~L~~~i~~~gATRSl~Ie-F~~~~~~~dl~~~kL~fL 164 (309)
T PF10567_consen 95 LKSESLTLSFVSLNYQKKTDPNDEEADFSD---------YLVASLQYNIINRGATRSLAIE-FKDPVDKDDLIEKKLPFL 164 (309)
T ss_pred cCCcceeEEEEEEeccccccccccccchhh---------HHhhhhhheeecCCcceEEEEE-ecCccchhHHHHHhhhhh
Confidence 566777777764210000000000000000 0000000011112223466665 334443333 333321
Q ss_pred -HhC----CceEEEEeeCCCC------cEEEEEcCChhHHHHHHHHhc
Q 025499 147 -KAG----DVCFAEVSRDSEG------TYGVVDYTNPEDMKYAIRKLD 183 (252)
Q Consensus 147 -~~g----~v~~~~~~~~~~~------~~afv~f~~~~~a~~a~~~l~ 183 (252)
.-+ .++.|.++..... .||.+.|-+..-|...++-+.
T Consensus 165 ~~~~n~RYVlEsIDlVna~~~~~~Fp~~YaILtFlnIsMAiEV~dYlk 212 (309)
T PF10567_consen 165 KNSNNKRYVLESIDLVNADEPSKHFPKNYAILTFLNISMAIEVLDYLK 212 (309)
T ss_pred ccCCCceEEEEEEEEeccCcccccCCcceEEEeehhHHhHHHHHHHHH
Confidence 112 2556666654322 499999999999999888665
No 219
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=90.17 E-value=0.12 Score=41.24 Aligned_cols=22 Identities=55% Similarity=0.511 Sum_probs=9.5
Q ss_pred CCCCcCCCCCCCCCCCCCCCCC
Q 025499 228 SKSLERSVSRSVSRSMSASPVK 249 (252)
Q Consensus 228 srs~~r~rsr~~~rsrs~s~~~ 249 (252)
++|++|+++|++++++.+|+.+
T Consensus 380 srSRSR~~sRSrsrsre~s~kh 401 (453)
T KOG2888|consen 380 SRSRSRSRSRSRSRSREPSPKH 401 (453)
T ss_pred hhhhhcccccccccccCCCccc
Confidence 3333333444444444444443
No 220
>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=89.57 E-value=1.7 Score=27.02 Aligned_cols=59 Identities=8% Similarity=0.216 Sum_probs=34.7
Q ss_pred CCCCHHHHHHHHHHhCC-----ceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeec
Q 025499 134 SSASWQDLKDHMRKAGD-----VCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRY 201 (252)
Q Consensus 134 ~~~t~~~l~~~f~~~g~-----v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~ 201 (252)
..++..+|..++...+. |-.+.+... |+||+.... .|..++..|++..+. |+.+.++.+
T Consensus 11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~----~S~vev~~~-~a~~v~~~l~~~~~~----gk~v~ve~A 74 (74)
T PF03880_consen 11 DGLTPRDIVGAICNEAGIPGRDIGRIDIFDN----FSFVEVPEE-VAEKVLEALNGKKIK----GKKVRVERA 74 (74)
T ss_dssp GT--HHHHHHHHHTCTTB-GGGEEEEEE-SS-----EEEEE-TT--HHHHHHHHTT--SS----S----EEE-
T ss_pred cCCCHHHHHHHHHhccCCCHHhEEEEEEeee----EEEEEECHH-HHHHHHHHhcCCCCC----CeeEEEEEC
Confidence 46678888888877654 444565553 899988764 788899999999999 999988753
No 221
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=89.18 E-value=0.16 Score=39.63 Aligned_cols=66 Identities=17% Similarity=0.342 Sum_probs=44.9
Q ss_pred CCcEEEEcCCCCC------------CCHHHHHHHHhhcCceeEEEE-ec-------CCCC-----CeE---------EEE
Q 025499 5 FSRTIYVGNLPSD------------IREYEVEDLFYKYGRILDIEL-KI-------PPRP-----PCY---------CFV 50 (252)
Q Consensus 5 ~~~~l~v~~lp~~------------~t~~~l~~~f~~~G~v~~v~~-~~-------~~~~-----~g~---------afV 50 (252)
-..|||+.+||.. -+++-|+..|+.||.|..|.+ +. +++. .|| |||
T Consensus 148 rpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeayv 227 (445)
T KOG2891|consen 148 RPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAYV 227 (445)
T ss_pred CCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHHH
Confidence 3457999999865 257789999999999999988 22 2222 333 345
Q ss_pred EECCHHHHHHHHHhcCCccc
Q 025499 51 EFENARDAEDAIRGRDGYNF 70 (252)
Q Consensus 51 ~f~~~~~a~~a~~~l~~~~~ 70 (252)
+|..--.-..|+..|-|+.+
T Consensus 228 qfmeykgfa~amdalr~~k~ 247 (445)
T KOG2891|consen 228 QFMEYKGFAQAMDALRGMKL 247 (445)
T ss_pred HHHHHHhHHHHHHHHhcchH
Confidence 66555555667777777554
No 222
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=88.68 E-value=2.3 Score=27.16 Aligned_cols=57 Identities=11% Similarity=0.166 Sum_probs=43.1
Q ss_pred EEEcCCCCCCCHHHHHHHHhh-cC-ceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhc
Q 025499 9 IYVGNLPSDIREYEVEDLFYK-YG-RILDIELKIPPRPPCYCFVEFENARDAEDAIRGR 65 (252)
Q Consensus 9 l~v~~lp~~~t~~~l~~~f~~-~G-~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l 65 (252)
-|.-.+.+.++..+|.+.++. || .|..|..........-|||++...++|......+
T Consensus 23 ~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~~~~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 23 KLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPKGEKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCcEEEEEEeCCCCcHHHHHHhh
Confidence 445568899999999999988 66 7888877554334456999999988888765543
No 223
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=88.18 E-value=0.21 Score=39.97 Aligned_cols=8 Identities=13% Similarity=0.252 Sum_probs=3.0
Q ss_pred HHHHHHhh
Q 025499 22 EVEDLFYK 29 (252)
Q Consensus 22 ~l~~~f~~ 29 (252)
+|+..|+.
T Consensus 173 dLw~WyEp 180 (453)
T KOG2888|consen 173 DLWDWYEP 180 (453)
T ss_pred HHHHHhhh
Confidence 33333333
No 224
>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=88.04 E-value=2.9 Score=26.20 Aligned_cols=58 Identities=12% Similarity=0.160 Sum_probs=42.6
Q ss_pred EEEEcCCCCCCCHHHHHHHHhh-cC-ceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhc
Q 025499 8 TIYVGNLPSDIREYEVEDLFYK-YG-RILDIELKIPPRPPCYCFVEFENARDAEDAIRGR 65 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~-~G-~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l 65 (252)
.-|+-.+++.++..+|.+.++. || .|..|..........-|||++...+.|...-..+
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~~~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPRGEKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCceEEEEEECCCCcHHHHHHhh
Confidence 3455678999999999999987 56 7777777543333456999999888877755433
No 225
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=87.66 E-value=3.8 Score=36.04 Aligned_cols=40 Identities=23% Similarity=0.314 Sum_probs=25.2
Q ss_pred CCCccEEEEeCCCCC-CCHHHHHHHHHHhCCceEEEEeeCC
Q 025499 121 RHSEYRVIVRGLPSS-ASWQDLKDHMRKAGDVCFAEVSRDS 160 (252)
Q Consensus 121 ~~~~~~l~v~nl~~~-~t~~~l~~~f~~~g~v~~~~~~~~~ 160 (252)
......+.|.+.+.. ++..--.+.+.++|++-.|.+....
T Consensus 58 QenDrvvMVNGvsMenv~haFAvQqLrksgK~A~ItvkRpr 98 (1027)
T KOG3580|consen 58 QENDRVVMVNGVSMENVLHAFAVQQLRKSGKVAAITVKRPR 98 (1027)
T ss_pred ccCCeEEEEcCcchhhhHHHHHHHHHHhhccceeEEecccc
Confidence 344567777776642 3333344666789998888776654
No 226
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=84.87 E-value=0.51 Score=42.60 Aligned_cols=12 Identities=8% Similarity=0.274 Sum_probs=5.4
Q ss_pred eEEEEEECCHHH
Q 025499 46 CYCFVEFENARD 57 (252)
Q Consensus 46 g~afV~f~~~~~ 57 (252)
.|+.+.....+.
T Consensus 60 ~y~~t~~~~~qq 71 (1194)
T KOG4246|consen 60 VYGSTSLSSSQQ 71 (1194)
T ss_pred cccccchhhhhh
Confidence 344455444333
No 227
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=83.76 E-value=1.4 Score=32.38 Aligned_cols=75 Identities=20% Similarity=0.261 Sum_probs=55.0
Q ss_pred CcEEEEcCCCCCC--C---HHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCe-eEEEEe
Q 025499 6 SRTIYVGNLPSDI--R---EYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGC-RLRVEL 79 (252)
Q Consensus 6 ~~~l~v~~lp~~~--t---~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~-~i~v~~ 79 (252)
-+++.+.+|+..+ + .....++|.+|-+..-.++.. +.+..-|.|.+++.|..|.-.+++..|.|. .++..+
T Consensus 10 p~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lr---sfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yf 86 (193)
T KOG4019|consen 10 PTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLR---SFRRVRINFSNPEAAADARIKLHSTSFNGKNELKLYF 86 (193)
T ss_pred cceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHH---hhceeEEeccChhHHHHHHHHhhhcccCCCceEEEEE
Confidence 4567778887763 2 233456777776665555543 256678999999999999999999999988 888888
Q ss_pred cCCC
Q 025499 80 AHGG 83 (252)
Q Consensus 80 ~~~~ 83 (252)
++..
T Consensus 87 aQ~~ 90 (193)
T KOG4019|consen 87 AQPG 90 (193)
T ss_pred ccCC
Confidence 7754
No 228
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.80 E-value=4.3 Score=33.68 Aligned_cols=62 Identities=13% Similarity=0.228 Sum_probs=47.4
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCce-eEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCccc
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRI-LDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNF 70 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v-~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~ 70 (252)
+--++|-|-++|...-.+||...|+.|+.- -+|+++. ...||-.|.+...|..||. |...++
T Consensus 389 dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvD----dthalaVFss~~~AaeaLt-~kh~~l 451 (528)
T KOG4483|consen 389 DLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVD----DTHALAVFSSVNRAAEALT-LKHDWL 451 (528)
T ss_pred cccceeEeccCchhhccHHHHHHHHHhhcCCceeEEee----cceeEEeecchHHHHHHhh-ccCceE
Confidence 456789999999999889999999999832 2344433 3469999999999999999 543333
No 229
>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=81.37 E-value=9.3 Score=24.79 Aligned_cols=46 Identities=9% Similarity=-0.020 Sum_probs=37.8
Q ss_pred HHHHHHHHHHhC-CceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhc
Q 025499 138 WQDLKDHMRKAG-DVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLD 183 (252)
Q Consensus 138 ~~~l~~~f~~~g-~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~ 183 (252)
.+.++++++..| +++.+.+...+......+++.+.+.|.++...+.
T Consensus 22 ~~a~~~~~e~~Gg~l~~~y~t~G~yD~v~i~eaPD~~~a~~~~l~i~ 68 (91)
T PF08734_consen 22 AEAVRALIEALGGKLKSFYWTLGEYDFVVIVEAPDDETAAAASLAIR 68 (91)
T ss_pred HHHHHHHHHHcCCEEEEEEEecCCCCEEEEEEcCCHHHHHHHHHHHH
Confidence 456788888886 8999999988887899999999998888775543
No 230
>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=81.02 E-value=1.9 Score=29.46 Aligned_cols=55 Identities=18% Similarity=0.273 Sum_probs=28.7
Q ss_pred EEEcCCCCC---------CCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCH-HHHHHHHH
Q 025499 9 IYVGNLPSD---------IREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENA-RDAEDAIR 63 (252)
Q Consensus 9 l~v~~lp~~---------~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~-~~a~~a~~ 63 (252)
+.|-|+|.. ++.++|.+.|..|.+++-.-+.-.....|+++|+|... ..-..|+.
T Consensus 11 gIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~kv~~l~~~~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 11 GIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLKVKPLYGKQGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp EEEE----EE-TTS-EE---SHHHHHHHHH---SEEEEEEETTEEEEEEEEE--SSHHHHHHHHH
T ss_pred EEEEcCccccCCCCceeccCHHHHHHHHHhcCCceeEECcCCCCCcEEEEEEECCChHHHHHHHH
Confidence 455577543 35688999999999886444443445679999999754 44444554
No 231
>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=80.25 E-value=3.9 Score=33.49 Aligned_cols=33 Identities=24% Similarity=0.202 Sum_probs=23.2
Q ss_pred EEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 48 CFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 48 afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
|||+|++..+|..|++.+.... ...+.+..+.+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APe 33 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPE 33 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCC
Confidence 7999999999999999554332 24446555543
No 232
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=79.78 E-value=2.6 Score=30.88 Aligned_cols=46 Identities=15% Similarity=0.101 Sum_probs=32.2
Q ss_pred CCHHHHHHHHhhc-CceeEEEEecC--C--CCCeEEEEEECCHHHHHHHHH
Q 025499 18 IREYEVEDLFYKY-GRILDIELKIP--P--RPPCYCFVEFENARDAEDAIR 63 (252)
Q Consensus 18 ~t~~~l~~~f~~~-G~v~~v~~~~~--~--~~~g~afV~f~~~~~a~~a~~ 63 (252)
.|++.|..+..-. |.+.+|.+... + ..+|-.||+|.+.++|.+.++
T Consensus 118 ~td~ql~~l~qw~~~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~ 168 (205)
T KOG4213|consen 118 ITDDQLDDLNQWASGKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDD 168 (205)
T ss_pred CCHHHHHHHHHHhcccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhh
Confidence 4444444443322 69999988442 2 457889999999999999887
No 233
>PF14893 PNMA: PNMA
Probab=78.44 E-value=3.1 Score=34.11 Aligned_cols=55 Identities=20% Similarity=0.256 Sum_probs=36.0
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhh-cCceeEEEE---ec-CCCCCeEEEEEECCH
Q 025499 1 MSGRFSRTIYVGNLPSDIREYEVEDLFYK-YGRILDIEL---KI-PPRPPCYCFVEFENA 55 (252)
Q Consensus 1 m~~~~~~~l~v~~lp~~~t~~~l~~~f~~-~G~v~~v~~---~~-~~~~~g~afV~f~~~ 55 (252)
|.-++.+.|.|.+||.++++++|.+.+.. .-+.-...+ ++ ......-|+|+|...
T Consensus 13 m~~~~~r~lLv~giP~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~~~~~~aalve~~e~ 72 (331)
T PF14893_consen 13 MGVDPQRALLVLGIPEDCEEAEIEEALQAALSPLGRYRVLGKMFRREENAKAALVEFAED 72 (331)
T ss_pred cCcChhhhheeecCCCCCCHHHHHHHHHHhhcccccceehhhHhhhhcccceeeeecccc
Confidence 45578899999999999999999887754 212222222 11 122245689999854
No 234
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=78.41 E-value=18 Score=31.87 Aligned_cols=78 Identities=17% Similarity=0.196 Sum_probs=58.9
Q ss_pred CCCccEEEEeCCCCC-CCHHHHHHHHHHh----CCceEEEEeeCCC------------C---------------------
Q 025499 121 RHSEYRVIVRGLPSS-ASWQDLKDHMRKA----GDVCFAEVSRDSE------------G--------------------- 162 (252)
Q Consensus 121 ~~~~~~l~v~nl~~~-~t~~~l~~~f~~~----g~v~~~~~~~~~~------------~--------------------- 162 (252)
......|-|-|+.+. +...+|.-+|+.| |.|..|.|+.... +
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 344578999999985 4778999999876 4788888764310 0
Q ss_pred ------------------cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeee
Q 025499 163 ------------------TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKR 200 (252)
Q Consensus 163 ------------------~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~ 200 (252)
.||.|+|.+++.|......++|.++... +..+-+++
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS--~~~~DLRF 304 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESS--ANKLDLRF 304 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccc--cceeeeee
Confidence 2999999999999999999999999843 44444443
No 235
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=77.68 E-value=5.8 Score=31.40 Aligned_cols=47 Identities=28% Similarity=0.352 Sum_probs=35.8
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCc-eeEEEEecCCCCCeEEEEEECCH
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGR-ILDIELKIPPRPPCYCFVEFENA 55 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~-v~~v~~~~~~~~~g~afV~f~~~ 55 (252)
.+-|+++|||.++.-.||...+.+.|. -.++.++ ...+-||+.|.+.
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk---g~~~k~flh~~~~ 377 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK---GHFGKCFLHFGNR 377 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCceeEeee---cCCcceeEecCCc
Confidence 355999999999999999999998873 3444443 2356799999764
No 236
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=77.65 E-value=2.6 Score=34.78 Aligned_cols=67 Identities=19% Similarity=0.322 Sum_probs=49.9
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEE-EEecC-----CCCCeEEEEEECCHHHHHHHHHhcCCccc
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDI-ELKIP-----PRPPCYCFVEFENARDAEDAIRGRDGYNF 70 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v-~~~~~-----~~~~g~afV~f~~~~~a~~a~~~l~~~~~ 70 (252)
..-..|.|..||+..|+.+|.+-+..|-.-... .+... ....+.|||.|..+++.......++|+.+
T Consensus 5 ~~~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~if 77 (376)
T KOG1295|consen 5 EAKVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIF 77 (376)
T ss_pred ccceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEE
Confidence 345678999999999999999998887633232 22211 22357799999999999888888888665
No 237
>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=76.66 E-value=14 Score=22.37 Aligned_cols=49 Identities=18% Similarity=0.212 Sum_probs=37.4
Q ss_pred CCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 135 SASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 135 ~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
.++-++++..+..|+-. .+..+.. --||.|.+..+|.++....+|..+.
T Consensus 11 ~~~v~d~K~~Lr~y~~~---~I~~d~t--GfYIvF~~~~Ea~rC~~~~~~~~~f 59 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRWD---RIRDDRT--GFYIVFNDSKEAERCFRAEDGTLFF 59 (66)
T ss_pred CccHHHHHHHHhcCCcc---eEEecCC--EEEEEECChHHHHHHHHhcCCCEEE
Confidence 56778999999988622 2223332 3578999999999999999999887
No 238
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=75.29 E-value=8.5 Score=22.89 Aligned_cols=18 Identities=22% Similarity=0.431 Sum_probs=16.1
Q ss_pred HHHHHHHhhcCceeEEEE
Q 025499 21 YEVEDLFYKYGRILDIEL 38 (252)
Q Consensus 21 ~~l~~~f~~~G~v~~v~~ 38 (252)
++|+++|+..|+|.-+.+
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 689999999999988777
No 239
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=73.77 E-value=21 Score=22.86 Aligned_cols=56 Identities=14% Similarity=0.087 Sum_probs=43.1
Q ss_pred EEEeCCCCCCCHHHHHHHHHH-hC-CceEEEEeeCCCC-cEEEEEcCChhHHHHHHHHh
Q 025499 127 VIVRGLPSSASWQDLKDHMRK-AG-DVCFAEVSRDSEG-TYGVVDYTNPEDMKYAIRKL 182 (252)
Q Consensus 127 l~v~nl~~~~t~~~l~~~f~~-~g-~v~~~~~~~~~~~-~~afv~f~~~~~a~~a~~~l 182 (252)
-|.-..+...+..+|++.++. || .|..|....-+.+ .-|+|.+....+|......+
T Consensus 23 ~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~~~~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 23 KLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPKGEKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCcEEEEEEeCCCCcHHHHHHhh
Confidence 334446788999999999988 56 7888877766544 58999999998888876544
No 240
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=73.65 E-value=3.5 Score=31.64 Aligned_cols=35 Identities=11% Similarity=0.233 Sum_probs=30.4
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEE
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIEL 38 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~ 38 (252)
....+||+-|||..+|++.|..+.+++|.+..+.+
T Consensus 38 ~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~y 72 (261)
T KOG4008|consen 38 NEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQELLY 72 (261)
T ss_pred ccccceeeecccccccHHHHHHHHHHhhhhhheec
Confidence 56789999999999999999999999996655544
No 241
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.37 E-value=12 Score=31.14 Aligned_cols=54 Identities=9% Similarity=0.034 Sum_probs=45.1
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhC-CceEEEEeeCCCCcEEEEEcCChhHHHHHHHH
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAG-DVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRK 181 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g-~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~ 181 (252)
..|-|.++|...-.+||...|..|+ .=-.|+++.+. .||..|.+...|..|+-.
T Consensus 392 HVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt---halaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 392 HVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT---HALAVFSSVNRAAEALTL 446 (528)
T ss_pred ceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc---eeEEeecchHHHHHHhhc
Confidence 4788999999998899999999997 44556666664 899999999999999973
No 242
>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=70.36 E-value=16 Score=24.95 Aligned_cols=50 Identities=12% Similarity=0.266 Sum_probs=25.6
Q ss_pred cEEEEeCCCCC---------CCHHHHHHHHHHhCCceEEEEeeCC-CCcEEEEEcCChhH
Q 025499 125 YRVIVRGLPSS---------ASWQDLKDHMRKAGDVCFAEVSRDS-EGTYGVVDYTNPED 174 (252)
Q Consensus 125 ~~l~v~nl~~~---------~t~~~l~~~f~~~g~v~~~~~~~~~-~~~~afv~f~~~~~ 174 (252)
.++.|.|++.. ++.++|.+.|..|..+.-..+.... ..++++|+|...-.
T Consensus 9 wmgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~kv~~l~~~~gh~g~aiv~F~~~w~ 68 (116)
T PF03468_consen 9 WMGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLKVKPLYGKQGHTGFAIVEFNKDWS 68 (116)
T ss_dssp -EEEEE----EE-TTS-EE---SHHHHHHHHH---SEEEEEEETTEEEEEEEEE--SSHH
T ss_pred CEEEEEcCccccCCCCceeccCHHHHHHHHHhcCCceeEECcCCCCCcEEEEEEECCChH
Confidence 36677777543 3568899999999877644443333 23699999986543
No 243
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=69.58 E-value=21 Score=25.47 Aligned_cols=55 Identities=15% Similarity=0.222 Sum_probs=38.0
Q ss_pred EEEcCCCCCCCHHHHHHHHhh-cC-ceeEEEEecCCCCCeEEEEEECCHHHHHHHHH
Q 025499 9 IYVGNLPSDIREYEVEDLFYK-YG-RILDIELKIPPRPPCYCFVEFENARDAEDAIR 63 (252)
Q Consensus 9 l~v~~lp~~~t~~~l~~~f~~-~G-~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~ 63 (252)
-|+-.+...++..+|.+.++. |+ .|..|..........-|||.+....+|.....
T Consensus 84 ~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p~g~KKA~V~L~~~~~aidva~ 140 (145)
T PTZ00191 84 TLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITPDGLKKAYIRLSPDVDALDVAN 140 (145)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcCCCceEEEEEECCCCcHHHHHH
Confidence 444568889999999999987 55 66667664432223459999987776554433
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=68.55 E-value=26 Score=21.95 Aligned_cols=56 Identities=14% Similarity=0.061 Sum_probs=42.6
Q ss_pred EEEeCCCCCCCHHHHHHHHHH-hC-CceEEEEeeCCCC-cEEEEEcCChhHHHHHHHHh
Q 025499 127 VIVRGLPSSASWQDLKDHMRK-AG-DVCFAEVSRDSEG-TYGVVDYTNPEDMKYAIRKL 182 (252)
Q Consensus 127 l~v~nl~~~~t~~~l~~~f~~-~g-~v~~~~~~~~~~~-~~afv~f~~~~~a~~a~~~l 182 (252)
-|+-..+...+..+|+..++. || .|..|....-+.. .-|||++...+.|...-..+
T Consensus 16 ~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~~~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 16 KLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPRGEKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCceEEEEEECCCCcHHHHHHhh
Confidence 445557789999999999988 56 7777777665544 58999999888888766543
No 245
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=67.56 E-value=16 Score=23.46 Aligned_cols=50 Identities=18% Similarity=0.189 Sum_probs=32.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEEC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFE 53 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~ 53 (252)
+...-||||+++..+-|.-...+.+..+.=.-+-+..+....||+|-++-
T Consensus 23 Ei~~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~~neqG~~~~t~G 72 (86)
T PF09707_consen 23 EIRPGVYVGNVSARVRERLWERVTEWIGDGSAVMVWSDNNEQGFDFRTLG 72 (86)
T ss_pred ecCCCcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEccCCCCCEEEEEeC
Confidence 45667999999988875554444444443333334455557899998873
No 246
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=66.35 E-value=0.65 Score=39.92 Aligned_cols=66 Identities=18% Similarity=0.219 Sum_probs=49.6
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecC---CCCCeEEEEEECCHHHHHHHHHhcCCccc
Q 025499 5 FSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIP---PRPPCYCFVEFENARDAEDAIRGRDGYNF 70 (252)
Q Consensus 5 ~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~---~~~~g~afV~f~~~~~a~~a~~~l~~~~~ 70 (252)
.+|+||+.|+++.++-++|..+++.+-.+..+.+... .....+++|+|.---....|+..||+.-+
T Consensus 230 ke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl 298 (648)
T KOG2295|consen 230 KECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRL 298 (648)
T ss_pred HHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhccc
Confidence 3578999999999999999999999887777766322 23345688999866666666666666554
No 247
>PF02829 3H: 3H domain; InterPro: IPR004173 The 3H domain is named after its three highly conserved histidine residues. The 3H domain appears to be a small molecule-binding domain, based on its occurrence with other domains []. Several proteins carrying this domain are transcriptional regulators from the biotin repressor family. The transcription regulator TM1602 from Thermotoga maritima is a DNA-binding protein thought to belong to a family of de novo NAD synthesis pathway regulators. TM1602 has an N-terminal DNA-binding domain and a C-terminal 3H regulatory domain. The N-terminal domain appears to bind to the NAD promoter region and repress the de novo NAD biosynthesis operon, while the C-terminal 3H domain may bind to nicotinamide, nicotinic acid, or other substrate/products []. The 3H domain has a 2-layer alpha/beta sandwich fold.; GO: 0005488 binding; PDB: 1J5Y_A.
Probab=64.67 E-value=27 Score=23.09 Aligned_cols=52 Identities=23% Similarity=0.247 Sum_probs=38.7
Q ss_pred CCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCC
Q 025499 16 SDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDG 67 (252)
Q Consensus 16 ~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~ 67 (252)
.+-++++|..+...-|.|.+|.+..+....-.|.+...+..+++.+++.|+.
T Consensus 7 ~~~~~~EL~~IVd~Gg~V~DV~veHp~YG~i~~~L~i~sr~Dv~~Fi~~l~~ 58 (98)
T PF02829_consen 7 PDEIEDELEIIVDNGGRVLDVIVEHPVYGEITGNLNISSRRDVDKFIEKLEK 58 (98)
T ss_dssp GGGHHHHHHHHHHTT-EEEEEEEEETTTEEEEEEEEE-SHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCEEEEEEEeCCCCcEEEEEEecCCHHHHHHHHHHHhc
Confidence 3445788888888888999999965533344578889999999999997763
No 248
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=55.68 E-value=54 Score=21.33 Aligned_cols=31 Identities=19% Similarity=0.372 Sum_probs=24.5
Q ss_pred EEEEcCCCCCCCHHHHHHHHhh-cC-ceeEEEE
Q 025499 8 TIYVGNLPSDIREYEVEDLFYK-YG-RILDIEL 38 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~-~G-~v~~v~~ 38 (252)
..|+-.+++.+|..+|.+.|+. || .|..|..
T Consensus 21 n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT 53 (92)
T PRK05738 21 NKYVFEVAPDATKPEIKAAVEKLFGVKVESVNT 53 (92)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHcCCceeEEEE
Confidence 3455578999999999999987 66 6777766
No 249
>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate. Included in this CD is the C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Also included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem A
Probab=54.19 E-value=39 Score=19.10 Aligned_cols=43 Identities=16% Similarity=0.182 Sum_probs=31.0
Q ss_pred HHHHHHHHhhcC-ceeEEEEecCCCCCeEEEEEECCHHHHHHHH
Q 025499 20 EYEVEDLFYKYG-RILDIELKIPPRPPCYCFVEFENARDAEDAI 62 (252)
Q Consensus 20 ~~~l~~~f~~~G-~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~ 62 (252)
-.++...|...| .|..+.+.......+...+.+.+.+.|.+++
T Consensus 12 l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~~v~~~~~a~~~l 55 (56)
T cd04889 12 LAEVTEILAEAGINIKAISIAETRGEFGILRLIFSDPERAKEVL 55 (56)
T ss_pred HHHHHHHHHHcCCCEeeEEEEEccCCcEEEEEEECCHHHHHHHh
Confidence 356777888877 7777776544445677888888888887765
No 250
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=54.09 E-value=38 Score=20.69 Aligned_cols=58 Identities=17% Similarity=0.239 Sum_probs=37.5
Q ss_pred HHHHHHHHHhC-CceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCC
Q 025499 139 QDLKDHMRKAG-DVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDR 203 (252)
Q Consensus 139 ~~l~~~f~~~g-~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~ 203 (252)
++|.+.|.++| .+..+.-+...++ ..-+|+.....+... .|+=+.+. +..+.|+...+
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg----~~~V~VEr~~k 64 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLG----GQRVTVERPHK 64 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhC----CeeEEEecCcc
Confidence 47889999999 7777777666553 366777665533222 34444455 77888877664
No 251
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=53.93 E-value=15 Score=30.53 Aligned_cols=64 Identities=23% Similarity=0.412 Sum_probs=48.9
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhC-CceEEEEeeCCCC------cEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAG-DVCFAEVSRDSEG------TYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g-~v~~~~~~~~~~~------~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
+.+.|.+||...++++|.+....+- .|.+..+...... +.|+|.|..+++...-...++|..+-
T Consensus 8 ~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifl 78 (376)
T KOG1295|consen 8 VKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFL 78 (376)
T ss_pred eeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEe
Confidence 5788899999999999998888875 3444444432211 48999999999988888888888775
No 252
>PF12091 DUF3567: Protein of unknown function (DUF3567); InterPro: IPR021951 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 90 amino acids in length. This protein has a conserved EIVDK sequence motif.
Probab=53.11 E-value=18 Score=23.07 Aligned_cols=17 Identities=12% Similarity=0.231 Sum_probs=12.9
Q ss_pred CCCCCHHHHHHHHHHhC
Q 025499 133 PSSASWQDLKDHMRKAG 149 (252)
Q Consensus 133 ~~~~t~~~l~~~f~~~g 149 (252)
....+.+++.+++..|.
T Consensus 59 ~~~Pt~EevDdfL~~y~ 75 (85)
T PF12091_consen 59 ASEPTQEEVDDFLGGYD 75 (85)
T ss_pred hcCCCHHHHHHHHHHHH
Confidence 45678888888888774
No 253
>KOG2146 consensus Splicing coactivator SRm160/300, subunit SRm160 (contains PWI domain) [RNA processing and modification; General function prediction only]
Probab=52.66 E-value=20 Score=28.48 Aligned_cols=30 Identities=17% Similarity=0.238 Sum_probs=12.4
Q ss_pred EEEECCHHHHHHHHHhcCC-cccCCeeEEEE
Q 025499 49 FVEFENARDAEDAIRGRDG-YNFDGCRLRVE 78 (252)
Q Consensus 49 fV~f~~~~~a~~a~~~l~~-~~~~g~~i~v~ 78 (252)
+|-|++..-.+-.+.+|.. ..++-+.|+|.
T Consensus 56 ilgfEDdVViefvynqLee~k~ldpkkmQiN 86 (354)
T KOG2146|consen 56 ILGFEDDVVIEFVYNQLEEAKNLDPKKMQIN 86 (354)
T ss_pred hhccccchhHHHHHHHHhhhcCCCchheeee
Confidence 3444444444444444433 33333444444
No 254
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=51.61 E-value=28 Score=30.98 Aligned_cols=7 Identities=0% Similarity=0.339 Sum_probs=3.1
Q ss_pred cEEEEeC
Q 025499 125 YRVIVRG 131 (252)
Q Consensus 125 ~~l~v~n 131 (252)
..|.|..
T Consensus 40 tSiViSD 46 (1027)
T KOG3580|consen 40 TSIVISD 46 (1027)
T ss_pred eeEEEee
Confidence 3444443
No 255
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=51.09 E-value=38 Score=22.31 Aligned_cols=52 Identities=15% Similarity=0.146 Sum_probs=30.9
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCH
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENA 55 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~ 55 (252)
+...-||||+++..+-+.--..+-+.++.=.-+-+..+....||+|-++-+.
T Consensus 25 Ev~~GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~~~eqG~~~~t~G~~ 76 (97)
T PRK11558 25 EVRAGVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWATNTESGFEFQTFGEN 76 (97)
T ss_pred ecCCCcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcCCCCCCcEEEecCCC
Confidence 3456799999888876544333444444322223344555569999888643
No 256
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=49.83 E-value=1.4e+02 Score=24.08 Aligned_cols=47 Identities=17% Similarity=0.178 Sum_probs=34.9
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCCh
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNP 172 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~ 172 (252)
.-|+++||+.++.-.+|+..+.+-+-+-. .+.....-+-||+.|.+.
T Consensus 331 ~di~~~nl~rd~rv~dlk~~lr~~~~~pm-~iswkg~~~k~flh~~~~ 377 (396)
T KOG4410|consen 331 TDIKLTNLSRDIRVKDLKSELRKRECTPM-SISWKGHFGKCFLHFGNR 377 (396)
T ss_pred cceeeccCccccchHHHHHHHHhcCCCce-eEeeecCCcceeEecCCc
Confidence 45999999999999999999998874332 233333336899999764
No 257
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=49.50 E-value=95 Score=22.21 Aligned_cols=54 Identities=13% Similarity=0.081 Sum_probs=39.7
Q ss_pred EEEeCCCCCCCHHHHHHHHHH-hC-CceEEEEeeCCCC-cEEEEEcCChhHHHHHHH
Q 025499 127 VIVRGLPSSASWQDLKDHMRK-AG-DVCFAEVSRDSEG-TYGVVDYTNPEDMKYAIR 180 (252)
Q Consensus 127 l~v~nl~~~~t~~~l~~~f~~-~g-~v~~~~~~~~~~~-~~afv~f~~~~~a~~a~~ 180 (252)
.++-.+....+..+|++.++. |+ .|..|.....+.+ .-|||.+....+|.....
T Consensus 84 ~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p~g~KKA~V~L~~~~~aidva~ 140 (145)
T PTZ00191 84 TLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITPDGLKKAYIRLSPDVDALDVAN 140 (145)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcCCCceEEEEEECCCCcHHHHHH
Confidence 444456788899999999987 56 6777777665544 489999988777665444
No 258
>PF03439 Spt5-NGN: Early transcription elongation factor of RNA pol II, NGN section; InterPro: IPR005100 Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4 []. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit []. ; PDB: 3H7H_B 3QQC_D 3P8B_B 2EXU_A.
Probab=49.18 E-value=42 Score=21.33 Aligned_cols=27 Identities=37% Similarity=0.548 Sum_probs=22.1
Q ss_pred CCCCCeEEEEEECCHHHHHHHHHhcCC
Q 025499 41 PPRPPCYCFVEFENARDAEDAIRGRDG 67 (252)
Q Consensus 41 ~~~~~g~afV~f~~~~~a~~a~~~l~~ 67 (252)
.+..+||-|||=.+++++..|++.+.+
T Consensus 40 ~~~lkGyIyVEA~~~~~V~~ai~gi~~ 66 (84)
T PF03439_consen 40 PDSLKGYIYVEAERESDVKEAIRGIRH 66 (84)
T ss_dssp -TTSTSEEEEEESSHHHHHHHHTT-TT
T ss_pred eCCCceEEEEEeCCHHHHHHHHhcccc
Confidence 345799999999999999999987765
No 259
>KOG2146 consensus Splicing coactivator SRm160/300, subunit SRm160 (contains PWI domain) [RNA processing and modification; General function prediction only]
Probab=48.93 E-value=19 Score=28.59 Aligned_cols=7 Identities=57% Similarity=0.482 Sum_probs=2.9
Q ss_pred CCCCCCC
Q 025499 242 SMSASPV 248 (252)
Q Consensus 242 srs~s~~ 248 (252)
+|++||.
T Consensus 219 sRsrsp~ 225 (354)
T KOG2146|consen 219 SRSRSPP 225 (354)
T ss_pred ccccCCc
Confidence 3444443
No 260
>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]
Probab=48.84 E-value=99 Score=27.62 Aligned_cols=45 Identities=22% Similarity=0.266 Sum_probs=35.5
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcC
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYT 170 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~ 170 (252)
.....+|+.+|..++.++.-.++....-.++.+.+.+. +|| |+|+
T Consensus 299 l~~~evY~nGlSTSlP~dVQ~~~irsipGlEna~i~rp---gYA-IEYD 343 (621)
T COG0445 299 LDTDEVYPNGLSTSLPEDVQEQIIRSIPGLENAEILRP---GYA-IEYD 343 (621)
T ss_pred CCCceEecCcccccCCHHHHHHHHHhCcccccceeecc---cee-eeec
Confidence 34568999999999999988889888888888888875 354 4554
No 261
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=48.78 E-value=90 Score=21.75 Aligned_cols=72 Identities=13% Similarity=0.077 Sum_probs=52.1
Q ss_pred CCcEEEEcCCCCC---CCHHHHHHHHhhcC-ceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 5 FSRTIYVGNLPSD---IREYEVEDLFYKYG-RILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 5 ~~~~l~v~~lp~~---~t~~~l~~~f~~~G-~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
+.-.|.|...... .+...+.+.+..-| .++++... .+-..|.|.+.++-.+|.+.|....-++..|.+..+
T Consensus 34 edpavQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~~~-----~~~~~irf~~~~~Ql~Ak~vL~~~L~~~y~VAlnl~ 108 (127)
T PRK10629 34 QESTLAIRAVHQGASLPDGFYVYQHLDANGIHIKSITPE-----NDSLLIRFDSPEQSAAAKEVLDRTLPHGYIIAQQDD 108 (127)
T ss_pred CCceEEEecCCCCCccchHHHHHHHHHHCCCCcceEEee-----CCEEEEEECCHHHHHHHHHHHHHHcCCCCEEEEecC
Confidence 3445667665333 56678888999888 56665553 235799999999999999988876666777776665
Q ss_pred C
Q 025499 81 H 81 (252)
Q Consensus 81 ~ 81 (252)
.
T Consensus 109 p 109 (127)
T PRK10629 109 N 109 (127)
T ss_pred C
Confidence 4
No 262
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=48.72 E-value=1.3e+02 Score=27.09 Aligned_cols=99 Identities=14% Similarity=0.076 Sum_probs=62.6
Q ss_pred HHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcC--Ccc-----c-CCeeEEEEecCCCCCCCCCCC
Q 025499 20 EYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRD--GYN-----F-DGCRLRVELAHGGSGRGPSSS 91 (252)
Q Consensus 20 ~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~--~~~-----~-~g~~i~v~~~~~~~~~~~~~~ 91 (252)
.++|.+.|..-+.|..|.+.- .||-++.+....-+......+. +.. + .|++|.|+++.+.+
T Consensus 60 A~~i~~~l~~~~~~~~veiaG----pgfINf~l~~~~~~~~~~~~l~~~~~~~G~~~~~~~~kV~iE~sSaNp------- 128 (577)
T COG0018 60 AEEIAEKLDTDEIIEKVEIAG----PGFINFFLSPEFLAELLLEILEKGDDRYGRSKLGKGKKVVIEYSSANP------- 128 (577)
T ss_pred HHHHHHhccccCcEeEEEEcC----CCEEEEEECHHHHHHHHHHHHHhcccccCccccCCCCEEEEEEeCCCC-------
Confidence 345555555555577777742 2454444444333333333333 222 2 57899999987652
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccEEEEeCCCCCCCHHHHHHHHHHhC-CceEEEEeeCCC
Q 025499 92 DRRGGYGGGGAGGAGGAGAGAGAGRFGISRHSEYRVIVRGLPSSASWQDLKDHMRKAG-DVCFAEVSRDSE 161 (252)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~g-~v~~~~~~~~~~ 161 (252)
..-++|+++=..+==+-|..++...| .|+....+.|-.
T Consensus 129 --------------------------------tkplHiGHlR~aiiGDsLaril~~~Gy~V~r~~yvnD~G 167 (577)
T COG0018 129 --------------------------------TGPLHIGHLRNAIIGDSLARILEFLGYDVTRENYVNDWG 167 (577)
T ss_pred --------------------------------CCCcccchhhhhHHHHHHHHHHHHcCCCeeEEeeECcHH
Confidence 23577888888887889999999999 788877777653
No 263
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=45.75 E-value=22 Score=26.31 Aligned_cols=71 Identities=15% Similarity=0.178 Sum_probs=45.3
Q ss_pred EEEEeCCCCCC-----CHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCc-eeEee
Q 025499 126 RVIVRGLPSSA-----SWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARG-RITVK 199 (252)
Q Consensus 126 ~l~v~nl~~~~-----t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~-~i~v~ 199 (252)
++++-+++..+ .......+|..|.+..-..++... +...|.|.+++.|..|...+++..+. |. .+..-
T Consensus 12 ~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrsf--rrvRi~f~~p~~a~~a~i~~~~~~f~----~~~~~k~y 85 (193)
T KOG4019|consen 12 AIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRSF--RRVRINFSNPEAAADARIKLHSTSFN----GKNELKLY 85 (193)
T ss_pred eeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHhh--ceeEEeccChhHHHHHHHHhhhcccC----CCceEEEE
Confidence 34455554433 123344555555544443333322 46778999999999999999999999 55 66666
Q ss_pred ecC
Q 025499 200 RYD 202 (252)
Q Consensus 200 ~~~ 202 (252)
++.
T Consensus 86 faQ 88 (193)
T KOG4019|consen 86 FAQ 88 (193)
T ss_pred Ecc
Confidence 555
No 264
>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ....
Probab=45.24 E-value=90 Score=23.61 Aligned_cols=47 Identities=15% Similarity=0.070 Sum_probs=35.7
Q ss_pred CCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhc
Q 025499 18 IREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGR 65 (252)
Q Consensus 18 ~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l 65 (252)
.+.++..+++..++.-. +.|+.++-..|-+.+...+.++|..|+..+
T Consensus 24 ~~~~~A~~~l~~~~~p~-~ViKadGla~GKGV~i~~~~~eA~~~l~~~ 70 (194)
T PF01071_consen 24 TDYEEALEYLEEQGYPY-VVIKADGLAAGKGVVIADDREEALEALREI 70 (194)
T ss_dssp SSHHHHHHHHHHHSSSE-EEEEESSSCTTTSEEEESSHHHHHHHHHHH
T ss_pred CCHHHHHHHHHhcCCCc-eEEccCCCCCCCEEEEeCCHHHHHHHHHHh
Confidence 35678888888887433 566777766666788889999999999755
No 265
>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=44.93 E-value=29 Score=28.34 Aligned_cols=22 Identities=14% Similarity=0.270 Sum_probs=19.1
Q ss_pred EEEEcCChhHHHHHHHHhcCcc
Q 025499 165 GVVDYTNPEDMKYAIRKLDDTE 186 (252)
Q Consensus 165 afv~f~~~~~a~~a~~~l~g~~ 186 (252)
|||.|++..+|..|++.+....
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~ 22 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR 22 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC
Confidence 7999999999999999666655
No 266
>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=43.35 E-value=79 Score=19.53 Aligned_cols=44 Identities=18% Similarity=0.213 Sum_probs=31.2
Q ss_pred HHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhc
Q 025499 139 QDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLD 183 (252)
Q Consensus 139 ~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~ 183 (252)
.++.+.+..+| +....+.....+++.|+-+.+.+.+..+++.+.
T Consensus 37 ~~~~~~~~~~G-a~~~~~sGsG~G~~v~~l~~~~~~~~~v~~~l~ 80 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMSGSGGGPTVFALCKDEDDAERVAEALR 80 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEETTSSSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecCCCCCCCeEEEEECCHHHHHHHHHHHH
Confidence 45667777788 555555555445688888889999888887764
No 267
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=43.30 E-value=84 Score=20.31 Aligned_cols=64 Identities=9% Similarity=0.176 Sum_probs=43.8
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhh-cC-ceeEEEEecCCC----CCeEEEEEECCHHHHHHHHHhcCC
Q 025499 3 GRFSRTIYVGNLPSDIREYEVEDLFYK-YG-RILDIELKIPPR----PPCYCFVEFENARDAEDAIRGRDG 67 (252)
Q Consensus 3 ~~~~~~l~v~~lp~~~t~~~l~~~f~~-~G-~v~~v~~~~~~~----~~g~afV~f~~~~~a~~a~~~l~~ 67 (252)
++.++.||. ++...++-..|.+.|+. .| ...++.+..+|+ .+.=+=+.|++-++.++..+++-|
T Consensus 31 ~qd~telfF-kiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~eQvGG 100 (103)
T COG5227 31 DQDGTELFF-KIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVTEQVGG 100 (103)
T ss_pred cCCCCEEEE-EEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHHHHHhcC
Confidence 467788888 88889999999999975 45 455566655432 122345677877777777776655
No 268
>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=42.65 E-value=71 Score=18.81 Aligned_cols=44 Identities=16% Similarity=0.222 Sum_probs=30.1
Q ss_pred CHHHHHHHHHHhC-CceEEEEeeCCCCcEEEEEcCChhHHHHHHH
Q 025499 137 SWQDLKDHMRKAG-DVCFAEVSRDSEGTYGVVDYTNPEDMKYAIR 180 (252)
Q Consensus 137 t~~~l~~~f~~~g-~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~ 180 (252)
.-.++.++|.+.| .|.++........+...+.+++.+.|.+++.
T Consensus 14 ~La~v~~~l~~~~inI~~i~~~~~~~~~~~rl~~~~~~~~~~~L~ 58 (66)
T cd04908 14 RLAAVTEILSEAGINIRALSIADTSEFGILRLIVSDPDKAKEALK 58 (66)
T ss_pred hHHHHHHHHHHCCCCEEEEEEEecCCCCEEEEEECCHHHHHHHHH
Confidence 4577888888888 7888877655444455556666666666665
No 269
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=42.21 E-value=37 Score=20.80 Aligned_cols=25 Identities=20% Similarity=0.254 Sum_probs=20.6
Q ss_pred eEEEEEECCHHHHHHHHHhcCCccc
Q 025499 46 CYCFVEFENARDAEDAIRGRDGYNF 70 (252)
Q Consensus 46 g~afV~f~~~~~a~~a~~~l~~~~~ 70 (252)
.+++|.|.+..+|.+|-..|....+
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi 26 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGI 26 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCC
Confidence 3689999999999999987775444
No 270
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=42.19 E-value=66 Score=28.25 Aligned_cols=59 Identities=19% Similarity=0.241 Sum_probs=43.6
Q ss_pred EEcCCCCCC---CHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeE
Q 025499 10 YVGNLPSDI---REYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRL 75 (252)
Q Consensus 10 ~v~~lp~~~---t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i 75 (252)
+||||+.-. ....|..+=++||+|..+++= ..-.|.-.+.+.|+.|+. -++..+.+++.
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG------~~~~Vviss~~~akE~l~-~~d~~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLG------SVPVVVISSYEAAKEVLV-KQDLEFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEec------CceEEEECCHHHHHHHHH-hCCccccCCCC
Confidence 466766543 335666777799999988771 124788889999999998 67888888886
No 271
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=42.08 E-value=2.8e+02 Score=25.44 Aligned_cols=68 Identities=9% Similarity=0.079 Sum_probs=50.7
Q ss_pred EEEEcCCCC--CCCHHHHHHHHhhcCceeE-----EEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEec
Q 025499 8 TIYVGNLPS--DIREYEVEDLFYKYGRILD-----IELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELA 80 (252)
Q Consensus 8 ~l~v~~lp~--~~t~~~l~~~f~~~G~v~~-----v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~ 80 (252)
.+|| ++-. .++..+|..++..-+.|.. |.|. ..|.||+.... .|...+..|++..+.|++|.|+.+
T Consensus 488 ~~~~-~~g~~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~-----~~~s~v~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 560 (629)
T PRK11634 488 LYRI-EVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLF-----ASHSTIELPKG-MPGEVLQHFTRTRILNKPMNMQLL 560 (629)
T ss_pred EEEE-ecccccCCCHHHHHHHHHhhcCCChhhCCcEEEe-----CCceEEEcChh-hHHHHHHHhccccccCCceEEEEC
Confidence 3555 4443 4888999988887765544 4444 45889998755 578888889999999999999987
Q ss_pred CC
Q 025499 81 HG 82 (252)
Q Consensus 81 ~~ 82 (252)
..
T Consensus 561 ~~ 562 (629)
T PRK11634 561 GD 562 (629)
T ss_pred CC
Confidence 53
No 272
>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=41.68 E-value=18 Score=28.88 Aligned_cols=36 Identities=8% Similarity=0.122 Sum_probs=33.1
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCC
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDS 160 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~ 160 (252)
+.|.+.|+..+++--.+...|.+||.|+.|.++.+.
T Consensus 16 RSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~ 51 (309)
T PF10567_consen 16 RSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSN 51 (309)
T ss_pred HHHHHhhccccccHHHHHHHhhccCceeEEEEecCC
Confidence 578889999999999999999999999999999876
No 273
>COG4274 Uncharacterized conserved protein [Function unknown]
Probab=41.15 E-value=1.1e+02 Score=20.35 Aligned_cols=45 Identities=9% Similarity=-0.026 Sum_probs=33.6
Q ss_pred HHHHHHHHHHhC-CceEEEEeeCCCCcEEEEEcCChhHHHHHHHHh
Q 025499 138 WQDLKDHMRKAG-DVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKL 182 (252)
Q Consensus 138 ~~~l~~~f~~~g-~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l 182 (252)
.++++.+++++| +++.+.+......-.+.+|-.+...+.++...+
T Consensus 32 ~~av~~~les~G~k~~~~y~T~GeYD~V~i~EapDda~~~~~~l~l 77 (104)
T COG4274 32 AAAVRALLESMGGKVKEQYWTLGEYDVVAIVEAPDDAVATRFSLAL 77 (104)
T ss_pred HHHHHHHHHHcCcEEEEEEEeeccccEEEEEecCCHHHHHHHHHHH
Confidence 467889999998 788888887765557777777777776665544
No 274
>PHA01632 hypothetical protein
Probab=41.14 E-value=40 Score=19.44 Aligned_cols=22 Identities=14% Similarity=0.433 Sum_probs=17.2
Q ss_pred EEEEeCCCCCCCHHHHHHHHHH
Q 025499 126 RVIVRGLPSSASWQDLKDHMRK 147 (252)
Q Consensus 126 ~l~v~nl~~~~t~~~l~~~f~~ 147 (252)
-+.|..+|...|+++|+..+.+
T Consensus 18 yilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 18 YILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EEehhhcCCCCCHHHHHHHHHH
Confidence 3455678999999999987764
No 275
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=41.12 E-value=10 Score=23.06 Aligned_cols=25 Identities=16% Similarity=0.296 Sum_probs=17.7
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHh
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFY 28 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~ 28 (252)
.-+++||||+||..+-++.=..++.
T Consensus 25 ~tSr~vflG~IP~~W~~~~~~~~~k 49 (67)
T PF15407_consen 25 LTSRRVFLGPIPEIWLQDHRKSWYK 49 (67)
T ss_pred HcCceEEECCCChHHHHcCcchHHH
Confidence 3578999999999876655444443
No 276
>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=40.30 E-value=74 Score=18.35 Aligned_cols=54 Identities=15% Similarity=0.175 Sum_probs=40.5
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCH----HHHHHHHHh
Q 025499 8 TIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENA----RDAEDAIRG 64 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~----~~a~~a~~~ 64 (252)
++.|.||.-.--...|.+.+...-.|.++.+... .+.+-|.|... ++..++++.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~---~~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLE---TKTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETT---TTEEEEEESTTTSCHHHHHHHHHH
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECC---CCEEEEEEecCCCCHHHHHHHHHH
Confidence 5677788777778889999999888999988543 46688888744 566666664
No 277
>TIGR01873 cas_CT1978 CRISPR-associated endoribonuclease Cas2, E. coli subfamily. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents a minor branch of the Cas2 family of CRISPR-associated endonuclease, whereas most Cas2 proteins are modeled instead by TIGR01573. This form of Cas2 is characteristic for the Ecoli subtype of CRISPR/Cas locus.
Probab=40.12 E-value=70 Score=20.62 Aligned_cols=50 Identities=16% Similarity=0.212 Sum_probs=30.0
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhhc--CceeEEEEecCCCCCeEEEEEECC
Q 025499 4 RFSRTIYVGNLPSDIREYEVEDLFYKY--GRILDIELKIPPRPPCYCFVEFEN 54 (252)
Q Consensus 4 ~~~~~l~v~~lp~~~t~~~l~~~f~~~--G~v~~v~~~~~~~~~g~afV~f~~ 54 (252)
+...-||||+++..+-+ .|.+...+. +.=.-+-+..+....||.|-++-+
T Consensus 23 Ev~~GVyVg~~s~rVRe-~lW~~v~~~~~~~G~avm~~~~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 23 EPRAGVYVGGVSASVRE-RIWDYLAQHCPPKGSLVITWSSNTCPGFEFFTLGE 74 (87)
T ss_pred ecCCCcEEcCCCHHHHH-HHHHHHHHhCCCCccEEEEEeCCCCCCcEEEecCC
Confidence 45567999999888764 444444443 322222234455667888887764
No 278
>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=39.71 E-value=88 Score=19.02 Aligned_cols=58 Identities=12% Similarity=0.154 Sum_probs=36.0
Q ss_pred HHHHHHHHHhC-CceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecCC
Q 025499 139 QDLKDHMRKAG-DVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYDR 203 (252)
Q Consensus 139 ~~l~~~f~~~g-~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~~ 203 (252)
++|.+.|...| .|..+.-+....+ ..-||+.+...+. .+.++=..+. +..|.|+..++
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~---k~i~~Ik~l~----~~~V~vE~~~k 64 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNN---KEIYKIKTLC----GQRVKVERPRK 64 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccc---cceeehHhhC----CeEEEEecCCC
Confidence 57888899998 6777665555422 3778888776552 2233344444 66676766553
No 279
>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=38.10 E-value=76 Score=20.67 Aligned_cols=53 Identities=17% Similarity=0.109 Sum_probs=35.8
Q ss_pred CCCCCCHHHHHHHHHHhC-CceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcC
Q 025499 132 LPSSASWQDLKDHMRKAG-DVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDD 184 (252)
Q Consensus 132 l~~~~t~~~l~~~f~~~g-~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g 184 (252)
+-+.+++..|...|.-.| +-+...+..|--..+|.|+|.+.+.+..|...|-.
T Consensus 20 ~~p~l~~~~i~~Q~~~~gkk~~pp~lRkD~W~pm~vv~f~~~~~g~~~yq~Lre 73 (91)
T PF12829_consen 20 QTPNLDNNQILKQFPFPGKKNKPPSLRKDYWRPMCVVNFPNYEVGVSAYQKLRE 73 (91)
T ss_pred cCcccChhHHHHhccCCCcccCCchhccccceEeEEEECCChHHHHHHHHHHHH
Confidence 455667777776666666 23334444444446999999999999998876643
No 280
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=37.46 E-value=1.4e+02 Score=21.49 Aligned_cols=28 Identities=18% Similarity=0.200 Sum_probs=22.0
Q ss_pred eeCCCCcEEEEEcCChhHHHHHHHHhcC
Q 025499 157 SRDSEGTYGVVDYTNPEDMKYAIRKLDD 184 (252)
Q Consensus 157 ~~~~~~~~afv~f~~~~~a~~a~~~l~g 184 (252)
......||.||+....+++..++..+.+
T Consensus 41 vp~~fpGYVfVe~~~~~~~~~~i~~v~~ 68 (153)
T PRK08559 41 APPELKGYVLVEAESKGAVEEAIRGIPH 68 (153)
T ss_pred ccCCCCcEEEEEEEChHHHHHHHhcCCC
Confidence 3344568999999988999999887755
No 281
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=37.38 E-value=1.3e+02 Score=20.18 Aligned_cols=42 Identities=19% Similarity=0.374 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhCCceEEEEeeCCCC-cEEEEEcCChhHHHHHH
Q 025499 138 WQDLKDHMRKAGDVCFAEVSRDSEG-TYGVVDYTNPEDMKYAI 179 (252)
Q Consensus 138 ~~~l~~~f~~~g~v~~~~~~~~~~~-~~afv~f~~~~~a~~a~ 179 (252)
+.++..+...+|.-.+..+...+.+ -||++++.+.+....++
T Consensus 26 WPE~~a~lk~agi~nYSIfLde~~n~lFgy~E~~d~~a~m~~~ 68 (105)
T COG3254 26 WPELLALLKEAGIRNYSIFLDEEENLLFGYWEYEDFEADMAKM 68 (105)
T ss_pred cHHHHHHHHHcCCceeEEEecCCcccEEEEEEEcChHHHHHHH
Confidence 4678888889986666555544333 49999999655555444
No 282
>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=37.16 E-value=28 Score=18.21 Aligned_cols=16 Identities=19% Similarity=0.403 Sum_probs=10.0
Q ss_pred CCCCHHHHHHHHhhcC
Q 025499 16 SDIREYEVEDLFYKYG 31 (252)
Q Consensus 16 ~~~t~~~l~~~f~~~G 31 (252)
.++++++|++.|.+.+
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 3578999999998754
No 283
>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []. They contribute predominantly to macromolecular synthesis. ATP-hydrolysis is used to activate a substrate. For example, DD-ligase transfers phosphate from ATP to D-alanine on the first step of catalysis. On the second step the resulting acylphosphate is attacked by a second D-alanine to produce a DD dipeptide following phosphate elimination []. The ATP-grasp domain contains three conserved motifs, corresponding to the phosphate binding loop and the Mg(2+) binding site []. The fold is characterised by two alpha-beta subdomains that grasp the ATP molecule between them. Each subdomain provides a variable loop that forms a part of the active site, completed by region of other domains not conserved between the various ATP-grasp enzymes []. The ATP-grasp domain represented by this entry is found primarily in succinyl-CoA synthetases (6.2.1.5 from EC).; PDB: 3PFF_A 3MWD_A 3MWE_A 1CQI_E 1SCU_B 2NU9_G 2NU6_E 1CQJ_E 2NU7_B 1JLL_E ....
Probab=36.49 E-value=1e+02 Score=23.38 Aligned_cols=54 Identities=11% Similarity=0.086 Sum_probs=37.3
Q ss_pred CCHHHHHHHHhhcCc---eeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCcccC
Q 025499 18 IREYEVEDLFYKYGR---ILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGYNFD 71 (252)
Q Consensus 18 ~t~~~l~~~f~~~G~---v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~ 71 (252)
.+.+++.+.....|. |...++...+..++=+...-.++++|..+...|=|..+.
T Consensus 25 ~s~eea~~~~~~l~~~~~VvKaQvl~GgRGK~GgVk~~~s~~ea~~~a~~mlg~~l~ 81 (202)
T PF08442_consen 25 TSPEEAREAAKELGGKPLVVKAQVLAGGRGKAGGVKIAKSPEEAKEAAKEMLGKTLK 81 (202)
T ss_dssp SSHHHHHHHHHHHTTSSEEEEE-SSSSTTTTTTCEEEESSHHHHHHHHHTTTTSEEE
T ss_pred CCHHHHHHHHHHhCCCcEEEEEeEeecCcccCCceeecCCHHHHHHHHHHHhCCceE
Confidence 567888888888773 555556555555553344456899999999888887775
No 284
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=36.33 E-value=58 Score=25.86 Aligned_cols=30 Identities=27% Similarity=0.164 Sum_probs=23.9
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCceeEE
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGRILDI 36 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v 36 (252)
-...|+|||+++|-.-|..++...-.+...
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~~~~ 125 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFIIQDM 125 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCccceE
Confidence 356799999999999999999876655343
No 285
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.28 E-value=5.4 Score=33.62 Aligned_cols=76 Identities=8% Similarity=-0.124 Sum_probs=56.1
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCC
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKI---PPRPPCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHG 82 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~ 82 (252)
+..-|+..||..++++++.-+|.-||.|.-+.... ++-..-.+||.-.+. +|..+++.+....++|..+++.++..
T Consensus 3 s~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~~-~~~~~i~~~k~q~~~~~~~r~~~~~~ 81 (572)
T KOG4365|consen 3 SMKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKKA-NGPNYIQPQKRQTTFESQDRKAVSPS 81 (572)
T ss_pred chhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeecc-CcccccCHHHHhhhhhhhhhhhcCch
Confidence 34567888999999999999999999998887732 334455677776654 45566666666777888888887753
No 286
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=35.23 E-value=8.2 Score=33.62 Aligned_cols=67 Identities=16% Similarity=0.184 Sum_probs=51.7
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCC----cEEEEEcCChhHHHHHHHHhcCcccc
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEG----TYGVVDYTNPEDMKYAIRKLDDTEFR 188 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~----~~afv~f~~~~~a~~a~~~l~g~~~~ 188 (252)
...+++|+.|+++.++-++|..+|..+-.+..+.+....-. .+..|.|.---....|+-+||+..+.
T Consensus 229 hke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~ 299 (648)
T KOG2295|consen 229 HKECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLR 299 (648)
T ss_pred hHHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccc
Confidence 45678999999999999999999999876666555443211 37888998777777777778887775
No 287
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=34.58 E-value=1.4e+02 Score=26.40 Aligned_cols=59 Identities=17% Similarity=0.298 Sum_probs=39.5
Q ss_pred cEEEEcCCCCCCCHHHHHHHHh----hcCceeEEEEecC--CCCCeEEEEEECCHHHHHHHHHhc
Q 025499 7 RTIYVGNLPSDIREYEVEDLFY----KYGRILDIELKIP--PRPPCYCFVEFENARDAEDAIRGR 65 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~----~~G~v~~v~~~~~--~~~~g~afV~f~~~~~a~~a~~~l 65 (252)
..+.++.-..+.+.-+|..+|. .+|.|..+.++.. .......++.|.+.++|..|+..+
T Consensus 190 ~i~~~~~~~~~~~g~dl~~l~~Gs~GtlGIIt~atlkl~p~p~~~~~~~~~f~~~~~a~~~~~~~ 254 (499)
T PRK11230 190 EALTLGSDALDSPGFDLLALFTGSEGMLGVVTEVTVKLLPKPPVARVLLASFDSVEKAGLAVGDI 254 (499)
T ss_pred cEEEeCCccCCCCccchHhhhccCCCccEEEEEEEEEEEcCCcceEEEEEECCCHHHHHHHHHHH
Confidence 3444443332333457777775 6889999888442 334567789999999999998765
No 288
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=34.54 E-value=45 Score=23.61 Aligned_cols=33 Identities=15% Similarity=0.190 Sum_probs=27.8
Q ss_pred EEEcCCCCC-CCHHHHHHHHhhcCceeEEEEecC
Q 025499 9 IYVGNLPSD-IREYEVEDLFYKYGRILDIELKIP 41 (252)
Q Consensus 9 l~v~~lp~~-~t~~~l~~~f~~~G~v~~v~~~~~ 41 (252)
|.|-|||.. .+++-|..+.+.+|++..+.....
T Consensus 107 Vri~glP~~~~~~~~~~~i~~~iG~~i~vD~~t~ 140 (153)
T PF14111_consen 107 VRIYGLPLHLWSEEILKAIGSKIGEPIEVDENTL 140 (153)
T ss_pred hhhccCCHHHhhhHHHHHHHHhcCCeEEEEcCCC
Confidence 567799988 788999999999999999988543
No 289
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=34.21 E-value=1.3e+02 Score=19.43 Aligned_cols=30 Identities=17% Similarity=0.371 Sum_probs=23.4
Q ss_pred EEEcCCCCCCCHHHHHHHHhh-cC-ceeEEEE
Q 025499 9 IYVGNLPSDIREYEVEDLFYK-YG-RILDIEL 38 (252)
Q Consensus 9 l~v~~lp~~~t~~~l~~~f~~-~G-~v~~v~~ 38 (252)
.|.-.+++.+|..+|.+.++. || .|.+|..
T Consensus 22 ~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt 53 (91)
T PF00276_consen 22 QYTFEVDPRATKTEIKEAIEKIYGVKVKKVNT 53 (91)
T ss_dssp EEEEEETTTSTHHHHHHHHHHHHTSEEEEEEE
T ss_pred EEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEE
Confidence 344568999999999999986 66 6667666
No 290
>PF14893 PNMA: PNMA
Probab=32.85 E-value=41 Score=27.77 Aligned_cols=48 Identities=13% Similarity=0.363 Sum_probs=31.4
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHH----hCCceEE--EEeeCCCCcEEEEEcCC
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRK----AGDVCFA--EVSRDSEGTYGVVDYTN 171 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~----~g~v~~~--~~~~~~~~~~afv~f~~ 171 (252)
...|.|.++|.++++++|++.+.. .|...-. .+..+.+...|+|+|..
T Consensus 18 ~r~lLv~giP~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~~~~~~aalve~~e 71 (331)
T PF14893_consen 18 QRALLVLGIPEDCEEAEIEEALQAALSPLGRYRVLGKMFRREENAKAALVEFAE 71 (331)
T ss_pred hhhheeecCCCCCCHHHHHHHHHHhhcccccceehhhHhhhhcccceeeeeccc
Confidence 357899999999999999888764 3432221 22222333577888764
No 291
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=31.09 E-value=85 Score=17.93 Aligned_cols=26 Identities=19% Similarity=0.167 Sum_probs=21.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhhcCc
Q 025499 7 RTIYVGNLPSDIREYEVEDLFYKYGR 32 (252)
Q Consensus 7 ~~l~v~~lp~~~t~~~l~~~f~~~G~ 32 (252)
..++|.+.....+.++|.+++..+|.
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg 27 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGG 27 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCC
Confidence 46778887778889999999999985
No 292
>PRK11901 hypothetical protein; Reviewed
Probab=30.97 E-value=1.4e+02 Score=24.62 Aligned_cols=62 Identities=19% Similarity=0.267 Sum_probs=39.0
Q ss_pred CCccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCc---EEEE--EcCChhHHHHHHHHhcCccc
Q 025499 122 HSEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGT---YGVV--DYTNPEDMKYAIRKLDDTEF 187 (252)
Q Consensus 122 ~~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~---~afv--~f~~~~~a~~a~~~l~g~~~ 187 (252)
....+|-|.. ...++.|..+...++ +..+.++.....| |..| .|.+.++|..|+..|-....
T Consensus 243 ~~~YTLQL~A---as~~~~L~~f~~~~~-L~~~~VYqT~RnGkpWYVVvyG~Y~Sr~eAk~Ai~sLPa~lq 309 (327)
T PRK11901 243 ASHYTLQLSS---ASRSDTLNAYAKKQN-LSHYHVYETKRDGKPWYVLVSGNYASSAEAKRAIATLPAEVQ 309 (327)
T ss_pred CCCeEEEeec---CCCHHHHHHHHHHcC-cCceEEEEEEECCceEEEEEecCcCCHHHHHHHHHhCCHHHH
Confidence 3445665554 345778888887776 3334444433222 4444 59999999999998866443
No 293
>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=30.88 E-value=1.1e+02 Score=20.79 Aligned_cols=24 Identities=25% Similarity=0.355 Sum_probs=19.6
Q ss_pred CCCCCCCHHHHHHHHhhcCceeEEEE
Q 025499 13 NLPSDIREYEVEDLFYKYGRILDIEL 38 (252)
Q Consensus 13 ~lp~~~t~~~l~~~f~~~G~v~~v~~ 38 (252)
-||+.+ ..|-.+|+.-|+|.+|..
T Consensus 10 VlPPYT--nKLSDYfeSPGKI~svIt 33 (145)
T TIGR02542 10 VLPPYT--NKLSDYFESPGKIQSVIT 33 (145)
T ss_pred ecCCcc--chhhHHhcCCCceEEEEE
Confidence 477777 468899999999998865
No 294
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=30.25 E-value=22 Score=29.18 Aligned_cols=49 Identities=16% Similarity=-0.012 Sum_probs=38.7
Q ss_pred CHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCHHHHHHHHHhcCCc
Q 025499 19 REYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENARDAEDAIRGRDGY 68 (252)
Q Consensus 19 t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~~~a~~a~~~l~~~ 68 (252)
+...+.+++.+.|.|..-.|..+ -+-|.+||..-.++++.++++.|.+.
T Consensus 274 ~~p~iF~~i~~~G~v~~~EM~rt-FNmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 274 PPPPIFKWLQKAGNVEREEMYRT-FNMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred CCcHHHHHHHHhcCCCHHHHHHH-hcCccceEEEEcHHHHHHHHHHHHhc
Confidence 35778889999998877666433 23688999999999999999988764
No 295
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=28.88 E-value=64 Score=25.51 Aligned_cols=23 Identities=30% Similarity=0.430 Sum_probs=20.7
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHh
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFY 28 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~ 28 (252)
...++|+|||+.++..-|..++.
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~ 119 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLE 119 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHH
T ss_pred CceEEEEEecccchHHHHHHHhh
Confidence 56789999999999999999987
No 296
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=28.68 E-value=4.6e+02 Score=24.03 Aligned_cols=61 Identities=5% Similarity=0.097 Sum_probs=43.8
Q ss_pred CCCCCHHHHHHHHHHhCCc-----eEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCccccCCCCCceeEeeecC
Q 025499 133 PSSASWQDLKDHMRKAGDV-----CFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDTEFRNPWARGRITVKRYD 202 (252)
Q Consensus 133 ~~~~t~~~l~~~f~~~g~v-----~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~~~~~~~~g~~i~v~~~~ 202 (252)
-..++..+|..+...-+.| -.|.+.. .|.||+.... .|...+..|++..+. |+.|.+....
T Consensus 496 ~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~~----~~s~v~~~~~-~~~~~~~~~~~~~~~----~~~~~~~~~~ 561 (629)
T PRK11634 496 DDGVEVRHIVGAIANEGDISSRYIGNIKLFA----SHSTIELPKG-MPGEVLQHFTRTRIL----NKPMNMQLLG 561 (629)
T ss_pred ccCCCHHHHHHHHHhhcCCChhhCCcEEEeC----CceEEEcChh-hHHHHHHHhcccccc----CCceEEEECC
Confidence 3467777777777665544 3355555 3889988654 477888889999998 8999888764
No 297
>CHL00030 rpl23 ribosomal protein L23
Probab=28.23 E-value=1.8e+02 Score=19.05 Aligned_cols=32 Identities=13% Similarity=0.318 Sum_probs=25.2
Q ss_pred EEEEcCCCCCCCHHHHHHHHhh-cC-ceeEEEEe
Q 025499 8 TIYVGNLPSDIREYEVEDLFYK-YG-RILDIELK 39 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~-~G-~v~~v~~~ 39 (252)
..|+-.+++++|..+|.+.++. || .|..|...
T Consensus 20 n~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt~ 53 (93)
T CHL00030 20 NQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNSH 53 (93)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEE
Confidence 4566678999999999999988 66 67777663
No 298
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.03 E-value=55 Score=25.02 Aligned_cols=13 Identities=31% Similarity=0.659 Sum_probs=10.8
Q ss_pred CCCeEEEEEECCH
Q 025499 43 RPPCYCFVEFENA 55 (252)
Q Consensus 43 ~~~g~afV~f~~~ 55 (252)
..+.|+||+|.+-
T Consensus 107 ~~RPY~FieFD~~ 119 (216)
T KOG0862|consen 107 ASRPYAFIEFDTF 119 (216)
T ss_pred cCCCeeEEehhHH
Confidence 4588999999865
No 299
>PF15063 TC1: Thyroid cancer protein 1
Probab=28.01 E-value=45 Score=20.70 Aligned_cols=27 Identities=15% Similarity=0.233 Sum_probs=22.2
Q ss_pred EEEEeCCCCCCCHHHHHHHHHHhCCce
Q 025499 126 RVIVRGLPSSASWQDLKDHMRKAGDVC 152 (252)
Q Consensus 126 ~l~v~nl~~~~t~~~l~~~f~~~g~v~ 152 (252)
.--+.|+-.+++...|+.+|..-|...
T Consensus 27 KkasaNIFe~vn~~qlqrLF~~sGD~k 53 (79)
T PF15063_consen 27 KKASANIFENVNLDQLQRLFQKSGDKK 53 (79)
T ss_pred hhhhhhhhhccCHHHHHHHHHHccchh
Confidence 344678889999999999999998643
No 300
>PF02222 ATP-grasp: ATP-grasp domain; InterPro: IPR003135 The ATP-grasp domain has an unusual nucleotide-binding fold, also referred to as palmate, and is found in a superfamily of enzymes including D-alanine-D-alanine ligase, glutathione synthetase, biotin carboxylase, and carbamoyl phosphate synthetase, the ribosomal protein S6 modification enzyme (RimK), urea amidolyase, tubulin-tyrosine ligase, and three enzymes of purine biosynthesis. This family does not contain all known ATP-grasp domain members. All the enzymes of this family possess ATP-dependent carboxylate-amine ligase activity, and their catalytic mechanisms are likely to include acylphosphate intermediates.; PDB: 3K5H_C 3K5I_C 3AX6_A 3Q2O_B 3QFF_B 3R5H_A 3ORQ_B 3ORR_B 4E4T_B 2Z04_A ....
Probab=27.81 E-value=1.9e+02 Score=21.36 Aligned_cols=49 Identities=20% Similarity=0.228 Sum_probs=39.2
Q ss_pred CCHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcC
Q 025499 136 ASWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDD 184 (252)
Q Consensus 136 ~t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g 184 (252)
.+.++|.+....+|...-++.......|.+-+...+.++...|...+.+
T Consensus 15 ~~~~~l~~a~~~iG~P~vlK~~~~GYDGkGq~~i~~~~dl~~a~~~~~~ 63 (172)
T PF02222_consen 15 DSLEDLEEAAESIGFPAVLKTRRGGYDGKGQFVIRSEEDLEKAWQELGG 63 (172)
T ss_dssp SSHHHHHHHHHHHTSSEEEEESSSSCTTTTEEEESSGGGHHHHHHHTTT
T ss_pred CCHHHHHHHHHHcCCCEEEEccCcCcCCCccEEECCHHHHHHHHHhcCC
Confidence 3578999999999987777766666666777778899999999998833
No 301
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=27.22 E-value=2e+02 Score=19.29 Aligned_cols=42 Identities=14% Similarity=0.207 Sum_probs=29.8
Q ss_pred HHHHHHHhhcCceeEEEEecC-CCCCeEEEEEECCHHHHHHHHH
Q 025499 21 YEVEDLFYKYGRILDIELKIP-PRPPCYCFVEFENARDAEDAIR 63 (252)
Q Consensus 21 ~~l~~~f~~~G~v~~v~~~~~-~~~~g~afV~f~~~~~a~~a~~ 63 (252)
.+|..+++.+| |.+-.|..+ ..+.-||++++.+.+..-+++.
T Consensus 27 PE~~a~lk~ag-i~nYSIfLde~~n~lFgy~E~~d~~a~m~~~a 69 (105)
T COG3254 27 PELLALLKEAG-IRNYSIFLDEEENLLFGYWEYEDFEADMAKMA 69 (105)
T ss_pred HHHHHHHHHcC-CceeEEEecCCcccEEEEEEEcChHHHHHHHh
Confidence 35778888998 666666444 3567899999997766666654
No 302
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=26.70 E-value=97 Score=26.25 Aligned_cols=39 Identities=15% Similarity=0.370 Sum_probs=31.4
Q ss_pred CCCCCcEEEEcCCCCC-CCHHHHHHHHhhc----CceeEEEEec
Q 025499 2 SGRFSRTIYVGNLPSD-IREYEVEDLFYKY----GRILDIELKI 40 (252)
Q Consensus 2 ~~~~~~~l~v~~lp~~-~t~~~l~~~f~~~----G~v~~v~~~~ 40 (252)
+++++..|-|=||.++ +...+|..+|+.| |++..|.|..
T Consensus 142 ~G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iyp 185 (622)
T COG5638 142 EGNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYP 185 (622)
T ss_pred CCCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEech
Confidence 3678899999999987 8889999999865 5777777743
No 303
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=26.69 E-value=28 Score=28.61 Aligned_cols=49 Identities=24% Similarity=0.219 Sum_probs=40.6
Q ss_pred CHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHHhcCc
Q 025499 137 SWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRKLDDT 185 (252)
Q Consensus 137 t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~l~g~ 185 (252)
+...|.+...+.|.|..-.|+.--+-|.+||-.-.++++.++++.|.+.
T Consensus 274 ~~p~iF~~i~~~G~v~~~EM~rtFNmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 274 PPPPIFKWLQKAGNVEREEMYRTFNMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred CCcHHHHHHHHhcCCCHHHHHHHhcCccceEEEEcHHHHHHHHHHHHhc
Confidence 3577888889999888866666555589999999999999999999876
No 304
>KOG2855 consensus Ribokinase [Carbohydrate transport and metabolism]
Probab=26.60 E-value=1.2e+02 Score=25.15 Aligned_cols=50 Identities=12% Similarity=0.182 Sum_probs=38.4
Q ss_pred CCCccEEEEeCCCCCCCHHHHHHHHHHhC-CceEEEEeeCCCCcEEEEEcC
Q 025499 121 RHSEYRVIVRGLPSSASWQDLKDHMRKAG-DVCFAEVSRDSEGTYGVVDYT 170 (252)
Q Consensus 121 ~~~~~~l~v~nl~~~~t~~~l~~~f~~~g-~v~~~~~~~~~~~~~afv~f~ 170 (252)
+-...+.||+++..+.-=++|...+.++| .+..+....+..+++++|...
T Consensus 58 rLG~~~afiGkvGdD~fG~~l~~~L~~~~V~~~~v~~~~~~~T~~a~i~v~ 108 (330)
T KOG2855|consen 58 RLGGRVAFIGKVGDDEFGDDLLDILKQNGVDTSGVKFDENARTACATITVS 108 (330)
T ss_pred hcCcceeeeecccchhhHHHHHHHHhhCCcccccceecCCCceEEEEEEEc
Confidence 34467999999999988889999999987 566677777666666666543
No 305
>COG5353 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.05 E-value=2.5e+02 Score=20.17 Aligned_cols=52 Identities=19% Similarity=0.362 Sum_probs=37.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhhc---CceeEEEE-ec-----------CCCCCe-EEEEEECCHHH
Q 025499 6 SRTIYVGNLPSDIREYEVEDLFYKY---GRILDIEL-KI-----------PPRPPC-YCFVEFENARD 57 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~~~l~~~f~~~---G~v~~v~~-~~-----------~~~~~g-~afV~f~~~~~ 57 (252)
...|++..++..+++++.++..+.- ++++.|.+ +. +...+. |-+|.|.+-..
T Consensus 87 ~~KI~~k~asqGISe~~a~~~i~kE~~~~e~~~V~Lg~e~~~PiWEV~y~dkeg~~s~~~vdFetG~~ 154 (161)
T COG5353 87 DGKIYSKKASQGISEEDARAIISKEKAVKEIKSVTLGREKEKPIWEVTYLDKEGRLSFYYVDFETGKE 154 (161)
T ss_pred CCeEEEEehhcCCCHHHHHHHHhhhccccceeEEEEEeeCCceeEEEeecCccCcceEEEEEeccchh
Confidence 3689999999999999999999875 46666665 11 222334 88899987644
No 306
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=25.68 E-value=1.8e+02 Score=18.17 Aligned_cols=61 Identities=11% Similarity=0.185 Sum_probs=40.7
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcC-------ceeEEEEec-CCCCCeEEEEEECCHHHHHHHHHhcCCccc
Q 025499 9 IYVGNLPSDIREYEVEDLFYKYG-------RILDIELKI-PPRPPCYCFVEFENARDAEDAIRGRDGYNF 70 (252)
Q Consensus 9 l~v~~lp~~~t~~~l~~~f~~~G-------~v~~v~~~~-~~~~~g~afV~f~~~~~a~~a~~~l~~~~~ 70 (252)
|-..+||..+|.++|......-- .|.-+.... ....+.||+.+=.+.+...++-+. .|..+
T Consensus 3 mver~~p~~it~e~l~~~~~~~~~~~~~~~~V~w~~s~v~~d~~k~~Cly~Ap~~eaV~~~~~~-aG~p~ 71 (77)
T PF14026_consen 3 MVERDFPGGITAEDLAAAHAKSCAVQAEMPGVQWLRSYVSEDDGKIFCLYEAPDEEAVREHARR-AGLPA 71 (77)
T ss_pred EEEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeEEEEEEEecCCCeEEEEEECCCHHHHHHHHHH-cCCCc
Confidence 45678898899999888765432 233333322 234578888888899998888773 35544
No 307
>PRK15464 cold shock-like protein CspH; Provisional
Probab=25.26 E-value=50 Score=20.21 Aligned_cols=11 Identities=9% Similarity=-0.006 Sum_probs=8.4
Q ss_pred CCeEEEEEECC
Q 025499 44 PPCYCFVEFEN 54 (252)
Q Consensus 44 ~~g~afV~f~~ 54 (252)
.+||+||+=.+
T Consensus 15 ~KGfGFI~~~~ 25 (70)
T PRK15464 15 KSGKGFIIPSD 25 (70)
T ss_pred CCCeEEEccCC
Confidence 38999997654
No 308
>PRK10905 cell division protein DamX; Validated
Probab=25.00 E-value=2.7e+02 Score=22.91 Aligned_cols=61 Identities=21% Similarity=0.352 Sum_probs=37.7
Q ss_pred CccEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEeeCCCCc--EEEE--EcCChhHHHHHHHHhcCcc
Q 025499 123 SEYRVIVRGLPSSASWQDLKDHMRKAGDVCFAEVSRDSEGT--YGVV--DYTNPEDMKYAIRKLDDTE 186 (252)
Q Consensus 123 ~~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~~~~~~~~~--~afv--~f~~~~~a~~a~~~l~g~~ 186 (252)
...+|-|.. ..+++.|..+..++|.-.+..+....++. |..+ .|.+.++|..|+..|-...
T Consensus 246 ~~YTLQL~A---~Ss~~~l~~fakKlgL~~y~vy~TtRnGkpWYVV~yG~YaSraeAk~AiakLPa~v 310 (328)
T PRK10905 246 SHYTLQLSS---SSNYDNLNGWAKKENLKNYVVYETTRNGQPWYVLVSGVYASKEEAKRAVSTLPADV 310 (328)
T ss_pred CceEEEEEe---cCCHHHHHHHHHHcCCCceEEEEeccCCceEEEEEecCCCCHHHHHHHHHHCCHHH
Confidence 344555544 45668888888888643333333333322 3333 5899999999999885544
No 309
>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=24.90 E-value=2.2e+02 Score=24.35 Aligned_cols=59 Identities=20% Similarity=0.405 Sum_probs=39.3
Q ss_pred cEEEEcC-CCCCCCHHHHHHHHh----hcCceeEEEEec--CCCCCeEEEEEECCHHHHHHHHHhc
Q 025499 7 RTIYVGN-LPSDIREYEVEDLFY----KYGRILDIELKI--PPRPPCYCFVEFENARDAEDAIRGR 65 (252)
Q Consensus 7 ~~l~v~~-lp~~~t~~~l~~~f~----~~G~v~~v~~~~--~~~~~g~afV~f~~~~~a~~a~~~l 65 (252)
..+.++. .++..+--+|..+|- .+|-|..+.++. -.....+.++.|.+.++|..|+..+
T Consensus 132 ~~~~~~~~~~~~~~g~dl~~l~~Gs~GtlGiit~~~lkl~p~p~~~~~~~~~f~~~~~~~~~~~~~ 197 (413)
T TIGR00387 132 EILRIGGKTAKDVAGYDLTGLFVGSEGTLGIVTEATLKLLPKPENIVVALAFFDSIEKAMQAVYDI 197 (413)
T ss_pred CEEEeCCcccCCCCCCChhhhcccCCccceEEEEEEEEeecCCCccEEEEEECCCHHHHHHHHHHH
Confidence 3444432 333444456777774 478899988843 2344567788999999999998544
No 310
>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=24.19 E-value=1.7e+02 Score=17.37 Aligned_cols=45 Identities=11% Similarity=0.124 Sum_probs=38.4
Q ss_pred CHHHHHHHHHHhCCceEEEEeeCCCCcEEEEEcCChhHHHHHHHH
Q 025499 137 SWQDLKDHMRKAGDVCFAEVSRDSEGTYGVVDYTNPEDMKYAIRK 181 (252)
Q Consensus 137 t~~~l~~~f~~~g~v~~~~~~~~~~~~~afv~f~~~~~a~~a~~~ 181 (252)
..+++.+.+...-.|..+........-...+.+.+.++....+..
T Consensus 11 ~~~~~~~~l~~~p~V~~~~~vtG~~d~~~~v~~~d~~~l~~~i~~ 55 (74)
T PF01037_consen 11 AYDEFAEALAEIPEVVECYSVTGEYDLILKVRARDMEELEEFIRE 55 (74)
T ss_dssp HHHHHHHHHHTSTTEEEEEEESSSSSEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCEEEEEEEeCCCCEEEEEEECCHHHHHHHHHH
Confidence 357788888888999999999988777999999999999988655
No 311
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=23.70 E-value=1.6e+02 Score=16.89 Aligned_cols=48 Identities=19% Similarity=0.342 Sum_probs=27.9
Q ss_pred CCCHHHHHHHHHHhC-CceEEEEeeCCCCc--EEEEEcCChhHHHHHHHHhc
Q 025499 135 SASWQDLKDHMRKAG-DVCFAEVSRDSEGT--YGVVDYTNPEDMKYAIRKLD 183 (252)
Q Consensus 135 ~~t~~~l~~~f~~~g-~v~~~~~~~~~~~~--~afv~f~~~~~a~~a~~~l~ 183 (252)
.-.-.+|...|..+| .|..+........+ ...+.+.+. .....+..|.
T Consensus 10 ~g~l~~i~~~l~~~~~nI~~~~~~~~~~~~~~~~~~~v~~~-~~~~l~~~l~ 60 (71)
T cd04879 10 PGVIGKVGTILGEHGINIAAMQVGRKEKGGIAYMVLDVDSP-VPEEVLEELK 60 (71)
T ss_pred CCHHHHHHHHHHhcCCCeeeEEEeccCCCCEEEEEEEcCCC-CCHHHHHHHH
Confidence 334677888899887 78777776654223 444455443 3334444443
No 312
>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=23.68 E-value=39 Score=28.39 Aligned_cols=58 Identities=19% Similarity=0.158 Sum_probs=43.0
Q ss_pred CcEEEEcCCCCCCCH--------HHHHHHHhh--cCceeEEEEec---CCCCCeEEEEEECCHHHHHHHHH
Q 025499 6 SRTIYVGNLPSDIRE--------YEVEDLFYK--YGRILDIELKI---PPRPPCYCFVEFENARDAEDAIR 63 (252)
Q Consensus 6 ~~~l~v~~lp~~~t~--------~~l~~~f~~--~G~v~~v~~~~---~~~~~g~afV~f~~~~~a~~a~~ 63 (252)
.+.+|+.+.....+. +++...|.. .+++..|.+.. .....|-.|++|...+.|++++.
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 355667677665444 489999998 56777777743 34567888999999999999874
No 313
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=23.60 E-value=95 Score=25.19 Aligned_cols=24 Identities=25% Similarity=0.249 Sum_probs=19.7
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcC
Q 025499 8 TIYVGNLPSDIREYEVEDLFYKYG 31 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~~G 31 (252)
.+.|+|||+.++...|..++....
T Consensus 103 d~VvaNlPY~Istpil~~ll~~~~ 126 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAHRP 126 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhcCC
Confidence 477899999999999998886533
No 314
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.48 E-value=1.7e+02 Score=17.16 Aligned_cols=47 Identities=21% Similarity=0.099 Sum_probs=28.9
Q ss_pred CHHHHHHHHhhcC-ceeEEEEecCC-CCCeEEEEEECCHHHHHHHHHhc
Q 025499 19 REYEVEDLFYKYG-RILDIELKIPP-RPPCYCFVEFENARDAEDAIRGR 65 (252)
Q Consensus 19 t~~~l~~~f~~~G-~v~~v~~~~~~-~~~g~afV~f~~~~~a~~a~~~l 65 (252)
.-.+|..+|..+| .|..+...... ...+...+.+...++..++++.|
T Consensus 14 ~L~~l~~~l~~~~i~i~~~~~~~~~~~~~~~~~i~v~~~~~~~~~~~~L 62 (69)
T cd04909 14 VIAEVTQILGDAGISIKNIEILEIREGIGGILRISFKTQEDRERAKEIL 62 (69)
T ss_pred HHHHHHHHHHHcCCCceeeEeEEeecCCcEEEEEEECCHHHHHHHHHHH
Confidence 4578889999988 66676553321 12455667776555555555544
No 315
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=23.32 E-value=1.2e+02 Score=24.29 Aligned_cols=79 Identities=13% Similarity=0.172 Sum_probs=50.3
Q ss_pred ccEEEEeCCCC------------CCCHHHHHHHHHHhCCceEEEEeeCC---------CC-----c---------EEEEE
Q 025499 124 EYRVIVRGLPS------------SASWQDLKDHMRKAGDVCFAEVSRDS---------EG-----T---------YGVVD 168 (252)
Q Consensus 124 ~~~l~v~nl~~------------~~t~~~l~~~f~~~g~v~~~~~~~~~---------~~-----~---------~afv~ 168 (252)
..+|++.+||- -.+++-|...|..||.|..|.++.-. .. | -|||+
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeayvq 228 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAYVQ 228 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHHHH
Confidence 35777777652 24678899999999999887765321 11 1 34556
Q ss_pred cCChhHHHHHHHHhcCccccCCCCCc----eeEeeecC
Q 025499 169 YTNPEDMKYAIRKLDDTEFRNPWARG----RITVKRYD 202 (252)
Q Consensus 169 f~~~~~a~~a~~~l~g~~~~~~~~g~----~i~v~~~~ 202 (252)
|..-.--..|+..|.|+.+.....+. .+.|.+++
T Consensus 229 fmeykgfa~amdalr~~k~akk~d~~ffqanvkvdfdr 266 (445)
T KOG2891|consen 229 FMEYKGFAQAMDALRGMKLAKKGDDGFFQANVKVDFDR 266 (445)
T ss_pred HHHHHhHHHHHHHHhcchHHhhcCCcccccccccccch
Confidence 66666677788888888776333343 34454443
No 316
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=22.52 E-value=89 Score=20.55 Aligned_cols=22 Identities=9% Similarity=0.227 Sum_probs=18.0
Q ss_pred CCeEEEEEECCHHHHHHHHHhc
Q 025499 44 PPCYCFVEFENARDAEDAIRGR 65 (252)
Q Consensus 44 ~~g~afV~f~~~~~a~~a~~~l 65 (252)
---|.+++|.+.+...+|...+
T Consensus 65 ~VvFsW~~Y~skq~rDA~~~km 86 (117)
T COG5507 65 EVVFSWIEYPSKQVRDAANAKM 86 (117)
T ss_pred EEEEEEEEcCchhHHHHHHHHh
Confidence 3468999999999999988754
No 317
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=22.52 E-value=1.8e+02 Score=17.21 Aligned_cols=59 Identities=25% Similarity=0.358 Sum_probs=29.0
Q ss_pred cEEEEeCCCCCCCHHHHHHHHHHhCCceE-EEEeeCCCCc-EEEEEcCChhHHHHHHHHhc
Q 025499 125 YRVIVRGLPSSASWQDLKDHMRKAGDVCF-AEVSRDSEGT-YGVVDYTNPEDMKYAIRKLD 183 (252)
Q Consensus 125 ~~l~v~nl~~~~t~~~l~~~f~~~g~v~~-~~~~~~~~~~-~afv~f~~~~~a~~a~~~l~ 183 (252)
..|-|+.+...-.-+.+...+...|.-.. ........-. .-.-.|.+.++|..++..|.
T Consensus 5 y~vQv~s~~~~~~A~~~~~~l~~~g~~~~~~~~~~~~~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 5 YYVQVGSFSSEENAERLLAKLKKKGPDAYVVQVSKGGPWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp EEEEEEEES-HHHHHHHHHHHHHHT-----EEEEEETTCEEEEECCECTCCHHHHHHHHHH
T ss_pred EEEEEEEcCCHHHHHHHHHHHHhcCCCcceEEEecCCceEEEEECCCCCHHHHHHHHHHHh
Confidence 45555544433333334444444453322 2222222112 33336899999999999888
No 318
>PRK15463 cold shock-like protein CspF; Provisional
Probab=22.21 E-value=64 Score=19.72 Aligned_cols=39 Identities=15% Similarity=0.158 Sum_probs=19.1
Q ss_pred CCeEEEEEECCH-HHHH---HHHHhc-CCcccCCeeEEEEecCC
Q 025499 44 PPCYCFVEFENA-RDAE---DAIRGR-DGYNFDGCRLRVELAHG 82 (252)
Q Consensus 44 ~~g~afV~f~~~-~~a~---~a~~~l-~~~~~~g~~i~v~~~~~ 82 (252)
.+||+||+=.+- +++- .|+... ...+-.|..|.......
T Consensus 15 ~kGfGFI~~~~g~~DvFvH~sal~~~g~~~l~~G~~V~f~v~~~ 58 (70)
T PRK15463 15 KSGKGLITPSDGRKDVQVHISALNLRDAEELTTGLRVEFCRING 58 (70)
T ss_pred CCceEEEecCCCCccEEEEehhhhhcCCCCCCCCCEEEEEEEEC
Confidence 389999976542 1211 222211 11333566666665543
No 319
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=22.17 E-value=98 Score=16.10 Aligned_cols=17 Identities=6% Similarity=0.075 Sum_probs=14.1
Q ss_pred CCCHHHHHHHHhhcCce
Q 025499 17 DIREYEVEDLFYKYGRI 33 (252)
Q Consensus 17 ~~t~~~l~~~f~~~G~v 33 (252)
..++++|++.+..+|.+
T Consensus 3 tWs~~~L~~wL~~~gi~ 19 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIP 19 (38)
T ss_pred CCCHHHHHHHHHHcCCC
Confidence 46889999999998854
No 320
>PRK10943 cold shock-like protein CspC; Provisional
Probab=21.96 E-value=66 Score=19.55 Aligned_cols=11 Identities=9% Similarity=0.283 Sum_probs=8.2
Q ss_pred CCeEEEEEECC
Q 025499 44 PPCYCFVEFEN 54 (252)
Q Consensus 44 ~~g~afV~f~~ 54 (252)
.+||+||+=.+
T Consensus 14 ~kGfGFI~~~~ 24 (69)
T PRK10943 14 SKGFGFITPAD 24 (69)
T ss_pred CCCcEEEecCC
Confidence 38999997654
No 321
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=21.93 E-value=1.1e+02 Score=24.10 Aligned_cols=24 Identities=29% Similarity=0.211 Sum_probs=20.3
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcC
Q 025499 8 TIYVGNLPSDIREYEVEDLFYKYG 31 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~~G 31 (252)
.+.|+|||++++...|..++..+|
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPK 119 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCC
Confidence 378999999999999999987444
No 322
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=21.81 E-value=1.1e+02 Score=23.88 Aligned_cols=32 Identities=16% Similarity=0.142 Sum_probs=27.1
Q ss_pred ccEEEEeCCCCCCCHHHHHHHHHHhCCceEEE
Q 025499 124 EYRVIVRGLPSSASWQDLKDHMRKAGDVCFAE 155 (252)
Q Consensus 124 ~~~l~v~nl~~~~t~~~l~~~f~~~g~v~~~~ 155 (252)
..+||+-|+|...+++-|..+.+..|.+..+.
T Consensus 40 Kd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~ 71 (261)
T KOG4008|consen 40 KDCLFLVNVPLLSTEEHLKRFVSQLGHVQELL 71 (261)
T ss_pred ccceeeecccccccHHHHHHHHHHhhhhhhee
Confidence 36999999999999999999999988655443
No 323
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=21.80 E-value=74 Score=19.71 Aligned_cols=10 Identities=20% Similarity=0.258 Sum_probs=7.6
Q ss_pred CCeEEEEEEC
Q 025499 44 PPCYCFVEFE 53 (252)
Q Consensus 44 ~~g~afV~f~ 53 (252)
.+||+||+=.
T Consensus 12 ~KGfGFI~~~ 21 (74)
T PRK09937 12 AKGFGFICPE 21 (74)
T ss_pred CCCeEEEeeC
Confidence 3899999654
No 324
>KOG2854 consensus Possible pfkB family carbohydrate kinase [Carbohydrate transport and metabolism]
Probab=21.77 E-value=4.7e+02 Score=21.75 Aligned_cols=53 Identities=9% Similarity=0.022 Sum_probs=32.9
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhhcCceeEEEEecCCCCCeEEEEEECCH
Q 025499 3 GRFSRTIYVGNLPSDIREYEVEDLFYKYGRILDIELKIPPRPPCYCFVEFENA 55 (252)
Q Consensus 3 ~~~~~~l~v~~lp~~~t~~~l~~~f~~~G~v~~v~~~~~~~~~g~afV~f~~~ 55 (252)
..|..++|+|-+-.+=--+.|.+....-|--....++.+.....++.+...+.
T Consensus 78 ~~p~~~~f~GsvG~Dk~ge~l~~~~~~aGv~~~yq~~~d~~TGtCavli~~~n 130 (343)
T KOG2854|consen 78 QQPGATVFFGSVGKDKFGELLKSKARAAGVNVHYQVKEDGPTGTCAVLITGDN 130 (343)
T ss_pred cCCCceEEEeeccCchHHHHHHHHHHhcCceEEEEeccCCCCceEEEEEeCCC
Confidence 35779999999988877777888877777333333344433333444444433
No 325
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=21.51 E-value=69 Score=19.47 Aligned_cols=11 Identities=18% Similarity=0.392 Sum_probs=8.2
Q ss_pred CCeEEEEEECC
Q 025499 44 PPCYCFVEFEN 54 (252)
Q Consensus 44 ~~g~afV~f~~ 54 (252)
.+||+||+=.+
T Consensus 14 ~kGyGFI~~~~ 24 (69)
T PRK09507 14 SKGFGFITPED 24 (69)
T ss_pred CCCcEEEecCC
Confidence 38999997654
No 326
>PF05189 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC), insert domain; InterPro: IPR013796 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea. RNA 3'-terminal phosphate cyclase (6.5.1.4 from EC) [, ] catalyses the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate These enzymes might be responsible for production of the cyclic phosphate RNA ends that are known to be required by many RNA ligases in both prokaryotes and eukaryotes. RNA cyclase is a protein of from 36 to 42 kDa. The best conserved region is a glycine-rich stretch of residues located in the central part of the sequence and which is reminiscent of various ATP, GTP or AMP glycine-rich loops. The crystal structure of RNA 3'-terminal phosphate cyclase shows that each molecule consists of two domains. The larger domain contains three repeats of a folding unit comprising two parallel alpha helices and a four-stranded beta sheet; this fold was previously identified in translation initiation factor 3 (IF3). The large domain is similar to one of the two domains of 5-enolpyruvylshikimate-3-phosphate synthase and UDP-N-acetylglucosamine enolpyruvyl transferase. The smaller domain uses a similar secondary structure element with different topology, observed in many other proteins such as thioredoxin []. Although the active site of this enzyme could not be unambiguously assigned, it can be mapped to a region surrounding His309, an adenylate acceptor, in which a number of amino acids are highly conserved in the enzyme from different sources []. This entry contains the insert-domain of approximately 100 amino acids.; PDB: 3TV1_B 3KGD_D 1QMI_D 1QMH_B 3TUX_A 3TUT_A 3TW3_A 3PQV_A.
Probab=21.46 E-value=2.3e+02 Score=18.59 Aligned_cols=46 Identities=22% Similarity=0.236 Sum_probs=26.0
Q ss_pred EEEEcCCCCCCCHHHHHH---HHhhcCceeEEEE-----ecCCCCCeEEEEEEC
Q 025499 8 TIYVGNLPSDIREYEVED---LFYKYGRILDIEL-----KIPPRPPCYCFVEFE 53 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~---~f~~~G~v~~v~~-----~~~~~~~g~afV~f~ 53 (252)
..|+.+||.++.+.++.. .|..+++-..|.. .......|++.+.+.
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l~a 65 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISLVA 65 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEEEE
Confidence 358899999988777654 4455553344444 122345666555544
No 327
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=21.38 E-value=75 Score=19.21 Aligned_cols=40 Identities=20% Similarity=0.223 Sum_probs=20.0
Q ss_pred CCeEEEEEECCH-HHHHHHHHhc--CC--cccCCeeEEEEecCCC
Q 025499 44 PPCYCFVEFENA-RDAEDAIRGR--DG--YNFDGCRLRVELAHGG 83 (252)
Q Consensus 44 ~~g~afV~f~~~-~~a~~a~~~l--~~--~~~~g~~i~v~~~~~~ 83 (252)
.+||+||+=.+. +++--=+..+ .+ .+-.|..+........
T Consensus 12 ~kGfGFI~~~~g~~dvfvH~s~~~~~g~~~l~~G~~V~f~~~~~~ 56 (68)
T TIGR02381 12 AKGFGFICPEGVDGDIFAHYSTIQMDGYRTLKAGQKVQFEVVQGP 56 (68)
T ss_pred CCCeEEEecCCCCccEEEEHHHhhhcCCCCCCCCCEEEEEEEECC
Confidence 389999977652 2221111112 22 2345666666665543
No 328
>PRK14998 cold shock-like protein CspD; Provisional
Probab=21.37 E-value=78 Score=19.54 Aligned_cols=11 Identities=18% Similarity=0.247 Sum_probs=8.2
Q ss_pred CCeEEEEEECC
Q 025499 44 PPCYCFVEFEN 54 (252)
Q Consensus 44 ~~g~afV~f~~ 54 (252)
.+||+||+=.+
T Consensus 12 ~kGfGFI~~~~ 22 (73)
T PRK14998 12 AKGFGFICPEG 22 (73)
T ss_pred CCceEEEecCC
Confidence 38999997654
No 329
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=20.40 E-value=1.3e+02 Score=24.01 Aligned_cols=22 Identities=27% Similarity=0.239 Sum_probs=18.7
Q ss_pred EEEEcCCCCCCCHHHHHHHHhh
Q 025499 8 TIYVGNLPSDIREYEVEDLFYK 29 (252)
Q Consensus 8 ~l~v~~lp~~~t~~~l~~~f~~ 29 (252)
.+.|+|+|+.++..-|..++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 5789999999998888888764
No 330
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=20.25 E-value=54 Score=28.76 Aligned_cols=39 Identities=41% Similarity=0.622 Sum_probs=34.6
Q ss_pred CeEEEEEECCHHHHHHHHHhcCCcccCCeeEEEEecCCC
Q 025499 45 PCYCFVEFENARDAEDAIRGRDGYNFDGCRLRVELAHGG 83 (252)
Q Consensus 45 ~g~afV~f~~~~~a~~a~~~l~~~~~~g~~i~v~~~~~~ 83 (252)
..|++++|++++.+.+|+..++|..+.+..+.+......
T Consensus 63 ~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~~~ 101 (534)
T KOG2187|consen 63 PKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGATE 101 (534)
T ss_pred CCceEEEEeccchhhhHHHHHhhhhhhcchhhhhhcccc
Confidence 578999999999999999999999999988888877544
No 331
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.19 E-value=1.9e+02 Score=16.47 Aligned_cols=43 Identities=12% Similarity=0.114 Sum_probs=26.1
Q ss_pred HHHHHHHhhcC-ceeEEEEecCC-CCCeEEEEEECCHHHHHHHHH
Q 025499 21 YEVEDLFYKYG-RILDIELKIPP-RPPCYCFVEFENARDAEDAIR 63 (252)
Q Consensus 21 ~~l~~~f~~~G-~v~~v~~~~~~-~~~g~afV~f~~~~~a~~a~~ 63 (252)
.+|..+|..+| .|..+...... .......+...+.+.+.+++.
T Consensus 14 ~~i~~~l~~~~~nI~~i~~~~~~~~~~~~v~~~ve~~~~~~~~L~ 58 (65)
T cd04882 14 HEILQILSEEGINIEYMYAFVEKKGGKALLIFRTEDIEKAIEVLQ 58 (65)
T ss_pred HHHHHHHHHCCCChhheEEEccCCCCeEEEEEEeCCHHHHHHHHH
Confidence 56778888887 66666553332 223444555667666666666
Done!