Query 023954
Match_columns 275
No_of_seqs 350 out of 2170
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 07:51:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023954.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023954hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0116 RasGAP SH3 binding pro 100.0 5E-39 1.1E-43 303.2 21.7 264 1-275 68-355 (419)
2 KOG2104 Nuclear transport fact 99.8 4.5E-19 9.8E-24 137.9 6.5 63 1-64 56-120 (126)
3 cd00780 NTF2 Nuclear transport 99.4 2.3E-13 4.9E-18 108.5 6.7 61 1-63 53-115 (119)
4 KOG0149 Predicted RNA-binding 99.4 3.3E-13 7.2E-18 117.3 7.8 68 206-275 10-80 (247)
5 PLN03134 glycine-rich RNA-bind 99.3 4.7E-12 1E-16 104.6 9.1 62 207-270 33-96 (144)
6 PF00076 RRM_1: RNA recognitio 99.3 7.5E-12 1.6E-16 88.9 7.6 58 211-270 1-59 (70)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.3 3.4E-11 7.4E-16 112.1 11.2 63 206-270 267-331 (352)
8 PF14259 RRM_6: RNA recognitio 99.2 4E-11 8.7E-16 86.0 7.4 62 211-274 1-64 (70)
9 KOG0125 Ataxin 2-binding prote 99.2 8.4E-11 1.8E-15 106.6 9.5 62 207-270 95-156 (376)
10 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.2 7E-11 1.5E-15 110.0 8.8 60 208-269 3-64 (352)
11 PLN03120 nucleic acid binding 99.2 8.6E-11 1.9E-15 104.9 8.8 64 208-274 4-67 (260)
12 TIGR01659 sex-lethal sex-letha 99.2 1.2E-10 2.7E-15 109.1 9.7 64 204-269 103-168 (346)
13 PF02136 NTF2: Nuclear transpo 99.1 4.8E-11 1E-15 94.2 5.3 61 2-63 52-116 (118)
14 PLN03121 nucleic acid binding 99.1 2.2E-10 4.7E-15 101.0 9.0 65 207-274 4-68 (243)
15 KOG0113 U1 small nuclear ribon 99.1 3.1E-10 6.7E-15 101.8 8.2 67 206-274 99-168 (335)
16 smart00362 RRM_2 RNA recogniti 99.1 7.9E-10 1.7E-14 77.4 8.1 60 210-271 1-60 (72)
17 KOG0122 Translation initiation 99.1 3.3E-10 7.1E-15 99.2 7.3 63 206-270 187-251 (270)
18 TIGR01645 half-pint poly-U bin 99.1 4.1E-10 8.8E-15 111.9 8.7 62 207-270 106-169 (612)
19 PLN03213 repressor of silencin 99.1 4.3E-10 9.3E-15 106.8 7.9 61 206-270 8-70 (759)
20 TIGR01659 sex-lethal sex-letha 99.0 5.1E-10 1.1E-14 104.9 8.4 61 208-270 193-255 (346)
21 TIGR01645 half-pint poly-U bin 99.0 8.3E-10 1.8E-14 109.7 8.5 62 207-270 203-266 (612)
22 KOG0144 RNA-binding protein CU 99.0 1.2E-09 2.7E-14 102.2 8.5 67 204-272 30-98 (510)
23 TIGR01622 SF-CC1 splicing fact 99.0 1.4E-09 3E-14 105.0 9.2 66 205-272 86-153 (457)
24 KOG0121 Nuclear cap-binding pr 99.0 7E-10 1.5E-14 88.5 5.7 62 206-269 34-97 (153)
25 KOG0107 Alternative splicing f 99.0 7.9E-10 1.7E-14 92.5 5.9 59 207-270 9-67 (195)
26 KOG0127 Nucleolar protein fibr 98.9 2.5E-09 5.4E-14 102.7 8.8 66 203-270 287-354 (678)
27 KOG0114 Predicted RNA-binding 98.9 2.1E-09 4.6E-14 82.9 6.7 60 207-269 17-76 (124)
28 TIGR01648 hnRNP-R-Q heterogene 98.9 2.3E-09 5E-14 106.2 8.6 62 207-270 57-119 (578)
29 TIGR01642 U2AF_lg U2 snRNP aux 98.9 2.8E-09 6E-14 104.2 9.1 62 207-270 294-357 (509)
30 TIGR01628 PABP-1234 polyadenyl 98.9 2.3E-09 4.9E-14 106.4 8.5 59 210-270 2-62 (562)
31 COG0724 RNA-binding proteins ( 98.9 4.8E-09 1E-13 91.3 8.2 62 208-271 115-178 (306)
32 KOG0105 Alternative splicing f 98.9 2.3E-09 5E-14 90.6 5.1 61 207-270 5-65 (241)
33 KOG0117 Heterogeneous nuclear 98.9 5.4E-09 1.2E-13 98.3 7.3 62 207-270 82-145 (506)
34 smart00360 RRM RNA recognition 98.9 1.2E-08 2.6E-13 70.9 7.4 57 213-271 1-59 (71)
35 TIGR01628 PABP-1234 polyadenyl 98.8 9.6E-09 2.1E-13 102.0 8.9 63 206-270 283-346 (562)
36 TIGR01622 SF-CC1 splicing fact 98.8 1.1E-08 2.5E-13 98.7 8.6 61 208-270 186-248 (457)
37 cd00590 RRM RRM (RNA recogniti 98.8 2.3E-08 5E-13 70.2 8.0 59 210-270 1-60 (74)
38 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.8 1.1E-08 2.3E-13 100.1 8.4 56 208-269 2-57 (481)
39 KOG0146 RNA-binding protein ET 98.8 1.4E-08 2.9E-13 90.3 6.1 67 204-270 281-347 (371)
40 KOG0148 Apoptosis-promoting RN 98.7 2.1E-08 4.6E-13 89.2 7.2 59 205-269 161-219 (321)
41 KOG4207 Predicted splicing fac 98.7 1.6E-08 3.5E-13 86.8 5.8 67 206-274 11-80 (256)
42 KOG4353 RNA export factor NXT1 98.7 1.3E-08 2.7E-13 80.9 4.5 52 3-55 64-121 (139)
43 KOG0145 RNA-binding protein EL 98.7 1.9E-08 4.2E-13 89.1 4.5 63 206-270 125-189 (360)
44 KOG0130 RNA-binding protein RB 98.7 3.6E-08 7.9E-13 79.5 5.6 63 206-270 70-134 (170)
45 KOG0144 RNA-binding protein CU 98.7 1.6E-08 3.4E-13 94.9 3.7 62 207-270 123-185 (510)
46 KOG0131 Splicing factor 3b, su 98.6 6.3E-08 1.4E-12 81.7 5.5 63 205-269 6-70 (203)
47 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.6 1.4E-07 3E-12 92.3 8.7 62 207-270 393-456 (481)
48 KOG0127 Nucleolar protein fibr 98.6 7E-08 1.5E-12 92.9 6.4 62 207-270 4-67 (678)
49 KOG0148 Apoptosis-promoting RN 98.6 1.1E-07 2.3E-12 84.8 6.8 61 207-269 61-123 (321)
50 KOG0126 Predicted RNA-binding 98.6 2.3E-08 5E-13 84.3 2.0 56 206-263 33-90 (219)
51 KOG4205 RNA-binding protein mu 98.5 6.7E-08 1.5E-12 89.0 4.4 66 207-274 5-72 (311)
52 KOG0117 Heterogeneous nuclear 98.5 1.2E-07 2.7E-12 89.3 6.0 57 206-270 257-313 (506)
53 KOG4661 Hsp27-ERE-TATA-binding 98.5 3.9E-07 8.4E-12 88.2 9.3 64 205-270 402-467 (940)
54 KOG0124 Polypyrimidine tract-b 98.5 7.1E-08 1.5E-12 89.0 4.2 67 207-275 112-181 (544)
55 TIGR01642 U2AF_lg U2 snRNP aux 98.5 2.2E-07 4.8E-12 90.8 7.9 63 205-273 172-246 (509)
56 KOG0108 mRNA cleavage and poly 98.5 1.6E-07 3.4E-12 90.2 6.6 60 209-270 19-80 (435)
57 TIGR01648 hnRNP-R-Q heterogene 98.5 3.7E-07 8.1E-12 90.7 8.7 56 207-270 232-289 (578)
58 KOG0111 Cyclophilin-type pepti 98.5 8.4E-08 1.8E-12 83.2 2.7 61 207-269 9-71 (298)
59 KOG0147 Transcriptional coacti 98.4 2E-07 4.4E-12 89.8 4.2 62 207-270 277-340 (549)
60 KOG0123 Polyadenylate-binding 98.4 8.7E-07 1.9E-11 83.9 6.9 58 210-270 78-135 (369)
61 KOG0146 RNA-binding protein ET 98.3 6.7E-07 1.5E-11 79.7 5.3 63 207-270 18-80 (371)
62 smart00361 RRM_1 RNA recogniti 98.3 2.2E-06 4.9E-11 61.7 6.3 47 222-270 2-57 (70)
63 KOG0109 RNA-binding protein LA 98.3 6.4E-07 1.4E-11 80.6 4.1 54 209-270 3-56 (346)
64 KOG0145 RNA-binding protein EL 98.3 3.5E-06 7.6E-11 74.9 8.3 61 207-269 40-102 (360)
65 KOG0131 Splicing factor 3b, su 98.2 1.4E-06 3E-11 73.7 4.8 63 207-270 95-159 (203)
66 KOG0124 Polypyrimidine tract-b 98.2 1.3E-06 2.8E-11 80.8 4.9 64 204-269 206-271 (544)
67 KOG0110 RNA-binding protein (R 98.2 9.6E-07 2.1E-11 87.4 4.2 62 207-270 612-675 (725)
68 KOG0415 Predicted peptidyl pro 98.2 1.5E-06 3.3E-11 80.0 5.3 62 204-267 235-298 (479)
69 KOG4208 Nucleolar RNA-binding 98.2 3.9E-06 8.4E-11 72.2 6.6 60 207-268 48-110 (214)
70 PF13893 RRM_5: RNA recognitio 98.2 6.2E-06 1.3E-10 56.5 6.0 41 225-270 1-41 (56)
71 KOG0153 Predicted RNA-binding 98.1 4.6E-06 1E-10 76.7 6.1 59 206-270 226-284 (377)
72 KOG4205 RNA-binding protein mu 98.1 2.3E-06 4.9E-11 79.0 4.0 62 207-270 96-159 (311)
73 KOG4206 Spliceosomal protein s 98.1 1.2E-05 2.6E-10 70.1 7.1 60 208-270 9-72 (221)
74 KOG0132 RNA polymerase II C-te 98.0 7.2E-06 1.6E-10 82.0 6.1 57 208-270 421-477 (894)
75 KOG4212 RNA-binding protein hn 98.0 1.8E-05 3.9E-10 74.9 7.5 62 206-269 42-105 (608)
76 KOG0110 RNA-binding protein (R 97.9 1.5E-05 3.3E-10 79.0 6.5 60 209-270 516-580 (725)
77 KOG1457 RNA binding protein (c 97.9 9.5E-05 2.1E-09 64.6 9.2 63 206-270 32-97 (284)
78 KOG0123 Polyadenylate-binding 97.8 3.6E-05 7.8E-10 73.0 6.5 57 209-271 2-58 (369)
79 KOG0226 RNA-binding proteins [ 97.8 5.8E-05 1.3E-09 67.0 6.3 76 193-270 175-252 (290)
80 KOG0151 Predicted splicing reg 97.8 8E-05 1.7E-09 74.1 7.9 64 205-270 171-239 (877)
81 KOG4212 RNA-binding protein hn 97.7 7.1E-05 1.5E-09 70.9 6.4 60 205-269 533-592 (608)
82 KOG0106 Alternative splicing f 97.7 2.9E-05 6.2E-10 68.0 3.1 54 209-270 2-55 (216)
83 KOG4660 Protein Mei2, essentia 97.6 7.9E-05 1.7E-09 72.3 5.6 60 206-270 73-132 (549)
84 KOG4209 Splicing factor RNPS1, 97.6 8.5E-05 1.8E-09 66.1 4.9 63 206-270 99-163 (231)
85 KOG0109 RNA-binding protein LA 97.5 0.00012 2.7E-09 66.1 4.4 54 207-268 77-130 (346)
86 KOG1457 RNA binding protein (c 97.5 0.00011 2.4E-09 64.2 3.8 59 207-269 209-267 (284)
87 KOG0533 RRM motif-containing p 97.4 0.00042 9.1E-09 61.9 6.8 62 207-270 82-144 (243)
88 PF04059 RRM_2: RNA recognitio 97.4 0.00088 1.9E-08 51.6 7.3 58 209-268 2-63 (97)
89 KOG1548 Transcription elongati 97.3 0.00066 1.4E-08 62.7 7.0 63 207-269 133-202 (382)
90 KOG4211 Splicing factor hnRNP- 97.3 0.00078 1.7E-08 64.8 7.3 65 207-274 9-73 (510)
91 PF08777 RRM_3: RNA binding mo 97.2 0.00094 2E-08 52.2 6.0 57 208-270 1-57 (105)
92 KOG0129 Predicted RNA-binding 97.1 0.00071 1.5E-08 65.4 5.6 63 206-271 257-327 (520)
93 KOG4454 RNA binding protein (R 97.1 0.00026 5.7E-09 61.7 1.9 61 207-269 8-68 (267)
94 KOG4210 Nuclear localization s 96.7 0.00093 2E-08 61.3 2.5 61 207-269 183-246 (285)
95 KOG4211 Splicing factor hnRNP- 96.6 0.0044 9.6E-08 59.7 6.1 67 207-274 102-169 (510)
96 KOG0147 Transcriptional coacti 96.6 0.00067 1.5E-08 65.9 0.5 66 203-270 174-241 (549)
97 KOG0129 Predicted RNA-binding 96.5 0.0066 1.4E-07 58.9 6.5 67 206-274 368-437 (520)
98 PF14605 Nup35_RRM_2: Nup53/35 96.3 0.011 2.4E-07 40.3 5.3 52 209-267 2-53 (53)
99 KOG1190 Polypyrimidine tract-b 96.0 0.0087 1.9E-07 56.6 4.4 53 207-265 27-79 (492)
100 KOG0115 RNA-binding protein p5 95.8 0.0095 2.1E-07 53.2 3.7 61 209-270 32-92 (275)
101 KOG4206 Spliceosomal protein s 95.7 0.028 6E-07 49.3 6.3 59 207-270 145-203 (221)
102 KOG1365 RNA-binding protein Fu 95.7 0.022 4.7E-07 53.7 5.9 67 208-275 161-231 (508)
103 KOG0120 Splicing factor U2AF, 95.7 0.009 2E-07 58.4 3.3 63 206-270 287-351 (500)
104 PF05172 Nup35_RRM: Nup53/35/4 95.3 0.065 1.4E-06 41.5 6.3 64 208-274 6-78 (100)
105 KOG1995 Conserved Zn-finger pr 95.1 0.033 7.2E-07 51.9 4.9 64 205-268 63-134 (351)
106 KOG0128 RNA-binding protein SA 94.8 0.0033 7.2E-08 64.0 -2.7 63 206-270 665-729 (881)
107 KOG1855 Predicted RNA-binding 94.7 0.042 9.1E-07 52.4 4.5 65 204-270 227-306 (484)
108 KOG0106 Alternative splicing f 94.6 0.021 4.5E-07 50.2 2.1 56 207-270 98-153 (216)
109 PF11608 Limkain-b1: Limkain b 94.6 0.12 2.7E-06 38.7 5.8 52 209-269 3-58 (90)
110 KOG4849 mRNA cleavage factor I 94.5 0.031 6.7E-07 52.1 3.2 62 207-271 79-145 (498)
111 COG5175 MOT2 Transcriptional r 94.4 0.08 1.7E-06 49.2 5.6 61 208-270 114-185 (480)
112 PF10309 DUF2414: Protein of u 94.4 0.31 6.6E-06 34.5 7.2 54 207-269 4-61 (62)
113 KOG2193 IGF-II mRNA-binding pr 92.9 0.12 2.5E-06 49.4 3.9 56 209-270 2-57 (584)
114 KOG2314 Translation initiation 92.8 0.16 3.4E-06 50.2 4.8 62 207-270 57-125 (698)
115 KOG0105 Alternative splicing f 91.9 0.52 1.1E-05 40.5 6.3 57 207-270 114-170 (241)
116 KOG0112 Large RNA-binding prot 90.7 0.25 5.4E-06 51.2 3.7 58 206-269 453-510 (975)
117 PF08675 RNA_bind: RNA binding 90.3 0.99 2.2E-05 33.9 5.7 54 208-270 9-62 (87)
118 KOG3152 TBP-binding protein, a 90.0 0.22 4.7E-06 44.7 2.3 60 207-268 73-146 (278)
119 KOG1190 Polypyrimidine tract-b 89.9 1 2.2E-05 43.1 6.8 58 208-270 297-355 (492)
120 KOG0128 RNA-binding protein SA 89.8 0.16 3.5E-06 52.2 1.6 60 208-269 736-796 (881)
121 KOG1365 RNA-binding protein Fu 89.7 0.27 5.8E-06 46.5 2.8 64 208-271 280-345 (508)
122 KOG4676 Splicing factor, argin 89.2 0.32 7E-06 46.1 2.9 57 208-266 7-68 (479)
123 KOG1456 Heterogeneous nuclear 88.9 0.89 1.9E-05 43.0 5.6 56 207-268 30-85 (494)
124 KOG0112 Large RNA-binding prot 88.3 0.12 2.5E-06 53.5 -0.6 65 202-268 366-431 (975)
125 KOG4307 RNA binding protein RB 85.9 1 2.2E-05 45.8 4.3 61 210-274 4-64 (944)
126 KOG4307 RNA binding protein RB 85.3 2.2 4.7E-05 43.5 6.3 61 208-269 866-928 (944)
127 PF10429 Mtr2: Nuclear pore RN 83.7 1.8 3.9E-05 36.4 4.3 44 7-51 65-109 (166)
128 KOG4410 5-formyltetrahydrofola 83.2 4.3 9.2E-05 37.2 6.8 49 208-261 330-378 (396)
129 KOG2068 MOT2 transcription fac 83.1 0.76 1.6E-05 42.7 2.0 61 209-271 78-146 (327)
130 KOG2253 U1 snRNP complex, subu 83.1 2.1 4.6E-05 43.2 5.2 55 207-270 39-93 (668)
131 KOG0120 Splicing factor U2AF, 82.9 2.4 5.1E-05 41.9 5.4 46 223-270 424-474 (500)
132 PF15023 DUF4523: Protein of u 80.0 6.7 0.00015 32.5 6.2 59 206-271 84-146 (166)
133 PF03467 Smg4_UPF3: Smg-4/UPF3 79.4 2.4 5.2E-05 36.1 3.7 62 207-268 6-73 (176)
134 KOG1456 Heterogeneous nuclear 79.1 6.7 0.00014 37.3 6.7 59 206-269 285-344 (494)
135 KOG4285 Mitotic phosphoprotein 77.5 8.2 0.00018 35.7 6.6 61 206-275 197-257 (350)
136 PF08952 DUF1866: Domain of un 76.7 6.9 0.00015 32.4 5.5 44 224-275 52-95 (146)
137 KOG4210 Nuclear localization s 72.0 1.9 4.1E-05 39.6 1.2 63 207-271 87-151 (285)
138 KOG2416 Acinus (induces apopto 71.7 2.5 5.4E-05 42.3 2.0 60 206-270 442-501 (718)
139 KOG2202 U2 snRNP splicing fact 68.7 2.3 4.9E-05 38.3 1.0 45 223-269 83-129 (260)
140 PF07576 BRAP2: BRCA1-associat 63.5 65 0.0014 25.3 8.2 60 208-268 12-72 (110)
141 KOG2591 c-Mpl binding protein, 61.0 35 0.00076 34.2 7.5 58 205-269 172-231 (684)
142 KOG1548 Transcription elongati 60.6 21 0.00046 33.6 5.7 60 206-269 263-333 (382)
143 cd00531 NTF2_like Nuclear tran 45.6 76 0.0016 23.0 5.9 51 7-57 63-116 (124)
144 PRK11901 hypothetical protein; 44.3 2.8E+02 0.006 26.1 11.1 60 207-272 244-306 (327)
145 PF13474 SnoaL_3: SnoaL-like d 40.7 95 0.0021 23.0 5.8 53 7-60 60-114 (121)
146 PF15513 DUF4651: Domain of un 40.5 57 0.0012 23.0 4.0 19 223-243 9-27 (62)
147 KOG4660 Protein Mei2, essentia 39.7 37 0.0008 33.8 4.0 32 239-270 418-451 (549)
148 PF09707 Cas_Cas2CT1978: CRISP 38.0 66 0.0014 24.1 4.3 48 208-258 25-72 (86)
149 KOG2135 Proteins containing th 37.3 14 0.0003 36.2 0.6 50 216-271 380-430 (526)
150 KOG4676 Splicing factor, argin 37.3 8.2 0.00018 36.9 -0.9 59 208-270 151-209 (479)
151 KOG4483 Uncharacterized conser 36.0 94 0.002 30.1 5.8 57 208-270 391-447 (528)
152 PF11767 SET_assoc: Histone ly 35.1 1.6E+02 0.0036 20.8 5.7 44 219-271 11-54 (66)
153 KOG1996 mRNA splicing factor [ 34.0 1E+02 0.0022 28.7 5.5 44 223-268 301-347 (378)
154 PRK11558 putative ssRNA endonu 32.9 73 0.0016 24.5 3.8 48 209-259 28-75 (97)
155 TIGR01873 cas_CT1978 CRISPR-as 32.8 55 0.0012 24.7 3.1 48 209-259 26-74 (87)
156 KOG2891 Surface glycoprotein [ 32.7 35 0.00076 31.3 2.4 33 208-242 149-193 (445)
157 COG0724 RNA-binding proteins ( 27.0 80 0.0017 26.5 3.7 38 206-245 223-260 (306)
158 PF03468 XS: XS domain; Inter 24.7 1.3E+02 0.0029 23.6 4.2 44 221-267 30-74 (116)
159 PF13046 DUF3906: Protein of u 24.5 74 0.0016 22.6 2.3 33 221-255 31-63 (64)
160 PF12623 Hen1_L: RNA repair, l 23.9 60 0.0013 29.0 2.3 52 7-63 147-203 (245)
161 PF14026 DUF4242: Protein of u 22.1 3.1E+02 0.0068 19.8 8.2 61 211-273 3-70 (77)
162 KOG4454 RNA binding protein (R 20.6 26 0.00057 31.1 -0.6 67 202-270 74-145 (267)
163 COG3254 Uncharacterized conser 20.5 2.6E+02 0.0057 21.8 4.9 47 224-273 28-74 (105)
164 KOG0926 DEAH-box RNA helicase 20.1 55 0.0012 34.7 1.4 29 18-46 479-509 (1172)
No 1
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=100.00 E-value=5e-39 Score=303.24 Aligned_cols=264 Identities=28% Similarity=0.463 Sum_probs=158.1
Q ss_pred CCCCcc--ceEEeeeeecccCCCcEEEEEEeEEEecCccccccceeEEEeeecCCCCeEeecCccc-cccccCCCC----
Q 023954 1 MSLNYS--GIEIKTAHSLESWNGGVLVMVSGSVQVKDFSARRKFVQTFFLAPQEKVPNHLMGGEIQ-AREYVSPVD---- 73 (275)
Q Consensus 1 ~sl~f~--~~~i~t~D~q~s~~~gi~v~v~G~~~~~~~~~~~~F~Q~F~L~~~~~g~~~v~~~~~~-~~~~~~~~~---- 73 (275)
|+|+|+ +++|+|+|+|.||++||||||||.|+.+| ..+|+|+|||||+||++|| ||+||.|+ ..+.+.++.
T Consensus 68 ~sld~~~~s~eI~tvdsQ~S~~~GvvI~VtG~lt~~~-~~rRkF~QtFfLapq~~~y-fVlNDiFRfvde~~~~e~~~~~ 145 (419)
T KOG0116|consen 68 MSLDYEVCSVEISTVDSQASLEKGVVIMVTGYLTNKD-GPRRKFSQTFFLAPQEKGY-FVLNDIFRFVDEEFEPEANTDE 145 (419)
T ss_pred eecCCCceeEEEEEEehhhhccCCeEEEEEEEEEeCC-CcceEEEEEEEEeecCCce-EEEechhhhccccccccccccc
Confidence 789999 89999999999999999999999999999 8899999999999999865 99999975 221111111
Q ss_pred CCCCC------------CCCCCCCCccccccCCCccc-cccC--CCccc-ccccCCCcCCCCCCCCCCCCCCCCCCCCCC
Q 023954 74 VKQNG------------LIDDYSFPEQRLQQVPESEN-ILED--SPAEE-LNGSLQNAVNAAQDYLPASVEEPVGEPQKH 137 (275)
Q Consensus 74 ~~~~~------------~~~~~~~~e~~~~~~~e~~~-v~e~--~~~ee-~~~~~~~~~~~~~~~~~~~~~~~~ee~pkk 137 (275)
+.+.. .+......+.+.......+. |.++ ..++. ...+.+.... ++......+..++.+++|+
T Consensus 146 vp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~~~~~~~~~~~~~~~ee~v-~~~~~~~~p~~~~~~~~~~ 224 (419)
T KOG0116|consen 146 VPEANPAVVVSVEKASQLVEAVVESEPEPEPEPKAEDEVEVPEEATVEDEAKEKTKEELV-IQQTVSEAPAAPQGDAPKK 224 (419)
T ss_pred CCCCCcceeecccccccccccccccCCCCcccccccCceeccccccccccccccCchhhc-ccccccCCCccccccccch
Confidence 11000 00000000000000000000 1110 11110 1111111111 1111111222337899999
Q ss_pred chHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCcccccCccccCCCCCCCCcCCccccccCCCcEEEEcCC
Q 023954 138 TYASILRVAKGQSTPSVTPQPSVSKNISPVSDWNH-VPQPTTQQETVSSYAYEKSWADTGEEISAVEDEEEIKSVYVRNL 216 (275)
Q Consensus 138 syAsiv~~~k~~~~~~~~~~~p~~~~~~p~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ifV~nL 216 (275)
+||||++.++....+......|... .++++ ...+.+.....++........ .+.+..+.......|||+||
T Consensus 225 s~asv~~~~~~~~~~~~~~~~p~~~-----~~~~~p~~~~~~~~~s~~~~p~~~~~~---~n~~~~~~~~~~~~i~V~nl 296 (419)
T KOG0116|consen 225 SFASVVKVLKKSAAVQQSKGSPPQI-----QPQQQPSTKPQAERQSKPPSPVRESKS---GNSNNQEPRADGLGIFVKNL 296 (419)
T ss_pred hhhhhhhhcccccccceeccCCCcc-----ccccCCccCcchhhccCCCCccccccc---cccCCcceeecccceEeecC
Confidence 9999999987766552222211111 11111 011110011111111111111 12233444556777999999
Q ss_pred CCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcCccCC
Q 023954 217 PPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 275 (275)
Q Consensus 217 p~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~pi~ig 275 (275)
|++++.++|+++|++||.|+.++|.++...+.+.|||||+|++.+++++||+|++++||
T Consensus 297 P~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig 355 (419)
T KOG0116|consen 297 PPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIG 355 (419)
T ss_pred CCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccC
Confidence 99999999999999999999888888875444469999999999999999999999997
No 2
>KOG2104 consensus Nuclear transport factor 2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.77 E-value=4.5e-19 Score=137.85 Aligned_cols=63 Identities=27% Similarity=0.440 Sum_probs=59.3
Q ss_pred CCCCcc--ceEEeeeeecccCCCcEEEEEEeEEEecCccccccceeEEEeeecCCCCeEeecCccc
Q 023954 1 MSLNYS--GIEIKTAHSLESWNGGVLVMVSGSVQVKDFSARRKFVQTFFLAPQEKVPNHLMGGEIQ 64 (275)
Q Consensus 1 ~sl~f~--~~~i~t~D~q~s~~~gi~v~v~G~~~~~~~~~~~~F~Q~F~L~~~~~g~~~v~~~~~~ 64 (275)
.||||+ +|.|+|+||||+..|||||||+|+|++++ ++.++|+|+|+|.|..+|.|||.||.|+
T Consensus 56 ~sLpFqkiqh~IttvD~QPt~~g~ilv~V~G~Lk~dE-d~~~~FsQvF~L~~n~~~~~~v~ndiFR 120 (126)
T KOG2104|consen 56 TSLPFQKIQHSITTVDSQPTPDGGILVMVVGQLKLDE-DPILRFSQVFLLKPNIQGSYYVFNDIFR 120 (126)
T ss_pred hcCChhhhhceeeecccccCCCCcEEEEEeeeeeecc-CCccceeeEEEEeEcCCCCEEEEeeeEE
Confidence 489999 89999999999999999999999999996 9999999999999998888899999974
No 3
>cd00780 NTF2 Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of macromolecules, ions and small molecules between the cytoplasm and nucleus. This bi-directional transport of macromolecules across the nuclear envelope requires many soluble factors that includes GDP-binding protein Ran (RanGDP). RanGDP is required for both import and export of proteins and poly(A) RNA. RanGDP also has been implicated in cell cycle control, specifically in mitotic spindle assembly. In interphase cells, RanGDP is predominately nuclear and thought to be GTP bound, but it is also present in the cytoplasm, probably in the GDP-bound state. NTF2 mediates the nuclear import of RanGDP. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins.
Probab=99.43 E-value=2.3e-13 Score=108.46 Aligned_cols=61 Identities=38% Similarity=0.554 Sum_probs=55.2
Q ss_pred CCCCcc--ceEEeeeeecccCCCcEEEEEEeEEEecCccccccceeEEEeeecCCCCeEeecCcc
Q 023954 1 MSLNYS--GIEIKTAHSLESWNGGVLVMVSGSVQVKDFSARRKFVQTFFLAPQEKVPNHLMGGEI 63 (275)
Q Consensus 1 ~sl~f~--~~~i~t~D~q~s~~~gi~v~v~G~~~~~~~~~~~~F~Q~F~L~~~~~g~~~v~~~~~ 63 (275)
++|+++ +|+|.++|||++.++||||+|+|.|+.++ +..|+|+|+|+|.+++ +.|||.||.+
T Consensus 53 ~~lp~~~~~~~i~~~d~q~~~~~~ili~V~G~~~~~~-~~~~~F~q~F~L~~~~-~~~~I~nD~f 115 (119)
T cd00780 53 SSLPFQKTKHKITTVDSQPTPSGGVIVMVTGSLKLDE-QPPRKFSQTFVLAPQN-GGYFVLNDIF 115 (119)
T ss_pred HhCCCcceEEEEEEEeeeEcCCCCEEEEEEEEEEECC-CCceeEeEEEEEEecC-CeEEEEeeEE
Confidence 367853 99999999999999999999999999998 8899999999999999 4559999986
No 4
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.43 E-value=3.3e-13 Score=117.29 Aligned_cols=68 Identities=22% Similarity=0.384 Sum_probs=60.9
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc-CccCC
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMWH 275 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~-pi~ig 275 (275)
...++||||||+|.++.+.|++.|++||+|. ...|..|+.++ ||||||+|.|.++|.||++.. ||+.|
T Consensus 10 T~~TKifVggL~w~T~~~~l~~yFeqfGeI~--eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdG 80 (247)
T KOG0149|consen 10 TTFTKIFVGGLAWETHKETLRRYFEQFGEIV--EAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDG 80 (247)
T ss_pred ceEEEEEEcCcccccchHHHHHHHHHhCceE--EEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccc
Confidence 4678999999999999999999999999999 78888888766 899999999999999999876 66544
No 5
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.34 E-value=4.7e-12 Score=104.60 Aligned_cols=62 Identities=16% Similarity=0.400 Sum_probs=56.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..++|||+||++++++++|+++|++||.|. .+.|..++.++ +|||||+|.+.++|++||+..
T Consensus 33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~--~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~l 96 (144)
T PLN03134 33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVV--DAKVIVDRETGRSRGFGFVNFNDEGAATAAISEM 96 (144)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCeE--EEEEEecCCCCCcceEEEEEECCHHHHHHHHHHc
Confidence 468999999999999999999999999999 88887776554 899999999999999999853
No 6
>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=99.31 E-value=7.5e-12 Score=88.92 Aligned_cols=58 Identities=36% Similarity=0.646 Sum_probs=52.1
Q ss_pred EEEcCCCCCCCHHHHHHHHhccCceeEceEEEecC-CCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 211 VYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR-KDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 211 ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~-~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
|||+|||.++++++|+++|++||.|. .+.+..+ .+..+|||||+|.+.++|++||+..
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~--~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l 59 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIE--SIKVMRNSSGKSKGYAFVEFESEEDAEKALEEL 59 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEE--EEEEEEETTSSEEEEEEEEESSHHHHHHHHHHH
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcc--cccccccccccccceEEEEEcCHHHHHHHHHHc
Confidence 79999999999999999999999998 8888774 4444899999999999999999843
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.26 E-value=3.4e-11 Score=112.10 Aligned_cols=63 Identities=22% Similarity=0.308 Sum_probs=56.6
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..+++|||+|||+++++++|+++|++||.|. .++|..++.++ ||||||.|.+.++|.+||++.
T Consensus 267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~--~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~l 331 (352)
T TIGR01661 267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQ--NVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSL 331 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeE--EEEEeEcCCCCCccceEEEEECCHHHHHHHHHHh
Confidence 4567899999999999999999999999999 88887776444 999999999999999999864
No 8
>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=99.22 E-value=4e-11 Score=85.97 Aligned_cols=62 Identities=34% Similarity=0.563 Sum_probs=52.9
Q ss_pred EEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCC-CCccEEEEEeCCHHHHHHHHHhcC-ccC
Q 023954 211 VYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD-VGICYAFVEFEDMTGVRNAVEVCI-LMW 274 (275)
Q Consensus 211 ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~-~grgfgFV~F~~~~~a~~Ai~a~p-i~i 274 (275)
|||+|||+++++++|+++|..||.|. .+.+..++. ..+|+|||+|.+.++|.+||+... .+|
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~--~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~ 64 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVE--KVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEI 64 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEE--EEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcc--eEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEE
Confidence 79999999999999999999999998 888877654 338999999999999999999886 554
No 9
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.19 E-value=8.4e-11 Score=106.63 Aligned_cols=62 Identities=23% Similarity=0.315 Sum_probs=56.8
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..++|||.|||+...+.||+.+|.+||+|. +|.|+.+..-+||||||+|++.++|+||-++.
T Consensus 95 ~pkRLhVSNIPFrFRdpDL~aMF~kfG~Vl--dVEIIfNERGSKGFGFVTmen~~dadRARa~L 156 (376)
T KOG0125|consen 95 TPKRLHVSNIPFRFRDPDLRAMFEKFGKVL--DVEIIFNERGSKGFGFVTMENPADADRARAEL 156 (376)
T ss_pred CCceeEeecCCccccCccHHHHHHhhCcee--eEEEEeccCCCCccceEEecChhhHHHHHHHh
Confidence 468999999999999999999999999999 89988876556999999999999999997765
No 10
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.18 E-value=7e-11 Score=109.99 Aligned_cols=60 Identities=25% Similarity=0.444 Sum_probs=55.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHh
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a 269 (275)
..+|||+|||.++++++|+++|++||.|. .|+|+.++.++ +|||||+|.+.++|.+||+.
T Consensus 3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~--~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~ 64 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIE--SCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNS 64 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHccCCEE--EEEEEEcCCCCccceEEEEEECcHHHHHHHHhh
Confidence 57999999999999999999999999999 88888876554 89999999999999999975
No 11
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.18 E-value=8.6e-11 Score=104.94 Aligned_cols=64 Identities=25% Similarity=0.344 Sum_probs=56.9
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcCccC
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMW 274 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~pi~i 274 (275)
.++|||+||++.+++++|+++|+.||.|. .|.|..++. .+|||||+|.+.+++..||.-+...|
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~--~V~I~~d~~-~~GfAFVtF~d~eaAe~AllLnG~~l 67 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIE--YVEMQSENE-RSQIAYVTFKDPQGAETALLLSGATI 67 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeE--EEEEeecCC-CCCEEEEEeCcHHHHHHHHHhcCCee
Confidence 58999999999999999999999999999 888877754 47999999999999999998665444
No 12
>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=99.16 E-value=1.2e-10 Score=109.10 Aligned_cols=64 Identities=22% Similarity=0.408 Sum_probs=57.4
Q ss_pred ccCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHh
Q 023954 204 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 204 ~~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a 269 (275)
.....++|||+|||+++++++|+++|+.||.|. .|+|+.++.++ ||||||+|.+.++|.+||+.
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~--~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~ 168 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPIN--TCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKN 168 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEE--EEEEEecCCCCccCcEEEEEEccHHHHHHHHHH
Confidence 445689999999999999999999999999999 88887776554 89999999999999999975
No 13
>PF02136 NTF2: Nuclear transport factor 2 (NTF2) domain; InterPro: IPR002075 Nuclear transport factor 2 (NTF2) is a homodimer which stimulates efficient nuclear import of a cargo protein. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins. NTF2 folds into a cone with a deep hydrophobic cavity, the opening of which is surrounded by several negatively charged residues. RanGDP binds to NTF2 by inserting a conserved phenylalanine residue into the hydrophobic pocket of NTF2 and making electrostatic interactions with the conserved negatively charged residues that surround the cavity []. This entry represent the main structural domain of NTF2 and related domains which are found in other nuclear import proteins.; GO: 0006810 transport, 0005622 intracellular; PDB: 3UJM_B 1JKG_B 1JN5_B 1M98_A 3MG1_A 3MG2_A 3MG3_B 2Z76_A 2Z7A_D 2Z77_A ....
Probab=99.15 E-value=4.8e-11 Score=94.18 Aligned_cols=61 Identities=28% Similarity=0.400 Sum_probs=52.7
Q ss_pred CCCcc--ceEEeeeeec--ccCCCcEEEEEEeEEEecCccccccceeEEEeeecCCCCeEeecCcc
Q 023954 2 SLNYS--GIEIKTAHSL--ESWNGGVLVMVSGSVQVKDFSARRKFVQTFFLAPQEKVPNHLMGGEI 63 (275)
Q Consensus 2 sl~f~--~~~i~t~D~q--~s~~~gi~v~v~G~~~~~~~~~~~~F~Q~F~L~~~~~g~~~v~~~~~ 63 (275)
+|++. ++.|+++||| .+.+++|+|.|+|.++.++....|+|+|+|+|.+.+ +.|||.||.+
T Consensus 52 ~l~~~~~~~~i~~~d~qp~~~~~~~i~i~v~G~~~~~~~~~~~~F~q~FvL~~~~-~~~~I~nd~~ 116 (118)
T PF02136_consen 52 SLPATGVQHRITSVDCQPSPSSDGSILITVTGQFKEDDNPNPRRFSQTFVLVPQN-NGYFIANDIF 116 (118)
T ss_dssp HHTTSSEEEEEEEEEEEEEEECCSEEEEEEEEEEEETTSEEEEEEEEEEEEEEET-TEEEEEEEEE
T ss_pred cCCCcccEEEecccccccccccCCcEEEEEEeEEEecCCCcccEEEEEEEEEEcC-CEEEEEeeEE
Confidence 35666 7999999999 578999999999999999944479999999999999 5569999975
No 14
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.13 E-value=2.2e-10 Score=101.03 Aligned_cols=65 Identities=25% Similarity=0.342 Sum_probs=58.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcCccC
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMW 274 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~pi~i 274 (275)
.+++|||+||++.+|+++|+++|+.||.|. .|.|..++.+ +|||||+|.+.+++..||..+.-.|
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~--~V~I~~D~et-~gfAfVtF~d~~aaetAllLnGa~l 68 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIE--HVEIIRSGEY-ACTAYVTFKDAYALETAVLLSGATI 68 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeE--EEEEecCCCc-ceEEEEEECCHHHHHHHHhcCCCee
Confidence 579999999999999999999999999999 8998887543 5899999999999999998775544
No 15
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.09 E-value=3.1e-10 Score=101.83 Aligned_cols=67 Identities=27% Similarity=0.453 Sum_probs=61.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc-CccC
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMW 274 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~-pi~i 274 (275)
+..++|||+-|++++++..|+..|.+||.|+ .|.|+.++.+| +|||||+|++.-++..|.+.. .++|
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~Ik--rirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~I 168 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIK--RIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKI 168 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcce--eEEEeeecccCCccceEEEEeccHHHHHHHHHhccCcee
Confidence 5789999999999999999999999999999 99999987776 899999999999999998876 6665
No 16
>smart00362 RRM_2 RNA recognition motif.
Probab=99.07 E-value=7.9e-10 Score=77.38 Aligned_cols=60 Identities=37% Similarity=0.622 Sum_probs=53.4
Q ss_pred EEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcC
Q 023954 210 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 210 ~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~p 271 (275)
+|||+|||.+++.++|+++|.+||.+. .+.+..+++..+|+|||+|.+.+.|++|++...
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~--~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~ 60 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIE--SVKIPKDTGKSKGFAFVEFESEEDAEKAIEALN 60 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEE--EEEEecCCCCCCceEEEEeCCHHHHHHHHHHhC
Confidence 589999999999999999999999999 777776655558999999999999999998654
No 17
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.07 E-value=3.3e-10 Score=99.22 Aligned_cols=63 Identities=29% Similarity=0.502 Sum_probs=58.7
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.+..+|-|.||+.++++.+|+++|.+||.|. .+.|..++.+| ||||||.|.++++|.+||...
T Consensus 187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~--rvylardK~TG~~kGFAFVtF~sRddA~rAI~~L 251 (270)
T KOG0122|consen 187 DDEATVRVTNLSEDMREDDLEELFRPFGPIT--RVYLARDKETGLSKGFAFVTFESRDDAARAIADL 251 (270)
T ss_pred CccceeEEecCccccChhHHHHHhhccCccc--eeEEEEccccCcccceEEEEEecHHHHHHHHHHc
Confidence 3678899999999999999999999999999 89999998888 999999999999999999764
No 18
>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=99.06 E-value=4.1e-10 Score=111.87 Aligned_cols=62 Identities=26% Similarity=0.399 Sum_probs=56.4
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..++|||+||++++++++|+++|.+||.|. .|.+..++.++ ||||||+|.+.++|++||+..
T Consensus 106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~--sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~l 169 (612)
T TIGR01645 106 IMCRVYVGSISFELREDTIRRAFDPFGPIK--SINMSWDPATGKHKGFAFVEYEVPEAAQLALEQM 169 (612)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHccCCEE--EEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhc
Confidence 568999999999999999999999999999 88887776554 899999999999999999753
No 19
>PLN03213 repressor of silencing 3; Provisional
Probab=99.05 E-value=4.3e-10 Score=106.79 Aligned_cols=61 Identities=16% Similarity=0.300 Sum_probs=53.9
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCH--HHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDM--TGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~--~~a~~Ai~a~ 270 (275)
..+.+||||||++.+++++|+.+|..||.|. .+.|+ +.+|||||||+|... .++.+||.+.
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVk--dVEIp--RETGRGFAFVEMssdddaEeeKAISaL 70 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVD--AVEFV--RTKGRSFAYIDFSPSSTNSLTKLFSTY 70 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCee--EEEEe--cccCCceEEEEecCCcHHHHHHHHHHh
Confidence 4578999999999999999999999999999 88888 445699999999987 6789998754
No 20
>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=99.05 E-value=5.1e-10 Score=104.95 Aligned_cols=61 Identities=26% Similarity=0.449 Sum_probs=55.0
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.++|||+|||.++++++|+++|++||.|. .+.|..++.++ ||||||+|.+.++|++||++.
T Consensus 193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~--~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~l 255 (346)
T TIGR01659 193 DTNLYVTNLPRTITDDQLDTIFGKYGQIV--QKNILRDKLTGTPRGVAFVRFNKREEAQEAISAL 255 (346)
T ss_pred cceeEEeCCCCcccHHHHHHHHHhcCCEE--EEEEeecCCCCccceEEEEEECCHHHHHHHHHHh
Confidence 46899999999999999999999999999 78887776554 899999999999999999864
No 21
>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=99.01 E-value=8.3e-10 Score=109.69 Aligned_cols=62 Identities=23% Similarity=0.497 Sum_probs=56.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCC--CccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV--GICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~--grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..++|||+||++++++++|+++|++||.|. .++|..++.+ .||||||+|++.++|.+||++.
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~--svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~am 266 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIV--KCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASM 266 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCee--EEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHh
Confidence 468999999999999999999999999999 8888877554 4899999999999999999865
No 22
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.99 E-value=1.2e-09 Score=102.17 Aligned_cols=67 Identities=19% Similarity=0.370 Sum_probs=61.4
Q ss_pred ccCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhcCc
Q 023954 204 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCIL 272 (275)
Q Consensus 204 ~~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~pi 272 (275)
.+.+.-++||+.+|+.++|.+|+.+|++||.+. .|.|.+||.++ +|||||.|.+++++.+||.|++-
T Consensus 30 ~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~--einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn 98 (510)
T KOG0144|consen 30 PDGSAVKLFVGQIPRTASEKDLRELFEKYGNVY--EINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHN 98 (510)
T ss_pred CCchhhhheeccCCccccHHHHHHHHHHhCcee--EEEeecccccCcccceEEEEeccHHHHHHHHHHhhc
Confidence 345678999999999999999999999999999 89999998877 99999999999999999998853
No 23
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=98.99 E-value=1.4e-09 Score=105.02 Aligned_cols=66 Identities=26% Similarity=0.346 Sum_probs=58.5
Q ss_pred cCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhcCc
Q 023954 205 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCIL 272 (275)
Q Consensus 205 ~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~pi 272 (275)
....++|||+|||.++++++|+++|++||.|. .|.|+.++.++ +|||||+|.+.++|.+||.....
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~--~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~ 153 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVR--DVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQ 153 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCee--EEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCC
Confidence 34578999999999999999999999999999 88888776555 89999999999999999986643
No 24
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=98.99 E-value=7e-10 Score=88.53 Aligned_cols=62 Identities=24% Similarity=0.374 Sum_probs=54.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHh
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a 269 (275)
...++|||+||++.+++++|.++|+++|.|+ .|.+-.++.+. .|||||+|-+.++|..||+-
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~ir--riiMGLdr~kktpCGFCFVeyy~~~dA~~Alry 97 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIR--RIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRY 97 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchh--eeEeccccCCcCccceEEEEEecchhHHHHHHH
Confidence 4679999999999999999999999999999 66665555443 79999999999999999863
No 25
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=98.98 E-value=7.9e-10 Score=92.53 Aligned_cols=59 Identities=34% Similarity=0.506 Sum_probs=52.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
-.++|||+||+..+++.+|+.+|.+||.|. .|+|-.+ ..|||||+|++..+|..|+.+.
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lr--svWvArn---PPGfAFVEFed~RDA~DAvr~L 67 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLR--SVWVARN---PPGFAFVEFEDPRDAEDAVRYL 67 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcce--eEEEeec---CCCceEEeccCcccHHHHHhhc
Confidence 468999999999999999999999999999 8888653 3689999999999999998765
No 26
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.95 E-value=2.5e-09 Score=102.67 Aligned_cols=66 Identities=41% Similarity=0.627 Sum_probs=59.9
Q ss_pred cccCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 203 EDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 203 ~~~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
++...+.+|||+|||+++|+++|..+|.+||.|. .+.|..++.++ +|.|||.|.+...++.||++.
T Consensus 287 en~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~--ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~A 354 (678)
T KOG0127|consen 287 ENITEGKTVFVRNLPFDTTEEELKEHFSKFGEVK--YAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAA 354 (678)
T ss_pred ccccccceEEEecCCccccHHHHHHHHHhhccce--eEEEEeccCCCCcccceEEEeccHHHHHHHHHhc
Confidence 3445789999999999999999999999999999 88888777766 899999999999999999876
No 27
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.95 E-value=2.1e-09 Score=82.87 Aligned_cols=60 Identities=28% Similarity=0.513 Sum_probs=52.3
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
..+-|||+|||+++|.+++.++|++||.|. .|+|-..+++ +|-|||.|++..+|.+|++-
T Consensus 17 vnriLyirNLp~~ITseemydlFGkyg~Ir--QIRiG~~k~T-rGTAFVVYedi~dAk~A~dh 76 (124)
T KOG0114|consen 17 VNRILYIRNLPFKITSEEMYDLFGKYGTIR--QIRIGNTKET-RGTAFVVYEDIFDAKKACDH 76 (124)
T ss_pred hheeEEEecCCccccHHHHHHHhhcccceE--EEEecCccCc-CceEEEEehHhhhHHHHHHH
Confidence 467899999999999999999999999999 6766554432 89999999999999999874
No 28
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.94 E-value=2.3e-09 Score=106.18 Aligned_cols=62 Identities=24% Similarity=0.331 Sum_probs=55.5
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCC-CCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRK-DVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~-~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.+++|||+|||+++++++|+++|++||.|. .++|+++. +.+||||||+|.+.++|++||+..
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~--~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~l 119 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIY--ELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLL 119 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHhhCCEE--EEEEEECCCCCccceEEEEeCCHHHHHHHHHHc
Confidence 469999999999999999999999999999 78887663 344999999999999999999874
No 29
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.94 E-value=2.8e-09 Score=104.23 Aligned_cols=62 Identities=27% Similarity=0.466 Sum_probs=55.5
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..++|||+|||+.+++++|+++|+.||.|. .+.+..+..+| +|||||+|.+.+.|..||+..
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~--~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l 357 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLK--AFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAAL 357 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCee--EEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHc
Confidence 568999999999999999999999999999 78877665444 899999999999999999864
No 30
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=98.94 E-value=2.3e-09 Score=106.44 Aligned_cols=59 Identities=29% Similarity=0.539 Sum_probs=54.3
Q ss_pred EEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 210 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 210 ~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
+|||+|||.++|+++|+++|++||.|. .|+|..++.++ +|||||+|.+.++|++||+..
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~--~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~l 62 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVL--SVRVCRDSVTRRSLGYGYVNFQNPADAERALETM 62 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEE--EEEEEecCCCCCcceEEEEEECCHHHHHHHHHHh
Confidence 799999999999999999999999999 89988876544 899999999999999999765
No 31
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.90 E-value=4.8e-09 Score=91.26 Aligned_cols=62 Identities=34% Similarity=0.547 Sum_probs=56.4
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCC--CccEEEEEeCCHHHHHHHHHhcC
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV--GICYAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~--grgfgFV~F~~~~~a~~Ai~a~p 271 (275)
.++|||+||++.+++++|+++|++||.+. .+.+..++.+ .+|||||+|.+.+++..||+...
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~--~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~ 178 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVK--RVRLVRDRETGKSRGFAFVEFESEESAEKAIEELN 178 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCcee--EEEeeeccccCccCceEEEEecCHHHHHHHHHHcC
Confidence 69999999999999999999999999998 8888877644 49999999999999999998763
No 32
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.88 E-value=2.3e-09 Score=90.60 Aligned_cols=61 Identities=33% Similarity=0.569 Sum_probs=54.0
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..++|||+|||.++.+.+|+++|-+||.|. .|.|....+ ..+||||+|++..+|+.||...
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~--~ieLK~r~g-~ppfafVeFEd~RDAeDAiygR 65 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIR--EIELKNRPG-PPPFAFVEFEDPRDAEDAIYGR 65 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceE--EEEeccCCC-CCCeeEEEecCccchhhhhhcc
Confidence 468999999999999999999999999999 888765432 3789999999999999999764
No 33
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.86 E-value=5.4e-09 Score=98.32 Aligned_cols=62 Identities=26% Similarity=0.359 Sum_probs=58.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.++.||||+||.++.+++|.-+|++.|+|- .++|++++.+| ||||||.|-+.+.|++||+.+
T Consensus 82 ~G~EVfvGkIPrD~~EdeLvplfEkiG~I~--elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~l 145 (506)
T KOG0117|consen 82 RGCEVFVGKIPRDVFEDELVPLFEKIGKIY--ELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKEL 145 (506)
T ss_pred CCceEEecCCCccccchhhHHHHHhcccee--eEEEeecccCCCCcceEEEEeecHHHHHHHHHHh
Confidence 589999999999999999999999999999 99999986555 999999999999999999875
No 34
>smart00360 RRM RNA recognition motif.
Probab=98.85 E-value=1.2e-08 Score=70.93 Aligned_cols=57 Identities=42% Similarity=0.640 Sum_probs=49.7
Q ss_pred EcCCCCCCCHHHHHHHHhccCceeEceEEEecCCC--CCccEEEEEeCCHHHHHHHHHhcC
Q 023954 213 VRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD--VGICYAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 213 V~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~--~grgfgFV~F~~~~~a~~Ai~a~p 271 (275)
|+|||..+++++|+++|++||.|. .+.+..++. ..+|||||+|.+.+.|.+|++...
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~--~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~ 59 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIE--SVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALN 59 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEe--EEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcC
Confidence 589999999999999999999999 777776643 348999999999999999998653
No 35
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=98.84 E-value=9.6e-09 Score=101.96 Aligned_cols=63 Identities=24% Similarity=0.399 Sum_probs=55.8
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCC-CCCccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRK-DVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~-~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..+.+|||+||+.++++++|+++|++||.|. .+.++.+. +.++|||||+|.+.++|.+||+..
T Consensus 283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~--~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~ 346 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTDEKLRELFSECGEIT--SAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEM 346 (562)
T ss_pred cCCCEEEEeCCCCccCHHHHHHHHHhcCCeE--EEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHh
Confidence 4578899999999999999999999999999 78776653 445999999999999999999764
No 36
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=98.82 E-value=1.1e-08 Score=98.67 Aligned_cols=61 Identities=28% Similarity=0.581 Sum_probs=55.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.++|||+|||..+++++|+++|++||.|. .|.+..+..++ +|||||+|.+.++|.+||+..
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~--~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l 248 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIE--DVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVM 248 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeE--EEEEEEcCCCCccceEEEEEECCHHHHHHHHHhc
Confidence 68999999999999999999999999999 88887766543 899999999999999999754
No 37
>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=98.82 E-value=2.3e-08 Score=70.20 Aligned_cols=59 Identities=42% Similarity=0.701 Sum_probs=52.0
Q ss_pred EEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCC-CCccEEEEEeCCHHHHHHHHHhc
Q 023954 210 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD-VGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 210 ~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~-~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
+|||+|||..+++++|+++|+.||.|. .+.+..++. .++|+|||+|.+.++|..|++..
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~--~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~ 60 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVE--SVRIVRDKDTKSKGFAFVEFEDEEDAEKALEAL 60 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEE--EEEEeeCCCCCcceEEEEEECCHHHHHHHHHHh
Confidence 489999999999999999999999998 777766543 34899999999999999999865
No 38
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.82 E-value=1.1e-08 Score=100.06 Aligned_cols=56 Identities=38% Similarity=0.530 Sum_probs=51.1
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
.+.|||+|||+++++++|+++|++||.|. .+.++. +||||||+|++.++|++||+.
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~--~v~i~~----~k~~afVef~~~e~A~~Ai~~ 57 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVS--YVMMLP----GKRQALVEFEDEESAKACVNF 57 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCee--EEEEEC----CCCEEEEEeCchHHHHHHHHH
Confidence 47899999999999999999999999999 777764 357999999999999999985
No 39
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.75 E-value=1.4e-08 Score=90.30 Aligned_cols=67 Identities=21% Similarity=0.503 Sum_probs=56.6
Q ss_pred ccCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 204 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 204 ~~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
+..++|+|||-+||.+..+.+|-.+|-.||.|.+..|.+.+-.+.+||||||.|++..+++.||.+-
T Consensus 281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAM 347 (371)
T KOG0146|consen 281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAM 347 (371)
T ss_pred cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHh
Confidence 4457999999999999999999999999999995444443333445999999999999999999874
No 40
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.75 E-value=2.1e-08 Score=89.16 Aligned_cols=59 Identities=29% Similarity=0.474 Sum_probs=53.5
Q ss_pred cCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 205 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 205 ~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
..+.++||+||++.-+++++|++.|..||.|. .|++-.+ +||+||.|++.|+|..||..
T Consensus 161 sp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~--EVRvFk~----qGYaFVrF~tkEaAahAIv~ 219 (321)
T KOG0148|consen 161 SPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQ--EVRVFKD----QGYAFVRFETKEAAAHAIVQ 219 (321)
T ss_pred CCCCceEEeCCcCccccHHHHHHhcccCCcce--EEEEecc----cceEEEEecchhhHHHHHHH
Confidence 34679999999999999999999999999999 8888765 57999999999999999965
No 41
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=98.73 E-value=1.6e-08 Score=86.82 Aligned_cols=67 Identities=25% Similarity=0.393 Sum_probs=60.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc-CccC
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMW 274 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~-pi~i 274 (275)
....+|-|-||.+.++.++|+.+|++||.|- +|.|..++.+. +|||||.|.+..+|+.|+++. .+||
T Consensus 11 ~gm~SLkVdNLTyRTspd~LrrvFekYG~vg--DVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~l 80 (256)
T KOG4207|consen 11 EGMTSLKVDNLTYRTSPDDLRRVFEKYGRVG--DVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVL 80 (256)
T ss_pred ccceeEEecceeccCCHHHHHHHHHHhCccc--ceecccccccccccceeEEEeeecchHHHHHHhhcceee
Confidence 4578999999999999999999999999999 99999988776 999999999999999999886 4443
No 42
>KOG4353 consensus RNA export factor NXT1 [RNA processing and modification]
Probab=98.73 E-value=1.3e-08 Score=80.88 Aligned_cols=52 Identities=31% Similarity=0.414 Sum_probs=46.5
Q ss_pred CCccceEEeeeeecccCCC------cEEEEEEeEEEecCccccccceeEEEeeecCCCC
Q 023954 3 LNYSGIEIKTAHSLESWNG------GVLVMVSGSVQVKDFSARRKFVQTFFLAPQEKVP 55 (275)
Q Consensus 3 l~f~~~~i~t~D~q~s~~~------gi~v~v~G~~~~~~~~~~~~F~Q~F~L~~~~~g~ 55 (275)
||..+|.|.++||||-+++ +|||+|.|.++.+| +..|.|.|+|.|.++..-|
T Consensus 64 LPsS~~qi~~lD~Qpv~dqat~~q~~vLvvvsGtVkFdG-~k~r~F~qt~ll~~e~~~~ 121 (139)
T KOG4353|consen 64 LPSSEFQINDLDCQPVHDQATGSQTTVLVVVSGTVKFDG-NKQRVFNQTFLLTAEDPPF 121 (139)
T ss_pred CCCccccccccccccchhhcccccceEEEEEeeeEEEcC-CccccccceeEEeecCCcc
Confidence 7888999999999987644 69999999999999 8899999999999987555
No 43
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.67 E-value=1.9e-08 Score=89.05 Aligned_cols=63 Identities=21% Similarity=0.373 Sum_probs=56.0
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
-++.+|||.+||..+|..+|+.+|++||.|. .-+|..+..+| ||.|||.|+.+.+|+.||+..
T Consensus 125 Ik~aNLYvSGlPktMtqkelE~iFs~fGrII--tSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~l 189 (360)
T KOG0145|consen 125 IKDANLYVSGLPKTMTQKELEQIFSPFGRII--TSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGL 189 (360)
T ss_pred hcccceEEecCCccchHHHHHHHHHHhhhhh--hhhhhhhcccceecceeEEEecchhHHHHHHHhc
Confidence 3678999999999999999999999999998 56666666666 999999999999999999864
No 44
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.67 E-value=3.6e-08 Score=79.48 Aligned_cols=63 Identities=22% Similarity=0.476 Sum_probs=59.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.++--|||.++...++++++.+.|..||.|+ .|.+..++.+| +||++|+|++...|++||.+.
T Consensus 70 VEGwIi~VtgvHeEatEedi~d~F~dyGeiK--NihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~ 134 (170)
T KOG0130|consen 70 VEGWIIFVTGVHEEATEEDIHDKFADYGEIK--NIHLNLDRRTGYVKGYALVEYETLKEAQAAIDAL 134 (170)
T ss_pred eeeEEEEEeccCcchhHHHHHHHHhhccccc--ceeeccccccccccceeeeehHhHHHHHHHHHhc
Confidence 4678899999999999999999999999999 99999998888 999999999999999999876
No 45
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.66 E-value=1.6e-08 Score=94.90 Aligned_cols=62 Identities=24% Similarity=0.386 Sum_probs=55.4
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEec-CCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRS-RKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~-~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
+.++||||-|+..+||.+++++|.+||.|+ ++.|.+ ..+.+||||||.|.+.+.|..||++-
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ie--d~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ 185 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIE--DCYILRDPDGLSRGCAFVKFSTKEMAVAAIKAL 185 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccc--hhhheecccccccceeEEEEehHHHHHHHHHhh
Confidence 468999999999999999999999999999 777655 44566999999999999999999875
No 46
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.60 E-value=6.3e-08 Score=81.71 Aligned_cols=63 Identities=25% Similarity=0.364 Sum_probs=57.1
Q ss_pred cCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHh
Q 023954 205 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 205 ~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a 269 (275)
.....+|||+||+..++++.|.++|-+.|.+. .+.+..++-+. +||||++|.++++|+-||+-
T Consensus 6 rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv--~i~iPkDrv~~~~qGygF~Ef~~eedadYAiki 70 (203)
T KOG0131|consen 6 RNQDATLYVGNLDEKVSEELLYELFIQAGPVV--NLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKI 70 (203)
T ss_pred cCCCceEEEecCCHHHHHHHHHHHHHhcCcee--eeecchhhhcccccceeEEEEechhhhHHHHHH
Confidence 34679999999999999999999999999999 88888887655 89999999999999999874
No 47
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.60 E-value=1.4e-07 Score=92.29 Aligned_cols=62 Identities=19% Similarity=0.272 Sum_probs=53.6
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCc--eeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGE--LSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~--I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
...+|||+|||.++++++|+++|+.||. +. .+++...+...+|||||+|++.++|.+||...
T Consensus 393 ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~--~ik~~~~~~~~~~~gfVeF~~~e~A~~Al~~l 456 (481)
T TIGR01649 393 PSATLHLSNIPLSVSEEDLKELFAENGVHKVK--KFKFFPKDNERSKMGLLEWESVEDAVEALIAL 456 (481)
T ss_pred CCcEEEEecCCCCCCHHHHHHHHHhcCCccce--EEEEecCCCCcceeEEEEcCCHHHHHHHHHHh
Confidence 4678999999999999999999999998 66 67775544444799999999999999999875
No 48
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.60 E-value=7e-08 Score=92.89 Aligned_cols=62 Identities=23% Similarity=0.343 Sum_probs=57.0
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.+.+|||++||+.++.++|.++|+.+|.|+ .+.+..+++++ ||||||.|.-.+++++||+..
T Consensus 4 ~g~TlfV~~lp~~~~~~qL~e~FS~vGPik--~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~ 67 (678)
T KOG0127|consen 4 SGATLFVSRLPFSSTGEQLEEFFSYVGPIK--HAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAET 67 (678)
T ss_pred CCceEEEecCCCccchhHHHHhhhcccCcc--eeEEecCCCcccccCccceeeehHhHHHHHHHHh
Confidence 458999999999999999999999999999 88888888876 999999999999999999753
No 49
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.59 E-value=1.1e-07 Score=84.75 Aligned_cols=61 Identities=28% Similarity=0.538 Sum_probs=55.2
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHh
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a 269 (275)
.-..+||+.|...++-++|++.|.+||+|. ..+|.+|..++ ||||||.|-+.++|++||..
T Consensus 61 ~hfhvfvgdls~eI~~e~lr~aF~pFGevS--~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~ 123 (321)
T KOG0148|consen 61 QHFHVFVGDLSPEIDNEKLREAFAPFGEVS--DAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQ 123 (321)
T ss_pred cceeEEehhcchhcchHHHHHHhccccccc--cceEeecccCCcccceeEEeccchHHHHHHHHH
Confidence 357899999999999999999999999999 78887776554 89999999999999999975
No 50
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.57 E-value=2.3e-08 Score=84.35 Aligned_cols=56 Identities=25% Similarity=0.527 Sum_probs=50.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHH
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGV 263 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a 263 (275)
.+..-|||||||+..|+.+|--.|++||.|. .|.+++++.+| +||||+.|++..+-
T Consensus 33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~v--dinLiRDk~TGKSKGFaFLcYEDQRST 90 (219)
T KOG0126|consen 33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIV--DINLIRDKKTGKSKGFAFLCYEDQRST 90 (219)
T ss_pred ccceEEEECCCcccccCCcEEEEeeccCceE--EEEEEecCCCCcccceEEEEecCccce
Confidence 3567899999999999999999999999999 99999998887 89999999986543
No 51
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.54 E-value=6.7e-08 Score=89.04 Aligned_cols=66 Identities=23% Similarity=0.405 Sum_probs=60.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhcCccC
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCILMW 274 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~pi~i 274 (275)
+.++|||++|++.++++.|++.|.+||++. .+.++.++.++ |||+||+|++.+...++|.+.++.|
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~--d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~ 72 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVT--DCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKL 72 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCcee--eEEEeccCCCCCcccccceecCCCcchheeeccccccc
Confidence 679999999999999999999999999999 88888877666 8999999999999999999887755
No 52
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.53 E-value=1.2e-07 Score=89.32 Aligned_cols=57 Identities=32% Similarity=0.534 Sum_probs=50.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..-+-||||||+.++|++.|+++|++||.|. .|+..+| ||||.|.++++|.+||+..
T Consensus 257 s~VKvLYVRNL~~~tTeE~lk~~F~~~G~ve--RVkk~rD------YaFVHf~eR~davkAm~~~ 313 (506)
T KOG0117|consen 257 SKVKVLYVRNLMESTTEETLKKLFNEFGKVE--RVKKPRD------YAFVHFAEREDAVKAMKET 313 (506)
T ss_pred hheeeeeeeccchhhhHHHHHHHHHhccceE--Eeecccc------eeEEeecchHHHHHHHHHh
Confidence 3568899999999999999999999999999 5555433 9999999999999999753
No 53
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.53 E-value=3.9e-07 Score=88.22 Aligned_cols=64 Identities=19% Similarity=0.448 Sum_probs=56.4
Q ss_pred cCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCC-C-ccEEEEEeCCHHHHHHHHHhc
Q 023954 205 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV-G-ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 205 ~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~-g-rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..-+++|||.+|...+...+|+.+|++||+|. +..|..+..+ | ||||||++.+.+.|-+||.-.
T Consensus 402 s~~gRNlWVSGLSstTRAtDLKnlFSKyGKVv--GAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hL 467 (940)
T KOG4661|consen 402 STLGRNLWVSGLSSTTRATDLKNLFSKYGKVV--GAKVVTNARSPGARCYGFVTMSTSAEATKCIEHL 467 (940)
T ss_pred cccccceeeeccccchhhhHHHHHHHHhccee--ceeeeecCCCCCcceeEEEEecchHHHHHHHHHh
Confidence 34578999999999999999999999999999 8888877554 3 999999999999999999754
No 54
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.53 E-value=7.1e-08 Score=88.95 Aligned_cols=67 Identities=25% Similarity=0.351 Sum_probs=59.9
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc-CccCC
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMWH 275 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~-pi~ig 275 (275)
-.++||||.+.+...++.|+..|..||.|+ .|.+.++..++ +||+||+|+-.+.|+-|++.- ..|+|
T Consensus 112 iMcRvYVGSIsfEl~EDtiR~AF~PFGPIK--SInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlG 181 (544)
T KOG0124|consen 112 IMCRVYVGSISFELREDTIRRAFDPFGPIK--SINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLG 181 (544)
T ss_pred HhHheeeeeeEEEechHHHHhhccCCCCcc--eeecccccccccccceEEEEEeCcHHHHHHHHHhcccccc
Confidence 368999999999999999999999999999 88888887766 899999999999999999864 55554
No 55
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.52 E-value=2.2e-07 Score=90.84 Aligned_cols=63 Identities=22% Similarity=0.429 Sum_probs=49.0
Q ss_pred cCCCcEEEEcCCCCCCCHHHHHHHHhccC------------ceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcCc
Q 023954 205 EEEIKSVYVRNLPPSVSESEIAEEFKKFG------------ELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 272 (275)
Q Consensus 205 ~~~~~~ifV~nLp~~~te~~L~~~F~~fG------------~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~pi 272 (275)
....++|||||||+.+|+++|+++|.+|+ .|. .+.+. ..+|||||+|.+.++|..||....+
T Consensus 172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~--~~~~~----~~kg~afVeF~~~e~A~~Al~l~g~ 245 (509)
T TIGR01642 172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVS--SVNIN----KEKNFAFLEFRTVEEATFAMALDSI 245 (509)
T ss_pred CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceE--EEEEC----CCCCEEEEEeCCHHHHhhhhcCCCe
Confidence 34679999999999999999999999762 222 23332 2478999999999999999965444
Q ss_pred c
Q 023954 273 M 273 (275)
Q Consensus 273 ~ 273 (275)
+
T Consensus 246 ~ 246 (509)
T TIGR01642 246 I 246 (509)
T ss_pred E
Confidence 3
No 56
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.52 E-value=1.6e-07 Score=90.23 Aligned_cols=60 Identities=25% Similarity=0.404 Sum_probs=56.9
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 209 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
+.+||||+|+++++++|..+|+..|.|. .+++..|+.+| |||||++|.+.+.+.+|++..
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~--s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~l 80 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVL--SFRLVYDRETGKPKGFGFCEFTDEETAERAIRNL 80 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccc--eeeecccccCCCcCceeeEecCchhhHHHHHHhc
Confidence 8999999999999999999999999999 89999988877 899999999999999999865
No 57
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.50 E-value=3.7e-07 Score=90.66 Aligned_cols=56 Identities=36% Similarity=0.542 Sum_probs=49.8
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcc--CceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKF--GELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~f--G~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..++|||+||+.++++++|+++|++| |.|. .|.+. ++||||+|.+.++|.+||++.
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~--rV~~~------rgfAFVeF~s~e~A~kAi~~l 289 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVE--RVKKI------RDYAFVHFEDREDAVKAMDEL 289 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceE--EEEee------cCeEEEEeCCHHHHHHHHHHh
Confidence 45789999999999999999999999 9999 66553 469999999999999999853
No 58
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=8.4e-08 Score=83.19 Aligned_cols=61 Identities=25% Similarity=0.472 Sum_probs=55.4
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHh
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a 269 (275)
..++||||+|-..+++.-|...|-.||.|. .|++..+-.+. ||||||+|+..++|..||..
T Consensus 9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~--dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDN 71 (298)
T KOG0111|consen 9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIK--DIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDN 71 (298)
T ss_pred cceeEEeccchHHHHHHHHHhccccccchh--hcccccchhcccccceeEEEeeccchhHHHhhc
Confidence 568999999999999999999999999999 99998875544 99999999999999999863
No 59
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.41 E-value=2e-07 Score=89.80 Aligned_cols=62 Identities=24% Similarity=0.501 Sum_probs=55.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
...++|||||.+++++++|+.+|+.||.|. .|++..+..+| +|||||+|.+.+.|.+|++..
T Consensus 277 p~~rl~vgnLHfNite~~lr~ifepfg~Ie--~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~l 340 (549)
T KOG0147|consen 277 PMRRLYVGNLHFNITEDMLRGIFEPFGKIE--NVQLTKDSETGRSKGFGFITFVNKEDARKALEQL 340 (549)
T ss_pred chhhhhhcccccCchHHHHhhhccCcccce--eeeeccccccccccCcceEEEecHHHHHHHHHHh
Confidence 345599999999999999999999999999 89998885445 999999999999999997653
No 60
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.35 E-value=8.7e-07 Score=83.87 Aligned_cols=58 Identities=24% Similarity=0.519 Sum_probs=52.9
Q ss_pred EEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 210 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 210 ~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.|||+||+..++...|.++|+.||.|. .+++..+..-.+|| ||.|++.++|++||+..
T Consensus 78 ~~~i~nl~~~~~~~~~~d~f~~~g~il--S~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ 135 (369)
T KOG0123|consen 78 LVFIKNLDESIDNKSLYDTFSEFGNIL--SCKVATDENGSKGY-FVQFESEESAKKAIEKL 135 (369)
T ss_pred eeeecCCCcccCcHHHHHHHHhhcCee--EEEEEEcCCCceee-EEEeCCHHHHHHHHHHh
Confidence 399999999999999999999999999 88888776556999 99999999999999854
No 61
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.33 E-value=6.7e-07 Score=79.66 Aligned_cols=63 Identities=22% Similarity=0.392 Sum_probs=55.8
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
+.++||||-|.+.-.|++++++|..||.|.. ...++...+.+|||+||.|.+..+++.||.+.
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e-~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aL 80 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEE-CTVLRGPDGNSKGCAFVKFSSHAEAQAAINAL 80 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcce-eEEecCCCCCCCCceEEEeccchHHHHHHHHh
Confidence 5689999999999999999999999999993 44556666777999999999999999999875
No 62
>smart00361 RRM_1 RNA recognition motif.
Probab=98.29 E-value=2.2e-06 Score=61.74 Aligned_cols=47 Identities=19% Similarity=0.321 Sum_probs=38.0
Q ss_pred HHHHHHHHh----ccCceeEceEE-EecCC----CCCccEEEEEeCCHHHHHHHHHhc
Q 023954 222 ESEIAEEFK----KFGELSSEGVV-IRSRK----DVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 222 e~~L~~~F~----~fG~I~~~~v~-v~~~~----~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
+++|+++|+ +||.|. .+. +..++ +..+|||||.|.+.++|.+||+..
T Consensus 2 ~~~l~~~~~~~~~~fG~v~--~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l 57 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVG--KINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDL 57 (70)
T ss_pred chhHHHHHHHHHHhcCCee--EEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHh
Confidence 467888888 999999 664 44444 345999999999999999999863
No 63
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.29 E-value=6.4e-07 Score=80.57 Aligned_cols=54 Identities=28% Similarity=0.535 Sum_probs=49.3
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 209 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.+|||||||..+++.+|+.+|++||++. .+.|.++ ||||..++...+..||+..
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVl--ECDIvKN------YgFVHiEdktaaedairNL 56 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVL--ECDIVKN------YGFVHIEDKTAAEDAIRNL 56 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceE--eeeeecc------cceEEeecccccHHHHhhc
Confidence 4799999999999999999999999999 7777754 9999999999999999854
No 64
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.27 E-value=3.5e-06 Score=74.89 Aligned_cols=61 Identities=21% Similarity=0.424 Sum_probs=55.9
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHh
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a 269 (275)
..++|.|.-||.++|.++|+.+|...|+|. .+++.+||.+| -|||||.|-+..+|++||..
T Consensus 40 skTNLIvNYLPQ~MTqdE~rSLF~SiGeiE--ScKLvRDKitGqSLGYGFVNYv~p~DAe~Aint 102 (360)
T KOG0145|consen 40 SKTNLIVNYLPQNMTQDELRSLFGSIGEIE--SCKLVRDKITGQSLGYGFVNYVRPKDAEKAINT 102 (360)
T ss_pred ccceeeeeecccccCHHHHHHHhhccccee--eeeeeeccccccccccceeeecChHHHHHHHhh
Confidence 457788989999999999999999999999 89999998777 79999999999999999864
No 65
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.24 E-value=1.4e-06 Score=73.71 Aligned_cols=63 Identities=24% Similarity=0.358 Sum_probs=53.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCC--CCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD--VGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~--~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
-+.++||+||.+.+++..|.+.|+.||.|.. .-.++.+.. .++|||||.|.+.+.+.+||++.
T Consensus 95 vganlfvgNLd~~vDe~~L~dtFsafG~l~~-~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ 159 (203)
T KOG0131|consen 95 VGANLFVGNLDPEVDEKLLYDTFSAFGVLIS-PPKIMRDPDTGNPKGFGFINYASFEASDAAIGSM 159 (203)
T ss_pred ccccccccccCcchhHHHHHHHHHhcccccc-CCcccccccCCCCCCCeEEechhHHHHHHHHHHh
Confidence 4689999999999999999999999999973 234555444 44899999999999999999864
No 66
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.23 E-value=1.3e-06 Score=80.80 Aligned_cols=64 Identities=23% Similarity=0.555 Sum_probs=55.1
Q ss_pred ccCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCC-CC-ccEEEEEeCCHHHHHHHHHh
Q 023954 204 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD-VG-ICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 204 ~~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~-~g-rgfgFV~F~~~~~a~~Ai~a 269 (275)
+.....+|||..+..+.++++|+..|+.||+|. .|.+.+... .+ |||||++|.+..+...||..
T Consensus 206 eAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~--~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAias 271 (544)
T KOG0124|consen 206 EAKKFNRIYVASVHPDLSETDIKSVFEAFGEIV--KCQLARAPTGRGHKGYGFIEYNNLQSQSEAIAS 271 (544)
T ss_pred HHHhhheEEeeecCCCccHHHHHHHHHhhccee--eEEeeccCCCCCccceeeEEeccccchHHHhhh
Confidence 345689999999999999999999999999999 888866543 23 99999999999999988854
No 67
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.23 E-value=9.6e-07 Score=87.40 Aligned_cols=62 Identities=24% Similarity=0.434 Sum_probs=54.8
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCC--CCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD--VGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~--~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.+++|+|+|||+.++..+++.+|..||.++ .|+|....+ .+||||||+|-+...+.+|+++.
T Consensus 612 ~~tKIlVRNipFeAt~rEVr~LF~aFGqlk--svRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al 675 (725)
T KOG0110|consen 612 KGTKILVRNIPFEATKREVRKLFTAFGQLK--SVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDAL 675 (725)
T ss_pred ccceeeeeccchHHHHHHHHHHHhccccee--eeccchhhcchhhccceeeeccCcHHHHHHHHhh
Confidence 378999999999999999999999999999 888866533 34999999999999999998764
No 68
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=1.5e-06 Score=80.00 Aligned_cols=62 Identities=23% Similarity=0.489 Sum_probs=55.6
Q ss_pred ccCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHH
Q 023954 204 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAV 267 (275)
Q Consensus 204 ~~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai 267 (275)
......-|||..|.+-+++++|+-+|+.||.|. .+.|..++.+| -+||||+|++.+++++|.
T Consensus 235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~--sceVIRD~ktgdsLqyaFiEFen~escE~Ay 298 (479)
T KOG0415|consen 235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIV--SCEVIRDRKTGDSLQYAFIEFENKESCEQAY 298 (479)
T ss_pred cCCCcceEEEEecCCcccccchhhHHhhcccce--eeeEEecccccchhheeeeeecchhhHHHHH
Confidence 334568899999999999999999999999999 88888888777 799999999999999985
No 69
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.18 E-value=3.9e-06 Score=72.24 Aligned_cols=60 Identities=35% Similarity=0.522 Sum_probs=50.3
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcc-CceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHH
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKF-GELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVE 268 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~f-G~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~ 268 (275)
...-+||+.+|+...+.++..+|.+| |.+. .+++.+++.+| +|||||+|++.+-|.-|-+
T Consensus 48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~--r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAE 110 (214)
T KOG4208|consen 48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVT--RFRLSRNKRTGNSKGYAFVEFESEEVAKIAAE 110 (214)
T ss_pred CccceeecccccchhHHHHhhhhhhcCCeeE--EEEeecccccCCcCceEEEEeccHHHHHHHHH
Confidence 45678999999999999999999998 6666 67775666666 9999999999998887754
No 70
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=98.16 E-value=6.2e-06 Score=56.50 Aligned_cols=41 Identities=34% Similarity=0.571 Sum_probs=34.5
Q ss_pred HHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 225 IAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 225 L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
|.++|++||.|. .+.+..++ +|+|||+|.+.++|.+|++..
T Consensus 1 L~~~f~~fG~V~--~i~~~~~~---~~~a~V~f~~~~~A~~a~~~l 41 (56)
T PF13893_consen 1 LYKLFSKFGEVK--KIKIFKKK---RGFAFVEFASVEDAQKAIEQL 41 (56)
T ss_dssp HHHHHTTTS-EE--EEEEETTS---TTEEEEEESSHHHHHHHHHHH
T ss_pred ChHHhCCcccEE--EEEEEeCC---CCEEEEEECCHHHHHHHHHHh
Confidence 678999999999 77776654 589999999999999999854
No 71
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.12 E-value=4.6e-06 Score=76.66 Aligned_cols=59 Identities=31% Similarity=0.509 Sum_probs=53.0
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
....+||||+|-..+++.+|+++|-+||.|+ .+.+... +|+|||+|.+.++|+.|.+.+
T Consensus 226 ~~I~tLyIg~l~d~v~e~dIrdhFyqyGeir--si~~~~~----~~CAFv~ftTR~aAE~Aae~~ 284 (377)
T KOG0153|consen 226 TSIKTLYIGGLNDEVLEQDIRDHFYQYGEIR--SIRILPR----KGCAFVTFTTREAAEKAAEKS 284 (377)
T ss_pred cceeEEEecccccchhHHHHHHHHhhcCCee--eEEeecc----cccceeeehhhHHHHHHHHhh
Confidence 4578999999999999999999999999999 7777653 569999999999999998876
No 72
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.11 E-value=2.3e-06 Score=78.99 Aligned_cols=62 Identities=27% Similarity=0.524 Sum_probs=55.6
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..++|||++|+.++++.+|++.|.+||.|. .+.++.++.+. ||||||.|++.+++.+++...
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~--~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~ 159 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVA--DVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQK 159 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeE--eeEEeecccccccccceeeEeccccccceecccc
Confidence 468999999999999999999999999998 88888877665 899999999999999887654
No 73
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.05 E-value=1.2e-05 Score=70.09 Aligned_cols=60 Identities=20% Similarity=0.337 Sum_probs=50.1
Q ss_pred CcEEEEcCCCCCCCHHHHHH----HHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 208 IKSVYVRNLPPSVSESEIAE----EFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~----~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..+|||+||+..+..++|++ +|++||.|. +|.... ....||-|||.|.+.+.|-.|+++.
T Consensus 9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~il--dI~a~k-t~KmRGQA~VvFk~~~~As~A~r~l 72 (221)
T KOG4206|consen 9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKIL--DISAFK-TPKMRGQAFVVFKETEAASAALRAL 72 (221)
T ss_pred CceEeehhccccccHHHHHHHHHHHHHhhCCeE--EEEecC-CCCccCceEEEecChhHHHHHHHHh
Confidence 34999999999999999888 999999999 665543 2234899999999999999888764
No 74
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.04 E-value=7.2e-06 Score=82.02 Aligned_cols=57 Identities=21% Similarity=0.483 Sum_probs=50.8
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.++||||+|+.++++.+|..+|+.||.|. .|.+.. .||||||.+..+.+|.+||.+.
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiq--Si~li~----~R~cAfI~M~~RqdA~kalqkl 477 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQ--SIILIP----PRGCAFIKMVRRQDAEKALQKL 477 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccce--eEeecc----CCceeEEEEeehhHHHHHHHHH
Confidence 46899999999999999999999999999 666654 3789999999999999998764
No 75
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.99 E-value=1.8e-05 Score=74.87 Aligned_cols=62 Identities=26% Similarity=0.341 Sum_probs=54.2
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHH-hccCceeEceEEEecCC-CCCccEEEEEeCCHHHHHHHHHh
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEF-KKFGELSSEGVVIRSRK-DVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F-~~fG~I~~~~v~v~~~~-~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
...+++||.|||+++...+|+++| .+.|+|. .|.+..|. ++.||||.|+|++.+.+++|++.
T Consensus 42 ~r~R~vfItNIpyd~rWqdLKdLvrekvGev~--yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~ 105 (608)
T KOG4212|consen 42 ARDRSVFITNIPYDYRWQDLKDLVREKVGEVE--YVELLFDESGKARGCAVVEFKDPENVQKALEK 105 (608)
T ss_pred cccceEEEecCcchhhhHhHHHHHHHhcCceE--eeeeecccCCCcCCceEEEeeCHHHHHHHHHH
Confidence 346779999999999999999999 5789999 88887764 44599999999999999999875
No 76
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.95 E-value=1.5e-05 Score=79.03 Aligned_cols=60 Identities=23% Similarity=0.448 Sum_probs=51.7
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCC-----CccEEEEEeCCHHHHHHHHHhc
Q 023954 209 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV-----GICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~-----grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
++|||+||++++|.+.|+.+|.+.|.|. .+.|...+.. +.|||||+|.+.++|++|+++.
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~Vl--S~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~l 580 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVL--SIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKAL 580 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEE--EEEEeccccccccccccceeEEEecCHHHHHHHHHHh
Confidence 4499999999999999999999999999 7766554321 2599999999999999999985
No 77
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.87 E-value=9.5e-05 Score=64.61 Aligned_cols=63 Identities=21% Similarity=0.346 Sum_probs=52.6
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC---ccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG---ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g---rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..-++|||.+||.++...+|..+|..|-.-. +..++...+.+ +-+||+.|.+...|..|+.+.
T Consensus 32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYE--gslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaL 97 (284)
T KOG1457|consen 32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYE--GSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNAL 97 (284)
T ss_pred cccceeeeccCCcccCHHHHHHHhccCCCcc--ceeeeeccCCCccccceEEEEecchHHHHHHHHHh
Confidence 4579999999999999999999999997777 66665532222 579999999999999999876
No 78
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=97.82 E-value=3.6e-05 Score=72.98 Aligned_cols=57 Identities=23% Similarity=0.458 Sum_probs=52.5
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcC
Q 023954 209 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~p 271 (275)
.+|||| +++|+.+|.++|+.+|.+. .++|..+. ++-|||||.|.+..+|.+||++..
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~--s~rvc~d~-tslgy~yvnf~~~~da~~A~~~~n 58 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVL--SIRVCRDA-TSLGYAYVNFQQPADAERALDTMN 58 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCce--eEEEeecC-CccceEEEecCCHHHHHHHHHHcC
Confidence 468999 9999999999999999999 89998888 689999999999999999998763
No 79
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=97.76 E-value=5.8e-05 Score=66.99 Aligned_cols=76 Identities=25% Similarity=0.341 Sum_probs=62.6
Q ss_pred CCCCcCCccccccCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 193 ADTGEEISAVEDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 193 ~~~~~~~~~~~~~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
+.+.++-+-.+......+||.|.|.-+++++.|.+.|++|-... ...+.+++.++ +|||||.|.+..++.+|++..
T Consensus 175 gtswedPsl~ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~--~akviRdkRTgKSkgygfVSf~~pad~~rAmrem 252 (290)
T KOG0226|consen 175 GTSWEDPSLAEWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQ--KAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREM 252 (290)
T ss_pred ccccCCcccccCccccceeecccccccccHHHHHHHHHhccchh--hccccccccccccccceeeeecCHHHHHHHHHhh
Confidence 33344444455667789999999999999999999999998887 66777777666 899999999999999999864
No 80
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=97.76 E-value=8e-05 Score=74.13 Aligned_cols=64 Identities=28% Similarity=0.424 Sum_probs=56.2
Q ss_pred cCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCC-----CCCccEEEEEeCCHHHHHHHHHhc
Q 023954 205 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRK-----DVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 205 ~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~-----~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
+...+++||+||++.+++..|-..|+.||.|- .++|+..+ ...+-||||-|.+..++++|++..
T Consensus 171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPla--svKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~l 239 (877)
T KOG0151|consen 171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLA--SVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKEL 239 (877)
T ss_pred CCcccceeeecCCccccHHHHHHHhcccCccc--ceeeecccchhhhccccccceeeehhhhhHHHHHHHh
Confidence 45678999999999999999999999999999 88887653 234789999999999999999875
No 81
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.71 E-value=7.1e-05 Score=70.92 Aligned_cols=60 Identities=17% Similarity=0.238 Sum_probs=51.1
Q ss_pred cCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 205 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 205 ~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
..+.++|||+|||+++|...|++-|..||.++ ...| +.++..+| .|.|.+.+.|++||..
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~--yadi-me~GkskG--VVrF~s~edAEra~a~ 592 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVL--YADI-MENGKSKG--VVRFFSPEDAERACAL 592 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhcccee--hhhh-hccCCccc--eEEecCHHHHHHHHHH
Confidence 45678999999999999999999999999999 7777 34444444 8999999999999864
No 82
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.68 E-value=2.9e-05 Score=68.00 Aligned_cols=54 Identities=30% Similarity=0.530 Sum_probs=47.3
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 209 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.++|||+|++.+.+.+|+.+|..||.+. .+.+. .|||||+|++.-+|..||-..
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~--d~~mk------~gf~fv~fed~rda~Dav~~l 55 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIP--DADMK------NGFGFVEFEDPRDADDAVHDL 55 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccc--cceee------cccceeccCchhhhhcccchh
Confidence 5799999999999999999999999999 65553 369999999999999887654
No 83
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.63 E-value=7.9e-05 Score=72.35 Aligned_cols=60 Identities=27% Similarity=0.367 Sum_probs=51.7
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
...++|+|-|||..++.++|+++|+.||+|+ +|+.-.. .+|..||+|-|..+|++|+++.
T Consensus 73 ~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir--~ir~t~~---~~~~~~v~FyDvR~A~~Alk~l 132 (549)
T KOG4660|consen 73 MNQGTLVVFNLPRSVSNDTLLRIFGAYGEIR--EIRETPN---KRGIVFVEFYDVRDAERALKAL 132 (549)
T ss_pred CccceEEEEecCCcCCHHHHHHHHHhhcchh--hhhcccc---cCceEEEEEeehHhHHHHHHHH
Confidence 3568999999999999999999999999999 6544322 3789999999999999999874
No 84
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.59 E-value=8.5e-05 Score=66.05 Aligned_cols=63 Identities=27% Similarity=0.350 Sum_probs=56.4
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.+...+||+|+.+.+|.++++..|+.||.|. .+.+..++..+ +||+||+|.+.+.+..||+..
T Consensus 99 ~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~--~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~ 163 (231)
T KOG4209|consen 99 VDAPSVWVGNVDFLVTLTKIELHFESCGGIN--RVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLD 163 (231)
T ss_pred cCCceEEEeccccccccchhhheeeccCCcc--ceeeeccccCCCcceeEEEecccHhhhHHHhhcC
Confidence 4679999999999999999999999999998 78887776654 999999999999999999844
No 85
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=97.48 E-value=0.00012 Score=66.10 Aligned_cols=54 Identities=26% Similarity=0.485 Sum_probs=49.0
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHH
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVE 268 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~ 268 (275)
...+|+|+||.+.++..+|+..|.+||.+. .+.|.+ +|+||.|+-.+++..||+
T Consensus 77 ~stkl~vgNis~tctn~ElRa~fe~ygpvi--ecdivk------dy~fvh~d~~eda~~air 130 (346)
T KOG0109|consen 77 ASTKLHVGNISPTCTNQELRAKFEKYGPVI--ECDIVK------DYAFVHFDRAEDAVEAIR 130 (346)
T ss_pred CccccccCCCCccccCHHHhhhhcccCCce--eeeeec------ceeEEEEeeccchHHHHh
Confidence 568999999999999999999999999999 666654 599999999999999994
No 86
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.47 E-value=0.00011 Score=64.23 Aligned_cols=59 Identities=24% Similarity=0.498 Sum_probs=49.2
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
...+|||.||..++++++|+.+|+.|-... .++|+.. .|.|.+|++|++.+.|..||..
T Consensus 209 acstlfianl~~~~~ed~l~~~~~~~~gf~--~l~~~~~--~g~~vaf~~~~~~~~at~am~~ 267 (284)
T KOG1457|consen 209 ACSTLFIANLGPNCTEDELKQLLSRYPGFH--ILKIRAR--GGMPVAFADFEEIEQATDAMNH 267 (284)
T ss_pred hhhhHhhhccCCCCCHHHHHHHHHhCCCce--EEEEecC--CCcceEeecHHHHHHHHHHHHH
Confidence 456899999999999999999999998877 5566543 2578999999999988888753
No 87
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=97.40 E-value=0.00042 Score=61.91 Aligned_cols=62 Identities=29% Similarity=0.399 Sum_probs=53.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCC-CCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD-VGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~-~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
...+|+|.||++.++.++|+++|..||.++ .+.|..++. ...|.|-|.|...++|.+|++..
T Consensus 82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~--r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~ 144 (243)
T KOG0533|consen 82 RSTKVNVSNLPYGVIDADLKELFAEFGELK--RVAVHYDRAGRSLGTADVSFNRRDDAERAVKKY 144 (243)
T ss_pred CcceeeeecCCcCcchHHHHHHHHHhccce--EEeeccCCCCCCCccceeeecchHhHHHHHHHh
Confidence 458899999999999999999999999888 666655543 33799999999999999999865
No 88
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=97.36 E-value=0.00088 Score=51.65 Aligned_cols=58 Identities=17% Similarity=0.299 Sum_probs=45.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcc--CceeEceEEEecCCCC--CccEEEEEeCCHHHHHHHHH
Q 023954 209 KSVYVRNLPPSVSESEIAEEFKKF--GELSSEGVVIRSRKDV--GICYAFVEFEDMTGVRNAVE 268 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~L~~~F~~f--G~I~~~~v~v~~~~~~--grgfgFV~F~~~~~a~~Ai~ 268 (275)
++|.|+|||...|.++|.+++... |... .+-++.|-.+ ..|||||.|.+.+.+.+-.+
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yD--F~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~ 63 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYD--FFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYK 63 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcce--EEEeeeeccCCCceEEEEEEcCCHHHHHHHHH
Confidence 579999999999999998888543 4444 7777776444 48999999999998876544
No 89
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.30 E-value=0.00066 Score=62.73 Aligned_cols=63 Identities=25% Similarity=0.303 Sum_probs=52.9
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEc------eEEE-ecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSE------GVVI-RSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~------~v~v-~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
...+|||.|||.++|.+++.++|++||-|.++ .|.| +.+.|.-+|=|.+.|...+++.-||+-
T Consensus 133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~i 202 (382)
T KOG1548|consen 133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKI 202 (382)
T ss_pred cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHH
Confidence 56789999999999999999999999999864 3454 334444599999999999999999874
No 90
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=97.26 E-value=0.00078 Score=64.76 Aligned_cols=65 Identities=28% Similarity=0.292 Sum_probs=52.9
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcCccC
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMW 274 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~pi~i 274 (275)
...-|-+++|||++|+++|.++|+.++ |. .+.+.+..++..|=|||+|.+.+++++||+..-.++
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~--~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~m 73 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNCG-IE--NLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESM 73 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcCc-ee--EEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHh
Confidence 456777899999999999999999996 55 455555555567999999999999999999764443
No 91
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=97.20 E-value=0.00094 Score=52.22 Aligned_cols=57 Identities=25% Similarity=0.317 Sum_probs=36.1
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
|+-|+|.++...++.++|+.+|++||.|. .|.+.. |-.-|||.|.+.++|++|+++.
T Consensus 1 G~il~~~g~~~~~~re~iK~~f~~~g~V~--yVD~~~----G~~~g~VRf~~~~~A~~a~~~~ 57 (105)
T PF08777_consen 1 GCILKFSGLGEPTSREDIKEAFSQFGEVA--YVDFSR----GDTEGYVRFKTPEAAQKALEKL 57 (105)
T ss_dssp --EEEEEE--SS--HHHHHHHT-SS--EE--EEE--T----T-SEEEEEESS---HHHHHHHH
T ss_pred CeEEEEecCCCCcCHHHHHHHHHhcCCcc--eEEecC----CCCEEEEEECCcchHHHHHHHH
Confidence 35688999999999999999999999999 776654 3347999999999999998753
No 92
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.13 E-value=0.00071 Score=65.41 Aligned_cols=63 Identities=27% Similarity=0.514 Sum_probs=50.4
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCC-CCC----cc---EEEEEeCCHHHHHHHHHhcC
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRK-DVG----IC---YAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~-~~g----rg---fgFV~F~~~~~a~~Ai~a~p 271 (275)
.-.++||||+||++++++.|...|..||.+.. .+..+. ..+ +| |.|+.|+++.+++.-|.+|.
T Consensus 257 ~~S~KVFvGGlp~dise~~i~~~F~~FGs~~V---dWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~ 327 (520)
T KOG0129|consen 257 RYSRKVFVGGLPWDITEAQINASFGQFGSVKV---DWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS 327 (520)
T ss_pred ccccceeecCCCccccHHHHHhhcccccceEe---ecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHh
Confidence 34678999999999999999999999999973 333211 111 56 99999999999999888873
No 93
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.08 E-value=0.00026 Score=61.71 Aligned_cols=61 Identities=28% Similarity=0.316 Sum_probs=53.5
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
..++|||+|+...++++.|.++|-+-|.+. .|.|+..+...--||||.|.++-++.-|++-
T Consensus 8 ~drtl~v~n~~~~v~eelL~ElfiqaGPV~--kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L 68 (267)
T KOG4454|consen 8 MDRTLLVQNMYSGVSEELLSELFIQAGPVY--KVGIPSGQDQEQKFAYVFFPNENSVQLAGQL 68 (267)
T ss_pred hhhHHHHHhhhhhhhHHHHHHHhhccCceE--EEeCCCCccCCCceeeeecccccchhhhhhh
Confidence 358999999999999999999999999999 8888877665534999999999999988763
No 94
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=96.72 E-value=0.00093 Score=61.27 Aligned_cols=61 Identities=21% Similarity=0.421 Sum_probs=54.4
Q ss_pred CCcEEE-EcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHh
Q 023954 207 EIKSVY-VRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 207 ~~~~if-V~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a 269 (275)
...++| +++|++.+++++|+.+|..+|.|. .++++.+..++ +|||||.|.+......++..
T Consensus 183 ~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~--~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~ 246 (285)
T KOG4210|consen 183 PSDTIFFVGELDFSLTRDDLKEHFVSSGEIT--SVRLPTDEESGDSKGFAYVDFSAGNSKKLALND 246 (285)
T ss_pred ccccceeecccccccchHHHhhhccCcCcce--eeccCCCCCccchhhhhhhhhhhchhHHHHhhc
Confidence 345666 999999999999999999999999 88888887776 89999999999999999884
No 95
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.59 E-value=0.0044 Score=59.71 Aligned_cols=67 Identities=24% Similarity=0.267 Sum_probs=51.3
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecC-CCCCccEEEEEeCCHHHHHHHHHhcCccC
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR-KDVGICYAFVEFEDMTGVRNAVEVCILMW 274 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~-~~~grgfgFV~F~~~~~a~~Ai~a~pi~i 274 (275)
....|-+++||+.||+++|.++|.-.--+. ++|.+..+ ++...|=|||.|++.+.+++||...--.|
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~-~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~i 169 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVP-DGILLPMDQRGRPTGEAFVQFESQESAEIALGRHRENI 169 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccc-cceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHhh
Confidence 346788899999999999999998764433 35655444 44447899999999999999998764333
No 96
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=96.57 E-value=0.00067 Score=65.93 Aligned_cols=66 Identities=23% Similarity=0.349 Sum_probs=58.4
Q ss_pred cccCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhc
Q 023954 203 EDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 203 ~~~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.++.+.+++|+--|...++..+|.++|+.+|.|. .|+++.++.++ +|.|||+|.|.+++..||.-+
T Consensus 174 ~eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVr--dVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaLs 241 (549)
T KOG0147|consen 174 PEERDQRTVFCMQLARRNPPRDLEEFFSIVGKVR--DVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIALS 241 (549)
T ss_pred chHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcc--eeEeeccccchhhcceeEEEEecccchhhHhhhc
Confidence 3456789999999999999999999999999999 99998887765 899999999999999888544
No 97
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.47 E-value=0.0066 Score=58.88 Aligned_cols=67 Identities=19% Similarity=0.270 Sum_probs=58.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHh-ccCceeEceEEEecCCCCC--ccEEEEEeCCHHHHHHHHHhcCccC
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFK-KFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCILMW 274 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~-~fG~I~~~~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~a~pi~i 274 (275)
+..++||||+||.-++..+|-.+|. -||.|. .+-|-.|..-+ +|-|-|+|.+..+..+||.+.=|.|
T Consensus 368 DprrTVFVGgvprpl~A~eLA~imd~lyGgV~--yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsarFvql 437 (520)
T KOG0129|consen 368 DPRRTVFVGGLPRPLTAEELAMIMEDLFGGVL--YVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISARFVQL 437 (520)
T ss_pred CccceEEecCCCCcchHHHHHHHHHHhcCceE--EEEeccCcccCCCCCcceeeecccHHHHHHHhhheEEE
Confidence 4568999999999999999999997 799999 88887774433 8999999999999999999875543
No 98
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=96.33 E-value=0.011 Score=40.30 Aligned_cols=52 Identities=19% Similarity=0.529 Sum_probs=38.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHH
Q 023954 209 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAV 267 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai 267 (275)
+.|-|.+.+.+..+. +...|..||+|. .+.+.. ..-+.||.|.+..+|++||
T Consensus 2 ~wI~V~Gf~~~~~~~-vl~~F~~fGeI~--~~~~~~----~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEE-VLEHFASFGEIV--DIYVPE----STNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHHH-HHHHHHhcCCEE--EEEcCC----CCcEEEEEECCHHHHHhhC
Confidence 345677777666554 555899999999 666652 2448999999999999986
No 99
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=95.97 E-value=0.0087 Score=56.63 Aligned_cols=53 Identities=30% Similarity=0.401 Sum_probs=44.6
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHH
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRN 265 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~ 265 (275)
..+-|.+||||++++|++|-.++..||.|. .+.+.. |+.-+|++|.+.++|..
T Consensus 27 pSkV~HlRnlp~e~tE~elI~Lg~pFG~vt--n~~~lk----GknQAflem~d~~sAvt 79 (492)
T KOG1190|consen 27 PSKVVHLRNLPWEVTEEELISLGLPFGKVT--NLLMLK----GKNQAFLEMADEESAVT 79 (492)
T ss_pred CcceeEeccCCccccHHHHHHhccccccee--eeeeec----cchhhhhhhcchhhhhh
Confidence 568899999999999999999999999998 444432 44589999999988765
No 100
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=95.80 E-value=0.0095 Score=53.19 Aligned_cols=61 Identities=25% Similarity=0.423 Sum_probs=53.5
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 209 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..|||.||...++-+.|...|..||.|.. .|.+..+++...+=++|.|...-.+.+|++.|
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~-av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~ 92 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIER-AVAKVDDRGKPTREGIVEFAKKPNARKAARRC 92 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccch-heeeecccccccccchhhhhcchhHHHHHHHh
Confidence 78999999999999999999999999985 55556666666788999999999999998887
No 101
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=95.74 E-value=0.028 Score=49.33 Aligned_cols=59 Identities=17% Similarity=0.300 Sum_probs=49.2
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
....+|+.|||..++.+.|..+|.+|...+ .|++...+ ++.+||+|.+...+..|..+.
T Consensus 145 pn~ilf~~niP~es~~e~l~~lf~qf~g~k--eir~i~~~---~~iAfve~~~d~~a~~a~~~l 203 (221)
T KOG4206|consen 145 PNNILFLTNIPSESESEMLSDLFEQFPGFK--EIRLIPPR---SGIAFVEFLSDRQASAAQQAL 203 (221)
T ss_pred CceEEEEecCCcchhHHHHHHHHhhCcccc--eeEeccCC---CceeEEecchhhhhHHHhhhh
Confidence 468899999999999999999999999998 77776532 579999999987766666554
No 102
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=95.72 E-value=0.022 Score=53.68 Aligned_cols=67 Identities=16% Similarity=0.045 Sum_probs=49.2
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcc---C-ceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcCccCC
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKF---G-ELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 275 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~f---G-~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~pi~ig 275 (275)
.--|-.|+||+++++.++.++|..- + ... +.+.|.+..++--|=|||.|...+.|+.||..+--+||
T Consensus 161 qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~e-gvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iG 231 (508)
T KOG1365|consen 161 QVIVRMRGLPFDATALDVVEFFGPPCPVTGGTE-GVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNIG 231 (508)
T ss_pred ceEEEecCCCCCcchHHHHHhcCCCCcccCCcc-ceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHHh
Confidence 4567779999999999999999732 2 222 13344443444578999999999999999988755554
No 103
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=95.66 E-value=0.009 Score=58.45 Aligned_cols=63 Identities=21% Similarity=0.367 Sum_probs=54.2
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCC--CccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV--GICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~--grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
....+|||++||...++.+++++...||.++ ...+..+..+ ++||+|.+|-+..-...||...
T Consensus 287 ~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk--~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agL 351 (500)
T KOG0120|consen 287 DSPNKIFVGGLPLYLTEDQVKELLDSFGPLK--AFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGL 351 (500)
T ss_pred cccchhhhccCcCccCHHHHHHHHHhcccch--hheeecccccccccceeeeeeeCCcchhhhhccc
Confidence 3568999999999999999999999999999 7777777664 4999999999988887777654
No 104
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=95.29 E-value=0.065 Score=41.53 Aligned_cols=64 Identities=16% Similarity=0.285 Sum_probs=42.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEE-EecC--------CCCCccEEEEEeCCHHHHHHHHHhcCccC
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVV-IRSR--------KDVGICYAFVEFEDMTGVRNAVEVCILMW 274 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~-v~~~--------~~~grgfgFV~F~~~~~a~~Ai~a~pi~i 274 (275)
.+.|-|-+.|... ...+-+.|++||.|. ... +..+ ...+..+-.|.|++..+|.+||+.+..+|
T Consensus 6 ~~wVtVFGfp~~~-~~~Vl~~F~~~G~Il--e~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~ 78 (100)
T PF05172_consen 6 ETWVTVFGFPPSA-SNQVLRHFSSFGTIL--EHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIF 78 (100)
T ss_dssp CCEEEEE---GGG-HHHHHHHHHCCS-EE--CEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEE
T ss_pred CeEEEEEccCHHH-HHHHHHHHHhcceEE--EeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEE
Confidence 4557777888774 456777899999998 332 1110 11246789999999999999999986655
No 105
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=95.08 E-value=0.033 Score=51.87 Aligned_cols=64 Identities=27% Similarity=0.425 Sum_probs=53.1
Q ss_pred cCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEc------eEEEecCCCCC--ccEEEEEeCCHHHHHHHHH
Q 023954 205 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSE------GVVIRSRKDVG--ICYAFVEFEDMTGVRNAVE 268 (275)
Q Consensus 205 ~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~------~v~v~~~~~~g--rgfgFV~F~~~~~a~~Ai~ 268 (275)
.....+|||.+|+..+++.+|.++|.++|.|+.+ .|.|-.++.++ ||=|.|.|++...|+.||.
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~ 134 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIE 134 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhh
Confidence 3456899999999999999999999999999743 24444455555 8999999999999999985
No 106
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=94.76 E-value=0.0033 Score=64.04 Aligned_cols=63 Identities=27% Similarity=0.358 Sum_probs=53.0
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEec--CCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRS--RKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~--~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
....++||+||+..+.+.+|...|..+|.+. .+++.. +++.-||+||++|.+.+.+.+||...
T Consensus 665 R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e--~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~ 729 (881)
T KOG0128|consen 665 RDLIKIFVSNLSPKMSEEDLSERFSPSGTIE--VVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFR 729 (881)
T ss_pred HHHHHHHHhhcchhhcCchhhhhcCccchhh--hHHHHHHhhccccccceeeEeecCCchhhhhhhh
Confidence 4567899999999999999999999999998 666653 33334899999999999999998754
No 107
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=94.71 E-value=0.042 Score=52.40 Aligned_cols=65 Identities=25% Similarity=0.365 Sum_probs=52.6
Q ss_pred ccCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecC---C--CCC----------ccEEEEEeCCHHHHHHHHH
Q 023954 204 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR---K--DVG----------ICYAFVEFEDMTGVRNAVE 268 (275)
Q Consensus 204 ~~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~---~--~~g----------rgfgFV~F~~~~~a~~Ai~ 268 (275)
++...++|.+-|||.+-.-+-|.++|+.+|.|+ .|+|... . .++ +-+|||+|+..+.|.+|-+
T Consensus 227 eel~srtivaenLP~Dh~~enl~kiFg~~G~Ik--sIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e 304 (484)
T KOG1855|consen 227 EELPSRTIVAENLPLDHSYENLSKIFGTVGSIK--SIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARE 304 (484)
T ss_pred cccccceEEEecCCcchHHHHHHHHhhccccee--eeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHH
Confidence 345789999999999988899999999999999 8888765 1 111 4569999999999888865
Q ss_pred hc
Q 023954 269 VC 270 (275)
Q Consensus 269 a~ 270 (275)
..
T Consensus 305 ~~ 306 (484)
T KOG1855|consen 305 LL 306 (484)
T ss_pred hh
Confidence 43
No 108
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=94.58 E-value=0.021 Score=50.22 Aligned_cols=56 Identities=30% Similarity=0.404 Sum_probs=48.5
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
..+++.+.||..++...+|.+.|.++|.+. ...+ .++++||.|...+++.+||...
T Consensus 98 s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~--~~~~------~~~~~~v~Fs~~~da~ra~~~l 153 (216)
T KOG0106|consen 98 THFRLIVRNLSLRVSWQDLKDHFRPAGEVT--YVDA------RRNFAFVEFSEQEDAKRALEKL 153 (216)
T ss_pred ccceeeeccchhhhhHHHHhhhhcccCCCc--hhhh------hccccceeehhhhhhhhcchhc
Confidence 468999999999999999999999999995 3333 2569999999999999999876
No 109
>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=94.55 E-value=0.12 Score=38.73 Aligned_cols=52 Identities=19% Similarity=0.217 Sum_probs=34.7
Q ss_pred cEEEEcCCCCCCCHHH----HHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 209 KSVYVRNLPPSVSESE----IAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~----L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
.-|||.|||.+.+... |+.++..+|.-. +.|. .|-|+|.|.+.+.|.+|.+.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkV---l~v~------~~tAilrF~~~~~A~RA~KR 58 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKV---LSVS------GGTAILRFPNQEFAERAQKR 58 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--E---EE--------TT-EEEEESSHHHHHHHHHH
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEE---EEEe------CCEEEEEeCCHHHHHHHHHh
Confidence 4689999999988754 667777886522 2332 36899999999999999874
No 110
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=94.55 E-value=0.031 Score=52.06 Aligned_cols=62 Identities=15% Similarity=0.211 Sum_probs=45.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcc-----CceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcC
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKF-----GELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~f-----G~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~p 271 (275)
....+|||||-|++|+++|-+..... -.|+ ...-| .++.+||||+|...+..+.++-++-.|
T Consensus 79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmK--FFENR-~NGQSKG~AL~~~~SdAa~Kq~MeiLP 145 (498)
T KOG4849|consen 79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMK--FFENR-TNGQSKGYALLVLNSDAAVKQTMEILP 145 (498)
T ss_pred ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhh--hhhcc-cCCcccceEEEEecchHHHHHHHHhcc
Confidence 45789999999999999997776544 3444 22222 234459999999999888888877554
No 111
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.44 E-value=0.08 Score=49.20 Aligned_cols=61 Identities=18% Similarity=0.467 Sum_probs=44.9
Q ss_pred CcEEEEcCCCCCCCHHH----H--HHHHhccCceeEceEEEecCCCC---Ccc-E-EEEEeCCHHHHHHHHHhc
Q 023954 208 IKSVYVRNLPPSVSESE----I--AEEFKKFGELSSEGVVIRSRKDV---GIC-Y-AFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~----L--~~~F~~fG~I~~~~v~v~~~~~~---grg-f-gFV~F~~~~~a~~Ai~a~ 270 (275)
..-+||-+|++.+-.++ | .++|++||.|. .|.|...... -.+ + -||+|...++|.+||.+-
T Consensus 114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~--KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~v 185 (480)
T COG5175 114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIK--KIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEV 185 (480)
T ss_pred cceeEEecCCCCCCcccccccccchhhhhhcccee--EEEecccccccccccccceEEEEecchHHHHHHHHHh
Confidence 35689999988876655 3 57899999999 7766543311 123 2 389999999999999864
No 112
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=94.36 E-value=0.31 Score=34.45 Aligned_cols=54 Identities=19% Similarity=0.282 Sum_probs=43.5
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcc----CceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKF----GELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~f----G~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
...+|+|+|+ -+++.++++.+|..| +.. .|.+..+. -|-|.|.+.+.|.+||.+
T Consensus 4 rpeavhirGv-d~lsT~dI~~y~~~y~~~~~~~---~IEWIdDt-----ScNvvf~d~~~A~~AL~~ 61 (62)
T PF10309_consen 4 RPEAVHIRGV-DELSTDDIKAYFSEYFDEEGPF---RIEWIDDT-----SCNVVFKDEETAARALVA 61 (62)
T ss_pred eeceEEEEcC-CCCCHHHHHHHHHHhcccCCCc---eEEEecCC-----cEEEEECCHHHHHHHHHc
Confidence 3568999999 568888999999988 433 67777765 367999999999999976
No 113
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=92.89 E-value=0.12 Score=49.45 Aligned_cols=56 Identities=27% Similarity=0.431 Sum_probs=42.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 209 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.++||+||...++..+|+.+|+..-.-..+.+.+. .||+||++.+...+.+||+..
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k------~gyafvd~pdq~wa~kaie~~ 57 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK------SGYAFVDCPDQQWANKAIETL 57 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeee------cceeeccCCchhhhhhhHHhh
Confidence 46899999999999999999975422111122221 479999999999999999875
No 114
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=92.85 E-value=0.16 Score=50.19 Aligned_cols=62 Identities=23% Similarity=0.298 Sum_probs=47.3
Q ss_pred CCcEEEEcCCCCCCCH------HHHHHHHhccCceeEceEEEecCCCCC-ccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSE------SEIAEEFKKFGELSSEGVVIRSRKDVG-ICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te------~~L~~~F~~fG~I~~~~v~v~~~~~~g-rgfgFV~F~~~~~a~~Ai~a~ 270 (275)
....|+|-|+|---.. .-|..+|+++|+|. .+.+..+...| +||.|++|.+..+|+.|++..
T Consensus 57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~v--n~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l 125 (698)
T KOG2314|consen 57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIV--NMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSL 125 (698)
T ss_pred cceEEEECCCcccChhHHHHHHHHHHHHHHhhcccc--ceeeccCccCCeeeEEEEEecChhhHHHHHHhc
Confidence 3467888888764322 23567899999999 77776554444 999999999999999999865
No 115
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=91.91 E-value=0.52 Score=40.54 Aligned_cols=57 Identities=21% Similarity=0.276 Sum_probs=49.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
...++.|.+||...+..+|+++..+-|.+. ...+-.+ |+|.|+|-..++++-||+..
T Consensus 114 Se~RVvVsGLp~SgSWQDLKDHmReaGdvC--fadv~rD-----g~GvV~~~r~eDMkYAvr~l 170 (241)
T KOG0105|consen 114 SEYRVVVSGLPPSGSWQDLKDHMREAGDVC--FADVQRD-----GVGVVEYLRKEDMKYAVRKL 170 (241)
T ss_pred cceeEEEecCCCCCchHHHHHHHHhhCCee--eeeeecc-----cceeeeeeehhhHHHHHHhh
Confidence 457899999999999999999999999987 6666544 58999999999999998754
No 116
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=90.70 E-value=0.25 Score=51.20 Aligned_cols=58 Identities=22% Similarity=0.382 Sum_probs=48.9
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
...+++|+++|..|+....|..+|..||.|. .|.++. |--|+||.|++...++.|++.
T Consensus 453 t~ttr~~sgglg~w~p~~~l~r~fd~fGpir--~Idy~h----gq~yayi~yes~~~aq~a~~~ 510 (975)
T KOG0112|consen 453 TPTTRLQSGGLGPWSPVSRLNREFDRFGPIR--IIDYRH----GQPYAYIQYESPPAAQAATHD 510 (975)
T ss_pred ccceeeccCCCCCCChHHHHHHHhhccCcce--eeeccc----CCcceeeecccCccchhhHHH
Confidence 3568999999999999999999999999999 655543 345999999999988888753
No 117
>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=90.29 E-value=0.99 Score=33.85 Aligned_cols=54 Identities=19% Similarity=0.271 Sum_probs=40.5
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.+-.||. .|......+|.++|+.||.|. |.+..+. -|||...+.+.+..++...
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I~---VsWi~dT-----SAfV~l~~r~~~~~v~~~~ 62 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQIY---VSWINDT-----SAFVALHNRDQAKVVMNTL 62 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCEE---EEEECTT-----EEEEEECCCHHHHHHHHHH
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcEE---EEEEcCC-----cEEEEeecHHHHHHHHHHh
Confidence 4556665 999999999999999999996 5555553 5999999999998887654
No 118
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=89.96 E-value=0.22 Score=44.69 Aligned_cols=60 Identities=25% Similarity=0.486 Sum_probs=45.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCC--------C--c----cEEEEEeCCHHHHHHHHH
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV--------G--I----CYAFVEFEDMTGVRNAVE 268 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~--------g--r----gfgFV~F~~~~~a~~Ai~ 268 (275)
...-||+++||+.+...-|+++|..||.|- .|.+-....+ | + -=|.|+|.+...|.++-.
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVG--RvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe 146 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVG--RVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAE 146 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccc--eEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHH
Confidence 567899999999999999999999999998 7777544322 1 1 125688888877776543
No 119
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=89.92 E-value=1 Score=43.07 Aligned_cols=58 Identities=22% Similarity=0.240 Sum_probs=49.9
Q ss_pred CcEEEEcCCCCC-CCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 208 IKSVYVRNLPPS-VSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 208 ~~~ifV~nLp~~-~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
...|.|.||... +|.+-|..+|+-||.|. .|.|..++.. -|.|.|.|...|+-|+...
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVq--RVkil~nkkd---~ALIQmsd~~qAqLA~~hL 355 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQ--RVKILYNKKD---NALIQMSDGQQAQLAMEHL 355 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceE--EEEeeecCCc---ceeeeecchhHHHHHHHHh
Confidence 577888898665 89999999999999999 8998887654 5999999999999998764
No 120
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=89.77 E-value=0.16 Score=52.17 Aligned_cols=60 Identities=15% Similarity=0.129 Sum_probs=49.9
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCC-CCCccEEEEEeCCHHHHHHHHHh
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRK-DVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~-~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
...+||+|+|+..|.+.|+.++.++|.++ .+.+...+ +..+|.+||.|.+...+.++...
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~--~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s 796 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVT--SLRLVTVRAGKPKGKARVDYNTEADASRKVAS 796 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCcc--ccchhhhhccccccceeccCCCcchhhhhccc
Confidence 45799999999999999999999999999 55555444 34489999999999988887543
No 121
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=89.68 E-value=0.27 Score=46.54 Aligned_cols=64 Identities=20% Similarity=0.291 Sum_probs=49.1
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeE-ceEEEecC-CCCCccEEEEEeCCHHHHHHHHHhcC
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSS-EGVVIRSR-KDVGICYAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~-~~v~v~~~-~~~grgfgFV~F~~~~~a~~Ai~a~p 271 (275)
...|-+|+||+.++.++|-.+|+.|..-.+ -+|.+..+ .+...|=|||.|.+.+.+..|...+.
T Consensus 280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~h 345 (508)
T KOG1365|consen 280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCH 345 (508)
T ss_pred CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHH
Confidence 456788999999999999999998865431 13555443 33347999999999999999887663
No 122
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=89.19 E-value=0.32 Score=46.09 Aligned_cols=57 Identities=21% Similarity=0.367 Sum_probs=46.1
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC-----ccEEEEEeCCHHHHHHH
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG-----ICYAFVEFEDMTGVRNA 266 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g-----rgfgFV~F~~~~~a~~A 266 (275)
..-|-|.||.+.++.++++.||+..|+|. .+.|..+-+.. ...|||.|.|...+..|
T Consensus 7 ~~vIqvanispsat~dqm~tlFg~lGkI~--elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~va 68 (479)
T KOG4676|consen 7 LGVIQVANISPSATKDQMQTLFGNLGKIP--ELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVA 68 (479)
T ss_pred CceeeecccCchhhHHHHHHHHhhccccc--cccccCCCCCccCcceeeeEEEeccCCcceeHH
Confidence 34889999999999999999999999999 77665432211 56899999998877665
No 123
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=88.86 E-value=0.89 Score=43.02 Aligned_cols=56 Identities=34% Similarity=0.500 Sum_probs=46.9
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHH
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVE 268 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~ 268 (275)
..--+.||+|-..+++.+|-+..+.||.|. .+..+.. +.-+.|+|++.+.+..++.
T Consensus 30 ~spvvhvr~l~~~v~eadl~eal~~fG~i~--yvt~~P~----~r~alvefedi~~akn~Vn 85 (494)
T KOG1456|consen 30 PSPVVHVRGLHQGVVEADLVEALSNFGPIA--YVTCMPH----KRQALVEFEDIEGAKNCVN 85 (494)
T ss_pred CCceEEEeccccccchhHHHHHHhcCCceE--EEEeccc----cceeeeeeccccchhhhee
Confidence 456799999999999999999999999998 6655543 2369999999999888864
No 124
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=88.31 E-value=0.12 Score=53.52 Aligned_cols=65 Identities=25% Similarity=0.381 Sum_probs=53.0
Q ss_pred ccccCCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecC-CCCCccEEEEEeCCHHHHHHHHH
Q 023954 202 VEDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR-KDVGICYAFVEFEDMTGVRNAVE 268 (275)
Q Consensus 202 ~~~~~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~-~~~grgfgFV~F~~~~~a~~Ai~ 268 (275)
.++.....+||+|||+..+++.+|+..|..+|.+. .|.|... .+++--||||.|.+...+.+|+.
T Consensus 366 ~DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve--~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~ 431 (975)
T KOG0112|consen 366 LDDFRATRTLFLGNLDSKLTESEIRPAFDESGKVE--EVDIKTPHIKTESAYAFVSLLNTDMTPSAKF 431 (975)
T ss_pred ccchhhhhhhhhcCcccchhhhhhhhhhhhhcccc--ccccccCCCCcccchhhhhhhccccCcccch
Confidence 44555678999999999999999999999999999 7777654 34457899999998887766643
No 125
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=85.86 E-value=1 Score=45.80 Aligned_cols=61 Identities=26% Similarity=0.306 Sum_probs=48.9
Q ss_pred EEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcCccC
Q 023954 210 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMW 274 (275)
Q Consensus 210 ~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~pi~i 274 (275)
-|-+.|||+.+...||+.+|+-. +|-.++|+|... --|=+||.|.+-++|.-|+-..-.||
T Consensus 4 IIRLqnLP~tAga~DIR~FFSGL-~IPdGgVHIIGG---e~GeaFI~FsTDeDARlaM~kdr~~i 64 (944)
T KOG4307|consen 4 IIRLQNLPMTAGASDIRTFFSGL-KIPDGGVHIIGG---EEGEAFIGFSTDEDARLAMTKDRLMI 64 (944)
T ss_pred EEEecCCcccccchHHHHhhccc-ccCCCceEEecc---cccceEEEecccchhhhhhhhcccce
Confidence 35678999999999999999865 455467777642 16889999999999999988776666
No 126
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=85.30 E-value=2.2 Score=43.48 Aligned_cols=61 Identities=23% Similarity=0.254 Sum_probs=49.8
Q ss_pred Cc-EEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecC-CCCCccEEEEEeCCHHHHHHHHHh
Q 023954 208 IK-SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR-KDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 208 ~~-~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~-~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
++ -|-+.|+|++++-++|-++|..|-.+. +.|.++.+ ++..-|=|.|-|++.+.|.+|...
T Consensus 866 Gp~V~~~~n~Pf~v~l~dI~~FF~dY~~~p-~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~d 928 (944)
T KOG4307|consen 866 GPRVLSCNNFPFDVTLEDIVEFFNDYEPDP-NSIRIRRNDDGVPTGECMVAFESQEEARRASMD 928 (944)
T ss_pred CCeEEEecCCCccccHHHHHHHhcccccCC-CceeEeecCCCCcccceeEeecCHHHHHhhhhc
Confidence 44 678899999999999999999997665 57777654 444478999999999999999754
No 127
>PF10429 Mtr2: Nuclear pore RNA shuttling protein Mtr2; InterPro: IPR019488 Mtr2 is a monomeric, dual-action, RNA-shuttle protein found in yeasts. Transport across the nuclear-cytoplasmic membrane is via the macro-molecular membrane-spanning nuclear pore complex, NPC. The pore is lined by a subset of NPC members called nucleoporins that present FG (Phe-Gly) receptors, characteristically GLFG and FXFG motifs, for shuttling RNAs and proteins. RNA cargo is bound to soluble transport proteins (nuclear export factors) such as Mex67 in yeasts, and TAP in metazoa, which pass along the pore by binding to successive FG receptors. Mtr2 when bound to Mex67 maximises this FG-binding. Mtr2 also acts independently of Mex67 in transporting the large ribosomal RNA subunit through the pore []. ; PDB: 1Q40_A 1Q42_A 1OF5_B.
Probab=83.68 E-value=1.8 Score=36.43 Aligned_cols=44 Identities=16% Similarity=0.143 Sum_probs=34.2
Q ss_pred ceEEeeeeecccCC-CcEEEEEEeEEEecCccccccceeEEEeeec
Q 023954 7 GIEIKTAHSLESWN-GGVLVMVSGSVQVKDFSARRKFVQTFFLAPQ 51 (275)
Q Consensus 7 ~~~i~t~D~q~s~~-~gi~v~v~G~~~~~~~~~~~~F~Q~F~L~~~ 51 (275)
+|+++++||+...+ |++||-|+|.|..|+ ..+-|--|+.-|.+.
T Consensus 65 qH~L~s~D~H~IPGsgt~i~N~n~KVRFDE-sGrdk~G~~a~l~~~ 109 (166)
T PF10429_consen 65 QHQLTSFDCHVIPGSGTFIINVNCKVRFDE-SGRDKLGEDADLPQP 109 (166)
T ss_dssp EEEEEEEEEEEETTTTEEEEEEEEEEEEB--SSB-TTS-B--TTS-
T ss_pred eeeeeeeeeeEeCCCCeEEEeeeEEEEecC-CCCCCCCCceeeccc
Confidence 89999999999864 569999999999987 888899999998775
No 128
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=83.20 E-value=4.3 Score=37.24 Aligned_cols=49 Identities=16% Similarity=0.242 Sum_probs=36.8
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHH
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMT 261 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~ 261 (275)
..-||++||++++...+|+..+.+.|-.- ..|.. ++ .+|-||+.|.+..
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~p---m~isw-kg-~~~k~flh~~~~~ 378 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTP---MSISW-KG-HFGKCFLHFGNRK 378 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCc---eeEee-ec-CCcceeEecCCcc
Confidence 45699999999999999999998887664 22222 21 2678999998854
No 129
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=83.06 E-value=0.76 Score=42.72 Aligned_cols=61 Identities=21% Similarity=0.498 Sum_probs=44.5
Q ss_pred cEEEEcCCCCCCCH-HHH--HHHHhccCceeEceEEEecCC----CCC-ccEEEEEeCCHHHHHHHHHhcC
Q 023954 209 KSVYVRNLPPSVSE-SEI--AEEFKKFGELSSEGVVIRSRK----DVG-ICYAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 209 ~~ifV~nLp~~~te-~~L--~~~F~~fG~I~~~~v~v~~~~----~~g-rgfgFV~F~~~~~a~~Ai~a~p 271 (275)
.-+||-+|+..... ..| ...|++||.|. .|.+..+. +.+ .+-++|+|+..+++.+||....
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~--ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~ 146 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKIN--KIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVD 146 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccce--EEeecCCcccccCCCCCCcccccccchHhhhhHHHHhh
Confidence 45788888877544 444 36789999999 66665544 112 5669999999999999998764
No 130
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=83.05 E-value=2.1 Score=43.18 Aligned_cols=55 Identities=24% Similarity=0.271 Sum_probs=45.8
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
...++||+|+...+..+-++.+...+|.|. . +...+ |||++|.......+|+..+
T Consensus 39 ~~~~vfv~~~~~~~s~~~~~~il~~~g~v~--s--~kr~~-----fgf~~f~~~~~~~ra~r~~ 93 (668)
T KOG2253|consen 39 PRDTVFVGNISYLVSQEFWKSILAKSGFVP--S--WKRDK-----FGFCEFLKHIGDLRASRLL 93 (668)
T ss_pred CCceeEecchhhhhhHHHHHHHHhhCCcch--h--hhhhh-----hcccchhhHHHHHHHHHHh
Confidence 458899999999999999999999999987 2 22222 9999999999999988765
No 131
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=82.92 E-value=2.4 Score=41.89 Aligned_cols=46 Identities=30% Similarity=0.402 Sum_probs=36.6
Q ss_pred HHHHHHHhccCceeEceEEEecCC-----CCCccEEEEEeCCHHHHHHHHHhc
Q 023954 223 SEIAEEFKKFGELSSEGVVIRSRK-----DVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 223 ~~L~~~F~~fG~I~~~~v~v~~~~-----~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
++++..+.+||.|. .|.+...- ..|-|--||+|.+.+++++|+++.
T Consensus 424 Edvr~ec~k~g~v~--~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L 474 (500)
T KOG0120|consen 424 EDVRTECAKFGAVR--SVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEEL 474 (500)
T ss_pred HHHHHHhcccCcee--EEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHc
Confidence 45666788999999 88886651 234688899999999999999875
No 132
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=79.97 E-value=6.7 Score=32.48 Aligned_cols=59 Identities=24% Similarity=0.381 Sum_probs=44.0
Q ss_pred CCCcEEEEcCCCCCCCH-HHHH---HHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcC
Q 023954 206 EEIKSVYVRNLPPSVSE-SEIA---EEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te-~~L~---~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~p 271 (275)
....+|-|+-|..++.. ++|+ ..++.||.|. .|.+. ||--|.|.|.|..+|=+|+.|-+
T Consensus 84 pPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~--SVT~c-----GrqsavVvF~d~~SAC~Av~Af~ 146 (166)
T PF15023_consen 84 PPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQ--SVTLC-----GRQSAVVVFKDITSACKAVSAFQ 146 (166)
T ss_pred CCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcc--eeeec-----CCceEEEEehhhHHHHHHHHhhc
Confidence 34678889888777644 3444 4567899999 66553 56679999999999999887753
No 133
>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=79.42 E-value=2.4 Score=36.10 Aligned_cols=62 Identities=19% Similarity=0.263 Sum_probs=34.4
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhc-cCceeE-ceEEE-ecCCCC---CccEEEEEeCCHHHHHHHHH
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKK-FGELSS-EGVVI-RSRKDV---GICYAFVEFEDMTGVRNAVE 268 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~-fG~I~~-~~v~v-~~~~~~---grgfgFV~F~~~~~a~~Ai~ 268 (275)
...+|-||+||+++|++++...+.. ++.... ..+.- ..+... ..+-|||.|.+.+++..-+.
T Consensus 6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~ 73 (176)
T PF03467_consen 6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRD 73 (176)
T ss_dssp ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHH
T ss_pred cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHH
Confidence 5679999999999999988775554 554410 02221 111111 15779999999888665544
No 134
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=79.11 E-value=6.7 Score=37.32 Aligned_cols=59 Identities=22% Similarity=0.181 Sum_probs=50.2
Q ss_pred CCCcEEEEcCCCCC-CCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 206 EEIKSVYVRNLPPS-VSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 206 ~~~~~ifV~nLp~~-~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
..++-+.|-+|... ++.+.|..+|=.||.|. .|.+++.+ -|-|.|++.|..++++|+.-
T Consensus 285 ~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~--rvkFmkTk---~gtamVemgd~~aver~v~h 344 (494)
T KOG1456|consen 285 APGCVMMVYGLDHGKMNCDRLFNLFCLYGNVE--RVKFMKTK---PGTAMVEMGDAYAVERAVTH 344 (494)
T ss_pred CCCcEEEEEeccccccchhhhhhhhhhcCcee--eEEEeecc---cceeEEEcCcHHHHHHHHHH
Confidence 46889999999876 67788999999999999 88877643 57899999999999999864
No 135
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=77.49 E-value=8.2 Score=35.69 Aligned_cols=61 Identities=15% Similarity=0.271 Sum_probs=43.1
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcCccCC
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 275 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~pi~ig 275 (275)
+.|-+|| +.+.... ..|-.+|.+||.|. .. +...+ ..|-+|.|.+..+|++||.....+|+
T Consensus 197 D~WVTVf--GFppg~~-s~vL~~F~~cG~Vv--kh-v~~~n---gNwMhirYssr~~A~KALskng~ii~ 257 (350)
T KOG4285|consen 197 DTWVTVF--GFPPGQV-SIVLNLFSRCGEVV--KH-VTPSN---GNWMHIRYSSRTHAQKALSKNGTIID 257 (350)
T ss_pred cceEEEe--ccCccch-hHHHHHHHhhCeee--ee-ecCCC---CceEEEEecchhHHHHhhhhcCeeec
Confidence 3455555 5555443 45678899999998 32 22222 35899999999999999998876664
No 136
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=76.68 E-value=6.9 Score=32.36 Aligned_cols=44 Identities=20% Similarity=0.291 Sum_probs=33.3
Q ss_pred HHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcCccCC
Q 023954 224 EIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 275 (275)
Q Consensus 224 ~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~pi~ig 275 (275)
+|-+.|..||.+. -+++..+ --.|+|.+..+|.+|+.-..+.|+
T Consensus 52 ~ll~~~~~~Gevv--LvRfv~~------~mwVTF~dg~sALaals~dg~~v~ 95 (146)
T PF08952_consen 52 ELLQKFAQYGEVV--LVRFVGD------TMWVTFRDGQSALAALSLDGIQVN 95 (146)
T ss_dssp HHHHHHHCCS-EC--EEEEETT------CEEEEESSCHHHHHHHHGCCSEET
T ss_pred HHHHHHHhCCceE--EEEEeCC------eEEEEECccHHHHHHHccCCcEEC
Confidence 5667788999887 5554432 478999999999999998887664
No 137
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=71.97 E-value=1.9 Score=39.59 Aligned_cols=63 Identities=16% Similarity=0.020 Sum_probs=50.9
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEe--cCCCCCccEEEEEeCCHHHHHHHHHhcC
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIR--SRKDVGICYAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~--~~~~~grgfgFV~F~~~~~a~~Ai~a~p 271 (275)
...++|+|++..++.+.+...+|...|... ...+. .+....+||+++.|...+.+..||..+.
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~--~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~ 151 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRV--DARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESG 151 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcc--cchhhhhccccccccceeeccccHHHHHHHHHhhh
Confidence 468899999999999998889999999776 33332 3334458999999999999999998764
No 138
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=71.71 E-value=2.5 Score=42.30 Aligned_cols=60 Identities=13% Similarity=0.129 Sum_probs=44.7
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.-.+.|||.||-.-.|.-+|+.++++-|.+.. .. |+ ++. +..|||.|.+.+.|..-+.|.
T Consensus 442 ~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Ve-e~-Wm-DkI--KShCyV~yss~eEA~atr~Al 501 (718)
T KOG2416|consen 442 EPSNVLHIDNLVRPFTLGQLKELLGRTGGNVE-EF-WM-DKI--KSHCYVSYSSVEEAAATREAL 501 (718)
T ss_pred CccceEeeecccccchHHHHHHHHhhccCchH-HH-HH-HHh--hcceeEecccHHHHHHHHHHH
Confidence 34678999999999999999999986554442 33 32 222 347899999999888877765
No 139
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=68.74 E-value=2.3 Score=38.27 Aligned_cols=45 Identities=18% Similarity=0.347 Sum_probs=34.3
Q ss_pred HHHHHHHh-ccCceeEceEEEecCCCCC-ccEEEEEeCCHHHHHHHHHh
Q 023954 223 SEIAEEFK-KFGELSSEGVVIRSRKDVG-ICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 223 ~~L~~~F~-~fG~I~~~~v~v~~~~~~g-rgfgFV~F~~~~~a~~Ai~a 269 (275)
++|...|. +||+|. .+.|..+.+.. +|=.||.|...++|++|++.
T Consensus 83 Ed~f~E~~~kygEie--e~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~ 129 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIE--ELNVCDNLGDHLVGNVYVKFRSEEDAEAALED 129 (260)
T ss_pred HHHHHHHHHHhhhhh--hhhhhcccchhhhhhhhhhcccHHHHHHHHHH
Confidence 34444454 999999 66666654433 88999999999999999875
No 140
>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=63.48 E-value=65 Score=25.26 Aligned_cols=60 Identities=12% Similarity=0.009 Sum_probs=39.2
Q ss_pred CcEEEE-cCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHH
Q 023954 208 IKSVYV-RNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVE 268 (275)
Q Consensus 208 ~~~ifV-~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~ 268 (275)
+..+.| ...|+.++.++|..+...+-.... .++|+++...++....+.|.+...|..-.+
T Consensus 12 ~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~-~~riird~~pnrymVLikF~~~~~Ad~Fy~ 72 (110)
T PF07576_consen 12 RSTLCCLAVPPYMTPSDFLLFFGAPFREDIE-HIRIIRDGTPNRYMVLIKFRDQESADEFYE 72 (110)
T ss_pred CceEEEEEeCcccccHHHHHHhhhcccccEE-EEEEeeCCCCceEEEEEEECCHHHHHHHHH
Confidence 344444 444455555666655566544443 777877765568899999999998876544
No 141
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=61.00 E-value=35 Score=34.23 Aligned_cols=58 Identities=16% Similarity=0.219 Sum_probs=43.9
Q ss_pred cCCCcEEEEcCCCCCCCHHHHHHHHhc--cCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 205 EEEIKSVYVRNLPPSVSESEIAEEFKK--FGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 205 ~~~~~~ifV~nLp~~~te~~L~~~F~~--fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
..+-|-|.+|-||.++-.++++.||+. +-++. .+.+-.+. -=||+|++..+|+.|.+.
T Consensus 172 ~~kRcIvilREIpettp~e~Vk~lf~~encPk~i--scefa~N~-----nWyITfesd~DAQqAyky 231 (684)
T KOG2591|consen 172 NHKRCIVILREIPETTPIEVVKALFKGENCPKVI--SCEFAHND-----NWYITFESDTDAQQAYKY 231 (684)
T ss_pred CcceeEEEEeecCCCChHHHHHHHhccCCCCCce--eeeeeecC-----ceEEEeecchhHHHHHHH
Confidence 345567888999999999999999975 55555 44444332 258999999999999764
No 142
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=60.63 E-value=21 Score=33.59 Aligned_cols=60 Identities=20% Similarity=0.340 Sum_probs=43.6
Q ss_pred CCCcEEEEcCCCC----CCC-------HHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHh
Q 023954 206 EEIKSVYVRNLPP----SVS-------ESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 269 (275)
Q Consensus 206 ~~~~~ifV~nLp~----~~t-------e~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a 269 (275)
...++|.++||=. ..+ .++|++...+||.+. .|.|-.+ ...|.+-|.|.+.+.|..||+.
T Consensus 263 r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~--~vvv~d~--hPdGvvtV~f~n~eeA~~ciq~ 333 (382)
T KOG1548|consen 263 RADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVR--KVVVYDR--HPDGVVTVSFRNNEEADQCIQT 333 (382)
T ss_pred cCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcc--eEEEecc--CCCceeEEEeCChHHHHHHHHH
Confidence 3457888898822 233 245666788999999 6665432 1368999999999999999985
No 143
>cd00531 NTF2_like Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of divergent evolution wherein the proteins have many common structural details but diverge greatly in their function. For example, nuclear transport factor 2 (NTF2) mediates the nuclear import of RanGDP and binds to both RanGDP and FxFG repeat-containing nucleoporins while Ketosteroid isomerases catalyze the isomerization of delta-5-3-ketosteroid to delta-4-3-ketosteroid, by intramolecular transfer of the C4-beta proton to the C6-beta position. While the function of the beta sub-unit of the Ring hydroxylating dioxygenases is not known, Scytalone Dehydratases catalyzes two reactions in the biosynthetic pathway that produces fungal melanin. Members of the NTF2-like superfamily are widely distributed among bacteria, archaea
Probab=45.63 E-value=76 Score=23.04 Aligned_cols=51 Identities=22% Similarity=0.113 Sum_probs=37.2
Q ss_pred ceEEeeeeecccCC-CcEEEEEEeEEEecCc--cccccceeEEEeeecCCCCeE
Q 023954 7 GIEIKTAHSLESWN-GGVLVMVSGSVQVKDF--SARRKFVQTFFLAPQEKVPNH 57 (275)
Q Consensus 7 ~~~i~t~D~q~s~~-~gi~v~v~G~~~~~~~--~~~~~F~Q~F~L~~~~~g~~~ 57 (275)
+|.+.+++++...+ .+.++.+.|.+...+. ...+.|.+.|.+...++++++
T Consensus 63 ~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~w~i 116 (124)
T cd00531 63 RHLVSNVDVQPGDDGEGVVVSVFGVLRTRGDGEQDVFAGGQTFVLRPQGGGGKI 116 (124)
T ss_pred EEEEEeEEEEeCCCCEEEEEEEEEEEEEccCCceeEEEEEEEEEEEEeCCEEEE
Confidence 56678999988643 3577778888887752 456678999999988766633
No 144
>PRK11901 hypothetical protein; Reviewed
Probab=44.26 E-value=2.8e+02 Score=26.09 Aligned_cols=60 Identities=15% Similarity=0.167 Sum_probs=36.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCC-ccEEEE--EeCCHHHHHHHHHhcCc
Q 023954 207 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG-ICYAFV--EFEDMTGVRNAVEVCIL 272 (275)
Q Consensus 207 ~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~g-rgfgFV--~F~~~~~a~~Ai~a~pi 272 (275)
..++|=+.. .-.++.|+.+.++.+ +. .+++-..+..| .+|-.| .|.+.+.|++||...|-
T Consensus 244 ~~YTLQL~A---as~~~~L~~f~~~~~-L~--~~~VYqT~RnGkpWYVVvyG~Y~Sr~eAk~Ai~sLPa 306 (327)
T PRK11901 244 SHYTLQLSS---ASRSDTLNAYAKKQN-LS--HYHVYETKRDGKPWYVLVSGNYASSAEAKRAIATLPA 306 (327)
T ss_pred CCeEEEeec---CCCHHHHHHHHHHcC-cC--ceEEEEEEECCceEEEEEecCcCCHHHHHHHHHhCCH
Confidence 344554443 345677887777765 33 34443322234 455544 69999999999998764
No 145
>PF13474 SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE7_A 3BB9_E 3CNX_A 3F7S_A 3GWR_B.
Probab=40.67 E-value=95 Score=23.03 Aligned_cols=53 Identities=9% Similarity=-0.060 Sum_probs=31.3
Q ss_pred ceEEeeeeecccCCCcEEEEEEeEEEe--cCccccccceeEEEeeecCCCCeEeec
Q 023954 7 GIEIKTAHSLESWNGGVLVMVSGSVQV--KDFSARRKFVQTFFLAPQEKVPNHLMG 60 (275)
Q Consensus 7 ~~~i~t~D~q~s~~~gi~v~v~G~~~~--~~~~~~~~F~Q~F~L~~~~~g~~~v~~ 60 (275)
++++..+..+. .++.+++...+.++. ++....+++..||.|...+++|+.++-
T Consensus 60 ~~~~~~~~v~~-~~~~a~~~~~~~~~~~~~~~~~~~~~r~t~v~~k~~~~Wki~h~ 114 (121)
T PF13474_consen 60 SIEFEDVQVSV-SGDVAVVTGEFRLRFRNDGEEIEMRGRATFVFRKEDGGWKIVHI 114 (121)
T ss_dssp EEEEEEEEEEE-ETTEEEEEEEEEEEEECTTCEEEEEEEEEEEEEEETTEEEEEEE
T ss_pred EEEEEEEEEEE-CCCEEEEEEEEEEEEecCCccceeeEEEEEEEEEECCEEEEEEE
Confidence 34455555544 234455555555544 343345678889999988888866643
No 146
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=40.54 E-value=57 Score=22.99 Aligned_cols=19 Identities=26% Similarity=0.551 Sum_probs=15.3
Q ss_pred HHHHHHHhccCceeEceEEEe
Q 023954 223 SEIAEEFKKFGELSSEGVVIR 243 (275)
Q Consensus 223 ~~L~~~F~~fG~I~~~~v~v~ 243 (275)
++||++|+..|.|. .+-+.
T Consensus 9 ~~iR~~fs~lG~I~--vLYvn 27 (62)
T PF15513_consen 9 AEIRQFFSQLGEIA--VLYVN 27 (62)
T ss_pred HHHHHHHHhcCcEE--EEEEc
Confidence 57999999999998 55443
No 147
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=39.65 E-value=37 Score=33.85 Aligned_cols=32 Identities=9% Similarity=0.141 Sum_probs=23.6
Q ss_pred eEEEecCCC--CCccEEEEEeCCHHHHHHHHHhc
Q 023954 239 GVVIRSRKD--VGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 239 ~v~v~~~~~--~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.+.+..|=+ +..|||||.|-+.+++.++.+|.
T Consensus 418 FlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAF 451 (549)
T KOG4660|consen 418 FLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAF 451 (549)
T ss_pred eEEeccccccccccceeEEeecCHHHHHHHHHHH
Confidence 455554422 33799999999999998888775
No 148
>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=38.00 E-value=66 Score=24.14 Aligned_cols=48 Identities=23% Similarity=0.275 Sum_probs=32.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeC
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFE 258 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~ 258 (275)
..-+||+|++..+.+.-.+.+.+..+.-. .+.+-.++. .-||+|-.+-
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~G~--a~m~~~~~n-eqG~~~~t~G 72 (86)
T PF09707_consen 25 RPGVYVGNVSARVRERLWERVTEWIGDGS--AVMVWSDNN-EQGFDFRTLG 72 (86)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHhhCCCcc--EEEEEccCC-CCCEEEEEeC
Confidence 35699999999998877777777655544 334433332 4689997773
No 149
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=37.30 E-value=14 Score=36.23 Aligned_cols=50 Identities=18% Similarity=0.288 Sum_probs=36.3
Q ss_pred CCCCC-CHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcC
Q 023954 216 LPPSV-SESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 216 Lp~~~-te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~p 271 (275)
.++.. +.++|...|.+||.|. .|++.... --|.|+|.+..+|-+|-....
T Consensus 380 ~~~glnt~a~ln~hfA~fG~i~--n~qv~~~~----~~a~vTF~t~aeag~a~~s~~ 430 (526)
T KOG2135|consen 380 SPFGLNTIADLNPHFAQFGEIE--NIQVDYSS----LHAVVTFKTRAEAGEAYASHG 430 (526)
T ss_pred cCCCCchHhhhhhhhhhcCccc--cccccCch----hhheeeeeccccccchhcccc
Confidence 34443 5578999999999999 88886542 248899999888866654443
No 150
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=37.29 E-value=8.2 Score=36.89 Aligned_cols=59 Identities=20% Similarity=0.193 Sum_probs=45.8
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.+++||++|...+...++-++|..+|.+. ...+.... ..-||-+.|....+...|++..
T Consensus 151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~--ya~~ask~--~s~~c~~sf~~qts~~halr~~ 209 (479)
T KOG4676|consen 151 RRTREVQSLISAAILPESGESFERKGEVS--YAHTASKS--RSSSCSHSFRKQTSSKHALRSH 209 (479)
T ss_pred Hhhhhhhcchhhhcchhhhhhhhhcchhh--hhhhhccC--CCcchhhhHhhhhhHHHHHHhc
Confidence 37899999999999999999999999998 55554332 2346678888877777777654
No 151
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.98 E-value=94 Score=30.08 Aligned_cols=57 Identities=9% Similarity=0.194 Sum_probs=43.5
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhc
Q 023954 208 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 208 ~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
.+-|-|.+.|.....++|-..|..||.-- ..|+|+.++ .+|-.|.+...|..||--.
T Consensus 391 pHVlEIydfp~efkteDll~~f~~yq~kg-fdIkWvDdt-----halaVFss~~~AaeaLt~k 447 (528)
T KOG4483|consen 391 PHVLEIYDFPDEFKTEDLLKAFETYQNKG-FDIKWVDDT-----HALAVFSSVNRAAEALTLK 447 (528)
T ss_pred cceeEeccCchhhccHHHHHHHHHhhcCC-ceeEEeecc-----eeEEeecchHHHHHHhhcc
Confidence 35677888888888888999999997753 256666654 6888999988888887554
No 152
>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=35.12 E-value=1.6e+02 Score=20.83 Aligned_cols=44 Identities=14% Similarity=0.234 Sum_probs=33.6
Q ss_pred CCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcC
Q 023954 219 SVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 271 (275)
Q Consensus 219 ~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~p 271 (275)
.++-.+++..+++|+-.. |+.++ .| =||.|.+..+|+++.++..
T Consensus 11 ~~~v~d~K~~Lr~y~~~~-----I~~d~---tG-fYIvF~~~~Ea~rC~~~~~ 54 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRWDR-----IRDDR---TG-FYIVFNDSKEAERCFRAED 54 (66)
T ss_pred CccHHHHHHHHhcCCcce-----EEecC---CE-EEEEECChHHHHHHHHhcC
Confidence 567789999999998754 34432 23 4799999999999998763
No 153
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=34.01 E-value=1e+02 Score=28.71 Aligned_cols=44 Identities=32% Similarity=0.429 Sum_probs=30.5
Q ss_pred HHHHHHHhccCceeEceEEEecCCCCC---ccEEEEEeCCHHHHHHHHH
Q 023954 223 SEIAEEFKKFGELSSEGVVIRSRKDVG---ICYAFVEFEDMTGVRNAVE 268 (275)
Q Consensus 223 ~~L~~~F~~fG~I~~~~v~v~~~~~~g---rgfgFV~F~~~~~a~~Ai~ 268 (275)
.++++...+||.+. .|.|....+.. ----||+|+..+++-+|+-
T Consensus 301 de~keEceKyg~V~--~viifeip~~p~deavRiFveF~r~e~aiKA~V 347 (378)
T KOG1996|consen 301 DETKEECEKYGKVG--NVIIFEIPSQPEDEAVRIFVEFERVESAIKAVV 347 (378)
T ss_pred HHHHHHHHhhccee--eEEEEecCCCccchhheeeeeeccHHHHHHHHH
Confidence 35677788999998 55554333222 2447999999998888864
No 154
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=32.86 E-value=73 Score=24.52 Aligned_cols=48 Identities=17% Similarity=0.190 Sum_probs=30.4
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCC
Q 023954 209 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFED 259 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~ 259 (275)
.-+|||+++..+.+.--+.+-+.++.-. .+.+-.++ +.-||+|-.+.+
T Consensus 28 ~GVyVg~~S~rVRd~lW~~v~~~~~~G~--avmv~~~~-~eqG~~~~t~G~ 75 (97)
T PRK11558 28 AGVYVGDVSRRIREMIWQQVTQLAEEGN--VVMAWATN-TESGFEFQTFGE 75 (97)
T ss_pred CCcEEcCCCHHHHHHHHHHHHHhCCCCc--EEEEEcCC-CCCCcEEEecCC
Confidence 5699999988888766566666665543 33333332 224788877654
No 155
>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=32.75 E-value=55 Score=24.68 Aligned_cols=48 Identities=19% Similarity=0.188 Sum_probs=27.9
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcc-CceeEceEEEecCCCCCccEEEEEeCC
Q 023954 209 KSVYVRNLPPSVSESEIAEEFKKF-GELSSEGVVIRSRKDVGICYAFVEFED 259 (275)
Q Consensus 209 ~~ifV~nLp~~~te~~L~~~F~~f-G~I~~~~v~v~~~~~~grgfgFV~F~~ 259 (275)
.-+||++++..+.+.--+.+-+.| +.- .+.+.....+.-||.|-++.+
T Consensus 26 ~GVyVg~~s~rVRe~lW~~v~~~~~~~G---~avm~~~~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 26 AGVYVGGVSASVRERIWDYLAQHCPPKG---SLVITWSSNTCPGFEFFTLGE 74 (87)
T ss_pred CCcEEcCCCHHHHHHHHHHHHHhCCCCc---cEEEEEeCCCCCCcEEEecCC
Confidence 569999998888776545554442 322 222322222235698877765
No 156
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=32.67 E-value=35 Score=31.34 Aligned_cols=33 Identities=27% Similarity=0.507 Sum_probs=23.8
Q ss_pred CcEEEEcCCCCC------------CCHHHHHHHHhccCceeEceEEE
Q 023954 208 IKSVYVRNLPPS------------VSESEIAEEFKKFGELSSEGVVI 242 (275)
Q Consensus 208 ~~~ifV~nLp~~------------~te~~L~~~F~~fG~I~~~~v~v 242 (275)
..+||+.+||-. -+++-|+..|..||.|. .|.|
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir--~vdi 193 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIR--NVDI 193 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccce--ecCC
Confidence 355666666532 46778999999999998 5554
No 157
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=27.01 E-value=80 Score=26.52 Aligned_cols=38 Identities=32% Similarity=0.541 Sum_probs=32.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhccCceeEceEEEecC
Q 023954 206 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR 245 (275)
Q Consensus 206 ~~~~~ifV~nLp~~~te~~L~~~F~~fG~I~~~~v~v~~~ 245 (275)
.....+++++++..++...+..+|..+|.+. ...+...
T Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~ 260 (306)
T COG0724 223 EKSDNLYVGNLPLKTAEEELADLFKSRGDIV--RASLPPS 260 (306)
T ss_pred cccceeeccccccccchhHHHHhccccccce--eeeccCC
Confidence 4678899999999999999999999999997 5555443
No 158
>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT. SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.
Probab=24.68 E-value=1.3e+02 Score=23.63 Aligned_cols=44 Identities=27% Similarity=0.438 Sum_probs=24.2
Q ss_pred CHHHHHHHHhccCceeEceEEEecCCCCCccEEEEEeCC-HHHHHHHH
Q 023954 221 SESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFED-MTGVRNAV 267 (275)
Q Consensus 221 te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~-~~~a~~Ai 267 (275)
+.+.|++.|..|..++ ...+ .++.-..|++.|.|.. ......|+
T Consensus 30 ~~~~l~~~l~~f~p~k--v~~l-~~~~gh~g~aiv~F~~~w~Gf~~A~ 74 (116)
T PF03468_consen 30 SNEELLDKLAEFNPLK--VKPL-YGKQGHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp -SHHHHHHHHH---SE--EEEE-EETTEEEEEEEEE--SSHHHHHHHH
T ss_pred CHHHHHHHHHhcCCce--eEEC-cCCCCCcEEEEEEECCChHHHHHHH
Confidence 4478999999999887 3333 3332238999999986 33444443
No 159
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=24.49 E-value=74 Score=22.58 Aligned_cols=33 Identities=21% Similarity=0.338 Sum_probs=24.2
Q ss_pred CHHHHHHHHhccCceeEceEEEecCCCCCccEEEE
Q 023954 221 SESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFV 255 (275)
Q Consensus 221 te~~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV 255 (275)
-+.+|++.|-+--.|. .+.+.-.|.-++|-|||
T Consensus 31 ~e~eler~fl~~P~v~--e~~l~EKKri~~G~gyV 63 (64)
T PF13046_consen 31 VEVELERHFLPLPEVK--EVALYEKKRIRKGAGYV 63 (64)
T ss_pred HHHHhhhhccCCCCce--EEEEEEEEeeeCCceeE
Confidence 3456777787777888 77777766666788887
No 160
>PF12623 Hen1_L: RNA repair, ligase-Pnkp-associating, region of Hen1; InterPro: IPR024740 This entry represents the N-terminal domain of the bacterial Hen1 protein, which is a 3' terminal RNA ribose 2'-O-methyltransferase that is involved in bacterial RNA repair []. Hen1 forms a heterotetramer with Pnkp. The heterotetramer has been shown to repair transfer RNAs cleaved by ribotoxins in vitro []. The N-terminal domain of Hen1 contributes to the ligase activity of the heterotetramer.
Probab=23.90 E-value=60 Score=28.99 Aligned_cols=52 Identities=17% Similarity=0.316 Sum_probs=37.6
Q ss_pred ceEEeeeeec-ccCCCc--EEEEEEeEEEecCccccccceeEEEeeec--CCCCeEeecCcc
Q 023954 7 GIEIKTAHSL-ESWNGG--VLVMVSGSVQVKDFSARRKFVQTFFLAPQ--EKVPNHLMGGEI 63 (275)
Q Consensus 7 ~~~i~t~D~q-~s~~~g--i~v~v~G~~~~~~~~~~~~F~Q~F~L~~~--~~g~~~v~~~~~ 63 (275)
.++-..+|-+ |-|+.+ +-+..+|.+.+.| -..|-|+|.|- +..-|||.+||+
T Consensus 147 ~a~~~~Ld~~fP~WG~S~y~~l~L~g~~rl~d-----aL~HLYVLlPVLD~~KHYwV~~dEv 203 (245)
T PF12623_consen 147 TAEPVPLDEQFPEWGDSRYVDLTLTGTVRLAD-----ALNHLYVLLPVLDDAKHYWVGDDEV 203 (245)
T ss_pred EeEeccCCccCccccCCcceEEEEeeeEEHHH-----HHhhhheEeeeccCCceeeeCHHHH
Confidence 3444456666 557665 7788999999988 46899999994 323379999884
No 161
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=22.06 E-value=3.1e+02 Score=19.78 Aligned_cols=61 Identities=18% Similarity=0.211 Sum_probs=40.2
Q ss_pred EEEcCCCCCCCHHHHHHHHhcc-------CceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcCcc
Q 023954 211 VYVRNLPPSVSESEIAEEFKKF-------GELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILM 273 (275)
Q Consensus 211 ifV~nLp~~~te~~L~~~F~~f-------G~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~pi~ 273 (275)
+-.++||..+|.++|.....+- ..|. .++--.....++.||+.+=.+.+.+.++-+...+.
T Consensus 3 mver~~p~~it~e~l~~~~~~~~~~~~~~~~V~--w~~s~v~~d~~k~~Cly~Ap~~eaV~~~~~~aG~p 70 (77)
T PF14026_consen 3 MVERDFPGGITAEDLAAAHAKSCAVQAEMPGVQ--WLRSYVSEDDGKIFCLYEAPDEEAVREHARRAGLP 70 (77)
T ss_pred EEEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeE--EEEEEEecCCCeEEEEEECCCHHHHHHHHHHcCCC
Confidence 3457888889999988776543 2333 22211223346889999999999988887766543
No 162
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=20.65 E-value=26 Score=31.12 Aligned_cols=67 Identities=27% Similarity=0.470 Sum_probs=50.2
Q ss_pred ccccCCCcEEEEcC----CCCCCCHHHHHHHHhccCceeEceEEEecCCC-CCccEEEEEeCCHHHHHHHHHhc
Q 023954 202 VEDEEEIKSVYVRN----LPPSVSESEIAEEFKKFGELSSEGVVIRSRKD-VGICYAFVEFEDMTGVRNAVEVC 270 (275)
Q Consensus 202 ~~~~~~~~~ifV~n----Lp~~~te~~L~~~F~~fG~I~~~~v~v~~~~~-~grgfgFV~F~~~~~a~~Ai~a~ 270 (275)
........+++-|+ |...++++.+...|+.-|.+. ++++..+.. ..+.++|+++.-..+.-.++...
T Consensus 74 l~~~e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~--~~R~~~~~d~rnrn~~~~~~qr~~~~P~~~~~y 145 (267)
T KOG4454|consen 74 LEEDEEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIE--GVRIPTDNDGRNRNFGFVTYQRLCAVPFALDLY 145 (267)
T ss_pred hccchhhcccccCCCcchhhhhcchhhheeeecccCCCC--CccccccccCCccCccchhhhhhhcCcHHhhhh
Confidence 33444567778888 888899999999999999999 777755443 34789999998777666666543
No 163
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=20.50 E-value=2.6e+02 Score=21.81 Aligned_cols=47 Identities=13% Similarity=0.244 Sum_probs=32.1
Q ss_pred HHHHHHhccCceeEceEEEecCCCCCccEEEEEeCCHHHHHHHHHhcCcc
Q 023954 224 EIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILM 273 (275)
Q Consensus 224 ~L~~~F~~fG~I~~~~v~v~~~~~~grgfgFV~F~~~~~a~~Ai~a~pi~ 273 (275)
+|..+.++.|- ....|.+... +..-||++++.|.+..-++|..++++
T Consensus 28 E~~a~lk~agi-~nYSIfLde~--~n~lFgy~E~~d~~a~m~~~a~~ev~ 74 (105)
T COG3254 28 ELLALLKEAGI-RNYSIFLDEE--ENLLFGYWEYEDFEADMAKMAETEVC 74 (105)
T ss_pred HHHHHHHHcCC-ceeEEEecCC--cccEEEEEEEcChHHHHHHHhCCHHH
Confidence 45666777774 3235555442 34569999999888888888877653
No 164
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=20.10 E-value=55 Score=34.67 Aligned_cols=29 Identities=34% Similarity=0.694 Sum_probs=19.3
Q ss_pred cCCCcEEEEEEeEEEecCc--cccccceeEE
Q 023954 18 SWNGGVLVMVSGSVQVKDF--SARRKFVQTF 46 (275)
Q Consensus 18 s~~~gi~v~v~G~~~~~~~--~~~~~F~Q~F 46 (275)
...|||||||||+=-++-- --+++|--+|
T Consensus 479 LP~G~ILVFvTGQqEV~qL~~kLRK~~p~~f 509 (1172)
T KOG0926|consen 479 LPPGGILVFVTGQQEVDQLCEKLRKRFPESF 509 (1172)
T ss_pred CCCCcEEEEEeChHHHHHHHHHHHhhCcccc
Confidence 3578999999998655431 1345666666
Done!