Query 029987
Match_columns 184
No_of_seqs 214 out of 1634
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 06:45:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029987.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029987hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0533 RRM motif-containing p 99.9 3.4E-23 7.3E-28 166.1 13.3 155 1-175 1-158 (243)
2 PLN03134 glycine-rich RNA-bind 99.8 1.6E-18 3.5E-23 130.0 11.0 79 96-176 32-111 (144)
3 PF00076 RRM_1: RNA recognitio 99.7 8E-17 1.7E-21 105.0 9.0 69 101-171 1-69 (70)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 1.2E-16 2.6E-21 135.0 11.3 77 97-175 268-345 (352)
5 TIGR01659 sex-lethal sex-letha 99.7 1.8E-16 3.9E-21 134.4 10.8 81 93-175 102-183 (346)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 1.7E-16 3.7E-21 134.0 10.5 76 97-174 2-78 (352)
7 TIGR01622 SF-CC1 splicing fact 99.7 2.1E-15 4.6E-20 131.8 14.1 78 95-175 86-164 (457)
8 KOG0121 Nuclear cap-binding pr 99.6 4.3E-16 9.2E-21 112.5 7.1 79 95-175 33-112 (153)
9 PF14259 RRM_6: RNA recognitio 99.6 3.4E-15 7.4E-20 97.9 9.5 70 101-172 1-70 (70)
10 KOG0122 Translation initiation 99.6 4E-15 8.6E-20 117.9 8.5 76 97-174 188-264 (270)
11 KOG0113 U1 small nuclear ribon 99.6 4.5E-15 9.8E-20 120.5 9.0 84 96-181 99-187 (335)
12 TIGR01659 sex-lethal sex-letha 99.6 8E-15 1.7E-19 124.4 10.6 77 96-174 191-270 (346)
13 KOG4207 Predicted splicing fac 99.6 3.3E-15 7.1E-20 116.0 7.3 83 92-176 7-90 (256)
14 KOG0107 Alternative splicing f 99.6 5.4E-15 1.2E-19 112.0 7.4 74 97-176 9-82 (195)
15 KOG0125 Ataxin 2-binding prote 99.6 9E-15 2E-19 120.1 8.8 80 95-177 93-172 (376)
16 KOG0126 Predicted RNA-binding 99.6 4.4E-16 9.6E-21 118.6 1.1 80 97-178 34-114 (219)
17 TIGR01645 half-pint poly-U bin 99.6 9.2E-15 2E-19 131.0 9.6 80 95-176 104-184 (612)
18 PLN03120 nucleic acid binding 99.6 1.9E-14 4.1E-19 116.3 9.7 75 98-177 4-78 (260)
19 KOG0149 Predicted RNA-binding 99.6 7.8E-15 1.7E-19 115.7 6.8 66 94-161 8-74 (247)
20 smart00362 RRM_2 RNA recogniti 99.5 6.3E-14 1.4E-18 90.3 9.7 71 100-173 1-71 (72)
21 KOG0130 RNA-binding protein RB 99.5 1.1E-14 2.5E-19 106.1 6.0 81 92-174 66-147 (170)
22 PLN03121 nucleic acid binding 99.5 5.1E-14 1.1E-18 112.4 9.7 74 97-175 4-77 (243)
23 TIGR01648 hnRNP-R-Q heterogene 99.5 4E-14 8.6E-19 126.6 10.1 76 96-173 56-132 (578)
24 TIGR01645 half-pint poly-U bin 99.5 4.7E-14 1E-18 126.5 10.4 78 97-176 203-281 (612)
25 TIGR01642 U2AF_lg U2 snRNP aux 99.5 7.2E-14 1.5E-18 123.6 11.6 77 97-175 294-371 (509)
26 TIGR01622 SF-CC1 splicing fact 99.5 6.8E-14 1.5E-18 122.3 10.7 77 97-175 185-262 (457)
27 KOG0145 RNA-binding protein EL 99.5 4.7E-14 1E-18 113.0 8.3 80 94-175 37-117 (360)
28 TIGR01628 PABP-1234 polyadenyl 99.5 9.4E-14 2E-18 124.6 10.7 73 100-174 2-75 (562)
29 KOG0114 Predicted RNA-binding 99.5 1.1E-13 2.4E-18 96.7 8.1 77 94-174 14-90 (124)
30 PLN03213 repressor of silencin 99.5 7.5E-14 1.6E-18 120.1 8.8 79 97-180 9-89 (759)
31 TIGR01628 PABP-1234 polyadenyl 99.5 1.2E-13 2.7E-18 123.8 10.4 79 95-175 282-360 (562)
32 KOG0117 Heterogeneous nuclear 99.5 9.2E-14 2E-18 118.1 8.8 80 96-177 81-162 (506)
33 COG0724 RNA-binding proteins ( 99.5 1.7E-13 3.6E-18 109.0 9.8 77 98-176 115-192 (306)
34 smart00360 RRM RNA recognition 99.5 3E-13 6.5E-18 86.6 8.7 69 103-173 1-70 (71)
35 KOG4212 RNA-binding protein hn 99.4 6.6E-13 1.4E-17 112.9 10.3 77 97-175 43-120 (608)
36 cd00590 RRM RRM (RNA recogniti 99.4 1.7E-12 3.6E-17 83.9 10.0 73 100-174 1-73 (74)
37 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.4 2.7E-12 5.9E-17 113.4 10.9 75 95-175 272-347 (481)
38 KOG0131 Splicing factor 3b, su 99.4 6.4E-13 1.4E-17 101.4 5.8 80 96-177 7-87 (203)
39 KOG0108 mRNA cleavage and poly 99.4 1.2E-12 2.6E-17 113.3 7.8 77 99-177 19-96 (435)
40 TIGR01648 hnRNP-R-Q heterogene 99.4 3.7E-12 8E-17 114.0 10.0 69 97-174 232-302 (578)
41 KOG0148 Apoptosis-promoting RN 99.4 4.6E-12 1E-16 102.0 9.4 72 94-172 160-231 (321)
42 KOG0127 Nucleolar protein fibr 99.3 3.7E-12 8.1E-17 110.7 9.2 80 96-177 290-376 (678)
43 KOG0148 Apoptosis-promoting RN 99.3 2.8E-12 6.1E-17 103.2 7.1 73 100-174 64-137 (321)
44 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.3 6.6E-12 1.4E-16 111.0 9.7 71 97-174 1-73 (481)
45 KOG0124 Polypyrimidine tract-b 99.3 1.5E-12 3.2E-17 108.7 5.0 82 96-179 111-193 (544)
46 KOG0127 Nucleolar protein fibr 99.3 4.9E-12 1.1E-16 110.0 8.2 79 97-177 116-194 (678)
47 smart00361 RRM_1 RNA recogniti 99.3 1.5E-11 3.3E-16 81.1 8.4 60 112-173 2-69 (70)
48 KOG0144 RNA-binding protein CU 99.3 5.4E-12 1.2E-16 107.1 7.7 77 96-174 32-112 (510)
49 KOG0105 Alternative splicing f 99.3 5.2E-12 1.1E-16 96.8 6.6 77 97-177 5-81 (241)
50 KOG0147 Transcriptional coacti 99.3 4.1E-12 8.8E-17 110.4 5.3 76 100-177 280-356 (549)
51 KOG0132 RNA polymerase II C-te 99.3 8E-11 1.7E-15 105.9 12.5 70 98-174 421-490 (894)
52 KOG0117 Heterogeneous nuclear 99.2 1.7E-11 3.6E-16 104.5 7.3 88 78-174 236-326 (506)
53 KOG0144 RNA-binding protein CU 99.2 6E-12 1.3E-16 106.8 4.5 75 98-174 124-201 (510)
54 KOG0109 RNA-binding protein LA 99.2 1.1E-11 2.4E-16 100.7 5.5 68 99-175 3-70 (346)
55 KOG0111 Cyclophilin-type pepti 99.2 5.9E-12 1.3E-16 98.9 3.8 76 97-174 9-85 (298)
56 KOG0145 RNA-binding protein EL 99.2 6.9E-11 1.5E-15 95.0 9.4 80 94-175 274-354 (360)
57 KOG0123 Polyadenylate-binding 99.2 4.5E-11 9.7E-16 102.3 8.3 73 101-177 79-151 (369)
58 TIGR01642 U2AF_lg U2 snRNP aux 99.2 8.4E-11 1.8E-15 104.1 9.3 70 98-175 175-256 (509)
59 KOG0415 Predicted peptidyl pro 99.2 6E-11 1.3E-15 98.8 6.6 81 94-176 235-316 (479)
60 PF13893 RRM_5: RNA recognitio 99.1 2.8E-10 6.1E-15 71.5 7.3 54 115-174 1-54 (56)
61 KOG0109 RNA-binding protein LA 99.1 1.2E-10 2.5E-15 94.8 4.8 71 95-174 75-145 (346)
62 KOG0146 RNA-binding protein ET 99.0 2.6E-10 5.5E-15 92.0 5.2 79 94-174 281-360 (371)
63 KOG4206 Spliceosomal protein s 99.0 1.2E-09 2.7E-14 86.0 7.8 75 96-174 7-85 (221)
64 KOG0131 Splicing factor 3b, su 99.0 6.9E-10 1.5E-14 84.9 5.4 80 93-174 91-172 (203)
65 KOG4208 Nucleolar RNA-binding 99.0 1.9E-09 4.2E-14 83.9 7.4 76 96-173 47-124 (214)
66 KOG4212 RNA-binding protein hn 99.0 1.5E-09 3.2E-14 92.7 6.9 76 93-174 531-606 (608)
67 KOG0110 RNA-binding protein (R 98.9 4.9E-09 1.1E-13 93.8 7.6 79 97-177 514-596 (725)
68 KOG0146 RNA-binding protein ET 98.9 2.9E-09 6.3E-14 86.0 4.9 68 97-166 18-85 (371)
69 KOG0123 Polyadenylate-binding 98.9 4.2E-09 9.2E-14 90.2 6.2 79 95-175 267-345 (369)
70 KOG0110 RNA-binding protein (R 98.8 2.3E-09 5E-14 95.9 4.3 76 97-174 612-688 (725)
71 KOG0124 Polypyrimidine tract-b 98.8 1.3E-08 2.9E-13 85.4 7.4 77 98-176 210-287 (544)
72 KOG0153 Predicted RNA-binding 98.8 1.9E-08 4E-13 83.8 7.6 76 93-174 223-298 (377)
73 KOG1548 Transcription elongati 98.8 2.6E-08 5.6E-13 82.9 8.4 80 95-176 131-218 (382)
74 KOG4205 RNA-binding protein mu 98.8 7.4E-09 1.6E-13 86.5 4.8 59 97-155 5-64 (311)
75 KOG4209 Splicing factor RNPS1, 98.7 1.4E-08 3.1E-13 81.7 5.5 79 94-175 97-176 (231)
76 KOG0106 Alternative splicing f 98.7 1E-08 2.2E-13 81.2 4.4 70 99-177 2-71 (216)
77 KOG4661 Hsp27-ERE-TATA-binding 98.7 2.8E-08 6E-13 87.5 7.1 79 97-177 404-483 (940)
78 KOG0151 Predicted splicing reg 98.7 5.1E-08 1.1E-12 87.5 6.9 78 94-173 170-251 (877)
79 KOG0116 RasGAP SH3 binding pro 98.7 5.8E-08 1.3E-12 84.0 6.9 75 97-174 287-362 (419)
80 KOG4454 RNA binding protein (R 98.7 1.3E-08 2.7E-13 80.2 2.5 77 96-175 7-83 (267)
81 KOG0105 Alternative splicing f 98.6 4.2E-07 9E-12 70.1 9.9 61 98-166 115-175 (241)
82 KOG4660 Protein Mei2, essentia 98.6 3.3E-08 7.1E-13 86.5 4.1 70 97-172 74-143 (549)
83 KOG0226 RNA-binding proteins [ 98.6 9.4E-08 2E-12 76.7 5.5 79 96-176 188-267 (290)
84 KOG4205 RNA-binding protein mu 98.6 9E-08 1.9E-12 80.0 5.6 75 97-174 96-171 (311)
85 PF04059 RRM_2: RNA recognitio 98.6 4.8E-07 1E-11 63.3 8.3 67 99-167 2-71 (97)
86 KOG1995 Conserved Zn-finger pr 98.5 4.2E-07 9.1E-12 76.1 8.5 84 95-180 63-155 (351)
87 KOG0147 Transcriptional coacti 98.4 1.4E-07 2.9E-12 82.6 2.8 77 98-177 179-256 (549)
88 KOG1457 RNA binding protein (c 98.4 1.7E-06 3.6E-11 68.6 7.4 67 98-166 34-102 (284)
89 KOG4211 Splicing factor hnRNP- 98.3 2E-06 4.3E-11 74.7 7.5 73 96-174 8-81 (510)
90 KOG4211 Splicing factor hnRNP- 98.3 3E-06 6.4E-11 73.6 7.8 76 96-174 101-177 (510)
91 KOG0120 Splicing factor U2AF, 98.3 9.7E-07 2.1E-11 77.7 4.7 78 97-176 288-366 (500)
92 KOG4307 RNA binding protein RB 98.2 3E-05 6.5E-10 70.1 11.6 75 98-174 867-942 (944)
93 KOG0106 Alternative splicing f 98.1 1.6E-06 3.4E-11 68.8 3.0 69 96-173 97-165 (216)
94 KOG1457 RNA binding protein (c 98.1 2.9E-06 6.4E-11 67.2 4.5 66 96-166 208-273 (284)
95 PF08777 RRM_3: RNA binding mo 98.1 8.8E-06 1.9E-10 57.8 6.2 58 98-162 1-58 (105)
96 PF11608 Limkain-b1: Limkain b 98.0 3E-05 6.6E-10 52.5 7.4 67 99-176 3-74 (90)
97 KOG1190 Polypyrimidine tract-b 98.0 3.8E-05 8.1E-10 65.7 8.1 75 98-178 297-372 (492)
98 KOG2314 Translation initiation 97.8 0.00014 2.9E-09 64.5 8.7 72 96-169 56-133 (698)
99 COG5175 MOT2 Transcriptional r 97.7 6.9E-05 1.5E-09 62.8 6.2 79 98-179 114-205 (480)
100 KOG1456 Heterogeneous nuclear 97.7 0.00013 2.8E-09 61.8 7.8 69 96-169 29-97 (494)
101 KOG4210 Nuclear localization s 97.6 3.2E-05 6.8E-10 64.3 2.7 72 100-174 186-259 (285)
102 KOG4849 mRNA cleavage factor I 97.6 4.1E-05 8.9E-10 64.3 3.2 69 100-170 82-153 (498)
103 KOG4206 Spliceosomal protein s 97.6 0.00033 7.2E-09 55.6 7.8 74 94-173 142-216 (221)
104 KOG1365 RNA-binding protein Fu 97.6 9.2E-05 2E-09 62.9 5.0 74 98-173 280-356 (508)
105 KOG4676 Splicing factor, argin 97.6 0.00014 3.1E-09 61.9 5.7 75 99-176 8-86 (479)
106 PF14605 Nup35_RRM_2: Nup53/35 97.5 0.00031 6.7E-09 43.6 5.4 51 99-155 2-52 (53)
107 KOG1456 Heterogeneous nuclear 97.4 0.0057 1.2E-07 52.2 13.3 80 91-176 280-360 (494)
108 KOG3152 TBP-binding protein, a 97.4 0.00016 3.4E-09 58.4 3.5 70 99-170 75-157 (278)
109 KOG1548 Transcription elongati 97.3 0.0014 2.9E-08 55.2 8.6 72 96-172 263-345 (382)
110 KOG0129 Predicted RNA-binding 97.3 0.00071 1.5E-08 59.4 7.3 81 91-174 363-449 (520)
111 PF07078 FYTT: Forty-two-three 97.2 0.00016 3.5E-09 59.5 1.3 17 3-19 27-43 (316)
112 KOG0128 RNA-binding protein SA 97.1 0.00018 3.8E-09 66.4 1.4 70 98-169 736-805 (881)
113 KOG1855 Predicted RNA-binding 97.1 0.00053 1.2E-08 59.0 4.2 64 97-162 230-307 (484)
114 KOG0120 Splicing factor U2AF, 97.1 0.0016 3.5E-08 57.7 6.6 59 114-174 425-487 (500)
115 KOG0129 Predicted RNA-binding 96.9 0.0022 4.7E-08 56.4 6.2 59 96-155 257-322 (520)
116 KOG1365 RNA-binding protein Fu 96.8 0.0039 8.5E-08 53.3 6.8 59 100-160 163-225 (508)
117 KOG0128 RNA-binding protein SA 96.8 7.8E-05 1.7E-09 68.7 -3.6 75 98-174 667-742 (881)
118 PF08675 RNA_bind: RNA binding 96.8 0.009 1.9E-07 40.5 7.0 53 100-162 11-63 (87)
119 KOG0115 RNA-binding protein p5 96.8 0.0016 3.5E-08 52.7 3.8 76 99-176 32-111 (275)
120 KOG1190 Polypyrimidine tract-b 96.7 0.0041 9E-08 53.5 6.0 68 95-167 411-478 (492)
121 KOG4307 RNA binding protein RB 96.7 0.0016 3.4E-08 59.3 3.5 80 96-177 432-512 (944)
122 PF08952 DUF1866: Domain of un 96.5 0.018 3.8E-07 43.2 7.6 58 114-181 52-109 (146)
123 PF10309 DUF2414: Protein of u 96.4 0.025 5.5E-07 36.2 7.1 54 98-161 5-62 (62)
124 PF15023 DUF4523: Protein of u 96.3 0.013 2.8E-07 43.8 6.0 75 93-182 81-159 (166)
125 PF03467 Smg4_UPF3: Smg-4/UPF3 96.2 0.011 2.4E-07 45.8 5.2 68 97-166 6-80 (176)
126 KOG2193 IGF-II mRNA-binding pr 96.1 0.0086 1.9E-07 51.8 4.5 71 99-177 2-74 (584)
127 KOG2416 Acinus (induces apopto 96.0 0.0071 1.5E-07 54.3 3.7 74 94-174 440-517 (718)
128 PF05172 Nup35_RRM: Nup53/35/4 95.9 0.065 1.4E-06 37.7 7.5 69 98-172 6-84 (100)
129 KOG2202 U2 snRNP splicing fact 95.4 0.0062 1.3E-07 49.3 1.1 59 114-174 84-143 (260)
130 KOG1996 mRNA splicing factor [ 95.4 0.058 1.3E-06 44.8 6.6 58 113-172 301-360 (378)
131 KOG0112 Large RNA-binding prot 94.9 0.042 9.1E-07 51.5 4.9 66 95-167 452-517 (975)
132 KOG2591 c-Mpl binding protein, 94.8 0.094 2E-06 47.0 6.7 66 98-169 175-247 (684)
133 PF11767 SET_assoc: Histone ly 94.8 0.18 3.9E-06 32.7 6.4 55 109-173 11-65 (66)
134 KOG0112 Large RNA-binding prot 94.8 0.0079 1.7E-07 56.2 -0.0 71 94-166 368-438 (975)
135 KOG2068 MOT2 transcription fac 94.1 0.021 4.6E-07 48.0 1.1 71 99-171 78-155 (327)
136 PF07576 BRAP2: BRCA1-associat 93.4 1 2.2E-05 32.2 8.5 69 98-169 12-82 (110)
137 PF04847 Calcipressin: Calcipr 93.3 0.42 9E-06 37.3 6.9 57 111-174 8-66 (184)
138 KOG4660 Protein Mei2, essentia 92.3 0.2 4.4E-06 44.7 4.3 70 96-167 386-457 (549)
139 PF03880 DbpA: DbpA RNA bindin 91.3 1.1 2.4E-05 29.3 6.2 65 100-174 2-72 (74)
140 KOG2135 Proteins containing th 91.3 0.12 2.5E-06 45.6 1.7 64 102-173 376-440 (526)
141 KOG4210 Nuclear localization s 90.9 0.13 2.7E-06 42.9 1.6 65 96-162 86-151 (285)
142 KOG0804 Cytoplasmic Zn-finger 89.9 1.2 2.5E-05 39.2 6.6 69 97-168 73-142 (493)
143 KOG2253 U1 snRNP complex, subu 87.5 0.44 9.6E-06 43.5 2.6 73 93-175 35-107 (668)
144 KOG4410 5-formyltetrahydrofola 86.2 8.6 0.00019 32.1 9.1 50 95-149 327-377 (396)
145 KOG4285 Mitotic phosphoprotein 85.7 2 4.4E-05 36.0 5.3 66 98-172 197-262 (350)
146 KOG4454 RNA binding protein (R 85.0 0.19 4E-06 40.3 -1.0 68 98-167 80-151 (267)
147 KOG4574 RNA-binding protein (c 82.9 0.61 1.3E-05 43.9 1.3 60 100-166 300-359 (1007)
148 PF15513 DUF4651: Domain of un 79.6 4.6 0.0001 25.8 4.1 20 112-131 8-27 (62)
149 KOG2318 Uncharacterized conser 78.9 9.5 0.00021 34.8 7.3 70 95-166 171-293 (650)
150 PF03468 XS: XS domain; Inter 72.6 5.2 0.00011 28.7 3.4 47 100-148 10-65 (116)
151 KOG2891 Surface glycoprotein [ 68.9 7.9 0.00017 32.3 4.0 70 95-166 146-247 (445)
152 KOG1295 Nonsense-mediated deca 59.5 12 0.00026 32.4 3.5 65 98-166 7-77 (376)
153 KOG2295 C2H2 Zn-finger protein 58.0 1.6 3.5E-05 39.4 -1.9 71 97-169 230-301 (648)
154 COG0724 RNA-binding proteins ( 56.6 18 0.00039 27.9 4.0 42 93-134 220-261 (306)
155 KOG4676 Splicing factor, argin 55.9 2.6 5.6E-05 36.6 -1.0 62 99-166 152-213 (479)
156 PTZ00146 fibrillarin; Provisio 53.1 24 0.00052 29.6 4.3 12 141-152 205-216 (293)
157 KOG4019 Calcineurin-mediated s 53.0 10 0.00022 29.5 1.9 66 97-169 9-79 (193)
158 COG3254 Uncharacterized conser 50.1 50 0.0011 23.3 4.9 41 112-155 26-67 (105)
159 PF07530 PRE_C2HC: Associated 48.4 34 0.00073 22.1 3.6 59 113-176 2-62 (68)
160 KOG4483 Uncharacterized conser 48.2 37 0.0008 29.8 4.7 52 98-155 391-443 (528)
161 PF10567 Nab6_mRNP_bdg: RNA-re 47.9 42 0.00091 28.2 4.9 54 98-151 15-76 (309)
162 PRK11230 glycolate oxidase sub 44.0 83 0.0018 28.3 6.6 63 98-162 189-255 (499)
163 KOG2193 IGF-II mRNA-binding pr 42.4 1.1 2.3E-05 39.3 -5.3 72 98-174 80-152 (584)
164 COG0030 KsgA Dimethyladenosine 42.3 44 0.00095 27.5 4.2 28 98-125 95-122 (259)
165 PF09180 ProRS-C_1: Prolyl-tRN 41.3 35 0.00076 21.9 2.8 43 139-183 11-55 (68)
166 PF12300 DUF3628: Protein of u 39.5 46 0.00099 25.3 3.5 9 6-14 35-43 (180)
167 PF09707 Cas_Cas2CT1978: CRISP 39.4 74 0.0016 21.6 4.3 51 96-148 23-73 (86)
168 PF07292 NID: Nmi/IFP 35 domai 38.5 20 0.00043 24.5 1.4 24 96-119 50-73 (88)
169 PF11411 DNA_ligase_IV: DNA li 38.0 25 0.00054 19.9 1.5 16 108-123 19-34 (36)
170 smart00596 PRE_C2HC PRE_C2HC d 37.6 39 0.00085 22.0 2.6 59 113-176 2-62 (69)
171 KOG4008 rRNA processing protei 37.2 27 0.00058 28.4 2.1 33 96-128 38-70 (261)
172 KOG4213 RNA-binding protein La 31.4 60 0.0013 25.4 3.1 46 110-155 118-166 (205)
173 KOG3428 Small nuclear ribonucl 30.5 23 0.00049 25.2 0.6 8 7-14 73-80 (109)
174 PF12643 MazG-like: MazG-like 29.7 18 0.00038 25.3 -0.0 15 1-15 51-68 (98)
175 PRK01178 rps24e 30S ribosomal 29.5 1.6E+02 0.0035 20.5 4.8 46 108-154 29-80 (99)
176 KOG3702 Nuclear polyadenylated 28.7 54 0.0012 30.5 2.9 76 99-177 512-588 (681)
177 COG5193 LHP1 La protein, small 28.7 27 0.00059 30.5 1.0 44 112-155 196-242 (438)
178 PTZ00071 40S ribosomal protein 27.4 1.5E+02 0.0034 21.8 4.6 46 108-154 34-86 (132)
179 PF11214 Med2: Mediator comple 26.5 19 0.00041 25.5 -0.3 12 3-14 7-18 (105)
180 TIGR00387 glcD glycolate oxida 26.4 2.1E+02 0.0045 24.9 6.1 63 97-161 130-197 (413)
181 PF05189 RTC_insert: RNA 3'-te 25.5 1.7E+02 0.0036 20.0 4.4 47 100-146 12-64 (103)
182 KOG4365 Uncharacterized conser 25.4 12 0.00025 33.2 -1.8 65 99-166 4-69 (572)
183 PF09278 MerR-DNA-bind: MerR, 25.3 36 0.00078 21.0 0.9 10 4-13 12-21 (65)
184 KOG3424 40S ribosomal protein 24.6 1.4E+02 0.0031 21.6 3.9 45 108-153 33-83 (132)
185 PF00398 RrnaAD: Ribosomal RNA 23.5 82 0.0018 25.5 2.9 28 97-124 96-125 (262)
186 PTZ00338 dimethyladenosine tra 23.4 1E+02 0.0022 25.7 3.4 22 100-121 103-124 (294)
187 cd00027 BRCT Breast Cancer Sup 22.9 1.4E+02 0.0031 17.4 3.4 26 99-124 2-27 (72)
188 PF03439 Spt5-NGN: Early trans 22.8 2.2E+02 0.0048 18.8 4.4 30 138-169 43-72 (84)
189 PLN02805 D-lactate dehydrogena 22.5 2.8E+02 0.006 25.4 6.3 50 110-161 278-331 (555)
190 PRK00274 ksgA 16S ribosomal RN 21.9 1.3E+02 0.0028 24.5 3.8 22 100-121 107-128 (272)
191 TIGR00755 ksgA dimethyladenosi 20.6 1.3E+02 0.0028 24.1 3.5 24 100-123 96-119 (253)
192 TIGR03636 L23_arch archaeal ri 20.1 2.7E+02 0.0059 18.3 5.8 54 100-155 15-70 (77)
No 1
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.90 E-value=3.4e-23 Score=166.10 Aligned_cols=155 Identities=36% Similarity=0.490 Sum_probs=106.0
Q ss_pred CCCCCCCCHHHHHhhcCCCCcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccccccCCCCCCCCc
Q 029987 1 MATHVDMSLDDIIKSRKKSERERGQGRARRGRGRGRGPSGSVSGGRMTGAARRGPLSNARPSSYTIAKSFRRTRNFPWQH 80 (184)
Q Consensus 1 m~~~ld~sLddii~~~~~~~r~~~~~~~~~g~~~g~g~g~~~~~~~g~g~~r~~~~~~~r~~~~~~~~~~rr~~~~~~~~ 80 (184)
|+++|||||||||++.++ +++-++ .++..++.|+ ..+++++.|+. ...+... +-..+..|+|
T Consensus 1 ms~~ld~sLd~iI~~~r~--r~G~g~--~r~~~r~~gg-----~~~~~~psR~~--g~~r~~~-------~~~~~~~w~~ 62 (243)
T KOG0533|consen 1 MSDSLDMSLDDIIKSNRK--RGGVGG--KRGIKRRSGG-----QNRGRGPSRRT--GKPRAQT-------RGGIDGKWQH 62 (243)
T ss_pred CcchhhhhHHHHHHhccc--cCCcCc--cccccccccC-----CccCCCCcccc--Ccccccc-------cCCCCCcccc
Confidence 899999999999995544 111111 1111111111 12233333332 1000000 0114678999
Q ss_pred --chhhhhhhcCC-CCCCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHH
Q 029987 81 --DLFEDSLRAAG-ISGIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQ 157 (184)
Q Consensus 81 --~~~~~~~~~~~-~~~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~ 157 (184)
+.+........ ....+..++|+|.|||+.|+++||+|||..||++..+.|++++.|.+.|+|-|.|...++|.+|
T Consensus 63 ~~~v~~~~~~~~~~~~~~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~a-- 140 (243)
T KOG0533|consen 63 DRDVFRSAKRLGAVGINETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERA-- 140 (243)
T ss_pred hHHHHhcccccccccccCCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHH--
Confidence 55554443211 1234445899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhCCCeecCeEEeeCC
Q 029987 158 LKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 158 i~~l~g~~~~g~~l~~~~ 175 (184)
+++|+|..+.|+.|.+.-
T Consensus 141 vk~~~gv~ldG~~mk~~~ 158 (243)
T KOG0533|consen 141 VKKYNGVALDGRPMKIEI 158 (243)
T ss_pred HHHhcCcccCCceeeeEE
Confidence 999999988888766543
No 2
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.78 E-value=1.6e-18 Score=130.04 Aligned_cols=79 Identities=16% Similarity=0.238 Sum_probs=74.7
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
...++|||+|||+++++++|+++|++||+|..|.|+.|+ +++++|||||+|.+.++|++| |+.||+..|.++.|.|+
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~A--l~~lng~~i~Gr~l~V~ 109 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAA--ISEMDGKELNGRHIRVN 109 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHH--HHHcCCCEECCEEEEEE
Confidence 457899999999999999999999999999999999998 999999999999999999999 99999999999999987
Q ss_pred CC
Q 029987 175 TI 176 (184)
Q Consensus 175 ~~ 176 (184)
..
T Consensus 110 ~a 111 (144)
T PLN03134 110 PA 111 (144)
T ss_pred eC
Confidence 43
No 3
>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=99.71 E-value=8e-17 Score=104.97 Aligned_cols=69 Identities=22% Similarity=0.368 Sum_probs=66.3
Q ss_pred EEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEE
Q 029987 101 LYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQL 171 (184)
Q Consensus 101 l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l 171 (184)
|||+|||+++|+++|+++|++||.|..+.+..+.++.++++|||+|.+.++|++| ++.|+|..+.++.|
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a--~~~l~g~~~~~~~i 69 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKA--LEELNGKKINGRKI 69 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHH--HHHHTTEEETTEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHH--HHHcCCCEECccCc
Confidence 7999999999999999999999999999998888888999999999999999999 99999999999887
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.70 E-value=1.2e-16 Score=134.98 Aligned_cols=77 Identities=14% Similarity=0.150 Sum_probs=73.3
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~ 175 (184)
.+.+|||.|||+++++++|+++|++||.|..|.|+.|+ ++.++|||||+|.+.++|.+| |..|||..++|+.|.|+-
T Consensus 268 ~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~A--i~~lnG~~~~gr~i~V~~ 345 (352)
T TIGR01661 268 AGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMA--ILSLNGYTLGNRVLQVSF 345 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHH--HHHhCCCEECCeEEEEEE
Confidence 34579999999999999999999999999999999999 999999999999999999999 999999999999999874
No 5
>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=99.69 E-value=1.8e-16 Score=134.43 Aligned_cols=81 Identities=21% Similarity=0.161 Sum_probs=75.6
Q ss_pred CCCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEE
Q 029987 93 SGIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQL 171 (184)
Q Consensus 93 ~~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l 171 (184)
......++|||+|||+++|+++|+++|+.||+|+.|.|+.|+ +++++|||||+|.+.++|++| |+.||+..+.+++|
T Consensus 102 ~~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~A--i~~LnG~~l~gr~i 179 (346)
T TIGR01659 102 DTNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRA--IKNLNGITVRNKRL 179 (346)
T ss_pred CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHH--HHHcCCCccCCcee
Confidence 344568899999999999999999999999999999999998 999999999999999999999 99999999999999
Q ss_pred eeCC
Q 029987 172 LSDT 175 (184)
Q Consensus 172 ~~~~ 175 (184)
.|..
T Consensus 180 ~V~~ 183 (346)
T TIGR01659 180 KVSY 183 (346)
T ss_pred eeec
Confidence 8863
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.68 E-value=1.7e-16 Score=134.03 Aligned_cols=76 Identities=20% Similarity=0.208 Sum_probs=72.9
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
+.++|||+|||+.+++++|+++|++||+|..|.|+.|+ +|+++|||||+|.+.++|++| |+.|||..+.++.|.|.
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~A--i~~l~g~~l~g~~i~v~ 78 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKA--VNSLNGLRLQNKTIKVS 78 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHH--HhhcccEEECCeeEEEE
Confidence 46899999999999999999999999999999999998 899999999999999999999 99999999999999884
No 7
>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=99.65 E-value=2.1e-15 Score=131.75 Aligned_cols=78 Identities=14% Similarity=0.214 Sum_probs=72.0
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
.....+|||+|||+.+++++|+++|++||+|..|.|+.|+ +++++|||||+|.+.++|.+| |. |+|..+.+++|.+
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~A--l~-l~g~~~~g~~i~v 162 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKA--LA-LTGQMLLGRPIIV 162 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHH--HH-hCCCEECCeeeEE
Confidence 3456799999999999999999999999999999999998 899999999999999999999 74 8999999999887
Q ss_pred CC
Q 029987 174 DT 175 (184)
Q Consensus 174 ~~ 175 (184)
..
T Consensus 163 ~~ 164 (457)
T TIGR01622 163 QS 164 (457)
T ss_pred ee
Confidence 54
No 8
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.65 E-value=4.3e-16 Score=112.54 Aligned_cols=79 Identities=20% Similarity=0.256 Sum_probs=74.3
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
...+++|||+||++.++|++|.|||+.+|+|..|-|-.|+ +..+.|||||+|...++|+.| ++-++|..|..++|.+
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~A--lryisgtrLddr~ir~ 110 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDA--LRYISGTRLDDRPIRI 110 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHH--HHHhccCcccccceee
Confidence 4468899999999999999999999999999999999999 788999999999999999999 9999999999999988
Q ss_pred CC
Q 029987 174 DT 175 (184)
Q Consensus 174 ~~ 175 (184)
+-
T Consensus 111 D~ 112 (153)
T KOG0121|consen 111 DW 112 (153)
T ss_pred ec
Confidence 74
No 9
>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=99.63 E-value=3.4e-15 Score=97.91 Aligned_cols=70 Identities=24% Similarity=0.368 Sum_probs=64.5
Q ss_pred EEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 101 LYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 101 l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
|||+|||+++++++|.++|+.||.|..+.+..++++.++++|||+|.+.++|.+| ++.+++..+.|+.|.
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~a--l~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRA--LELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHH--HHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHH--HHHCCCcEECCEEcC
Confidence 7999999999999999999999999999999988888999999999999999999 999999999999873
No 10
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.59 E-value=4e-15 Score=117.92 Aligned_cols=76 Identities=21% Similarity=0.197 Sum_probs=72.1
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
..++|.|.||+.++++++|++||.+||.|..+.|..|+ ||.++|||||+|.+.++|++| |..|||.-+++..|.|.
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rA--I~~LnG~gyd~LILrvE 264 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARA--IADLNGYGYDNLILRVE 264 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHH--HHHccCcccceEEEEEE
Confidence 46789999999999999999999999999999999999 999999999999999999999 99999999988887764
No 11
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.59 E-value=4.5e-15 Score=120.50 Aligned_cols=84 Identities=18% Similarity=0.239 Sum_probs=77.5
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
++=+||||.-|+++++|.+|++.|+.||+|+.|.|+.|. ||+++|||||+|++.-+...| .+..+|.+|.++.|+|+
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~A--YK~adG~~Idgrri~VD 176 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAA--YKDADGIKIDGRRILVD 176 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHH--HHhccCceecCcEEEEE
Confidence 455799999999999999999999999999999999998 999999999999999999999 99999999999999998
Q ss_pred C----Ccceec
Q 029987 175 T----IMYCWM 181 (184)
Q Consensus 175 ~----~~~~~~ 181 (184)
- +|.-|+
T Consensus 177 vERgRTvkgW~ 187 (335)
T KOG0113|consen 177 VERGRTVKGWL 187 (335)
T ss_pred ecccccccccc
Confidence 3 444454
No 12
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.59 E-value=8e-15 Score=124.36 Aligned_cols=77 Identities=22% Similarity=0.220 Sum_probs=70.2
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecC--eEEe
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMH--LQLL 172 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g--~~l~ 172 (184)
...++|||.|||+++|+++|+++|++||+|+.|.|+.|+ +++++|||||+|.+.++|++| |+.||+..+.+ ++|.
T Consensus 191 ~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~A--i~~lng~~~~g~~~~l~ 268 (346)
T TIGR01659 191 IKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEA--ISALNNVIPEGGSQPLT 268 (346)
T ss_pred cccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHH--HHHhCCCccCCCceeEE
Confidence 346789999999999999999999999999999999998 999999999999999999999 99999998865 5665
Q ss_pred eC
Q 029987 173 SD 174 (184)
Q Consensus 173 ~~ 174 (184)
|.
T Consensus 269 V~ 270 (346)
T TIGR01659 269 VR 270 (346)
T ss_pred EE
Confidence 54
No 13
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.59 E-value=3.3e-15 Score=115.96 Aligned_cols=83 Identities=19% Similarity=0.095 Sum_probs=77.9
Q ss_pred CCCCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeE
Q 029987 92 ISGIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQ 170 (184)
Q Consensus 92 ~~~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~ 170 (184)
+.+++..+.|.|-||.+.++.++|+.+|++||.|..|.|..|+ |+.++|||||-|.+..+|+.| ++.|+|..|+|+.
T Consensus 7 PPdv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA--~damDG~~ldgRe 84 (256)
T KOG4207|consen 7 PPDVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDA--LDAMDGAVLDGRE 84 (256)
T ss_pred CCCcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHH--HHhhcceeeccce
Confidence 4566778899999999999999999999999999999999999 999999999999999999999 9999999999999
Q ss_pred EeeCCC
Q 029987 171 LLSDTI 176 (184)
Q Consensus 171 l~~~~~ 176 (184)
|-|.-.
T Consensus 85 lrVq~a 90 (256)
T KOG4207|consen 85 LRVQMA 90 (256)
T ss_pred eeehhh
Confidence 987644
No 14
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.58 E-value=5.4e-15 Score=112.00 Aligned_cols=74 Identities=18% Similarity=0.210 Sum_probs=67.2
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTI 176 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~ 176 (184)
..++|||+||+..+++.||+..|..||+|..|.|-.+ +.|||||+|+++.+|+.| +..|||..|.|..|.|...
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn----PPGfAFVEFed~RDA~DA--vr~LDG~~~cG~r~rVE~S 82 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN----PPGFAFVEFEDPRDAEDA--VRYLDGKDICGSRIRVELS 82 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec----CCCceEEeccCcccHHHH--HhhcCCccccCceEEEEee
Confidence 4789999999999999999999999999999988754 468999999999999999 9999999999988777643
No 15
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.57 E-value=9e-15 Score=120.10 Aligned_cols=80 Identities=15% Similarity=0.129 Sum_probs=73.6
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
.....+|+|+|||+..-+.||+.+|.+||.|.+|.|+++..| +|||+||+|++.+||++| -++|+|..+.||.|.|.
T Consensus 93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERG-SKGFGFVTmen~~dadRA--Ra~LHgt~VEGRkIEVn 169 (376)
T KOG0125|consen 93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERG-SKGFGFVTMENPADADRA--RAELHGTVVEGRKIEVN 169 (376)
T ss_pred CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCC-CCccceEEecChhhHHHH--HHHhhcceeeceEEEEe
Confidence 345679999999999999999999999999999999999866 699999999999999999 99999999999999987
Q ss_pred CCc
Q 029987 175 TIM 177 (184)
Q Consensus 175 ~~~ 177 (184)
...
T Consensus 170 ~AT 172 (376)
T KOG0125|consen 170 NAT 172 (376)
T ss_pred ccc
Confidence 543
No 16
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.57 E-value=4.4e-16 Score=118.59 Aligned_cols=80 Identities=19% Similarity=0.269 Sum_probs=75.8
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~ 175 (184)
.+.-|||+|||+..|+.||--+|++||+|+.|.|+.|+ ||+++||||++|++.-+..-| +..|||.+|.++.|.|++
T Consensus 34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILA--VDN~NGiki~gRtirVDH 111 (219)
T KOG0126|consen 34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILA--VDNLNGIKILGRTIRVDH 111 (219)
T ss_pred cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEE--EeccCCceecceeEEeee
Confidence 45689999999999999999999999999999999999 999999999999999999999 999999999999999998
Q ss_pred Ccc
Q 029987 176 IMY 178 (184)
Q Consensus 176 ~~~ 178 (184)
...
T Consensus 112 v~~ 114 (219)
T KOG0126|consen 112 VSN 114 (219)
T ss_pred ccc
Confidence 753
No 17
>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=99.57 E-value=9.2e-15 Score=131.00 Aligned_cols=80 Identities=15% Similarity=0.214 Sum_probs=75.0
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
....++|||+|||+++++++|+++|++||+|.+|.|+.|+ +++++|||||+|.+.++|++| |+.|||..+.|+.|.|
T Consensus 104 ~~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~A--i~~lnG~~i~GR~IkV 181 (612)
T TIGR01645 104 LAIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLA--LEQMNGQMLGGRNIKV 181 (612)
T ss_pred hcCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHH--HHhcCCeEEecceeee
Confidence 3456899999999999999999999999999999999998 999999999999999999999 9999999999999988
Q ss_pred CCC
Q 029987 174 DTI 176 (184)
Q Consensus 174 ~~~ 176 (184)
..+
T Consensus 182 ~rp 184 (612)
T TIGR01645 182 GRP 184 (612)
T ss_pred ccc
Confidence 643
No 18
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.56 E-value=1.9e-14 Score=116.33 Aligned_cols=75 Identities=17% Similarity=0.145 Sum_probs=68.1
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCCc
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTIM 177 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~~ 177 (184)
.++|||+|||+.+++++|+++|+.||+|..|.|..++. ++|||||+|.+.++|+.| | .|||..|.++.|.|....
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~--~~GfAFVtF~d~eaAe~A--l-lLnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE--RSQIAYVTFKDPQGAETA--L-LLSGATIVDQSVTITPAE 78 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC--CCCEEEEEeCcHHHHHHH--H-HhcCCeeCCceEEEEecc
Confidence 56999999999999999999999999999999987763 468999999999999999 7 499999999999887643
No 19
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.56 E-value=7.8e-15 Score=115.73 Aligned_cols=66 Identities=23% Similarity=0.234 Sum_probs=61.0
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHh
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWY 161 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l 161 (184)
.+..-|+|||++|+|.++.++|++.|++||+|+++.|+.|+ +|+++||+||+|.+.+.|.+| ++.-
T Consensus 8 ~DT~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rA--c~dp 74 (247)
T KOG0149|consen 8 GDTTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRA--CKDP 74 (247)
T ss_pred CCceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHH--hcCC
Confidence 44566899999999999999999999999999999999999 999999999999999999999 5543
No 20
>smart00362 RRM_2 RNA recognition motif.
Probab=99.55 E-value=6.3e-14 Score=90.25 Aligned_cols=71 Identities=25% Similarity=0.317 Sum_probs=66.3
Q ss_pred EEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 100 KLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
+|||.|||..+++++|+++|.+||+|..+.+..++ +.++++|||+|.+.++|+.| ++.+++..+.++.|.+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~-~~~~~~~~v~f~~~~~a~~a--~~~~~~~~~~~~~i~v 71 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT-GKSKGFAFVEFESEEDAEKA--IEALNGTKLGGRPLRV 71 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC-CCCCceEEEEeCCHHHHHHH--HHHhCCcEECCEEEee
Confidence 58999999999999999999999999999988777 77889999999999999999 9999999999988875
No 21
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.54 E-value=1.1e-14 Score=106.13 Aligned_cols=81 Identities=19% Similarity=0.292 Sum_probs=75.4
Q ss_pred CCCCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeE
Q 029987 92 ISGIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQ 170 (184)
Q Consensus 92 ~~~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~ 170 (184)
+.-...+..|||.+++..+|+++|.+.|..||+|+.++|..|+ +|..+|||+|+|++.++|++| |..+||..|++..
T Consensus 66 PqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A--~~~~Ng~~ll~q~ 143 (170)
T KOG0130|consen 66 PQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAA--IDALNGAELLGQN 143 (170)
T ss_pred CccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHH--HHhccchhhhCCc
Confidence 3344457799999999999999999999999999999999999 999999999999999999999 9999999999999
Q ss_pred EeeC
Q 029987 171 LLSD 174 (184)
Q Consensus 171 l~~~ 174 (184)
|.|+
T Consensus 144 v~VD 147 (170)
T KOG0130|consen 144 VSVD 147 (170)
T ss_pred eeEE
Confidence 8886
No 22
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.53 E-value=5.1e-14 Score=112.37 Aligned_cols=74 Identities=18% Similarity=0.212 Sum_probs=67.5
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~ 175 (184)
.+.+|||+||++.+|+++|++||+.||+|.+|.|+.|. ...+||||+|+++++|+.| + .|+|..|.+.+|.|.+
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~--et~gfAfVtF~d~~aaetA--l-lLnGa~l~d~~I~It~ 77 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG--EYACTAYVTFKDAYALETA--V-LLSGATIVDQRVCITR 77 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC--CcceEEEEEECCHHHHHHH--H-hcCCCeeCCceEEEEe
Confidence 46799999999999999999999999999999999774 4568999999999999999 6 7999999999988875
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=99.53 E-value=4e-14 Score=126.56 Aligned_cols=76 Identities=16% Similarity=0.179 Sum_probs=69.7
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeec-CeEEee
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVM-HLQLLS 173 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~-g~~l~~ 173 (184)
..+++|||+|||+++++++|.++|++||+|..|.|+.|.+|+++|||||+|.+.++|++| |+.||+.++. ++.|.+
T Consensus 56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~A--i~~lng~~i~~Gr~l~V 132 (578)
T TIGR01648 56 GRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEA--VKLLNNYEIRPGRLLGV 132 (578)
T ss_pred CCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHH--HHHcCCCeecCCccccc
Confidence 357899999999999999999999999999999999999999999999999999999999 9999998884 555444
No 24
>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=99.53 E-value=4.7e-14 Score=126.50 Aligned_cols=78 Identities=13% Similarity=0.162 Sum_probs=73.5
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~ 175 (184)
..++|||+|||+++++++|+++|+.||+|..+.|..|+ +++++|||||+|.+.++|.+| |+.||+..+.|+.|.|..
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kA--I~amNg~elgGr~LrV~k 280 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEA--IASMNLFDLGGQYLRVGK 280 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHH--HHHhCCCeeCCeEEEEEe
Confidence 45799999999999999999999999999999999998 788999999999999999999 999999999999999864
Q ss_pred C
Q 029987 176 I 176 (184)
Q Consensus 176 ~ 176 (184)
.
T Consensus 281 A 281 (612)
T TIGR01645 281 C 281 (612)
T ss_pred c
Confidence 3
No 25
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.53 E-value=7.2e-14 Score=123.59 Aligned_cols=77 Identities=18% Similarity=0.215 Sum_probs=72.2
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~ 175 (184)
..++|||+|||+.+++++|+++|+.||.|..+.|+.++ +|.++|||||+|.+.++|..| |+.|||..|.++.|.|..
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A--~~~l~g~~~~~~~l~v~~ 371 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVA--IAALNGKDTGDNKLHVQR 371 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHH--HHHcCCCEECCeEEEEEE
Confidence 35799999999999999999999999999999999988 899999999999999999999 999999999999887754
No 26
>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=99.52 E-value=6.8e-14 Score=122.28 Aligned_cols=77 Identities=23% Similarity=0.267 Sum_probs=73.0
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~ 175 (184)
..++|||+|||+.+++++|+++|++||.|..|.|+.++ +|+++|||||+|.+.++|.+| ++.|||..|.++.|.|.-
T Consensus 185 ~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A--~~~l~g~~i~g~~i~v~~ 262 (457)
T TIGR01622 185 NFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEA--LEVMNGFELAGRPIKVGY 262 (457)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHH--HHhcCCcEECCEEEEEEE
Confidence 35799999999999999999999999999999999998 779999999999999999999 999999999999998875
No 27
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=4.7e-14 Score=113.01 Aligned_cols=80 Identities=20% Similarity=0.192 Sum_probs=75.9
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
..+..|.|.|..||.++|++||+.||+.+|+|++|.++.|+ +|++.||+||.|.+++||++| |..|||..|..+.|+
T Consensus 37 t~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~A--intlNGLrLQ~KTIK 114 (360)
T KOG0145|consen 37 TDESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKA--INTLNGLRLQNKTIK 114 (360)
T ss_pred cCcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHH--HhhhcceeeccceEE
Confidence 45567899999999999999999999999999999999999 999999999999999999999 999999999999999
Q ss_pred eCC
Q 029987 173 SDT 175 (184)
Q Consensus 173 ~~~ 175 (184)
|+-
T Consensus 115 VSy 117 (360)
T KOG0145|consen 115 VSY 117 (360)
T ss_pred EEe
Confidence 873
No 28
>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=99.51 E-value=9.4e-14 Score=124.56 Aligned_cols=73 Identities=19% Similarity=0.162 Sum_probs=70.2
Q ss_pred EEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 100 KLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
.|||+|||+++|+++|+++|++||+|.+|.|..|. +++++|||||+|.+.++|++| |..+|+..+.++.|.+.
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~A--l~~ln~~~i~gk~i~i~ 75 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERA--LETMNFKRLGGKPIRIM 75 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHH--HHHhCCCEECCeeEEee
Confidence 79999999999999999999999999999999999 799999999999999999999 99999999999998874
No 29
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.50 E-value=1.1e-13 Score=96.65 Aligned_cols=77 Identities=18% Similarity=0.191 Sum_probs=68.9
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
+.+...-|||.|||+++|.+++.++|.+||.|..|+|-.++ ..+|.|||.|++..+|.+| +..|.|..++++.|+|
T Consensus 14 ppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k--~TrGTAFVVYedi~dAk~A--~dhlsg~n~~~ryl~v 89 (124)
T KOG0114|consen 14 PPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK--ETRGTAFVVYEDIFDAKKA--CDHLSGYNVDNRYLVV 89 (124)
T ss_pred ChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCcc--CcCceEEEEehHhhhHHHH--HHHhcccccCCceEEE
Confidence 34456789999999999999999999999999999987655 2479999999999999999 9999999999999887
Q ss_pred C
Q 029987 174 D 174 (184)
Q Consensus 174 ~ 174 (184)
.
T Consensus 90 l 90 (124)
T KOG0114|consen 90 L 90 (124)
T ss_pred E
Confidence 4
No 30
>PLN03213 repressor of silencing 3; Provisional
Probab=99.50 E-value=7.5e-14 Score=120.14 Aligned_cols=79 Identities=19% Similarity=0.184 Sum_probs=70.7
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCCh--HHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATF--SPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~--~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
...+|||+||++.|+++||+.+|+.||.|..|.|+ ..+| +|||||+|... .++.+| |..|||.+++|+.|.|.
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp-RETG--RGFAFVEMssdddaEeeKA--ISaLNGAEWKGR~LKVN 83 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV-RTKG--RSFAYIDFSPSSTNSLTKL--FSTYNGCVWKGGRLRLE 83 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe-cccC--CceEEEEecCCcHHHHHHH--HHHhcCCeecCceeEEe
Confidence 46799999999999999999999999999999998 3367 89999999987 679999 99999999999999998
Q ss_pred CCccee
Q 029987 175 TIMYCW 180 (184)
Q Consensus 175 ~~~~~~ 180 (184)
.....+
T Consensus 84 KAKP~Y 89 (759)
T PLN03213 84 KAKEHY 89 (759)
T ss_pred eccHHH
Confidence 765433
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=99.49 E-value=1.2e-13 Score=123.81 Aligned_cols=79 Identities=27% Similarity=0.333 Sum_probs=74.1
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
....++|||+||++++++++|+++|++||.|.+|.++.|.+|.++|||||+|.+.++|.+| +..|||..+.+++|.|.
T Consensus 282 ~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A--~~~~~g~~~~gk~l~V~ 359 (562)
T TIGR01628 282 KAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRA--VTEMHGRMLGGKPLYVA 359 (562)
T ss_pred ccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHH--HHHhcCCeeCCceeEEE
Confidence 3456789999999999999999999999999999999999999999999999999999999 99999999999998875
Q ss_pred C
Q 029987 175 T 175 (184)
Q Consensus 175 ~ 175 (184)
-
T Consensus 360 ~ 360 (562)
T TIGR01628 360 L 360 (562)
T ss_pred e
Confidence 3
No 32
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.49 E-value=9.2e-14 Score=118.09 Aligned_cols=80 Identities=19% Similarity=0.198 Sum_probs=74.0
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCee-cCeEEee
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEV-MHLQLLS 173 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~-~g~~l~~ 173 (184)
+.++.|||+.||.++.|++|.-||++.|+|-+++|+.|+ +|.++|||||+|.+.++|+.| |+.||+.+| .|+.|.|
T Consensus 81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~A--ik~lnn~Eir~GK~igv 158 (506)
T KOG0117|consen 81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEA--IKELNNYEIRPGKLLGV 158 (506)
T ss_pred CCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHH--HHHhhCccccCCCEeEE
Confidence 568999999999999999999999999999999999998 999999999999999999999 999999988 5777766
Q ss_pred CCCc
Q 029987 174 DTIM 177 (184)
Q Consensus 174 ~~~~ 177 (184)
+..+
T Consensus 159 c~Sv 162 (506)
T KOG0117|consen 159 CVSV 162 (506)
T ss_pred EEee
Confidence 6444
No 33
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.49 E-value=1.7e-13 Score=109.03 Aligned_cols=77 Identities=25% Similarity=0.303 Sum_probs=74.1
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCC
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTI 176 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~ 176 (184)
..+|||+|||+.+++++|.++|..||.|..+.+..++ ++.++|+|||+|.+.++|..| +..+++..++++.|.|...
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a--~~~~~~~~~~~~~~~v~~~ 192 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKA--IEELNGKELEGRPLRVQKA 192 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHH--HHHcCCCeECCceeEeecc
Confidence 6899999999999999999999999999999999997 999999999999999999999 9999999999999998864
No 34
>smart00360 RRM RNA recognition motif.
Probab=99.48 E-value=3e-13 Score=86.65 Aligned_cols=69 Identities=28% Similarity=0.323 Sum_probs=64.5
Q ss_pred EeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 103 VSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 103 V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
|+|||..+++++|+++|++||.|..+.+..++ ++.++|+|||+|.+.++|..| ++.+++..+.+..|.+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a--~~~~~~~~~~~~~~~v 70 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKA--LEALNGKELDGRPLKV 70 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHH--HHHcCCCeeCCcEEEe
Confidence 57999999999999999999999999998877 688999999999999999999 9999999999988775
No 35
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.44 E-value=6.6e-13 Score=112.87 Aligned_cols=77 Identities=18% Similarity=0.269 Sum_probs=72.2
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhh-ccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFS-EIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~-~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~ 175 (184)
....+||+|||+++.|++|++||. +.|+|++|.|.+|..|+++|||.|+|+++|.+++| ++.||-.++.+++|+|..
T Consensus 43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa--~E~lnk~~~~GR~l~vKE 120 (608)
T KOG4212|consen 43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKA--LEKLNKYEVNGRELVVKE 120 (608)
T ss_pred ccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHH--HHHhhhccccCceEEEec
Confidence 344699999999999999999995 79999999999999999999999999999999999 999999999999998864
No 36
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=99.44 E-value=1.7e-12 Score=83.93 Aligned_cols=73 Identities=29% Similarity=0.333 Sum_probs=67.5
Q ss_pred EEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 100 KLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
+|+|+|||+.+++++|+++|+.+|.|..+.+..++...+.++|||+|.+.++|..| ++.+++..+.++.|.+.
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a--~~~~~~~~~~~~~~~v~ 73 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKA--LEALNGKELGGRPLRVE 73 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHH--HHHhCCCeECCeEEEEe
Confidence 48999999999999999999999999999999888667789999999999999999 99999999999888764
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=99.38 E-value=2.7e-12 Score=113.38 Aligned_cols=75 Identities=23% Similarity=0.173 Sum_probs=68.7
Q ss_pred CCCCcEEEEeCCCC-CCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 95 IEVGTKLYVSNLHP-GVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 95 ~~~~~~l~V~nL~~-~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
.+++++|||+||++ .+|+++|+++|+.||.|..|.|+.++ +|||||+|.+.++|..| |+.|||..|.|++|.|
T Consensus 272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~----~g~afV~f~~~~~A~~A--i~~lng~~l~g~~l~v 345 (481)
T TIGR01649 272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK----KETALIEMADPYQAQLA--LTHLNGVKLFGKPLRV 345 (481)
T ss_pred CCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC----CCEEEEEECCHHHHHHH--HHHhCCCEECCceEEE
Confidence 45678999999998 69999999999999999999998763 58999999999999999 9999999999999988
Q ss_pred CC
Q 029987 174 DT 175 (184)
Q Consensus 174 ~~ 175 (184)
..
T Consensus 346 ~~ 347 (481)
T TIGR01649 346 CP 347 (481)
T ss_pred EE
Confidence 64
No 38
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.38 E-value=6.4e-13 Score=101.37 Aligned_cols=80 Identities=20% Similarity=0.176 Sum_probs=74.8
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
....+|||+||+..++++-|.|||-+.|+|..+++..|+ +..++|||||+|.+.++|+-| |+.||..+|-|++|.+.
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYA--ikiln~VkLYgrpIrv~ 84 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYA--IKILNMVKLYGRPIRVN 84 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHH--HHHHHHHHhcCceeEEE
Confidence 346799999999999999999999999999999999999 888999999999999999999 99999999999999987
Q ss_pred CCc
Q 029987 175 TIM 177 (184)
Q Consensus 175 ~~~ 177 (184)
...
T Consensus 85 kas 87 (203)
T KOG0131|consen 85 KAS 87 (203)
T ss_pred ecc
Confidence 654
No 39
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.37 E-value=1.2e-12 Score=113.33 Aligned_cols=77 Identities=14% Similarity=0.236 Sum_probs=74.2
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCCc
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTIM 177 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~~ 177 (184)
..|||+|||+++++++|.++|+..|.|..+++++|+ +|+++||+|++|.+.++|+.| ++.|||.++.++.|.|+-..
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a--~~~lNg~~~~gr~l~v~~~~ 96 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERA--IRNLNGAEFNGRKLRVNYAS 96 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHH--HHhcCCcccCCceEEeeccc
Confidence 899999999999999999999999999999999999 999999999999999999999 99999999999999987544
No 40
>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=99.36 E-value=3.7e-12 Score=114.02 Aligned_cols=69 Identities=20% Similarity=0.153 Sum_probs=64.5
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhcc--CCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEI--GELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~--G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
..++|||+||++++++++|+++|++| |+|+.|.++ ++||||+|.+.++|++| |+.|||.+|.++.|.|+
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~-------rgfAFVeF~s~e~A~kA--i~~lnG~~i~Gr~I~V~ 302 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI-------RDYAFVHFEDREDAVKA--MDELNGKELEGSEIEVT 302 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee-------cCeEEEEeCCHHHHHHH--HHHhCCCEECCEEEEEE
Confidence 45689999999999999999999999 999998775 57999999999999999 99999999999999887
No 41
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.35 E-value=4.6e-12 Score=101.98 Aligned_cols=72 Identities=19% Similarity=0.190 Sum_probs=66.0
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
..++.|+|||+|++..+|+++|++.|+.||+|.+|++.. -+||+||.|+++|.|..| |.++||.++.|..+.
T Consensus 160 ssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk-----~qGYaFVrF~tkEaAahA--Iv~mNntei~G~~Vk 231 (321)
T KOG0148|consen 160 SSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFK-----DQGYAFVRFETKEAAAHA--IVQMNNTEIGGQLVR 231 (321)
T ss_pred CCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEec-----ccceEEEEecchhhHHHH--HHHhcCceeCceEEE
Confidence 345789999999999999999999999999999999984 468999999999999999 999999999887754
No 42
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.35 E-value=3.7e-12 Score=110.73 Aligned_cols=80 Identities=23% Similarity=0.199 Sum_probs=71.7
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHh-----CC-CeecC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWY-----MP-EEVMH 168 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l-----~g-~~~~g 168 (184)
.-+.+|||.||||++|+++|.+.|++||+|..+.|+.++ |+.++|+|||.|.+..+|+.| |..- .| ..|.|
T Consensus 290 ~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~c--i~~Aspa~e~g~~ll~G 367 (678)
T KOG0127|consen 290 TEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNC--IEAASPASEDGSVLLDG 367 (678)
T ss_pred cccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHH--HHhcCccCCCceEEEec
Confidence 345799999999999999999999999999999999999 999999999999999999999 7655 33 67899
Q ss_pred eEEeeCCCc
Q 029987 169 LQLLSDTIM 177 (184)
Q Consensus 169 ~~l~~~~~~ 177 (184)
+.|.|...+
T Consensus 368 R~Lkv~~Av 376 (678)
T KOG0127|consen 368 RLLKVTLAV 376 (678)
T ss_pred cEEeeeecc
Confidence 999887665
No 43
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.33 E-value=2.8e-12 Score=103.20 Aligned_cols=73 Identities=16% Similarity=0.262 Sum_probs=70.0
Q ss_pred EEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 100 KLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
.|||+.|...++.++|++.|.+||+|.+++|+.|. |++++||+||.|.+.++|+.| |.+|||+=|..|.|...
T Consensus 64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnA--I~~MnGqWlG~R~IRTN 137 (321)
T KOG0148|consen 64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENA--IQQMNGQWLGRRTIRTN 137 (321)
T ss_pred eEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHH--HHHhCCeeeccceeecc
Confidence 79999999999999999999999999999999999 999999999999999999999 99999999999988653
No 44
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.33 E-value=6.6e-12 Score=110.96 Aligned_cols=71 Identities=13% Similarity=0.098 Sum_probs=63.8
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHH--hCCCeecCeEEeeC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKW--YMPEEVMHLQLLSD 174 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~--l~g~~~~g~~l~~~ 174 (184)
++.+|||+|||+.+++++|+++|++||+|..|.|+. ++++|||+|.+.++|++| |+. +++..+.+++|.|.
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~-----~k~~afVef~~~e~A~~A--i~~~~~~~~~l~g~~l~v~ 73 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLP-----GKRQALVEFEDEESAKAC--VNFATSVPIYIRGQPAFFN 73 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEEC-----CCCEEEEEeCchHHHHHH--HHHhhcCCceEcCeEEEEE
Confidence 356899999999999999999999999999999873 468999999999999999 876 47889999998875
No 45
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.32 E-value=1.5e-12 Score=108.75 Aligned_cols=82 Identities=15% Similarity=0.182 Sum_probs=77.2
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
.-.++|||+.+.+.+.|+.|+.-|..||+|+++.+.+|+ |++++|||||+|+-++.|+-| +++|||..+.|+.|+|.
T Consensus 111 aiMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLA--lEqMNg~mlGGRNiKVg 188 (544)
T KOG0124|consen 111 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLA--LEQMNGQMLGGRNIKVG 188 (544)
T ss_pred HHhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHH--HHHhccccccCcccccc
Confidence 346899999999999999999999999999999999999 999999999999999999999 99999999999999998
Q ss_pred CCcce
Q 029987 175 TIMYC 179 (184)
Q Consensus 175 ~~~~~ 179 (184)
.+.+.
T Consensus 189 rPsNm 193 (544)
T KOG0124|consen 189 RPSNM 193 (544)
T ss_pred CCCCC
Confidence 76643
No 46
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.32 E-value=4.9e-12 Score=110.02 Aligned_cols=79 Identities=16% Similarity=0.186 Sum_probs=74.1
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTI 176 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~ 176 (184)
+..+|+|.||||.+..++|+.+|+.||.|..|.|+..+.|+.+|||||.|....+|..| |+.||+.+|.|++|.|+=.
T Consensus 116 ~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~A--l~~~N~~~i~gR~VAVDWA 193 (678)
T KOG0127|consen 116 PKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKA--LEFFNGNKIDGRPVAVDWA 193 (678)
T ss_pred ccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHH--HHhccCceecCceeEEeee
Confidence 46799999999999999999999999999999999777888899999999999999999 9999999999999999855
Q ss_pred c
Q 029987 177 M 177 (184)
Q Consensus 177 ~ 177 (184)
+
T Consensus 194 V 194 (678)
T KOG0127|consen 194 V 194 (678)
T ss_pred c
Confidence 4
No 47
>smart00361 RRM_1 RNA recognition motif.
Probab=99.31 E-value=1.5e-11 Score=81.05 Aligned_cols=60 Identities=13% Similarity=0.058 Sum_probs=54.2
Q ss_pred HHHHHHHhh----ccCCeeEEE-EeeCC-C--CCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 112 NDDIRELFS----EIGELKRYA-IHFDK-N--GRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 112 ~~~l~~~F~----~~G~v~~v~-i~~d~-~--g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
+++|+++|+ .||.|..+. |..++ + +.++|++||+|.+.++|.+| ++.|||..+.++.|.+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A--~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARA--IVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHH--HHHhCCCEECCEEEEe
Confidence 578999998 999999985 66666 5 88999999999999999999 9999999999999865
No 48
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.31 E-value=5.4e-12 Score=107.11 Aligned_cols=77 Identities=19% Similarity=0.258 Sum_probs=68.4
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCee---cCeEE
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEV---MHLQL 171 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~---~g~~l 171 (184)
....++||+.+|..++|.||+++|++||.|.+|.|+.|+ ++.++|||||.|.+.++|.+| +..|++.+. ++.+|
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a--~~Alhn~ktlpG~~~pv 109 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEA--INALHNQKTLPGMHHPV 109 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHH--HHHhhcccccCCCCcce
Confidence 456699999999999999999999999999999999999 999999999999999999999 999988644 44444
Q ss_pred eeC
Q 029987 172 LSD 174 (184)
Q Consensus 172 ~~~ 174 (184)
.|.
T Consensus 110 qvk 112 (510)
T KOG0144|consen 110 QVK 112 (510)
T ss_pred eec
Confidence 443
No 49
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.30 E-value=5.2e-12 Score=96.82 Aligned_cols=77 Identities=16% Similarity=0.155 Sum_probs=68.2
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTI 176 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~ 176 (184)
..++|||+|||.++.+.||++||.+||.|..|.|...+ + ...||||+|+++.+|+.| |..-||.-+.+..|.|.-+
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~-g-~ppfafVeFEd~RDAeDA--iygRdGYdydg~rLRVEfp 80 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP-G-PPPFAFVEFEDPRDAEDA--IYGRDGYDYDGCRLRVEFP 80 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC-C-CCCeeEEEecCccchhhh--hhcccccccCcceEEEEec
Confidence 46799999999999999999999999999999885433 2 346999999999999999 9999999999999998765
Q ss_pred c
Q 029987 177 M 177 (184)
Q Consensus 177 ~ 177 (184)
.
T Consensus 81 r 81 (241)
T KOG0105|consen 81 R 81 (241)
T ss_pred c
Confidence 4
No 50
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.28 E-value=4.1e-12 Score=110.44 Aligned_cols=76 Identities=22% Similarity=0.287 Sum_probs=72.4
Q ss_pred EEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCCc
Q 029987 100 KLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTIM 177 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~~ 177 (184)
.|||+||+++++++.|+.+|++||.|..|.++.|. +|.++||+||+|.+.++|.+| +.+|||.+|.|+.|.|+...
T Consensus 280 rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a--~e~lngfelAGr~ikV~~v~ 356 (549)
T KOG0147|consen 280 RLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKA--LEQLNGFELAGRLIKVSVVT 356 (549)
T ss_pred hhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHH--HHHhccceecCceEEEEEee
Confidence 48999999999999999999999999999999998 999999999999999999999 99999999999999987544
No 51
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.25 E-value=8e-11 Score=105.93 Aligned_cols=70 Identities=19% Similarity=0.218 Sum_probs=65.2
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
++||||+.|+.++++.||..+|+.||+|.+|.++ .++|||||++.+..+|++| +++|...++..+.|.+.
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li-----~~R~cAfI~M~~RqdA~ka--lqkl~n~kv~~k~Iki~ 490 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILI-----PPRGCAFIKMVRRQDAEKA--LQKLSNVKVADKTIKIA 490 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeec-----cCCceeEEEEeehhHHHHH--HHHHhcccccceeeEEe
Confidence 5799999999999999999999999999999887 4689999999999999999 99999999999988665
No 52
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.24 E-value=1.7e-11 Score=104.49 Aligned_cols=88 Identities=19% Similarity=0.198 Sum_probs=69.9
Q ss_pred CCcchhhhhhhcCCCCCC---CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHH
Q 029987 78 WQHDLFEDSLRAAGISGI---EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFL 154 (184)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~---~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~ 154 (184)
|.|...-++.......+. ..-..|||.||+.++|++.|+++|++||.|..|..+ +.||||+|.+.++|.+
T Consensus 236 wgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~-------rDYaFVHf~eR~davk 308 (506)
T KOG0117|consen 236 WGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKP-------RDYAFVHFAEREDAVK 308 (506)
T ss_pred cCCcceeeccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecc-------cceeEEeecchHHHHH
Confidence 666666555432222222 223478999999999999999999999999998766 4599999999999999
Q ss_pred HHHHHHhCCCeecCeEEeeC
Q 029987 155 WVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 155 A~~i~~l~g~~~~g~~l~~~ 174 (184)
| ++.+||++|.|..|.+.
T Consensus 309 A--m~~~ngkeldG~~iEvt 326 (506)
T KOG0117|consen 309 A--MKETNGKELDGSPIEVT 326 (506)
T ss_pred H--HHHhcCceecCceEEEE
Confidence 9 99999999998877654
No 53
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.24 E-value=6e-12 Score=106.83 Aligned_cols=75 Identities=23% Similarity=0.282 Sum_probs=68.2
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCee---cCeEEeeC
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEV---MHLQLLSD 174 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~---~g~~l~~~ 174 (184)
..+|||+-|+..+||.|++++|++||.|++|.|..|..+.++|||||+|...+.|..| |+.|||..- ...+|+|.
T Consensus 124 e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~A--ika~ng~~tmeGcs~PLVVk 201 (510)
T KOG0144|consen 124 ERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAA--IKALNGTQTMEGCSQPLVVK 201 (510)
T ss_pred chhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHH--HHhhccceeeccCCCceEEE
Confidence 6799999999999999999999999999999999999999999999999999999999 999999633 34466664
No 54
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.23 E-value=1.1e-11 Score=100.72 Aligned_cols=68 Identities=15% Similarity=0.193 Sum_probs=64.2
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCC
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~ 175 (184)
.+|||+|||..+++.+|+.||++||.|.+|+|+ +.|+||+.++...|+.| |..|+|.+|+|..|.|..
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv-------KNYgFVHiEdktaaeda--irNLhgYtLhg~nInVea 70 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIV-------KNYGFVHIEDKTAAEDA--IRNLHGYTLHGVNINVEA 70 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeee-------cccceEEeecccccHHH--HhhcccceecceEEEEEe
Confidence 489999999999999999999999999999998 45999999999999999 999999999999999874
No 55
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=5.9e-12 Score=98.85 Aligned_cols=76 Identities=17% Similarity=0.176 Sum_probs=72.4
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
...+|||++|...|++.-|...|-+||.|+.|.++.|- +.+++||+||+|+..++|..| |..||+.+|.|+.|.|.
T Consensus 9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaA--iDNMnesEL~GrtirVN 85 (298)
T KOG0111|consen 9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAA--IDNMNESELFGRTIRVN 85 (298)
T ss_pred cceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHH--hhcCchhhhcceeEEEe
Confidence 46799999999999999999999999999999999888 999999999999999999999 99999999999998775
No 56
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.22 E-value=6.9e-11 Score=94.97 Aligned_cols=80 Identities=14% Similarity=0.125 Sum_probs=74.1
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
....+..|||=||.+++.|.-|.++|.+||.|..|.++.|. +.+.+||+||++.+.++|.-| |..|||..+.++.|.
T Consensus 274 ~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamA--i~sLNGy~lg~rvLQ 351 (360)
T KOG0145|consen 274 GPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMA--IASLNGYRLGDRVLQ 351 (360)
T ss_pred CCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHH--HHHhcCccccceEEE
Confidence 34457799999999999999999999999999999999999 688999999999999999999 999999999999988
Q ss_pred eCC
Q 029987 173 SDT 175 (184)
Q Consensus 173 ~~~ 175 (184)
|+-
T Consensus 352 VsF 354 (360)
T KOG0145|consen 352 VSF 354 (360)
T ss_pred EEE
Confidence 763
No 57
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.21 E-value=4.5e-11 Score=102.28 Aligned_cols=73 Identities=15% Similarity=0.198 Sum_probs=69.7
Q ss_pred EEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCCc
Q 029987 101 LYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTIM 177 (184)
Q Consensus 101 l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~~ 177 (184)
|||.||++.++..+|.++|+.||+|++|.+..+.+| ++|+ ||+|++.+.|.+| |..+||..+.+..|.+....
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g-~kg~-FV~f~~e~~a~~a--i~~~ng~ll~~kki~vg~~~ 151 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENG-SKGY-FVQFESEESAKKA--IEKLNGMLLNGKKIYVGLFE 151 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCC-ceee-EEEeCCHHHHHHH--HHHhcCcccCCCeeEEeecc
Confidence 999999999999999999999999999999999988 8999 9999999999999 99999999999999986543
No 58
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.19 E-value=8.4e-11 Score=104.06 Aligned_cols=70 Identities=13% Similarity=0.196 Sum_probs=58.6
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhcc------------CCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCe
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEI------------GELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEE 165 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~------------G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~ 165 (184)
..+|||+|||+.+|+++|+++|.++ +.|..+.+ .+.+|||||+|.+.++|..| | .|||..
T Consensus 175 ~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~-----~~~kg~afVeF~~~e~A~~A--l-~l~g~~ 246 (509)
T TIGR01642 175 ARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI-----NKEKNFAFLEFRTVEEATFA--M-ALDSII 246 (509)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE-----CCCCCEEEEEeCCHHHHhhh--h-cCCCeE
Confidence 4589999999999999999999875 23333333 35679999999999999999 8 599999
Q ss_pred ecCeEEeeCC
Q 029987 166 VMHLQLLSDT 175 (184)
Q Consensus 166 ~~g~~l~~~~ 175 (184)
+.++.|.+..
T Consensus 247 ~~g~~l~v~r 256 (509)
T TIGR01642 247 YSNVFLKIRR 256 (509)
T ss_pred eeCceeEecC
Confidence 9999998863
No 59
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=6e-11 Score=98.79 Aligned_cols=81 Identities=16% Similarity=0.128 Sum_probs=75.9
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
..++...|||..|.+-+|.+||+-+|+.||.|..|.|+.|+ +|.+.-||||+|++.+++++| .-+|++..|..+.|-
T Consensus 235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~A--yFKMdNvLIDDrRIH 312 (479)
T KOG0415|consen 235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQA--YFKMDNVLIDDRRIH 312 (479)
T ss_pred cCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHH--HhhhcceeeccceEE
Confidence 44677899999999999999999999999999999999999 999999999999999999999 999999999999998
Q ss_pred eCCC
Q 029987 173 SDTI 176 (184)
Q Consensus 173 ~~~~ 176 (184)
|+-.
T Consensus 313 VDFS 316 (479)
T KOG0415|consen 313 VDFS 316 (479)
T ss_pred eehh
Confidence 8743
No 60
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=99.13 E-value=2.8e-10 Score=71.46 Aligned_cols=54 Identities=20% Similarity=0.167 Sum_probs=47.5
Q ss_pred HHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 115 IRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 115 l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
|.++|++||+|..+.+..+. +++|||+|.+.++|..| ++.|||..+.+++|.|+
T Consensus 1 L~~~f~~fG~V~~i~~~~~~----~~~a~V~f~~~~~A~~a--~~~l~~~~~~g~~l~V~ 54 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK----RGFAFVEFASVEDAQKA--IEQLNGRQFNGRPLKVS 54 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS----TTEEEEEESSHHHHHHH--HHHHTTSEETTEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC----CCEEEEEECCHHHHHHH--HHHhCCCEECCcEEEEE
Confidence 67899999999999886433 58999999999999999 99999999999998875
No 61
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.08 E-value=1.2e-10 Score=94.83 Aligned_cols=71 Identities=20% Similarity=0.213 Sum_probs=66.0
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
....|+|+|+||.+.++.+||++.|++||+|.+|+|+ ++++||+|+..++|..| |+.|||.++.|..+.|.
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdiv-------kdy~fvh~d~~eda~~a--ir~l~~~~~~gk~m~vq 145 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIV-------KDYAFVHFDRAEDAVEA--IRGLDNTEFQGKRMHVQ 145 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcccCCceeeeee-------cceeEEEEeeccchHHH--Hhcccccccccceeeee
Confidence 4567899999999999999999999999999999998 67999999999999999 99999999988887665
No 62
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.04 E-value=2.6e-10 Score=92.04 Aligned_cols=79 Identities=10% Similarity=0.143 Sum_probs=72.2
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
.-+.+|+|||=.||.+..+.||-..|-.||.|.+.++..|+ |..++.|+||.|+++.+|+.| |..|||..|.=+.|+
T Consensus 281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaA--IqAMNGFQIGMKRLK 358 (371)
T KOG0146|consen 281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAA--IQAMNGFQIGMKRLK 358 (371)
T ss_pred cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHH--HHHhcchhhhhhhhh
Confidence 45679999999999999999999999999999999999999 999999999999999999999 999999988655555
Q ss_pred eC
Q 029987 173 SD 174 (184)
Q Consensus 173 ~~ 174 (184)
|.
T Consensus 359 VQ 360 (371)
T KOG0146|consen 359 VQ 360 (371)
T ss_pred hh
Confidence 43
No 63
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.01 E-value=1.2e-09 Score=85.98 Aligned_cols=75 Identities=16% Similarity=0.228 Sum_probs=65.6
Q ss_pred CCCcEEEEeCCCCCCCHHHHHH----HhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEE
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRE----LFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQL 171 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~----~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l 171 (184)
.+..||||.||+..+..++|+. ||++||.|..|... ++.+.+|.|||+|++.+.|..| +..|+|..+-|.++
T Consensus 7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~--kt~KmRGQA~VvFk~~~~As~A--~r~l~gfpFygK~m 82 (221)
T KOG4206|consen 7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAF--KTPKMRGQAFVVFKETEAASAA--LRALQGFPFYGKPM 82 (221)
T ss_pred CCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEec--CCCCccCceEEEecChhHHHHH--HHHhcCCcccCchh
Confidence 3444999999999999999888 99999999877654 5678899999999999999999 99999999988876
Q ss_pred eeC
Q 029987 172 LSD 174 (184)
Q Consensus 172 ~~~ 174 (184)
.+.
T Consensus 83 riq 85 (221)
T KOG4206|consen 83 RIQ 85 (221)
T ss_pred hee
Confidence 654
No 64
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.99 E-value=6.9e-10 Score=84.89 Aligned_cols=80 Identities=23% Similarity=0.299 Sum_probs=71.7
Q ss_pred CCCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEE-EEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeE
Q 029987 93 SGIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRY-AIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQ 170 (184)
Q Consensus 93 ~~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v-~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~ 170 (184)
.....+.+|||+||.+.+.+.-|.++|+.||.+... .+++++ +|.++||+||.|.+.+.+.+| |..+||..+..++
T Consensus 91 ~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~a--i~s~ngq~l~nr~ 168 (203)
T KOG0131|consen 91 KNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAA--IGSMNGQYLCNRP 168 (203)
T ss_pred ccccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHH--HHHhccchhcCCc
Confidence 455667899999999999999999999999988663 677788 899999999999999999999 9999999999998
Q ss_pred EeeC
Q 029987 171 LLSD 174 (184)
Q Consensus 171 l~~~ 174 (184)
|.|+
T Consensus 169 itv~ 172 (203)
T KOG0131|consen 169 ITVS 172 (203)
T ss_pred eEEE
Confidence 8775
No 65
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.97 E-value=1.9e-09 Score=83.85 Aligned_cols=76 Identities=17% Similarity=0.229 Sum_probs=67.4
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhcc-CCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEI-GELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~-G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
....-+||..+|..+.+.++..+|.+| |.|..+.+-+++ ||.++|||||+|++.+.|..| -..||++.++++-|.+
T Consensus 47 ~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~Ia--AETMNNYLl~e~lL~c 124 (214)
T KOG4208|consen 47 EIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIA--AETMNNYLLMEHLLEC 124 (214)
T ss_pred CCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHH--HHHhhhhhhhhheeee
Confidence 345578999999999999999999987 788888887888 999999999999999999999 9999999888776654
No 66
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.96 E-value=1.5e-09 Score=92.70 Aligned_cols=76 Identities=17% Similarity=0.117 Sum_probs=68.4
Q ss_pred CCCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 93 SGIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 93 ~~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
......|+|||.|||++.||+-|++-|..||.|.+++|+ .+|+++| .|.|.++++|+.| +..|||.+|.++.|.
T Consensus 531 gaarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadim--e~GkskG--VVrF~s~edAEra--~a~Mngs~l~Gr~I~ 604 (608)
T KOG4212|consen 531 GAARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIM--ENGKSKG--VVRFFSPEDAERA--CALMNGSRLDGRNIK 604 (608)
T ss_pred cccccccEEEEecCCccccHHHHHHHHHhccceehhhhh--ccCCccc--eEEecCHHHHHHH--HHHhccCcccCceee
Confidence 344567899999999999999999999999999999884 4578877 8999999999999 999999999999998
Q ss_pred eC
Q 029987 173 SD 174 (184)
Q Consensus 173 ~~ 174 (184)
|.
T Consensus 605 V~ 606 (608)
T KOG4212|consen 605 VT 606 (608)
T ss_pred ee
Confidence 75
No 67
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.88 E-value=4.9e-09 Score=93.84 Aligned_cols=79 Identities=24% Similarity=0.151 Sum_probs=68.1
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCC----CCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNG----RPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g----~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
..++|||.||++++|.++|..+|...|.|..+.|..-++. .|.|||||+|.++++|+.| ++.|+|..|.|+.|.
T Consensus 514 ~~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a--~k~lqgtvldGH~l~ 591 (725)
T KOG0110|consen 514 TETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAA--LKALQGTVLDGHKLE 591 (725)
T ss_pred cchhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHH--HHHhcCceecCceEE
Confidence 3455999999999999999999999999999877655433 2569999999999999999 999999999999887
Q ss_pred eCCCc
Q 029987 173 SDTIM 177 (184)
Q Consensus 173 ~~~~~ 177 (184)
+.-..
T Consensus 592 lk~S~ 596 (725)
T KOG0110|consen 592 LKISE 596 (725)
T ss_pred EEecc
Confidence 76443
No 68
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.86 E-value=2.9e-09 Score=86.01 Aligned_cols=68 Identities=18% Similarity=0.294 Sum_probs=64.0
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
...+|||+-|...-.|+|++.+|..||+|.+|.+...++|.++|||||.|.+..+|+.| |..|+|..-
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaA--I~aLHgSqT 85 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAA--INALHGSQT 85 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHH--HHHhccccc
Confidence 45699999999999999999999999999999999999999999999999999999999 999999643
No 69
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.86 E-value=4.2e-09 Score=90.20 Aligned_cols=79 Identities=20% Similarity=0.270 Sum_probs=74.0
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
......|||.||+..++.+.|+++|+.+|+|..+.|+.+..++++||+||+|...++|.+| +..+|+..+.+..|.++
T Consensus 267 ~~~~~nl~vknld~~~~~e~L~~~f~~~GeI~s~kv~~~~~g~skG~gfV~fs~~eeA~~A--~~~~n~~~i~~k~l~va 344 (369)
T KOG0123|consen 267 SLQGANLYVKNLDETLSDEKLRKIFSSFGEITSAKVMVDENGKSKGFGFVEFSSPEEAKKA--MTEMNGRLIGGKPLYVA 344 (369)
T ss_pred cccccccccccCccccchhHHHHHHhcccceeeEEEEeccCCCccceEEEEcCCHHHHHHH--HHhhChhhhcCCchhhh
Confidence 4567799999999999999999999999999999999999999999999999999999999 99999999999888776
Q ss_pred C
Q 029987 175 T 175 (184)
Q Consensus 175 ~ 175 (184)
.
T Consensus 345 v 345 (369)
T KOG0123|consen 345 V 345 (369)
T ss_pred H
Confidence 4
No 70
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.85 E-value=2.3e-09 Score=95.85 Aligned_cols=76 Identities=21% Similarity=0.211 Sum_probs=69.5
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
..|+|.|.|||+..+-.+++++|..||.|..|+|+.-. .+.++|||||+|-++.+|..| +..|..+.|.|+.|++.
T Consensus 612 ~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA--~~al~STHlyGRrLVLE 688 (725)
T KOG0110|consen 612 KGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNA--FDALGSTHLYGRRLVLE 688 (725)
T ss_pred ccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHH--HHhhcccceechhhhee
Confidence 46899999999999999999999999999999997553 566799999999999999999 99999999999998875
No 71
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.81 E-value=1.3e-08 Score=85.35 Aligned_cols=77 Identities=13% Similarity=0.172 Sum_probs=68.9
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCC
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTI 176 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~ 176 (184)
=.+|||..++++.+++||+..|+.||+|.+|.+-.++ .+.++||+||+|.+......| |..||=..|.|.-|.|...
T Consensus 210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eA--iasMNlFDLGGQyLRVGk~ 287 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEA--IASMNLFDLGGQYLRVGKC 287 (544)
T ss_pred hheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHH--hhhcchhhcccceEecccc
Confidence 3589999999999999999999999999999999999 667999999999999999999 9999887777777766543
No 72
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.79 E-value=1.9e-08 Score=83.75 Aligned_cols=76 Identities=20% Similarity=0.170 Sum_probs=62.6
Q ss_pred CCCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 93 SGIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 93 ~~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
+.+..-++|||++|...+++.+|++.|.+||+|.++.+.. .+++|||+|.+.+.|+.|. .+.+|...|.|+.|.
T Consensus 223 PeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~-----~~~CAFv~ftTR~aAE~Aa-e~~~n~lvI~G~Rl~ 296 (377)
T KOG0153|consen 223 PEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILP-----RKGCAFVTFTTREAAEKAA-EKSFNKLVINGFRLK 296 (377)
T ss_pred CcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeec-----ccccceeeehhhHHHHHHH-HhhcceeeecceEEE
Confidence 3444557999999999999999999999999999998873 3569999999999999993 345676677888776
Q ss_pred eC
Q 029987 173 SD 174 (184)
Q Consensus 173 ~~ 174 (184)
+.
T Consensus 297 i~ 298 (377)
T KOG0153|consen 297 IK 298 (377)
T ss_pred EE
Confidence 63
No 73
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.79 E-value=2.6e-08 Score=82.88 Aligned_cols=80 Identities=23% Similarity=0.330 Sum_probs=72.2
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCee--------EEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGELK--------RYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~--------~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
....+.|||+|||.++|.+++.++|++||-|. .|.|..+..|..+|=|+++|-..+++.-| ++.|++..+
T Consensus 131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA--~~ilDe~~~ 208 (382)
T KOG1548|consen 131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELA--IKILDEDEL 208 (382)
T ss_pred cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHH--HHHhCcccc
Confidence 34577899999999999999999999999774 37788888999999999999999999999 999999999
Q ss_pred cCeEEeeCCC
Q 029987 167 MHLQLLSDTI 176 (184)
Q Consensus 167 ~g~~l~~~~~ 176 (184)
.|+.|.|...
T Consensus 209 rg~~~rVerA 218 (382)
T KOG1548|consen 209 RGKKLRVERA 218 (382)
T ss_pred cCcEEEEehh
Confidence 9999988754
No 74
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.77 E-value=7.4e-09 Score=86.46 Aligned_cols=59 Identities=27% Similarity=0.349 Sum_probs=55.6
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHH
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLW 155 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A 155 (184)
..++|||++|+|.++++.|++.|.+||+|..|.++.|+ +++++||+||+|++++...++
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~v 64 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAV 64 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchhee
Confidence 57899999999999999999999999999999999999 999999999999988777776
No 75
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.75 E-value=1.4e-08 Score=81.67 Aligned_cols=79 Identities=19% Similarity=0.156 Sum_probs=72.1
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
...+.+.+||+|+.+.+|.++++..|+.||.|..+.|..|+ .+.++||+||+|.+.+.++.| ++ ||+..|.+.+|.
T Consensus 97 ~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~a--y~-l~gs~i~~~~i~ 173 (231)
T KOG4209|consen 97 KEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEA--YK-LDGSEIPGPAIE 173 (231)
T ss_pred hccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHH--hh-cCCcccccccce
Confidence 34467799999999999999999999999999999999999 778999999999999999999 77 999999999988
Q ss_pred eCC
Q 029987 173 SDT 175 (184)
Q Consensus 173 ~~~ 175 (184)
+..
T Consensus 174 vt~ 176 (231)
T KOG4209|consen 174 VTL 176 (231)
T ss_pred eee
Confidence 764
No 76
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.74 E-value=1e-08 Score=81.25 Aligned_cols=70 Identities=11% Similarity=0.115 Sum_probs=63.7
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCCc
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTIM 177 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~~ 177 (184)
..|||++||+.+.+.+|++||..||.+..|.|. .||+||+|++..+|..| |..+|+..|.+..+++..+.
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk-------~gf~fv~fed~rda~Da--v~~l~~~~l~~e~~vve~~r 71 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK-------NGFGFVEFEDPRDADDA--VHDLDGKELCGERLVVEHAR 71 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee-------cccceeccCchhhhhcc--cchhcCceecceeeeeeccc
Confidence 479999999999999999999999999999886 57999999999999999 99999999998887776554
No 77
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.73 E-value=2.8e-08 Score=87.48 Aligned_cols=79 Identities=15% Similarity=0.210 Sum_probs=70.9
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~ 175 (184)
-+..|||++|+..+...||+.||++||.|+-+.|+++- +--.+.|+||++.+.++|.+| |..|+-++|+|+.|.|..
T Consensus 404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkC--I~hLHrTELHGrmISVEk 481 (940)
T KOG4661|consen 404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKC--IEHLHRTELHGRMISVEK 481 (940)
T ss_pred cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHH--HHHhhhhhhcceeeeeee
Confidence 35689999999999999999999999999999998877 333578999999999999999 999999999999999876
Q ss_pred Cc
Q 029987 176 IM 177 (184)
Q Consensus 176 ~~ 177 (184)
+.
T Consensus 482 aK 483 (940)
T KOG4661|consen 482 AK 483 (940)
T ss_pred cc
Confidence 54
No 78
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.66 E-value=5.1e-08 Score=87.49 Aligned_cols=78 Identities=24% Similarity=0.265 Sum_probs=68.4
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC----CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCe
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK----NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHL 169 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~----~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~ 169 (184)
+.+..|.|||+||++.++++.|...|..||+|..|.|++.+ ..+.+-|+||.|-+..+|++| ++.|+|..++..
T Consensus 170 gDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era--~k~lqg~iv~~~ 247 (877)
T KOG0151|consen 170 GDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERA--LKELQGIIVMEY 247 (877)
T ss_pred CCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHH--HHHhcceeeeee
Confidence 45667899999999999999999999999999999998777 233466899999999999999 999999988777
Q ss_pred EEee
Q 029987 170 QLLS 173 (184)
Q Consensus 170 ~l~~ 173 (184)
.+.+
T Consensus 248 e~K~ 251 (877)
T KOG0151|consen 248 EMKL 251 (877)
T ss_pred eeee
Confidence 6654
No 79
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.65 E-value=5.8e-08 Score=84.04 Aligned_cols=75 Identities=21% Similarity=0.330 Sum_probs=60.7
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
...+|||.|||++++.++|+++|..||+|+...|..-. .++...||||+|.+.+.++.| |..- -..+.++.|.|.
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~--i~As-p~~ig~~kl~Ve 362 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNA--IEAS-PLEIGGRKLNVE 362 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhh--hhcC-ccccCCeeEEEE
Confidence 34459999999999999999999999999997775433 455558999999999999999 6543 556677777765
No 80
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.65 E-value=1.3e-08 Score=80.16 Aligned_cols=77 Identities=17% Similarity=0.195 Sum_probs=69.7
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~ 175 (184)
+-..+|||.|+...|+++-|.|+|-+.|+|..|.|..+++++.+ ||||.|++.....-| ++-+||..+-+.+|.+..
T Consensus 7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a--~~L~ng~~l~~~e~q~~~ 83 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLA--GQLENGDDLEEDEEQRTL 83 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCc-eeeeecccccchhhh--hhhcccchhccchhhccc
Confidence 44679999999999999999999999999999999888888887 999999999999999 999999999888776654
No 81
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.62 E-value=4.2e-07 Score=70.10 Aligned_cols=61 Identities=15% Similarity=0.163 Sum_probs=55.2
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
...|.|++||+..+|+||++...+.|.|....+..| |++.|+|-..++.+-| |.+|+.+++
T Consensus 115 e~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD------g~GvV~~~r~eDMkYA--vr~ld~~~~ 175 (241)
T KOG0105|consen 115 EYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD------GVGVVEYLRKEDMKYA--VRKLDDQKF 175 (241)
T ss_pred ceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc------cceeeeeeehhhHHHH--HHhhccccc
Confidence 448999999999999999999999999999988754 5889999999999999 999988766
No 82
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.61 E-value=3.3e-08 Score=86.55 Aligned_cols=70 Identities=20% Similarity=0.129 Sum_probs=62.0
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
+..+|+|-|||..|++++|.++|+.||+|..|+... ..+|..||+|.+.-+|++| +++|++.++.+..|.
T Consensus 74 ~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~----~~~~~~~v~FyDvR~A~~A--lk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 74 NQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETP----NKRGIVFVEFYDVRDAERA--LKALNRREIAGKRIK 143 (549)
T ss_pred ccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccc----ccCceEEEEEeehHhHHHH--HHHHHHHHhhhhhhc
Confidence 445899999999999999999999999999865542 2468999999999999999 999999999888776
No 83
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.58 E-value=9.4e-08 Score=76.73 Aligned_cols=79 Identities=13% Similarity=0.136 Sum_probs=71.9
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
+...+||.+.|..+++.+.|...|.+|-......++.|+ +|+++||+||.|.+..++..| +.+|||.-+..++|..-
T Consensus 188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rA--mrem~gkyVgsrpiklR 265 (290)
T KOG0226|consen 188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRA--MREMNGKYVGSRPIKLR 265 (290)
T ss_pred cccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHH--HHhhcccccccchhHhh
Confidence 356799999999999999999999999888788888998 999999999999999999999 99999999999888765
Q ss_pred CC
Q 029987 175 TI 176 (184)
Q Consensus 175 ~~ 176 (184)
..
T Consensus 266 kS 267 (290)
T KOG0226|consen 266 KS 267 (290)
T ss_pred hh
Confidence 44
No 84
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.57 E-value=9e-08 Score=80.01 Aligned_cols=75 Identities=19% Similarity=0.306 Sum_probs=62.7
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
...+|||+.||.+++++++++.|.+||.|..+.+++|. +.+++||+||+|.+.+.+.++ ....-+.|+++.+.|.
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv---~~~~f~~~~gk~vevk 171 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKV---TLQKFHDFNGKKVEVK 171 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEecccccccee---cccceeeecCceeeEe
Confidence 35589999999999999999999999999999999999 889999999999998888887 3334455555555544
No 85
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=98.57 E-value=4.8e-07 Score=63.29 Aligned_cols=67 Identities=13% Similarity=0.154 Sum_probs=59.7
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhc--cCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeec
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSE--IGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVM 167 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~--~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~ 167 (184)
|||.|.|||...|.++|.+++.. .|....+.|+.|- ++.+.|||||.|.+++.|.+- .+.++|.++.
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F--~~~f~g~~w~ 71 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRF--YKAFNGKKWP 71 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHH--HHHHcCCccc
Confidence 79999999999999999999854 4667778888888 888999999999999999999 9999998884
No 86
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.53 E-value=4.2e-07 Score=76.08 Aligned_cols=84 Identities=14% Similarity=0.207 Sum_probs=73.8
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCee--------EEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCe
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGELK--------RYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEE 165 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~--------~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~ 165 (184)
.....+|||-+||..+++++|.++|.+++.|. .|.|..|+ |++++|-|.|+|++...|+.| |..|++..
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaa--i~~~agkd 140 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAA--IEWFAGKD 140 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhh--hhhhcccc
Confidence 44567999999999999999999999999874 25666777 999999999999999999999 99999999
Q ss_pred ecCeEEeeCCCccee
Q 029987 166 VMHLQLLSDTIMYCW 180 (184)
Q Consensus 166 ~~g~~l~~~~~~~~~ 180 (184)
+++..|.|+....|.
T Consensus 141 f~gn~ikvs~a~~r~ 155 (351)
T KOG1995|consen 141 FCGNTIKVSLAERRT 155 (351)
T ss_pred ccCCCchhhhhhhcc
Confidence 999888888766553
No 87
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.41 E-value=1.4e-07 Score=82.65 Aligned_cols=77 Identities=14% Similarity=0.187 Sum_probs=71.1
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCC
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTI 176 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~ 176 (184)
..+||+-.|+..++.-+|.+||+.+|.|..|.++.|+ ++.++|.|||+|.+.+....| | .|.|+.++|.+|+|..+
T Consensus 179 ~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~a--i-aLsGqrllg~pv~vq~s 255 (549)
T KOG0147|consen 179 QRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLA--I-ALSGQRLLGVPVIVQLS 255 (549)
T ss_pred HHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhH--h-hhcCCcccCceeEeccc
Confidence 3588899999999999999999999999999999999 999999999999999888888 5 89999999999999876
Q ss_pred c
Q 029987 177 M 177 (184)
Q Consensus 177 ~ 177 (184)
+
T Consensus 256 E 256 (549)
T KOG0147|consen 256 E 256 (549)
T ss_pred H
Confidence 5
No 88
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.36 E-value=1.7e-06 Score=68.58 Aligned_cols=67 Identities=15% Similarity=0.167 Sum_probs=55.5
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCC-CceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGR-PSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~-~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
-++|||++||.+|...||..||..|---+.+.|.+.. .++ .+-+|||+|.+..+|+.| ++.|||+.+
T Consensus 34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aa--mnaLNGvrF 102 (284)
T KOG1457|consen 34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAA--MNALNGVRF 102 (284)
T ss_pred cceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHH--HHHhcCeee
Confidence 5699999999999999999999987666666664433 322 236999999999999999 999999987
No 89
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.31 E-value=2e-06 Score=74.69 Aligned_cols=73 Identities=22% Similarity=0.239 Sum_probs=57.2
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
.....|-+.+|||++|++||.+||+.++ |..+ .+.+ +|+..|-|||+|.+.+++++| ++ .|-..+.++-|.|=
T Consensus 8 ~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~--~~~r~~Gr~sGeA~Ve~~seedv~~A--lk-kdR~~mg~RYIEVf 81 (510)
T KOG4211|consen 8 STAFEVRLRGLPWSATEKEILDFFSNCG-IENL--EIPRRNGRPSGEAYVEFTSEEDVEKA--LK-KDRESMGHRYIEVF 81 (510)
T ss_pred CcceEEEecCCCccccHHHHHHHHhcCc-eeEE--EEeccCCCcCcceEEEeechHHHHHH--HH-hhHHHhCCceEEEE
Confidence 3455677889999999999999999998 7764 3445 799999999999999999999 43 34455555555543
No 90
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.28 E-value=3e-06 Score=73.61 Aligned_cols=76 Identities=18% Similarity=0.208 Sum_probs=60.3
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeE-EEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKR-YAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~-v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
.+...|.+.+||+.+|++||.+||+-.-.|.. +.++.++.+++.|-|||.|++.+.|++| +.. +-..|.++-|.|-
T Consensus 101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~A--l~r-hre~iGhRYIEvF 177 (510)
T KOG4211|consen 101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIA--LGR-HRENIGHRYIEVF 177 (510)
T ss_pred CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHH--HHH-HHHhhccceEEee
Confidence 45568889999999999999999997655544 6677888899999999999999999999 433 4455556655543
No 91
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.27 E-value=9.7e-07 Score=77.69 Aligned_cols=78 Identities=18% Similarity=0.198 Sum_probs=71.8
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDT 175 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~ 175 (184)
...++||++||..+++.++.|+...||++....++.|. +|.++||||.+|.++.....| +..+||+.+.+..|++..
T Consensus 288 ~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A--~agLnGm~lgd~~lvvq~ 365 (500)
T KOG0120|consen 288 SPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQA--IAGLNGMQLGDKKLVVQR 365 (500)
T ss_pred ccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhh--hcccchhhhcCceeEeeh
Confidence 34589999999999999999999999999999999888 799999999999999999999 999999999988888764
Q ss_pred C
Q 029987 176 I 176 (184)
Q Consensus 176 ~ 176 (184)
.
T Consensus 366 A 366 (500)
T KOG0120|consen 366 A 366 (500)
T ss_pred h
Confidence 3
No 92
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.15 E-value=3e-05 Score=70.08 Aligned_cols=75 Identities=16% Similarity=0.103 Sum_probs=66.3
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCe-eEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGEL-KRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v-~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
.+.|-+.|.|++++-+||.+||..|-.+ .+|.+.++..|...|-|.|.|++.++|.+| ...+++.+|..+.|.+.
T Consensus 867 p~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A--~~dl~~~~i~nr~V~l~ 942 (944)
T KOG4307|consen 867 PRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRA--SMDLDGQKIRNRVVSLR 942 (944)
T ss_pred CeEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhh--hhccccCcccceeEEEE
Confidence 3478899999999999999999999865 357777888999999999999999999999 99999999988877653
No 93
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.14 E-value=1.6e-06 Score=68.83 Aligned_cols=69 Identities=16% Similarity=0.102 Sum_probs=61.9
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
.+.+.++|.||+..+.+.+|.+.|.++|++....+ ..+++||+|...++|.+| +..+++.++.++.|.+
T Consensus 97 ~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~-------~~~~~~v~Fs~~~da~ra--~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 97 RTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA-------RRNFAFVEFSEQEDAKRA--LEKLDGKKLNGRRISV 165 (216)
T ss_pred cccceeeeccchhhhhHHHHhhhhcccCCCchhhh-------hccccceeehhhhhhhhc--chhccchhhcCceeee
Confidence 45789999999999999999999999999855444 257999999999999999 9999999999999887
No 94
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.14 E-value=2.9e-06 Score=67.21 Aligned_cols=66 Identities=18% Similarity=0.294 Sum_probs=54.7
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
..-.+|||-||.+++||++|+.+|+.|--...++|. .+.|. .+||++|++.+.|..| +..|+|..|
T Consensus 208 ~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~-~~~g~--~vaf~~~~~~~~at~a--m~~lqg~~~ 273 (284)
T KOG1457|consen 208 RACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIR-ARGGM--PVAFADFEEIEQATDA--MNHLQGNLL 273 (284)
T ss_pred hhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEe-cCCCc--ceEeecHHHHHHHHHH--HHHhhccee
Confidence 344599999999999999999999999876666654 34454 3899999999999999 999998766
No 95
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=98.12 E-value=8.8e-06 Score=57.83 Aligned_cols=58 Identities=24% Similarity=0.226 Sum_probs=36.8
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhC
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYM 162 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~ 162 (184)
++.|+|.+++..++.++|+++|++||+|.+|.+... . -.|||-|.+.+.|+.| +.++.
T Consensus 1 G~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G---~--~~g~VRf~~~~~A~~a--~~~~~ 58 (105)
T PF08777_consen 1 GCILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG---D--TEGYVRFKTPEAAQKA--LEKLK 58 (105)
T ss_dssp --EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT------SEEEEEESS---HHHH--HHHHH
T ss_pred CeEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC---C--CEEEEEECCcchHHHH--HHHHH
Confidence 357899999999999999999999999999887632 2 3789999999999999 66553
No 96
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=98.05 E-value=3e-05 Score=52.52 Aligned_cols=67 Identities=19% Similarity=0.151 Sum_probs=46.6
Q ss_pred cEEEEeCCCCCCCHHH----HHHHhhccC-CeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 99 TKLYVSNLHPGVTNDD----IRELFSEIG-ELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~----l~~~F~~~G-~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
+.|+|.|||-+..... |+.|+..|| .|..| . .+.|+|.|.+.+.|.+| .+.|+|..+.|..|.|
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~-------~~tAilrF~~~~~A~RA--~KRmegEdVfG~kI~v 71 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--S-------GGTAILRFPNQEFAERA--QKRMEGEDVFGNKISV 71 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-----------TT-EEEEESSHHHHHHH--HHHHTT--SSSS--EE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--e-------CCEEEEEeCCHHHHHHH--HHhhcccccccceEEE
Confidence 4799999999988765 667777877 44433 2 46899999999999999 9999999999998888
Q ss_pred CCC
Q 029987 174 DTI 176 (184)
Q Consensus 174 ~~~ 176 (184)
...
T Consensus 72 ~~~ 74 (90)
T PF11608_consen 72 SFS 74 (90)
T ss_dssp ESS
T ss_pred EEc
Confidence 754
No 97
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.96 E-value=3.8e-05 Score=65.65 Aligned_cols=75 Identities=21% Similarity=0.216 Sum_probs=66.0
Q ss_pred CcEEEEeCCCC-CCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCC
Q 029987 98 GTKLYVSNLHP-GVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTI 176 (184)
Q Consensus 98 ~~~l~V~nL~~-~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~ 176 (184)
.+.|.|+||.. .||.+.|.-+|+.||+|..|.|.+++. --|+|.|.+...|+-| +..|+|..+.++.|.+...
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk----d~ALIQmsd~~qAqLA--~~hL~g~~l~gk~lrvt~S 370 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK----DNALIQMSDGQQAQLA--MEHLEGHKLYGKKLRVTLS 370 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC----cceeeeecchhHHHHH--HHHhhcceecCceEEEeec
Confidence 57888999965 599999999999999999999998762 4699999999999999 9999999999999888755
Q ss_pred cc
Q 029987 177 MY 178 (184)
Q Consensus 177 ~~ 178 (184)
.|
T Consensus 371 KH 372 (492)
T KOG1190|consen 371 KH 372 (492)
T ss_pred cC
Confidence 44
No 98
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.78 E-value=0.00014 Score=64.54 Aligned_cols=72 Identities=11% Similarity=0.049 Sum_probs=60.1
Q ss_pred CCCcEEEEeCCCCCCCH------HHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCe
Q 029987 96 EVGTKLYVSNLHPGVTN------DDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHL 169 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~------~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~ 169 (184)
--.+.|+|.|+|---.. .-|..+|+++|+|+...++.++.|..+||.|++|.+..+|+.| ++.|||..|...
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~a--VK~l~G~~ldkn 133 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKA--VKSLNGKRLDKN 133 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHH--HHhcccceeccc
Confidence 44568899999853222 2467889999999999999899777999999999999999999 999999998544
No 99
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.75 E-value=6.9e-05 Score=62.76 Aligned_cols=79 Identities=16% Similarity=0.234 Sum_probs=60.1
Q ss_pred CcEEEEeCCCCCCCHHH------HHHHhhccCCeeEEEEeeCC-----CCCCceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 98 GTKLYVSNLHPGVTNDD------IRELFSEIGELKRYAIHFDK-----NGRPSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~------l~~~F~~~G~v~~v~i~~d~-----~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
..-+||-+||+.+..|+ -.++|.+||.|..|-|...- +..+-| .||+|...++|.+| |.+.+|..+
T Consensus 114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~g-vYITy~~kedAarc--Ia~vDgs~~ 190 (480)
T COG5175 114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAG-VYITYSTKEDAARC--IAEVDGSLL 190 (480)
T ss_pred cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccce-EEEEecchHHHHHH--HHHhccccc
Confidence 34679999999888776 35899999999887663221 111222 39999999999999 999999999
Q ss_pred cCeEEeeC--CCcce
Q 029987 167 MHLQLLSD--TIMYC 179 (184)
Q Consensus 167 ~g~~l~~~--~~~~~ 179 (184)
+|+.|.-. ++.||
T Consensus 191 DGr~lkatYGTTKYC 205 (480)
T COG5175 191 DGRVLKATYGTTKYC 205 (480)
T ss_pred cCceEeeecCchHHH
Confidence 99988754 44455
No 100
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.74 E-value=0.00013 Score=61.84 Aligned_cols=69 Identities=16% Similarity=0.121 Sum_probs=52.9
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCe
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHL 169 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~ 169 (184)
.++..|.|.+|...+++.||-+-.+.||+|..+.++ ..+-.|.|+|++.+.|+.|+....-+-..+.+.
T Consensus 29 ~~spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~-----P~~r~alvefedi~~akn~Vnfaa~n~i~i~gq 97 (494)
T KOG1456|consen 29 NPSPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCM-----PHKRQALVEFEDIEGAKNCVNFAADNQIYIAGQ 97 (494)
T ss_pred CCCceEEEeccccccchhHHHHHHhcCCceEEEEec-----cccceeeeeeccccchhhheehhccCcccccCc
Confidence 345689999999999999999999999999888765 234579999999999999833333333344433
No 101
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.64 E-value=3.2e-05 Score=64.28 Aligned_cols=72 Identities=21% Similarity=0.241 Sum_probs=63.7
Q ss_pred EEE-EeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 100 KLY-VSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 100 ~l~-V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
++| |.||++.++.++|++.|..+|.|..+++..++ ++...|||||.|.+...+..| +.. +...+.++++.+.
T Consensus 186 ~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~--~~~-~~~~~~~~~~~~~ 259 (285)
T KOG4210|consen 186 TIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLA--LND-QTRSIGGRPLRLE 259 (285)
T ss_pred cceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHH--hhc-ccCcccCcccccc
Confidence 455 99999999999999999999999999998888 999999999999999998888 665 6778888877665
No 102
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=97.63 E-value=4.1e-05 Score=64.32 Aligned_cols=69 Identities=13% Similarity=0.142 Sum_probs=55.8
Q ss_pred EEEEeCCCCCCCHHHHHHHhhccC--CeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeE
Q 029987 100 KLYVSNLHPGVTNDDIRELFSEIG--ELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQ 170 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~~G--~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~ 170 (184)
.+||+||-|++|.+||.+.....| .+.++.+..++ +|+++|||+|...+....++- ++.|--.+|+|..
T Consensus 82 ~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~--MeiLP~k~iHGQ~ 153 (498)
T KOG4849|consen 82 CCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQT--MEILPTKTIHGQS 153 (498)
T ss_pred EEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHH--HHhcccceecCCC
Confidence 689999999999999999887766 33445555666 899999999999887777777 7777777777664
No 103
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.61 E-value=0.00033 Score=55.55 Aligned_cols=74 Identities=9% Similarity=0.041 Sum_probs=61.2
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeec-CeEEe
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVM-HLQLL 172 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~-g~~l~ 172 (184)
..++...|++.|||..++.+.|..+|.+|.-...+.++... .+.|||+|.+...|..| .+.+++.++- ..++.
T Consensus 142 ~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~----~~iAfve~~~d~~a~~a--~~~lq~~~it~~~~m~ 215 (221)
T KOG4206|consen 142 MAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR----SGIAFVEFLSDRQASAA--QQALQGFKITKKNTMQ 215 (221)
T ss_pred CCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC----CceeEEecchhhhhHHH--hhhhccceeccCceEE
Confidence 35567799999999999999999999999988888887433 46999999998888999 8999988775 44444
Q ss_pred e
Q 029987 173 S 173 (184)
Q Consensus 173 ~ 173 (184)
+
T Consensus 216 i 216 (221)
T KOG4206|consen 216 I 216 (221)
T ss_pred e
Confidence 4
No 104
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.61 E-value=9.2e-05 Score=62.93 Aligned_cols=74 Identities=11% Similarity=0.073 Sum_probs=61.6
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCC-eeE--EEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGE-LKR--YAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~-v~~--v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
...|.+.+||+..+.+||-+||..|.. |.. |+|+.+-.|++.|-|||.|.+.+.|..| .++.+......+-|.|
T Consensus 280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aa--aqk~hk~~mk~RYiEv 356 (508)
T KOG1365|consen 280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAA--AQKCHKKLMKSRYIEV 356 (508)
T ss_pred CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHH--HHHHHHhhcccceEEE
Confidence 447889999999999999999998874 444 8899999999999999999999999999 7777666555555544
No 105
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.58 E-value=0.00014 Score=61.91 Aligned_cols=75 Identities=15% Similarity=0.200 Sum_probs=62.7
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC----CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK----NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~----~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
..|-|.||.+.+|.++++.||...|.|..+.|..+. .-...-+|||.|.+...+..| +.|.+..+.++.|+|-
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~va---QhLtntvfvdraliv~ 84 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVA---QHLTNTVFVDRALIVR 84 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHH---hhhccceeeeeeEEEE
Confidence 388999999999999999999999999998886433 122346899999999888887 8999999999988875
Q ss_pred CC
Q 029987 175 TI 176 (184)
Q Consensus 175 ~~ 176 (184)
+.
T Consensus 85 p~ 86 (479)
T KOG4676|consen 85 PY 86 (479)
T ss_pred ec
Confidence 43
No 106
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.52 E-value=0.00031 Score=43.64 Aligned_cols=51 Identities=16% Similarity=0.161 Sum_probs=40.8
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHH
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLW 155 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A 155 (184)
+.|-|.+.++...+ ++...|.+||+|..+.+. ...-+.+|.|.+..+|++|
T Consensus 2 ~wI~V~Gf~~~~~~-~vl~~F~~fGeI~~~~~~-----~~~~~~~l~y~~~~~ae~A 52 (53)
T PF14605_consen 2 TWISVSGFPPDLAE-EVLEHFASFGEIVDIYVP-----ESTNWMYLKYKSRKDAEKA 52 (53)
T ss_pred cEEEEEeECchHHH-HHHHHHHhcCCEEEEEcC-----CCCcEEEEEECCHHHHHhh
Confidence 56888999887664 455688899999998775 2234899999999999998
No 107
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.43 E-value=0.0057 Score=52.16 Aligned_cols=80 Identities=15% Similarity=0.090 Sum_probs=67.5
Q ss_pred CCCCCCCCcEEEEeCCCCC-CCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCe
Q 029987 91 GISGIEVGTKLYVSNLHPG-VTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHL 169 (184)
Q Consensus 91 ~~~~~~~~~~l~V~nL~~~-vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~ 169 (184)
.+.+-.+++.+.|-+|... ++.+-|..+|..||.|..|.++..+ .|.|.|++.+..+.++| +..||+..+-|.
T Consensus 280 ~p~g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk----~gtamVemgd~~aver~--v~hLnn~~lfG~ 353 (494)
T KOG1456|consen 280 SPGGGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK----PGTAMVEMGDAYAVERA--VTHLNNIPLFGG 353 (494)
T ss_pred CCCCCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc----cceeEEEcCcHHHHHHH--HHHhccCccccc
Confidence 3455667889999999765 6777899999999999999998655 36899999999999999 999999999887
Q ss_pred EEeeCCC
Q 029987 170 QLLSDTI 176 (184)
Q Consensus 170 ~l~~~~~ 176 (184)
.|.+...
T Consensus 354 kl~v~~S 360 (494)
T KOG1456|consen 354 KLNVCVS 360 (494)
T ss_pred eEEEeec
Confidence 7776643
No 108
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.39 E-value=0.00016 Score=58.43 Aligned_cols=70 Identities=17% Similarity=0.179 Sum_probs=58.3
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-C--------CCCc----eEEEEEeCChHHHHHHHHHHHhCCCe
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-N--------GRPS----VSSVACFATFSPLFLWVQLKWYMPEE 165 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~--------g~~~----G~afV~f~~~~~a~~A~~i~~l~g~~ 165 (184)
-.||+++||+.+....|+++|+.||+|-.|.|.... + |.++ --++|+|.+...|..+ ...||+..
T Consensus 75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~i--Ae~Lnn~~ 152 (278)
T KOG3152|consen 75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRI--AELLNNTP 152 (278)
T ss_pred eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHH--HHHhCCCc
Confidence 378999999999999999999999999999886444 3 2222 2367999999999999 89999999
Q ss_pred ecCeE
Q 029987 166 VMHLQ 170 (184)
Q Consensus 166 ~~g~~ 170 (184)
|.|+.
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 97764
No 109
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.34 E-value=0.0014 Score=55.20 Aligned_cols=72 Identities=13% Similarity=0.143 Sum_probs=57.1
Q ss_pred CCCcEEEEeCC----CCCCC-------HHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCC
Q 029987 96 EVGTKLYVSNL----HPGVT-------NDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPE 164 (184)
Q Consensus 96 ~~~~~l~V~nL----~~~vt-------~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~ 164 (184)
...++|.+.|+ .+..+ .++|.+-..+||+|..|.|. ++ .+.|.+-|.|.+.++|..| |+.|+|.
T Consensus 263 r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~-d~--hPdGvvtV~f~n~eeA~~c--iq~m~GR 337 (382)
T KOG1548|consen 263 RADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVY-DR--HPDGVVTVSFRNNEEADQC--IQTMDGR 337 (382)
T ss_pred cCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEe-cc--CCCceeEEEeCChHHHHHH--HHHhcCe
Confidence 34678999998 23344 35666778899999998764 33 3568999999999999999 9999999
Q ss_pred eecCeEEe
Q 029987 165 EVMHLQLL 172 (184)
Q Consensus 165 ~~~g~~l~ 172 (184)
-+.|++|.
T Consensus 338 ~fdgRql~ 345 (382)
T KOG1548|consen 338 WFDGRQLT 345 (382)
T ss_pred eecceEEE
Confidence 99999875
No 110
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.34 E-value=0.00071 Score=59.42 Aligned_cols=81 Identities=11% Similarity=0.124 Sum_probs=65.9
Q ss_pred CCCCCCCCcEEEEeCCCCCCCHHHHHHHhh-ccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHH----HhCCC
Q 029987 91 GISGIEVGTKLYVSNLHPGVTNDDIRELFS-EIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLK----WYMPE 164 (184)
Q Consensus 91 ~~~~~~~~~~l~V~nL~~~vt~~~l~~~F~-~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~----~l~g~ 164 (184)
....+++..||||++||.-++.++|..+|. -||-|..+-|.+|+ -+.++|-|-|+|.+...=.+| |. +++..
T Consensus 363 ~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~A--IsarFvql~h~ 440 (520)
T KOG0129|consen 363 HNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKA--ISARFVQLDHT 440 (520)
T ss_pred cCcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHH--HhhheEEEecc
Confidence 345677889999999999999999999998 79999999999995 788999999999998888888 54 34445
Q ss_pred eecCeEEeeC
Q 029987 165 EVMHLQLLSD 174 (184)
Q Consensus 165 ~~~g~~l~~~ 174 (184)
++.. .|.|+
T Consensus 441 d~~K-RVEIk 449 (520)
T KOG0129|consen 441 DIDK-RVEIK 449 (520)
T ss_pred ccce-eeeec
Confidence 5544 33443
No 111
>PF07078 FYTT: Forty-two-three protein; InterPro: IPR009782 This family consists of several hypothetical mammalian proteins of around 320 residues in length. The function of this family is unknown although several of the family members are annotated as putative 40-2-3 proteins.
Probab=97.16 E-value=0.00016 Score=59.47 Aligned_cols=17 Identities=65% Similarity=0.868 Sum_probs=13.7
Q ss_pred CCCCCCHHHHHhhcCCC
Q 029987 3 THVDMSLDDIIKSRKKS 19 (184)
Q Consensus 3 ~~ld~sLddii~~~~~~ 19 (184)
|||||||||||+=.++.
T Consensus 27 DKIDMSLDDIIKLNKKE 43 (316)
T PF07078_consen 27 DKIDMSLDDIIKLNKKE 43 (316)
T ss_pred ccccccHHHHHHhhhhh
Confidence 89999999999844443
No 112
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.13 E-value=0.00018 Score=66.40 Aligned_cols=70 Identities=11% Similarity=0.036 Sum_probs=63.2
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCe
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHL 169 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~ 169 (184)
...|+|+|+|+..|.++|+.+|..+|.++++.++..+.|+++|.|+|.|.+..++.++ +...+..-+...
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~--~~s~d~~~~rE~ 805 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRK--VASVDVAGKREN 805 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhh--cccchhhhhhhc
Confidence 4579999999999999999999999999999999889999999999999999999999 888877666433
No 113
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.13 E-value=0.00053 Score=59.03 Aligned_cols=64 Identities=13% Similarity=0.187 Sum_probs=52.9
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeC---C---CCCC--------ceEEEEEeCChHHHHHHHHHHHhC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFD---K---NGRP--------SVSSVACFATFSPLFLWVQLKWYM 162 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d---~---~g~~--------~G~afV~f~~~~~a~~A~~i~~l~ 162 (184)
+..+|.+.|||.+-.-+.|.++|+.+|.|..|+|... + .+.+ +-+|+|+|+..+.|.+| .+.++
T Consensus 230 ~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA--~e~~~ 307 (484)
T KOG1855|consen 230 PSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKA--RELLN 307 (484)
T ss_pred ccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHH--HHhhc
Confidence 6779999999999999999999999999999998644 2 1222 44799999999999999 65553
No 114
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.05 E-value=0.0016 Score=57.70 Aligned_cols=59 Identities=10% Similarity=0.042 Sum_probs=47.6
Q ss_pred HHHHHhhccCCeeEEEEeeC-C---CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 114 DIRELFSEIGELKRYAIHFD-K---NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 114 ~l~~~F~~~G~v~~v~i~~d-~---~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
+++.-+++||.|..|.+..+ . .....|-.||+|.+.+++++| .++|+|.++.++.++..
T Consensus 425 dvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA--~~~L~GrKF~nRtVvts 487 (500)
T KOG0120|consen 425 DVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRA--MEELTGRKFANRTVVAS 487 (500)
T ss_pred HHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHH--HHHccCceeCCcEEEEE
Confidence 34445678999999988766 3 233467789999999999999 99999999999998754
No 115
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.93 E-value=0.0022 Score=56.44 Aligned_cols=59 Identities=17% Similarity=0.223 Sum_probs=44.6
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC--CC--CCce---EEEEEeCChHHHHHH
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK--NG--RPSV---SSVACFATFSPLFLW 155 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~--~g--~~~G---~afV~f~~~~~a~~A 155 (184)
....+|||++||++++|+.|...|..||.+ .|++.... .+ .++| |+|+.|++...+..-
T Consensus 257 ~~S~KVFvGGlp~dise~~i~~~F~~FGs~-~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~L 322 (520)
T KOG0129|consen 257 RYSRKVFVGGLPWDITEAQINASFGQFGSV-KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSL 322 (520)
T ss_pred ccccceeecCCCccccHHHHHhhcccccce-EeecCCCccccccCCCCCcccEEEEEecchHHHHHH
Confidence 446799999999999999999999999976 45554211 11 1456 999999987666555
No 116
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.83 E-value=0.0039 Score=53.27 Aligned_cols=59 Identities=19% Similarity=0.141 Sum_probs=47.5
Q ss_pred EEEEeCCCCCCCHHHHHHHhhccC----CeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHH
Q 029987 100 KLYVSNLHPGVTNDDIRELFSEIG----ELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKW 160 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~~G----~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~ 160 (184)
.|...+||+++++.|+.+||..-- ..+.|-++..++|+..|-|||.|...++|+.| +.+
T Consensus 163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~a--L~k 225 (508)
T KOG1365|consen 163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFA--LRK 225 (508)
T ss_pred EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHH--HHH
Confidence 455679999999999999997322 23456566666999999999999999999999 654
No 117
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.82 E-value=7.8e-05 Score=68.65 Aligned_cols=75 Identities=20% Similarity=0.177 Sum_probs=60.9
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
..++||+||++.+.+++|...|..++-+..+.+.... .++.+|.|||+|..++.+.+| |...+..-+....+++.
T Consensus 667 ~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aa--V~f~d~~~~gK~~v~i~ 742 (881)
T KOG0128|consen 667 LIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAA--VAFRDSCFFGKISVAIS 742 (881)
T ss_pred HHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhh--hhhhhhhhhhhhhhhee
Confidence 3578999999999999999999999988777665344 788999999999999999999 77666665554444444
No 118
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=96.80 E-value=0.009 Score=40.51 Aligned_cols=53 Identities=15% Similarity=0.158 Sum_probs=39.3
Q ss_pred EEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhC
Q 029987 100 KLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYM 162 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~ 162 (184)
..+|+ .|......||.++|+.||.| .|.++-| ..|||...+.+.|..| +..++
T Consensus 11 VFhlt-FPkeWK~~DI~qlFspfG~I-~VsWi~d------TSAfV~l~~r~~~~~v--~~~~~ 63 (87)
T PF08675_consen 11 VFHLT-FPKEWKTSDIYQLFSPFGQI-YVSWIND------TSAFVALHNRDQAKVV--MNTLK 63 (87)
T ss_dssp EEEEE---TT--HHHHHHHCCCCCCE-EEEEECT------TEEEEEECCCHHHHHH--HHHHT
T ss_pred EEEEe-CchHhhhhhHHHHhccCCcE-EEEEEcC------CcEEEEeecHHHHHHH--HHHhc
Confidence 44555 99999999999999999987 5666533 3799999999999999 66664
No 119
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.76 E-value=0.0016 Score=52.73 Aligned_cols=76 Identities=21% Similarity=0.289 Sum_probs=62.2
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHh--CC--CeecCeEEeeC
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWY--MP--EEVMHLQLLSD 174 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l--~g--~~~~g~~l~~~ 174 (184)
..|||.||+..++.+.|.+-|+.||+|...-+..|-.+++.+-++|.|.....|.+| +..+ .| ....+++..|.
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a--~rr~~~~g~~~~~~~~p~~Ve 109 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKA--ARRCREGGFGGTTGGRPVGVE 109 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHH--HHHhccCccccCCCCCccCCC
Confidence 589999999999999999999999999887777777788889999999999999999 6665 33 24455665555
Q ss_pred CC
Q 029987 175 TI 176 (184)
Q Consensus 175 ~~ 176 (184)
+.
T Consensus 110 P~ 111 (275)
T KOG0115|consen 110 PM 111 (275)
T ss_pred hh
Confidence 43
No 120
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=96.69 E-value=0.0041 Score=53.47 Aligned_cols=68 Identities=18% Similarity=0.223 Sum_probs=55.6
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeec
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVM 167 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~ 167 (184)
.++..+|+.+|+|..++|++|+++|.+.|-..+....+. +.+-+|++.+.+.++|..| +-.++...+.
T Consensus 411 ~PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff~---kd~kmal~q~~sveeA~~a--li~~hnh~lg 478 (492)
T KOG1190|consen 411 FPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQ---KDRKMALPQLESVEEAIQA--LIDLHNHYLG 478 (492)
T ss_pred CCchhheeeccCCcccchhHHHHhhhcCCceEEeeeecC---CCcceeecccCChhHhhhh--ccccccccCC
Confidence 356779999999999999999999999887766544433 2345999999999999999 8888877774
No 121
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.67 E-value=0.0016 Score=59.29 Aligned_cols=80 Identities=13% Similarity=-0.034 Sum_probs=63.2
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeE-EEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKR-YAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~-v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
..+..|||..||..+++.++-++|+..-.|++ |.|.+-++++-++.|||.|.+++++.+| +..-...-+.++.|.|+
T Consensus 432 ~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a--~~~~~k~y~G~r~irv~ 509 (944)
T KOG4307|consen 432 GAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTA--SSVKTKFYPGHRIIRVD 509 (944)
T ss_pred CccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchh--hhcccccccCceEEEee
Confidence 45679999999999999999999987666655 8888778999999999999998888888 44334444456677776
Q ss_pred CCc
Q 029987 175 TIM 177 (184)
Q Consensus 175 ~~~ 177 (184)
...
T Consensus 510 si~ 512 (944)
T KOG4307|consen 510 SIA 512 (944)
T ss_pred chh
Confidence 543
No 122
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=96.51 E-value=0.018 Score=43.16 Aligned_cols=58 Identities=12% Similarity=-0.013 Sum_probs=43.1
Q ss_pred HHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCCcceec
Q 029987 114 DIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTIMYCWM 181 (184)
Q Consensus 114 ~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~~~~~~ 181 (184)
+|-+.|..||++.-+++.- +.-+|+|.+-+.|.+| -.++|.++.|+.|.+.....=|+
T Consensus 52 ~ll~~~~~~GevvLvRfv~-------~~mwVTF~dg~sALaa---ls~dg~~v~g~~l~i~LKtpdW~ 109 (146)
T PF08952_consen 52 ELLQKFAQYGEVVLVRFVG-------DTMWVTFRDGQSALAA---LSLDGIQVNGRTLKIRLKTPDWL 109 (146)
T ss_dssp HHHHHHHCCS-ECEEEEET-------TCEEEEESSCHHHHHH---HHGCCSEETTEEEEEEE------
T ss_pred HHHHHHHhCCceEEEEEeC-------CeEEEEECccHHHHHH---HccCCcEECCEEEEEEeCCccHH
Confidence 6778889999998888762 3569999999999988 57899999999988875554454
No 123
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.45 E-value=0.025 Score=36.22 Aligned_cols=54 Identities=22% Similarity=0.175 Sum_probs=43.6
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhcc----CCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHh
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEI----GELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWY 161 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~----G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l 161 (184)
..+|+|.++. +.+.+||+.+|..| + ...|.++-|. .|-|.|.+.+.|.+| |..|
T Consensus 5 peavhirGvd-~lsT~dI~~y~~~y~~~~~-~~~IEWIdDt------ScNvvf~d~~~A~~A--L~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEG-PFRIEWIDDT------SCNVVFKDEETAARA--LVAL 62 (62)
T ss_pred eceEEEEcCC-CCCHHHHHHHHHHhcccCC-CceEEEecCC------cEEEEECCHHHHHHH--HHcC
Confidence 4589999996 47889999999998 4 4577887553 578999999999999 7654
No 124
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=96.34 E-value=0.013 Score=43.77 Aligned_cols=75 Identities=16% Similarity=0.259 Sum_probs=52.2
Q ss_pred CCCCCCcEEEEeCCCCCCCH-HH---HHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecC
Q 029987 93 SGIEVGTKLYVSNLHPGVTN-DD---IRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMH 168 (184)
Q Consensus 93 ~~~~~~~~l~V~nL~~~vt~-~~---l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g 168 (184)
...++-.+|.|.=|..++.. +| +-..++.||+|.+|.+. |+. .|.|+|.+..+|=+| +..|...
T Consensus 81 ~kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c----Grq--savVvF~d~~SAC~A--v~Af~s~---- 148 (166)
T PF15023_consen 81 TKEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC----GRQ--SAVVVFKDITSACKA--VSAFQSR---- 148 (166)
T ss_pred CCCCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec----CCc--eEEEEehhhHHHHHH--HHhhcCC----
Confidence 34556778888766555432 34 44556789999998775 443 799999999999999 9988753
Q ss_pred eEEeeCCCcceecc
Q 029987 169 LQLLSDTIMYCWME 182 (184)
Q Consensus 169 ~~l~~~~~~~~~~~ 182 (184)
.-.++.+|-|.
T Consensus 149 ---~pgtm~qCsWq 159 (166)
T PF15023_consen 149 ---APGTMFQCSWQ 159 (166)
T ss_pred ---CCCceEEeecc
Confidence 23445566554
No 125
>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=96.18 E-value=0.011 Score=45.78 Aligned_cols=68 Identities=16% Similarity=0.204 Sum_probs=44.1
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhc-cCCe---eEEEEeeCC--CCC-CceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSE-IGEL---KRYAIHFDK--NGR-PSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~-~G~v---~~v~i~~d~--~g~-~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
..++|.|.+||++.|++++.+.++. ++.- ..+.-.... ... ...-|||.|.+.+++..- +..++|..+
T Consensus 6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F--~~~~~g~~F 80 (176)
T PF03467_consen 6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEF--RDRFDGHVF 80 (176)
T ss_dssp ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHH--HHHCTTEEE
T ss_pred cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHH--HHhcCCcEE
Confidence 4679999999999999998887765 5544 233322222 111 245789999999998888 899999766
No 126
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.09 E-value=0.0086 Score=51.84 Aligned_cols=71 Identities=17% Similarity=0.097 Sum_probs=55.5
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCC-eeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCC-eecCeEEeeCCC
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGE-LKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPE-EVMHLQLLSDTI 176 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~-v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~-~~~g~~l~~~~~ 176 (184)
.++|++||.+.++..||+.+|...-- ...-.|+ -.||+||.+.+..-|.+| ++.++|. ++.|..+.+.+.
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~------k~gyafvd~pdq~wa~ka--ie~~sgk~elqGkr~e~~~s 73 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV------KSGYAFVDCPDQQWANKA--IETLSGKVELQGKRQEVEHS 73 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceee------ecceeeccCCchhhhhhh--HHhhchhhhhcCceeeccch
Confidence 47899999999999999999975421 1111122 148999999999999999 9999995 778888887766
Q ss_pred c
Q 029987 177 M 177 (184)
Q Consensus 177 ~ 177 (184)
+
T Consensus 74 v 74 (584)
T KOG2193|consen 74 V 74 (584)
T ss_pred h
Confidence 5
No 127
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=96.00 E-value=0.0071 Score=54.26 Aligned_cols=74 Identities=15% Similarity=0.159 Sum_probs=57.5
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhh-ccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCee---cCe
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFS-EIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEV---MHL 169 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~-~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~---~g~ 169 (184)
.-.....|||.||-.-.|.-+|++|+. ..|.|... | +| +.+..|||.|.+.++|..- +..|+|..+ +.+
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~-W-mD---kIKShCyV~yss~eEA~at--r~AlhnV~WP~sNPK 512 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF-W-MD---KIKSHCYVSYSSVEEAAAT--REALHNVQWPPSNPK 512 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHH-H-HH---HhhcceeEecccHHHHHHH--HHHHhccccCCCCCc
Confidence 445567899999999999999999998 56666665 2 23 3456899999999999999 999999876 444
Q ss_pred EEeeC
Q 029987 170 QLLSD 174 (184)
Q Consensus 170 ~l~~~ 174 (184)
.|+++
T Consensus 513 ~L~ad 517 (718)
T KOG2416|consen 513 HLIAD 517 (718)
T ss_pred eeEee
Confidence 44443
No 128
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=95.89 E-value=0.065 Score=37.67 Aligned_cols=69 Identities=12% Similarity=0.011 Sum_probs=45.8
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEE-EeeC-------C--CCCCceEEEEEeCChHHHHHHHHHHHhCCCeec
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYA-IHFD-------K--NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVM 167 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~-i~~d-------~--~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~ 167 (184)
.+-|.|=+.|+. ....|-+.|++||.|.+.. +..+ + ++ ..+-.|+|+++.+|.+| | ..||..+.
T Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~--~NWi~I~Y~~~~~A~rA--L-~~NG~i~~ 79 (100)
T PF05172_consen 6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSG--GNWIHITYDNPLSAQRA--L-QKNGTIFS 79 (100)
T ss_dssp CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CC--TTEEEEEESSHHHHHHH--H-TTTTEEET
T ss_pred CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCC--CCEEEEECCCHHHHHHH--H-HhCCeEEc
Confidence 456888888888 5566888999999997763 1000 1 22 34889999999999999 5 45888887
Q ss_pred CeEEe
Q 029987 168 HLQLL 172 (184)
Q Consensus 168 g~~l~ 172 (184)
+--|+
T Consensus 80 g~~mv 84 (100)
T PF05172_consen 80 GSLMV 84 (100)
T ss_dssp TCEEE
T ss_pred CcEEE
Confidence 65443
No 129
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=95.44 E-value=0.0062 Score=49.35 Aligned_cols=59 Identities=8% Similarity=-0.049 Sum_probs=45.4
Q ss_pred HHHHHhh-ccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 114 DIRELFS-EIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 114 ~l~~~F~-~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
||...|+ +||+|..+.|-.+..-...|=++|.|...++|++| ++.||+--+.|++|...
T Consensus 84 d~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a--~~~lnnRw~~G~pi~ae 143 (260)
T KOG2202|consen 84 DVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAA--LEDLNNRWYNGRPIHAE 143 (260)
T ss_pred HHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHH--HHHHcCccccCCcceee
Confidence 3444444 89999887664433333467889999999999999 99999999999887654
No 130
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=95.40 E-value=0.058 Score=44.78 Aligned_cols=58 Identities=10% Similarity=-0.034 Sum_probs=46.2
Q ss_pred HHHHHHhhccCCeeEEEEeeCCCC-CC-ceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 113 DDIRELFSEIGELKRYAIHFDKNG-RP-SVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 113 ~~l~~~F~~~G~v~~v~i~~d~~g-~~-~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
+++++-.++||.|..|-|+.+++- .. ----||+|...++|.+| +-.|||.-+.|+.+.
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA--~VdlnGRyFGGr~v~ 360 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKA--VVDLNGRYFGGRVVS 360 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHH--HHhcCCceecceeee
Confidence 467778899999999988776621 11 12359999999999999 999999999998754
No 131
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=94.89 E-value=0.042 Score=51.54 Aligned_cols=66 Identities=11% Similarity=0.049 Sum_probs=56.8
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeec
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVM 167 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~ 167 (184)
....+.++|++|.+++....|...|..||+|..|.+. .|. -||+|.|++...|+.| +..|.|..|.
T Consensus 452 st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~---hgq--~yayi~yes~~~aq~a--~~~~rgap~G 517 (975)
T KOG0112|consen 452 STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYR---HGQ--PYAYIQYESPPAAQAA--THDMRGAPLG 517 (975)
T ss_pred cccceeeccCCCCCCChHHHHHHHhhccCcceeeecc---cCC--cceeeecccCccchhh--HHHHhcCcCC
Confidence 3456789999999999999999999999999887653 233 3999999999999999 9999998874
No 132
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=94.83 E-value=0.094 Score=46.99 Aligned_cols=66 Identities=8% Similarity=0.066 Sum_probs=51.0
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhh--ccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHH-----HHHhCCCeecCe
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFS--EIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQ-----LKWYMPEEVMHL 169 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~--~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~-----i~~l~g~~~~g~ 169 (184)
.+.|++.-||..+..|+++.||. .|-++.+|.+-.+. ++ ||+|++..||+.|.. ++.|.|+.|+-|
T Consensus 175 RcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-----nW-yITfesd~DAQqAykylreevk~fqgKpImAR 247 (684)
T KOG2591|consen 175 RCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-----NW-YITFESDTDAQQAYKYLREEVKTFQGKPIMAR 247 (684)
T ss_pred eeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-----ce-EEEeecchhHHHHHHHHHHHHHhhcCcchhhh
Confidence 35677899999999999999996 47777777765332 34 899999999999843 677888777654
No 133
>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=94.79 E-value=0.18 Score=32.67 Aligned_cols=55 Identities=13% Similarity=0.039 Sum_probs=43.2
Q ss_pred CCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 109 GVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 109 ~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
.++-+|++..+..|.- . +|..|++ || ||.|.+..+|++| ....+|..+..-.|.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~--~I~~d~t----Gf-YIvF~~~~Ea~rC--~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-D--RIRDDRT----GF-YIVFNDSKEAERC--FRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-c--eEEecCC----EE-EEEECChHHHHHH--HHhcCCCEEEEEEEEe
Confidence 4678899999999983 3 3444444 55 8999999999999 9999998887776654
No 134
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=94.78 E-value=0.0079 Score=56.17 Aligned_cols=71 Identities=15% Similarity=0.115 Sum_probs=59.6
Q ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 94 GIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 94 ~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
+.....+||++||+..+++.+|+..|..+|.|..|+|...+-+.---++||.|.+.+.+..| ...+.+..|
T Consensus 368 D~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~a--k~e~s~~~I 438 (975)
T KOG0112|consen 368 DFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSA--KFEESGPLI 438 (975)
T ss_pred chhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCccc--chhhcCCcc
Confidence 33456699999999999999999999999999999997665344446899999999999999 888877655
No 135
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=94.13 E-value=0.021 Score=47.96 Aligned_cols=71 Identities=13% Similarity=0.096 Sum_probs=53.7
Q ss_pred cEEEEeCCCCCCCHHHHH---HHhhccCCeeEEEEeeCCC--CCC--ceEEEEEeCChHHHHHHHHHHHhCCCeecCeEE
Q 029987 99 TKLYVSNLHPGVTNDDIR---ELFSEIGELKRYAIHFDKN--GRP--SVSSVACFATFSPLFLWVQLKWYMPEEVMHLQL 171 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~---~~F~~~G~v~~v~i~~d~~--g~~--~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l 171 (184)
..+||-+|++.+..+++- +.|.+||.|..|.+..++. ..+ ..-++|+|...++|..| |...+|..+.++.|
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rc--i~~v~g~~~dg~~l 155 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRC--IDDVDGFVDDGRAL 155 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhH--HHHhhhHHhhhhhh
Confidence 457888898887666543 5789999999887766551 111 12379999999999999 99999998888773
No 136
>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=93.38 E-value=1 Score=32.21 Aligned_cols=69 Identities=9% Similarity=-0.050 Sum_probs=47.7
Q ss_pred CcEEEE-eCCCCCCCHHHHHHHhhccC-CeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCe
Q 029987 98 GTKLYV-SNLHPGVTNDDIRELFSEIG-ELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHL 169 (184)
Q Consensus 98 ~~~l~V-~nL~~~vt~~~l~~~F~~~G-~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~ 169 (184)
.+.|.| -..|+.++.++|..+.+.+- .|..++|+.|.+. ++=.+++.|.+.++|..- .+.|||+.+...
T Consensus 12 ~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~p-nrymVLikF~~~~~Ad~F--y~~fNGk~Fnsl 82 (110)
T PF07576_consen 12 RSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTP-NRYMVLIKFRDQESADEF--YEEFNGKPFNSL 82 (110)
T ss_pred CceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCC-ceEEEEEEECCHHHHHHH--HHHhCCCccCCC
Confidence 344444 44555566666765556554 4556788776532 455889999999999999 999999987543
No 137
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=93.28 E-value=0.42 Score=37.29 Aligned_cols=57 Identities=11% Similarity=-0.011 Sum_probs=42.4
Q ss_pred CHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhC--CCeecCeEEeeC
Q 029987 111 TNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYM--PEEVMHLQLLSD 174 (184)
Q Consensus 111 t~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~--g~~~~g~~l~~~ 174 (184)
..+.|+++|..|+.+..+... ++-+-..|.|.+.+.|..| ...++ +..+++..+.+.
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L-----~sFrRi~v~f~~~~~A~~~--r~~l~~~~~~~~g~~l~~y 66 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPL-----KSFRRIRVVFESPESAQRA--RQLLHWDGTSFNGKRLRVY 66 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEE-----TTTTEEEEE-SSTTHHHHH--HHTST--TSEETTEE-EEE
T ss_pred hHHHHHHHHHhcCCceEEEEc-----CCCCEEEEEeCCHHHHHHH--HHHhcccccccCCCceEEE
Confidence 457899999999988776555 3445678999999999999 89988 889988886664
No 138
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=92.26 E-value=0.2 Score=44.74 Aligned_cols=70 Identities=11% Similarity=0.016 Sum_probs=48.5
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHh-hccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeec
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELF-SEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVM 167 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F-~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~ 167 (184)
.+.+++.|.|+|...|-.-|.+.- ...|.-..+.+..|- +....|||||.|-+++++..+ .++|||++..
T Consensus 386 ~~rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F--~kAFnGk~W~ 457 (549)
T KOG4660|consen 386 CPRTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRF--YKAFNGKKWE 457 (549)
T ss_pred CchhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHH--HHHHcCCchh
Confidence 344556666666554444332222 235555667777776 667889999999999999999 9999998663
No 139
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=91.28 E-value=1.1 Score=29.29 Aligned_cols=65 Identities=14% Similarity=0.093 Sum_probs=38.3
Q ss_pred EEEEe-CCCCCCCHHHHHHHhhccCCe-----eEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 100 KLYVS-NLHPGVTNDDIRELFSEIGEL-----KRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 100 ~l~V~-nL~~~vt~~~l~~~F~~~G~v-----~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
++||. +--..++..+|-.++...+.| -.+.|. .-|+||+-. .+.|..+ ++.|++.++.|+.|.+
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~-------~~~S~vev~-~~~a~~v--~~~l~~~~~~gk~v~v 71 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIF-------DNFSFVEVP-EEVAEKV--LEALNGKKIKGKKVRV 71 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE--------SS-EEEEE--TT-HHHH--HHHHTT--SSS----E
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEe-------eeEEEEEEC-HHHHHHH--HHHhcCCCCCCeeEEE
Confidence 45553 334568888999998766444 456665 238899985 4588888 9999999999999877
Q ss_pred C
Q 029987 174 D 174 (184)
Q Consensus 174 ~ 174 (184)
.
T Consensus 72 e 72 (74)
T PF03880_consen 72 E 72 (74)
T ss_dssp E
T ss_pred E
Confidence 5
No 140
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=91.26 E-value=0.12 Score=45.55 Aligned_cols=64 Identities=14% Similarity=0.117 Sum_probs=48.5
Q ss_pred EEeCCCCCC-CHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEee
Q 029987 102 YVSNLHPGV-TNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLS 173 (184)
Q Consensus 102 ~V~nL~~~v-t~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~ 173 (184)
-+.-.|+.. +.++|...|.+||+|..|.+-+.. --|.|+|.+..+|-.| ..+.+..|.++.|++
T Consensus 376 ~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~-----~~a~vTF~t~aeag~a---~~s~~avlnnr~iKl 440 (526)
T KOG2135|consen 376 ALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS-----LHAVVTFKTRAEAGEA---YASHGAVLNNRFIKL 440 (526)
T ss_pred hhhccCCCCchHhhhhhhhhhcCccccccccCch-----hhheeeeeccccccch---hccccceecCceeEE
Confidence 333344443 457899999999999999886542 3589999999998777 677888888887665
No 141
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=90.92 E-value=0.13 Score=42.91 Aligned_cols=65 Identities=15% Similarity=0.050 Sum_probs=53.9
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYM 162 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~ 162 (184)
...+++|++++.+.+.+.++..+|..+|.+..+.+.... ...+++++++.|...+.+..| +....
T Consensus 86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~--l~~s~ 151 (285)
T KOG4210|consen 86 GSSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAA--LEESG 151 (285)
T ss_pred cccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHH--HHhhh
Confidence 356789999999999999999999999987776665544 677899999999999999999 54443
No 142
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=89.86 E-value=1.2 Score=39.22 Aligned_cols=69 Identities=10% Similarity=0.051 Sum_probs=56.9
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhcc-CCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEI-GELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMH 168 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~-G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g 168 (184)
+++.|+|--+|..+|-.||-.|...+ -.|..+.++.|... .+=..+|.|.+.++|..= -+.|||..+..
T Consensus 73 ~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~p-nrymvLIkFr~q~da~~F--y~efNGk~Fn~ 142 (493)
T KOG0804|consen 73 SSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMP-NRYMVLIKFRDQADADTF--YEEFNGKQFNS 142 (493)
T ss_pred CCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCC-ceEEEEEEeccchhHHHH--HHHcCCCcCCC
Confidence 38899999999999999999999754 46778889886632 234679999999999999 99999987743
No 143
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=87.51 E-value=0.44 Score=43.53 Aligned_cols=73 Identities=8% Similarity=0.084 Sum_probs=58.6
Q ss_pred CCCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 93 SGIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 93 ~~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
.+.++.-+|||+|+...+..+-++.+...+|-|..+... -|+|..|..+.....| +..++-..+.+..++
T Consensus 35 ~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~--------~fgf~~f~~~~~~~ra--~r~~t~~~~~~~kl~ 104 (668)
T KOG2253|consen 35 QPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD--------KFGFCEFLKHIGDLRA--SRLLTELNIDDQKLI 104 (668)
T ss_pred cCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh--------hhcccchhhHHHHHHH--HHHhcccCCCcchhh
Confidence 455667799999999999999999999999988765443 1899999999999999 777777777666555
Q ss_pred eCC
Q 029987 173 SDT 175 (184)
Q Consensus 173 ~~~ 175 (184)
+.+
T Consensus 105 ~~~ 107 (668)
T KOG2253|consen 105 ENV 107 (668)
T ss_pred ccc
Confidence 443
No 144
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=86.17 E-value=8.6 Score=32.14 Aligned_cols=50 Identities=12% Similarity=0.103 Sum_probs=36.9
Q ss_pred CCCCcEEEEeCCCCCCCHHHHHHHhhccCCe-eEEEEeeCCCCCCceEEEEEeCCh
Q 029987 95 IEVGTKLYVSNLHPGVTNDDIRELFSEIGEL-KRYAIHFDKNGRPSVSSVACFATF 149 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v-~~v~i~~d~~g~~~G~afV~f~~~ 149 (184)
....+-|+++||+.++...||+.-+.+-+-+ .++.+. | +.|-||++|.+.
T Consensus 327 a~~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk----g-~~~k~flh~~~~ 377 (396)
T KOG4410|consen 327 AGAKTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK----G-HFGKCFLHFGNR 377 (396)
T ss_pred CccccceeeccCccccchHHHHHHHHhcCCCceeEeee----c-CCcceeEecCCc
Confidence 3445679999999999999999888776532 234443 3 467899999864
No 145
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=85.66 E-value=2 Score=35.96 Aligned_cols=66 Identities=18% Similarity=0.113 Sum_probs=45.5
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL 172 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~ 172 (184)
.+=|-|=+.|+.-. .-|..+|++||+|++.... .+| -|-+|.|.+..+|++| |. .||..|.+..++
T Consensus 197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~--~ng---NwMhirYssr~~A~KA--Ls-kng~ii~g~vmi 262 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTP--SNG---NWMHIRYSSRTHAQKA--LS-KNGTIIDGDVMI 262 (350)
T ss_pred cceEEEeccCccch-hHHHHHHHhhCeeeeeecC--CCC---ceEEEEecchhHHHHh--hh-hcCeeeccceEE
Confidence 34455556766543 4467789999999775332 233 3889999999999999 54 577777665443
No 146
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=84.98 E-value=0.19 Score=40.27 Aligned_cols=68 Identities=24% Similarity=0.336 Sum_probs=58.6
Q ss_pred CcEEEEeC----CCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeec
Q 029987 98 GTKLYVSN----LHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVM 167 (184)
Q Consensus 98 ~~~l~V~n----L~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~ 167 (184)
..+++.+| |...++++.+.+.|+..+++..+++..+.+|+++-+.|+++......-.| +..+++..+-
T Consensus 80 q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnrn~~~~~~qr~~~~P~~--~~~y~~l~~~ 151 (267)
T KOG4454|consen 80 QRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDNDGRNRNFGFVTYQRLCAVPFA--LDLYQGLELF 151 (267)
T ss_pred hcccccCCCcchhhhhcchhhheeeecccCCCCCccccccccCCccCccchhhhhhhcCcHH--hhhhcccCcC
Confidence 45667777 88889999999999999999999998888889999999999988888888 8888887653
No 147
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=82.86 E-value=0.61 Score=43.93 Aligned_cols=60 Identities=20% Similarity=0.177 Sum_probs=48.7
Q ss_pred EEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 100 KLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
+.++.|.+-..+-..|..+|+.||.|.++....+ .-.|.|+|...+.|..| +..++|.++
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~-----~N~alvs~~s~~sai~a--~dAl~gkev 359 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRD-----LNMALVSFSSVESAILA--LDALQGKEV 359 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhheeccc-----ccchhhhhHHHHHHHHh--hhhhcCCcc
Confidence 3445555566777889999999999999877643 34799999999999999 999999876
No 148
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=79.63 E-value=4.6 Score=25.77 Aligned_cols=20 Identities=30% Similarity=0.695 Sum_probs=16.6
Q ss_pred HHHHHHHhhccCCeeEEEEe
Q 029987 112 NDDIRELFSEIGELKRYAIH 131 (184)
Q Consensus 112 ~~~l~~~F~~~G~v~~v~i~ 131 (184)
.++|+++|+..|+|.-+.+.
T Consensus 8 ~~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 8 TAEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHHhcCcEEEEEEc
Confidence 36899999999999877664
No 149
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=78.90 E-value=9.5 Score=34.78 Aligned_cols=70 Identities=19% Similarity=0.093 Sum_probs=52.8
Q ss_pred CCCCcEEEEeCCCCC-CCHHHHHHHhhcc----CCeeEEEEeeCC-----------CCC---------------------
Q 029987 95 IEVGTKLYVSNLHPG-VTNDDIRELFSEI----GELKRYAIHFDK-----------NGR--------------------- 137 (184)
Q Consensus 95 ~~~~~~l~V~nL~~~-vt~~~l~~~F~~~----G~v~~v~i~~d~-----------~g~--------------------- 137 (184)
.....+|-|.|+.|+ |...||.-+|..| |.|.+|.|.... .|.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 345678999999997 8888999999865 367777654211 122
Q ss_pred ----------------CceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 138 ----------------PSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 138 ----------------~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
-.=||.|+|.+.+.|.+. ...++|.++
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~v--Ye~CDG~Ef 293 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAV--YEECDGIEF 293 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHH--HHhcCccee
Confidence 012799999999999999 999999887
No 150
>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=72.60 E-value=5.2 Score=28.75 Aligned_cols=47 Identities=17% Similarity=0.291 Sum_probs=26.5
Q ss_pred EEEEeCCCCC---------CCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCC
Q 029987 100 KLYVSNLHPG---------VTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFAT 148 (184)
Q Consensus 100 ~l~V~nL~~~---------vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~ 148 (184)
++.|-|++.. ++.++|.+.|+.|.++. +...+++.| +.|+++|.|..
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~k-v~~l~~~~g-h~g~aiv~F~~ 65 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLK-VKPLYGKQG-HTGFAIVEFNK 65 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SE-EEEEEETTE-EEEEEEEE--S
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCce-eEECcCCCC-CcEEEEEEECC
Confidence 5667777543 45688999999999875 445566654 57999999986
No 151
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=68.92 E-value=7.9 Score=32.28 Aligned_cols=70 Identities=17% Similarity=0.202 Sum_probs=44.0
Q ss_pred CCCCcEEEEeCCCC------------CCCHHHHHHHhhccCCeeEEEEe-eCC-----CCCCceEEEEEe----------
Q 029987 95 IEVGTKLYVSNLHP------------GVTNDDIRELFSEIGELKRYAIH-FDK-----NGRPSVSSVACF---------- 146 (184)
Q Consensus 95 ~~~~~~l~V~nL~~------------~vt~~~l~~~F~~~G~v~~v~i~-~d~-----~g~~~G~afV~f---------- 146 (184)
.+..-+||+.+||- -.+++-|...|..||+|..|+|+ .|+ +|+..|+-|-.|
T Consensus 146 gerpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffea 225 (445)
T KOG2891|consen 146 GERPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEA 225 (445)
T ss_pred CCCCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHH
Confidence 33445677777662 24667899999999999988874 344 666555443333
Q ss_pred ----CChHHHHHHHHHHHhCCCee
Q 029987 147 ----ATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 147 ----~~~~~a~~A~~i~~l~g~~~ 166 (184)
-.+..-..| +..|.|.++
T Consensus 226 yvqfmeykgfa~a--mdalr~~k~ 247 (445)
T KOG2891|consen 226 YVQFMEYKGFAQA--MDALRGMKL 247 (445)
T ss_pred HHHHHHHHhHHHH--HHHHhcchH
Confidence 233344455 666777655
No 152
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=59.51 E-value=12 Score=32.37 Aligned_cols=65 Identities=14% Similarity=0.115 Sum_probs=44.4
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC------CCCCceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK------NGRPSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~------~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
-++|.|.+||+..++++|.+-...|-+ ++.+.+.. ...-.+.|||.|..+++...= ...|+|+.+
T Consensus 7 ~~Kvv~rrlpp~l~~~~~~eqi~p~~~--~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef--~~~f~g~if 77 (376)
T KOG1295|consen 7 KVKVVVRRLPPKLTEEQLLEQINPFPE--HVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEF--RRRFDGYIF 77 (376)
T ss_pred ceeeeeecCCCcccHHHHhhhcCCCcc--ccchheeccccccchhhhhhhhhhccccHHHHHHH--HhhCCceEE
Confidence 468899999999999988877666432 22222111 011256889999998886655 778888766
No 153
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=58.02 E-value=1.6 Score=39.37 Aligned_cols=71 Identities=14% Similarity=0.035 Sum_probs=51.5
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCe
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHL 169 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~ 169 (184)
..+.|+|+|++++++-++|..+++.+--+..+.+..+- .....-+.+|+|+---...-| +..||+..+...
T Consensus 230 ke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a--~~aLn~irl~s~ 301 (648)
T KOG2295|consen 230 KECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEA--CWALNGIRLRSN 301 (648)
T ss_pred HHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHH--HHHhhhcccccc
Confidence 45689999999999999999999887656555553322 233345678999877677777 777888766433
No 154
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=56.56 E-value=18 Score=27.86 Aligned_cols=42 Identities=26% Similarity=0.434 Sum_probs=34.8
Q ss_pred CCCCCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC
Q 029987 93 SGIEVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK 134 (184)
Q Consensus 93 ~~~~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~ 134 (184)
........+++.+++..++..++..+|..+|.+....+....
T Consensus 220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 261 (306)
T COG0724 220 LLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSK 261 (306)
T ss_pred ccccccceeeccccccccchhHHHHhccccccceeeeccCCC
Confidence 344567789999999999999999999999999776665544
No 155
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=55.95 E-value=2.6 Score=36.61 Aligned_cols=62 Identities=16% Similarity=-0.019 Sum_probs=45.4
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
.+++|.+|+..+...++-++|..+|+|...++-. +...-+|-|+|........| ..++|.++
T Consensus 152 Rt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~as---k~~s~~c~~sf~~qts~~ha---lr~~gre~ 213 (479)
T KOG4676|consen 152 RTREVQSLISAAILPESGESFERKGEVSYAHTAS---KSRSSSCSHSFRKQTSSKHA---LRSHGRER 213 (479)
T ss_pred hhhhhhcchhhhcchhhhhhhhhcchhhhhhhhc---cCCCcchhhhHhhhhhHHHH---HHhcchhh
Confidence 5799999999999999999999999998776642 22233566888766665555 34555444
No 156
>PTZ00146 fibrillarin; Provisional
Probab=53.12 E-value=24 Score=29.61 Aligned_cols=12 Identities=17% Similarity=-0.155 Sum_probs=4.9
Q ss_pred EEEEEeCChHHH
Q 029987 141 SSVACFATFSPL 152 (184)
Q Consensus 141 ~afV~f~~~~~a 152 (184)
+.|+....++++
T Consensus 205 vV~~Dva~pdq~ 216 (293)
T PTZ00146 205 VIFADVAQPDQA 216 (293)
T ss_pred EEEEeCCCcchH
Confidence 444444434433
No 157
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=53.05 E-value=10 Score=29.54 Aligned_cols=66 Identities=14% Similarity=0.053 Sum_probs=45.8
Q ss_pred CCcEEEEeCCCCCCCHH-----HHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCe
Q 029987 97 VGTKLYVSNLHPGVTND-----DIRELFSEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHL 169 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~-----~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~ 169 (184)
-.+.+++.+++..|-.+ ..+.+|.+|-+.....+. ++.+..-|.|.+++.|..| ..++....+.+.
T Consensus 9 lp~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~l-----rsfrrvRi~f~~p~~a~~a--~i~~~~~~f~~~ 79 (193)
T KOG4019|consen 9 LPTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLL-----RSFRRVRINFSNPEAAADA--RIKLHSTSFNGK 79 (193)
T ss_pred ccceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHH-----HhhceeEEeccChhHHHHH--HHHhhhcccCCC
Confidence 35678888888765432 345666677665555544 3445667899999999999 888888777555
No 158
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=50.10 E-value=50 Score=23.32 Aligned_cols=41 Identities=17% Similarity=0.306 Sum_probs=29.0
Q ss_pred HHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHH
Q 029987 112 NDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLW 155 (184)
Q Consensus 112 ~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A 155 (184)
+.+|.++.+.+| |....|..|. +. .=|+++++.+.+..-.+
T Consensus 26 WPE~~a~lk~ag-i~nYSIfLde~~n--~lFgy~E~~d~~a~m~~ 67 (105)
T COG3254 26 WPELLALLKEAG-IRNYSIFLDEEEN--LLFGYWEYEDFEADMAK 67 (105)
T ss_pred cHHHHHHHHHcC-CceeEEEecCCcc--cEEEEEEEcChHHHHHH
Confidence 357888889999 7887887776 33 35999999855444443
No 159
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=48.44 E-value=34 Score=22.09 Aligned_cols=59 Identities=8% Similarity=0.075 Sum_probs=36.3
Q ss_pred HHHHHHhhccC-CeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCC
Q 029987 113 DDIRELFSEIG-ELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTI 176 (184)
Q Consensus 113 ~~l~~~F~~~G-~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~ 176 (184)
++|.+-|...| +|..+.-+..+ +..+.-.-||+.+...+...+ |+=..+.+..|.+..+
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~i-----~~Ik~l~~~~V~vE~~ 62 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKEI-----YKIKTLCGQRVKVERP 62 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccce-----eehHhhCCeEEEEecC
Confidence 46777777666 56666655555 666677888988766554444 3334445555555543
No 160
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.22 E-value=37 Score=29.83 Aligned_cols=52 Identities=12% Similarity=0.081 Sum_probs=41.1
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCee-EEEEeeCCCCCCceEEEEEeCChHHHHHH
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELK-RYAIHFDKNGRPSVSSVACFATFSPLFLW 155 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~-~v~i~~d~~g~~~G~afV~f~~~~~a~~A 155 (184)
...|-|-+.|.....+||-..|+.|+.-. .|.|+-|. .||-.|.....|..|
T Consensus 391 pHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt------halaVFss~~~Aaea 443 (528)
T KOG4483|consen 391 PHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT------HALAVFSSVNRAAEA 443 (528)
T ss_pred cceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc------eeEEeecchHHHHHH
Confidence 45788899999999999999999998543 35555332 688899988888888
No 161
>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=47.95 E-value=42 Score=28.18 Aligned_cols=54 Identities=11% Similarity=0.169 Sum_probs=40.6
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC--------CCCCceEEEEEeCChHH
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK--------NGRPSVSSVACFATFSP 151 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~--------~g~~~G~afV~f~~~~~ 151 (184)
.+.|.+.|+..+++-.++-..|-+||+|++|.++.+. .-+..-...+.|-+.+.
T Consensus 15 TRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~ 76 (309)
T PF10567_consen 15 TRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREI 76 (309)
T ss_pred eHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHH
Confidence 4467889999999988999999999999999997554 11223456788876554
No 162
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=44.01 E-value=83 Score=28.28 Aligned_cols=63 Identities=14% Similarity=0.116 Sum_probs=41.5
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhh----ccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHhC
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFS----EIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWYM 162 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~----~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~ 162 (184)
++.+.++.-..+.+..+|..+|. .+|-|+++.+...+.-+.....++.|.+.++|..| +..+.
T Consensus 189 G~i~~~~~~~~~~~g~dl~~l~~Gs~GtlGIIt~atlkl~p~p~~~~~~~~~f~~~~~a~~~--~~~~~ 255 (499)
T PRK11230 189 GEALTLGSDALDSPGFDLLALFTGSEGMLGVVTEVTVKLLPKPPVARVLLASFDSVEKAGLA--VGDII 255 (499)
T ss_pred CcEEEeCCccCCCCccchHhhhccCCCccEEEEEEEEEEEcCCcceEEEEEECCCHHHHHHH--HHHHH
Confidence 44444443222334457778774 57888888776666334456778899999999999 77653
No 163
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=42.37 E-value=1.1 Score=39.29 Aligned_cols=72 Identities=10% Similarity=0.121 Sum_probs=56.2
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEe-eCCCCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeC
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIH-FDKNGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSD 174 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~-~d~~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~ 174 (184)
..++-|.|+|+...|+-|..|...||.|..|..+ .++ ..-..-|+|...+.+..| |.+++|..++...+.+.
T Consensus 80 srk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~---etavvnvty~~~~~~~~a--i~kl~g~Q~en~~~k~~ 152 (584)
T KOG2193|consen 80 SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDS---ETAVVNVTYSAQQQHRQA--IHKLNGPQLENQHLKVG 152 (584)
T ss_pred hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccch---HHHHHHHHHHHHHHHHHH--HHhhcchHhhhhhhhcc
Confidence 4578899999999999999999999999887553 222 112335788889999999 99999988876665543
No 164
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=42.26 E-value=44 Score=27.51 Aligned_cols=28 Identities=18% Similarity=0.082 Sum_probs=22.8
Q ss_pred CcEEEEeCCCCCCCHHHHHHHhhccCCe
Q 029987 98 GTKLYVSNLHPGVTNDDIRELFSEIGEL 125 (184)
Q Consensus 98 ~~~l~V~nL~~~vt~~~l~~~F~~~G~v 125 (184)
.....|+||||+++..-|..++...-.+
T Consensus 95 ~~~~vVaNlPY~Isspii~kll~~~~~~ 122 (259)
T COG0030 95 QPYKVVANLPYNISSPILFKLLEEKFII 122 (259)
T ss_pred CCCEEEEcCCCcccHHHHHHHHhccCcc
Confidence 3466799999999999999998776544
No 165
>PF09180 ProRS-C_1: Prolyl-tRNA synthetase, C-terminal; InterPro: IPR016061 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Prolyl tRNA synthetase (6.1.1.15 from EC) exists in two forms, which are loosely related. The first form is present in the majority of eubacteria species. The second one, present in some eubacteria, is essentially present in archaea and eukaryota. Prolyl-tRNA synthetase belongs to class IIa. This domain is found at the C-terminal in archaeal and eukaryotic enzymes, as well as in certain bacterial ones.; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1NJ6_A 1NJ2_A 1NJ5_A 1NJ1_A 1H4T_C 1H4S_A 1HC7_C 1H4Q_B 3IAL_B.
Probab=41.28 E-value=35 Score=21.89 Aligned_cols=43 Identities=5% Similarity=-0.198 Sum_probs=30.4
Q ss_pred ceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEe--eCCCcceeccC
Q 029987 139 SVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLL--SDTIMYCWMEN 183 (184)
Q Consensus 139 ~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~--~~~~~~~~~~~ 183 (184)
.|++.+-|-..++.+.. |++..|..+.+.++. ......|++-+
T Consensus 11 gg~v~~pwcg~~ece~~--ike~t~at~rciP~~~~~~~~~~Ci~cg 55 (68)
T PF09180_consen 11 GGFVLVPWCGDEECEEK--IKEETGATIRCIPFDEQEPEGGKCIVCG 55 (68)
T ss_dssp SSEEEEEES-SHHHHHH--HHHHHS-EEEEEETTSCEBTT-B-TTT-
T ss_pred CCEEEEEccCCHHHHHH--HHHhcCCcEeEeEccCCCCCCCeeecCC
Confidence 36888888888899999 999999999888876 55666776544
No 166
>PF12300 DUF3628: Protein of unknown function (DUF3628); InterPro: IPR022077 Proteins in this entry are DEAD Box RhlB RNA Helicases found in Xanthomonadaceae bacteria.; GO: 0016817 hydrolase activity, acting on acid anhydrides
Probab=39.47 E-value=46 Score=25.34 Aligned_cols=9 Identities=22% Similarity=0.331 Sum_probs=6.0
Q ss_pred CCCHHHHHh
Q 029987 6 DMSLDDIIK 14 (184)
Q Consensus 6 d~sLddii~ 14 (184)
+-|.-+|+.
T Consensus 35 gdSVG~Ifr 43 (180)
T PF12300_consen 35 GDSVGTIFR 43 (180)
T ss_pred CchHHHHHH
Confidence 457777776
No 167
>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=39.42 E-value=74 Score=21.61 Aligned_cols=51 Identities=16% Similarity=0.189 Sum_probs=32.6
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCCCCCCceEEEEEeCC
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDKNGRPSVSSVACFAT 148 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~~g~~~G~afV~f~~ 148 (184)
+..+-|||+|++..+-+.-.+.+.+..++- .+-|.+.... ..||+|-++-+
T Consensus 23 Ei~~GVyVg~~s~rVRe~lW~~v~~~~~~G-~a~m~~~~~n-eqG~~~~t~G~ 73 (86)
T PF09707_consen 23 EIRPGVYVGNVSARVRERLWERVTEWIGDG-SAVMVWSDNN-EQGFDFRTLGD 73 (86)
T ss_pred ecCCCcEEcCCCHHHHHHHHHHHHhhCCCc-cEEEEEccCC-CCCEEEEEeCC
Confidence 456689999999988776555555544433 3334333333 67899988843
No 168
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=38.54 E-value=20 Score=24.51 Aligned_cols=24 Identities=13% Similarity=0.274 Sum_probs=19.9
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHh
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELF 119 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F 119 (184)
....+|.|+|||....+++|++..
T Consensus 50 vs~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 50 VSKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred ccCCEEEEeCCCCCCChhhheeeE
Confidence 356789999999999999988653
No 169
>PF11411 DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536 DNA ligase IV along with Xrcc4 functions in DNA non-homologous end joining. This process is required to mend double-strand breaks. Upon ligase binding to an Xrcc4 dimer, the helical tails unwind leading to a flat interaction surface []. ; GO: 0003910 DNA ligase (ATP) activity; PDB: 3II6_Y 2E2W_A 1IK9_C.
Probab=37.99 E-value=25 Score=19.91 Aligned_cols=16 Identities=25% Similarity=0.561 Sum_probs=10.4
Q ss_pred CCCCHHHHHHHhhccC
Q 029987 108 PGVTNDDIRELFSEIG 123 (184)
Q Consensus 108 ~~vt~~~l~~~F~~~G 123 (184)
.++++++|++.|.++.
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 3678999999998865
No 170
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=37.62 E-value=39 Score=22.02 Aligned_cols=59 Identities=8% Similarity=-0.012 Sum_probs=35.0
Q ss_pred HHHHHHhhccC-CeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCC
Q 029987 113 DDIRELFSEIG-ELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTI 176 (184)
Q Consensus 113 ~~l~~~F~~~G-~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~ 176 (184)
++|++-|...| ++.++..+..+ ++.+.-.-+|+.....+-... |+=+.|.+..+.|..+
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~I-----l~ik~Lg~~~V~VEr~ 62 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKEI-----LNIKTLGGQRVTVERP 62 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcce-----EeehhhCCeeEEEecC
Confidence 46778888877 56677766666 455556778887654333323 3333445555555543
No 171
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=37.21 E-value=27 Score=28.40 Aligned_cols=33 Identities=15% Similarity=0.342 Sum_probs=27.8
Q ss_pred CCCcEEEEeCCCCCCCHHHHHHHhhccCCeeEE
Q 029987 96 EVGTKLYVSNLHPGVTNDDIRELFSEIGELKRY 128 (184)
Q Consensus 96 ~~~~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v 128 (184)
....+||+-|+|...|++.|.++.+++|-+..+
T Consensus 38 ~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 38 NEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred ccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 345689999999999999999999999865543
No 172
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=31.38 E-value=60 Score=25.40 Aligned_cols=46 Identities=20% Similarity=0.153 Sum_probs=31.2
Q ss_pred CCHHHHHHHhh-ccCCeeEEEEeeCCCC--CCceEEEEEeCChHHHHHH
Q 029987 110 VTNDDIRELFS-EIGELKRYAIHFDKNG--RPSVSSVACFATFSPLFLW 155 (184)
Q Consensus 110 vt~~~l~~~F~-~~G~v~~v~i~~d~~g--~~~G~afV~f~~~~~a~~A 155 (184)
.|++.|.++.. .-|.+..+.+.....+ ..+|--||+|...++|.++
T Consensus 118 ~td~ql~~l~qw~~~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~ 166 (205)
T KOG4213|consen 118 ITDDQLDDLNQWASGKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFAN 166 (205)
T ss_pred CCHHHHHHHHHHhcccceEeeccccCCCCCCCCCceEEEeecHHHHHhh
Confidence 45555555542 2277777766433333 5678899999999999887
No 173
>KOG3428 consensus Small nuclear ribonucleoprotein SMD1 and related snRNPs [RNA processing and modification]
Probab=30.49 E-value=23 Score=25.15 Aligned_cols=8 Identities=25% Similarity=0.679 Sum_probs=3.7
Q ss_pred CCHHHHHh
Q 029987 7 MSLDDIIK 14 (184)
Q Consensus 7 ~sLddii~ 14 (184)
|-||-++-
T Consensus 73 l~ld~Llv 80 (109)
T KOG3428|consen 73 LNLDTLLV 80 (109)
T ss_pred cCcceeee
Confidence 44454444
No 174
>PF12643 MazG-like: MazG-like family
Probab=29.70 E-value=18 Score=25.26 Aligned_cols=15 Identities=40% Similarity=0.744 Sum_probs=13.1
Q ss_pred CCCCCCCC---HHHHHhh
Q 029987 1 MATHVDMS---LDDIIKS 15 (184)
Q Consensus 1 m~~~ld~s---Lddii~~ 15 (184)
||++|+.+ ||++|.+
T Consensus 51 La~rLGid~~~lD~~i~~ 68 (98)
T PF12643_consen 51 LADRLGIDFRELDEIIKE 68 (98)
T ss_pred HHHHhCCCHHHHHHHHHH
Confidence 67899999 9999984
No 175
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=29.52 E-value=1.6e+02 Score=20.53 Aligned_cols=46 Identities=9% Similarity=0.069 Sum_probs=25.1
Q ss_pred CCCCHHHHHHHhh-ccCCeeE-EEE--eeCC--CCCCceEEEEEeCChHHHHH
Q 029987 108 PGVTNDDIRELFS-EIGELKR-YAI--HFDK--NGRPSVSSVACFATFSPLFL 154 (184)
Q Consensus 108 ~~vt~~~l~~~F~-~~G~v~~-v~i--~~d~--~g~~~G~afV~f~~~~~a~~ 154 (184)
.+++..+|++-+. .|+.=.. |.+ +... .|++.|||.| |++.+.|.+
T Consensus 29 ~tpsr~eirekLa~~~~~~~~~vvv~~~~t~fG~g~s~G~a~I-Yds~e~~kk 80 (99)
T PRK01178 29 ATPSRKDVRKKLAAMLNADKELVVVRKIKTEYGMGKSKGYAKV-YDDKERARK 80 (99)
T ss_pred CCCCHHHHHHHHHHHHCcCCCEEEEEccCccCCCceEEEEEEE-ECCHHHHHh
Confidence 3677788877764 4552212 222 2222 4667788766 666655544
No 176
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=28.74 E-value=54 Score=30.53 Aligned_cols=76 Identities=20% Similarity=0.096 Sum_probs=57.9
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCeecCeEEeeCCCc
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEVMHLQLLSDTIM 177 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~~l~~~~~~ 177 (184)
++||+-|-...-+...+...+..+++++.+.++... .+...+-++++|..+..+..| ..|.+..+...-+.....+
T Consensus 512 p~i~~~~~~~~s~~~s~s~~s~~~~~ltk~k~l~~Cky~~~Ct~a~Ce~~HPtaa~~~---~s~p~k~fa~~~~ks~p~C 588 (681)
T KOG3702|consen 512 PTIFVANGHGGSNPDSLSRHSEKKNELTKAKILTRCKYGPACTSAECEFAHPTAAENA---KSLPNKKFASKCLKSHPGC 588 (681)
T ss_pred CceecccccccCCCcchhhCcccccccccceeeccccCCCcCCchhhhhcCCcchhhh---hccccccccccceeccccc
Confidence 478888888888888889999999999887776555 555666789999988777655 6677777776666665544
No 177
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=28.71 E-value=27 Score=30.51 Aligned_cols=44 Identities=16% Similarity=0.064 Sum_probs=36.7
Q ss_pred HHHHHHHhhc--cCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHH
Q 029987 112 NDDIRELFSE--IGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLW 155 (184)
Q Consensus 112 ~~~l~~~F~~--~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A 155 (184)
.+++...|.. .+++..+.+..+. +..+.|..|++|.....|++.
T Consensus 196 ~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~ 242 (438)
T COG5193 196 QEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRF 242 (438)
T ss_pred hhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHH
Confidence 4589999988 6777777776666 677889999999999999998
No 178
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=27.42 E-value=1.5e+02 Score=21.79 Aligned_cols=46 Identities=15% Similarity=0.283 Sum_probs=25.9
Q ss_pred CCCCHHHHHHHhhc-cC--CeeEEEE--eeCC--CCCCceEEEEEeCChHHHHH
Q 029987 108 PGVTNDDIRELFSE-IG--ELKRYAI--HFDK--NGRPSVSSVACFATFSPLFL 154 (184)
Q Consensus 108 ~~vt~~~l~~~F~~-~G--~v~~v~i--~~d~--~g~~~G~afV~f~~~~~a~~ 154 (184)
.+++..||++-+.. |+ ....|.| +... .|.+.|||.| |++.+.|.+
T Consensus 34 ~TpSr~eirekLA~~~~v~d~~~Vvv~~~~T~fG~g~StG~a~I-Yds~e~~kk 86 (132)
T PTZ00071 34 GTVSKKDIKEKLAKQYKVADARTIVLFGFKTKFGGGKTTGFGLI-YDNLAALKK 86 (132)
T ss_pred CCCCHHHHHHHHHHHhCCCCCCEEEEEccEecCCCceEEEEEEE-ECCHHHHHh
Confidence 36778888887754 55 1122222 2222 5667788866 666655443
No 179
>PF11214 Med2: Mediator complex subunit 2; InterPro: IPR021017 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This family of mediator complex subunit 2 proteins is conserved in fungi. Cyclin-dependent kinase CDK8 or Srb10 interacts with and phosphorylates Med2. Post-translational modifications of Mediator subunits are important for regulation of gene expression [, ].
Probab=26.55 E-value=19 Score=25.46 Aligned_cols=12 Identities=33% Similarity=0.650 Sum_probs=9.0
Q ss_pred CCCCCCHHHHHh
Q 029987 3 THVDMSLDDIIK 14 (184)
Q Consensus 3 ~~ld~sLddii~ 14 (184)
.+|+.+||||++
T Consensus 7 nkLt~~fdDILk 18 (105)
T PF11214_consen 7 NKLTQCFDDILK 18 (105)
T ss_pred hHHHHHHHHHHH
Confidence 567778888876
No 180
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=26.42 E-value=2.1e+02 Score=24.87 Aligned_cols=63 Identities=16% Similarity=0.175 Sum_probs=40.6
Q ss_pred CCcEEEEeC-CCCCCCHHHHHHHhh----ccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHh
Q 029987 97 VGTKLYVSN-LHPGVTNDDIRELFS----EIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWY 161 (184)
Q Consensus 97 ~~~~l~V~n-L~~~vt~~~l~~~F~----~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l 161 (184)
.+..+.++. .+.+...-+|..+|. .+|-|+++.+...+.-....+.++.|.+.++|..| +..+
T Consensus 130 ~G~~~~~~~~~~~~~~g~dl~~l~~Gs~GtlGiit~~~lkl~p~p~~~~~~~~~f~~~~~~~~~--~~~~ 197 (413)
T TIGR00387 130 DGEILRIGGKTAKDVAGYDLTGLFVGSEGTLGIVTEATLKLLPKPENIVVALAFFDSIEKAMQA--VYDI 197 (413)
T ss_pred CCCEEEeCCcccCCCCCCChhhhcccCCccceEEEEEEEEeecCCCccEEEEEECCCHHHHHHH--HHHH
Confidence 344454432 233444457888874 36778888776666334456678899999999998 6544
No 181
>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=25.49 E-value=1.7e+02 Score=20.04 Aligned_cols=47 Identities=13% Similarity=0.072 Sum_probs=26.7
Q ss_pred EEEEeCCCCCCCHHHHH---HHhhccCCeeEEEEe---eCCCCCCceEEEEEe
Q 029987 100 KLYVSNLHPGVTNDDIR---ELFSEIGELKRYAIH---FDKNGRPSVSSVACF 146 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~---~~F~~~G~v~~v~i~---~d~~g~~~G~afV~f 146 (184)
..|+.|||..+.+..+. +.+..+.+-..|.+. ......+.|++.+-+
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l~ 64 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISLV 64 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEEE
Confidence 45889999999887655 445455543344331 122556677765443
No 182
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.39 E-value=12 Score=33.23 Aligned_cols=65 Identities=5% Similarity=-0.158 Sum_probs=45.6
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCCeeEEEEeeCC-CCCCceEEEEEeCChHHHHHHHHHHHhCCCee
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGELKRYAIHFDK-NGRPSVSSVACFATFSPLFLWVQLKWYMPEEV 166 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~v~~v~i~~d~-~g~~~G~afV~f~~~~~a~~A~~i~~l~g~~~ 166 (184)
++.++..||-..+++++.-+|..||-|..+.+.... .+...-++||+-.. .++..+ |+.+.-+.+
T Consensus 4 ~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~--i~~~k~q~~ 69 (572)
T KOG4365|consen 4 MKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNY--IQPQKRQTT 69 (572)
T ss_pred hhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccc--cCHHHHhhh
Confidence 456778899999999999999999988877764333 44445678887754 456666 554444433
No 183
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=25.34 E-value=36 Score=21.03 Aligned_cols=10 Identities=30% Similarity=0.571 Sum_probs=5.8
Q ss_pred CCCCCHHHHH
Q 029987 4 HVDMSLDDII 13 (184)
Q Consensus 4 ~ld~sLddii 13 (184)
.++|||+||-
T Consensus 12 ~lGfsL~eI~ 21 (65)
T PF09278_consen 12 ELGFSLEEIR 21 (65)
T ss_dssp HTT--HHHHH
T ss_pred HcCCCHHHHH
Confidence 4788888884
No 184
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=24.64 E-value=1.4e+02 Score=21.64 Aligned_cols=45 Identities=11% Similarity=0.088 Sum_probs=26.5
Q ss_pred CCCCHHHHHHHhhc-cCC---eeEEEEeeCC--CCCCceEEEEEeCChHHHH
Q 029987 108 PGVTNDDIRELFSE-IGE---LKRYAIHFDK--NGRPSVSSVACFATFSPLF 153 (184)
Q Consensus 108 ~~vt~~~l~~~F~~-~G~---v~~v~i~~d~--~g~~~G~afV~f~~~~~a~ 153 (184)
.+++.+||+|-.++ |-. +..+.=.... .|++.|||.| |++.+.|.
T Consensus 33 a~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~ak 83 (132)
T KOG3424|consen 33 ANVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAK 83 (132)
T ss_pred CCCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHH
Confidence 36788888877764 321 2222212233 7888999976 66655544
No 185
>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=23.46 E-value=82 Score=25.49 Aligned_cols=28 Identities=25% Similarity=0.356 Sum_probs=22.7
Q ss_pred CCcEEEEeCCCCCCCHHHHHHHhh--ccCC
Q 029987 97 VGTKLYVSNLHPGVTNDDIRELFS--EIGE 124 (184)
Q Consensus 97 ~~~~l~V~nL~~~vt~~~l~~~F~--~~G~ 124 (184)
...-++|+|||+.++..-|..++. .+|.
T Consensus 96 ~~~~~vv~NlPy~is~~il~~ll~~~~~g~ 125 (262)
T PF00398_consen 96 NQPLLVVGNLPYNISSPILRKLLELYRFGR 125 (262)
T ss_dssp SSEEEEEEEETGTGHHHHHHHHHHHGGGCE
T ss_pred CCceEEEEEecccchHHHHHHHhhcccccc
Confidence 355789999999999999999986 4553
No 186
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=23.38 E-value=1e+02 Score=25.68 Aligned_cols=22 Identities=14% Similarity=0.246 Sum_probs=18.8
Q ss_pred EEEEeCCCCCCCHHHHHHHhhc
Q 029987 100 KLYVSNLHPGVTNDDIRELFSE 121 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~ 121 (184)
.+.|.|||+.++...|..++..
T Consensus 103 d~VvaNlPY~Istpil~~ll~~ 124 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAH 124 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhc
Confidence 4778999999999998888854
No 187
>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=22.91 E-value=1.4e+02 Score=17.39 Aligned_cols=26 Identities=19% Similarity=0.470 Sum_probs=21.7
Q ss_pred cEEEEeCCCCCCCHHHHHHHhhccCC
Q 029987 99 TKLYVSNLHPGVTNDDIRELFSEIGE 124 (184)
Q Consensus 99 ~~l~V~nL~~~vt~~~l~~~F~~~G~ 124 (184)
..+++.+.....+.++|.+++..+|-
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg 27 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGG 27 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCC
Confidence 46788877768899999999999886
No 188
>PF03439 Spt5-NGN: Early transcription elongation factor of RNA pol II, NGN section; InterPro: IPR005100 Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4 []. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit []. ; PDB: 3H7H_B 3QQC_D 3P8B_B 2EXU_A.
Probab=22.84 E-value=2.2e+02 Score=18.79 Aligned_cols=30 Identities=3% Similarity=-0.404 Sum_probs=23.6
Q ss_pred CceEEEEEeCChHHHHHHHHHHHhCCCeecCe
Q 029987 138 PSVSSVACFATFSPLFLWVQLKWYMPEEVMHL 169 (184)
Q Consensus 138 ~~G~afV~f~~~~~a~~A~~i~~l~g~~~~g~ 169 (184)
.+||-||+=.+..++..| ++.+.+......
T Consensus 43 lkGyIyVEA~~~~~V~~a--i~gi~~i~~~~~ 72 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEA--IRGIRHIRGSRP 72 (84)
T ss_dssp STSEEEEEESSHHHHHHH--HTT-TTEEEECC
T ss_pred CceEEEEEeCCHHHHHHH--Hhcccceeeccc
Confidence 689999999999999999 887776655443
No 189
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=22.47 E-value=2.8e+02 Score=25.43 Aligned_cols=50 Identities=16% Similarity=0.159 Sum_probs=35.9
Q ss_pred CCHHHHHHHh----hccCCeeEEEEeeCCCCCCceEEEEEeCChHHHHHHHHHHHh
Q 029987 110 VTNDDIRELF----SEIGELKRYAIHFDKNGRPSVSSVACFATFSPLFLWVQLKWY 161 (184)
Q Consensus 110 vt~~~l~~~F----~~~G~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A~~i~~l 161 (184)
.+.-||..+| ..+|-|+++.+...+--.....+++.|.+.++|..| +..+
T Consensus 278 ~~g~dL~~l~~GseGtLGIIT~~tlrl~p~P~~~~~~~~~f~~~~~a~~a--v~~i 331 (555)
T PLN02805 278 AAGYDLTRLVIGSEGTLGVITEVTLRLQKIPQHSVVAMCNFPTIKDAADV--AIAT 331 (555)
T ss_pred CCCccHHHHhccCCCceEEEEEEEEEeecCCcceEEEEEEcCCHHHHHHH--HHHH
Confidence 4456788887 257888888776555334456788999999999888 6654
No 190
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=21.89 E-value=1.3e+02 Score=24.50 Aligned_cols=22 Identities=27% Similarity=0.220 Sum_probs=18.8
Q ss_pred EEEEeCCCCCCCHHHHHHHhhc
Q 029987 100 KLYVSNLHPGVTNDDIRELFSE 121 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~ 121 (184)
.+.|+|||+.++.+-|..++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 5789999999999888888754
No 191
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=20.57 E-value=1.3e+02 Score=24.07 Aligned_cols=24 Identities=25% Similarity=0.152 Sum_probs=20.3
Q ss_pred EEEEeCCCCCCCHHHHHHHhhccC
Q 029987 100 KLYVSNLHPGVTNDDIRELFSEIG 123 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~~G 123 (184)
-+.|+|||+.++.+-|..++..++
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPK 119 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCC
Confidence 478999999999999999986444
No 192
>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=20.09 E-value=2.7e+02 Score=18.35 Aligned_cols=54 Identities=9% Similarity=0.035 Sum_probs=37.2
Q ss_pred EEEEeCCCCCCCHHHHHHHhhc-cC-CeeEEEEeeCCCCCCceEEEEEeCChHHHHHH
Q 029987 100 KLYVSNLHPGVTNDDIRELFSE-IG-ELKRYAIHFDKNGRPSVSSVACFATFSPLFLW 155 (184)
Q Consensus 100 ~l~V~nL~~~vt~~~l~~~F~~-~G-~v~~v~i~~d~~g~~~G~afV~f~~~~~a~~A 155 (184)
.-|+-..+...+..+|++.++. |+ .|..|..+.-+.+ .-=|||++..-+.|...
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~~--~KKA~VtL~~g~~a~~v 70 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPRG--EKKAYVKLAEEYAAEEI 70 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCC--ceEEEEEECCCCcHHHH
Confidence 3466678899999999998876 44 4555655544422 23589999877777655
Done!