Query 026738
Match_columns 234
No_of_seqs 327 out of 1415
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 12:00:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026738.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026738hhsearch_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 99.7 3.7E-16 8E-21 144.7 15.3 138 89-234 217-355 (419)
2 KOG0149 Predicted RNA-binding 99.5 1.2E-13 2.5E-18 117.7 8.3 66 163-230 8-75 (247)
3 PLN03134 glycine-rich RNA-bind 99.5 2.2E-13 4.7E-18 109.8 9.0 67 165-233 32-101 (144)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.4 1.1E-12 2.3E-17 118.7 11.2 68 165-234 267-337 (352)
5 PF00076 RRM_1: RNA recognitio 99.4 7E-13 1.5E-17 91.9 7.7 63 170-234 1-65 (70)
6 PLN03120 nucleic acid binding 99.3 3.5E-12 7.6E-17 111.2 8.9 66 166-234 3-68 (260)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.3 2.9E-12 6.2E-17 115.9 8.7 66 166-233 2-70 (352)
8 TIGR01659 sex-lethal sex-letha 99.3 7.1E-12 1.5E-16 114.5 10.1 69 163-233 103-174 (346)
9 PLN03121 nucleic acid binding 99.3 8.8E-12 1.9E-16 107.4 8.9 66 166-234 4-69 (243)
10 PF14259 RRM_6: RNA recognitio 99.3 1.2E-11 2.7E-16 86.5 7.2 63 170-234 1-65 (70)
11 TIGR01645 half-pint poly-U bin 99.2 1.9E-11 4.2E-16 118.2 8.6 67 165-233 105-174 (612)
12 KOG0125 Ataxin 2-binding prote 99.2 5.3E-11 1.1E-15 105.7 9.6 66 165-232 94-160 (376)
13 TIGR01645 half-pint poly-U bin 99.2 3.5E-11 7.5E-16 116.5 8.8 67 166-234 203-272 (612)
14 KOG0113 U1 small nuclear ribon 99.2 4.3E-11 9.4E-16 105.1 8.4 68 165-234 99-169 (335)
15 KOG0122 Translation initiation 99.2 5.9E-11 1.3E-15 101.7 8.8 68 160-229 182-251 (270)
16 smart00362 RRM_2 RNA recogniti 99.2 8.8E-11 1.9E-15 80.1 8.0 63 169-233 1-64 (72)
17 TIGR01659 sex-lethal sex-letha 99.2 5.7E-11 1.2E-15 108.5 8.5 64 166-231 192-258 (346)
18 TIGR01622 SF-CC1 splicing fact 99.2 8.2E-11 1.8E-15 110.3 9.2 68 164-233 86-155 (457)
19 KOG0121 Nuclear cap-binding pr 99.2 5.1E-11 1.1E-15 93.2 5.8 64 164-229 33-98 (153)
20 PLN03213 repressor of silencin 99.2 9.8E-11 2.1E-15 108.8 8.4 61 165-229 8-70 (759)
21 TIGR01642 U2AF_lg U2 snRNP aux 99.1 1.4E-10 3E-15 110.0 9.0 67 166-234 294-363 (509)
22 KOG0107 Alternative splicing f 99.1 8.3E-11 1.8E-15 96.4 6.3 62 166-232 9-71 (195)
23 TIGR01648 hnRNP-R-Q heterogene 99.1 1.7E-10 3.7E-15 111.3 8.9 66 166-233 57-124 (578)
24 KOG0146 RNA-binding protein ET 99.1 8.1E-11 1.7E-15 102.3 5.8 72 163-234 281-353 (371)
25 KOG0114 Predicted RNA-binding 99.1 2.5E-10 5.5E-15 86.3 7.4 61 166-229 17-77 (124)
26 COG0724 RNA-binding proteins ( 99.1 4.2E-10 9.1E-15 94.8 8.5 62 167-230 115-178 (306)
27 TIGR01628 PABP-1234 polyadenyl 99.1 3.8E-10 8.2E-15 108.7 8.8 59 169-229 2-62 (562)
28 KOG4207 Predicted splicing fac 99.1 2.1E-10 4.7E-15 96.3 6.0 68 165-234 11-81 (256)
29 TIGR01622 SF-CC1 splicing fact 99.1 4.7E-10 1E-14 105.2 8.8 65 167-233 186-253 (457)
30 KOG0144 RNA-binding protein CU 99.0 5.9E-10 1.3E-14 102.1 8.5 65 163-229 30-96 (510)
31 TIGR01628 PABP-1234 polyadenyl 99.0 5.5E-10 1.2E-14 107.6 8.8 67 165-233 283-351 (562)
32 KOG0127 Nucleolar protein fibr 99.0 7.1E-10 1.5E-14 104.1 8.8 66 162-229 287-354 (678)
33 smart00360 RRM RNA recognition 99.0 1.6E-09 3.4E-14 73.5 7.7 60 172-233 1-63 (71)
34 KOG0117 Heterogeneous nuclear 99.0 7.2E-10 1.6E-14 101.9 7.6 66 166-233 82-150 (506)
35 KOG0148 Apoptosis-promoting RN 99.0 1.1E-09 2.3E-14 95.4 7.2 64 164-233 161-225 (321)
36 KOG0105 Alternative splicing f 99.0 6.8E-10 1.5E-14 92.0 5.4 61 166-229 5-65 (241)
37 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.0 1.4E-09 3E-14 103.4 8.3 61 167-233 2-65 (481)
38 cd00590 RRM RRM (RNA recogniti 99.0 4E-09 8.6E-14 72.2 8.2 59 169-229 1-60 (74)
39 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.9 3.3E-09 7.1E-14 100.8 8.7 64 165-233 273-338 (481)
40 KOG0126 Predicted RNA-binding 98.9 1.1E-10 2.4E-15 96.3 -1.5 74 158-233 26-102 (219)
41 KOG0144 RNA-binding protein CU 98.9 1.6E-09 3.5E-14 99.3 4.0 63 166-230 123-186 (510)
42 TIGR01642 U2AF_lg U2 snRNP aux 98.8 7.4E-09 1.6E-13 98.3 7.6 65 163-233 171-247 (509)
43 KOG0148 Apoptosis-promoting RN 98.8 8.2E-09 1.8E-13 89.9 7.1 61 167-229 62-124 (321)
44 KOG0124 Polypyrimidine tract-b 98.8 2.7E-09 5.8E-14 96.3 4.0 67 166-234 112-181 (544)
45 KOG0131 Splicing factor 3b, su 98.8 5.4E-09 1.2E-13 86.4 4.2 64 165-230 7-72 (203)
46 KOG0127 Nucleolar protein fibr 98.8 1.5E-08 3.3E-13 95.3 6.9 66 167-234 117-184 (678)
47 TIGR01648 hnRNP-R-Q heterogene 98.7 2.8E-08 6E-13 96.1 8.6 60 166-233 232-294 (578)
48 KOG0108 mRNA cleavage and poly 98.7 1.8E-08 3.9E-13 94.3 7.1 64 168-233 19-85 (435)
49 KOG0130 RNA-binding protein RB 98.7 2.2E-08 4.8E-13 79.2 5.7 63 165-229 70-134 (170)
50 KOG0145 RNA-binding protein EL 98.7 1.9E-08 4E-13 87.4 4.7 63 165-229 125-189 (360)
51 KOG4205 RNA-binding protein mu 98.7 1.3E-08 2.8E-13 91.6 3.9 66 166-233 5-72 (311)
52 KOG0117 Heterogeneous nuclear 98.7 2.7E-08 5.9E-13 91.7 6.0 56 166-229 258-313 (506)
53 KOG0111 Cyclophilin-type pepti 98.7 1.2E-08 2.5E-13 86.7 2.7 62 166-229 9-72 (298)
54 KOG0123 Polyadenylate-binding 98.6 6.9E-08 1.5E-12 89.0 7.4 59 168-229 77-135 (369)
55 smart00361 RRM_1 RNA recogniti 98.6 1.3E-07 2.9E-12 66.6 6.5 51 181-233 2-62 (70)
56 KOG0147 Transcriptional coacti 98.6 3.6E-08 7.7E-13 92.8 4.3 66 166-233 277-345 (549)
57 KOG0145 RNA-binding protein EL 98.6 2.8E-07 6E-12 80.2 8.6 64 164-229 38-103 (360)
58 KOG0131 Splicing factor 3b, su 98.6 9E-08 1.9E-12 79.2 5.1 64 165-229 94-159 (203)
59 KOG0124 Polypyrimidine tract-b 98.5 1.6E-07 3.5E-12 84.9 5.5 66 164-231 207-274 (544)
60 KOG4661 Hsp27-ERE-TATA-binding 98.5 6.2E-07 1.4E-11 85.1 9.5 63 165-229 403-467 (940)
61 KOG0146 RNA-binding protein ET 98.5 1.7E-07 3.8E-12 81.7 4.8 62 166-229 18-80 (371)
62 KOG0109 RNA-binding protein LA 98.5 1.5E-07 3.2E-12 82.9 4.1 57 168-232 3-60 (346)
63 PF13893 RRM_5: RNA recognitio 98.4 6.5E-07 1.4E-11 60.0 5.6 45 184-233 1-46 (56)
64 KOG0415 Predicted peptidyl pro 98.4 4.5E-07 9.8E-12 81.8 6.0 67 165-233 237-306 (479)
65 KOG4208 Nucleolar RNA-binding 98.4 8.2E-07 1.8E-11 74.8 6.4 62 166-229 48-112 (214)
66 KOG4212 RNA-binding protein hn 98.3 9.2E-07 2E-11 81.7 6.7 62 166-229 43-106 (608)
67 KOG0151 Predicted splicing reg 98.3 1.3E-06 2.8E-11 84.6 7.7 70 162-233 169-244 (877)
68 KOG0153 Predicted RNA-binding 98.3 9.7E-07 2.1E-11 79.3 6.4 61 163-229 224-284 (377)
69 KOG4206 Spliceosomal protein s 98.3 1.6E-06 3.4E-11 73.9 7.3 59 168-229 10-72 (221)
70 KOG0110 RNA-binding protein (R 98.3 1.1E-06 2.4E-11 85.0 6.5 65 167-233 515-585 (725)
71 KOG0110 RNA-binding protein (R 98.3 5.1E-07 1.1E-11 87.3 4.1 62 166-229 612-675 (725)
72 KOG4205 RNA-binding protein mu 98.3 5.6E-07 1.2E-11 81.0 4.2 65 166-232 96-162 (311)
73 KOG0132 RNA polymerase II C-te 98.3 1.2E-06 2.5E-11 85.6 6.2 58 166-229 420-477 (894)
74 KOG0226 RNA-binding proteins [ 98.3 1.7E-06 3.7E-11 75.0 6.5 78 155-234 178-258 (290)
75 KOG4212 RNA-binding protein hn 98.1 4.7E-06 1E-10 77.1 6.7 64 164-232 533-597 (608)
76 KOG4209 Splicing factor RNPS1, 98.1 2.6E-06 5.6E-11 73.9 4.6 68 164-233 98-167 (231)
77 KOG0123 Polyadenylate-binding 98.1 5E-06 1.1E-10 76.8 6.6 63 165-229 268-331 (369)
78 KOG1457 RNA binding protein (c 98.0 3.4E-05 7.3E-10 66.1 9.4 68 165-234 32-103 (284)
79 KOG0106 Alternative splicing f 97.9 5.8E-06 1.3E-10 70.7 2.9 54 168-229 2-55 (216)
80 KOG0109 RNA-binding protein LA 97.9 1.2E-05 2.7E-10 71.0 3.6 56 166-229 77-132 (346)
81 KOG4660 Protein Mei2, essentia 97.8 2.6E-05 5.5E-10 74.0 5.6 60 165-229 73-132 (549)
82 KOG0533 RRM motif-containing p 97.8 5.9E-05 1.3E-09 65.7 7.2 64 164-229 80-144 (243)
83 KOG1457 RNA binding protein (c 97.8 2.6E-05 5.7E-10 66.7 4.0 59 167-229 210-268 (284)
84 KOG4454 RNA binding protein (R 97.6 2.3E-05 4.9E-10 66.9 1.9 64 166-231 8-72 (267)
85 PF08777 RRM_3: RNA binding mo 97.6 0.00014 3.1E-09 55.5 5.7 57 167-229 1-57 (105)
86 KOG4211 Splicing factor hnRNP- 97.6 0.00018 3.8E-09 67.6 7.1 63 166-231 9-71 (510)
87 KOG0129 Predicted RNA-binding 97.5 0.00015 3.3E-09 68.4 5.6 61 166-229 258-326 (520)
88 PF04059 RRM_2: RNA recognitio 97.5 0.0006 1.3E-08 51.4 7.7 60 168-229 2-65 (97)
89 KOG1548 Transcription elongati 97.4 0.00054 1.2E-08 62.0 7.2 64 166-229 133-203 (382)
90 KOG0147 Transcriptional coacti 97.2 0.00015 3.3E-09 68.8 1.3 67 163-231 175-243 (549)
91 KOG0120 Splicing factor U2AF, 97.1 0.00046 1E-08 65.7 3.4 68 165-234 287-357 (500)
92 KOG4211 Splicing factor hnRNP- 96.9 0.0022 4.7E-08 60.4 6.1 66 167-233 103-169 (510)
93 KOG4210 Nuclear localization s 96.9 0.00062 1.3E-08 60.9 2.5 61 166-228 183-246 (285)
94 KOG0129 Predicted RNA-binding 96.8 0.0025 5.5E-08 60.3 6.4 66 165-232 368-436 (520)
95 PF05172 Nup35_RRM: Nup53/35/4 96.8 0.004 8.6E-08 47.2 6.1 66 166-234 5-79 (100)
96 PF14605 Nup35_RRM_2: Nup53/35 96.6 0.0058 1.3E-07 40.8 5.2 52 168-226 2-53 (53)
97 KOG1190 Polypyrimidine tract-b 96.3 0.0045 9.7E-08 57.3 4.3 53 166-224 27-79 (492)
98 PF11608 Limkain-b1: Limkain b 96.3 0.021 4.5E-07 42.0 6.8 53 168-229 3-59 (90)
99 KOG0115 RNA-binding protein p5 96.2 0.0051 1.1E-07 53.7 4.0 61 168-229 32-92 (275)
100 KOG1855 Predicted RNA-binding 96.2 0.0056 1.2E-07 56.9 4.3 64 164-229 228-306 (484)
101 KOG4206 Spliceosomal protein s 96.2 0.015 3.3E-07 49.8 6.4 59 166-229 145-203 (221)
102 KOG1995 Conserved Zn-finger pr 96.1 0.0065 1.4E-07 55.2 4.2 64 164-227 63-134 (351)
103 KOG0106 Alternative splicing f 96.0 0.0035 7.6E-08 53.8 2.0 56 166-229 98-153 (216)
104 PF10309 DUF2414: Protein of u 95.9 0.056 1.2E-06 37.4 7.2 54 167-229 5-62 (62)
105 KOG2314 Translation initiation 95.8 0.032 7E-07 53.7 7.6 67 165-233 56-130 (698)
106 KOG0128 RNA-binding protein SA 95.8 0.0011 2.3E-08 66.0 -2.5 63 165-229 665-729 (881)
107 KOG1365 RNA-binding protein Fu 95.7 0.037 8.1E-07 51.0 7.4 66 166-233 160-230 (508)
108 KOG3152 TBP-binding protein, a 95.0 0.015 3.4E-07 50.8 2.4 67 166-234 73-154 (278)
109 KOG4849 mRNA cleavage factor I 94.9 0.025 5.5E-07 51.6 3.6 65 166-230 79-145 (498)
110 COG5175 MOT2 Transcriptional r 94.7 0.064 1.4E-06 48.8 5.4 61 167-229 114-185 (480)
111 KOG0112 Large RNA-binding prot 94.5 0.043 9.3E-07 55.3 4.2 63 166-234 454-517 (975)
112 KOG0105 Alternative splicing f 94.2 0.15 3.3E-06 42.9 6.3 57 166-229 114-170 (241)
113 PF08675 RNA_bind: RNA binding 94.2 0.18 3.8E-06 37.1 5.8 54 167-229 9-62 (87)
114 KOG0112 Large RNA-binding prot 94.2 0.01 2.3E-07 59.5 -0.8 69 163-233 368-438 (975)
115 KOG2253 U1 snRNP complex, subu 93.2 0.15 3.3E-06 49.9 5.2 55 166-229 39-93 (668)
116 KOG0128 RNA-binding protein SA 93.1 0.044 9.5E-07 54.9 1.4 61 167-229 736-797 (881)
117 KOG0120 Splicing factor U2AF, 92.8 0.2 4.3E-06 48.1 5.4 49 183-233 425-479 (500)
118 KOG4307 RNA binding protein RB 92.8 0.33 7.1E-06 48.1 6.9 63 166-229 865-929 (944)
119 KOG1190 Polypyrimidine tract-b 92.2 0.47 1E-05 44.3 6.8 62 167-233 297-360 (492)
120 KOG1456 Heterogeneous nuclear 91.7 0.42 9.2E-06 44.2 5.9 58 165-228 29-86 (494)
121 KOG4307 RNA binding protein RB 91.7 0.24 5.2E-06 49.0 4.6 61 169-233 4-64 (944)
122 KOG4676 Splicing factor, argin 91.6 0.2 4.4E-06 46.4 3.8 60 167-228 7-71 (479)
123 KOG2193 IGF-II mRNA-binding pr 91.1 0.25 5.5E-06 46.3 3.9 56 168-229 2-57 (584)
124 PF08952 DUF1866: Domain of un 91.0 0.54 1.2E-05 38.0 5.2 44 183-234 52-95 (146)
125 KOG1365 RNA-binding protein Fu 90.5 0.23 4.9E-06 46.0 3.0 63 167-229 280-344 (508)
126 KOG4410 5-formyltetrahydrofola 90.1 1.5 3.4E-05 39.2 7.7 49 167-220 330-378 (396)
127 KOG2416 Acinus (induces apopto 89.9 0.2 4.4E-06 48.6 2.3 62 165-232 442-505 (718)
128 KOG4285 Mitotic phosphoprotein 89.0 0.63 1.4E-05 41.9 4.5 58 170-234 200-257 (350)
129 KOG1456 Heterogeneous nuclear 88.4 1.5 3.2E-05 40.7 6.6 60 165-229 285-345 (494)
130 KOG1548 Transcription elongati 87.4 1.5 3.2E-05 40.2 5.9 63 166-232 264-338 (382)
131 PF15023 DUF4523: Protein of u 85.4 1.7 3.7E-05 35.2 4.7 59 164-229 83-145 (166)
132 PF03467 Smg4_UPF3: Smg-4/UPF3 83.4 1.5 3.3E-05 36.4 3.8 64 166-229 6-75 (176)
133 KOG4210 Nuclear localization s 82.3 0.72 1.6E-05 41.3 1.5 65 165-231 86-152 (285)
134 PF07576 BRAP2: BRCA1-associat 78.8 27 0.00059 26.8 9.1 59 169-228 15-73 (110)
135 KOG2068 MOT2 transcription fac 74.9 1.8 3.8E-05 39.4 1.7 60 168-229 78-145 (327)
136 KOG1996 mRNA splicing factor [ 73.5 11 0.00023 34.2 6.2 51 182-234 301-355 (378)
137 KOG2591 c-Mpl binding protein, 73.4 14 0.0003 36.1 7.3 58 165-229 173-232 (684)
138 PF09707 Cas_Cas2CT1978: CRISP 70.7 9.3 0.0002 28.1 4.4 49 167-218 25-73 (86)
139 KOG4676 Splicing factor, argin 69.7 1 2.3E-05 41.9 -1.0 62 167-232 151-212 (479)
140 PF11767 SET_assoc: Histone ly 67.5 19 0.00042 25.0 5.3 44 177-229 10-53 (66)
141 PRK11558 putative ssRNA endonu 65.0 12 0.00025 28.3 4.0 50 167-219 27-76 (97)
142 PF03468 XS: XS domain; Inter 62.4 15 0.00032 28.5 4.3 45 180-227 30-75 (116)
143 TIGR01873 cas_CT1978 CRISPR-as 62.3 12 0.00025 27.7 3.5 49 167-218 25-74 (87)
144 KOG2202 U2 snRNP splicing fact 60.9 4.3 9.4E-05 35.7 1.2 46 182-229 83-130 (260)
145 KOG2318 Uncharacterized conser 60.9 30 0.00066 34.0 6.9 68 165-234 172-294 (650)
146 PF15513 DUF4651: Domain of un 47.7 39 0.00084 23.4 3.9 14 182-195 9-22 (62)
147 KOG0804 Cytoplasmic Zn-finger 47.3 85 0.0018 30.1 7.4 60 167-228 74-134 (493)
148 KOG2135 Proteins containing th 46.5 8.3 0.00018 36.9 0.7 56 170-231 375-431 (526)
149 KOG4660 Protein Mei2, essentia 43.8 30 0.00065 33.7 3.9 21 209-229 431-451 (549)
150 KOG4483 Uncharacterized conser 42.6 56 0.0012 30.9 5.4 56 167-228 391-446 (528)
151 KOG3430 Dynein light chain typ 41.9 38 0.00082 25.1 3.4 18 182-201 41-59 (90)
152 KOG4454 RNA binding protein (R 40.9 6.2 0.00014 34.2 -1.0 65 162-228 75-144 (267)
153 PRK11901 hypothetical protein; 38.4 3.2E+02 0.0069 25.1 10.3 51 178-231 253-306 (327)
154 COG0724 RNA-binding proteins ( 37.7 40 0.00087 27.5 3.5 39 164-204 222-260 (306)
155 PF14026 DUF4242: Protein of u 37.4 1.5E+02 0.0032 21.0 8.4 61 171-233 4-71 (77)
156 COG0002 ArgC Acetylglutamate s 30.7 1E+02 0.0022 28.5 5.1 65 168-234 247-335 (349)
157 KOG4574 RNA-binding protein (c 28.7 32 0.00069 35.4 1.6 57 167-229 298-354 (1007)
158 COG3254 Uncharacterized conser 28.4 1.9E+02 0.004 22.1 5.3 47 182-231 27-73 (105)
159 PF13046 DUF3906: Protein of u 25.3 74 0.0016 22.1 2.5 32 181-214 32-63 (64)
160 PRK14548 50S ribosomal protein 25.2 2.7E+02 0.0059 20.2 5.8 61 170-231 23-83 (84)
161 TIGR01033 DNA-binding regulato 25.0 2.3E+02 0.0051 24.6 6.2 48 165-217 92-143 (238)
162 KOG2891 Surface glycoprotein [ 23.9 1.1E+02 0.0024 27.6 3.9 22 179-202 173-194 (445)
163 KOG4213 RNA-binding protein La 23.8 83 0.0018 26.5 2.9 57 166-229 110-170 (205)
164 PF10567 Nab6_mRNP_bdg: RNA-re 23.5 1.2E+02 0.0026 27.4 4.1 58 163-222 11-77 (309)
165 cd00027 BRCT Breast Cancer Sup 23.3 1.2E+02 0.0026 19.1 3.3 28 168-195 2-29 (72)
166 PHA01782 hypothetical protein 22.2 70 0.0015 26.4 2.1 22 174-195 62-83 (177)
167 PLN03058 dynein light chain ty 21.9 1.6E+02 0.0035 23.3 4.1 18 182-201 73-91 (128)
168 PRK00110 hypothetical protein; 21.7 2.9E+02 0.0062 24.2 6.1 48 165-217 92-143 (245)
169 KOG4008 rRNA processing protei 21.7 64 0.0014 28.3 1.9 31 165-195 38-68 (261)
170 PF05189 RTC_insert: RNA 3'-te 21.5 1.5E+02 0.0032 21.9 3.7 46 169-216 12-64 (103)
171 TIGR03636 L23_arch archaeal ri 20.7 3.2E+02 0.007 19.4 5.4 62 169-231 15-76 (77)
172 PF00398 RrnaAD: Ribosomal RNA 20.5 1.1E+02 0.0024 26.5 3.3 30 166-195 96-127 (262)
173 COG5353 Uncharacterized protei 20.4 4.3E+02 0.0092 21.6 6.2 53 168-222 88-155 (161)
No 1
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.70 E-value=3.7e-16 Score=144.67 Aligned_cols=138 Identities=25% Similarity=0.436 Sum_probs=88.3
Q ss_pred CCCCCCCCchHHHHHHhcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCc-CCCCCcccCCCCCCCCCCCccccccccc
Q 026738 89 PVGEPQKHTYASILRVAKGQSTPSVTPQPSVSKNISPVSDWNHVPQPTTQQ-ETVSSYAYEKSWADTGEEISAVEDEEEI 167 (234)
Q Consensus 89 p~~~~~k~s~Asi~~~~k~~~~~~~~~~pp~~~~~~~~~~~~~~~~p~~~~-~~~~s~~~~~~~~~~~~~~~~~~~~~~~ 167 (234)
++.+.++++||||+..++....+......|... .+++++-.-+.+. ...++....... ....++.+....+
T Consensus 217 ~~~~~~~~s~asv~~~~~~~~~~~~~~~~p~~~-----~~~~~p~~~~~~~~~s~~~~p~~~~~---~~n~~~~~~~~~~ 288 (419)
T KOG0116|consen 217 PQGDAPKKSFASVVKVLKKSAAVQQSKGSPPQI-----QPQQQPSTKPQAERQSKPPSPVRESK---SGNSNNQEPRADG 288 (419)
T ss_pred ccccccchhhhhhhhhcccccccceeccCCCcc-----ccccCCccCcchhhccCCCCcccccc---ccccCCcceeecc
Confidence 368899999999998877755442221111111 1111111000000 000001111111 1123334455566
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCccCC
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 234 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~~i~ 234 (234)
..|||+|||++++..+|+++|++||.|+.++|.++...+++.|||||+|.+.++++.||.+++++||
T Consensus 289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig 355 (419)
T KOG0116|consen 289 LGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIG 355 (419)
T ss_pred cceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccC
Confidence 7799999999999999999999999999767776664444459999999999999999999999886
No 2
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.48 E-value=1.2e-13 Score=117.67 Aligned_cols=66 Identities=23% Similarity=0.415 Sum_probs=60.1
Q ss_pred ccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhCC
Q 026738 163 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCI 230 (234)
Q Consensus 163 ~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~~ 230 (234)
.+...++||||+|+|.+..+.|++.|++||.|. ...|+.|+.++ ||||||+|.|.++|.+||+-..
T Consensus 8 ~DT~~TKifVggL~w~T~~~~l~~yFeqfGeI~--eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~ 75 (247)
T KOG0149|consen 8 GDTTFTKIFVGGLAWETHKETLRRYFEQFGEIV--EAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN 75 (247)
T ss_pred CCceEEEEEEcCcccccchHHHHHHHHHhCceE--EEEEEeccCCccccceeeEEeecHHHHHHHhcCCC
Confidence 344679999999999999999999999999999 88888998876 8999999999999999998773
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.47 E-value=2.2e-13 Score=109.85 Aligned_cols=67 Identities=15% Similarity=0.311 Sum_probs=59.7
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
...++|||+||++++++++|+++|++||.|. .+.|..++.++ +|||||+|.+.++|++||+.+ ++.|
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~--~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i 101 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVV--DAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKEL 101 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeE--EEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEE
Confidence 3578999999999999999999999999999 88888876554 899999999999999999865 6655
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.42 E-value=1.1e-12 Score=118.66 Aligned_cols=68 Identities=21% Similarity=0.251 Sum_probs=60.6
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
..+.+|||+||++.+++++|+++|++||.|. .++|..+..++ ||||||.|.+.++|.+||.++ |.+|+
T Consensus 267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~--~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~ 337 (352)
T TIGR01661 267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQ--NVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLG 337 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeE--EEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEEC
Confidence 4567899999999999999999999999999 89988886554 899999999999999999976 76654
No 5
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=99.42 E-value=7e-13 Score=91.90 Aligned_cols=63 Identities=33% Similarity=0.549 Sum_probs=54.9
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeec-CCCCccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 170 VYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR-KDVGICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 170 vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~-~~~~rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
|||+|||.++++.+|+++|++||.|. .+.+..+ .+..+|||||+|.+.++|.+||+.+ +..|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~--~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~ 65 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIE--SIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKIN 65 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEE--EEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEET
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcc--cccccccccccccceEEEEEcCHHHHHHHHHHcCCCEEC
Confidence 79999999999999999999999998 8888775 3334899999999999999999944 66553
No 6
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.34 E-value=3.5e-12 Score=111.24 Aligned_cols=66 Identities=24% Similarity=0.332 Sum_probs=59.4
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCccCC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 234 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~~i~ 234 (234)
..++|||+||++.+++++|+++|+.||.|. .|.|..++. .+|||||+|.+.+++..||..++..|+
T Consensus 3 ~~rtVfVgNLs~~tTE~dLrefFS~~G~I~--~V~I~~d~~-~~GfAFVtF~d~eaAe~AllLnG~~l~ 68 (260)
T PLN03120 3 QVRTVKVSNVSLKATERDIKEFFSFSGDIE--YVEMQSENE-RSQIAYVTFKDPQGAETALLLSGATIV 68 (260)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeE--EEEEeecCC-CCCEEEEEeCcHHHHHHHHHhcCCeeC
Confidence 367999999999999999999999999999 899988753 479999999999999999988777664
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.34 E-value=2.9e-12 Score=115.88 Aligned_cols=66 Identities=24% Similarity=0.383 Sum_probs=58.7
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
..++|||+|||.++++++|+++|+.||.|. .|+|+.++.++ +|||||+|.+.++|.+||+.+ +..|
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~--~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l 70 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIE--SCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRL 70 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEE--EEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEE
Confidence 357899999999999999999999999999 89998887554 899999999999999999865 5544
No 8
>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=99.32 E-value=7.1e-12 Score=114.46 Aligned_cols=69 Identities=20% Similarity=0.348 Sum_probs=60.7
Q ss_pred ccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 163 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 163 ~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
.....++|||+|||+++++++|+++|+.||.|. .|+|+.++.++ ||||||+|.+.++|++||+.+ ++.|
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~--~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l 174 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPIN--TCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITV 174 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEE--EEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCcc
Confidence 445689999999999999999999999999999 89988876554 899999999999999999764 6554
No 9
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.30 E-value=8.8e-12 Score=107.38 Aligned_cols=66 Identities=24% Similarity=0.313 Sum_probs=59.9
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCccCC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 234 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~~i~ 234 (234)
.+.+|||+||++.+++++|+++|+.||.|. .|.|.++.. .+|||||+|.+.+++..||..+|..|+
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~--~V~I~~D~e-t~gfAfVtF~d~~aaetAllLnGa~l~ 69 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIE--HVEIIRSGE-YACTAYVTFKDAYALETAVLLSGATIV 69 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeE--EEEEecCCC-cceEEEEEECCHHHHHHHHhcCCCeeC
Confidence 578999999999999999999999999999 899988843 468999999999999999999887663
No 10
>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=99.28 E-value=1.2e-11 Score=86.48 Aligned_cols=63 Identities=33% Similarity=0.556 Sum_probs=53.5
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCC-CCccEEEEEeCCHHHHHHHHHhCC-ccCC
Q 026738 170 VYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD-VGICYAFVEFEDMTGVRNAVEVCI-LMWH 234 (234)
Q Consensus 170 vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~-~~rGfaFVeF~~~e~a~~Al~a~~-~~i~ 234 (234)
|||+|||+++++++|+++|..||.|. .+.+..++. ..+|+|||+|.+.++|.+|++..+ ++|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~--~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~ 65 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVE--KVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEID 65 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEE--EEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEET
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcc--eEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEEC
Confidence 79999999999999999999999998 888877654 238999999999999999999885 6553
No 11
>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=99.24 E-value=1.9e-11 Score=118.22 Aligned_cols=67 Identities=25% Similarity=0.357 Sum_probs=59.8
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
...++||||||++++++++|+++|.+||.|. .|+|..++.++ ||||||+|.+.++|++||+.+ |..|
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~--sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i 174 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIK--SINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQML 174 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEE--EEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEE
Confidence 3578999999999999999999999999999 89988876554 899999999999999999865 6554
No 12
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.22 E-value=5.3e-11 Score=105.72 Aligned_cols=66 Identities=21% Similarity=0.289 Sum_probs=58.3
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-Ccc
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILM 232 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~ 232 (234)
..-++|||.|||+...+-||+.+|.+||.|. .|.|+.....+||||||+|++.++|++|-... |.+
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~Vl--dVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~ 160 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVL--DVEIIFNERGSKGFGFVTMENPADADRARAELHGTV 160 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhhCcee--eEEEEeccCCCCccceEEecChhhHHHHHHHhhcce
Confidence 3568999999999999999999999999999 89888875556999999999999999998765 443
No 13
>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=99.21 E-value=3.5e-11 Score=116.46 Aligned_cols=67 Identities=21% Similarity=0.461 Sum_probs=59.8
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
..++|||+||+.++++++|+++|+.||.|. .++|..++.++ ||||||+|.+.++|.+||+.+ +..||
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~--svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elg 272 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIV--KCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLG 272 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCee--EEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeC
Confidence 457999999999999999999999999999 89998876554 899999999999999999987 55543
No 14
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.21 E-value=4.3e-11 Score=105.07 Aligned_cols=68 Identities=26% Similarity=0.449 Sum_probs=63.1
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
+..++|||+-|++++++..|+..|.+||.|+ .|.|+.++.+| +|||||+|++..++..|.+.. |++|+
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~Ik--rirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Id 169 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIK--RIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKID 169 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcce--eEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceec
Confidence 5789999999999999999999999999999 99999998776 899999999999999999876 88774
No 15
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.21 E-value=5.9e-11 Score=101.72 Aligned_cols=68 Identities=26% Similarity=0.489 Sum_probs=61.8
Q ss_pred cccccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 160 AVEDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 160 ~~~~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
+.-...+.++|-|.||+.++++.+|+++|..||.|. .+.|.+++.+| ||||||.|.+.++|.+||...
T Consensus 182 ~~R~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~--rvylardK~TG~~kGFAFVtF~sRddA~rAI~~L 251 (270)
T KOG0122|consen 182 DMRERDDEATVRVTNLSEDMREDDLEELFRPFGPIT--RVYLARDKETGLSKGFAFVTFESRDDAARAIADL 251 (270)
T ss_pred ccccCCccceeEEecCccccChhHHHHHhhccCccc--eeEEEEccccCcccceEEEEEecHHHHHHHHHHc
Confidence 334455788999999999999999999999999999 89999999888 899999999999999999875
No 16
>smart00362 RRM_2 RNA recognition motif.
Probab=99.20 E-value=8.8e-11 Score=80.10 Aligned_cols=63 Identities=35% Similarity=0.566 Sum_probs=55.2
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 169 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 169 ~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
+|||+|||..++..+|+++|.+||.+. .+.+..+.+..+|+|||+|.+.+.+++|++.+ +..|
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~--~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~ 64 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIE--SVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKL 64 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEE--EEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEE
Confidence 489999999999999999999999998 78887766445899999999999999999876 3544
No 17
>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=99.19 E-value=5.7e-11 Score=108.52 Aligned_cols=64 Identities=25% Similarity=0.429 Sum_probs=57.2
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-Cc
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-IL 231 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~ 231 (234)
..++|||+||++++++++|+++|++||.|. .+.|..++.++ ||||||+|.+.++|++||+.+ ++
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~--~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~ 258 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIV--QKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNV 258 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhcCCEE--EEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCC
Confidence 356899999999999999999999999999 88888876554 799999999999999999976 44
No 18
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.18 E-value=8.2e-11 Score=110.26 Aligned_cols=68 Identities=26% Similarity=0.354 Sum_probs=60.7
Q ss_pred cccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhCCccC
Q 026738 164 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCILMW 233 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~~~~i 233 (234)
....++|||+|||..+++.+|+++|++||.|. .|.|+.++.++ +|||||+|.+.++|.+||..++..|
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~--~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~ 155 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVR--DVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQML 155 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCee--EEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEE
Confidence 34578999999999999999999999999999 89998876655 8999999999999999998876654
No 19
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.16 E-value=5.1e-11 Score=93.22 Aligned_cols=64 Identities=23% Similarity=0.342 Sum_probs=57.2
Q ss_pred cccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 164 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
...+++||||||++.+++++|.++|+++|.|+ .|.+-.|+.+. .|||||+|-..++|..||+-.
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~ir--riiMGLdr~kktpCGFCFVeyy~~~dA~~Alryi 98 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIR--RIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYI 98 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchh--eeEeccccCCcCccceEEEEEecchhHHHHHHHh
Confidence 45789999999999999999999999999999 78776676654 799999999999999999864
No 20
>PLN03213 repressor of silencing 3; Provisional
Probab=99.15 E-value=9.8e-11 Score=108.83 Aligned_cols=61 Identities=16% Similarity=0.283 Sum_probs=54.4
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCH--HHHHHHHHhC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDM--TGVRNAVEVC 229 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~--e~a~~Al~a~ 229 (234)
..+.+||||||++.+++++|+.+|..||.|. .+.|++. +|||||||+|... ....+||...
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVk--dVEIpRE--TGRGFAFVEMssdddaEeeKAISaL 70 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVD--AVEFVRT--KGRSFAYIDFSPSSTNSLTKLFSTY 70 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCee--EEEEecc--cCCceEEEEecCCcHHHHHHHHHHh
Confidence 4578999999999999999999999999999 8888844 5699999999987 6789999865
No 21
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.14 E-value=1.4e-10 Score=110.02 Aligned_cols=67 Identities=25% Similarity=0.360 Sum_probs=59.2
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
..++|||+|||+.+++++|+++|+.||.|. .+.|..+..+| +|||||+|.+.+.|..||..+ ++.|+
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~--~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~ 363 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLK--AFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTG 363 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCee--EEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEEC
Confidence 467999999999999999999999999999 88888776544 899999999999999999875 66653
No 22
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.14 E-value=8.3e-11 Score=96.44 Aligned_cols=62 Identities=32% Similarity=0.431 Sum_probs=54.3
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-Ccc
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILM 232 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~ 232 (234)
..++||||||+.++++.+|+.+|..||.|. .|.|-.. ..|||||+|++.-+|..|+... |-.
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lr--svWvArn---PPGfAFVEFed~RDA~DAvr~LDG~~ 71 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLR--SVWVARN---PPGFAFVEFEDPRDAEDAVRYLDGKD 71 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcce--eEEEeec---CCCceEEeccCcccHHHHHhhcCCcc
Confidence 468999999999999999999999999999 7777653 3799999999999999999876 443
No 23
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.12 E-value=1.7e-10 Score=111.28 Aligned_cols=66 Identities=23% Similarity=0.280 Sum_probs=58.1
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCC-CCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD-VGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~-~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
.+++|||+|||+++++++|+++|++||.|. .++|++|.. .+||||||+|.+.++|++||+.+ +..|
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~--~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i 124 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIY--ELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEI 124 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHhhCCEE--EEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCee
Confidence 468999999999999999999999999999 888887732 34899999999999999999986 4443
No 24
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.12 E-value=8.1e-11 Score=102.26 Aligned_cols=72 Identities=19% Similarity=0.437 Sum_probs=63.6
Q ss_pred ccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 163 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 163 ~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
...++|+|||-+||....+.+|-++|-.||.|.+..|++.+-.+.+||||||.|++..+++.||.+| |++||
T Consensus 281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIG 353 (371)
T KOG0146|consen 281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIG 353 (371)
T ss_pred cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhh
Confidence 4468999999999999999999999999999996556555555556999999999999999999999 99887
No 25
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.11 E-value=2.5e-10 Score=86.33 Aligned_cols=61 Identities=28% Similarity=0.490 Sum_probs=54.9
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+-|||+|||++++.+++.++|.+||.|. .|+|-..++ -+|-|||.|++..+|.+|+..+
T Consensus 17 vnriLyirNLp~~ITseemydlFGkyg~Ir--QIRiG~~k~-TrGTAFVVYedi~dAk~A~dhl 77 (124)
T KOG0114|consen 17 VNRILYIRNLPFKITSEEMYDLFGKYGTIR--QIRIGNTKE-TRGTAFVVYEDIFDAKKACDHL 77 (124)
T ss_pred hheeEEEecCCccccHHHHHHHhhcccceE--EEEecCccC-cCceEEEEehHhhhHHHHHHHh
Confidence 567899999999999999999999999999 888866543 2899999999999999999876
No 26
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.08 E-value=4.2e-10 Score=94.85 Aligned_cols=62 Identities=34% Similarity=0.547 Sum_probs=57.0
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC--CccEEEEEeCCHHHHHHHHHhCC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV--GICYAFVEFEDMTGVRNAVEVCI 230 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~--~rGfaFVeF~~~e~a~~Al~a~~ 230 (234)
.++|||+||+..+++++|+++|.+||.+. .+.+..++.+ .+|||||+|.+.+.+..||..+.
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 68999999999999999999999999998 8888888644 48999999999999999999874
No 27
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.07 E-value=3.8e-10 Score=108.75 Aligned_cols=59 Identities=29% Similarity=0.539 Sum_probs=54.9
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 169 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 169 ~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
+||||||+.++++++|+++|++||.|. .|+|.+++.++ +|||||+|.+.++|++||..+
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 89998887654 799999999999999999876
No 28
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.07 E-value=2.1e-10 Score=96.34 Aligned_cols=68 Identities=25% Similarity=0.389 Sum_probs=62.4
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
...++|-|-||.+.++.++|+.+|++||.|- .|.|..|+-+. +|||||.|.+..+|+.|+++| |.+++
T Consensus 11 ~gm~SLkVdNLTyRTspd~LrrvFekYG~vg--DVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ld 81 (256)
T KOG4207|consen 11 EGMTSLKVDNLTYRTSPDDLRRVFEKYGRVG--DVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLD 81 (256)
T ss_pred ccceeEEecceeccCCHHHHHHHHHHhCccc--ceecccccccccccceeEEEeeecchHHHHHHhhcceeec
Confidence 4678999999999999999999999999998 89999988775 999999999999999999998 77753
No 29
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.06 E-value=4.7e-10 Score=105.15 Aligned_cols=65 Identities=26% Similarity=0.519 Sum_probs=58.5
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
.++|||+||+..+++++|+++|++||.|. .|.|..+..++ +|||||+|.+.+.|.+||..+ +..|
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~--~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i 253 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIE--DVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFEL 253 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeE--EEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEE
Confidence 68999999999999999999999999999 89888877654 899999999999999999865 6554
No 30
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.05 E-value=5.9e-10 Score=102.15 Aligned_cols=65 Identities=20% Similarity=0.408 Sum_probs=60.4
Q ss_pred ccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 163 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 163 ~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.+.+..++|||-+|+.+++.+|+.+|++||.|. .|.|.+|+.++ +|||||.|.+.+++.+|+.+.
T Consensus 30 ~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~--einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Al 96 (510)
T KOG0144|consen 30 PDGSAVKLFVGQIPRTASEKDLRELFEKYGNVY--EINLIKDKSTGQSKGCCFVKYYTRKEADEAINAL 96 (510)
T ss_pred CCchhhhheeccCCccccHHHHHHHHHHhCcee--EEEeecccccCcccceEEEEeccHHHHHHHHHHh
Confidence 445778999999999999999999999999999 89999999887 899999999999999999886
No 31
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.05 E-value=5.5e-10 Score=107.65 Aligned_cols=67 Identities=24% Similarity=0.360 Sum_probs=58.7
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecC-CCCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRK-DVGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~-~~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
..+++|||+||+.++++++|+++|++||.|. .++|+.+. +..+|||||+|.+.++|.+||..+ +.+|
T Consensus 283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~--~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~ 351 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTDEKLRELFSECGEIT--SAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRML 351 (562)
T ss_pred cCCCEEEEeCCCCccCHHHHHHHHHhcCCeE--EEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCee
Confidence 4578899999999999999999999999999 88887764 345899999999999999999876 5554
No 32
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.04 E-value=7.1e-10 Score=104.11 Aligned_cols=66 Identities=41% Similarity=0.627 Sum_probs=60.3
Q ss_pred cccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 162 EDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 162 ~~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
++...+.+|||+|||+++++++|.++|++||.|. .+.|+.++.++ +|+|||.|.+...+++||.+.
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 3455789999999999999999999999999999 88888888776 899999999999999999876
No 33
>smart00360 RRM RNA recognition motif.
Probab=99.02 E-value=1.6e-09 Score=73.47 Aligned_cols=60 Identities=40% Similarity=0.582 Sum_probs=51.4
Q ss_pred EcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC--CccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 172 VRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV--GICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 172 V~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~--~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
|+||+..++.++|+++|..||.|. .+.+..++.+ .+|||||+|.+.+.|.+|++.+ +..|
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~--~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~ 63 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIE--SVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKEL 63 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEe--EEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCee
Confidence 689999999999999999999998 7887776543 3899999999999999999876 3443
No 34
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.01 E-value=7.2e-10 Score=101.90 Aligned_cols=66 Identities=24% Similarity=0.304 Sum_probs=60.4
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
.+|.||||.||.++.+++|.-+|.+.|.|- .++|++|+.+| ||||||.|.+.+.|++||+.. .+.|
T Consensus 82 ~G~EVfvGkIPrD~~EdeLvplfEkiG~I~--elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Ei 150 (506)
T KOG0117|consen 82 RGCEVFVGKIPRDVFEDELVPLFEKIGKIY--ELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEI 150 (506)
T ss_pred CCceEEecCCCccccchhhHHHHHhcccee--eEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccc
Confidence 689999999999999999999999999999 89999986555 999999999999999999886 5544
No 35
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.99 E-value=1.1e-09 Score=95.40 Aligned_cols=64 Identities=27% Similarity=0.391 Sum_probs=57.6
Q ss_pred cccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 164 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
..+.|+|||||++..+++++|++.|+.||.|. .|+|-.+ +||+||.|++.++|.+||..+ +..|
T Consensus 161 sp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~--EVRvFk~----qGYaFVrF~tkEaAahAIv~mNntei 225 (321)
T KOG0148|consen 161 SPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQ--EVRVFKD----QGYAFVRFETKEAAAHAIVQMNNTEI 225 (321)
T ss_pred CCCCceEEeCCcCccccHHHHHHhcccCCcce--EEEEecc----cceEEEEecchhhHHHHHHHhcCcee
Confidence 45789999999999999999999999999999 8988775 689999999999999999887 5544
No 36
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.98 E-value=6.8e-10 Score=91.99 Aligned_cols=61 Identities=33% Similarity=0.569 Sum_probs=54.1
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..++|||+|||.++.+.+|+++|-+||.|. .|.|....+ ..+||||+|++..+|+.||...
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 568999999999999999999999999999 888765432 3789999999999999999865
No 37
>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=98.98 E-value=1.4e-09 Score=103.36 Aligned_cols=61 Identities=34% Similarity=0.477 Sum_probs=53.9
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHh---CCccC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV---CILMW 233 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a---~~~~i 233 (234)
++.|||||||+.+++++|+++|+.||.|. .+.|+. +||||||+|.+.++|++||+. +++.|
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~--~v~i~~----~k~~afVef~~~e~A~~Ai~~~~~~~~~l 65 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVS--YVMMLP----GKRQALVEFEDEESAKACVNFATSVPIYI 65 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCee--EEEEEC----CCCEEEEEeCchHHHHHHHHHhhcCCceE
Confidence 57899999999999999999999999999 787775 368999999999999999985 35544
No 38
>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=98.97 E-value=4e-09 Score=72.15 Aligned_cols=59 Identities=42% Similarity=0.711 Sum_probs=52.4
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC-CccEEEEEeCCHHHHHHHHHhC
Q 026738 169 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV-GICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 169 ~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~-~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
+|||+|||..+++++|+++|+.||.|. .+.+..+... ++|+|||+|.+.+.+..|++.+
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 7877765443 4899999999999999999876
No 39
>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=98.92 E-value=3.3e-09 Score=100.83 Aligned_cols=64 Identities=17% Similarity=0.118 Sum_probs=56.8
Q ss_pred ccceEEEEcCCCC-CCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 165 EEIKSVYVRNLPP-SVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 165 ~~~~~vfV~nLp~-~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
..+++|||+||++ .+++++|+++|+.||.|. .|+|+.++ +|||||+|.+.++|.+||..+ +.+|
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~--~vki~~~~---~g~afV~f~~~~~A~~Ai~~lng~~l 338 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVE--RVKFMKNK---KETALIEMADPYQAQLALTHLNGVKL 338 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeE--EEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCEE
Confidence 3578999999998 699999999999999999 88887753 799999999999999999865 6654
No 40
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.91 E-value=1.1e-10 Score=96.33 Aligned_cols=74 Identities=23% Similarity=0.358 Sum_probs=63.3
Q ss_pred CccccccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 158 ISAVEDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 158 ~~~~~~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
.+|...-.++.-|||||||+.+|+.+|-.+|++||.|. .|.+++|+.+| +||||+.|+|..+..-|+... |+.|
T Consensus 26 ~SWH~~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~v--dinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki 102 (219)
T KOG0126|consen 26 KSWHQEYKDSAYIYIGGLPYELTEGDILCVFSQYGEIV--DINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKI 102 (219)
T ss_pred cchhhhcccceEEEECCCcccccCCcEEEEeeccCceE--EEEEEecCCCCcccceEEEEecCccceEEEEeccCCcee
Confidence 45666667889999999999999999999999999999 99999999888 899999999987766666544 5554
No 41
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.86 E-value=1.6e-09 Score=99.33 Aligned_cols=63 Identities=25% Similarity=0.386 Sum_probs=56.9
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCC-CCccEEEEEeCCHHHHHHHHHhCC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD-VGICYAFVEFEDMTGVRNAVEVCI 230 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~-~~rGfaFVeF~~~e~a~~Al~a~~ 230 (234)
+.++||||-|+..+++.+++++|.+||.|+ .+.|.++.. .+||||||.|.+.+.|..||+++.
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ie--d~~ilrd~~~~sRGcaFV~fstke~A~~Aika~n 186 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIE--DCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALN 186 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccc--hhhheecccccccceeEEEEehHHHHHHHHHhhc
Confidence 468999999999999999999999999999 788777644 459999999999999999999984
No 42
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.83 E-value=7.4e-09 Score=98.25 Aligned_cols=65 Identities=22% Similarity=0.445 Sum_probs=51.2
Q ss_pred ccccceEEEEcCCCCCCCHHHHHHHHhhcC------------ceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCC
Q 026738 163 DEEEIKSVYVRNLPPSVSESEIAEEFKKFG------------ELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 230 (234)
Q Consensus 163 ~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG------------~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~ 230 (234)
.....++|||||||+.+++++|+++|.+|+ .|. .+.+ ...+|||||+|.+.++|..||..++
T Consensus 171 ~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~--~~~~----~~~kg~afVeF~~~e~A~~Al~l~g 244 (509)
T TIGR01642 171 ATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVS--SVNI----NKEKNFAFLEFRTVEEATFAMALDS 244 (509)
T ss_pred CCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceE--EEEE----CCCCCEEEEEeCCHHHHhhhhcCCC
Confidence 344678999999999999999999999862 222 2322 2348999999999999999997667
Q ss_pred ccC
Q 026738 231 LMW 233 (234)
Q Consensus 231 ~~i 233 (234)
+.|
T Consensus 245 ~~~ 247 (509)
T TIGR01642 245 IIY 247 (509)
T ss_pred eEe
Confidence 654
No 43
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.83 E-value=8.2e-09 Score=89.91 Aligned_cols=61 Identities=28% Similarity=0.524 Sum_probs=57.3
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
-..+||+.|...++.++||+.|.+||+|. ..+|++|..++ ||||||.|-+.++|++||..|
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS--~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~M 124 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVS--DAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQM 124 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccc--cceEeecccCCcccceeEEeccchHHHHHHHHHh
Confidence 46799999999999999999999999999 89999988775 899999999999999999999
No 44
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.82 E-value=2.7e-09 Score=96.29 Aligned_cols=67 Identities=25% Similarity=0.351 Sum_probs=62.0
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
-.|+||||.+.+.+.++.||..|..||.|+ .|.+..|..++ |||+||+|+-.+.|+-|++.| +.|+|
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 469999999999999999999999999999 89988888776 899999999999999999998 77765
No 45
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.78 E-value=5.4e-09 Score=86.36 Aligned_cols=64 Identities=25% Similarity=0.334 Sum_probs=58.7
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhCC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCI 230 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~~ 230 (234)
....+||||||+..+++..|.++|-+.|+|. .+.|.+|+-+. +||||++|.+.++|+-||+-+.
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv--~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln 72 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVV--NLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILN 72 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCcee--eeecchhhhcccccceeEEEEechhhhHHHHHHHH
Confidence 3578999999999999999999999999999 89998888765 8999999999999999998764
No 46
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.76 E-value=1.5e-08 Score=95.28 Aligned_cols=66 Identities=26% Similarity=0.421 Sum_probs=59.0
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC-ccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG-ICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~-rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
--+|.|+||||.+...+|+.+|++||.+. .|.|.+....+ +|||||.|.+...|..||+.. +++|+
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~--Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~ 184 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVV--EIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKID 184 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEE--EEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceec
Confidence 45789999999999999999999999999 89998766544 899999999999999999987 77764
No 47
>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=98.75 E-value=2.8e-08 Score=96.14 Aligned_cols=60 Identities=33% Similarity=0.454 Sum_probs=52.6
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhc--CceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKF--GELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~f--G~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
..++|||+||++++++++|+++|++| |.|. .|.+. ++||||+|.+.++|.+||+.+ +..|
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~--rV~~~------rgfAFVeF~s~e~A~kAi~~lnG~~i 294 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVE--RVKKI------RDYAFVHFEDREDAVKAMDELNGKEL 294 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceE--EEEee------cCeEEEEeCCHHHHHHHHHHhCCCEE
Confidence 35789999999999999999999999 9998 67654 469999999999999999875 6554
No 48
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.75 E-value=1.8e-08 Score=94.25 Aligned_cols=64 Identities=23% Similarity=0.358 Sum_probs=59.6
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
+.+||||+|+.+++++|..+|+..|.|. .++++.|+.+| |||||++|.+.+.+.+|++.. +..+
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~--s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~ 85 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVL--SFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEF 85 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccc--eeeecccccCCCcCceeeEecCchhhHHHHHHhcCCccc
Confidence 8999999999999999999999999999 89999998877 899999999999999999887 5554
No 49
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.72 E-value=2.2e-08 Score=79.22 Aligned_cols=63 Identities=22% Similarity=0.476 Sum_probs=59.3
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+--|||.++...++++++.+.|..||.|+ .|.+..|+.+| +||++|+|++...|++||.++
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 4677899999999999999999999999999 99999888888 999999999999999999987
No 50
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.68 E-value=1.9e-08 Score=87.41 Aligned_cols=63 Identities=21% Similarity=0.373 Sum_probs=56.6
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
-.+.+|||.+||..++..+|+.+|++||.|. .-+|..|..+| ||.|||.|+....|+.||+..
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 3567899999999999999999999999998 66677777766 999999999999999999875
No 51
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.68 E-value=1.3e-08 Score=91.55 Aligned_cols=66 Identities=23% Similarity=0.405 Sum_probs=60.6
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhCCccC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCILMW 233 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~~~~i 233 (234)
+.++|||++|+|.++++.|++.|.+||.|. .+.+++++.++ |||+||+|.+.+.+.++|....|.|
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 88899888776 8999999999999999998887655
No 52
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.68 E-value=2.7e-08 Score=91.67 Aligned_cols=56 Identities=32% Similarity=0.542 Sum_probs=51.1
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.-+-|||+||+.++|++.|+++|++||.|. .|...+| ||||.|.+.++|.+|++.+
T Consensus 258 ~VKvLYVRNL~~~tTeE~lk~~F~~~G~ve--RVkk~rD------YaFVHf~eR~davkAm~~~ 313 (506)
T KOG0117|consen 258 KVKVLYVRNLMESTTEETLKKLFNEFGKVE--RVKKPRD------YAFVHFAEREDAVKAMKET 313 (506)
T ss_pred heeeeeeeccchhhhHHHHHHHHHhccceE--Eeecccc------eeEEeecchHHHHHHHHHh
Confidence 457899999999999999999999999999 7766654 9999999999999999987
No 53
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=1.2e-08 Score=86.74 Aligned_cols=62 Identities=24% Similarity=0.460 Sum_probs=57.1
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.-++||||+|...+++.-|...|-.||.|. .|.|..|..++ ||||||+|+..++|.+||..|
T Consensus 9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~--dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNM 72 (298)
T KOG0111|consen 9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIK--DIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNM 72 (298)
T ss_pred cceeEEeccchHHHHHHHHHhccccccchh--hcccccchhcccccceeEEEeeccchhHHHhhcC
Confidence 568999999999999999999999999999 89998876654 899999999999999999877
No 54
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.64 E-value=6.9e-08 Score=89.01 Aligned_cols=59 Identities=24% Similarity=0.510 Sum_probs=55.2
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..|||+||+..++...|.++|+.||.|. .+++..+....+|| ||+|++.+.|++||+.+
T Consensus 77 ~~~~i~nl~~~~~~~~~~d~f~~~g~il--S~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ 135 (369)
T KOG0123|consen 77 SLVFIKNLDESIDNKSLYDTFSEFGNIL--SCKVATDENGSKGY-FVQFESEESAKKAIEKL 135 (369)
T ss_pred ceeeecCCCcccCcHHHHHHHHhhcCee--EEEEEEcCCCceee-EEEeCCHHHHHHHHHHh
Confidence 3399999999999999999999999999 89999887767999 99999999999999987
No 55
>smart00361 RRM_1 RNA recognition motif.
Probab=98.61 E-value=1.3e-07 Score=66.59 Aligned_cols=51 Identities=18% Similarity=0.275 Sum_probs=41.0
Q ss_pred HHHHHHHHh----hcCceeeceEE-EeecC----CCCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 181 ESEIAEEFK----KFGELSSEGVV-IRSRK----DVGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 181 ~~~L~~~F~----~fG~I~~~~v~-i~~~~----~~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
+++|+++|. +||.|. .+. |..++ +..+|||||.|.+.++|.+||+.+ |..|
T Consensus 2 ~~~l~~~~~~~~~~fG~v~--~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~ 62 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVG--KINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYF 62 (70)
T ss_pred chhHHHHHHHHHHhcCCee--EEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEE
Confidence 567888888 999999 674 55554 334999999999999999999976 5544
No 56
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.60 E-value=3.6e-08 Score=92.81 Aligned_cols=66 Identities=21% Similarity=0.413 Sum_probs=57.1
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC--CccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV--GICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~--~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
...+||||||.+++++.+|+.+|+.||.|. .|.+..|..+ .+|||||+|.+.+.+.+|+..+ |+.|
T Consensus 277 p~~rl~vgnLHfNite~~lr~ifepfg~Ie--~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfel 345 (549)
T KOG0147|consen 277 PMRRLYVGNLHFNITEDMLRGIFEPFGKIE--NVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFEL 345 (549)
T ss_pred chhhhhhcccccCchHHHHhhhccCcccce--eeeeccccccccccCcceEEEecHHHHHHHHHHhcccee
Confidence 344599999999999999999999999999 8999888544 4899999999999999997765 6443
No 57
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.57 E-value=2.8e-07 Score=80.20 Aligned_cols=64 Identities=22% Similarity=0.429 Sum_probs=58.5
Q ss_pred cccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 164 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
+...++|.|..||.+++.++|+.+|...|+|. .+++++|+.+| -|||||-|-+..+|++||...
T Consensus 38 ~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiE--ScKLvRDKitGqSLGYGFVNYv~p~DAe~Aintl 103 (360)
T KOG0145|consen 38 DESKTNLIVNYLPQNMTQDELRSLFGSIGEIE--SCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTL 103 (360)
T ss_pred CcccceeeeeecccccCHHHHHHHhhccccee--eeeeeeccccccccccceeeecChHHHHHHHhhh
Confidence 34567899999999999999999999999999 89999999887 699999999999999999765
No 58
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.56 E-value=9e-08 Score=79.19 Aligned_cols=64 Identities=25% Similarity=0.420 Sum_probs=55.7
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+.++|||||...+++..|.+.|+.||.|.+ .-.|+++..+| +|||||.|.+.+.+.+||.++
T Consensus 94 ~vganlfvgNLd~~vDe~~L~dtFsafG~l~~-~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ 159 (203)
T KOG0131|consen 94 DVGANLFVGNLDPEVDEKLLYDTFSAFGVLIS-PPKIMRDPDTGNPKGFGFINYASFEASDAAIGSM 159 (203)
T ss_pred cccccccccccCcchhHHHHHHHHHhcccccc-CCcccccccCCCCCCCeEEechhHHHHHHHHHHh
Confidence 45689999999999999999999999999973 33566666644 899999999999999999998
No 59
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.49 E-value=1.6e-07 Score=84.92 Aligned_cols=66 Identities=23% Similarity=0.481 Sum_probs=58.8
Q ss_pred cccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhCCc
Q 026738 164 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCIL 231 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~~~ 231 (234)
.....+|||..+..+.++.||+.+|..||.|. .|.+-++...+ |||||++|.+..+...||..|.+
T Consensus 207 Ak~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~--~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNl 274 (544)
T KOG0124|consen 207 AKKFNRIYVASVHPDLSETDIKSVFEAFGEIV--KCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNL 274 (544)
T ss_pred HHhhheEEeeecCCCccHHHHHHHHHhhccee--eEEeeccCCCCCccceeeEEeccccchHHHhhhcch
Confidence 45678999999999999999999999999999 89987775443 89999999999999999998843
No 60
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.49 E-value=6.2e-07 Score=85.07 Aligned_cols=63 Identities=19% Similarity=0.454 Sum_probs=55.3
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC-C-ccEEEEEeCCHHHHHHHHHhC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV-G-ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~-~-rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+++|||.+|+..+...+|+.+|++||.|. +..++....+ | ||||||++.+.+.|.+||...
T Consensus 403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVv--GAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hL 467 (940)
T KOG4661|consen 403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVV--GAKVVTNARSPGARCYGFVTMSTSAEATKCIEHL 467 (940)
T ss_pred ccccceeeeccccchhhhHHHHHHHHhccee--ceeeeecCCCCCcceeEEEEecchHHHHHHHHHh
Confidence 4678999999999999999999999999999 8877765433 4 999999999999999999754
No 61
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.47 E-value=1.7e-07 Score=81.72 Aligned_cols=62 Identities=21% Similarity=0.387 Sum_probs=54.3
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEE-eecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVI-RSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i-~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
+.++||||-|...-.+++++++|..||.|. .+.+ +...+.+|||+||.|.+..+++.||.+.
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~--e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aL 80 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIE--ECTVLRGPDGNSKGCAFVKFSSHAEAQAAINAL 80 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcc--eeEEecCCCCCCCCceEEEeccchHHHHHHHHh
Confidence 568999999999999999999999999998 5655 4445566999999999999999999875
No 62
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.46 E-value=1.5e-07 Score=82.90 Aligned_cols=57 Identities=26% Similarity=0.465 Sum_probs=50.4
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-Ccc
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILM 232 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~ 232 (234)
.+|||||||..+++.+|+.+|++||+|. .+.|+. +||||..++...+..||... +..
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVl--ECDIvK------NYgFVHiEdktaaedairNLhgYt 60 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVL--ECDIVK------NYGFVHIEDKTAAEDAIRNLHGYT 60 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceE--eeeeec------ccceEEeecccccHHHHhhcccce
Confidence 4799999999999999999999999999 888874 49999999999999999843 443
No 63
>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=98.41 E-value=6.5e-07 Score=60.00 Aligned_cols=45 Identities=31% Similarity=0.490 Sum_probs=36.6
Q ss_pred HHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 184 IAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 184 L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
|+++|++||.|. .+.+..++ +|+|||+|.+.++|.+|++.. +..|
T Consensus 1 L~~~f~~fG~V~--~i~~~~~~---~~~a~V~f~~~~~A~~a~~~l~~~~~ 46 (56)
T PF13893_consen 1 LYKLFSKFGEVK--KIKIFKKK---RGFAFVEFASVEDAQKAIEQLNGRQF 46 (56)
T ss_dssp HHHHHTTTS-EE--EEEEETTS---TTEEEEEESSHHHHHHHHHHHTTSEE
T ss_pred ChHHhCCcccEE--EEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCEE
Confidence 688999999999 78776643 689999999999999999865 5443
No 64
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=4.5e-07 Score=81.78 Aligned_cols=67 Identities=21% Similarity=0.429 Sum_probs=59.6
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
.....|||..|..-++.++|.-+|+.||.|. ++.|++|..+| -.||||+|++.+++++|.=.| .+.|
T Consensus 237 PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~--sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLI 306 (479)
T KOG0415|consen 237 PPENVLFVCKLNPVTTDEDLEIIFSRFGKIV--SCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLI 306 (479)
T ss_pred CCcceEEEEecCCcccccchhhHHhhcccce--eeeEEecccccchhheeeeeecchhhHHHHHhhhcceee
Confidence 4457899999999999999999999999999 89999988877 689999999999999998776 5554
No 65
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.37 E-value=8.2e-07 Score=74.77 Aligned_cols=62 Identities=34% Similarity=0.501 Sum_probs=52.4
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhc-CceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKF-GELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~f-G~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
...-+||+.++..+.+.++..+|.+| |.+. .+++.+.+.|| ||||||+|++.+-|.-|-+.|
T Consensus 48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~--r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETM 112 (214)
T KOG4208|consen 48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVT--RFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETM 112 (214)
T ss_pred CccceeecccccchhHHHHhhhhhhcCCeeE--EEEeecccccCCcCceEEEEeccHHHHHHHHHHh
Confidence 45679999999999999999999988 6666 67775555555 999999999999999888887
No 66
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.35 E-value=9.2e-07 Score=81.67 Aligned_cols=62 Identities=26% Similarity=0.343 Sum_probs=55.3
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHh-hcCceeeceEEEeecCC-CCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFK-KFGELSSEGVVIRSRKD-VGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~-~fG~I~~~~v~i~~~~~-~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+.+||.|+|+++.+.+|+++|. +.|.|. .|.+..|.. +.||||.|+|++.+.+++|++.+
T Consensus 43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~--yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~l 106 (608)
T KOG4212|consen 43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVE--YVELLFDESGKARGCAVVEFKDPENVQKALEKL 106 (608)
T ss_pred ccceEEEecCcchhhhHhHHHHHHHhcCceE--eeeeecccCCCcCCceEEEeeCHHHHHHHHHHh
Confidence 456799999999999999999995 789999 999988764 34999999999999999999875
No 67
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.34 E-value=1.3e-06 Score=84.64 Aligned_cols=70 Identities=26% Similarity=0.394 Sum_probs=60.4
Q ss_pred cccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCC-----CCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 162 EDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD-----VGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 162 ~~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~-----~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
..+...+++||+||+..+++..|...|+.||.|. .++|+..+. +.+.||||-|-+..++++|++.+ |++|
T Consensus 169 dgDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPla--svKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv 244 (877)
T KOG0151|consen 169 DGDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLA--SVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIV 244 (877)
T ss_pred CCCCcccceeeecCCccccHHHHHHHhcccCccc--ceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceee
Confidence 3466789999999999999999999999999999 788876543 34789999999999999999988 5554
No 68
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.33 E-value=9.7e-07 Score=79.35 Aligned_cols=61 Identities=28% Similarity=0.491 Sum_probs=54.1
Q ss_pred ccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 163 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 163 ~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.+...++||||+|-..+++.+|+++|-+||.|+ .|.+.. ++|||||.|.+..+|+.|....
T Consensus 224 eD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeir--si~~~~----~~~CAFv~ftTR~aAE~Aae~~ 284 (377)
T KOG0153|consen 224 EDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIR--SIRILP----RKGCAFVTFTTREAAEKAAEKS 284 (377)
T ss_pred cccceeEEEecccccchhHHHHHHHHhhcCCee--eEEeec----ccccceeeehhhHHHHHHHHhh
Confidence 445678999999999999999999999999999 788766 3679999999999999998765
No 69
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.33 E-value=1.6e-06 Score=73.91 Aligned_cols=59 Identities=20% Similarity=0.359 Sum_probs=50.6
Q ss_pred eEEEEcCCCCCCCHHHHHH----HHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 168 KSVYVRNLPPSVSESEIAE----EFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~----~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.+|||.||...+..++|++ +|++||.|. +|.... ....||-|||.|.+.+.|-.|++++
T Consensus 10 ~TlYInnLnekI~~~elkrsL~~LFsqfG~il--dI~a~k-t~KmRGQA~VvFk~~~~As~A~r~l 72 (221)
T KOG4206|consen 10 GTLYINNLNEKIKKDELKRSLYLLFSQFGKIL--DISAFK-TPKMRGQAFVVFKETEAASAALRAL 72 (221)
T ss_pred ceEeehhccccccHHHHHHHHHHHHHhhCCeE--EEEecC-CCCccCceEEEecChhHHHHHHHHh
Confidence 3999999999999999988 999999998 665432 3345999999999999999999887
No 70
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.31 E-value=1.1e-06 Score=84.99 Aligned_cols=65 Identities=22% Similarity=0.375 Sum_probs=54.6
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC-----CccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV-----GICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~-----~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
.++|||+||+++++.++|..+|...|.|. .+.|...+.. +.|||||+|.+.++|++|++.+ |..|
T Consensus 515 ~t~lfvkNlnf~Tt~e~l~~~F~k~G~Vl--S~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvl 585 (725)
T KOG0110|consen 515 ETKLFVKNLNFDTTLEDLEDLFSKQGTVL--SIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVL 585 (725)
T ss_pred chhhhhhcCCcccchhHHHHHHHhcCeEE--EEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCcee
Confidence 34499999999999999999999999999 6766554432 2599999999999999999997 4443
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.30 E-value=5.1e-07 Score=87.31 Aligned_cols=62 Identities=24% Similarity=0.425 Sum_probs=55.2
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC--CccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV--GICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~--~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.+++|+|+|||+.++..+++.+|..||.|+ .++|....+. +||||||+|-+...+.+|+.+.
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 478999999999999999999999999999 8888765444 4999999999999999998775
No 72
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.30 E-value=5.6e-07 Score=81.01 Aligned_cols=65 Identities=26% Similarity=0.480 Sum_probs=57.1
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhCCcc
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCILM 232 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~~~~ 232 (234)
..+.|||++|+.++++.+|++.|.+||.|. .+.++.|+.+. ||||||.|.+.+++.+++...-|.
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~--~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~ 162 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVA--DVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHD 162 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeE--eeEEeecccccccccceeeEeccccccceecccceee
Confidence 477999999999999999999999999988 78888887765 899999999999999887665443
No 73
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.29 E-value=1.2e-06 Score=85.60 Aligned_cols=58 Identities=21% Similarity=0.458 Sum_probs=52.5
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.+++||||+|+.++++.+|..+|+.||.|. .|.+.. .||||||......+|.+||.++
T Consensus 420 ~SrTLwvG~i~k~v~e~dL~~~feefGeiq--Si~li~----~R~cAfI~M~~RqdA~kalqkl 477 (894)
T KOG0132|consen 420 CSRTLWVGGIPKNVTEQDLANLFEEFGEIQ--SIILIP----PRGCAFIKMVRRQDAEKALQKL 477 (894)
T ss_pred eeeeeeeccccchhhHHHHHHHHHhcccce--eEeecc----CCceeEEEEeehhHHHHHHHHH
Confidence 468999999999999999999999999999 676644 4889999999999999999876
No 74
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.28 E-value=1.7e-06 Score=75.01 Aligned_cols=78 Identities=24% Similarity=0.278 Sum_probs=63.8
Q ss_pred CCCCccccccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC-Cc
Q 026738 155 GEEISAVEDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC-IL 231 (234)
Q Consensus 155 ~~~~~~~~~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~ 231 (234)
.++.+-.+.+.+-.+||.|.|...++++.|-+.|++|-... ...+.+++.++ +|||||.|.+..++.+|++.| |-
T Consensus 178 wedPsl~ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~--~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gk 255 (290)
T KOG0226|consen 178 WEDPSLAEWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQ--KAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGK 255 (290)
T ss_pred cCCcccccCccccceeecccccccccHHHHHHHHHhccchh--hccccccccccccccceeeeecCHHHHHHHHHhhccc
Confidence 33333344456678999999999999999999999998887 77777777666 899999999999999999998 65
Q ss_pred cCC
Q 026738 232 MWH 234 (234)
Q Consensus 232 ~i~ 234 (234)
.+|
T Consensus 256 yVg 258 (290)
T KOG0226|consen 256 YVG 258 (290)
T ss_pred ccc
Confidence 443
No 75
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.15 E-value=4.7e-06 Score=77.09 Aligned_cols=64 Identities=16% Similarity=0.175 Sum_probs=54.7
Q ss_pred cccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-Ccc
Q 026738 164 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILM 232 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~ 232 (234)
..+.|+|||+|||++.|+..|++-|..||.++ ...| +.++..+| .|.|.+.+.|++||..+ +..
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~--yadi-me~GkskG--VVrF~s~edAEra~a~Mngs~ 597 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVL--YADI-MENGKSKG--VVRFFSPEDAERACALMNGSR 597 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhcccee--hhhh-hccCCccc--eEEecCHHHHHHHHHHhccCc
Confidence 45789999999999999999999999999999 7777 44444455 99999999999999987 544
No 76
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.14 E-value=2.6e-06 Score=73.86 Aligned_cols=68 Identities=26% Similarity=0.291 Sum_probs=60.3
Q ss_pred cccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhCCccC
Q 026738 164 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCILMW 233 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~~~~i 233 (234)
..+.+.+||+|+.+.++..+++..|+.||.|. .+.|..++.++ +||+||+|.+.+.++.++..++..|
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~--~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i 167 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGIN--RVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEI 167 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCcc--ceeeeccccCCCcceeEEEecccHhhhHHHhhcCCccc
Confidence 34678999999999999999999999999998 88888887765 9999999999999999999766554
No 77
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.13 E-value=5e-06 Score=76.77 Aligned_cols=63 Identities=22% Similarity=0.421 Sum_probs=56.0
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeec-CCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR-KDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~-~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+.+|||+||+..++.+.|+.+|+.||.|. .++|+.+ .+.++|||||.|...++|.+|+..+
T Consensus 268 ~~~~nl~vknld~~~~~e~L~~~f~~~GeI~--s~kv~~~~~g~skG~gfV~fs~~eeA~~A~~~~ 331 (369)
T KOG0123|consen 268 LQGANLYVKNLDETLSDEKLRKIFSSFGEIT--SAKVMVDENGKSKGFGFVEFSSPEEAKKAMTEM 331 (369)
T ss_pred ccccccccccCccccchhHHHHHHhccccee--eEEEEeccCCCccceEEEEcCCHHHHHHHHHhh
Confidence 4678899999999999999999999999999 6776654 4556999999999999999999887
No 78
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.04 E-value=3.4e-05 Score=66.06 Aligned_cols=68 Identities=21% Similarity=0.329 Sum_probs=53.8
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEee-cCCCC--ccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRS-RKDVG--ICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~-~~~~~--rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
+.-++|||.+||.++...+|..+|..|---. +..|+. +++.. +-+|||.|.+...|.+|+.+. |+.|+
T Consensus 32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYE--gslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFD 103 (284)
T KOG1457|consen 32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYE--GSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFD 103 (284)
T ss_pred cccceeeeccCCcccCHHHHHHHhccCCCcc--ceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeec
Confidence 4578999999999999999999999986665 444433 22221 569999999999999999886 77653
No 79
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.94 E-value=5.8e-06 Score=70.70 Aligned_cols=54 Identities=30% Similarity=0.530 Sum_probs=47.6
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+|||+|++.+.+.+|+.||..||.+. .+.+. .||+||+|++.-+|..||...
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 5799999999999999999999999998 66553 479999999999999888655
No 80
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=97.85 E-value=1.2e-05 Score=70.97 Aligned_cols=56 Identities=25% Similarity=0.440 Sum_probs=50.6
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
-.++|+||||.++++..+|+..|.+||.+. .+.|.+ +|+||.|+-.+++..||+..
T Consensus 77 ~stkl~vgNis~tctn~ElRa~fe~ygpvi--ecdivk------dy~fvh~d~~eda~~air~l 132 (346)
T KOG0109|consen 77 ASTKLHVGNISPTCTNQELRAKFEKYGPVI--ECDIVK------DYAFVHFDRAEDAVEAIRGL 132 (346)
T ss_pred CccccccCCCCccccCHHHhhhhcccCCce--eeeeec------ceeEEEEeeccchHHHHhcc
Confidence 467899999999999999999999999999 888865 49999999999999999543
No 81
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.83 E-value=2.6e-05 Score=73.98 Aligned_cols=60 Identities=27% Similarity=0.367 Sum_probs=52.1
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
...++|+|-||+..|+.++|+++|+.||+|+ +|+.... .+|..||+|-|..+|++|+++.
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 7554332 3789999999999999999875
No 82
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=97.82 E-value=5.9e-05 Score=65.74 Aligned_cols=64 Identities=30% Similarity=0.398 Sum_probs=55.0
Q ss_pred cccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC-CccEEEEEeCCHHHHHHHHHhC
Q 026738 164 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV-GICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~-~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
+...++|+|.||++.+...+|+++|..||.++ .+.+..++.. ..|+|-|.|...++|.+||+..
T Consensus 80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~--r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~ 144 (243)
T KOG0533|consen 80 ETRSTKVNVSNLPYGVIDADLKELFAEFGELK--RVAVHYDRAGRSLGTADVSFNRRDDAERAVKKY 144 (243)
T ss_pred CCCcceeeeecCCcCcchHHHHHHHHHhccce--EEeeccCCCCCCCccceeeecchHhHHHHHHHh
Confidence 33458899999999999999999999999888 7777666543 3799999999999999999875
No 83
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.76 E-value=2.6e-05 Score=66.72 Aligned_cols=59 Identities=24% Similarity=0.490 Sum_probs=48.5
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
-.+|||-||..++++++|+.+|+.|-... .++|+.+ .|.+.+|++|++.+.|..|+...
T Consensus 210 cstlfianl~~~~~ed~l~~~~~~~~gf~--~l~~~~~--~g~~vaf~~~~~~~~at~am~~l 268 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDELKQLLSRYPGFH--ILKIRAR--GGMPVAFADFEEIEQATDAMNHL 268 (284)
T ss_pred hhhHhhhccCCCCCHHHHHHHHHhCCCce--EEEEecC--CCcceEeecHHHHHHHHHHHHHh
Confidence 34699999999999999999999997776 5556543 25789999999988888887654
No 84
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.65 E-value=2.3e-05 Score=66.90 Aligned_cols=64 Identities=27% Similarity=0.241 Sum_probs=55.9
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-Cc
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-IL 231 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~ 231 (234)
.-++|||+||...++++.|.++|.+-|.|. .+.|..++....-||||.|.+.-++.-|++.+ |+
T Consensus 8 ~drtl~v~n~~~~v~eelL~ElfiqaGPV~--kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~ 72 (267)
T KOG4454|consen 8 MDRTLLVQNMYSGVSEELLSELFIQAGPVY--KVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGD 72 (267)
T ss_pred hhhHHHHHhhhhhhhHHHHHHHhhccCceE--EEeCCCCccCCCceeeeecccccchhhhhhhcccc
Confidence 357899999999999999999999999999 88888776655339999999999999999876 44
No 85
>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=97.61 E-value=0.00014 Score=55.53 Aligned_cols=57 Identities=25% Similarity=0.317 Sum_probs=36.6
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
|+-|+|.++...++.++|+.+|+.||.|. .|.+.. |-.-|||.|.+.+.|++|+...
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 46789999999999999999999999998 776654 4458999999999999988753
No 86
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=97.58 E-value=0.00018 Score=67.58 Aligned_cols=63 Identities=29% Similarity=0.314 Sum_probs=52.8
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCc
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 231 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~ 231 (234)
...-|-+++|||.+|+++|.+||+.++ |. .+.+.+..++..|=|||+|.+.+++++||+.+-.
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~--~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~ 71 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNCG-IE--NLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRE 71 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcCc-ee--EEEEeccCCCcCcceEEEeechHHHHHHHHhhHH
Confidence 456677899999999999999999986 44 5666666666689999999999999999997643
No 87
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.51 E-value=0.00015 Score=68.35 Aligned_cols=61 Identities=30% Similarity=0.577 Sum_probs=50.3
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC-C----cc---EEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV-G----IC---YAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~-~----rG---faFVeF~~~e~a~~Al~a~ 229 (234)
-.++||||+||++++++.|...|..||.+. +.+..+.+. + +| |.|+.|+++.+++.-|.++
T Consensus 258 ~S~KVFvGGlp~dise~~i~~~F~~FGs~~---VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129|consen 258 YSRKVFVGGLPWDITEAQINASFGQFGSVK---VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred cccceeecCCCccccHHHHHhhcccccceE---eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence 468899999999999999999999999997 555432221 1 56 9999999999999888776
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=97.50 E-value=0.0006 Score=51.41 Aligned_cols=60 Identities=17% Similarity=0.277 Sum_probs=46.8
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhc--CceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKF--GELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~f--G~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
++|.|+|+|...+..+|.+++... |... .+-+..|..++ .|||||-|.+...+.+-.+..
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yD--F~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f 65 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYD--FFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAF 65 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcce--EEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHH
Confidence 689999999999999999998643 4443 55566665443 899999999999888766553
No 89
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.38 E-value=0.00054 Score=61.96 Aligned_cols=64 Identities=23% Similarity=0.251 Sum_probs=54.3
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeec------eEEEeecCC-CCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSE------GVVIRSRKD-VGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~------~v~i~~~~~-~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+.|||.|||.++|.+++.++|++||-|.++ .|.|.++.. +.+|=|.+.|-..+++.-||+.+
T Consensus 133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~il 203 (382)
T KOG1548|consen 133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKIL 203 (382)
T ss_pred cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHh
Confidence 56789999999999999999999999999765 466666543 33899999999999999999865
No 90
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.15 E-value=0.00015 Score=68.76 Aligned_cols=67 Identities=22% Similarity=0.316 Sum_probs=59.9
Q ss_pred ccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhCCc
Q 026738 163 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCIL 231 (234)
Q Consensus 163 ~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~~~ 231 (234)
.+.+.+++|+--|...++..+|.+||+.+|.|. .|+|+.|+.++ +|.|||+|.|..++..||..+|-
T Consensus 175 eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVr--dVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGq 243 (549)
T KOG0147|consen 175 EERDQRTVFCMQLARRNPPRDLEEFFSIVGKVR--DVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQ 243 (549)
T ss_pred hHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcc--eeEeeccccchhhcceeEEEEecccchhhHhhhcCC
Confidence 445788999999999999999999999999999 89999988776 89999999999999999977654
No 91
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.05 E-value=0.00046 Score=65.71 Aligned_cols=68 Identities=19% Similarity=0.317 Sum_probs=58.0
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC--CccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV--GICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~--~rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
...+++||++|+..+++.+++++...||.++ ...+..+..+ ++||+|.+|.+..-...||... |+.+|
T Consensus 287 ~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk--~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lg 357 (500)
T KOG0120|consen 287 DSPNKIFVGGLPLYLTEDQVKELLDSFGPLK--AFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLG 357 (500)
T ss_pred cccchhhhccCcCccCHHHHHHHHHhcccch--hheeecccccccccceeeeeeeCCcchhhhhcccchhhhc
Confidence 3568899999999999999999999999999 7777777664 4999999999998888888765 55543
No 92
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.87 E-value=0.0022 Score=60.44 Aligned_cols=66 Identities=24% Similarity=0.260 Sum_probs=51.0
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecC-CCCccEEEEEeCCHHHHHHHHHhCCccC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRK-DVGICYAFVEFEDMTGVRNAVEVCILMW 233 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~-~~~rGfaFVeF~~~e~a~~Al~a~~~~i 233 (234)
...|-+++||+.+++++|.+||.-.-.+. +.|.+..+. ++..|=|||.|++.+.+++||...-..|
T Consensus 103 d~vVRLRGLPfscte~dI~~FFaGL~Iv~-~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~i 169 (510)
T KOG4211|consen 103 DGVVRLRGLPFSCTEEDIVEFFAGLEIVP-DGILLPMDQRGRPTGEAFVQFESQESAEIALGRHRENI 169 (510)
T ss_pred CceEEecCCCccCcHHHHHHHhcCCcccc-cceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHhh
Confidence 35678899999999999999998765444 356555543 3346889999999999999998764444
No 93
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=96.87 E-value=0.00062 Score=60.90 Aligned_cols=61 Identities=21% Similarity=0.421 Sum_probs=53.4
Q ss_pred cceEEE-EcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHh
Q 026738 166 EIKSVY-VRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEV 228 (234)
Q Consensus 166 ~~~~vf-V~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a 228 (234)
...++| |+||++.++.++|+.+|..+|.|. .+++..+..++ +|||||.|.+......++..
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 344555 999999999999999999999999 88888877766 89999999999999988874
No 94
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.84 E-value=0.0025 Score=60.29 Aligned_cols=66 Identities=20% Similarity=0.278 Sum_probs=57.1
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHh-hcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhCCcc
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFK-KFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVCILM 232 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~-~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~~~~ 232 (234)
+..++||||+||.-++..+|-.+|. -||.|. .+-|-.|..-. +|-|-|.|.+..+..+||.+.=++
T Consensus 368 DprrTVFVGgvprpl~A~eLA~imd~lyGgV~--yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsarFvq 436 (520)
T KOG0129|consen 368 DPRRTVFVGGLPRPLTAEELAMIMEDLFGGVL--YVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISARFVQ 436 (520)
T ss_pred CccceEEecCCCCcchHHHHHHHHHHhcCceE--EEEeccCcccCCCCCcceeeecccHHHHHHHhhheEE
Confidence 4568999999999999999999998 899999 88888774333 899999999999999999886433
No 95
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=96.81 E-value=0.004 Score=47.24 Aligned_cols=66 Identities=15% Similarity=0.276 Sum_probs=44.7
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEE-Eeec--------CCCCccEEEEEeCCHHHHHHHHHhCCccCC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVV-IRSR--------KDVGICYAFVEFEDMTGVRNAVEVCILMWH 234 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~-i~~~--------~~~~rGfaFVeF~~~e~a~~Al~a~~~~i~ 234 (234)
..+.|.|-+.|... ...+-+.|++||.|. ... +.++ ...+.++-.|.|++..+|++||..+|.+|+
T Consensus 5 ~~~wVtVFGfp~~~-~~~Vl~~F~~~G~Il--e~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~ 79 (100)
T PF05172_consen 5 SETWVTVFGFPPSA-SNQVLRHFSSFGTIL--EHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFS 79 (100)
T ss_dssp GCCEEEEE---GGG-HHHHHHHHHCCS-EE--CEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEET
T ss_pred CCeEEEEEccCHHH-HHHHHHHHHhcceEE--EeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEc
Confidence 34567777888874 456778899999998 442 1110 113578999999999999999999988764
No 96
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=96.62 E-value=0.0058 Score=40.85 Aligned_cols=52 Identities=21% Similarity=0.537 Sum_probs=39.0
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHH
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAV 226 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al 226 (234)
+.|-|.+.+.+..+ .+...|..||.|. .+.+. .+..+.||.|.+..++++||
T Consensus 2 ~wI~V~Gf~~~~~~-~vl~~F~~fGeI~--~~~~~----~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAE-EVLEHFASFGEIV--DIYVP----ESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHH-HHHHHHHhcCCEE--EEEcC----CCCcEEEEEECCHHHHHhhC
Confidence 35667777766554 4556899999998 66654 23569999999999999985
No 97
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=96.34 E-value=0.0045 Score=57.31 Aligned_cols=53 Identities=30% Similarity=0.401 Sum_probs=45.8
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHH
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRN 224 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~ 224 (234)
.++-|.+||||+++++.+|-.++..||.|. .+.+.. |+.-+|++|.|.++|..
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 665543 56689999999988765
No 98
>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=96.30 E-value=0.021 Score=42.02 Aligned_cols=53 Identities=19% Similarity=0.212 Sum_probs=36.7
Q ss_pred eEEEEcCCCCCCCHH----HHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 168 KSVYVRNLPPSVSES----EIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~----~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..|||.|||.+.+.. .|++++..||--. +.| ..|.|+|.|.+.+.|.+|.+.|
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkV---l~v------~~~tAilrF~~~~~A~RA~KRm 59 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKV---LSV------SGGTAILRFPNQEFAERAQKRM 59 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--E---EE--------TT-EEEEESSHHHHHHHHHHH
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEE---EEE------eCCEEEEEeCCHHHHHHHHHhh
Confidence 469999999998865 4677777887532 223 2468999999999999999887
No 99
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.24 E-value=0.0051 Score=53.75 Aligned_cols=61 Identities=25% Similarity=0.423 Sum_probs=52.6
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..|||.||...++.+.|.+.|..||.|.. .|.+..+.+...|=++|.|...-.+.+|+..+
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 67999999999999999999999999984 55566666666678899999999998888876
No 100
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=96.21 E-value=0.0056 Score=56.90 Aligned_cols=64 Identities=25% Similarity=0.357 Sum_probs=53.7
Q ss_pred cccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeec---C--CCC----------ccEEEEEeCCHHHHHHHHHh
Q 026738 164 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR---K--DVG----------ICYAFVEFEDMTGVRNAVEV 228 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~---~--~~~----------rGfaFVeF~~~e~a~~Al~a 228 (234)
+..+++|.+-|||.+-.-+.|.++|+.||.|+ .|+|... . .++ +-||||+|+..+.|.+|.+.
T Consensus 228 el~srtivaenLP~Dh~~enl~kiFg~~G~Ik--sIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~ 305 (484)
T KOG1855|consen 228 ELPSRTIVAENLPLDHSYENLSKIFGTVGSIK--SIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKAREL 305 (484)
T ss_pred ccccceEEEecCCcchHHHHHHHHhhccccee--eeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHh
Confidence 35789999999999999999999999999999 8888654 1 111 45899999999999999877
Q ss_pred C
Q 026738 229 C 229 (234)
Q Consensus 229 ~ 229 (234)
+
T Consensus 306 ~ 306 (484)
T KOG1855|consen 306 L 306 (484)
T ss_pred h
Confidence 6
No 101
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=96.17 E-value=0.015 Score=49.81 Aligned_cols=59 Identities=17% Similarity=0.280 Sum_probs=49.6
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
....+|+.|||..++.+.|..+|.+|+..+ .|++... .+|.+||+|.+...+..|..+.
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--EIRLIPP---RSGIAFVEFLSDRQASAAQQAL 203 (221)
T ss_pred CceEEEEecCCcchhHHHHHHHHhhCcccc--eeEeccC---CCceeEEecchhhhhHHHhhhh
Confidence 457899999999999999999999999988 7877653 2689999999987777666554
No 102
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=96.13 E-value=0.0065 Score=55.24 Aligned_cols=64 Identities=27% Similarity=0.425 Sum_probs=53.9
Q ss_pred cccceEEEEcCCCCCCCHHHHHHHHhhcCceeec------eEEEeecCCCC--ccEEEEEeCCHHHHHHHHH
Q 026738 164 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSE------GVVIRSRKDVG--ICYAFVEFEDMTGVRNAVE 227 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~------~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~ 227 (234)
....-+|||.+|+..++..+|..+|.++|.|+.+ .|.|.+++.++ ||=|.|.|+|...|+.||.
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 3456789999999999999999999999998633 35566676665 8999999999999999885
No 103
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=96.05 E-value=0.0035 Score=53.77 Aligned_cols=56 Identities=30% Similarity=0.404 Sum_probs=48.9
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+.+.|.||...+.+.+|++.|.++|.+. ...+ .++++||.|...+++.+||...
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 468899999999999999999999999996 4333 3679999999999999999875
No 104
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=95.94 E-value=0.056 Score=37.42 Aligned_cols=54 Identities=19% Similarity=0.271 Sum_probs=44.0
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhc----CceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKF----GELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~f----G~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
...|+|+++ .+++.++++.+|..| +.. .|.+..|. -|-|.|.+...|.+||.+.
T Consensus 5 peavhirGv-d~lsT~dI~~y~~~y~~~~~~~---~IEWIdDt-----ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGV-DELSTDDIKAYFSEYFDEEGPF---RIEWIDDT-----SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcC-CCCCHHHHHHHHHHhcccCCCc---eEEEecCC-----cEEEEECCHHHHHHHHHcC
Confidence 457999998 458888999999998 544 58888775 4679999999999999763
No 105
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=95.83 E-value=0.032 Score=53.68 Aligned_cols=67 Identities=21% Similarity=0.228 Sum_probs=51.2
Q ss_pred ccceEEEEcCCCCCCCH------HHHHHHHhhcCceeeceEEEeecCCCC-ccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 165 EEIKSVYVRNLPPSVSE------SEIAEEFKKFGELSSEGVVIRSRKDVG-ICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~------~~L~~~F~~fG~I~~~~v~i~~~~~~~-rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
.--..|+|-|+|---.. .-|..+|+++|.+. ...+..+..+| +||.|++|.+..+|+.|++.. |..|
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~v--n~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~l 130 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIV--NMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRL 130 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhcccc--ceeeccCccCCeeeEEEEEecChhhHHHHHHhccccee
Confidence 34567889998764332 34677899999998 77776555444 999999999999999999876 6544
No 106
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=95.79 E-value=0.0011 Score=66.03 Aligned_cols=63 Identities=29% Similarity=0.402 Sum_probs=53.4
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCC--ccEEEEEeCCHHHHHHHHHhC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG--ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~--rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.+.+++||+||+..+.+.+|...|..+|.+. .++|...++++ ||+|||+|...+.+.+||...
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 66655333333 899999999999999999765
No 107
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=95.75 E-value=0.037 Score=51.04 Aligned_cols=66 Identities=18% Similarity=0.090 Sum_probs=48.8
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhh-----cCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCccC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKK-----FGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMW 233 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~-----fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~~i 233 (234)
+.--|-.++||+++++.++..||.. -|... -+++.+..++-.|=|||.|...+.|+.||...--+|
T Consensus 160 ~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~eg--vLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~i 230 (508)
T KOG1365|consen 160 NQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEG--VLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNI 230 (508)
T ss_pred cceEEEecCCCCCcchHHHHHhcCCCCcccCCccc--eEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHH
Confidence 4566778999999999999999963 23322 334444344447999999999999999998764443
No 108
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=95.03 E-value=0.015 Score=50.78 Aligned_cols=67 Identities=22% Similarity=0.374 Sum_probs=50.2
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC--------C--cc----EEEEEeCCHHHHHHHHHhC-C
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV--------G--IC----YAFVEFEDMTGVRNAVEVC-I 230 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~--------~--rG----faFVeF~~~e~a~~Al~a~-~ 230 (234)
...-||++|+|..+....|+++|..||.|- .|.+...... | ++ =|.|+|.+-..|.++.... +
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVG--RvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn 150 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVG--RVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNN 150 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccc--eEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCC
Confidence 456899999999999999999999999998 7777543322 1 11 2679999988887765543 5
Q ss_pred ccCC
Q 026738 231 LMWH 234 (234)
Q Consensus 231 ~~i~ 234 (234)
-.||
T Consensus 151 ~~Ig 154 (278)
T KOG3152|consen 151 TPIG 154 (278)
T ss_pred CccC
Confidence 5554
No 109
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=94.94 E-value=0.025 Score=51.57 Aligned_cols=65 Identities=14% Similarity=0.202 Sum_probs=45.7
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEE--eecCCCCccEEEEEeCCHHHHHHHHHhCC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVI--RSRKDVGICYAFVEFEDMTGVRNAVEVCI 230 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i--~~~~~~~rGfaFVeF~~~e~a~~Al~a~~ 230 (234)
...++|||||-|.+|+++|-+.+...|--.--.+++ .+-++.+||||+|...+..++++-++..+
T Consensus 79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP 145 (498)
T KOG4849|consen 79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILP 145 (498)
T ss_pred ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcc
Confidence 467899999999999999988877655321001111 22234459999999999888888776653
No 110
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.67 E-value=0.064 Score=48.83 Aligned_cols=61 Identities=18% Similarity=0.449 Sum_probs=45.6
Q ss_pred ceEEEEcCCCCCCCHHH----H--HHHHhhcCceeeceEEEeecCCCC---cc-E-EEEEeCCHHHHHHHHHhC
Q 026738 167 IKSVYVRNLPPSVSESE----I--AEEFKKFGELSSEGVVIRSRKDVG---IC-Y-AFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~----L--~~~F~~fG~I~~~~v~i~~~~~~~---rG-f-aFVeF~~~e~a~~Al~a~ 229 (234)
..-+||-+|+..+-.++ | .++|.+||.|. .|.|.++.... .+ + .||+|...++|.+||.+-
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 34589999999886655 3 56899999999 77775543211 33 2 399999999999999874
No 111
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=94.49 E-value=0.043 Score=55.29 Aligned_cols=63 Identities=21% Similarity=0.293 Sum_probs=54.1
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
..+.+|+++|..++....|...|..||.|. .|.+.. |.-|++|.|++...++.|+..+ +.-||
T Consensus 454 ~ttr~~sgglg~w~p~~~l~r~fd~fGpir--~Idy~h----gq~yayi~yes~~~aq~a~~~~rgap~G 517 (975)
T KOG0112|consen 454 PTTRLQSGGLGPWSPVSRLNREFDRFGPIR--IIDYRH----GQPYAYIQYESPPAAQAATHDMRGAPLG 517 (975)
T ss_pred cceeeccCCCCCCChHHHHHHHhhccCcce--eeeccc----CCcceeeecccCccchhhHHHHhcCcCC
Confidence 568899999999999999999999999998 665543 4569999999999999999877 65554
No 112
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=94.20 E-value=0.15 Score=42.85 Aligned_cols=57 Identities=21% Similarity=0.276 Sum_probs=48.9
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
...+|.|.+||...++.+|++++.+-|.+. ...+.+| |+|.|+|-..++++-||...
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 456799999999999999999999999997 6666554 58999999999999998764
No 113
>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=94.17 E-value=0.18 Score=37.08 Aligned_cols=54 Identities=19% Similarity=0.271 Sum_probs=41.3
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.+-.||. .|......||.++|+.||.|. |.+..+. -|||...+.+.+..++...
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 3456665 899999999999999999996 7777764 6999999999998877654
No 114
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=94.16 E-value=0.01 Score=59.52 Aligned_cols=69 Identities=23% Similarity=0.286 Sum_probs=55.3
Q ss_pred ccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeec-CCCCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 163 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR-KDVGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 163 ~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~-~~~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
+.....+||+|||..++++.+|+..|..||.|. .|.|... .+++--||||.|.+...+-+|+... +..|
T Consensus 368 D~~atrTLf~Gnl~~kl~eseiR~af~e~gkve--~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I 438 (975)
T KOG0112|consen 368 DFRATRTLFLGNLDSKLTESEIRPAFDESGKVE--EVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLI 438 (975)
T ss_pred chhhhhhhhhcCcccchhhhhhhhhhhhhcccc--ccccccCCCCcccchhhhhhhccccCcccchhhcCCcc
Confidence 345678999999999999999999999999999 7887665 3455679999999988777766554 4443
No 115
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=93.17 E-value=0.15 Score=49.89 Aligned_cols=55 Identities=22% Similarity=0.208 Sum_probs=46.1
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
...++||||+...+...-++.++..||.|. .+.+.. |||..|..+....+|+...
T Consensus 39 ~~~~vfv~~~~~~~s~~~~~~il~~~g~v~--s~kr~~-------fgf~~f~~~~~~~ra~r~~ 93 (668)
T KOG2253|consen 39 PRDTVFVGNISYLVSQEFWKSILAKSGFVP--SWKRDK-------FGFCEFLKHIGDLRASRLL 93 (668)
T ss_pred CCceeEecchhhhhhHHHHHHHHhhCCcch--hhhhhh-------hcccchhhHHHHHHHHHHh
Confidence 356899999999999999999999999987 332211 9999999999999988765
No 116
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=93.06 E-value=0.044 Score=54.91 Aligned_cols=61 Identities=15% Similarity=0.127 Sum_probs=51.3
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecC-CCCccEEEEEeCCHHHHHHHHHhC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRK-DVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~-~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
...+||+|+|+..|.+.|+.+|.++|.+. .+++...+ +..+|-+||.|.+...+.+++...
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~--~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~ 797 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVT--SLRLVTVRAGKPKGKARVDYNTEADASRKVASV 797 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCcc--ccchhhhhccccccceeccCCCcchhhhhcccc
Confidence 46799999999999999999999999999 66555544 344899999999999998887654
No 117
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=92.82 E-value=0.2 Score=48.10 Aligned_cols=49 Identities=29% Similarity=0.361 Sum_probs=38.4
Q ss_pred HHHHHHhhcCceeeceEEEeecCC-----CCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 183 EIAEEFKKFGELSSEGVVIRSRKD-----VGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 183 ~L~~~F~~fG~I~~~~v~i~~~~~-----~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
+++..+.+||.|. .|.|.+... .|.|.-||+|.+.+++++|..++ |-.|
T Consensus 425 dvr~ec~k~g~v~--~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF 479 (500)
T KOG0120|consen 425 DVRTECAKFGAVR--SVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKF 479 (500)
T ss_pred HHHHHhcccCcee--EEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCcee
Confidence 4566688999999 888877622 24677899999999999999998 5443
No 118
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=92.79 E-value=0.33 Score=48.09 Aligned_cols=63 Identities=22% Similarity=0.235 Sum_probs=50.5
Q ss_pred cce-EEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeec-CCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIK-SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR-KDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~-~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~-~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.++ .|-+.|+|++++-+||.+||..|-.+- +.|.|++. ++.-.|-|.|-|++.+.|.+|....
T Consensus 865 pGp~V~~~~n~Pf~v~l~dI~~FF~dY~~~p-~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl 929 (944)
T KOG4307|consen 865 PGPRVLSCNNFPFDVTLEDIVEFFNDYEPDP-NSIRIRRNDDGVPTGECMVAFESQEEARRASMDL 929 (944)
T ss_pred CCCeEEEecCCCccccHHHHHHHhcccccCC-CceeEeecCCCCcccceeEeecCHHHHHhhhhcc
Confidence 344 688899999999999999999997765 46666553 3333789999999999999997654
No 119
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=92.19 E-value=0.47 Score=44.30 Aligned_cols=62 Identities=21% Similarity=0.169 Sum_probs=52.2
Q ss_pred ceEEEEcCCCC-CCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-CccC
Q 026738 167 IKSVYVRNLPP-SVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILMW 233 (234)
Q Consensus 167 ~~~vfV~nLp~-~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~i 233 (234)
.+.|.|.||.. .+|.+-|..+|+-||.|. +|.|...+ +--|.|.|.|...|+-|+... |+.|
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVq--RVkil~nk---kd~ALIQmsd~~qAqLA~~hL~g~~l 360 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQ--RVKILYNK---KDNALIQMSDGQQAQLAMEHLEGHKL 360 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceE--EEEeeecC---CcceeeeecchhHHHHHHHHhhccee
Confidence 57788888865 589999999999999999 89988765 357999999999999998876 6554
No 120
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=91.75 E-value=0.42 Score=44.18 Aligned_cols=58 Identities=33% Similarity=0.488 Sum_probs=48.8
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHh
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 228 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a 228 (234)
..+-.+.|++|-..+.+.+|-+.++.||.|. .+..+.. +.-+.|+|+|.+.+..++..
T Consensus 29 ~~spvvhvr~l~~~v~eadl~eal~~fG~i~--yvt~~P~----~r~alvefedi~~akn~Vnf 86 (494)
T KOG1456|consen 29 NPSPVVHVRGLHQGVVEADLVEALSNFGPIA--YVTCMPH----KRQALVEFEDIEGAKNCVNF 86 (494)
T ss_pred CCCceEEEeccccccchhHHHHHHhcCCceE--EEEeccc----cceeeeeeccccchhhheeh
Confidence 3456799999999999999999999999998 6665543 34799999999999988754
No 121
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=91.72 E-value=0.24 Score=49.01 Aligned_cols=61 Identities=26% Similarity=0.294 Sum_probs=48.6
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCccC
Q 026738 169 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMW 233 (234)
Q Consensus 169 ~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~~i 233 (234)
-|-+.|||+.+...||+.||+-.- |-.+.|.|+.. .-|-+||.|.+-++|.-|+-....+|
T Consensus 4 IIRLqnLP~tAga~DIR~FFSGL~-IPdGgVHIIGG---e~GeaFI~FsTDeDARlaM~kdr~~i 64 (944)
T KOG4307|consen 4 IIRLQNLPMTAGASDIRTFFSGLK-IPDGGVHIIGG---EEGEAFIGFSTDEDARLAMTKDRLMI 64 (944)
T ss_pred EEEecCCcccccchHHHHhhcccc-cCCCceEEecc---cccceEEEecccchhhhhhhhcccce
Confidence 466789999999999999998653 33346666542 27899999999999999998877666
No 122
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=91.65 E-value=0.2 Score=46.41 Aligned_cols=60 Identities=20% Similarity=0.326 Sum_probs=47.9
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCC-----CccEEEEEeCCHHHHHHHHHh
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDV-----GICYAFVEFEDMTGVRNAVEV 228 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~-----~rGfaFVeF~~~e~a~~Al~a 228 (234)
...|-|.||...++.++++.+|...|.|. .+.|+..-+. ..-.|||-|.|...+..|-..
T Consensus 7 ~~vIqvanispsat~dqm~tlFg~lGkI~--elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhL 71 (479)
T KOG4676|consen 7 LGVIQVANISPSATKDQMQTLFGNLGKIP--ELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHL 71 (479)
T ss_pred CceeeecccCchhhHHHHHHHHhhccccc--cccccCCCCCccCcceeeeEEEeccCCcceeHHhhh
Confidence 34899999999999999999999999998 7777653221 145899999998887766544
No 123
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=91.13 E-value=0.25 Score=46.27 Aligned_cols=56 Identities=29% Similarity=0.432 Sum_probs=42.6
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+|++||...++..+|+.+|...-.-.+ +-+++. .||+||.+.+...+.+|++..
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~-g~fl~k-----~gyafvd~pdq~wa~kaie~~ 57 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGS-GQFLVK-----SGYAFVDCPDQQWANKAIETL 57 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCC-cceeee-----cceeeccCCchhhhhhhHHhh
Confidence 36899999999999999999865411111 122222 579999999999999999876
No 124
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=91.00 E-value=0.54 Score=38.01 Aligned_cols=44 Identities=20% Similarity=0.269 Sum_probs=34.8
Q ss_pred HHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCccCC
Q 026738 183 EIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 234 (234)
Q Consensus 183 ~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~~i~ 234 (234)
+|-+.|..||.+. -+++.. +.-.|+|.+..+|.+|+..+|+.|+
T Consensus 52 ~ll~~~~~~Gevv--LvRfv~------~~mwVTF~dg~sALaals~dg~~v~ 95 (146)
T PF08952_consen 52 ELLQKFAQYGEVV--LVRFVG------DTMWVTFRDGQSALAALSLDGIQVN 95 (146)
T ss_dssp HHHHHHHCCS-EC--EEEEET------TCEEEEESSCHHHHHHHHGCCSEET
T ss_pred HHHHHHHhCCceE--EEEEeC------CeEEEEECccHHHHHHHccCCcEEC
Confidence 6777788999887 555543 3578999999999999999998875
No 125
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=90.50 E-value=0.23 Score=46.05 Aligned_cols=63 Identities=21% Similarity=0.307 Sum_probs=47.2
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceee-ceEEEeec-CCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSS-EGVVIRSR-KDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~-~~v~i~~~-~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+|-+++||+..+.++|-.||+.|-.-.. -+|.+..+ .++-.|=|||.|.+.+.+..|...+
T Consensus 280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~ 344 (508)
T KOG1365|consen 280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKC 344 (508)
T ss_pred CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHH
Confidence 457889999999999999999998865331 12444333 3333699999999999998887655
No 126
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=90.07 E-value=1.5 Score=39.22 Aligned_cols=49 Identities=14% Similarity=0.238 Sum_probs=37.4
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHH
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMT 220 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e 220 (234)
.+-||++||+.++.-.+|+..+.+.|.+- ..|... + .+|-||+.|.+..
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~p---m~iswk-g-~~~k~flh~~~~~ 378 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTP---MSISWK-G-HFGKCFLHFGNRK 378 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCc---eeEeee-c-CCcceeEecCCcc
Confidence 34599999999999999999999888763 333332 1 2677899998854
No 127
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=89.95 E-value=0.2 Score=48.61 Aligned_cols=62 Identities=13% Similarity=0.125 Sum_probs=47.5
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHh-hcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-Ccc
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFK-KFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILM 232 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~-~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~ 232 (234)
.-+..|||.||-.-.|..+|+.++. .+|.|. .. |+. + -|..|||.|.+.+.|.+-+.++ ++.
T Consensus 442 ~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Ve--e~-WmD-k--IKShCyV~yss~eEA~atr~AlhnV~ 505 (718)
T KOG2416|consen 442 EPSNVLHIDNLVRPFTLGQLKELLGRTGGNVE--EF-WMD-K--IKSHCYVSYSSVEEAAATREALHNVQ 505 (718)
T ss_pred CccceEeeecccccchHHHHHHHHhhccCchH--HH-HHH-H--hhcceeEecccHHHHHHHHHHHhccc
Confidence 3467899999999999999999998 556665 33 322 2 2557899999999998888877 543
No 128
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=89.05 E-value=0.63 Score=41.85 Aligned_cols=58 Identities=19% Similarity=0.227 Sum_probs=42.3
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCccCC
Q 026738 170 VYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 234 (234)
Q Consensus 170 vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~~i~ 234 (234)
|-|-+.+..-. ..|..+|.+||.|. ..... ...+|-+|.|.+...+++||..+|.+|+
T Consensus 200 VTVfGFppg~~-s~vL~~F~~cG~Vv--khv~~----~ngNwMhirYssr~~A~KALskng~ii~ 257 (350)
T KOG4285|consen 200 VTVFGFPPGQV-SIVLNLFSRCGEVV--KHVTP----SNGNWMHIRYSSRTHAQKALSKNGTIID 257 (350)
T ss_pred EEEeccCccch-hHHHHHHHhhCeee--eeecC----CCCceEEEEecchhHHHHhhhhcCeeec
Confidence 33345555433 45678899999997 33222 1246999999999999999999998875
No 129
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=88.45 E-value=1.5 Score=40.68 Aligned_cols=60 Identities=22% Similarity=0.170 Sum_probs=50.9
Q ss_pred ccceEEEEcCCCCC-CCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 165 EEIKSVYVRNLPPS-VSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 165 ~~~~~vfV~nLp~~-vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..++-+.|-+|... ++.+.|..+|-.||.|. .|..++-+ .|-|.|++.|...+++||...
T Consensus 285 ~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~--rvkFmkTk---~gtamVemgd~~aver~v~hL 345 (494)
T KOG1456|consen 285 APGCVMMVYGLDHGKMNCDRLFNLFCLYGNVE--RVKFMKTK---PGTAMVEMGDAYAVERAVTHL 345 (494)
T ss_pred CCCcEEEEEeccccccchhhhhhhhhhcCcee--eEEEeecc---cceeEEEcCcHHHHHHHHHHh
Confidence 36888999999875 56788999999999999 88777643 689999999999999999764
No 130
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=87.39 E-value=1.5 Score=40.17 Aligned_cols=63 Identities=19% Similarity=0.277 Sum_probs=46.8
Q ss_pred cceEEEEcCCCC----CCC-------HHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC-Ccc
Q 026738 166 EIKSVYVRNLPP----SVS-------ESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC-ILM 232 (234)
Q Consensus 166 ~~~~vfV~nLp~----~vt-------~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~-~~~ 232 (234)
..++|-++||-. ..+ .++|++...+||.|. .|.|..+ ...|.+-|.|.+.+.|..||+.| |-.
T Consensus 264 ~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~--~vvv~d~--hPdGvvtV~f~n~eeA~~ciq~m~GR~ 338 (382)
T KOG1548|consen 264 ADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVR--KVVVYDR--HPDGVVTVSFRNNEEADQCIQTMDGRW 338 (382)
T ss_pred CCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcc--eEEEecc--CCCceeEEEeCChHHHHHHHHHhcCee
Confidence 457788898732 222 356777789999998 6665432 24789999999999999999998 543
No 131
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=85.43 E-value=1.7 Score=35.18 Aligned_cols=59 Identities=25% Similarity=0.412 Sum_probs=43.2
Q ss_pred cccceEEEEcCCCCCCCH-HHHH---HHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 164 EEEIKSVYVRNLPPSVSE-SEIA---EEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~-~~L~---~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
+....+|-|+=|..++.. ++|+ ..++.||.|. .|.+- ||--|.|.|.|..+|=+|+.+-
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~--SVT~c-----GrqsavVvF~d~~SAC~Av~Af 145 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQ--SVTLC-----GRQSAVVVFKDITSACKAVSAF 145 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcc--eeeec-----CCceEEEEehhhHHHHHHHHhh
Confidence 445678888877666643 3444 4568899999 66542 4668999999999999998875
No 132
>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=83.40 E-value=1.5 Score=36.38 Aligned_cols=64 Identities=19% Similarity=0.240 Sum_probs=36.4
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhh-cCceee-ceEEE-eecCCCC---ccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKK-FGELSS-EGVVI-RSRKDVG---ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~-fG~I~~-~~v~i-~~~~~~~---rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.+.+|-||+||.+++++++.+.+.. +|.... ..+.- ..+.... ..-|||.|.+.+.+..-+...
T Consensus 6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~ 75 (176)
T PF03467_consen 6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRF 75 (176)
T ss_dssp ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHC
T ss_pred cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhc
Confidence 5679999999999999988775554 554410 02221 1111111 356899999998877766554
No 133
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=82.27 E-value=0.72 Score=41.32 Aligned_cols=65 Identities=15% Similarity=-0.006 Sum_probs=52.2
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEE--eecCCCCccEEEEEeCCHHHHHHHHHhCCc
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVI--RSRKDVGICYAFVEFEDMTGVRNAVEVCIL 231 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i--~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~ 231 (234)
...+++|+|++.+.+.+.++..+|..+|.+. .... +.+....+||+.+.|...+.+..||..++.
T Consensus 86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~--~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~ 152 (285)
T KOG4210|consen 86 GSSSTFFVGELSENIEESEDDNFSSEAGLRV--DARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGS 152 (285)
T ss_pred cccccccccccccchhhccccccchhhcCcc--cchhhhhccccccccceeeccccHHHHHHHHHhhhc
Confidence 3578999999999999999999999998776 3332 233344589999999999999999988753
No 134
>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=78.79 E-value=27 Score=26.76 Aligned_cols=59 Identities=12% Similarity=-0.009 Sum_probs=40.8
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHh
Q 026738 169 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 228 (234)
Q Consensus 169 ~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a 228 (234)
.+-+...+..++.++|..+...+-.... .++|+++...++.-..+.|.+...|..-.+.
T Consensus 15 ~~~l~vp~~~~~~d~l~~f~~~~~~~i~-~~riird~~pnrymVLikF~~~~~Ad~Fy~~ 73 (110)
T PF07576_consen 15 LCCLAVPPYMTPSDFLLFFGAPFREDIE-HIRIIRDGTPNRYMVLIKFRDQESADEFYEE 73 (110)
T ss_pred EEEEEeCcccccHHHHHHhhhcccccEE-EEEEeeCCCCceEEEEEEECCHHHHHHHHHH
Confidence 3334455666666777666666655442 7888887655688899999999998876554
No 135
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=74.90 E-value=1.8 Score=39.44 Aligned_cols=60 Identities=20% Similarity=0.524 Sum_probs=43.4
Q ss_pred eEEEEcCCCCCCCHHH-HH--HHHhhcCceeeceEEEeecCC----CC-ccEEEEEeCCHHHHHHHHHhC
Q 026738 168 KSVYVRNLPPSVSESE-IA--EEFKKFGELSSEGVVIRSRKD----VG-ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~-L~--~~F~~fG~I~~~~v~i~~~~~----~~-rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.-+||-+|+..+..+. |+ ..|.+||.|. .|.+..+.. .+ .+-++|+|...+++.+||..-
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~--ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v 145 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKIN--KIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDV 145 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccce--EEeecCCcccccCCCCCCcccccccchHhhhhHHHHh
Confidence 4578888887765443 43 4688999998 777766542 11 345899999999999999875
No 136
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=73.52 E-value=11 Score=34.18 Aligned_cols=51 Identities=27% Similarity=0.311 Sum_probs=36.6
Q ss_pred HHHHHHHhhcCceeeceEEEeecCCCC---ccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 182 SEIAEEFKKFGELSSEGVVIRSRKDVG---ICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 182 ~~L~~~F~~fG~I~~~~v~i~~~~~~~---rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
.++++.+.+||.|. .|.|.-..+.. ----||+|...+++.+|+--+ |-.||
T Consensus 301 de~keEceKyg~V~--~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFG 355 (378)
T KOG1996|consen 301 DETKEECEKYGKVG--NVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFG 355 (378)
T ss_pred HHHHHHHHhhccee--eEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceec
Confidence 46778899999998 66665544332 234799999999998887655 65554
No 137
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=73.36 E-value=14 Score=36.12 Aligned_cols=58 Identities=16% Similarity=0.205 Sum_probs=43.9
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhh--cCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKK--FGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~--fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.+.|-|.++-|+.++-.++++.+|+. |-.+. .+..-... -.||+|++..+|+.|.+..
T Consensus 173 ~kRcIvilREIpettp~e~Vk~lf~~encPk~i--scefa~N~-----nWyITfesd~DAQqAykyl 232 (684)
T KOG2591|consen 173 HKRCIVILREIPETTPIEVVKALFKGENCPKVI--SCEFAHND-----NWYITFESDTDAQQAYKYL 232 (684)
T ss_pred cceeEEEEeecCCCChHHHHHHHhccCCCCCce--eeeeeecC-----ceEEEeecchhHHHHHHHH
Confidence 45677888999999999999999975 55555 34432221 3699999999999987653
No 138
>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=70.71 E-value=9.3 Score=28.11 Aligned_cols=49 Identities=24% Similarity=0.301 Sum_probs=35.5
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFED 218 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~ 218 (234)
..-+||||++..+.+.-...+....+.-. .+.+-.+.+ ..||.|-.+.+
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~G~--a~m~~~~~n-eqG~~~~t~G~ 73 (86)
T PF09707_consen 25 RPGVYVGNVSARVRERLWERVTEWIGDGS--AVMVWSDNN-EQGFDFRTLGD 73 (86)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHhhCCCcc--EEEEEccCC-CCCEEEEEeCC
Confidence 45699999999999887777777666654 444444443 68999988743
No 139
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=69.73 E-value=1 Score=41.86 Aligned_cols=62 Identities=19% Similarity=0.137 Sum_probs=50.2
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCcc
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILM 232 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~~ 232 (234)
.++++|++|...+...++.+.|..+|.+. ...+.... ..-+|.|+|....+...|+..+|..
T Consensus 151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~--ya~~ask~--~s~~c~~sf~~qts~~halr~~gre 212 (479)
T KOG4676|consen 151 RRTREVQSLISAAILPESGESFERKGEVS--YAHTASKS--RSSSCSHSFRKQTSSKHALRSHGRE 212 (479)
T ss_pred Hhhhhhhcchhhhcchhhhhhhhhcchhh--hhhhhccC--CCcchhhhHhhhhhHHHHHHhcchh
Confidence 47899999999999999999999999997 55444322 2446779999999999999888754
No 140
>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=67.55 E-value=19 Score=25.03 Aligned_cols=44 Identities=14% Similarity=0.310 Sum_probs=34.1
Q ss_pred CCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 177 PSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 177 ~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..++-.+|+..|.+|+-.. |+.++ .|| ||.|.+..+|++|....
T Consensus 10 ~~~~v~d~K~~Lr~y~~~~-----I~~d~---tGf-YIvF~~~~Ea~rC~~~~ 53 (66)
T PF11767_consen 10 HGVTVEDFKKRLRKYRWDR-----IRDDR---TGF-YIVFNDSKEAERCFRAE 53 (66)
T ss_pred CCccHHHHHHHHhcCCcce-----EEecC---CEE-EEEECChHHHHHHHHhc
Confidence 3567789999999998554 44443 333 89999999999999876
No 141
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=64.98 E-value=12 Score=28.26 Aligned_cols=50 Identities=16% Similarity=0.152 Sum_probs=34.0
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCH
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDM 219 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~ 219 (234)
..-+|||+++..+.+.--..+-+.++.-. .+.+-.++ +..||.|-.+.+.
T Consensus 27 ~~GVyVg~~S~rVRd~lW~~v~~~~~~G~--avmv~~~~-~eqG~~~~t~G~~ 76 (97)
T PRK11558 27 RAGVYVGDVSRRIREMIWQQVTQLAEEGN--VVMAWATN-TESGFEFQTFGEN 76 (97)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCCCc--EEEEEcCC-CCCCcEEEecCCC
Confidence 45699999999988876666666666544 34444443 3469999887653
No 142
>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=62.40 E-value=15 Score=28.47 Aligned_cols=45 Identities=29% Similarity=0.438 Sum_probs=26.4
Q ss_pred CHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCC-HHHHHHHHH
Q 026738 180 SESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFED-MTGVRNAVE 227 (234)
Q Consensus 180 t~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~-~e~a~~Al~ 227 (234)
+...|++.|..|..++ +.....+....|++.|+|.. ..+...|+.
T Consensus 30 ~~~~l~~~l~~f~p~k---v~~l~~~~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 30 SNEELLDKLAEFNPLK---VKPLYGKQGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp -SHHHHHHHHH---SE---EEEEEETTEEEEEEEEE--SSHHHHHHHHH
T ss_pred CHHHHHHHHHhcCCce---eEECcCCCCCcEEEEEEECCChHHHHHHHH
Confidence 4588999999999987 44444433338999999986 455555554
No 143
>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=62.32 E-value=12 Score=27.68 Aligned_cols=49 Identities=18% Similarity=0.148 Sum_probs=30.8
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhh-cCceeeceEEEeecCCCCccEEEEEeCC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKK-FGELSSEGVVIRSRKDVGICYAFVEFED 218 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~-fG~I~~~~v~i~~~~~~~rGfaFVeF~~ 218 (234)
...+|||+++..+.+.--..+-+. .+.- .+.+....++..||.|-.+.+
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~~G---~avm~~~~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 25 RAGVYVGGVSASVRERIWDYLAQHCPPKG---SLVITWSSNTCPGFEFFTLGE 74 (87)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCCCc---cEEEEEeCCCCCCcEEEecCC
Confidence 456999999998887655555444 2332 333333333457899988765
No 144
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=60.92 E-value=4.3 Score=35.70 Aligned_cols=46 Identities=17% Similarity=0.307 Sum_probs=32.6
Q ss_pred HHHHHHHh-hcCceeeceEEEeecCCC-CccEEEEEeCCHHHHHHHHHhC
Q 026738 182 SEIAEEFK-KFGELSSEGVVIRSRKDV-GICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 182 ~~L~~~F~-~fG~I~~~~v~i~~~~~~-~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
++|...|. +||.|. .+.|-...+- .+|=.+|.|...++|++|+...
T Consensus 83 Ed~f~E~~~kygEie--e~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~l 130 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIE--ELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDL 130 (260)
T ss_pred HHHHHHHHHHhhhhh--hhhhhcccchhhhhhhhhhcccHHHHHHHHHHH
Confidence 34444555 899998 6644332222 2788999999999999999764
No 145
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.85 E-value=30 Score=33.99 Aligned_cols=68 Identities=25% Similarity=0.349 Sum_probs=50.8
Q ss_pred ccceEEEEcCCCCC-CCHHHHHHHHhhc----CceeeceEEEeecC------------CC--------------------
Q 026738 165 EEIKSVYVRNLPPS-VSESEIAEEFKKF----GELSSEGVVIRSRK------------DV-------------------- 207 (234)
Q Consensus 165 ~~~~~vfV~nLp~~-vt~~~L~~~F~~f----G~I~~~~v~i~~~~------------~~-------------------- 207 (234)
..+++|-|.||.|+ +...+|.-+|..| |.|. .|.|.... |.
T Consensus 172 ~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsil--SV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee 249 (650)
T KOG2318|consen 172 EETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSIL--SVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEE 249 (650)
T ss_pred cccceeeEeccccccccHHHHHHHHHhhcCCCCcee--EEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhh
Confidence 35789999999997 7889999999877 5777 55553210 00
Q ss_pred ----------------C-ccEEEEEeCCHHHHHHHHHhC-CccCC
Q 026738 208 ----------------G-ICYAFVEFEDMTGVRNAVEVC-ILMWH 234 (234)
Q Consensus 208 ----------------~-rGfaFVeF~~~e~a~~Al~a~-~~~i~ 234 (234)
. .-||.|+|.+...|.+..+.| |+.++
T Consensus 250 ~~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfE 294 (650)
T KOG2318|consen 250 EEDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFE 294 (650)
T ss_pred hhhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceec
Confidence 1 147899999999999999888 87653
No 146
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=47.70 E-value=39 Score=23.36 Aligned_cols=14 Identities=36% Similarity=0.729 Sum_probs=12.9
Q ss_pred HHHHHHHhhcCcee
Q 026738 182 SEIAEEFKKFGELS 195 (234)
Q Consensus 182 ~~L~~~F~~fG~I~ 195 (234)
.+||++|+..|.|.
T Consensus 9 ~~iR~~fs~lG~I~ 22 (62)
T PF15513_consen 9 AEIRQFFSQLGEIA 22 (62)
T ss_pred HHHHHHHHhcCcEE
Confidence 57999999999997
No 147
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=47.29 E-value=85 Score=30.08 Aligned_cols=60 Identities=12% Similarity=0.163 Sum_probs=48.0
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCc-eeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHh
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGE-LSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 228 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~-I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a 228 (234)
++.|+|-.+|-.++-.||-.|...|-. |. .|+|++|....+-...|.|.+..+|..-.+.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~--~irivRd~~pnrymvLIkFr~q~da~~Fy~e 134 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQIS--DIRIVRDGMPNRYMVLIKFRDQADADTFYEE 134 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhh--eeEEeecCCCceEEEEEEeccchhHHHHHHH
Confidence 788999999999999999999876654 45 7888886544466688999999998876544
No 148
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=46.50 E-value=8.3 Score=36.85 Aligned_cols=56 Identities=16% Similarity=0.254 Sum_probs=38.6
Q ss_pred EEEcCCCCCC-CHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCc
Q 026738 170 VYVRNLPPSV-SESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 231 (234)
Q Consensus 170 vfV~nLp~~v-t~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~ 231 (234)
|-+.-.++.. +..+|...|.+||.|. .|.+... ---|.|+|.+..+|-+|-...+.
T Consensus 375 l~lek~~~glnt~a~ln~hfA~fG~i~--n~qv~~~----~~~a~vTF~t~aeag~a~~s~~a 431 (526)
T KOG2135|consen 375 LALEKSPFGLNTIADLNPHFAQFGEIE--NIQVDYS----SLHAVVTFKTRAEAGEAYASHGA 431 (526)
T ss_pred hhhhccCCCCchHhhhhhhhhhcCccc--cccccCc----hhhheeeeeccccccchhccccc
Confidence 3333345554 4578999999999999 7877543 22578999998888666554443
No 149
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=43.77 E-value=30 Score=33.68 Aligned_cols=21 Identities=14% Similarity=0.325 Sum_probs=18.7
Q ss_pred ccEEEEEeCCHHHHHHHHHhC
Q 026738 209 ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 209 rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.|||||-|-+.+.+.+..++.
T Consensus 431 vGYAFINm~sp~ai~~F~kAF 451 (549)
T KOG4660|consen 431 VGYAFINMTSPEAIIRFYKAF 451 (549)
T ss_pred cceeEEeecCHHHHHHHHHHH
Confidence 799999999999998887775
No 150
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.64 E-value=56 Score=30.89 Aligned_cols=56 Identities=9% Similarity=0.221 Sum_probs=42.4
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHh
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 228 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a 228 (234)
.+.|-|-++|.....++|-..|..||.--= .|+|+.|. .+|-.|.+...|..||..
T Consensus 391 pHVlEIydfp~efkteDll~~f~~yq~kgf-dIkWvDdt-----halaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 391 PHVLEIYDFPDEFKTEDLLKAFETYQNKGF-DIKWVDDT-----HALAVFSSVNRAAEALTL 446 (528)
T ss_pred cceeEeccCchhhccHHHHHHHHHhhcCCc-eeEEeecc-----eeEEeecchHHHHHHhhc
Confidence 356778888888888999999999976421 35566554 788899998888888754
No 151
>KOG3430 consensus Dynein light chain type 1 [Cytoskeleton]
Probab=41.94 E-value=38 Score=25.12 Aligned_cols=18 Identities=33% Similarity=0.563 Sum_probs=12.4
Q ss_pred HHHHHHH-hhcCceeeceEEE
Q 026738 182 SEIAEEF-KKFGELSSEGVVI 201 (234)
Q Consensus 182 ~~L~~~F-~~fG~I~~~~v~i 201 (234)
..|++.| ++||.-- .+.+
T Consensus 41 ~~iKkefDkkyG~~W--hciv 59 (90)
T KOG3430|consen 41 AFIKKEFDKKYGPTW--HCIV 59 (90)
T ss_pred HHHHHHHhhhcCCcc--EEEE
Confidence 3577777 6899876 5544
No 152
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=40.90 E-value=6.2 Score=34.21 Aligned_cols=65 Identities=28% Similarity=0.477 Sum_probs=50.2
Q ss_pred cccccceEEEEcC----CCCCCCHHHHHHHHhhcCceeeceEEEeecCC-CCccEEEEEeCCHHHHHHHHHh
Q 026738 162 EDEEEIKSVYVRN----LPPSVSESEIAEEFKKFGELSSEGVVIRSRKD-VGICYAFVEFEDMTGVRNAVEV 228 (234)
Q Consensus 162 ~~~~~~~~vfV~n----Lp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~-~~rGfaFVeF~~~e~a~~Al~a 228 (234)
..+....+++.|| |...++.+.+...|+.-|.+. .+++.++.. +.+.|+|+++......-.++..
T Consensus 75 ~~~e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~--~~R~~~~~d~rnrn~~~~~~qr~~~~P~~~~~ 144 (267)
T KOG4454|consen 75 EEDEEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIE--GVRIPTDNDGRNRNFGFVTYQRLCAVPFALDL 144 (267)
T ss_pred ccchhhcccccCCCcchhhhhcchhhheeeecccCCCC--CccccccccCCccCccchhhhhhhcCcHHhhh
Confidence 3445667888898 888999999999999999999 777765544 3488999998876666555543
No 153
>PRK11901 hypothetical protein; Reviewed
Probab=38.39 E-value=3.2e+02 Score=25.11 Aligned_cols=51 Identities=18% Similarity=0.196 Sum_probs=32.3
Q ss_pred CCCHHHHHHHHhhcCceeeceEEEeecCCCC-ccEEEE--EeCCHHHHHHHHHhCCc
Q 026738 178 SVSESEIAEEFKKFGELSSEGVVIRSRKDVG-ICYAFV--EFEDMTGVRNAVEVCIL 231 (234)
Q Consensus 178 ~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~-rGfaFV--eF~~~e~a~~Al~a~~~ 231 (234)
.-+++.|+.|..+.+ +. .+.+..-...| ..|..| .|.+.+.|++||...+-
T Consensus 253 as~~~~L~~f~~~~~-L~--~~~VYqT~RnGkpWYVVvyG~Y~Sr~eAk~Ai~sLPa 306 (327)
T PRK11901 253 ASRSDTLNAYAKKQN-LS--HYHVYETKRDGKPWYVLVSGNYASSAEAKRAIATLPA 306 (327)
T ss_pred CCCHHHHHHHHHHcC-cC--ceEEEEEEECCceEEEEEecCcCCHHHHHHHHHhCCH
Confidence 345777888877775 33 34443322234 344443 68889999999988754
No 154
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=37.66 E-value=40 Score=27.53 Aligned_cols=39 Identities=31% Similarity=0.503 Sum_probs=32.8
Q ss_pred cccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeec
Q 026738 164 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR 204 (234)
Q Consensus 164 ~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~ 204 (234)
......++++|++..+....+...|..+|.+. ...+...
T Consensus 222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~ 260 (306)
T COG0724 222 LEKSDNLYVGNLPLKTAEEELADLFKSRGDIV--RASLPPS 260 (306)
T ss_pred ccccceeeccccccccchhHHHHhccccccce--eeeccCC
Confidence 45678899999999999999999999999997 5555443
No 155
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=37.43 E-value=1.5e+02 Score=21.00 Aligned_cols=61 Identities=18% Similarity=0.182 Sum_probs=42.0
Q ss_pred EEcCCCCCCCHHHHHHHHhhc-------CceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCccC
Q 026738 171 YVRNLPPSVSESEIAEEFKKF-------GELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMW 233 (234)
Q Consensus 171 fV~nLp~~vt~~~L~~~F~~f-------G~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~~i 233 (234)
-.++||..++.++|.....+- ..|. .++-......++.||+.+=.+.+.+.++-+..|+-.
T Consensus 4 ver~~p~~it~e~l~~~~~~~~~~~~~~~~V~--w~~s~v~~d~~k~~Cly~Ap~~eaV~~~~~~aG~p~ 71 (77)
T PF14026_consen 4 VERDFPGGITAEDLAAAHAKSCAVQAEMPGVQ--WLRSYVSEDDGKIFCLYEAPDEEAVREHARRAGLPA 71 (77)
T ss_pred EEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeE--EEEEEEecCCCeEEEEEECCCHHHHHHHHHHcCCCc
Confidence 357888889999988776543 2333 333333333568899999999999998887777643
No 156
>COG0002 ArgC Acetylglutamate semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=30.66 E-value=1e+02 Score=28.54 Aligned_cols=65 Identities=18% Similarity=0.269 Sum_probs=40.0
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecC---C----CCccEEEEEeCCHH-----------------HHH
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRK---D----VGICYAFVEFEDMT-----------------GVR 223 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~---~----~~rGfaFVeF~~~e-----------------~a~ 223 (234)
.++|+. |...++.++|+++|..|=.-++ .|+|.... . .|..||.|-|...+ .+-
T Consensus 247 ~Ti~~~-l~~~~t~~~i~~~y~~~Y~~ep-fVrv~~~~~~P~~k~V~GsN~cdIgf~~d~~~~rvvvvsaIDNL~KGAAG 324 (349)
T COG0002 247 ATIYLK-LKDLVTLEELHAAYEEFYAGEP-FVRVVPEGGYPDTKAVAGSNFCDIGFAVDERTGRVVVVSAIDNLVKGAAG 324 (349)
T ss_pred EEEEEe-cCCCCCHHHHHHHHHHHhCCCC-eEEEecCCCCCChhhhcCCcceEEEEEEcCCCCEEEEEEEeccccccHHH
Confidence 445553 5556899999999976543332 66665531 1 13456666665433 455
Q ss_pred HHHHhCCccCC
Q 026738 224 NAVEVCILMWH 234 (234)
Q Consensus 224 ~Al~a~~~~i~ 234 (234)
.||+.|.+|+|
T Consensus 325 QAVQnmNim~G 335 (349)
T COG0002 325 QAVQNMNIMFG 335 (349)
T ss_pred HHHHHHHHHcC
Confidence 68888887776
No 157
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=28.65 E-value=32 Score=35.37 Aligned_cols=57 Identities=14% Similarity=0.193 Sum_probs=45.4
Q ss_pred ceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhC
Q 026738 167 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 167 ~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~ 229 (234)
..+.++-|..-..+-.-|..+|.+||.+. .++..++ -..+.|+|...+.+-.|+.+.
T Consensus 298 qp~~~~~nn~v~~tSssL~~l~s~yg~v~--s~wtlr~----~N~alvs~~s~~sai~a~dAl 354 (1007)
T KOG4574|consen 298 QPKQSLENNAVNLTSSSLATLCSDYGSVA--SAWTLRD----LNMALVSFSSVESAILALDAL 354 (1007)
T ss_pred cchhhhhcccccchHHHHHHHHHhhcchh--hheeccc----ccchhhhhHHHHHHHHhhhhh
Confidence 34566777777888899999999999998 5554443 347999999999999888876
No 158
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=28.37 E-value=1.9e+02 Score=22.13 Aligned_cols=47 Identities=15% Similarity=0.212 Sum_probs=32.1
Q ss_pred HHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCc
Q 026738 182 SEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 231 (234)
Q Consensus 182 ~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~ 231 (234)
.+|..+++.+|--. ..|-.+..++.-||++++.|.+..-++|...++
T Consensus 27 PE~~a~lk~agi~n---YSIfLde~~n~lFgy~E~~d~~a~m~~~a~~ev 73 (105)
T COG3254 27 PELLALLKEAGIRN---YSIFLDEEENLLFGYWEYEDFEADMAKMAETEV 73 (105)
T ss_pred HHHHHHHHHcCCce---eEEEecCCcccEEEEEEEcChHHHHHHHhCCHH
Confidence 45777888888653 444444444567999999987777777766543
No 159
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=25.35 E-value=74 Score=22.09 Aligned_cols=32 Identities=22% Similarity=0.359 Sum_probs=22.9
Q ss_pred HHHHHHHHhhcCceeeceEEEeecCCCCccEEEE
Q 026738 181 ESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFV 214 (234)
Q Consensus 181 ~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFV 214 (234)
+.+|++.|-+--.|. .+.|.-++.-++|-|||
T Consensus 32 e~eler~fl~~P~v~--e~~l~EKKri~~G~gyV 63 (64)
T PF13046_consen 32 EVELERHFLPLPEVK--EVALYEKKRIRKGAGYV 63 (64)
T ss_pred HHHhhhhccCCCCce--EEEEEEEEeeeCCceeE
Confidence 456778887777787 77776665555777887
No 160
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=25.15 E-value=2.7e+02 Score=20.21 Aligned_cols=61 Identities=10% Similarity=0.048 Sum_probs=39.8
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCc
Q 026738 170 VYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 231 (234)
Q Consensus 170 vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~ 231 (234)
-|+-.+..+++..++++.++.+-.+.-..|...... .+.-=|||.|.....|.......|+
T Consensus 23 ~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~-~~~KKA~V~L~~g~~A~~va~kig~ 83 (84)
T PRK14548 23 KLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP-KGEKKAYVKLAEEYDAEEIASRLGV 83 (84)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC-CCcEEEEEEeCCCCcHHHHHHhhcc
Confidence 344447889999999999987544442244443332 1323599999998888776555454
No 161
>TIGR01033 DNA-binding regulatory protein, YebC/PmpR family. This model describes a minimally characterized protein family, restricted to bacteria excepting for some eukaryotic sequences that have possible transit peptides. YebC from E. coli is crystallized, and PA0964 from Pseudomonas aeruginosa has been shown to be a sequence-specific DNA-binding regulatory protein.
Probab=25.00 E-value=2.3e+02 Score=24.61 Aligned_cols=48 Identities=19% Similarity=0.169 Sum_probs=32.8
Q ss_pred ccceEEEEcCCCCCC--CHHHHHHHHhhcCcee--eceEEEeecCCCCccEEEEEeC
Q 026738 165 EEIKSVYVRNLPPSV--SESEIAEEFKKFGELS--SEGVVIRSRKDVGICYAFVEFE 217 (234)
Q Consensus 165 ~~~~~vfV~nLp~~v--t~~~L~~~F~~fG~I~--~~~v~i~~~~~~~rGfaFVeF~ 217 (234)
..+..|.|-.|..+. +..+|+.+|+++|.-. .+.+..++++ .|.|.|.
T Consensus 92 P~GvaiiVe~lTDN~nRt~~~ir~~f~K~gg~l~~~gsv~~~Fe~-----kG~i~~~ 143 (238)
T TIGR01033 92 PGGVAIIVECLTDNKNRTASEVRSAFNKNGGSLGEPGSVSYLFSR-----KGVIEVP 143 (238)
T ss_pred CCceEEEEEEecCCHHhHHHHHHHHHHHcCCeeCCCCceeeeeec-----ceEEEEC
Confidence 467788888887776 4578999999987632 1245555553 4677774
No 162
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=23.90 E-value=1.1e+02 Score=27.64 Aligned_cols=22 Identities=36% Similarity=0.605 Sum_probs=18.1
Q ss_pred CCHHHHHHHHhhcCceeeceEEEe
Q 026738 179 VSESEIAEEFKKFGELSSEGVVIR 202 (234)
Q Consensus 179 vt~~~L~~~F~~fG~I~~~~v~i~ 202 (234)
-++.-|+..|..||.|. .|.|.
T Consensus 173 pse~rlr~a~eafg~ir--~vdip 194 (445)
T KOG2891|consen 173 PSEDRLRKAFEAFGEIR--NVDIP 194 (445)
T ss_pred ChHHHHHHHHHHhccce--ecCCc
Confidence 46788999999999998 66653
No 163
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=23.84 E-value=83 Score=26.53 Aligned_cols=57 Identities=12% Similarity=0.149 Sum_probs=37.1
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHhhc-CceeeceEEEeecCCC--C-ccEEEEEeCCHHHHHHHHHhC
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFKKF-GELSSEGVVIRSRKDV--G-ICYAFVEFEDMTGVRNAVEVC 229 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~~f-G~I~~~~v~i~~~~~~--~-rGfaFVeF~~~e~a~~Al~a~ 229 (234)
.-+++|.+ .+++.|..+...- |.+. .+.++..... + +|--||.|...+.+.++++..
T Consensus 110 ~~r~v~~K-----~td~ql~~l~qw~~~k~~--nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~~~ 170 (205)
T KOG4213|consen 110 KERTVYKK-----ITDDQLDDLNQWASGKGH--NVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDDTH 170 (205)
T ss_pred HHhhhhcc-----CCHHHHHHHHHHhcccce--EeeccccCCCCCCCCCceEEEeecHHHHHhhhhhh
Confidence 34567766 5666666654322 5666 5655544333 2 688899999999998877654
No 164
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=23.46 E-value=1.2e+02 Score=27.43 Aligned_cols=58 Identities=19% Similarity=0.268 Sum_probs=43.4
Q ss_pred ccccceEEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCC---------CCccEEEEEeCCHHHH
Q 026738 163 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD---------VGICYAFVEFEDMTGV 222 (234)
Q Consensus 163 ~~~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~---------~~rGfaFVeF~~~e~a 222 (234)
+.-..|+|...||...++--.+-..|-+||.|. .|.+..+.+ +..+...+.|-+.+.+
T Consensus 11 D~YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIE--SiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~C 77 (309)
T PF10567_consen 11 DEYRTRSLLFENVNNSIDLHSFLTKFVKFGPIE--SIYLIKSNDKPSDDYNDDKNNQSILLSFLSREIC 77 (309)
T ss_pred ccceeHHHHHhhccccccHHHHHHHhhccCcee--EEEEecCCCcccccccccccceEEEEeeechHHH
Confidence 334567899999999998888888899999999 788776541 1145667788776543
No 165
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=23.25 E-value=1.2e+02 Score=19.06 Aligned_cols=28 Identities=21% Similarity=0.255 Sum_probs=22.3
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhcCcee
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKFGELS 195 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~fG~I~ 195 (234)
..+|+.+.....+..+|++++..+|.-.
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~v 29 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGKV 29 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCEE
Confidence 5677877766788899999999988744
No 166
>PHA01782 hypothetical protein
Probab=22.17 E-value=70 Score=26.44 Aligned_cols=22 Identities=27% Similarity=0.528 Sum_probs=19.6
Q ss_pred CCCCCCCHHHHHHHHhhcCcee
Q 026738 174 NLPPSVSESEIAEEFKKFGELS 195 (234)
Q Consensus 174 nLp~~vt~~~L~~~F~~fG~I~ 195 (234)
-+|......-|.++|..||.|.
T Consensus 62 aMPKGsRrnAL~~wlv~~Gkv~ 83 (177)
T PHA01782 62 AMPKGSRRNALAEWLVKFGKVQ 83 (177)
T ss_pred HccccchhhHHHHHHHHhCCcc
Confidence 4788888899999999999987
No 167
>PLN03058 dynein light chain type 1 family protein; Provisional
Probab=21.89 E-value=1.6e+02 Score=23.26 Aligned_cols=18 Identities=17% Similarity=0.432 Sum_probs=13.2
Q ss_pred HHHHHHH-hhcCceeeceEEE
Q 026738 182 SEIAEEF-KKFGELSSEGVVI 201 (234)
Q Consensus 182 ~~L~~~F-~~fG~I~~~~v~i 201 (234)
..|++.| ++||..- .|.|
T Consensus 73 ~~IKk~fDkkYG~tW--HCIV 91 (128)
T PLN03058 73 LALKKEFDSAYGPAW--HCIV 91 (128)
T ss_pred HHHHHHHhhhhCCce--EEEE
Confidence 4677888 5899987 5655
No 168
>PRK00110 hypothetical protein; Validated
Probab=21.74 E-value=2.9e+02 Score=24.22 Aligned_cols=48 Identities=17% Similarity=0.167 Sum_probs=32.8
Q ss_pred ccceEEEEcCCCCCC--CHHHHHHHHhhcCcee--eceEEEeecCCCCccEEEEEeC
Q 026738 165 EEIKSVYVRNLPPSV--SESEIAEEFKKFGELS--SEGVVIRSRKDVGICYAFVEFE 217 (234)
Q Consensus 165 ~~~~~vfV~nLp~~v--t~~~L~~~F~~fG~I~--~~~v~i~~~~~~~rGfaFVeF~ 217 (234)
..|..|.|-.|..+. +..+||.+|.++|.-. ++.+..++++ .|.|.|.
T Consensus 92 P~GvaiiVe~lTDN~nRt~~~vR~~f~K~gG~l~~~Gsv~~~Fe~-----kG~i~~~ 143 (245)
T PRK00110 92 PGGVAIIVEALTDNRNRTAAEVRHAFSKNGGNLGETGSVSYMFDR-----KGVIVIE 143 (245)
T ss_pred CCCeEEEEEEecCCHHHHHHHHHHHHHhcCceeCCCcceEEEecc-----ceEEEeC
Confidence 457778888887775 4579999999986532 2346666654 4667775
No 169
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=21.68 E-value=64 Score=28.31 Aligned_cols=31 Identities=16% Similarity=0.375 Sum_probs=27.5
Q ss_pred ccceEEEEcCCCCCCCHHHHHHHHhhcCcee
Q 026738 165 EEIKSVYVRNLPPSVSESEIAEEFKKFGELS 195 (234)
Q Consensus 165 ~~~~~vfV~nLp~~vt~~~L~~~F~~fG~I~ 195 (234)
....++|+-|+|...+++.|+++.+++|-+.
T Consensus 38 ~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq 68 (261)
T KOG4008|consen 38 NEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQ 68 (261)
T ss_pred ccccceeeecccccccHHHHHHHHHHhhhhh
Confidence 3567899999999999999999999998665
No 170
>PF05189 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC), insert domain; InterPro: IPR013796 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea. RNA 3'-terminal phosphate cyclase (6.5.1.4 from EC) [, ] catalyses the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate These enzymes might be responsible for production of the cyclic phosphate RNA ends that are known to be required by many RNA ligases in both prokaryotes and eukaryotes. RNA cyclase is a protein of from 36 to 42 kDa. The best conserved region is a glycine-rich stretch of residues located in the central part of the sequence and which is reminiscent of various ATP, GTP or AMP glycine-rich loops. The crystal structure of RNA 3'-terminal phosphate cyclase shows that each molecule consists of two domains. The larger domain contains three repeats of a folding unit comprising two parallel alpha helices and a four-stranded beta sheet; this fold was previously identified in translation initiation factor 3 (IF3). The large domain is similar to one of the two domains of 5-enolpyruvylshikimate-3-phosphate synthase and UDP-N-acetylglucosamine enolpyruvyl transferase. The smaller domain uses a similar secondary structure element with different topology, observed in many other proteins such as thioredoxin []. Although the active site of this enzyme could not be unambiguously assigned, it can be mapped to a region surrounding His309, an adenylate acceptor, in which a number of amino acids are highly conserved in the enzyme from different sources []. This entry contains the insert-domain of approximately 100 amino acids.; PDB: 3TV1_B 3KGD_D 1QMI_D 1QMH_B 3TUX_A 3TUT_A 3TW3_A 3PQV_A.
Probab=21.50 E-value=1.5e+02 Score=21.89 Aligned_cols=46 Identities=17% Similarity=0.221 Sum_probs=25.3
Q ss_pred EEEEcCCCCCCCHHHHH---HHHhhcCceeeceEEE----eecCCCCccEEEEEe
Q 026738 169 SVYVRNLPPSVSESEIA---EEFKKFGELSSEGVVI----RSRKDVGICYAFVEF 216 (234)
Q Consensus 169 ~vfV~nLp~~vt~~~L~---~~F~~fG~I~~~~v~i----~~~~~~~rGfaFVeF 216 (234)
..|+.|||.++-+.++. ..|..++.-. .|.+ ..+...+.|++.+.+
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~~v--~i~~d~~~~~~~~~~~G~gi~l~ 64 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGPDV--EIETDYRESDDSAFGPGSGISLV 64 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCSEE--EEEEEEE-CCCCGCSSEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCCCe--EEEEecccCccCCCCCceEEEEE
Confidence 45889999999887654 4455555322 3433 123334467665443
No 171
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=20.70 E-value=3.2e+02 Score=19.45 Aligned_cols=62 Identities=11% Similarity=0.074 Sum_probs=39.7
Q ss_pred EEEEcCCCCCCCHHHHHHHHhhcCceeeceEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCc
Q 026738 169 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 231 (234)
Q Consensus 169 ~vfV~nLp~~vt~~~L~~~F~~fG~I~~~~v~i~~~~~~~rGfaFVeF~~~e~a~~Al~a~~~ 231 (234)
+-|+-.++.+++..++++.++.+-.+.-..|.....+. +.-=|||.+..-..|...-...|+
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~-~~KKA~VtL~~g~~a~~va~k~g~ 76 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPR-GEKKAYVKLAEEYAAEEIASRLGV 76 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCC-CceEEEEEECCCCcHHHHHHhhcc
Confidence 34555688999999999999875444422444333321 223489999887777765444444
No 172
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=20.53 E-value=1.1e+02 Score=26.52 Aligned_cols=30 Identities=23% Similarity=0.422 Sum_probs=24.6
Q ss_pred cceEEEEcCCCCCCCHHHHHHHHh--hcCcee
Q 026738 166 EIKSVYVRNLPPSVSESEIAEEFK--KFGELS 195 (234)
Q Consensus 166 ~~~~vfV~nLp~~vt~~~L~~~F~--~fG~I~ 195 (234)
...-++|+|||+.++..-|.+++. .||...
T Consensus 96 ~~~~~vv~NlPy~is~~il~~ll~~~~~g~~~ 127 (262)
T PF00398_consen 96 NQPLLVVGNLPYNISSPILRKLLELYRFGRVR 127 (262)
T ss_dssp SSEEEEEEEETGTGHHHHHHHHHHHGGGCEEE
T ss_pred CCceEEEEEecccchHHHHHHHhhcccccccc
Confidence 467789999999999999988886 566655
No 173
>COG5353 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.37 E-value=4.3e+02 Score=21.62 Aligned_cols=53 Identities=21% Similarity=0.379 Sum_probs=38.9
Q ss_pred eEEEEcCCCCCCCHHHHHHHHhhc---CceeeceEEEeecCC-----------CCcc-EEEEEeCCHHHH
Q 026738 168 KSVYVRNLPPSVSESEIAEEFKKF---GELSSEGVVIRSRKD-----------VGIC-YAFVEFEDMTGV 222 (234)
Q Consensus 168 ~~vfV~nLp~~vt~~~L~~~F~~f---G~I~~~~v~i~~~~~-----------~~rG-faFVeF~~~e~a 222 (234)
.+||++-++..+++++-+..-++= +.+. .|.+-+.++ .||+ |-+|.|++-...
T Consensus 88 ~KI~~k~asqGISe~~a~~~i~kE~~~~e~~--~V~Lg~e~~~PiWEV~y~dkeg~~s~~~vdFetG~~l 155 (161)
T COG5353 88 GKIYSKKASQGISEEDARAIISKEKAVKEIK--SVTLGREKEKPIWEVTYLDKEGRLSFYYVDFETGKEL 155 (161)
T ss_pred CeEEEEehhcCCCHHHHHHHHhhhcccccee--EEEEEeeCCceeEEEeecCccCcceEEEEEeccchhh
Confidence 789999999999999988887654 5555 565554433 2355 899999986544
Done!