Query 030822
Match_columns 171
No_of_seqs 172 out of 1318
Neff 9.3
Searched_HMMs 46136
Date Fri Mar 29 05:05:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030822.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030822hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0148 Apoptosis-promoting RN 100.0 1.1E-28 2.3E-33 182.1 9.6 129 1-165 94-226 (321)
2 TIGR01659 sex-lethal sex-letha 99.9 4.2E-26 9.2E-31 179.6 10.9 112 1-164 139-260 (346)
3 TIGR01645 half-pint poly-U bin 99.9 3.9E-24 8.4E-29 177.3 11.2 123 1-164 139-271 (612)
4 KOG0117 Heterogeneous nuclear 99.9 9.3E-24 2E-28 165.1 9.6 159 1-164 115-318 (506)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.9 2.3E-23 4.9E-28 165.2 11.1 113 1-165 35-157 (352)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.9 1.3E-22 2.8E-27 160.8 14.2 61 100-164 268-336 (352)
7 TIGR01622 SF-CC1 splicing fact 99.9 3.2E-22 6.9E-27 163.7 11.4 124 1-164 121-253 (457)
8 KOG0145 RNA-binding protein EL 99.9 8.5E-23 1.8E-27 150.5 7.0 111 1-163 73-193 (360)
9 TIGR01648 hnRNP-R-Q heterogene 99.9 5.5E-22 1.2E-26 164.1 11.2 114 4-164 175-294 (578)
10 TIGR01628 PABP-1234 polyadenyl 99.9 1.4E-21 2.9E-26 163.8 10.2 115 1-165 32-155 (562)
11 KOG0145 RNA-binding protein EL 99.9 5.3E-21 1.1E-25 141.1 11.9 156 1-164 159-345 (360)
12 KOG0144 RNA-binding protein CU 99.9 6.3E-22 1.4E-26 154.4 5.7 112 1-163 66-189 (510)
13 KOG0127 Nucleolar protein fibr 99.8 7.2E-21 1.6E-25 152.3 9.3 138 1-164 37-183 (678)
14 KOG0131 Splicing factor 3b, su 99.8 4.7E-21 1E-25 134.4 7.0 113 1-164 41-164 (203)
15 TIGR01642 U2AF_lg U2 snRNP aux 99.8 7.5E-20 1.6E-24 151.5 11.9 138 5-165 217-363 (509)
16 TIGR01628 PABP-1234 polyadenyl 99.8 1.9E-19 4.2E-24 150.8 11.3 116 2-165 121-245 (562)
17 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.8 4.4E-19 9.6E-24 146.1 12.7 116 9-164 36-159 (481)
18 KOG4205 RNA-binding protein mu 99.8 5E-20 1.1E-24 142.0 5.4 111 1-157 38-157 (311)
19 KOG0127 Nucleolar protein fibr 99.8 4.1E-18 8.9E-23 136.6 12.9 153 1-159 149-354 (678)
20 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.8 4.1E-18 8.9E-23 140.4 13.3 141 10-165 312-462 (481)
21 TIGR01642 U2AF_lg U2 snRNP aux 99.8 3.7E-18 8.1E-23 141.4 11.6 141 1-165 327-490 (509)
22 TIGR01648 hnRNP-R-Q heterogene 99.8 2.9E-18 6.3E-23 142.1 8.9 104 1-163 90-206 (578)
23 KOG0109 RNA-binding protein LA 99.7 1.9E-18 4.1E-23 129.2 6.5 99 11-163 36-136 (346)
24 KOG0124 Polypyrimidine tract-b 99.7 1.3E-17 2.8E-22 128.4 9.2 121 2-163 146-276 (544)
25 KOG0123 Polyadenylate-binding 99.7 2.4E-17 5.2E-22 130.9 9.2 103 2-165 31-141 (369)
26 KOG0110 RNA-binding protein (R 99.7 6.1E-17 1.3E-21 133.2 10.0 109 9-160 558-676 (725)
27 TIGR01622 SF-CC1 splicing fact 99.7 2.6E-16 5.7E-21 128.9 13.5 161 1-165 218-436 (457)
28 KOG0147 Transcriptional coacti 99.6 4.2E-16 9E-21 125.2 4.8 125 1-163 211-344 (549)
29 PLN03134 glycine-rich RNA-bind 99.5 1.6E-14 3.5E-19 100.9 5.8 63 99-165 32-102 (144)
30 KOG0123 Polyadenylate-binding 99.5 3.4E-14 7.4E-19 113.0 8.3 117 2-165 109-234 (369)
31 PF00076 RRM_1: RNA recognitio 99.5 5.2E-14 1.1E-18 86.0 4.7 58 104-165 1-65 (70)
32 KOG0109 RNA-binding protein LA 99.5 3.5E-14 7.6E-19 106.6 4.0 62 102-167 3-64 (346)
33 KOG0105 Alternative splicing f 99.5 2.6E-12 5.6E-17 91.0 12.5 131 9-165 43-176 (241)
34 TIGR01659 sex-lethal sex-letha 99.4 2.6E-13 5.7E-18 107.3 7.4 63 98-164 104-174 (346)
35 KOG0146 RNA-binding protein ET 99.4 2.5E-12 5.5E-17 95.8 11.5 63 98-164 282-352 (371)
36 KOG0149 Predicted RNA-binding 99.4 2.1E-13 4.6E-18 99.6 4.8 59 98-160 9-75 (247)
37 PLN03120 nucleic acid binding 99.4 5.9E-13 1.3E-17 99.9 6.2 59 101-164 4-67 (260)
38 PLN03121 nucleic acid binding 99.4 1E-12 2.2E-17 97.3 5.9 60 100-164 4-68 (243)
39 KOG0107 Alternative splicing f 99.4 1.5E-12 3.4E-17 91.2 5.7 62 100-165 9-73 (195)
40 KOG0125 Ataxin 2-binding prote 99.3 7E-12 1.5E-16 95.7 7.3 63 98-164 93-161 (376)
41 KOG0121 Nuclear cap-binding pr 99.3 5E-12 1.1E-16 84.4 4.9 63 98-164 33-103 (153)
42 KOG0149 Predicted RNA-binding 99.2 3.7E-12 8.1E-17 93.2 2.9 46 1-46 44-90 (247)
43 KOG0122 Translation initiation 99.2 2.2E-11 4.7E-16 89.6 6.8 62 100-165 188-257 (270)
44 KOG0106 Alternative splicing f 99.2 8.7E-12 1.9E-16 91.4 4.6 126 11-168 35-162 (216)
45 KOG4206 Spliceosomal protein s 99.2 2.1E-10 4.5E-15 83.7 11.5 154 6-166 47-210 (221)
46 PLN03213 repressor of silencin 99.2 1.8E-11 4E-16 98.1 6.5 63 98-164 7-75 (759)
47 PF14259 RRM_6: RNA recognitio 99.2 1.8E-11 3.9E-16 74.9 5.0 56 104-163 1-63 (70)
48 KOG0147 Transcriptional coacti 99.2 1.3E-10 2.8E-15 94.0 9.8 156 1-161 310-512 (549)
49 KOG4211 Splicing factor hnRNP- 99.2 2.1E-10 4.6E-15 91.7 10.4 123 4-167 42-173 (510)
50 TIGR01645 half-pint poly-U bin 99.2 2.2E-11 4.8E-16 101.8 5.1 62 99-164 105-174 (612)
51 PLN03134 glycine-rich RNA-bind 99.2 9E-11 1.9E-15 82.0 7.3 49 1-49 66-116 (144)
52 smart00362 RRM_2 RNA recogniti 99.2 5.6E-11 1.2E-15 71.9 5.4 58 103-164 1-64 (72)
53 KOG4212 RNA-binding protein hn 99.2 8.4E-10 1.8E-14 87.4 12.2 155 2-161 78-278 (608)
54 KOG4207 Predicted splicing fac 99.1 8.2E-11 1.8E-15 84.8 5.8 63 98-164 10-80 (256)
55 KOG0114 Predicted RNA-binding 99.1 1.1E-10 2.5E-15 75.2 5.8 61 99-163 16-81 (124)
56 KOG0144 RNA-binding protein CU 99.1 1.2E-10 2.6E-15 91.9 6.5 61 98-162 31-99 (510)
57 KOG0131 Splicing factor 3b, su 99.1 1.7E-10 3.7E-15 81.5 4.9 60 100-163 8-75 (203)
58 KOG0126 Predicted RNA-binding 99.1 5.3E-12 1.2E-16 89.1 -2.7 61 101-165 35-103 (219)
59 KOG0148 Apoptosis-promoting RN 99.1 1.9E-10 4.1E-15 85.9 5.1 60 101-164 62-129 (321)
60 KOG0117 Heterogeneous nuclear 99.1 1.3E-09 2.7E-14 86.5 9.7 64 98-165 80-151 (506)
61 smart00360 RRM RNA recognition 99.0 2.6E-10 5.6E-15 68.7 4.1 55 106-164 1-63 (71)
62 smart00361 RRM_1 RNA recogniti 99.0 5.7E-10 1.2E-14 68.4 4.7 40 2-41 26-69 (70)
63 KOG0105 Alternative splicing f 99.0 5.5E-10 1.2E-14 79.3 4.7 61 100-164 5-70 (241)
64 COG0724 RNA-binding proteins ( 99.0 9.5E-10 2.1E-14 83.0 5.6 60 101-164 115-182 (306)
65 cd00590 RRM RRM (RNA recogniti 99.0 1.6E-09 3.4E-14 65.8 5.5 57 103-163 1-64 (74)
66 KOG0111 Cyclophilin-type pepti 99.0 2.7E-10 5.8E-15 82.9 2.3 62 99-164 8-77 (298)
67 KOG0146 RNA-binding protein ET 99.0 6.4E-10 1.4E-14 83.1 4.2 60 100-163 18-84 (371)
68 KOG1457 RNA binding protein (c 99.0 3E-08 6.4E-13 72.5 12.4 58 100-161 209-267 (284)
69 KOG4207 Predicted splicing fac 98.9 1E-09 2.2E-14 79.1 3.5 45 1-45 45-91 (256)
70 COG0724 RNA-binding proteins ( 98.9 1.3E-08 2.9E-13 76.7 9.4 108 1-136 147-260 (306)
71 KOG0108 mRNA cleavage and poly 98.8 4E-09 8.8E-14 85.2 5.3 61 102-166 19-87 (435)
72 KOG0113 U1 small nuclear ribon 98.8 4E-09 8.8E-14 79.8 4.9 62 99-164 99-168 (335)
73 KOG0130 RNA-binding protein RB 98.8 4.3E-09 9.3E-14 71.2 4.4 63 98-164 69-139 (170)
74 KOG0132 RNA polymerase II C-te 98.8 5.7E-09 1.2E-13 87.7 5.5 62 99-164 419-482 (894)
75 KOG0111 Cyclophilin-type pepti 98.8 4.3E-09 9.4E-14 76.7 3.7 47 1-47 42-90 (298)
76 KOG0113 U1 small nuclear ribon 98.8 8.6E-09 1.9E-13 78.1 4.4 44 1-44 133-178 (335)
77 KOG4212 RNA-binding protein hn 98.7 1E-08 2.2E-13 81.4 4.5 64 98-165 533-599 (608)
78 KOG4206 Spliceosomal protein s 98.7 2.8E-08 6.1E-13 72.7 6.1 60 100-163 8-76 (221)
79 PF13893 RRM_5: RNA recognitio 98.7 1.4E-08 3E-13 59.3 3.6 43 118-164 1-46 (56)
80 KOG0120 Splicing factor U2AF, 98.7 3.4E-08 7.3E-13 80.7 5.5 136 1-164 321-479 (500)
81 KOG4205 RNA-binding protein mu 98.6 2.6E-08 5.7E-13 77.4 3.7 55 100-158 5-67 (311)
82 KOG0110 RNA-binding protein (R 98.6 1.2E-07 2.6E-12 79.2 7.7 60 101-164 515-585 (725)
83 KOG4208 Nucleolar RNA-binding 98.6 4.5E-08 9.8E-13 70.7 4.1 45 2-46 83-129 (214)
84 KOG0151 Predicted splicing reg 98.6 1E-07 2.2E-12 79.7 6.0 68 97-168 170-248 (877)
85 KOG0125 Ataxin 2-binding prote 98.6 6.1E-08 1.3E-12 74.4 4.3 45 7-51 132-178 (376)
86 KOG0153 Predicted RNA-binding 98.6 1.1E-07 2.3E-12 73.6 5.3 60 96-159 223-284 (377)
87 KOG0124 Polypyrimidine tract-b 98.5 6E-08 1.3E-12 75.6 3.3 60 100-163 112-179 (544)
88 KOG4661 Hsp27-ERE-TATA-binding 98.5 3.3E-07 7.1E-12 75.2 7.5 64 98-165 402-473 (940)
89 KOG0108 mRNA cleavage and poly 98.5 1.4E-07 3E-12 76.4 4.7 47 1-47 50-98 (435)
90 KOG0126 Predicted RNA-binding 98.5 2.3E-08 5E-13 70.9 0.1 44 1-44 67-112 (219)
91 PF14259 RRM_6: RNA recognitio 98.5 1.8E-07 3.8E-12 57.0 3.8 38 2-40 31-70 (70)
92 smart00360 RRM RNA recognition 98.5 3.5E-07 7.6E-12 54.6 4.8 41 2-42 29-71 (71)
93 PF00076 RRM_1: RNA recognitio 98.4 2.2E-07 4.7E-12 56.2 3.2 35 6-40 34-70 (70)
94 KOG0226 RNA-binding proteins [ 98.4 1.2E-07 2.6E-12 70.6 2.3 45 1-45 222-268 (290)
95 KOG0533 RRM motif-containing p 98.4 5.5E-07 1.2E-11 67.6 5.8 63 99-165 81-150 (243)
96 KOG0415 Predicted peptidyl pro 98.4 3.2E-07 6.8E-12 71.3 4.2 61 98-162 236-304 (479)
97 PF13893 RRM_5: RNA recognitio 98.4 8.1E-07 1.8E-11 51.7 5.0 34 11-44 21-56 (56)
98 KOG1548 Transcription elongati 98.4 3.7E-06 8E-11 65.2 9.7 142 8-163 180-338 (382)
99 KOG0120 Splicing factor U2AF, 98.4 1E-06 2.2E-11 72.2 6.3 127 8-163 220-355 (500)
100 smart00361 RRM_1 RNA recogniti 98.3 5.2E-07 1.1E-11 55.2 3.4 47 115-165 2-63 (70)
101 KOG4660 Protein Mei2, essentia 98.3 8.8E-07 1.9E-11 72.3 4.9 61 98-162 72-135 (549)
102 KOG0106 Alternative splicing f 98.3 3.2E-07 6.9E-12 67.5 2.2 60 102-165 2-61 (216)
103 KOG1190 Polypyrimidine tract-b 98.3 1E-05 2.2E-10 64.2 10.5 135 13-164 337-477 (492)
104 PF08777 RRM_3: RNA binding mo 98.3 3E-06 6.5E-11 56.0 6.4 57 102-162 2-60 (105)
105 KOG0116 RasGAP SH3 binding pro 98.2 1.2E-06 2.6E-11 70.8 4.3 54 101-158 288-349 (419)
106 KOG0226 RNA-binding proteins [ 98.2 2.9E-06 6.2E-11 63.3 5.8 63 99-165 188-258 (290)
107 KOG4454 RNA binding protein (R 98.2 6.3E-07 1.4E-11 65.5 2.3 63 98-164 6-74 (267)
108 KOG1365 RNA-binding protein Fu 98.2 4.1E-07 8.8E-12 71.4 1.3 138 6-160 201-349 (508)
109 KOG0129 Predicted RNA-binding 98.2 1.6E-05 3.5E-10 64.7 9.6 57 98-158 367-432 (520)
110 KOG4210 Nuclear localization s 98.2 4.4E-06 9.4E-11 64.7 6.1 121 4-167 123-254 (285)
111 smart00362 RRM_2 RNA recogniti 98.2 4E-06 8.8E-11 50.1 4.7 35 8-42 36-72 (72)
112 PLN03120 nucleic acid binding 98.1 5E-06 1.1E-10 62.9 4.9 42 1-45 36-78 (260)
113 KOG0130 RNA-binding protein RB 98.1 3.3E-06 7.1E-11 57.4 3.5 45 3-47 106-152 (170)
114 KOG0121 Nuclear cap-binding pr 98.0 8.9E-06 1.9E-10 54.8 4.1 43 3-45 70-114 (153)
115 KOG1456 Heterogeneous nuclear 98.0 0.00022 4.9E-09 56.2 12.3 63 98-164 284-350 (494)
116 PF14605 Nup35_RRM_2: Nup53/35 98.0 1E-05 2.2E-10 46.7 3.6 50 102-156 2-53 (53)
117 PLN03213 repressor of silencin 98.0 7.6E-06 1.7E-10 66.4 4.1 40 5-46 44-87 (759)
118 KOG0128 RNA-binding protein SA 98.0 3.3E-06 7.2E-11 72.1 2.1 92 5-165 703-803 (881)
119 cd00590 RRM RRM (RNA recogniti 97.9 3.2E-05 6.9E-10 46.4 5.0 35 9-43 38-74 (74)
120 KOG4211 Splicing factor hnRNP- 97.9 7.7E-05 1.7E-09 60.5 8.3 43 2-45 137-180 (510)
121 KOG2193 IGF-II mRNA-binding pr 97.9 1.1E-06 2.3E-11 69.9 -2.5 100 11-164 37-144 (584)
122 KOG1190 Polypyrimidine tract-b 97.8 8.8E-05 1.9E-09 59.0 7.6 60 101-164 297-360 (492)
123 KOG1457 RNA binding protein (c 97.8 3.8E-05 8.3E-10 56.5 4.7 62 99-164 32-102 (284)
124 KOG1365 RNA-binding protein Fu 97.8 0.00023 4.9E-09 56.3 9.0 119 6-161 97-228 (508)
125 KOG0107 Alternative splicing f 97.7 3.1E-05 6.8E-10 54.9 3.4 39 9-47 45-85 (195)
126 KOG4208 Nucleolar RNA-binding 97.7 8.7E-05 1.9E-09 53.9 5.5 60 98-161 46-114 (214)
127 PLN03121 nucleic acid binding 97.6 8.4E-05 1.8E-09 55.6 4.7 42 1-45 37-79 (243)
128 KOG4307 RNA binding protein RB 97.5 0.00042 9.2E-09 58.6 7.6 133 3-147 344-488 (944)
129 KOG1456 Heterogeneous nuclear 97.5 0.00029 6.2E-09 55.6 5.9 54 107-164 128-184 (494)
130 PF04059 RRM_2: RNA recognitio 97.5 0.00022 4.8E-09 46.2 4.3 45 1-45 35-85 (97)
131 KOG4209 Splicing factor RNPS1, 97.4 0.00021 4.6E-09 53.7 3.9 45 1-45 133-178 (231)
132 KOG4209 Splicing factor RNPS1, 97.4 0.00017 3.6E-09 54.2 3.2 62 98-164 98-167 (231)
133 PF11608 Limkain-b1: Limkain b 97.4 0.00074 1.6E-08 42.3 5.4 57 102-164 3-64 (90)
134 PF04059 RRM_2: RNA recognitio 97.3 0.00071 1.5E-08 43.9 5.5 63 102-168 2-74 (97)
135 KOG0415 Predicted peptidyl pro 97.3 0.00016 3.5E-09 56.6 2.7 46 1-46 271-318 (479)
136 KOG4454 RNA binding protein (R 97.2 0.00013 2.8E-09 53.6 1.1 72 2-136 42-119 (267)
137 PF08675 RNA_bind: RNA binding 97.2 0.0025 5.5E-08 39.9 6.6 57 100-161 8-64 (87)
138 KOG0112 Large RNA-binding prot 97.1 0.00053 1.2E-08 59.4 3.6 63 98-164 452-516 (975)
139 KOG0115 RNA-binding protein p5 97.0 0.0018 3.9E-08 48.7 5.2 54 102-159 32-92 (275)
140 KOG1855 Predicted RNA-binding 97.0 0.0009 1.9E-08 53.7 3.8 62 98-163 228-310 (484)
141 KOG1548 Transcription elongati 96.7 0.0039 8.4E-08 48.9 5.3 65 98-166 131-210 (382)
142 KOG0153 Predicted RNA-binding 96.7 0.002 4.3E-08 50.4 3.5 37 10-46 263-302 (377)
143 PF05172 Nup35_RRM: Nup53/35/4 96.5 0.0046 1E-07 40.4 3.7 53 100-157 5-72 (100)
144 KOG0129 Predicted RNA-binding 96.4 0.012 2.5E-07 48.5 6.5 58 98-160 256-327 (520)
145 KOG3152 TBP-binding protein, a 96.3 0.0021 4.7E-08 48.3 1.9 59 100-162 73-151 (278)
146 PF10309 DUF2414: Protein of u 96.3 0.014 2.9E-07 34.6 4.7 54 101-159 5-62 (62)
147 KOG0114 Predicted RNA-binding 96.2 0.011 2.4E-07 38.6 4.4 42 6-47 52-95 (124)
148 PF07292 NID: Nmi/IFP 35 domai 95.9 0.014 2.9E-07 37.2 3.7 71 14-123 1-74 (88)
149 KOG1995 Conserved Zn-finger pr 95.8 0.012 2.7E-07 46.2 3.7 66 98-167 63-144 (351)
150 KOG4661 Hsp27-ERE-TATA-binding 95.6 0.015 3.3E-07 48.6 4.0 44 2-45 438-483 (940)
151 KOG0116 RasGAP SH3 binding pro 95.4 0.071 1.5E-06 43.6 6.9 39 8-46 327-366 (419)
152 PF11608 Limkain-b1: Limkain b 95.1 0.048 1E-06 34.3 4.1 35 10-44 38-74 (90)
153 COG5175 MOT2 Transcriptional r 95.0 0.042 9.1E-07 43.2 4.4 60 99-162 112-188 (480)
154 KOG2314 Translation initiation 95.0 0.031 6.8E-07 46.7 3.8 40 2-42 97-139 (698)
155 KOG0132 RNA polymerase II C-te 94.8 0.043 9.2E-07 47.5 4.2 39 9-47 455-495 (894)
156 KOG2591 c-Mpl binding protein, 94.6 0.19 4.1E-06 42.1 7.4 64 101-169 175-241 (684)
157 KOG0128 RNA-binding protein SA 94.6 0.0023 4.9E-08 55.4 -3.7 56 100-159 666-729 (881)
158 KOG1996 mRNA splicing factor [ 94.5 0.04 8.7E-07 42.5 3.2 45 115-163 300-353 (378)
159 KOG0112 Large RNA-binding prot 94.5 0.0098 2.1E-07 51.9 -0.1 66 98-167 369-441 (975)
160 PF03467 Smg4_UPF3: Smg-4/UPF3 94.5 0.033 7.1E-07 40.2 2.6 59 100-162 6-78 (176)
161 KOG2314 Translation initiation 93.9 0.057 1.2E-06 45.2 3.1 62 99-164 56-130 (698)
162 KOG4676 Splicing factor, argin 93.7 0.077 1.7E-06 42.5 3.5 46 102-147 8-64 (479)
163 PF15023 DUF4523: Protein of u 93.5 0.16 3.4E-06 35.2 4.3 60 98-161 83-147 (166)
164 PF08952 DUF1866: Domain of un 92.8 0.31 6.6E-06 34.0 4.9 53 100-156 26-87 (146)
165 KOG4210 Nuclear localization s 92.7 0.062 1.3E-06 41.8 1.5 47 1-47 217-264 (285)
166 KOG1995 Conserved Zn-finger pr 92.6 0.091 2E-06 41.5 2.4 46 2-47 107-154 (351)
167 KOG2416 Acinus (induces apopto 92.6 0.074 1.6E-06 44.8 2.0 63 97-163 440-505 (718)
168 KOG2193 IGF-II mRNA-binding pr 92.1 0.16 3.5E-06 41.2 3.3 57 102-162 2-60 (584)
169 COG5175 MOT2 Transcriptional r 91.9 0.11 2.5E-06 40.8 2.1 31 15-45 169-201 (480)
170 KOG4660 Protein Mei2, essentia 91.3 0.37 7.9E-06 40.3 4.5 37 4-40 105-143 (549)
171 PF14111 DUF4283: Domain of un 91.1 0.08 1.7E-06 36.8 0.5 84 10-135 54-139 (153)
172 KOG2253 U1 snRNP complex, subu 90.5 0.26 5.6E-06 42.0 3.1 58 99-161 38-95 (668)
173 KOG4676 Splicing factor, argin 89.9 0.12 2.7E-06 41.4 0.7 34 101-134 151-184 (479)
174 KOG2202 U2 snRNP splicing fact 89.1 0.12 2.7E-06 39.0 0.1 43 116-162 83-133 (260)
175 KOG4307 RNA binding protein RB 89.1 3.5 7.6E-05 35.9 8.5 57 103-163 869-933 (944)
176 KOG0533 RRM motif-containing p 88.6 0.94 2E-05 34.4 4.6 42 6-47 119-162 (243)
177 KOG2135 Proteins containing th 88.1 0.21 4.5E-06 41.0 0.8 59 101-164 372-433 (526)
178 KOG4285 Mitotic phosphoprotein 87.6 1.2 2.5E-05 34.8 4.5 53 101-158 197-251 (350)
179 PF08952 DUF1866: Domain of un 87.6 1.1 2.4E-05 31.2 4.1 35 13-47 72-107 (146)
180 PF02714 DUF221: Domain of unk 85.9 1.6 3.5E-05 34.3 4.7 31 14-44 1-31 (325)
181 PF07576 BRAP2: BRCA1-associat 85.8 5.1 0.00011 26.6 6.3 63 101-167 13-82 (110)
182 KOG2068 MOT2 transcription fac 84.3 0.68 1.5E-05 36.5 1.8 59 100-162 76-148 (327)
183 KOG2202 U2 snRNP splicing fact 81.8 0.98 2.1E-05 34.3 1.8 35 10-44 109-145 (260)
184 KOG1996 mRNA splicing factor [ 80.9 1.9 4.2E-05 33.5 3.1 30 14-43 332-363 (378)
185 PF10567 Nab6_mRNP_bdg: RNA-re 80.6 3.1 6.8E-05 32.3 4.2 64 100-163 14-92 (309)
186 KOG0804 Cytoplasmic Zn-finger 79.5 5.5 0.00012 32.9 5.4 65 100-168 73-144 (493)
187 PF05172 Nup35_RRM: Nup53/35/4 77.7 5.8 0.00013 25.8 4.2 35 10-44 53-89 (100)
188 KOG0151 Predicted splicing reg 77.5 8.8 0.00019 33.6 6.3 38 8-45 216-255 (877)
189 PF15513 DUF4651: Domain of un 74.2 4.2 9.1E-05 24.0 2.6 19 116-134 9-27 (62)
190 KOG4849 mRNA cleavage factor I 72.1 2.2 4.7E-05 34.1 1.4 27 100-126 79-105 (498)
191 KOG2891 Surface glycoprotein [ 71.8 4 8.7E-05 31.6 2.7 34 101-134 149-194 (445)
192 KOG4574 RNA-binding protein (c 70.8 1.8 3.8E-05 38.4 0.7 59 101-163 298-358 (1007)
193 KOG4008 rRNA processing protei 69.1 4.3 9.2E-05 30.6 2.3 42 98-139 37-78 (261)
194 PF04847 Calcipressin: Calcipr 69.0 7.7 0.00017 28.2 3.6 43 114-160 8-52 (184)
195 KOG4849 mRNA cleavage factor I 64.7 9.7 0.00021 30.5 3.6 38 4-41 117-156 (498)
196 PRK15464 cold shock-like prote 62.5 4.1 8.9E-05 24.7 0.9 10 9-18 14-23 (70)
197 PRK09937 stationary phase/star 62.3 4.9 0.00011 24.6 1.3 9 9-17 11-19 (74)
198 PRK14998 cold shock-like prote 62.2 4.9 0.00011 24.5 1.3 10 9-18 11-20 (73)
199 PF08777 RRM_3: RNA binding mo 61.9 8.2 0.00018 25.3 2.4 18 13-30 39-56 (105)
200 PRK15463 cold shock-like prote 61.1 4.6 0.0001 24.4 1.0 10 9-18 14-23 (70)
201 PF03880 DbpA: DbpA RNA bindin 60.1 13 0.00028 22.5 2.9 31 13-44 42-74 (74)
202 PF08206 OB_RNB: Ribonuclease 60.0 7.2 0.00016 22.5 1.7 35 9-45 6-44 (58)
203 PRK09507 cspE cold shock prote 59.9 4.9 0.00011 24.2 1.0 9 9-17 13-21 (69)
204 TIGR02381 cspD cold shock doma 58.7 6.3 0.00014 23.6 1.3 12 9-20 11-22 (68)
205 PRK10943 cold shock-like prote 58.7 5.2 0.00011 24.1 0.9 10 9-18 13-22 (69)
206 PRK09890 cold shock protein Cs 56.6 6.1 0.00013 23.8 1.0 9 10-18 15-23 (70)
207 PRK10354 RNA chaperone/anti-te 56.3 6.2 0.00013 23.8 1.0 8 10-17 15-22 (70)
208 COG0030 KsgA Dimethyladenosine 55.5 11 0.00025 28.9 2.5 36 101-136 95-130 (259)
209 KOG2591 c-Mpl binding protein, 54.4 7.1 0.00015 33.2 1.3 28 15-42 216-247 (684)
210 PF11767 SET_assoc: Histone ly 49.7 49 0.0011 19.8 4.1 48 112-164 11-58 (66)
211 cd04458 CSP_CDS Cold-Shock Pro 49.1 10 0.00023 22.1 1.2 11 10-20 11-21 (65)
212 KOG2068 MOT2 transcription fac 49.0 4.9 0.00011 31.8 -0.3 33 14-46 128-162 (327)
213 PF00313 CSD: 'Cold-shock' DNA 48.5 15 0.00033 21.4 1.8 11 10-20 11-21 (66)
214 PF11411 DNA_ligase_IV: DNA li 47.8 15 0.00033 19.2 1.5 15 112-126 20-34 (36)
215 KOG4410 5-formyltetrahydrofola 46.6 68 0.0015 25.2 5.4 48 100-147 329-379 (396)
216 KOG2295 C2H2 Zn-finger protein 44.0 14 0.00031 31.4 1.5 62 99-164 229-298 (648)
217 PF00403 HMA: Heavy-metal-asso 43.4 61 0.0013 18.3 5.0 44 103-146 1-46 (62)
218 COG1278 CspC Cold shock protei 43.1 11 0.00023 22.7 0.6 12 9-20 11-22 (67)
219 PF00398 RrnaAD: Ribosomal RNA 40.4 30 0.00066 26.4 2.8 34 101-134 97-132 (262)
220 PF03439 Spt5-NGN: Early trans 37.7 51 0.0011 20.5 3.1 22 9-30 42-63 (84)
221 PF15407 Spo7_2_N: Sporulation 37.3 15 0.00032 22.1 0.5 25 98-122 24-48 (67)
222 cd00027 BRCT Breast Cancer Sup 36.4 78 0.0017 17.5 5.2 46 102-147 2-47 (72)
223 PRK01178 rps24e 30S ribosomal 35.7 35 0.00076 22.2 2.1 21 6-27 61-81 (99)
224 PF12623 Hen1_L: RNA repair, l 35.0 1.2E+02 0.0027 23.0 5.1 55 101-159 118-183 (245)
225 PRK14548 50S ribosomal protein 34.8 1.2E+02 0.0026 19.1 5.8 45 103-147 22-73 (84)
226 PRK00274 ksgA 16S ribosomal RN 34.1 35 0.00076 26.2 2.3 34 103-136 107-140 (272)
227 KOG4285 Mitotic phosphoprotein 33.5 57 0.0012 25.8 3.3 44 4-47 225-270 (350)
228 PTZ00338 dimethyladenosine tra 33.0 50 0.0011 25.8 3.0 33 103-135 103-135 (294)
229 PF03108 DBD_Tnp_Mut: MuDR fam 32.8 53 0.0012 19.1 2.5 28 17-44 9-36 (67)
230 COG0858 RbfA Ribosome-binding 32.1 89 0.0019 20.9 3.7 34 125-162 33-72 (118)
231 KOG4019 Calcineurin-mediated s 31.4 21 0.00046 25.9 0.6 60 102-165 11-77 (193)
232 KOG2135 Proteins containing th 31.1 26 0.00055 29.4 1.1 35 13-47 411-446 (526)
233 COG3411 Ferredoxin [Energy pro 30.4 35 0.00075 20.3 1.3 20 20-40 33-52 (64)
234 TIGR03636 L23_arch archaeal ri 30.0 1.4E+02 0.003 18.4 5.6 45 103-147 15-66 (77)
235 TIGR00755 ksgA dimethyladenosi 28.1 76 0.0016 24.0 3.2 26 103-128 96-121 (253)
236 cd03485 MutL_Trans_hPMS_1_like 27.1 79 0.0017 21.3 2.9 59 101-159 50-130 (132)
237 PF12993 DUF3877: Domain of un 25.8 1.4E+02 0.0029 21.6 3.8 34 111-144 107-143 (175)
238 smart00650 rADc Ribosomal RNA 25.6 1E+02 0.0022 21.5 3.4 23 103-125 79-101 (169)
239 KOG1134 Uncharacterized conser 25.3 1E+02 0.0022 27.6 3.8 37 9-45 303-339 (728)
240 PTZ00071 40S ribosomal protein 25.3 65 0.0014 22.2 2.1 19 7-26 68-86 (132)
241 KOG2318 Uncharacterized conser 25.3 1.1E+02 0.0024 26.5 3.9 36 99-134 172-212 (650)
242 COG5638 Uncharacterized conser 24.6 1.3E+02 0.0029 24.9 4.0 37 98-134 143-184 (622)
243 COG1337 CRISPR system related 24.4 44 0.00095 25.6 1.3 14 8-21 199-212 (249)
244 COG5236 Uncharacterized conser 24.4 1.6E+02 0.0034 24.0 4.3 49 113-165 262-310 (493)
245 KOG3424 40S ribosomal protein 24.4 69 0.0015 21.6 2.0 20 6-26 65-84 (132)
246 PF14893 PNMA: PNMA 23.2 73 0.0016 25.5 2.4 26 99-124 16-41 (331)
247 PHA01632 hypothetical protein 23.2 87 0.0019 18.0 2.0 21 104-124 19-39 (64)
248 PF01282 Ribosomal_S24e: Ribos 22.3 83 0.0018 19.7 2.1 20 7-27 44-63 (84)
249 PF06014 DUF910: Bacterial pro 22.1 57 0.0012 19.3 1.2 16 116-131 5-20 (62)
250 PF10281 Ish1: Putative stress 22.0 78 0.0017 16.3 1.6 17 112-128 3-19 (38)
251 PF00276 Ribosomal_L23: Riboso 22.0 1.4E+02 0.0031 18.8 3.1 32 103-134 21-54 (91)
252 PF07872 DUF1659: Protein of u 21.1 1.1E+02 0.0024 16.7 2.2 24 98-121 21-44 (47)
253 PF12631 GTPase_Cys_C: Catalyt 20.6 87 0.0019 18.8 1.9 15 111-125 58-72 (73)
254 PF08002 DUF1697: Protein of u 20.4 2.9E+02 0.0063 18.8 5.8 43 104-147 6-52 (137)
255 smart00457 MACPF membrane-atta 20.2 54 0.0012 23.7 1.0 22 106-127 30-51 (194)
No 1
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=1.1e-28 Score=182.12 Aligned_cols=129 Identities=22% Similarity=0.340 Sum_probs=106.1
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhcc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (171)
|+||.+|++|||||||.|.+.++|++||.. +..|++|.|+..||+.|..... .+...-..-++
T Consensus 94 virD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~n------~~~ltfdeV~N--------- 158 (321)
T KOG0148|consen 94 VIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPSEMN------GKPLTFDEVYN--------- 158 (321)
T ss_pred EeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCccccC------CCCccHHHHhc---------
Confidence 689999999999999999999999999995 7999999999999987742111 00000000000
Q ss_pred CCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--ceeEEecCCcccHHHHHHHH
Q 030822 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--FWFCHLCGRSCSRSCFSKVS 156 (171)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--~~fv~f~~~~~~~~~a~~Ai 156 (171)
...+..++|||||++..++|++|++.|++||+|.+|+|.+| +.||+|...|+ |..||
T Consensus 159 -----------------Qssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~qGYaFVrF~tkEa----AahAI 217 (321)
T KOG0148|consen 159 -----------------QSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQGYAFVRFETKEA----AAHAI 217 (321)
T ss_pred -----------------cCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecccceEEEEecchhh----HHHHH
Confidence 11456899999999999999999999999999999999987 56899999999 99999
Q ss_pred HHHhHhCCC
Q 030822 157 RNLWTAGCN 165 (171)
Q Consensus 157 ~~l~~~~~~ 165 (171)
..||+..+.
T Consensus 218 v~mNntei~ 226 (321)
T KOG0148|consen 218 VQMNNTEIG 226 (321)
T ss_pred HHhcCceeC
Confidence 999998764
No 2
>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=99.93 E-value=4.2e-26 Score=179.60 Aligned_cols=112 Identities=17% Similarity=0.277 Sum_probs=99.3
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhcc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (171)
|++|+.||++||||||+|.++++|++||+. +..|.+++|.|.++.+...
T Consensus 139 i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~----------------------------- 189 (346)
T TIGR01659 139 IMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGGE----------------------------- 189 (346)
T ss_pred EEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeeccccccc-----------------------------
Confidence 578999999999999999999999999984 7899999999998754311
Q ss_pred CCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHH
Q 030822 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRS 150 (171)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~ 150 (171)
....++|||+|||+.+||++|+++|++||.|++|.|++| ++||+|.++++
T Consensus 190 -------------------~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~--- 247 (346)
T TIGR01659 190 -------------------SIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREE--- 247 (346)
T ss_pred -------------------ccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHH---
Confidence 123578999999999999999999999999999999977 57999999999
Q ss_pred HHHHHHHHHhHhCC
Q 030822 151 CFSKVSRNLWTAGC 164 (171)
Q Consensus 151 ~a~~Ai~~l~~~~~ 164 (171)
|++||+.||+..+
T Consensus 248 -A~~Ai~~lng~~~ 260 (346)
T TIGR01659 248 -AQEAISALNNVIP 260 (346)
T ss_pred -HHHHHHHhCCCcc
Confidence 9999999998754
No 3
>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=99.91 E-value=3.9e-24 Score=177.26 Aligned_cols=123 Identities=15% Similarity=0.305 Sum_probs=98.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhcc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (171)
|++|+.||++||||||+|.+.++|++||+ ++..|+||.|.|.+.......+...
T Consensus 139 I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~~p~a~~~~------------------------ 194 (612)
T TIGR01645 139 MSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPII------------------------ 194 (612)
T ss_pred EeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccccccccccccc------------------------
Confidence 57899999999999999999999999998 4889999999998542210000000
Q ss_pred CCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHH
Q 030822 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRS 150 (171)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~ 150 (171)
..........++|||+|||+++++++|+++|+.||.|++|+|++| ++||+|.+.++
T Consensus 195 -------------~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~--- 258 (612)
T TIGR01645 195 -------------DMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQS--- 258 (612)
T ss_pred -------------ccccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHH---
Confidence 000000224579999999999999999999999999999999865 68999999999
Q ss_pred HHHHHHHHHhHhCC
Q 030822 151 CFSKVSRNLWTAGC 164 (171)
Q Consensus 151 ~a~~Ai~~l~~~~~ 164 (171)
|.+||..||+..+
T Consensus 259 -A~kAI~amNg~el 271 (612)
T TIGR01645 259 -QSEAIASMNLFDL 271 (612)
T ss_pred -HHHHHHHhCCCee
Confidence 9999999998754
No 4
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.90 E-value=9.3e-24 Score=165.13 Aligned_cols=159 Identities=21% Similarity=0.313 Sum_probs=106.2
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCcc-CCeEEEEeecCC----------CCCCC----------------
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THEL-GGSTVVVDRATP----------KEDDF---------------- 51 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i-~gr~i~v~~a~~----------~~~~~---------------- 51 (171)
||+|+.+|.+||||||+|.+.++|++||+. .++| .||.|.|+.+.. |....
T Consensus 115 LMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan~RLFiG~IPK~k~keeIlee~~kVteGVvd 194 (506)
T KOG0117|consen 115 LMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVANCRLFIGNIPKTKKKEEILEEMKKVTEGVVD 194 (506)
T ss_pred EeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeecceeEeccCCccccHHHHHHHHHhhCCCeeE
Confidence 689999999999999999999999999994 5666 689998887632 21100
Q ss_pred -----CCCCcCCCCCCCCccccchhh-----hhhhccCCCCccCCCC---CCCC---CCCCCCCCCceEEEeCCCCCCCH
Q 030822 52 -----RPVGRMSHGGYGAYNAYISAA-----TRYAALGAPTLYDHPG---SFYG---RGESSQRIGKKIFVGRLPQEATA 115 (171)
Q Consensus 52 -----~~~~~~~~~~~~~~~~~~~~~-----~~~~~~g~~~~~~~~~---~~~~---~~~~~~~~~~~lfV~nLp~~~te 115 (171)
.+..+....+.+ ...|.+.. .+....|.-.++.+.. ...+ .++.....-+-|||+||+.++|+
T Consensus 195 Vivy~~p~dk~KNRGFa-FveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~~~tTe 273 (506)
T KOG0117|consen 195 VIVYPSPDDKTKNRGFA-FVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLMESTTE 273 (506)
T ss_pred EEEecCccccccccceE-EEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCChhhhhheeeeeeeccchhhhH
Confidence 011111111111 01111110 0111111111222111 0111 11112455678999999999999
Q ss_pred HHHHHHhhcccceEEEEecCcceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 116 EDLRRYFSRFGRILDVYVPKRFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 116 ~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
+.|+++|++||.|+.|+.++|++||+|.++++ |.+|+++||+..+
T Consensus 274 E~lk~~F~~~G~veRVkk~rDYaFVHf~eR~d----avkAm~~~ngkel 318 (506)
T KOG0117|consen 274 ETLKKLFNEFGKVERVKKPRDYAFVHFAERED----AVKAMKETNGKEL 318 (506)
T ss_pred HHHHHHHHhccceEEeecccceeEEeecchHH----HHHHHHHhcCcee
Confidence 99999999999999999999999999999999 9999999998654
No 5
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.90 E-value=2.3e-23 Score=165.17 Aligned_cols=113 Identities=22% Similarity=0.370 Sum_probs=100.1
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhcc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (171)
|++|+.||+|||||||+|.+.++|++||+. +..|.|+.|.|.++.++..
T Consensus 35 i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~----------------------------- 85 (352)
T TIGR01661 35 LVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSD----------------------------- 85 (352)
T ss_pred EEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeeccccc-----------------------------
Confidence 578999999999999999999999999984 7899999999998865422
Q ss_pred CCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHH
Q 030822 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRS 150 (171)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~ 150 (171)
.....+|||+|||+.+++++|+++|++||.|..+.|+.| ++||+|.+.++
T Consensus 86 -------------------~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~--- 143 (352)
T TIGR01661 86 -------------------SIKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDE--- 143 (352)
T ss_pred -------------------ccccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHH---
Confidence 123578999999999999999999999999999999865 68999999999
Q ss_pred HHHHHHHHHhHhCCC
Q 030822 151 CFSKVSRNLWTAGCN 165 (171)
Q Consensus 151 ~a~~Ai~~l~~~~~~ 165 (171)
|++||+.||+....
T Consensus 144 -A~~ai~~l~g~~~~ 157 (352)
T TIGR01661 144 -ADRAIKTLNGTTPS 157 (352)
T ss_pred -HHHHHHHhCCCccC
Confidence 99999999987553
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.89 E-value=1.3e-22 Score=160.85 Aligned_cols=61 Identities=20% Similarity=0.235 Sum_probs=56.2
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
.+.+|||+|||+.+++++|+++|++||.|++|+|++| ++||+|.+.++ |.+||..||+..+
T Consensus 268 ~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~----A~~Ai~~lnG~~~ 336 (352)
T TIGR01661 268 AGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDE----AAMAILSLNGYTL 336 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHH----HHHHHHHhCCCEE
Confidence 4558999999999999999999999999999999976 57999999999 9999999998654
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=99.88 E-value=3.2e-22 Score=163.73 Aligned_cols=124 Identities=21% Similarity=0.324 Sum_probs=98.7
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh-cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~-~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (171)
|++|+.||++||||||+|.+.++|++||. ++..+.|++|.|+.+.............
T Consensus 121 i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~~~~~~~~~~~~~~~---------------------- 178 (457)
T TIGR01622 121 CIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQSSQAEKNRAAKAATH---------------------- 178 (457)
T ss_pred EeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEeecchhhhhhhhcccc----------------------
Confidence 47899999999999999999999999999 4889999999998654321110000000
Q ss_pred CCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHH
Q 030822 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSC 151 (171)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~ 151 (171)
. .. ..+..++|||+|||+.+++++|+++|++||.|..|.|++| ++||+|.+.++
T Consensus 179 ------~------~~--~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~---- 240 (457)
T TIGR01622 179 ------Q------PG--DIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEE---- 240 (457)
T ss_pred ------c------CC--CCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHH----
Confidence 0 00 0123689999999999999999999999999999999864 57999999999
Q ss_pred HHHHHHHHhHhCC
Q 030822 152 FSKVSRNLWTAGC 164 (171)
Q Consensus 152 a~~Ai~~l~~~~~ 164 (171)
|.+|+..||+..+
T Consensus 241 A~~A~~~l~g~~i 253 (457)
T TIGR01622 241 AKEALEVMNGFEL 253 (457)
T ss_pred HHHHHHhcCCcEE
Confidence 9999999998554
No 8
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.88 E-value=8.5e-23 Score=150.51 Aligned_cols=111 Identities=23% Similarity=0.358 Sum_probs=100.8
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhcc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (171)
++||+.||.|-|||||.|-++++|++|+. ++..+..+.|+|.+|.|..+
T Consensus 73 LvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs~----------------------------- 123 (360)
T KOG0145|consen 73 LVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSSD----------------------------- 123 (360)
T ss_pred eeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCChh-----------------------------
Confidence 58999999999999999999999999999 48899999999999977533
Q ss_pred CCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHH
Q 030822 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRS 150 (171)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~ 150 (171)
.....+|||.+||.++|..+|+++|++||.|..-+|..| -+||.|+-+.|
T Consensus 124 -------------------~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~E--- 181 (360)
T KOG0145|consen 124 -------------------SIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIE--- 181 (360)
T ss_pred -------------------hhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhH---
Confidence 345678999999999999999999999999999988766 57999999999
Q ss_pred HHHHHHHHHhHhC
Q 030822 151 CFSKVSRNLWTAG 163 (171)
Q Consensus 151 ~a~~Ai~~l~~~~ 163 (171)
|++||+.|||..
T Consensus 182 -Ae~AIk~lNG~~ 193 (360)
T KOG0145|consen 182 -AEEAIKGLNGQK 193 (360)
T ss_pred -HHHHHHhccCCC
Confidence 999999999865
No 9
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.87 E-value=5.5e-22 Score=164.11 Aligned_cols=114 Identities=24% Similarity=0.297 Sum_probs=97.0
Q ss_pred CCCCCCccceEEEEECCHHHHHHHHhc----CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccC
Q 030822 4 DQGSKAHRGIGFITFASADSVENLMVD----THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (171)
Q Consensus 4 D~~tg~srGfgFV~F~~~~~a~~Al~~----~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (171)
+..++++||||||+|++.++|.+|++. ...+.|+.|.|.|+.++.+....
T Consensus 175 ~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~~~d~~-------------------------- 228 (578)
T TIGR01648 175 AADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEEEVDED-------------------------- 228 (578)
T ss_pred ccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeeccccccccc--------------------------
Confidence 345688999999999999999999984 24688999999998765332110
Q ss_pred CCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcc--cceEEEEecCcceeEEecCCcccHHHHHHHHH
Q 030822 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRF--GRILDVYVPKRFWFCHLCGRSCSRSCFSKVSR 157 (171)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~f--G~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~ 157 (171)
.....++|||+|||+++++++|+++|++| |.|++|.++++++||+|.++++ |++|++
T Consensus 229 -----------------~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~rgfAFVeF~s~e~----A~kAi~ 287 (578)
T TIGR01648 229 -----------------VMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIRDYAFVHFEDRED----AVKAMD 287 (578)
T ss_pred -----------------ccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeecCeEEEEeCCHHH----HHHHHH
Confidence 02235789999999999999999999999 9999999999999999999999 999999
Q ss_pred HHhHhCC
Q 030822 158 NLWTAGC 164 (171)
Q Consensus 158 ~l~~~~~ 164 (171)
.||+..+
T Consensus 288 ~lnG~~i 294 (578)
T TIGR01648 288 ELNGKEL 294 (578)
T ss_pred HhCCCEE
Confidence 9998654
No 10
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.86 E-value=1.4e-21 Score=163.77 Aligned_cols=115 Identities=20% Similarity=0.286 Sum_probs=97.9
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhcc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (171)
|++|+.|++|+|||||+|.+.++|++||+. ...|.|+.|+|.|+.......
T Consensus 32 v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~~~~--------------------------- 84 (562)
T TIGR01628 32 VCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDPSLR--------------------------- 84 (562)
T ss_pred EEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccccccccc---------------------------
Confidence 468999999999999999999999999985 577999999999874321100
Q ss_pred CCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-------ceeEEecCCcccHHH
Q 030822 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCSRSC 151 (171)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~~~~ 151 (171)
.....+|||+|||.++++++|+++|+.||.|.+|+|++| ++||+|.+.++
T Consensus 85 -------------------~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~---- 141 (562)
T TIGR01628 85 -------------------RSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEES---- 141 (562)
T ss_pred -------------------ccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHH----
Confidence 112467999999999999999999999999999999865 67999999999
Q ss_pred HHHHHHHHhHhCCC
Q 030822 152 FSKVSRNLWTAGCN 165 (171)
Q Consensus 152 a~~Ai~~l~~~~~~ 165 (171)
|.+|+..||+..++
T Consensus 142 A~~Ai~~lng~~~~ 155 (562)
T TIGR01628 142 AKAAIQKVNGMLLN 155 (562)
T ss_pred HHHHHHHhcccEec
Confidence 99999999887543
No 11
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.86 E-value=5.3e-21 Score=141.08 Aligned_cols=156 Identities=21% Similarity=0.241 Sum_probs=103.8
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCC--eEEEEeecCCCCCCC----------CCCCcCCCCCCCCcc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGG--STVVVDRATPKEDDF----------RPVGRMSHGGYGAYN 66 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~g--r~i~v~~a~~~~~~~----------~~~~~~~~~~~~~~~ 66 (171)
|..|+.||.|||.|||.|...++|++||+. ++.-.| -+|.|+++....... .|..+..+.-+.+..
T Consensus 159 iL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~ 238 (360)
T KOG0145|consen 159 ILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNPSQKTNQALLSQLYQSPARRYGGPMHHQAQ 238 (360)
T ss_pred hhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCcccccchhhhHHhhcCccccCCCcccchhh
Confidence 467999999999999999999999999994 554444 579999986442211 112111111111111
Q ss_pred cc---c-----hhhhhhhccCCCCccCCCCCCCCC-CCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-
Q 030822 67 AY---I-----SAATRYAALGAPTLYDHPGSFYGR-GESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR- 136 (171)
Q Consensus 67 ~~---~-----~~~~~~~~~g~~~~~~~~~~~~~~-~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d- 136 (171)
.. . ....+..++. .+......+. -+.....+++|||.||.++++|..|+++|++||.|.+|+|++|
T Consensus 239 r~r~~~~~~~~~~~~rfsP~~----~d~m~~l~~~~lp~~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ 314 (360)
T KOG0145|consen 239 RFRLDNLLNPHAAQARFSPMT----IDGMSGLAGVNLPGGPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDF 314 (360)
T ss_pred hhccccccchhhhhccCCCcc----ccccceeeeeccCCCCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecC
Confidence 00 0 0011111111 1111111111 1112345899999999999999999999999999999999998
Q ss_pred -------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 137 -------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 137 -------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
++||.+.+++| |..||..|||-..
T Consensus 315 ttnkCKGfgFVtMtNYdE----AamAi~sLNGy~l 345 (360)
T KOG0145|consen 315 TTNKCKGFGFVTMTNYDE----AAMAIASLNGYRL 345 (360)
T ss_pred CcccccceeEEEecchHH----HHHHHHHhcCccc
Confidence 56899999999 9999999998653
No 12
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.85 E-value=6.3e-22 Score=154.42 Aligned_cols=112 Identities=23% Similarity=0.405 Sum_probs=94.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc---CCccCC--eEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhh
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD---THELGG--STVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRY 75 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~---~~~i~g--r~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (171)
|+||+.||.|||||||+|.+.++|.+|+.. ...|.| .+|.|++|....++
T Consensus 66 l~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er------------------------- 120 (510)
T KOG0144|consen 66 LIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERER------------------------- 120 (510)
T ss_pred eecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhc-------------------------
Confidence 689999999999999999999999999884 344444 56777766432110
Q ss_pred hccCCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-------ceeEEecCCccc
Q 030822 76 AALGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCS 148 (171)
Q Consensus 76 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~ 148 (171)
-...++||||-|+..+||.+++++|++||.|++|.|++| ++||+|..++.
T Consensus 121 ----------------------~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~- 177 (510)
T KOG0144|consen 121 ----------------------IVEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEM- 177 (510)
T ss_pred ----------------------cccchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHH-
Confidence 123689999999999999999999999999999999986 68999999999
Q ss_pred HHHHHHHHHHHhHhC
Q 030822 149 RSCFSKVSRNLWTAG 163 (171)
Q Consensus 149 ~~~a~~Ai~~l~~~~ 163 (171)
|..||+.||+.-
T Consensus 178 ---A~~Aika~ng~~ 189 (510)
T KOG0144|consen 178 ---AVAAIKALNGTQ 189 (510)
T ss_pred ---HHHHHHhhccce
Confidence 999999999864
No 13
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.84 E-value=7.2e-21 Score=152.25 Aligned_cols=138 Identities=21% Similarity=0.387 Sum_probs=103.0
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhcc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (171)
++.++.++.+||||||+|+-.+++++|+.. ...+.||.|.|..+.++............ ..
T Consensus 37 vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r~e~~~~~e~~-----------------~v 99 (678)
T KOG0127|consen 37 VVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRARSEEVEKGENK-----------------AV 99 (678)
T ss_pred EecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccccccchhcccccch-----------------hh
Confidence 467889999999999999999999999995 67799999999999876443310000000 00
Q ss_pred CCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-------ceeEEecCCcccHHH
Q 030822 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCSRSC 151 (171)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~~~~ 151 (171)
-.|.....+. ...-..+.++|.|+||||.+.+.+|+.+|+.||.|.+|.|++. |+||+|....+
T Consensus 100 eK~~~q~~~~-----k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~d---- 170 (678)
T KOG0127|consen 100 EKPIEQKRPT-----KAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKD---- 170 (678)
T ss_pred hcccccCCcc-----hhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHH----
Confidence 0000000000 0001234799999999999999999999999999999999953 78999999999
Q ss_pred HHHHHHHHhHhCC
Q 030822 152 FSKVSRNLWTAGC 164 (171)
Q Consensus 152 a~~Ai~~l~~~~~ 164 (171)
|++|++.||+..+
T Consensus 171 A~~Al~~~N~~~i 183 (678)
T KOG0127|consen 171 AEKALEFFNGNKI 183 (678)
T ss_pred HHHHHHhccCcee
Confidence 9999999998654
No 14
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.84 E-value=4.7e-21 Score=134.39 Aligned_cols=113 Identities=22% Similarity=0.402 Sum_probs=96.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhcc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (171)
||+|+.|..++|||||+|.++++|+-|++ ++..+.||+|+|..+.....
T Consensus 41 iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas~~~~----------------------------- 91 (203)
T KOG0131|consen 41 IPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKASAHQK----------------------------- 91 (203)
T ss_pred cchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecccccc-----------------------------
Confidence 68999999999999999999999999999 68889999999997752111
Q ss_pred CCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEE-EecCc--------ceeEEecCCcccH
Q 030822 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDV-YVPKR--------FWFCHLCGRSCSR 149 (171)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v-~i~~d--------~~fv~f~~~~~~~ 149 (171)
....+.+|||+||.+.++|..|.+.|+.||.+... +|++| ++|+.|.+.+.
T Consensus 92 ------------------nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfea-- 151 (203)
T KOG0131|consen 92 ------------------NLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEA-- 151 (203)
T ss_pred ------------------cccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHH--
Confidence 13346899999999999999999999999998874 45544 67899999999
Q ss_pred HHHHHHHHHHhHhCC
Q 030822 150 SCFSKVSRNLWTAGC 164 (171)
Q Consensus 150 ~~a~~Ai~~l~~~~~ 164 (171)
+..||..||+...
T Consensus 152 --sd~ai~s~ngq~l 164 (203)
T KOG0131|consen 152 --SDAAIGSMNGQYL 164 (203)
T ss_pred --HHHHHHHhccchh
Confidence 9999999988654
No 15
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.82 E-value=7.5e-20 Score=151.55 Aligned_cols=138 Identities=12% Similarity=0.175 Sum_probs=94.5
Q ss_pred CCCCCccceEEEEECCHHHHHHHHh-cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCc
Q 030822 5 QGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTL 83 (171)
Q Consensus 5 ~~tg~srGfgFV~F~~~~~a~~Al~-~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 83 (171)
...++++|||||+|.+.++|..||. ++..|.|+.|.|.+.................. .... . +.
T Consensus 217 ~~~~~~kg~afVeF~~~e~A~~Al~l~g~~~~g~~l~v~r~~~~~~~~~~~~~~~~~~---~~~~------~-----~~- 281 (509)
T TIGR01642 217 VNINKEKNFAFLEFRTVEEATFAMALDSIIYSNVFLKIRRPHDYIPVPQITPEVSQKN---PDDN------A-----KN- 281 (509)
T ss_pred EEECCCCCEEEEEeCCHHHHhhhhcCCCeEeeCceeEecCccccCCccccCCCCCCCC---Cccc------c-----cc-
Confidence 3456889999999999999999997 47889999999875432211000000000000 0000 0 00
Q ss_pred cCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHH
Q 030822 84 YDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKV 155 (171)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~A 155 (171)
.... ..........++|||+|||+.+++++|+++|+.||.|..+.|++| ++||+|.+.++ |..|
T Consensus 282 ---~~~~-~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~----a~~A 353 (509)
T TIGR01642 282 ---VEKL-VNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSV----TDVA 353 (509)
T ss_pred ---cccc-cccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHH----HHHH
Confidence 0000 000001234689999999999999999999999999999999865 68999999999 9999
Q ss_pred HHHHhHhCCC
Q 030822 156 SRNLWTAGCN 165 (171)
Q Consensus 156 i~~l~~~~~~ 165 (171)
|..||+..+.
T Consensus 354 ~~~l~g~~~~ 363 (509)
T TIGR01642 354 IAALNGKDTG 363 (509)
T ss_pred HHHcCCCEEC
Confidence 9999987653
No 16
>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=99.81 E-value=1.9e-19 Score=150.83 Aligned_cols=116 Identities=22% Similarity=0.317 Sum_probs=97.4
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccC
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (171)
++| .+|++||||||+|++.++|++|++. +..++|+.|.|....++.+...
T Consensus 121 ~~~-~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~~~~~~~~~~--------------------------- 172 (562)
T TIGR01628 121 ATD-ENGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVYVGRFIKKHEREA--------------------------- 172 (562)
T ss_pred eec-CCCCcccEEEEEECCHHHHHHHHHHhcccEecCceEEEecccccccccc---------------------------
Confidence 456 4889999999999999999999984 7889999999976554422210
Q ss_pred CCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-------ceeEEecCCcccHHHH
Q 030822 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCSRSCF 152 (171)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~~~~a 152 (171)
......++|||+|||+++|+++|+++|+.||.|+++.|++| ++||.|.+.++ |
T Consensus 173 ----------------~~~~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~----A 232 (562)
T TIGR01628 173 ----------------APLKKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHED----A 232 (562)
T ss_pred ----------------ccccCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHH----H
Confidence 00234678999999999999999999999999999999865 68999999999 9
Q ss_pred HHHHHHHhHhCCC
Q 030822 153 SKVSRNLWTAGCN 165 (171)
Q Consensus 153 ~~Ai~~l~~~~~~ 165 (171)
.+|++.||+..+.
T Consensus 233 ~~Av~~l~g~~i~ 245 (562)
T TIGR01628 233 AKAVEEMNGKKIG 245 (562)
T ss_pred HHHHHHhCCcEec
Confidence 9999999987765
No 17
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.81 E-value=4.4e-19 Score=146.09 Aligned_cols=116 Identities=11% Similarity=0.130 Sum_probs=92.6
Q ss_pred CccceEEEEECCHHHHHHHHh----cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCcc
Q 030822 9 AHRGIGFITFASADSVENLMV----DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLY 84 (171)
Q Consensus 9 ~srGfgFV~F~~~~~a~~Al~----~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 84 (171)
++||||||+|++.++|++||+ ++..|.|++|.|.++..+........ .
T Consensus 36 ~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~~~~~~~~---~------------------------- 87 (481)
T TIGR01649 36 PGKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEIKRDGNS---D------------------------- 87 (481)
T ss_pred CCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCcccccCCCC---c-------------------------
Confidence 367999999999999999998 36789999999999875432111000 0
Q ss_pred CCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc----ceeEEecCCcccHHHHHHHHHHHh
Q 030822 85 DHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR----FWFCHLCGRSCSRSCFSKVSRNLW 160 (171)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d----~~fv~f~~~~~~~~~a~~Ai~~l~ 160 (171)
. .........+|||+||++.+|+++|+++|++||.|.+|.|+++ ++||+|.+.++ |.+|+..||
T Consensus 88 ------~--~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~~~~afVef~~~~~----A~~A~~~Ln 155 (481)
T TIGR01649 88 ------F--DSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKNNVFQALVEFESVNS----AQHAKAALN 155 (481)
T ss_pred ------c--cCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecCCceEEEEEECCHHH----HHHHHHHhc
Confidence 0 0000123458999999999999999999999999999999866 58999999999 999999999
Q ss_pred HhCC
Q 030822 161 TAGC 164 (171)
Q Consensus 161 ~~~~ 164 (171)
+..+
T Consensus 156 g~~i 159 (481)
T TIGR01649 156 GADI 159 (481)
T ss_pred CCcc
Confidence 9976
No 18
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.80 E-value=5e-20 Score=142.01 Aligned_cols=111 Identities=35% Similarity=0.613 Sum_probs=97.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc-CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~-~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (171)
||+|+.||++|||+||+|++++.+.++|.. .|.|+||.|.++.+.++.+.+....
T Consensus 38 vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~r~~~~~~~~------------------------ 93 (311)
T KOG4205|consen 38 VMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVSREDQTKVGR------------------------ 93 (311)
T ss_pred EeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccCccccccccc------------------------
Confidence 589999999999999999999999999996 7999999999999999877655322
Q ss_pred CCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHH
Q 030822 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSC 151 (171)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~ 151 (171)
.....+|||++||..+++++|+++|.+||.|.++.++.| ++||.|.+++.
T Consensus 94 ------------------~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~s---- 151 (311)
T KOG4205|consen 94 ------------------HLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDS---- 151 (311)
T ss_pred ------------------ccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccc----
Confidence 224689999999999999999999999999999999977 57899999998
Q ss_pred HHHHHH
Q 030822 152 FSKVSR 157 (171)
Q Consensus 152 a~~Ai~ 157 (171)
.++++.
T Consensus 152 Vdkv~~ 157 (311)
T KOG4205|consen 152 VDKVTL 157 (311)
T ss_pred cceecc
Confidence 665543
No 19
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.78 E-value=4.1e-18 Score=136.63 Aligned_cols=153 Identities=20% Similarity=0.297 Sum_probs=95.3
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCCCCCCCCC-------CcC----------CCCC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPV-------GRM----------SHGG 61 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~~~~~~~~-------~~~----------~~~~ 61 (171)
||+.+ .|+-.|||||.|.+..+|.+||+ ++++|+||+|.|.||.++....... ... ...+
T Consensus 149 IP~k~-dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye~ta~~~~~s~Kk~~~eEed~e~~~d~~ 227 (678)
T KOG0127|consen 149 IPRKK-DGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYEDTAHEEKQSLKKAVKEEEDKEADEDDG 227 (678)
T ss_pred cccCC-CCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccccccccchhhhhhhhhccchhhhcccccccc
Confidence 56654 56666999999999999999999 4899999999999998875432211 000 0000
Q ss_pred CCCcc--ccchhhhhhhccC--------CCC-----ccCCCCCCCCCC-----------CCCCCCCceEEEeCCCCCCCH
Q 030822 62 YGAYN--AYISAATRYAALG--------APT-----LYDHPGSFYGRG-----------ESSQRIGKKIFVGRLPQEATA 115 (171)
Q Consensus 62 ~~~~~--~~~~~~~~~~~~g--------~~~-----~~~~~~~~~~~~-----------~~~~~~~~~lfV~nLp~~~te 115 (171)
..... ....+.......| ... ..+. ....+.. ......+.+|||+|||+++|+
T Consensus 228 ~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd-~e~S~~~~~~k~~q~k~~~en~~~~~tVFvRNL~fD~tE 306 (678)
T KOG0127|consen 228 KDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDD-EESSGKKESDKKAQNKTTRENITEGKTVFVRNLPFDTTE 306 (678)
T ss_pred cccchhcccccccccccccccchhhhcccccccccccccc-ccccccCcccchhccccccccccccceEEEecCCccccH
Confidence 00000 0000000000000 000 0000 0000000 011334689999999999999
Q ss_pred HHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHH
Q 030822 116 EDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNL 159 (171)
Q Consensus 116 ~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l 159 (171)
++|.++|++||+|.++.|+.| .+||+|.+..+ +.++|.+.
T Consensus 307 Eel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~----~~~ci~~A 354 (678)
T KOG0127|consen 307 EELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIA----AQNCIEAA 354 (678)
T ss_pred HHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHH----HHHHHHhc
Confidence 999999999999999999976 46899999999 55555544
No 20
>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=99.78 E-value=4.1e-18 Score=140.37 Aligned_cols=141 Identities=16% Similarity=0.202 Sum_probs=93.8
Q ss_pred ccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCccCCC
Q 030822 10 HRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHP 87 (171)
Q Consensus 10 srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 87 (171)
++|||||+|.+.++|++||.. +..|.|++|.|.++..+............+ ...+..+.... ... ...+
T Consensus 312 ~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~~~~~~~~~~~~~~-~~~~~d~~~~~--~~r------~~~~ 382 (481)
T TIGR01649 312 KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQNVQPPREGQLDDG-LTSYKDYSSSR--NHR------FKKP 382 (481)
T ss_pred CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccccccCCCCCcCcCC-CcccccccCCc--ccc------CCCc
Confidence 479999999999999999984 789999999999875432211100000000 00000000000 000 0000
Q ss_pred CCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccc--eEEEEecC------cceeEEecCCcccHHHHHHHHHHH
Q 030822 88 GSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGR--ILDVYVPK------RFWFCHLCGRSCSRSCFSKVSRNL 159 (171)
Q Consensus 88 ~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~--v~~v~i~~------d~~fv~f~~~~~~~~~a~~Ai~~l 159 (171)
.... . ..-.+++.+|||+|||+++++++|+++|+.||. |..+++.. .++||+|.+.++ |.+||..|
T Consensus 383 ~~~~-~-~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~~~~~~~~~~gfVeF~~~e~----A~~Al~~l 456 (481)
T TIGR01649 383 GSAN-K-NNIQPPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFFPKDNERSKMGLLEWESVED----AVEALIAL 456 (481)
T ss_pred cccc-c-cccCCCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEEecCCCCcceeEEEEcCCHHH----HHHHHHHh
Confidence 0000 0 001245789999999999999999999999998 88888863 468899999999 99999999
Q ss_pred hHhCCC
Q 030822 160 WTAGCN 165 (171)
Q Consensus 160 ~~~~~~ 165 (171)
|+..+.
T Consensus 457 n~~~l~ 462 (481)
T TIGR01649 457 NHHQLN 462 (481)
T ss_pred cCCccC
Confidence 998763
No 21
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.77 E-value=3.7e-18 Score=141.43 Aligned_cols=141 Identities=15% Similarity=0.197 Sum_probs=96.9
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhcc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (171)
|++|+.||+++|||||+|.+.++|+.||. ++..|+|+.|.|+++............. +. .
T Consensus 327 ~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~~~~~~~~~~~--~~-~--------------- 388 (509)
T TIGR01642 327 LIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGANQATIDTSN--GM-A--------------- 388 (509)
T ss_pred EEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccCCCCCCccccc--cc-c---------------
Confidence 46788999999999999999999999998 4789999999999986432211110000 00 0
Q ss_pred CCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCC----------CHHHHHHHhhcccceEEEEecCc-----------c
Q 030822 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEA----------TAEDLRRYFSRFGRILDVYVPKR-----------F 137 (171)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~----------te~~L~~~F~~fG~v~~v~i~~d-----------~ 137 (171)
+.....+............+...|+|.||.... ..++|+++|++||.|+.|.|+++ +
T Consensus 389 --~~~~~~~~~~~~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~ 466 (509)
T TIGR01642 389 --PVTLLAKALSQSILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGK 466 (509)
T ss_pred --ccccccccchhhhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcce
Confidence 000000000000000012346889999996421 13689999999999999999864 4
Q ss_pred eeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 138 WFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 138 ~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
.||+|.+.++ |++|+..|||..++
T Consensus 467 ~fV~F~~~e~----A~~A~~~lnGr~~~ 490 (509)
T TIGR01642 467 VFLEYADVRS----AEKAMEGMNGRKFN 490 (509)
T ss_pred EEEEECCHHH----HHHHHHHcCCCEEC
Confidence 5999999999 99999999987653
No 22
>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=99.75 E-value=2.9e-18 Score=142.14 Aligned_cols=104 Identities=23% Similarity=0.351 Sum_probs=84.1
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCcc-CCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THEL-GGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAA 77 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i-~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (171)
||+| .+|+|||||||+|.+.++|++||+. +.+| .|+.|.|.++.
T Consensus 90 l~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~-------------------------------- 136 (578)
T TIGR01648 90 LMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISV-------------------------------- 136 (578)
T ss_pred EEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccccc--------------------------------
Confidence 5788 8999999999999999999999995 4555 46766655321
Q ss_pred cCCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccc-eEEEEec---------CcceeEEecCCcc
Q 030822 78 LGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGR-ILDVYVP---------KRFWFCHLCGRSC 147 (171)
Q Consensus 78 ~g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~-v~~v~i~---------~d~~fv~f~~~~~ 147 (171)
..++|||+|||+++++++|.++|++++. ++++.+. +.++||+|.++++
T Consensus 137 ----------------------~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~ed 194 (578)
T TIGR01648 137 ----------------------DNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRA 194 (578)
T ss_pred ----------------------cCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHH
Confidence 2578999999999999999999999964 4555442 3478999999999
Q ss_pred cHHHHHHHHHHHhHhC
Q 030822 148 SRSCFSKVSRNLWTAG 163 (171)
Q Consensus 148 ~~~~a~~Ai~~l~~~~ 163 (171)
|++|++.|+...
T Consensus 195 ----Aa~AirkL~~gk 206 (578)
T TIGR01648 195 ----AAMARRKLMPGR 206 (578)
T ss_pred ----HHHHHHHhhccc
Confidence 999999986543
No 23
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.75 E-value=1.9e-18 Score=129.22 Aligned_cols=99 Identities=20% Similarity=0.404 Sum_probs=90.6
Q ss_pred cceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCccCCCC
Q 030822 11 RGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHPG 88 (171)
Q Consensus 11 rGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 88 (171)
|-||||+.++...++.||.+ +..|+|..|.|+-++.|
T Consensus 36 KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK----------------------------------------- 74 (346)
T KOG0109|consen 36 KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK----------------------------------------- 74 (346)
T ss_pred cccceEEeecccccHHHHhhcccceecceEEEEEecccc-----------------------------------------
Confidence 56999999999999999996 67999999999977655
Q ss_pred CCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcceeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 89 SFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRFWFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 89 ~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
....++|+|+||.+.++.++|+..|++||+|++|+|++|++||+|.-.++ |..||+.|++..
T Consensus 75 ---------sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkdy~fvh~d~~ed----a~~air~l~~~~ 136 (346)
T KOG0109|consen 75 ---------SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKDYAFVHFDRAED----AVEAIRGLDNTE 136 (346)
T ss_pred ---------CCCccccccCCCCccccCHHHhhhhcccCCceeeeeecceeEEEEeeccc----hHHHHhcccccc
Confidence 23478999999999999999999999999999999999999999999999 999999998754
No 24
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.73 E-value=1.3e-17 Score=128.40 Aligned_cols=121 Identities=15% Similarity=0.281 Sum_probs=95.8
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccC
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (171)
..|+.||++|||+||+|+-+|.|+.|++. +..++||.|+|.+...- .+. ++--....
T Consensus 146 SWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsNm--pQA-----------QpiID~vq-------- 204 (544)
T KOG0124|consen 146 SWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNM--PQA-----------QPIIDMVQ-------- 204 (544)
T ss_pred ccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCCC--ccc-----------chHHHHHH--------
Confidence 47999999999999999999999999995 78999999998743211 000 00000000
Q ss_pred CCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHH
Q 030822 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSC 151 (171)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~ 151 (171)
.......+|||..+.++.+|+||+.+|+.||+|++|.+.++ ++|++|.+...
T Consensus 205 ----------------eeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs---- 264 (544)
T KOG0124|consen 205 ----------------EEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQS---- 264 (544)
T ss_pred ----------------HHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccc----
Confidence 00234689999999999999999999999999999999754 78999999999
Q ss_pred HHHHHHHHhHhC
Q 030822 152 FSKVSRNLWTAG 163 (171)
Q Consensus 152 a~~Ai~~l~~~~ 163 (171)
...||..||-..
T Consensus 265 ~~eAiasMNlFD 276 (544)
T KOG0124|consen 265 QSEAIASMNLFD 276 (544)
T ss_pred hHHHhhhcchhh
Confidence 999999987654
No 25
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.72 E-value=2.4e-17 Score=130.88 Aligned_cols=103 Identities=19% Similarity=0.303 Sum_probs=91.4
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccC
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (171)
-+|. | |-|||||.|.++++|++||.. -..+.|++|++.|+...
T Consensus 31 c~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd-------------------------------- 75 (369)
T KOG0123|consen 31 CRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRD-------------------------------- 75 (369)
T ss_pred eecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccC--------------------------------
Confidence 4787 6 999999999999999999996 46899999999987532
Q ss_pred CCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc------ceeEEecCCcccHHHHH
Q 030822 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR------FWFCHLCGRSCSRSCFS 153 (171)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d------~~fv~f~~~~~~~~~a~ 153 (171)
...|||.||++.++..+|.++|+.||+|++|+|..| + ||+|.++++ |.
T Consensus 76 ---------------------~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~----a~ 129 (369)
T KOG0123|consen 76 ---------------------PSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEES----AK 129 (369)
T ss_pred ---------------------CceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHH----HH
Confidence 112999999999999999999999999999999976 4 999999999 99
Q ss_pred HHHHHHhHhCCC
Q 030822 154 KVSRNLWTAGCN 165 (171)
Q Consensus 154 ~Ai~~l~~~~~~ 165 (171)
+||..||+-..+
T Consensus 130 ~ai~~~ng~ll~ 141 (369)
T KOG0123|consen 130 KAIEKLNGMLLN 141 (369)
T ss_pred HHHHHhcCcccC
Confidence 999999986543
No 26
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.71 E-value=6.1e-17 Score=133.21 Aligned_cols=109 Identities=27% Similarity=0.437 Sum_probs=89.9
Q ss_pred CccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCccCC
Q 030822 9 AHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDH 86 (171)
Q Consensus 9 ~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 86 (171)
.|.|||||+|.++++|+.|++. ++.|+|+.|.|+++..+....
T Consensus 558 lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~----------------------------------- 602 (725)
T KOG0110|consen 558 LSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKPAST----------------------------------- 602 (725)
T ss_pred cccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCccccc-----------------------------------
Confidence 3679999999999999999996 799999999999886221100
Q ss_pred CCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecC--------cceeEEecCCcccHHHHHHHHHH
Q 030822 87 PGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK--------RFWFCHLCGRSCSRSCFSKVSRN 158 (171)
Q Consensus 87 ~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~--------d~~fv~f~~~~~~~~~a~~Ai~~ 158 (171)
.+...+.....++|.|+|||+.++-.+++.+|..||.|.+|+|++ .++||.|-++.+ |.+|+..
T Consensus 603 ----~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~e----a~nA~~a 674 (725)
T KOG0110|consen 603 ----VGKKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPRE----AKNAFDA 674 (725)
T ss_pred ----cccccccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHH----HHHHHHh
Confidence 001111133468999999999999999999999999999999984 367999999999 9999999
Q ss_pred Hh
Q 030822 159 LW 160 (171)
Q Consensus 159 l~ 160 (171)
|+
T Consensus 675 l~ 676 (725)
T KOG0110|consen 675 LG 676 (725)
T ss_pred hc
Confidence 97
No 27
>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=99.70 E-value=2.6e-16 Score=128.88 Aligned_cols=161 Identities=15% Similarity=0.190 Sum_probs=98.6
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCC------cCCCCCCCCccccc-hh
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVG------RMSHGGYGAYNAYI-SA 71 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~------~~~~~~~~~~~~~~-~~ 71 (171)
|++|+.+|+++|||||+|.+.++|.+|++. +..|.|+.|.|.++........... .....+........ ..
T Consensus 218 ~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 297 (457)
T TIGR01622 218 LHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDSTYLLDAANTFEDIDKQQQMGKNLNTEEREQL 297 (457)
T ss_pred EEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccCCCccccchhhhccccccccCCcCCCccchHHH
Confidence 467889999999999999999999999984 7899999999999753211110000 00000000000000 00
Q ss_pred hhhh---h---ccCCCCc-----------------------cCCCC---CCCCCCCC---CCCCCceEEEeCCCCCCC--
Q 030822 72 ATRY---A---ALGAPTL-----------------------YDHPG---SFYGRGES---SQRIGKKIFVGRLPQEAT-- 114 (171)
Q Consensus 72 ~~~~---~---~~g~~~~-----------------------~~~~~---~~~~~~~~---~~~~~~~lfV~nLp~~~t-- 114 (171)
.... . ..+.+.. +.... .......+ .......|+|.||....+
T Consensus 298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~~ 377 (457)
T TIGR01622 298 MEKLDRDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGALAIMARNSFVPSTNNNLATTCLVLSNMFDPATEE 377 (457)
T ss_pred HHhhccCCCCccccCCCccchhhhhccccccccccccccccccccccccccCCCCCCcccCCCCCcEEEEecCCCCcccc
Confidence 0000 0 0000000 00000 00000000 135678999999955444
Q ss_pred --------HHHHHHHhhcccceEEEEec----CcceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 115 --------AEDLRRYFSRFGRILDVYVP----KRFWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 115 --------e~~L~~~F~~fG~v~~v~i~----~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
.+||++.|++||.|+.|.|. ..+.||+|.+.++ |.+|++.|||..+.
T Consensus 378 ~~~~~~~~~~dv~~e~~k~G~v~~v~v~~~~~~G~~fV~F~~~e~----A~~A~~~lnGr~f~ 436 (457)
T TIGR01622 378 EPNFDNEILDDVKEECSKYGGVVHIYVDTKNSAGKIYLKFSSVDA----ALAAFQALNGRYFG 436 (457)
T ss_pred cchHHHHHHHHHHHHHHhcCCeeEEEEeCCCCceeEEEEECCHHH----HHHHHHHhcCcccC
Confidence 37899999999999999997 3478999999999 99999999996653
No 28
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.61 E-value=4.2e-16 Score=125.22 Aligned_cols=125 Identities=22% Similarity=0.328 Sum_probs=97.8
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh-cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~-~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (171)
||.|+.++++||.|||+|-+.+.+..||. .|..+.|-+|.|+........ .+.
T Consensus 211 iI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~vq~sEaeknr---~a~----------------------- 264 (549)
T KOG0147|consen 211 IIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIVQLSEAEKNR---AAN----------------------- 264 (549)
T ss_pred eeccccchhhcceeEEEEecccchhhHhhhcCCcccCceeEecccHHHHHH---HHh-----------------------
Confidence 57899999999999999999999999998 489999999999854321000 000
Q ss_pred CCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHH
Q 030822 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSC 151 (171)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~ 151 (171)
.+...+... -..+..+|||+||.++.++++|+.+|++||.|+.|.+++| ++|++|.+.++
T Consensus 265 -------~s~a~~~k~-~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~---- 332 (549)
T KOG0147|consen 265 -------ASPALQGKG-FTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKED---- 332 (549)
T ss_pred -------ccccccccc-cccchhhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHH----
Confidence 000000000 0223445999999999999999999999999999999987 68899999999
Q ss_pred HHHHHHHHhHhC
Q 030822 152 FSKVSRNLWTAG 163 (171)
Q Consensus 152 a~~Ai~~l~~~~ 163 (171)
|.+|+.+||+..
T Consensus 333 ar~a~e~lngfe 344 (549)
T KOG0147|consen 333 ARKALEQLNGFE 344 (549)
T ss_pred HHHHHHHhccce
Confidence 999999999854
No 29
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.53 E-value=1.6e-14 Score=100.89 Aligned_cols=63 Identities=22% Similarity=0.356 Sum_probs=57.0
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
...++|||+|||+.++|++|+++|++||+|.+|.|++| ++||+|.+.++ |+.|++.||+..++
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~----A~~Al~~lng~~i~ 102 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGA----ATAAISEMDGKELN 102 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHH----HHHHHHHcCCCEEC
Confidence 35789999999999999999999999999999999865 68999999999 99999999876543
No 30
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.53 E-value=3.4e-14 Score=112.99 Aligned_cols=117 Identities=24% Similarity=0.366 Sum_probs=99.0
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccC
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (171)
++|. .| |||| ||+|+++++|++||+. +..+.|++|.|.....+++...+...
T Consensus 109 ~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~~~~~----------------------- 162 (369)
T KOG0123|consen 109 ATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEEREAPLGE----------------------- 162 (369)
T ss_pred EEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhcccccc-----------------------
Confidence 4553 45 9999 9999999999999994 88999999999988777665443221
Q ss_pred CCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-------ceeEEecCCcccHHHH
Q 030822 80 APTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCSRSCF 152 (171)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~~~~a 152 (171)
.......+||.|++.+.+++.|..+|+.||.|..+.++.+ ++||.|.++++ |
T Consensus 163 -----------------~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g~~~~~gfv~f~~~e~----a 221 (369)
T KOG0123|consen 163 -----------------YKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIGKSKGFGFVNFENPED----A 221 (369)
T ss_pred -----------------hhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCCCCCCCccceeecChhH----H
Confidence 1334678999999999999999999999999999999865 78999999998 9
Q ss_pred HHHHHHHhHhCCC
Q 030822 153 SKVSRNLWTAGCN 165 (171)
Q Consensus 153 ~~Ai~~l~~~~~~ 165 (171)
..|+..||+....
T Consensus 222 ~~av~~l~~~~~~ 234 (369)
T KOG0123|consen 222 KKAVETLNGKIFG 234 (369)
T ss_pred HHHHHhccCCcCC
Confidence 9999999998764
No 31
>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=99.48 E-value=5.2e-14 Score=85.96 Aligned_cols=58 Identities=31% Similarity=0.547 Sum_probs=53.8
Q ss_pred EEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-------ceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 104 lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
|||+|||+.+++++|+++|++||.|..+.++.+ ++||+|.++++ |++|+..||+..++
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~----a~~a~~~l~g~~~~ 65 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEED----AEKALEELNGKKIN 65 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHH----HHHHHHHHTTEEET
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHH----HHHHHHHcCCCEEC
Confidence 799999999999999999999999999999875 57899999999 99999999987654
No 32
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.47 E-value=3.5e-14 Score=106.56 Aligned_cols=62 Identities=31% Similarity=0.604 Sum_probs=58.0
Q ss_pred ceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcceeEEecCCcccHHHHHHHHHHHhHhCCCCc
Q 030822 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRFWFCHLCGRSCSRSCFSKVSRNLWTAGCNRF 167 (171)
Q Consensus 102 ~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~~~ 167 (171)
-+|||||||..+++.+|+.+|++||+|.+|.|+++++||++++... ++.||++||+-.++-+
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKNYgFVHiEdkta----aedairNLhgYtLhg~ 64 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKNYGFVHIEDKTA----AEDAIRNLHGYTLHGV 64 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecccceEEeecccc----cHHHHhhcccceecce
Confidence 4799999999999999999999999999999999999999999999 9999999998766544
No 33
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.46 E-value=2.6e-12 Score=90.97 Aligned_cols=131 Identities=18% Similarity=0.225 Sum_probs=94.4
Q ss_pred CccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCccCC
Q 030822 9 AHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDH 86 (171)
Q Consensus 9 ~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 86 (171)
....||||+|+++.+|+.||. ++..++|..|+|.++..-... ...+ +++. ..|. . .
T Consensus 43 g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr~s--~~~~---G~y~-------------gggr--g--G 100 (241)
T KOG0105|consen 43 GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGRSS--SDRR---GSYS-------------GGGR--G--G 100 (241)
T ss_pred CCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCCcc--cccc---cccC-------------CCCC--C--C
Confidence 346799999999999999999 489999999999987432100 0000 0000 0000 0 0
Q ss_pred CCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-ceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 87 PGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-FWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 87 ~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
.+....+.++...+..+|.|.+||++.+|+||+++...-|.|....+.+| .+-|.|...++ .+-|+++|.+....
T Consensus 101 gg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rDg~GvV~~~r~eD----MkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 101 GGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRDGVGVVEYLRKED----MKYAVRKLDDQKFR 176 (241)
T ss_pred CCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecccceeeeeeehhh----HHHHHHhhcccccc
Confidence 01111122333556789999999999999999999999999999999998 45699999999 99999999776543
No 34
>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=99.44 E-value=2.6e-13 Score=107.26 Aligned_cols=63 Identities=21% Similarity=0.325 Sum_probs=58.6
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
....++|||+|||+++|+++|+++|+.||+|++|+|++| ++||+|.++++ |++||+.||+..+
T Consensus 104 ~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~----A~~Ai~~LnG~~l 174 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEAD----SQRAIKNLNGITV 174 (346)
T ss_pred CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHH----HHHHHHHcCCCcc
Confidence 556899999999999999999999999999999999876 58999999999 9999999998766
No 35
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.43 E-value=2.5e-12 Score=95.80 Aligned_cols=63 Identities=22% Similarity=0.263 Sum_probs=58.4
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
.+.+|+|||..||.+..+.+|.++|-+||.|++.+|..| ++||.|+++.. |..||..|||.-+
T Consensus 282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~S----aQaAIqAMNGFQI 352 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPAS----AQAAIQAMNGFQI 352 (371)
T ss_pred CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchh----HHHHHHHhcchhh
Confidence 567999999999999999999999999999999999877 67899999999 9999999998743
No 36
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.41 E-value=2.1e-13 Score=99.61 Aligned_cols=59 Identities=31% Similarity=0.497 Sum_probs=53.5
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHh
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLW 160 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~ 160 (171)
+...++||||||+|.+..+.|+++|++||+|+++.|+.| ++||+|++.+. |.+|.+..|
T Consensus 9 DT~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~a----a~rAc~dp~ 75 (247)
T KOG0149|consen 9 DTTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEA----ATRACKDPN 75 (247)
T ss_pred CceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHH----HHHHhcCCC
Confidence 446799999999999999999999999999999999977 67999999999 999887654
No 37
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.39 E-value=5.9e-13 Score=99.92 Aligned_cols=59 Identities=19% Similarity=0.166 Sum_probs=54.2
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-----ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-----FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-----~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
.++|||+|||+.+|+++|+++|+.||+|++|.|++| ++||+|.++++ |+.||. ||+..+
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~ea----Ae~All-LnG~~l 67 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQG----AETALL-LSGATI 67 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHH----HHHHHH-hcCCee
Confidence 579999999999999999999999999999999865 68999999999 999995 888755
No 38
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.37 E-value=1e-12 Score=97.29 Aligned_cols=60 Identities=22% Similarity=0.190 Sum_probs=55.1
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-----ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-----FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-----~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
.+.+|||+||++.+|+++|+++|+.||+|.+|.|++| ++||+|.+++. ++.|+ .||++.+
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~a----aetAl-lLnGa~l 68 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYA----LETAV-LLSGATI 68 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHH----HHHHH-hcCCCee
Confidence 4689999999999999999999999999999999987 57899999999 99998 7888754
No 39
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.35 E-value=1.5e-12 Score=91.22 Aligned_cols=62 Identities=27% Similarity=0.375 Sum_probs=57.7
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEec---CcceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP---KRFWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~---~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
..++|||+||+..+++.+|+.+|..||+|..|.|. .+++||+|+++-+ |+.|+..|++..|+
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RD----A~DAvr~LDG~~~c 73 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRD----AEDAVRYLDGKDIC 73 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCccc----HHHHHhhcCCcccc
Confidence 37899999999999999999999999999999886 5689999999999 99999999998865
No 40
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.30 E-value=7e-12 Score=95.65 Aligned_cols=63 Identities=25% Similarity=0.414 Sum_probs=57.8
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEec------CcceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP------KRFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~------~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
....++|+|-|||+.-.|.||+.+|.+||.|.+|.|+ +.|+||+|++.++ |++|-.+||+..+
T Consensus 93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~d----adRARa~LHgt~V 161 (376)
T KOG0125|consen 93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPAD----ADRARAELHGTVV 161 (376)
T ss_pred CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhh----HHHHHHHhhccee
Confidence 3446899999999999999999999999999999998 4589999999999 9999999999764
No 41
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.28 E-value=5e-12 Score=84.43 Aligned_cols=63 Identities=22% Similarity=0.296 Sum_probs=57.2
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
...+++|||+||++.++|++|.++|+..|+|..|.+-.| +.||.|.++++ |+.|++-+++..+
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~d----A~~AlryisgtrL 103 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDD----AEDALRYISGTRL 103 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchh----HHHHHHHhccCcc
Confidence 446899999999999999999999999999999988766 56899999999 9999999998764
No 42
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.24 E-value=3.7e-12 Score=93.17 Aligned_cols=46 Identities=22% Similarity=0.385 Sum_probs=42.7
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc-CCccCCeEEEEeecCC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATP 46 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~-~~~i~gr~i~v~~a~~ 46 (171)
|+.|+.||||||||||+|++.+.|.+|+++ ...|+||+-.|+.|..
T Consensus 44 vitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~l 90 (247)
T KOG0149|consen 44 VITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLASL 90 (247)
T ss_pred EEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhhh
Confidence 578999999999999999999999999998 6789999999998853
No 43
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.24 E-value=2.2e-11 Score=89.63 Aligned_cols=62 Identities=24% Similarity=0.392 Sum_probs=57.8
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
..++|-|.||+.+++|++|+++|.+||.|..+.|.+| |+||+|.++++ |.+||..|||..+.
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRdd----A~rAI~~LnG~gyd 257 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDD----AARAIADLNGYGYD 257 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHH----HHHHHHHccCcccc
Confidence 5688999999999999999999999999999999877 67899999999 99999999998764
No 44
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.24 E-value=8.7e-12 Score=91.40 Aligned_cols=126 Identities=21% Similarity=0.299 Sum_probs=92.4
Q ss_pred cceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCccCCCC
Q 030822 11 RGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHPG 88 (171)
Q Consensus 11 rGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 88 (171)
.|||||+|.+.-+|+.|+.. +..|.|-.+.|.++......+ . .+.++.... . .
T Consensus 35 ~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~~~---g----~~~~g~r~~-----~-------------~ 89 (216)
T KOG0106|consen 35 NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRRGR---G----RPRGGDRRS-----D-------------S 89 (216)
T ss_pred cccceeccCchhhhhcccchhcCceecceeeeeeccccccccc---C----CCCCCCccc-----h-------------h
Confidence 48999999999999999984 566666667777665432222 0 000000000 0 0
Q ss_pred CCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcceeEEecCCcccHHHHHHHHHHHhHhCCCCcc
Q 030822 89 SFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRFWFCHLCGRSCSRSCFSKVSRNLWTAGCNRFS 168 (171)
Q Consensus 89 ~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~~~~ 168 (171)
..+ .+...+.+.|+|.+|+..+.+++|.++|.++|++.+..+++.+++|+|...++ |.+|+..|++...+...
T Consensus 90 ~~~---~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~~~~~~v~Fs~~~d----a~ra~~~l~~~~~~~~~ 162 (216)
T KOG0106|consen 90 RRY---RPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDARRNFAFVEFSEQED----AKRALEKLDGKKLNGRR 162 (216)
T ss_pred hcc---CCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhhhccccceeehhhhh----hhhcchhccchhhcCce
Confidence 000 01134578999999999999999999999999999888899999999999999 99999999998876543
No 45
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.23 E-value=2.1e-10 Score=83.67 Aligned_cols=154 Identities=12% Similarity=0.147 Sum_probs=99.8
Q ss_pred CCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCC-----cCCCCCCCCccccchhhhhhhcc
Q 030822 6 GSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVG-----RMSHGGYGAYNAYISAATRYAAL 78 (171)
Q Consensus 6 ~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~ 78 (171)
.|.+.||-|||.|.+.+.|..|+.. +..+.|+.+++.+|..+.+...... +......................
T Consensus 47 kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~ 126 (221)
T KOG4206|consen 47 KTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHF 126 (221)
T ss_pred CCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhccCceeccccCccccccccccCCcccccccc
Confidence 5889999999999999999999995 7899999999999976543221100 00000000000000000000000
Q ss_pred CCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEec---CcceeEEecCCcccHHHHHHH
Q 030822 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP---KRFWFCHLCGRSCSRSCFSKV 155 (171)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~---~d~~fv~f~~~~~~~~~a~~A 155 (171)
........+... .....++...+|+.|||..++.+.|..+|.+|.....++++ .+.+||+|.+... |..|
T Consensus 127 ~~~~~~~~p~p~---~~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~~iAfve~~~d~~----a~~a 199 (221)
T KOG4206|consen 127 YNMNRMNLPPPF---LAQMAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRSGIAFVEFLSDRQ----ASAA 199 (221)
T ss_pred cccccccCCCCc---cccCCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCCCceeEEecchhhh----hHHH
Confidence 000000000001 02225678899999999999999999999999888888887 4678999999988 8888
Q ss_pred HHHHhHhCCCC
Q 030822 156 SRNLWTAGCNR 166 (171)
Q Consensus 156 i~~l~~~~~~~ 166 (171)
...|.+.+|-.
T Consensus 200 ~~~lq~~~it~ 210 (221)
T KOG4206|consen 200 QQALQGFKITK 210 (221)
T ss_pred hhhhccceecc
Confidence 88888877653
No 46
>PLN03213 repressor of silencing 3; Provisional
Probab=99.23 E-value=1.8e-11 Score=98.07 Aligned_cols=63 Identities=19% Similarity=0.266 Sum_probs=56.5
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc----ceeEEecCC--cccHHHHHHHHHHHhHhCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR----FWFCHLCGR--SCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d----~~fv~f~~~--~~~~~~a~~Ai~~l~~~~~ 164 (171)
.....+||||||++.+++++|+.+|+.||.|.+|.|+++ |+||.|... .+ +.+||..||++..
T Consensus 7 ~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaE----eeKAISaLNGAEW 75 (759)
T PLN03213 7 GGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNS----LTKLFSTYNGCVW 75 (759)
T ss_pred CCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHH----HHHHHHHhcCCee
Confidence 345689999999999999999999999999999999964 789999987 57 8999999998764
No 47
>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=99.23 E-value=1.8e-11 Score=74.91 Aligned_cols=56 Identities=30% Similarity=0.510 Sum_probs=49.0
Q ss_pred EEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-------ceeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 104 IFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 104 lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
|||+|||+++++++|+++|+.||.|..+.+.++ .+||+|.+.++ |.+|++.+|+..
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~----a~~al~~~~~~~ 63 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEED----AKRALELLNGKE 63 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHH----HHHHHHHHTTEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHH----HHHHHHHCCCcE
Confidence 799999999999999999999999999999876 46899999999 999999987543
No 48
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.20 E-value=1.3e-10 Score=94.00 Aligned_cols=156 Identities=17% Similarity=0.243 Sum_probs=90.1
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCCCCCCCCCCcC--------CCCCCCCccccch
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRM--------SHGGYGAYNAYIS 70 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~~~~~~~~~~~--------~~~~~~~~~~~~~ 70 (171)
+++|..||++||||||+|.+.++|++|+. ++.+|.||.|+|..-+-+.......... .....+... ...
T Consensus 310 l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~~~~~a~~~~~d~D~~d~~gl~~~~~g-~~Q 388 (549)
T KOG0147|consen 310 LTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERVDTKEAAVTQFDFDEDDRQGLSLGSGG-RNQ 388 (549)
T ss_pred eccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeecccccccccccccchhhcccccccccc-HHH
Confidence 46888899999999999999999999988 4899999999987654332221110000 000000000 000
Q ss_pred hhhhhhccCC---C--------------CccCCCC-CCCCCCCCC------CCCCceEEEeCC--CCCCC--------HH
Q 030822 71 AATRYAALGA---P--------------TLYDHPG-SFYGRGESS------QRIGKKIFVGRL--PQEAT--------AE 116 (171)
Q Consensus 71 ~~~~~~~~g~---~--------------~~~~~~~-~~~~~~~~~------~~~~~~lfV~nL--p~~~t--------e~ 116 (171)
.....+.... + ......+ .......|. ..++.++.+.|+ |.+.| .+
T Consensus 389 l~~kla~~~~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~~i~t~C~lL~nMFdpstete~n~d~eI~e 468 (549)
T KOG0147|consen 389 LMAKLAEGKGRSLPSTAISALLLLAKLASAAQFNGVVRVRSVDPADASPAFDIPTQCLLLSNMFDPSTETEPNWDQEIRE 468 (549)
T ss_pred HHHHHhccCCccccchhhhHHHhccccchHHhhcCCcCccccCccccccccCCccHHHHHhhcCCcccccCcchhhHHHH
Confidence 0000000000 0 0000000 000000110 145566667776 22222 26
Q ss_pred HHHHHhhcccceEEEEecCcc-e--eEEecCCcccHHHHHHHHHHHhH
Q 030822 117 DLRRYFSRFGRILDVYVPKRF-W--FCHLCGRSCSRSCFSKVSRNLWT 161 (171)
Q Consensus 117 ~L~~~F~~fG~v~~v~i~~d~-~--fv~f~~~~~~~~~a~~Ai~~l~~ 161 (171)
|+.+..++||.|..|.|-+.- + +|+|.+.+. |..|++.||+
T Consensus 469 dV~Eec~k~g~v~hi~vd~ns~g~VYvrc~s~~~----A~~a~~alhg 512 (549)
T KOG0147|consen 469 DVIEECGKHGKVCHIFVDKNSAGCVYVRCPSAEA----AGTAVKALHG 512 (549)
T ss_pred HHHHHHHhcCCeeEEEEccCCCceEEEecCcHHH----HHHHHHHHhh
Confidence 788888999999999998764 3 588888888 9999999998
No 49
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=99.18 E-value=2.1e-10 Score=91.73 Aligned_cols=123 Identities=19% Similarity=0.263 Sum_probs=89.2
Q ss_pred CCCCCCccceEEEEECCHHHHHHHHhc-CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCC
Q 030822 4 DQGSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPT 82 (171)
Q Consensus 4 D~~tg~srGfgFV~F~~~~~a~~Al~~-~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 82 (171)
-+.+||..|=|||+|++++++++||+. ...+..|-|.|-.+.+.+....... ..|.
T Consensus 42 ~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~~~e~d~~~~~-----------------------~g~~ 98 (510)
T KOG4211|consen 42 PRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAGGAEADWVMRP-----------------------GGPN 98 (510)
T ss_pred eccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccCCccccccccC-----------------------CCCC
Confidence 356899999999999999999999995 5678889999987765533211100 0000
Q ss_pred ccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEE-EEecCc-------ceeEEecCCcccHHHHHH
Q 030822 83 LYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD-VYVPKR-------FWFCHLCGRSCSRSCFSK 154 (171)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~-v~i~~d-------~~fv~f~~~~~~~~~a~~ 154 (171)
.......|-+++|||.||++||.++|+..=.|.. +.++.| -+||+|.+.+. |++
T Consensus 99 --------------s~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~----ae~ 160 (510)
T KOG4211|consen 99 --------------SSANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQES----AEI 160 (510)
T ss_pred --------------CCCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHH----HHH
Confidence 0123567889999999999999999998855555 334444 36899999999 999
Q ss_pred HHHHHhHhCCCCc
Q 030822 155 VSRNLWTAGCNRF 167 (171)
Q Consensus 155 Ai~~l~~~~~~~~ 167 (171)
|+..-....-+||
T Consensus 161 Al~rhre~iGhRY 173 (510)
T KOG4211|consen 161 ALGRHRENIGHRY 173 (510)
T ss_pred HHHHHHHhhccce
Confidence 9877554444443
No 50
>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=99.18 E-value=2.2e-11 Score=101.82 Aligned_cols=62 Identities=19% Similarity=0.254 Sum_probs=56.5
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
...++|||+|||+++++++|+++|++||+|.+|.|++| ++||.|.+.++ |.+|++.||+..+
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~----A~~Ai~~lnG~~i 174 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEA----AQLALEQMNGQML 174 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHH----HHHHHHhcCCeEE
Confidence 35689999999999999999999999999999999755 78999999999 9999999988654
No 51
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.18 E-value=9e-11 Score=82.01 Aligned_cols=49 Identities=22% Similarity=0.458 Sum_probs=44.2
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKED 49 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~ 49 (171)
|++|+.||++||||||+|++.++|++||+. ++.|+|+.|.|+++.++..
T Consensus 66 i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~~~~ 116 (144)
T PLN03134 66 VIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPANDRPS 116 (144)
T ss_pred EEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCcCCC
Confidence 468999999999999999999999999984 7899999999999976543
No 52
>smart00362 RRM_2 RNA recognition motif.
Probab=99.18 E-value=5.6e-11 Score=71.95 Aligned_cols=58 Identities=36% Similarity=0.563 Sum_probs=52.5
Q ss_pred eEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 103 ~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
+|||+|||+.+++++|+++|++||+|.++.+..+ .+||.|.+.++ |+.|+..|++..+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~----a~~a~~~~~~~~~ 64 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEED----AEKAIEALNGTKL 64 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHH----HHHHHHHhCCcEE
Confidence 5899999999999999999999999999999865 46899999999 9999999987543
No 53
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.15 E-value=8.4e-10 Score=87.44 Aligned_cols=155 Identities=19% Similarity=0.198 Sum_probs=95.6
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCC-CcCCCC----------C-------
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPV-GRMSHG----------G------- 61 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~-~~~~~~----------~------- 61 (171)
..| ..|++||||.|+|+++|.+++|++. .+++.||+|.|+.....+..+... .+-..+ +
T Consensus 78 l~D-~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d~q~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~ 156 (608)
T KOG4212|consen 78 LFD-ESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHDEQRDQYGRIVRDGGGGFGGGGGVQGGNGGLNGG 156 (608)
T ss_pred ecc-cCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCchhhhhhhheeeccCcccccCcceeccccccccc
Confidence 345 5899999999999999999999995 799999999998654322211100 000000 0
Q ss_pred --CCC--ccccchh-hhhhhcc----CCCCccCCC---------CCCC-CCCCCCCCCCceEEEeCCCCCCCHHHHHHHh
Q 030822 62 --YGA--YNAYISA-ATRYAAL----GAPTLYDHP---------GSFY-GRGESSQRIGKKIFVGRLPQEATAEDLRRYF 122 (171)
Q Consensus 62 --~~~--~~~~~~~-~~~~~~~----g~~~~~~~~---------~~~~-~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F 122 (171)
.+. .+..... ..+.... .....|.+. .+.. +.....++...++||.||.+.+....|++.|
T Consensus 157 g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~Flr~~h~f~pPl~~k~fvanl~~~vg~~kL~qvf 236 (608)
T KOG4212|consen 157 GGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSASFLRSLHIFSPPLHNKVFVANLDYKVGNKKLKQVF 236 (608)
T ss_pred CCCCccccCCCCcccccccccccCccccccccccchhhhcccchhhhhhhccCCCCCccceeeeeccccccchHHHHHHh
Confidence 000 0000000 0000000 000001000 0000 0011124556799999999999999999999
Q ss_pred hcccceEEEEecCcc-------eeEEecCCcccHHHHHHHHHHHhH
Q 030822 123 SRFGRILDVYVPKRF-------WFCHLCGRSCSRSCFSKVSRNLWT 161 (171)
Q Consensus 123 ~~fG~v~~v~i~~d~-------~fv~f~~~~~~~~~a~~Ai~~l~~ 161 (171)
.-.|.|+.+.+-.|+ .-++|+.+-+ |.+||..|++
T Consensus 237 gmAGkv~~vdf~idKeG~s~G~~vi~y~hpve----avqaIsml~~ 278 (608)
T KOG4212|consen 237 GMAGKVQSVDFSIDKEGNSRGFAVIEYDHPVE----AVQAISMLDR 278 (608)
T ss_pred ccceeeeeeceeeccccccCCeeEEEecchHH----HHHHHHhhcc
Confidence 999999999887663 3489988889 9999998874
No 54
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.15 E-value=8.2e-11 Score=84.76 Aligned_cols=63 Identities=25% Similarity=0.394 Sum_probs=58.1
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
......|-|-||.+.++.++|+.+|++||.|.+|.|++| |+||.|.+..+ |+.|+..|.++.+
T Consensus 10 v~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~d----aedA~damDG~~l 80 (256)
T KOG4207|consen 10 VEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRD----AEDALDAMDGAVL 80 (256)
T ss_pred cccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecch----HHHHHHhhcceee
Confidence 455688999999999999999999999999999999987 78999999999 9999999988754
No 55
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.14 E-value=1.1e-10 Score=75.24 Aligned_cols=61 Identities=16% Similarity=0.272 Sum_probs=54.9
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecC-----cceeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK-----RFWFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~-----d~~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
...+-|||+|||+.+|.++..++|+.||+|..|+|-- .-+||.|++..+ |.+|..-|++-.
T Consensus 16 evnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~d----Ak~A~dhlsg~n 81 (124)
T KOG0114|consen 16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFD----AKKACDHLSGYN 81 (124)
T ss_pred hhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhh----HHHHHHHhcccc
Confidence 3467899999999999999999999999999999974 457899999999 999999998854
No 56
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.13 E-value=1.2e-10 Score=91.89 Aligned_cols=61 Identities=25% Similarity=0.483 Sum_probs=56.3
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcc--------eeEEecCCcccHHHHHHHHHHHhHh
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRF--------WFCHLCGRSCSRSCFSKVSRNLWTA 162 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~--------~fv~f~~~~~~~~~a~~Ai~~l~~~ 162 (171)
+...-++||+-+|..|+|.||+++|++||.|.+|.|++|+ .||+|..+++ |.+|+..||.-
T Consensus 31 d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~----a~~a~~Alhn~ 99 (510)
T KOG0144|consen 31 DGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKE----ADEAINALHNQ 99 (510)
T ss_pred CchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHH----HHHHHHHhhcc
Confidence 4567899999999999999999999999999999999994 5899999999 99999999864
No 57
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.08 E-value=1.7e-10 Score=81.52 Aligned_cols=60 Identities=18% Similarity=0.305 Sum_probs=55.7
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
...+|||+||+..++++.|+++|-+.|+|+++.|++| ++|++|.++++ |+-||+-||..+
T Consensus 8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eed----adYAikiln~Vk 75 (203)
T KOG0131|consen 8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEED----ADYAIKILNMVK 75 (203)
T ss_pred CCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhh----hHHHHHHHHHHH
Confidence 4689999999999999999999999999999999987 68999999999 999999999543
No 58
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.08 E-value=5.3e-12 Score=89.09 Aligned_cols=61 Identities=26% Similarity=0.352 Sum_probs=55.5
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
+.-|||||||+..||.||--+|++||+|++|.+++| |+|++|.+-.. ...|+.+|||..+.
T Consensus 35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRS----TILAVDN~NGiki~ 103 (219)
T KOG0126|consen 35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRS----TILAVDNLNGIKIL 103 (219)
T ss_pred ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccc----eEEEEeccCCceec
Confidence 466999999999999999999999999999999988 66899999888 88999999988753
No 59
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.07 E-value=1.9e-10 Score=85.91 Aligned_cols=60 Identities=23% Similarity=0.335 Sum_probs=56.0
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
--.+||+-|...++-++|++.|.+||+|.+++|++| ++||.|.+.++ ||+||..|||.=+
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~d----AEnAI~~MnGqWl 129 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKED----AENAIQQMNGQWL 129 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHH----HHHHHHHhCCeee
Confidence 457999999999999999999999999999999988 67999999999 9999999998644
No 60
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.06 E-value=1.3e-09 Score=86.49 Aligned_cols=64 Identities=19% Similarity=0.451 Sum_probs=59.1
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
.+.++.||||.||.++.|++|..+|++-|+|-+++||+| ++||.|++.++ |.+||+.||...+.
T Consensus 80 p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~----Aq~Aik~lnn~Eir 151 (506)
T KOG0117|consen 80 PPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEE----AQEAIKELNNYEIR 151 (506)
T ss_pred CCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHH----HHHHHHHhhCcccc
Confidence 356899999999999999999999999999999999987 67999999999 99999999988443
No 61
>smart00360 RRM RNA recognition motif.
Probab=99.04 E-value=2.6e-10 Score=68.67 Aligned_cols=55 Identities=33% Similarity=0.484 Sum_probs=49.7
Q ss_pred EeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 106 VGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 106 V~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
|+|||+.+++++|+++|++||.|..+.+..+ ++||.|.+.++ |..|+..||+..+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~----a~~a~~~~~~~~~ 63 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEED----AEKALEALNGKEL 63 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHH----HHHHHHHcCCCee
Confidence 5799999999999999999999999999865 67899999999 9999999986544
No 62
>smart00361 RRM_1 RNA recognition motif.
Probab=99.01 E-value=5.7e-10 Score=68.44 Aligned_cols=40 Identities=28% Similarity=0.378 Sum_probs=35.6
Q ss_pred CCCCCC--CCccceEEEEECCHHHHHHHHhc--CCccCCeEEEE
Q 030822 2 PKDQGS--KAHRGIGFITFASADSVENLMVD--THELGGSTVVV 41 (171)
Q Consensus 2 ~~D~~t--g~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v 41 (171)
+.|+.+ |++||||||+|.+.++|.+|++. +..++||.|.+
T Consensus 26 ~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 26 YIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred EeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 456666 99999999999999999999994 78999999876
No 63
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.00 E-value=5.5e-10 Score=79.29 Aligned_cols=61 Identities=18% Similarity=0.330 Sum_probs=54.1
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEec-----CcceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP-----KRFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~-----~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
..++|||+|||..+.+.+|+++|.+||.|..|.|. ..++||+|++.-+ |+.||..-++-.+
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RD----AeDAiygRdGYdy 70 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRD----AEDAIYGRDGYDY 70 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccc----hhhhhhccccccc
Confidence 46899999999999999999999999999999985 3478999999999 9999987665443
No 64
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.97 E-value=9.5e-10 Score=83.04 Aligned_cols=60 Identities=30% Similarity=0.497 Sum_probs=55.1
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
..+|||+|||+.+++++|+++|.+||.|..+.|+.| ++||.|.+.++ |..|+..|++..+
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~----~~~a~~~~~~~~~ 182 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEES----AEKAIEELNGKEL 182 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHH----HHHHHHHcCCCeE
Confidence 599999999999999999999999999999999866 57899999999 9999999986544
No 65
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=98.97 E-value=1.6e-09 Score=65.79 Aligned_cols=57 Identities=33% Similarity=0.546 Sum_probs=52.2
Q ss_pred eEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-------ceeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 103 ~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
+|+|+|||+.+++++|+++|+.||.|..+.+..+ .++|.|.+.++ |..|+..|++..
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~----a~~a~~~~~~~~ 64 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEED----AEKALEALNGKE 64 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHH----HHHHHHHhCCCe
Confidence 4899999999999999999999999999999865 46899999999 999999998864
No 66
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=2.7e-10 Score=82.89 Aligned_cols=62 Identities=24% Similarity=0.353 Sum_probs=57.5
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
...++||||+|..+++|.-|...|-+||.|.+|.|+.| ++||+|.-.++ |..||.+||++.+
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aED----AaaAiDNMnesEL 77 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAED----AAAAIDNMNESEL 77 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccch----hHHHhhcCchhhh
Confidence 35789999999999999999999999999999999976 67999999999 9999999998764
No 67
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.96 E-value=6.4e-10 Score=83.13 Aligned_cols=60 Identities=25% Similarity=0.412 Sum_probs=55.6
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-------ceeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
..++||||-|...-.|+|++.+|++||.|++|.+.+. .+||+|.+..| |..||..||+..
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~e----AqaAI~aLHgSq 84 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAE----AQAAINALHGSQ 84 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchH----HHHHHHHhcccc
Confidence 4689999999999999999999999999999999864 67999999999 999999999853
No 68
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.95 E-value=3e-08 Score=72.52 Aligned_cols=58 Identities=12% Similarity=0.186 Sum_probs=42.0
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-ceeEEecCCcccHHHHHHHHHHHhH
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-FWFCHLCGRSCSRSCFSKVSRNLWT 161 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-~~fv~f~~~~~~~~~a~~Ai~~l~~ 161 (171)
.-.+|||.||..++||++|+++|+.|-.....+|.-. -.-|-|.+.++ .++|-..|+-
T Consensus 209 acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~----~~~at~am~~ 267 (284)
T KOG1457|consen 209 ACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEE----IEQATDAMNH 267 (284)
T ss_pred hhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHH----HHHHHHHHHH
Confidence 3468999999999999999999999987777777532 22355555555 5555555543
No 69
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=98.91 E-value=1e-09 Score=79.14 Aligned_cols=45 Identities=24% Similarity=0.471 Sum_probs=42.2
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRAT 45 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~ 45 (171)
||+|+.|+.+||||||-|.+..+|+.||+. +.+++|+.|.|+.|.
T Consensus 45 IPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar 91 (256)
T KOG4207|consen 45 IPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR 91 (256)
T ss_pred cccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence 799999999999999999999999999994 899999999998774
No 70
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.89 E-value=1.3e-08 Score=76.73 Aligned_cols=108 Identities=24% Similarity=0.415 Sum_probs=77.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCC----CCCCCCCCCcCCCCCCCCccccchhhhh
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATP----KEDDFRPVGRMSHGGYGAYNAYISAATR 74 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 74 (171)
|+.|+.||++||||||+|.+.++|..|+.. +..|.|+.|.|.++.+ +...... ........
T Consensus 147 ~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~-------------~~~~~~~~ 213 (306)
T COG0724 147 LVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQPASQPRSELSNN-------------LDASFAKK 213 (306)
T ss_pred eeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccccccccccccccc-------------cchhhhcc
Confidence 467889999999999999999999999995 6899999999998653 1111000 00000000
Q ss_pred hhccCCCCccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc
Q 030822 75 YAALGAPTLYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR 136 (171)
Q Consensus 75 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d 136 (171)
..............+++.+++..++..++...|..+|.+....+...
T Consensus 214 ---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 260 (306)
T COG0724 214 ---------------LSRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPS 260 (306)
T ss_pred ---------------ccccccccccccceeeccccccccchhHHHHhccccccceeeeccCC
Confidence 00000111445788999999999999999999999999987777644
No 71
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.85 E-value=4e-09 Score=85.23 Aligned_cols=61 Identities=31% Similarity=0.502 Sum_probs=57.6
Q ss_pred ceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCCCC
Q 030822 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGCNR 166 (171)
Q Consensus 102 ~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~~ 166 (171)
+.|||||||+++++++|..+|+..|.|.+++++.| ++|++|.+.++ ++.|+++||++..+.
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~----~~~a~~~lNg~~~~g 87 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEET----AERAIRNLNGAEFNG 87 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhh----HHHHHHhcCCcccCC
Confidence 89999999999999999999999999999999977 67899999999 999999999998764
No 72
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.84 E-value=4e-09 Score=79.83 Aligned_cols=62 Identities=19% Similarity=0.285 Sum_probs=55.5
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
.+.+||||+-|+++++|..|+..|+.||+|..+.|++| ++||.|..+-+ ...|.+..++..+
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erd----m~~AYK~adG~~I 168 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERD----MKAAYKDADGIKI 168 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHH----HHHHHHhccCcee
Confidence 46899999999999999999999999999999999987 68999999999 8888887765443
No 73
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.84 E-value=4.3e-09 Score=71.15 Aligned_cols=63 Identities=22% Similarity=0.222 Sum_probs=57.2
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
...++-|||.++...++|+++.+.|..||+|.++.+-.| ++.|.|...++ |..||..||++.+
T Consensus 69 SVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~ke----Aq~A~~~~Ng~~l 139 (170)
T KOG0130|consen 69 SVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKE----AQAAIDALNGAEL 139 (170)
T ss_pred ceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHH----HHHHHHhccchhh
Confidence 456899999999999999999999999999999999876 34599999999 9999999998865
No 74
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.82 E-value=5.7e-09 Score=87.66 Aligned_cols=62 Identities=23% Similarity=0.410 Sum_probs=56.8
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEec--CcceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP--KRFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~--~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
.-++|||||+|+..++|.||.++|+.||+|++|.++ +.++||++..+.+ |++|+.+|+...+
T Consensus 419 V~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~Rqd----A~kalqkl~n~kv 482 (894)
T KOG0132|consen 419 VCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQD----AEKALQKLSNVKV 482 (894)
T ss_pred EeeeeeeeccccchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhH----HHHHHHHHhcccc
Confidence 457899999999999999999999999999999998 5678999999999 9999999986554
No 75
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=4.3e-09 Score=76.68 Aligned_cols=47 Identities=36% Similarity=0.627 Sum_probs=43.6
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~ 47 (171)
||.|..++++||||||+|...|+|..||.+ ..++-||.|+|.+|.|.
T Consensus 42 iPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~ 90 (298)
T KOG0111|consen 42 IPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPE 90 (298)
T ss_pred cccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCc
Confidence 588999999999999999999999999997 57999999999999873
No 76
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.76 E-value=8.6e-09 Score=78.09 Aligned_cols=44 Identities=18% Similarity=0.407 Sum_probs=41.0
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeec
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a 44 (171)
|++|+.||+|||||||+|+++-+...|.++ +..|+|+.|.|.+-
T Consensus 133 lV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE 178 (335)
T KOG0113|consen 133 LVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE 178 (335)
T ss_pred EeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence 589999999999999999999999999995 89999999999864
No 77
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.75 E-value=1e-08 Score=81.41 Aligned_cols=64 Identities=17% Similarity=0.159 Sum_probs=57.7
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEec---CcceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP---KRFWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~---~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
....++|||+|||+++||+.|++-|..||.|.++.|+ ++.+-|+|.++++ |+.|+..|++..+.
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~GkskGVVrF~s~ed----AEra~a~Mngs~l~ 599 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMENGKSKGVVRFFSPED----AERACALMNGSRLD 599 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhccceehhhhhccCCccceEEecCHHH----HHHHHHHhccCccc
Confidence 3467899999999999999999999999999999996 4567799999999 99999999987653
No 78
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.73 E-value=2.8e-08 Score=72.65 Aligned_cols=60 Identities=23% Similarity=0.362 Sum_probs=53.8
Q ss_pred CCceEEEeCCCCCCCHHHHHH----HhhcccceEEEEec-----CcceeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 100 IGKKIFVGRLPQEATAEDLRR----YFSRFGRILDVYVP-----KRFWFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~----~F~~fG~v~~v~i~-----~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
+..+|||.||+..+..++|+. +|++||.|.+|... ++.+||.|++.+. |..|+++|+|.-
T Consensus 8 pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~----As~A~r~l~gfp 76 (221)
T KOG4206|consen 8 PNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEA----ASAALRALQGFP 76 (221)
T ss_pred CCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhH----HHHHHHHhcCCc
Confidence 344999999999999999998 99999999999885 5689999999999 999999998753
No 79
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=98.73 E-value=1.4e-08 Score=59.34 Aligned_cols=43 Identities=23% Similarity=0.318 Sum_probs=38.2
Q ss_pred HHHHhhcccceEEEEecC---cceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 118 LRRYFSRFGRILDVYVPK---RFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 118 L~~~F~~fG~v~~v~i~~---d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
|+++|++||+|.++.+.+ +.+||+|.+.++ |..|++.||+...
T Consensus 1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~----A~~a~~~l~~~~~ 46 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVED----AQKAIEQLNGRQF 46 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHH----HHHHHHHHTTSEE
T ss_pred ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHH----HHHHHHHhCCCEE
Confidence 789999999999999997 458999999999 9999999998764
No 80
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.67 E-value=3.4e-08 Score=80.69 Aligned_cols=136 Identities=15% Similarity=0.219 Sum_probs=88.2
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhcc
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAAL 78 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (171)
+++|..||-|+||+|.+|.++.....|+.. +..+.+++|.|..|.+-.....+.....+. ..........
T Consensus 321 lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~~~~~~~~~~~~-----~~~~i~~~~~--- 392 (500)
T KOG0120|consen 321 LVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGASNANVNFNISQS-----QVPGIPLLMT--- 392 (500)
T ss_pred eecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccchhccccCCcccc-----ccccchhhhc---
Confidence 357889999999999999999999999994 788999999999886543222111110000 0000000000
Q ss_pred CCCCccCCCCCCCCCCCCCCCCCceEEEeCCC----CCCCH------HHHHHHhhcccceEEEEecCcc-----------
Q 030822 79 GAPTLYDHPGSFYGRGESSQRIGKKIFVGRLP----QEATA------EDLRRYFSRFGRILDVYVPKRF----------- 137 (171)
Q Consensus 79 g~~~~~~~~~~~~~~~~~~~~~~~~lfV~nLp----~~~te------~~L~~~F~~fG~v~~v~i~~d~----------- 137 (171)
.....+...|...|+= ...++ ++++..++.||.|..|.|++++
T Consensus 393 ----------------q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~Gk 456 (500)
T KOG0120|consen 393 ----------------QMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGK 456 (500)
T ss_pred ----------------ccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCccc
Confidence 0001223334444431 11111 6778888999999999999882
Q ss_pred eeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 138 WFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 138 ~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
-||+|.+.++ +++|..+|+|-.+
T Consensus 457 VFVefas~ed----~qrA~~~L~GrKF 479 (500)
T KOG0120|consen 457 VFVEFADTED----SQRAMEELTGRKF 479 (500)
T ss_pred EEEEecChHH----HHHHHHHccCcee
Confidence 3899999999 9999999987543
No 81
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.63 E-value=2.6e-08 Score=77.38 Aligned_cols=55 Identities=35% Similarity=0.553 Sum_probs=48.8
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHH
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRN 158 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~ 158 (171)
..++|||++|+|.++++.|+++|++||+|.+|.|++| ++||.|.+.++ ...++..
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~----v~~vl~~ 67 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEG----VDAVLNA 67 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcc----hheeecc
Confidence 5789999999999999999999999999999999996 67899998888 5555544
No 82
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.63 E-value=1.2e-07 Score=79.20 Aligned_cols=60 Identities=27% Similarity=0.373 Sum_probs=53.5
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcccceEEEEecC-----------cceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK-----------RFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~-----------d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
.++|||.||++.++.++|..+|..+|.|.++.|.+ .++||+|.+.+. |..|++.|++..+
T Consensus 515 ~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~----A~~a~k~lqgtvl 585 (725)
T KOG0110|consen 515 ETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPES----AQAALKALQGTVL 585 (725)
T ss_pred chhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHH----HHHHHHHhcCcee
Confidence 34499999999999999999999999999998863 468999999999 9999999986544
No 83
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.61 E-value=4.5e-08 Score=70.67 Aligned_cols=45 Identities=13% Similarity=0.220 Sum_probs=38.9
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCC
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATP 46 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~ 46 (171)
.|++.||.|||||||+|++++.|.-|-+. ...+.++.|.|.+--|
T Consensus 83 sRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmpp 129 (214)
T KOG4208|consen 83 SRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPP 129 (214)
T ss_pred ecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCc
Confidence 38899999999999999999999999885 5788899998886533
No 84
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.58 E-value=1e-07 Score=79.72 Aligned_cols=68 Identities=19% Similarity=0.259 Sum_probs=61.4
Q ss_pred CCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecC-----------cceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 97 SQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK-----------RFWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 97 ~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~-----------d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
+.+..++|||+||++.++++.|-..|+.||+|..++|+- ..+||-|-++.+ |+.|++.|++-.+-
T Consensus 170 gDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D----~era~k~lqg~iv~ 245 (877)
T KOG0151|consen 170 GDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRAD----AERALKELQGIIVM 245 (877)
T ss_pred CCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhh----HHHHHHHhcceeee
Confidence 466789999999999999999999999999999999983 368999999999 99999999998876
Q ss_pred Ccc
Q 030822 166 RFS 168 (171)
Q Consensus 166 ~~~ 168 (171)
+|.
T Consensus 246 ~~e 248 (877)
T KOG0151|consen 246 EYE 248 (877)
T ss_pred eee
Confidence 653
No 85
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=98.58 E-value=6.1e-08 Score=74.45 Aligned_cols=45 Identities=18% Similarity=0.411 Sum_probs=39.2
Q ss_pred CCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCC
Q 030822 7 SKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDF 51 (171)
Q Consensus 7 tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~ 51 (171)
..-|||||||+|++.++|++|-++ +..+.||+|+|+.++++....
T Consensus 132 ERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATarV~n~ 178 (376)
T KOG0125|consen 132 ERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATARVHNK 178 (376)
T ss_pred cCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchhhccC
Confidence 346999999999999999999885 789999999999998874443
No 86
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.57 E-value=1.1e-07 Score=73.60 Aligned_cols=60 Identities=22% Similarity=0.387 Sum_probs=52.1
Q ss_pred CCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--ceeEEecCCcccHHHHHHHHHHH
Q 030822 96 SSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--FWFCHLCGRSCSRSCFSKVSRNL 159 (171)
Q Consensus 96 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--~~fv~f~~~~~~~~~a~~Ai~~l 159 (171)
+.+..-.+|||++|-..++|.+|+++|.+||+|.++.+... .+||+|..++. |+.|...+
T Consensus 223 PeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~~CAFv~ftTR~a----AE~Aae~~ 284 (377)
T KOG0153|consen 223 PEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRKGCAFVTFTTREA----AEKAAEKS 284 (377)
T ss_pred CcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecccccceeeehhhHH----HHHHHHhh
Confidence 34667789999999999999999999999999999999855 67999999999 77766553
No 87
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.53 E-value=6e-08 Score=75.58 Aligned_cols=60 Identities=20% Similarity=0.274 Sum_probs=55.0
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
--++||||.|.++..|+.|+..|.+||+|.++.+.-| |+||+|+-++. |..|+++||+.-
T Consensus 112 iMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEa----AqLAlEqMNg~m 179 (544)
T KOG0124|consen 112 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEA----AQLALEQMNGQM 179 (544)
T ss_pred HhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHH----HHHHHHHhcccc
Confidence 4689999999999999999999999999999998644 78899999999 999999999863
No 88
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.53 E-value=3.3e-07 Score=75.23 Aligned_cols=64 Identities=20% Similarity=0.441 Sum_probs=57.2
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
...+++|||-+|...+...+|+.+|++||.|+-++|+.+ ++||+|.+..+ |.+.|..||...++
T Consensus 402 s~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~e----AtkCI~hLHrTELH 473 (940)
T KOG4661|consen 402 STLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAE----ATKCIEHLHRTELH 473 (940)
T ss_pred cccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHH----HHHHHHHhhhhhhc
Confidence 345789999999999999999999999999999999965 78999999999 89999999876543
No 89
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.50 E-value=1.4e-07 Score=76.44 Aligned_cols=47 Identities=21% Similarity=0.452 Sum_probs=43.0
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~ 47 (171)
++.|+.||++|||||++|.+++++++|++. +.++.||+|+|.|+...
T Consensus 50 ~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 50 LVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred ecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 467999999999999999999999999995 79999999999998644
No 90
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.50 E-value=2.3e-08 Score=70.92 Aligned_cols=44 Identities=18% Similarity=0.337 Sum_probs=40.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeec
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a 44 (171)
|+||+.||+|+||||+.|++..+.-.|+.+ +..|.||.|+|...
T Consensus 67 LiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv 112 (219)
T KOG0126|consen 67 LIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV 112 (219)
T ss_pred EEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence 589999999999999999999999999985 88999999999864
No 91
>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=98.48 E-value=1.8e-07 Score=56.98 Aligned_cols=38 Identities=21% Similarity=0.429 Sum_probs=33.2
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEE
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVV 40 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~ 40 (171)
+++++ |+++|+|||+|.++++|++|++. ++.++|+.|+
T Consensus 31 ~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 31 IKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred Eeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 35666 89999999999999999999994 5899999874
No 92
>smart00360 RRM RNA recognition motif.
Probab=98.46 E-value=3.5e-07 Score=54.65 Aligned_cols=41 Identities=24% Similarity=0.503 Sum_probs=35.0
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEe
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVD 42 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~ 42 (171)
+.++.+++++|||||+|.+.++|.+|++. +..++|+.|.|.
T Consensus 29 ~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 29 VRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred EeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 45566899999999999999999999985 578889988763
No 93
>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=98.43 E-value=2.2e-07 Score=56.20 Aligned_cols=35 Identities=20% Similarity=0.485 Sum_probs=31.9
Q ss_pred CCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEE
Q 030822 6 GSKAHRGIGFITFASADSVENLMVD--THELGGSTVV 40 (171)
Q Consensus 6 ~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~ 40 (171)
.+++++|||||+|++.++|++|++. +..++|++|+
T Consensus 34 ~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 34 SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 5789999999999999999999994 8899999874
No 94
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.43 E-value=1.2e-07 Score=70.58 Aligned_cols=45 Identities=16% Similarity=0.402 Sum_probs=39.9
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRAT 45 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~ 45 (171)
++||+.||+|+|||||.|.++.++.+||++ +..++.|.|..+.+.
T Consensus 222 viRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~ 268 (290)
T KOG0226|consen 222 VIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSE 268 (290)
T ss_pred ccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhh
Confidence 589999999999999999999999999996 678888888776543
No 95
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.42 E-value=5.5e-07 Score=67.60 Aligned_cols=63 Identities=19% Similarity=0.207 Sum_probs=56.1
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcce-------eEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRFW-------FCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~~-------fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
....+|+|.|||+.++++||+++|..||.+..+.|.+|.. -|.|.-.++ |+.|++.+|+..+.
T Consensus 81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~D----A~~avk~~~gv~ld 150 (243)
T KOG0533|consen 81 TRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDD----AERAVKKYNGVALD 150 (243)
T ss_pred CCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHh----HHHHHHHhcCcccC
Confidence 3458899999999999999999999999999999998853 499999999 99999999986543
No 96
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=3.2e-07 Score=71.35 Aligned_cols=61 Identities=25% Similarity=0.360 Sum_probs=55.1
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHh
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTA 162 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~ 162 (171)
.++.+.|||=-|.+-++++||.-+|+.||.|.+|.|++| ++||.|.+.++ .++|.=.|..+
T Consensus 236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~es----cE~AyFKMdNv 304 (479)
T KOG0415|consen 236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKES----CEQAYFKMDNV 304 (479)
T ss_pred CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhh----HHHHHhhhcce
Confidence 567899999999999999999999999999999999998 57899999999 88888777543
No 97
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=98.40 E-value=8.1e-07 Score=51.74 Aligned_cols=34 Identities=26% Similarity=0.556 Sum_probs=31.6
Q ss_pred cceEEEEECCHHHHHHHHh--cCCccCCeEEEEeec
Q 030822 11 RGIGFITFASADSVENLMV--DTHELGGSTVVVDRA 44 (171)
Q Consensus 11 rGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a 44 (171)
+|+|||+|.+.++|++|++ ++..++|++|.|.+|
T Consensus 21 ~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 21 RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 6999999999999999999 588999999999875
No 98
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.39 E-value=3.7e-06 Score=65.23 Aligned_cols=142 Identities=16% Similarity=0.140 Sum_probs=86.8
Q ss_pred CCccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCccC
Q 030822 8 KAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYD 85 (171)
Q Consensus 8 g~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 85 (171)
|.-||=|.+.|--.++++.|++ ++..+.|++|+|..|.-.............+........... +....+-
T Consensus 180 G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~--q~k~~dw----- 252 (382)
T KOG1548|consen 180 GKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQ--QQKLLDW----- 252 (382)
T ss_pred CCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhhhhccCcCcccccccccccHHHHHHH--HHhhccc-----
Confidence 7778999999999999999999 578899999999988642111110000000000000000000 0000000
Q ss_pred CCCCCCCCCCCCCCCCceEEEeCCC----CCCC-------HHHHHHHhhcccceEEEEec----CcceeEEecCCcccHH
Q 030822 86 HPGSFYGRGESSQRIGKKIFVGRLP----QEAT-------AEDLRRYFSRFGRILDVYVP----KRFWFCHLCGRSCSRS 150 (171)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~lfV~nLp----~~~t-------e~~L~~~F~~fG~v~~v~i~----~d~~fv~f~~~~~~~~ 150 (171)
.... ..++.....++|.+.||= +..+ +++|++-.++||.|.+|.|- ..-.+|.|.+.++
T Consensus 253 --~pd~-~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~ee--- 326 (382)
T KOG1548|consen 253 --RPDR-DDPSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEE--- 326 (382)
T ss_pred --CCCc-cccccccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHH---
Confidence 0000 011124456889999982 2333 46778889999999999885 2245799999999
Q ss_pred HHHHHHHHHhHhC
Q 030822 151 CFSKVSRNLWTAG 163 (171)
Q Consensus 151 ~a~~Ai~~l~~~~ 163 (171)
|..+|+.|+|-.
T Consensus 327 -A~~ciq~m~GR~ 338 (382)
T KOG1548|consen 327 -ADQCIQTMDGRW 338 (382)
T ss_pred -HHHHHHHhcCee
Confidence 999999998743
No 99
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.35 E-value=1e-06 Score=72.18 Aligned_cols=127 Identities=20% Similarity=0.244 Sum_probs=88.9
Q ss_pred CCccceEEEEECCHHHHHHHHhc-CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCccCC
Q 030822 8 KAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDH 86 (171)
Q Consensus 8 g~srGfgFV~F~~~~~a~~Al~~-~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 86 (171)
...+.|+|++|.+.++|..|+.. +..+.|+.+.+.................+ .+..
T Consensus 220 n~~~nfa~ie~~s~~~at~~~~~~~~~f~g~~~~~~r~~d~~~~p~~~~~~~~-----------------------~~~~ 276 (500)
T KOG0120|consen 220 NLEKNFAFIEFRSISEATEAMALDGIIFEGRPLKIRRPHDYQPVPGITLSPSQ-----------------------LGKV 276 (500)
T ss_pred cccccceeEEecCCCchhhhhcccchhhCCCCceecccccccCCccchhhhcc-----------------------cccc
Confidence 35688999999999999999984 77788998877643322111100000000 0000
Q ss_pred CCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHH
Q 030822 87 PGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRN 158 (171)
Q Consensus 87 ~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~ 158 (171)
+. ...........++|||++||...++.+++++...||++....++.| +.|.+|.+..- ...|+..
T Consensus 277 ~~--~~~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsv----td~A~ag 350 (500)
T KOG0120|consen 277 GL--LPASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSV----TDQAIAG 350 (500)
T ss_pred CC--cccccCcccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcc----hhhhhcc
Confidence 00 0000011345689999999999999999999999999999999876 56799999999 9999999
Q ss_pred HhHhC
Q 030822 159 LWTAG 163 (171)
Q Consensus 159 l~~~~ 163 (171)
|||-.
T Consensus 351 LnGm~ 355 (500)
T KOG0120|consen 351 LNGMQ 355 (500)
T ss_pred cchhh
Confidence 99854
No 100
>smart00361 RRM_1 RNA recognition motif.
Probab=98.34 E-value=5.2e-07 Score=55.16 Aligned_cols=47 Identities=17% Similarity=0.147 Sum_probs=39.4
Q ss_pred HHHHHHHhh----cccceEEEE-ecC----------cceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 115 AEDLRRYFS----RFGRILDVY-VPK----------RFWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 115 e~~L~~~F~----~fG~v~~v~-i~~----------d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
+++|+++|+ +||+|.++. |+. .++||.|.+.++ |.+|++.||+..+.
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~d----A~~A~~~l~g~~~~ 63 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSED----AARAIVDLNGRYFD 63 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHH----HHHHHHHhCCCEEC
Confidence 678999999 999999995 432 247899999999 99999999987543
No 101
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.31 E-value=8.8e-07 Score=72.34 Aligned_cols=61 Identities=16% Similarity=0.243 Sum_probs=54.1
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc---ceeEEecCCcccHHHHHHHHHHHhHh
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR---FWFCHLCGRSCSRSCFSKVSRNLWTA 162 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d---~~fv~f~~~~~~~~~a~~Ai~~l~~~ 162 (171)
+.+..+|+|-|||.++++++|+++|+.||+|..|+.-+. .-||+|.|.-+ |+.|+++|++-
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~----A~~Alk~l~~~ 135 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRD----AERALKALNRR 135 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHh----HHHHHHHHHHH
Confidence 556789999999999999999999999999999776543 45899999999 99999999864
No 102
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.31 E-value=3.2e-07 Score=67.54 Aligned_cols=60 Identities=23% Similarity=0.436 Sum_probs=56.1
Q ss_pred ceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRFWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 102 ~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
.++||++||+.+.+.+|..+|..||.|.+|.+...++||.|.+..+ |+.||..||+..+.
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~gf~fv~fed~rd----a~Dav~~l~~~~l~ 61 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKNGFGFVEFEDPRD----ADDAVHDLDGKELC 61 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceeecccceeccCchhh----hhcccchhcCceec
Confidence 4699999999999999999999999999999999999999999999 99999999887654
No 103
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.30 E-value=1e-05 Score=64.16 Aligned_cols=135 Identities=16% Similarity=0.157 Sum_probs=86.2
Q ss_pred eEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCccCCCCCC
Q 030822 13 IGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHPGSF 90 (171)
Q Consensus 13 fgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 90 (171)
-|.|.|.+...|+-|++ +++.+.|++|+|.++.-..-. .+.......+...+ ...+...+. ..|++-
T Consensus 337 ~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~vq-lp~egq~d~glT~d-y~~spLhrf---------kkpgsK 405 (492)
T KOG1190|consen 337 NALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNVQ-LPREGQEDQGLTKD-YGNSPLHRF---------KKPGSK 405 (492)
T ss_pred ceeeeecchhHHHHHHHHhhcceecCceEEEeeccCcccc-CCCCCCcccccccc-CCCCchhhc---------cCcccc
Confidence 48999999999999999 489999999999876422111 11110000000000 000111111 111211
Q ss_pred CCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEec--Cc--ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 91 YGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP--KR--FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 91 ~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~--~d--~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
..... -++..+|..-|+|.+++|++|+.+|..-|-.+....- +| .+.+.+.+.++ |..|+-.||....
T Consensus 406 N~~ni--~PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff~kd~kmal~q~~svee----A~~ali~~hnh~l 477 (492)
T KOG1190|consen 406 NYQNI--FPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQKDRKMALPQLESVEE----AIQALIDLHNHYL 477 (492)
T ss_pred ccccc--CCchhheeeccCCcccchhHHHHhhhcCCceEEeeeecCCCcceeecccCChhH----hhhhccccccccC
Confidence 11111 3567899999999999999999999998887666543 34 45688999999 9999888876543
No 104
>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=98.29 E-value=3e-06 Score=55.99 Aligned_cols=57 Identities=19% Similarity=0.216 Sum_probs=40.0
Q ss_pred ceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--ceeEEecCCcccHHHHHHHHHHHhHh
Q 030822 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--FWFCHLCGRSCSRSCFSKVSRNLWTA 162 (171)
Q Consensus 102 ~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--~~fv~f~~~~~~~~~a~~Ai~~l~~~ 162 (171)
+-|.|.+++..++.++|++.|++||.|..|.+.++ .++|.|.+.+. |..|+..+...
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~----A~~a~~~~~~~ 60 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEA----AQKALEKLKEA 60 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS-------HHHHHHHHHHT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcch----HHHHHHHHHhc
Confidence 46889899999999999999999999999999976 57899999999 99999998776
No 105
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.24 E-value=1.2e-06 Score=70.76 Aligned_cols=54 Identities=28% Similarity=0.437 Sum_probs=47.7
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcccceEEEEecC--------cceeEEecCCcccHHHHHHHHHH
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK--------RFWFCHLCGRSCSRSCFSKVSRN 158 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~--------d~~fv~f~~~~~~~~~a~~Ai~~ 158 (171)
...|||+|||++++..+|++.|..||+|+...|.. -++||.|.+.++ +..||..
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~----~~~~i~A 349 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAA----VQNAIEA 349 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecch----hhhhhhc
Confidence 45599999999999999999999999999998874 367999999999 8888764
No 106
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.23 E-value=2.9e-06 Score=63.33 Aligned_cols=63 Identities=19% Similarity=0.278 Sum_probs=57.0
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
...-+||.+.|.-+++++.|-..|.+|-.-...++++| ++||.|.+..+ +..|++.|++-.++
T Consensus 188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad----~~rAmrem~gkyVg 258 (290)
T KOG0226|consen 188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPAD----YVRAMREMNGKYVG 258 (290)
T ss_pred cccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHH----HHHHHHhhcccccc
Confidence 34678999999999999999999999988888899987 67999999999 99999999987764
No 107
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.23 E-value=6.3e-07 Score=65.49 Aligned_cols=63 Identities=13% Similarity=0.201 Sum_probs=56.6
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
....++|||+|+...++|+.|.++|-+-|+|..|.|+.+ +++|.|.++-. ..-|++-|||..+
T Consensus 6 ae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~s----v~~a~~L~ng~~l 74 (267)
T KOG4454|consen 6 AEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENS----VQLAGQLENGDDL 74 (267)
T ss_pred cchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccc----hhhhhhhcccchh
Confidence 345789999999999999999999999999999999865 57899999999 9999999988653
No 108
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=98.23 E-value=4.1e-07 Score=71.38 Aligned_cols=138 Identities=21% Similarity=0.258 Sum_probs=85.5
Q ss_pred CCCCccceEEEEECCHHHHHHHHhc-CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCcc
Q 030822 6 GSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLY 84 (171)
Q Consensus 6 ~tg~srGfgFV~F~~~~~a~~Al~~-~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 84 (171)
-.||..|=|||.|..+++|+.||.. ...|+-|-|++-+++..+-++. ..+........ ..+.|..
T Consensus 201 pdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFRSTaaEvqqv-lnr~~s~pLi~------------~~~sp~~- 266 (508)
T KOG1365|consen 201 PDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFRSTAAEVQQV-LNREVSEPLIP------------GLTSPLL- 266 (508)
T ss_pred CCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHHHhHHHHHHH-HHhhccccccC------------CCCCCCC-
Confidence 4789999999999999999999995 5667777777765543211110 00000000000 0000000
Q ss_pred CCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEE---EEecCc-------ceeEEecCCcccHHHHHH
Q 030822 85 DHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD---VYVPKR-------FWFCHLCGRSCSRSCFSK 154 (171)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~---v~i~~d-------~~fv~f~~~~~~~~~a~~ 154 (171)
++. ..+--+...+..+|-+++||++++-++|-.+|..|..-++ |.++.+ -+||+|.+.+.++.||.+
T Consensus 267 --p~~-p~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk 343 (508)
T KOG1365|consen 267 --PGG-PARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQK 343 (508)
T ss_pred --CCC-ccccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHH
Confidence 000 0011122344678999999999999999999999864333 344432 469999999997777777
Q ss_pred HHHHHh
Q 030822 155 VSRNLW 160 (171)
Q Consensus 155 Ai~~l~ 160 (171)
.-+.+.
T Consensus 344 ~hk~~m 349 (508)
T KOG1365|consen 344 CHKKLM 349 (508)
T ss_pred HHHhhc
Confidence 776665
No 109
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=98.19 E-value=1.6e-05 Score=64.67 Aligned_cols=57 Identities=25% Similarity=0.359 Sum_probs=48.5
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhh-cccceEEEEecCccee--------EEecCCcccHHHHHHHHHH
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFS-RFGRILDVYVPKRFWF--------CHLCGRSCSRSCFSKVSRN 158 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~-~fG~v~~v~i~~d~~f--------v~f~~~~~~~~~a~~Ai~~ 158 (171)
-.+.+|||||+||--++.++|-.+|. .||.|..+-|=.|..+ |+|.+... -.+||..
T Consensus 367 lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqs----Yi~AIsa 432 (520)
T KOG0129|consen 367 IDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQA----YIKAISA 432 (520)
T ss_pred cCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHH----HHHHHhh
Confidence 34579999999999999999999999 7999999999888433 99999888 6666653
No 110
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.18 E-value=4.4e-06 Score=64.66 Aligned_cols=121 Identities=21% Similarity=0.201 Sum_probs=82.7
Q ss_pred CCCCCCccceEEEEECCHHHHHHHHhc-C-CccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCC
Q 030822 4 DQGSKAHRGIGFITFASADSVENLMVD-T-HELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAP 81 (171)
Q Consensus 4 D~~tg~srGfgFV~F~~~~~a~~Al~~-~-~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 81 (171)
......++||+.|.|+..+.+..|+.. + ..+.++.+.......+... +..
T Consensus 123 ~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~~~~~~--~~n-------------------------- 174 (285)
T KOG4210|consen 123 LEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNTRRGLR--PKN-------------------------- 174 (285)
T ss_pred hccccccccceeeccccHHHHHHHHHhhhccccccccccCccccccccc--ccc--------------------------
Confidence 355778999999999999999999985 3 4666666655444333200 000
Q ss_pred CccCCCCCCCCCCCCCCCCCceEE-EeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHH
Q 030822 82 TLYDHPGSFYGRGESSQRIGKKIF-VGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCF 152 (171)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~lf-V~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a 152 (171)
+.... ......++| |++|+..+++++|+.+|..+|.|..++++.+ +++|.|....+ .
T Consensus 175 -----~~~~~-----~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~----~ 240 (285)
T KOG4210|consen 175 -----KLSRL-----SSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNS----K 240 (285)
T ss_pred -----hhccc-----ccCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchh----H
Confidence 00000 012234555 9999999999999999999999999999866 44588888777 6
Q ss_pred HHHHHHHhHhCCCCc
Q 030822 153 SKVSRNLWTAGCNRF 167 (171)
Q Consensus 153 ~~Ai~~l~~~~~~~~ 167 (171)
..++.. .+..|-.+
T Consensus 241 ~~~~~~-~~~~~~~~ 254 (285)
T KOG4210|consen 241 KLALND-QTRSIGGR 254 (285)
T ss_pred HHHhhc-ccCcccCc
Confidence 666665 45444433
No 111
>smart00362 RRM_2 RNA recognition motif.
Probab=98.17 E-value=4e-06 Score=50.11 Aligned_cols=35 Identities=26% Similarity=0.552 Sum_probs=31.0
Q ss_pred CCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEe
Q 030822 8 KAHRGIGFITFASADSVENLMVD--THELGGSTVVVD 42 (171)
Q Consensus 8 g~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~ 42 (171)
+.++|+|||+|.+.++|++|++. +..++|+.|.|+
T Consensus 36 ~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 36 GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 77899999999999999999984 678899988763
No 112
>PLN03120 nucleic acid binding protein; Provisional
Probab=98.10 E-value=5e-06 Score=62.91 Aligned_cols=42 Identities=17% Similarity=0.362 Sum_probs=36.1
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh-cCCccCCeEEEEeecC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRAT 45 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~-~~~~i~gr~i~v~~a~ 45 (171)
|++|+. ++|||||+|+++++|+.||. ++..|.|+.|.|.++.
T Consensus 36 I~~d~~---~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 36 MQSENE---RSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAE 78 (260)
T ss_pred EeecCC---CCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEecc
Confidence 355653 67999999999999999998 4899999999999875
No 113
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.10 E-value=3.3e-06 Score=57.37 Aligned_cols=45 Identities=20% Similarity=0.271 Sum_probs=41.5
Q ss_pred CCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCC
Q 030822 3 KDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (171)
Q Consensus 3 ~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~ 47 (171)
.|+.||-.|||+.|+|++.++|+.||.. +..|.|.+|.|.|+..+
T Consensus 106 LDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~ 152 (170)
T KOG0130|consen 106 LDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVK 152 (170)
T ss_pred cccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEec
Confidence 5899999999999999999999999994 78999999999999655
No 114
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=98.01 E-value=8.9e-06 Score=54.80 Aligned_cols=43 Identities=21% Similarity=0.323 Sum_probs=39.9
Q ss_pred CCCCCCCccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecC
Q 030822 3 KDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRAT 45 (171)
Q Consensus 3 ~D~~tg~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~ 45 (171)
.|+.|...-|||||+|-+.++|+.||+ ++..++.|.|.+.|..
T Consensus 70 Ldr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~ 114 (153)
T KOG0121|consen 70 LDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDA 114 (153)
T ss_pred cccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccc
Confidence 688999999999999999999999999 5899999999999864
No 115
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.00 E-value=0.00022 Score=56.19 Aligned_cols=63 Identities=14% Similarity=0.123 Sum_probs=54.3
Q ss_pred CCCCceEEEeCCCC-CCCHHHHHHHhhcccceEEEEecCcc---eeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 98 QRIGKKIFVGRLPQ-EATAEDLRRYFSRFGRILDVYVPKRF---WFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 98 ~~~~~~lfV~nLp~-~~te~~L~~~F~~fG~v~~v~i~~d~---~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
..+++.+.|.+|.. ..+-+.|..+|..||.|+.|+.++-+ +-|++-+..+ .++|+.-||+.-+
T Consensus 284 ~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~gtamVemgd~~a----ver~v~hLnn~~l 350 (494)
T KOG1456|consen 284 GAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKPGTAMVEMGDAYA----VERAVTHLNNIPL 350 (494)
T ss_pred CCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecccceeEEEcCcHHH----HHHHHHHhccCcc
Confidence 56789999999997 57789999999999999999999763 4599999999 9999999987543
No 116
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.99 E-value=1e-05 Score=46.69 Aligned_cols=50 Identities=28% Similarity=0.490 Sum_probs=40.9
Q ss_pred ceEEEeCCCCCCCHHHHHHHhhcccceEEEEec--CcceeEEecCCcccHHHHHHHH
Q 030822 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP--KRFWFCHLCGRSCSRSCFSKVS 156 (171)
Q Consensus 102 ~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~--~d~~fv~f~~~~~~~~~a~~Ai 156 (171)
+.|-|.|.+....+. +..+|..||+|+.+.+. .+..+++|.++.+ |++|+
T Consensus 2 ~wI~V~Gf~~~~~~~-vl~~F~~fGeI~~~~~~~~~~~~~l~y~~~~~----ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEE-VLEHFASFGEIVDIYVPESTNWMYLKYKSRKD----AEKAL 53 (53)
T ss_pred cEEEEEeECchHHHH-HHHHHHhcCCEEEEEcCCCCcEEEEEECCHHH----HHhhC
Confidence 457788888766655 45589999999999999 6677899999999 99885
No 117
>PLN03213 repressor of silencing 3; Provisional
Probab=97.98 E-value=7.6e-06 Score=66.42 Aligned_cols=40 Identities=18% Similarity=0.402 Sum_probs=35.5
Q ss_pred CCCCCccceEEEEECCH--HHHHHHHh--cCCccCCeEEEEeecCC
Q 030822 5 QGSKAHRGIGFITFASA--DSVENLMV--DTHELGGSTVVVDRATP 46 (171)
Q Consensus 5 ~~tg~srGfgFV~F~~~--~~a~~Al~--~~~~i~gr~i~v~~a~~ 46 (171)
+.|| ||||||+|.+. .++++||. ++..+.||.|+|..|.+
T Consensus 44 RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP 87 (759)
T PLN03213 44 RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE 87 (759)
T ss_pred cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence 4577 99999999988 78999999 48999999999998865
No 118
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.98 E-value=3.3e-06 Score=72.07 Aligned_cols=92 Identities=15% Similarity=0.175 Sum_probs=74.3
Q ss_pred CCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCC
Q 030822 5 QGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPT 82 (171)
Q Consensus 5 ~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 82 (171)
.++|+-||+|||+|..++++.+||.- .+.+.
T Consensus 703 ~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g----------------------------------------------- 735 (881)
T KOG0128|consen 703 KNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG----------------------------------------------- 735 (881)
T ss_pred hhccccccceeeEeecCCchhhhhhhhhhhhhh-----------------------------------------------
Confidence 35789999999999999999999862 22221
Q ss_pred ccCCCCCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcce-------eEEecCCcccHHHHHHH
Q 030822 83 LYDHPGSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRFW-------FCHLCGRSCSRSCFSKV 155 (171)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~~-------fv~f~~~~~~~~~a~~A 155 (171)
..++||.|+|+..|.+.|+.+++.+|.+.+.+++..++ +|.|.++.+ +.++
T Consensus 736 ------------------K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~----~s~~ 793 (881)
T KOG0128|consen 736 ------------------KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEAD----ASRK 793 (881)
T ss_pred ------------------hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcch----hhhh
Confidence 25599999999999999999999999999999876554 899999999 7777
Q ss_pred HHHHhHhCCC
Q 030822 156 SRNLWTAGCN 165 (171)
Q Consensus 156 i~~l~~~~~~ 165 (171)
+..+.....+
T Consensus 794 ~~s~d~~~~r 803 (881)
T KOG0128|consen 794 VASVDVAGKR 803 (881)
T ss_pred cccchhhhhh
Confidence 6665544443
No 119
>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=97.89 E-value=3.2e-05 Score=46.36 Aligned_cols=35 Identities=26% Similarity=0.550 Sum_probs=30.8
Q ss_pred CccceEEEEECCHHHHHHHHhc--CCccCCeEEEEee
Q 030822 9 AHRGIGFITFASADSVENLMVD--THELGGSTVVVDR 43 (171)
Q Consensus 9 ~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~ 43 (171)
+++|+|||+|.+.++|+.|++. +..++|+.+.|.+
T Consensus 38 ~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 38 KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 6799999999999999999994 6678999998763
No 120
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=97.89 E-value=7.7e-05 Score=60.49 Aligned_cols=43 Identities=26% Similarity=0.376 Sum_probs=36.2
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHhc-CCccCCeEEEEeecC
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRAT 45 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~~-~~~i~gr~i~v~~a~ 45 (171)
+.| .-||+-|=|||.|++++.|++||.. ...|+.|-|.|-.+.
T Consensus 137 ~~d-~rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~Ss 180 (510)
T KOG4211|consen 137 PMD-QRGRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRSS 180 (510)
T ss_pred ecc-CCCCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehhH
Confidence 344 4678999999999999999999995 778899999997663
No 121
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.86 E-value=1.1e-06 Score=69.89 Aligned_cols=100 Identities=15% Similarity=0.215 Sum_probs=82.7
Q ss_pred cceEEEEECCHHHHHHHHhc---CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCccCCC
Q 030822 11 RGIGFITFASADSVENLMVD---THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHP 87 (171)
Q Consensus 11 rGfgFV~F~~~~~a~~Al~~---~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 87 (171)
-||+||.+.+...|.+|++. ..++.|+.+.+..+.++
T Consensus 37 ~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~k---------------------------------------- 76 (584)
T KOG2193|consen 37 SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPK---------------------------------------- 76 (584)
T ss_pred cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhH----------------------------------------
Confidence 48999999999999999994 47889999988876654
Q ss_pred CCCCCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEec-Cccee----EEecCCcccHHHHHHHHHHHhHh
Q 030822 88 GSFYGRGESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP-KRFWF----CHLCGRSCSRSCFSKVSRNLWTA 162 (171)
Q Consensus 88 ~~~~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~-~d~~f----v~f~~~~~~~~~a~~Ai~~l~~~ 162 (171)
...++++-|+|+|+...|+.|..+..+||.|+.|..+ .|..+ |+|...+. +..||..|++.
T Consensus 77 ----------kqrsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~~~~~----~~~ai~kl~g~ 142 (584)
T KOG2193|consen 77 ----------KQRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYSAQQQ----HRQAIHKLNGP 142 (584)
T ss_pred ----------HHHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHHHHHH----HHHHHHhhcch
Confidence 2235778899999999999999999999999999764 45443 77888888 89999888775
Q ss_pred CC
Q 030822 163 GC 164 (171)
Q Consensus 163 ~~ 164 (171)
-.
T Consensus 143 Q~ 144 (584)
T KOG2193|consen 143 QL 144 (584)
T ss_pred Hh
Confidence 43
No 122
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.83 E-value=8.8e-05 Score=58.98 Aligned_cols=60 Identities=13% Similarity=0.103 Sum_probs=52.9
Q ss_pred CceEEEeCCCC-CCCHHHHHHHhhcccceEEEEecC---cceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 101 GKKIFVGRLPQ-EATAEDLRRYFSRFGRILDVYVPK---RFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 101 ~~~lfV~nLp~-~~te~~L~~~F~~fG~v~~v~i~~---d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
...|.|-||.. .+|.+.|.-+|+-||.|.+|+|.. |.+.|.|.+... |..|+.-|+++.+
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd~ALIQmsd~~q----AqLA~~hL~g~~l 360 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKDNALIQMSDGQQ----AQLAMEHLEGHKL 360 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCcceeeeecchhH----HHHHHHHhhccee
Confidence 57888989875 699999999999999999999984 567899999999 9999999987654
No 123
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.79 E-value=3.8e-05 Score=56.50 Aligned_cols=62 Identities=16% Similarity=0.230 Sum_probs=52.2
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEec---------CcceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP---------KRFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~---------~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
..-++|||-+||.++.-.+|..+|..|---+.+.|- +-.+|++|.+..+ |..|+..|||...
T Consensus 32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~----A~aamnaLNGvrF 102 (284)
T KOG1457|consen 32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQF----ALAAMNALNGVRF 102 (284)
T ss_pred cccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHH----HHHHHHHhcCeee
Confidence 346899999999999999999999998666666554 2367999999999 9999999998754
No 124
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.78 E-value=0.00023 Score=56.32 Aligned_cols=119 Identities=18% Similarity=0.118 Sum_probs=80.0
Q ss_pred CCCCccceEEEEECCHHHHHHHHhc-CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCcc
Q 030822 6 GSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLY 84 (171)
Q Consensus 6 ~tg~srGfgFV~F~~~~~a~~Al~~-~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 84 (171)
..|+.-|.|.|.|.++|.-+-|++. .|.+.+|.|.|-.+...+--.-
T Consensus 97 ~qgrRnge~lvrf~d~e~RdlalkRhkhh~g~ryievYka~ge~f~~i-------------------------------- 144 (508)
T KOG1365|consen 97 AQGRRNGEALVRFVDPEGRDLALKRHKHHMGTRYIEVYKATGEEFLKI-------------------------------- 144 (508)
T ss_pred hhhccccceEEEecCchhhhhhhHhhhhhccCCceeeeccCchhheEe--------------------------------
Confidence 4578889999999999999999995 7889999999987654321110
Q ss_pred CCCCCCCC-CCCCCCCCCceEEEeCCCCCCCHHHHHHHhhcc----cceEEEEec-C------cceeEEecCCcccHHHH
Q 030822 85 DHPGSFYG-RGESSQRIGKKIFVGRLPQEATAEDLRRYFSRF----GRILDVYVP-K------RFWFCHLCGRSCSRSCF 152 (171)
Q Consensus 85 ~~~~~~~~-~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~~f----G~v~~v~i~-~------d~~fv~f~~~~~~~~~a 152 (171)
.++.+.. .........--|-+++||+++++.++.++|.+- |.++.|-.+ + .-+||.|..+++ |
T Consensus 145 -agg~s~e~~~flsk~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~----a 219 (508)
T KOG1365|consen 145 -AGGTSNEAAPFLSKENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEED----A 219 (508)
T ss_pred -cCCccccCCCCCCcccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHH----H
Confidence 0000000 000001223456779999999999999999742 234444443 3 257999999999 8
Q ss_pred HHHHHHHhH
Q 030822 153 SKVSRNLWT 161 (171)
Q Consensus 153 ~~Ai~~l~~ 161 (171)
..|+..=..
T Consensus 220 q~aL~khrq 228 (508)
T KOG1365|consen 220 QFALRKHRQ 228 (508)
T ss_pred HHHHHHHHH
Confidence 888875433
No 125
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=97.74 E-value=3.1e-05 Score=54.87 Aligned_cols=39 Identities=23% Similarity=0.463 Sum_probs=34.1
Q ss_pred CccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCC
Q 030822 9 AHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPK 47 (171)
Q Consensus 9 ~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~ 47 (171)
...|||||+|+++.+|+.|+. ++..|.|..|.|..+.-+
T Consensus 45 nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~ 85 (195)
T KOG0107|consen 45 NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGR 85 (195)
T ss_pred cCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCC
Confidence 568999999999999999999 588899999999987643
No 126
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=97.72 E-value=8.7e-05 Score=53.92 Aligned_cols=60 Identities=15% Similarity=0.363 Sum_probs=52.9
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcc-cceEEEEecC--------cceeEEecCCcccHHHHHHHHHHHhH
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRF-GRILDVYVPK--------RFWFCHLCGRSCSRSCFSKVSRNLWT 161 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~f-G~v~~v~i~~--------d~~fv~f~~~~~~~~~a~~Ai~~l~~ 161 (171)
.....-+||..+|....+..|..+|.+| |.|..+++.+ .++||.|.+.+- |+-|-..||+
T Consensus 46 ~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eV----A~IaAETMNN 114 (214)
T KOG4208|consen 46 QEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEV----AKIAAETMNN 114 (214)
T ss_pred cCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHH----HHHHHHHhhh
Confidence 4556789999999999999999999998 8888888854 478999999999 9999999985
No 127
>PLN03121 nucleic acid binding protein; Provisional
Probab=97.65 E-value=8.4e-05 Score=55.59 Aligned_cols=42 Identities=14% Similarity=0.226 Sum_probs=35.6
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh-cCCccCCeEEEEeecC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRAT 45 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~-~~~~i~gr~i~v~~a~ 45 (171)
|++| ++++|||||+|++++.++.||. ++..|.++.|.|..+.
T Consensus 37 I~~D---~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 37 IIRS---GEYACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWG 79 (243)
T ss_pred EecC---CCcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCc
Confidence 3556 4567899999999999999998 5899999999998654
No 128
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.52 E-value=0.00042 Score=58.62 Aligned_cols=133 Identities=11% Similarity=0.073 Sum_probs=80.0
Q ss_pred CCCCCCCccceEEEEECCHHHHHHHHhc-CCccCCeEEEEeecCCCCCCCCC--CCcCCCCCCCCccccchhhhhhhccC
Q 030822 3 KDQGSKAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRP--VGRMSHGGYGAYNAYISAATRYAALG 79 (171)
Q Consensus 3 ~D~~tg~srGfgFV~F~~~~~a~~Al~~-~~~i~gr~i~v~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (171)
.|+..+-..|-++|+|....++++|++. ....-.|.+.+..+...+-...+ ....+....+ ..+|
T Consensus 344 ~~~v~~~~tG~~~v~f~~~~~~q~A~~rn~~~~~~R~~q~~P~g~~~~~~a~~~~~~~~~~~~~------------~~hg 411 (944)
T KOG4307|consen 344 ENRVAPPQTGRKTVMFTPQAPFQNAFTRNPSDDVNRPFQTGPPGNLGRNGAPPFQAGVPPPVIQ------------NNHG 411 (944)
T ss_pred hhhcCCCcCCceEEEecCcchHHHHHhcCchhhhhcceeecCCCccccccCccccccCCCCccc------------ccCC
Confidence 3444444588999999999999999996 45556788877755433222111 0000000000 0111
Q ss_pred CCCccCCCCCCCCCC-CCCCCCCceEEEeCCCCCCCHHHHHHHhhcccceEE-EEecC---c----ceeEEecCCcc
Q 030822 80 APTLYDHPGSFYGRG-ESSQRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD-VYVPK---R----FWFCHLCGRSC 147 (171)
Q Consensus 80 ~~~~~~~~~~~~~~~-~~~~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~-v~i~~---d----~~fv~f~~~~~ 147 (171)
.+..........+.. ......+..|||..||..+++.++-++|...-.|++ |.|.+ | -+||.|..+++
T Consensus 412 ~p~~~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a 488 (944)
T KOG4307|consen 412 RPIAPPRAMVRPGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTA 488 (944)
T ss_pred CCCCCcccccCCCCCCCCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccc
Confidence 111111111111111 112456789999999999999999999999888888 55543 2 46899998777
No 129
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.49 E-value=0.00029 Score=55.60 Aligned_cols=54 Identities=13% Similarity=0.051 Sum_probs=47.0
Q ss_pred eCCCCCCCHHHHHHHhhcccceEEEEecCc---ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 107 GRLPQEATAEDLRRYFSRFGRILDVYVPKR---FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 107 ~nLp~~~te~~L~~~F~~fG~v~~v~i~~d---~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
-|--+.+|-+-|..+.-+.|+|.+|.|.+. .+-|+|++-+. |.+|-.+||||.+
T Consensus 128 lNp~YpItvDVly~Icnp~GkVlRIvIfkkngVQAmVEFdsv~~----AqrAk~alNGADI 184 (494)
T KOG1456|consen 128 LNPQYPITVDVLYTICNPQGKVLRIVIFKKNGVQAMVEFDSVEV----AQRAKAALNGADI 184 (494)
T ss_pred ecCccccchhhhhhhcCCCCceEEEEEEeccceeeEEeechhHH----HHHHHhhcccccc
Confidence 444567999999999999999999999876 45699999888 9999999999864
No 130
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=97.47 E-value=0.00022 Score=46.24 Aligned_cols=45 Identities=18% Similarity=0.290 Sum_probs=34.3
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccC----CeEEEEeecC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELG----GSTVVVDRAT 45 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~----gr~i~v~~a~ 45 (171)
||.|-.++.+.|||||.|.+++.|.+-.+. +..+. .+...|.+|.
T Consensus 35 LPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~yAr 85 (97)
T PF04059_consen 35 LPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEISYAR 85 (97)
T ss_pred eeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEehhH
Confidence 578999999999999999999999998874 33332 3445555553
No 131
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.38 E-value=0.00021 Score=53.70 Aligned_cols=45 Identities=27% Similarity=0.447 Sum_probs=40.9
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh-cCCccCCeEEEEeecC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRAT 45 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~-~~~~i~gr~i~v~~a~ 45 (171)
|+.|+.+|.+|||+||+|.+.+.+++++. ++..|.|+.+.|.+..
T Consensus 133 i~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~~r 178 (231)
T KOG4209|consen 133 VPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTLKR 178 (231)
T ss_pred eeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeeeee
Confidence 57899999999999999999999999999 7889999999987653
No 132
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.36 E-value=0.00017 Score=54.23 Aligned_cols=62 Identities=19% Similarity=0.242 Sum_probs=54.1
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
......+||+|+.+.++-+++..+|+.+|.|..+.|+.| +++|.|.+.+. .++|++ |++..+
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~----~~~ay~-l~gs~i 167 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYEL----VEEAYK-LDGSEI 167 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhh----hHHHhh-cCCccc
Confidence 456789999999999999999999999999999988866 45799999999 999999 776554
No 133
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=97.35 E-value=0.00074 Score=42.33 Aligned_cols=57 Identities=14% Similarity=0.264 Sum_probs=39.4
Q ss_pred ceEEEeCCCCCCCH----HHHHHHhhcc-cceEEEEecCcceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 102 KKIFVGRLPQEATA----EDLRRYFSRF-GRILDVYVPKRFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 102 ~~lfV~nLp~~~te----~~L~~~F~~f-G~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
.-|||.|||.+.+. ..|++++..+ |.|..| ....+.+.|.+.+. |++|.+.|++..+
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~~~tAilrF~~~~~----A~RA~KRmegEdV 64 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--SGGTAILRFPNQEF----AERAQKRMEGEDV 64 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE----TT-EEEEESSHHH----HHHHHHHHTT--S
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--eCCEEEEEeCCHHH----HHHHHHhhccccc
Confidence 46999999998885 5677787787 466554 57788899999999 9999999987654
No 134
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=97.34 E-value=0.00071 Score=43.92 Aligned_cols=63 Identities=14% Similarity=0.266 Sum_probs=53.5
Q ss_pred ceEEEeCCCCCCCHHHHHHHhhc--ccceEEEEecCc--------ceeEEecCCcccHHHHHHHHHHHhHhCCCCcc
Q 030822 102 KKIFVGRLPQEATAEDLRRYFSR--FGRILDVYVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWTAGCNRFS 168 (171)
Q Consensus 102 ~~lfV~nLp~~~te~~L~~~F~~--fG~v~~v~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~~~~ 168 (171)
++|-|+|||-..|.++|.+++.. .|...-+.++.| ++||-|.+++. |.+-.+.+|+...+.+.
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~----~~~F~~~f~g~~w~~~~ 74 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQA----AIRFYKAFNGKKWPNFN 74 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHH----HHHHHHHHcCCccccCC
Confidence 68999999999999999999875 378888888877 57999999999 88888888887766553
No 135
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=97.32 E-value=0.00016 Score=56.61 Aligned_cols=46 Identities=17% Similarity=0.262 Sum_probs=41.5
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATP 46 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~ 46 (171)
|++|..||-|--||||+|++.+++++|.-. ...|+.|.|.|.++..
T Consensus 271 VIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQS 318 (479)
T KOG0415|consen 271 VIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQS 318 (479)
T ss_pred EEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhh
Confidence 589999999999999999999999999875 4689999999998753
No 136
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.21 E-value=0.00013 Score=53.59 Aligned_cols=72 Identities=22% Similarity=0.342 Sum_probs=55.8
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccC
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALG 79 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 79 (171)
+.+ ..+..| ||||.|+++-.+.-|++ ++..+.++.+.++
T Consensus 42 p~~-~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~------------------------------------- 82 (267)
T KOG4454|consen 42 PSG-QDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRT------------------------------------- 82 (267)
T ss_pred CCC-ccCCCc-eeeeecccccchhhhhhhcccchhccchhhcc-------------------------------------
Confidence 344 466777 99999999999999998 4666777776554
Q ss_pred CCCccCCCCCCCCCCCCCCCCCceEEEeC----CCCCCCHHHHHHHhhcccceEEEEecCc
Q 030822 80 APTLYDHPGSFYGRGESSQRIGKKIFVGR----LPQEATAEDLRRYFSRFGRILDVYVPKR 136 (171)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~n----Lp~~~te~~L~~~F~~fG~v~~v~i~~d 136 (171)
++.|+ |...++++.+...|+.-|++..+++.++
T Consensus 83 ------------------------~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~ 119 (267)
T KOG4454|consen 83 ------------------------LRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTD 119 (267)
T ss_pred ------------------------cccCCCcchhhhhcchhhheeeecccCCCCCcccccc
Confidence 33344 6667888899999999999999888765
No 137
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=97.21 E-value=0.0025 Score=39.87 Aligned_cols=57 Identities=23% Similarity=0.310 Sum_probs=41.9
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcceeEEecCCcccHHHHHHHHHHHhH
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRFWFCHLCGRSCSRSCFSKVSRNLWT 161 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~l~~ 161 (171)
..+..+|. .|.+|-..||.++|++||.|.---|----+||...+++. +..|+..+.-
T Consensus 8 RdHVFhlt-FPkeWK~~DI~qlFspfG~I~VsWi~dTSAfV~l~~r~~----~~~v~~~~~~ 64 (87)
T PF08675_consen 8 RDHVFHLT-FPKEWKTSDIYQLFSPFGQIYVSWINDTSAFVALHNRDQ----AKVVMNTLKK 64 (87)
T ss_dssp GCCEEEEE---TT--HHHHHHHCCCCCCEEEEEECTTEEEEEECCCHH----HHHHHHHHTT
T ss_pred cceEEEEe-CchHhhhhhHHHHhccCCcEEEEEEcCCcEEEEeecHHH----HHHHHHHhcc
Confidence 34555565 999999999999999999976555544578999999999 8888887753
No 138
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.07 E-value=0.00053 Score=59.40 Aligned_cols=63 Identities=16% Similarity=0.190 Sum_probs=53.4
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
....+.++|++|+..+....|..+|..||+|..|.+-.. +..+.|.+... +..|...|-++-+
T Consensus 452 st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq~yayi~yes~~~----aq~a~~~~rgap~ 516 (975)
T KOG0112|consen 452 STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQPYAYIQYESPPA----AQAATHDMRGAPL 516 (975)
T ss_pred cccceeeccCCCCCCChHHHHHHHhhccCcceeeecccCCcceeeecccCcc----chhhHHHHhcCcC
Confidence 345789999999999999999999999999999887644 55689999988 8888888877643
No 139
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.98 E-value=0.0018 Score=48.72 Aligned_cols=54 Identities=22% Similarity=0.260 Sum_probs=47.2
Q ss_pred ceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-------ceeEEecCCcccHHHHHHHHHHH
Q 030822 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCSRSCFSKVSRNL 159 (171)
Q Consensus 102 ~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~~~~a~~Ai~~l 159 (171)
..|||.||+..++-+.|.+-|+.||+|....+.-| .+.|.|..... |.+|...+
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~----a~~a~rr~ 92 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPN----ARKAARRC 92 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchh----HHHHHHHh
Confidence 56999999999999999999999999999988866 35699999999 77777665
No 140
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=96.96 E-value=0.0009 Score=53.67 Aligned_cols=62 Identities=18% Similarity=0.199 Sum_probs=52.8
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc---------------------ceeEEecCCcccHHHHHHHH
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR---------------------FWFCHLCGRSCSRSCFSKVS 156 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d---------------------~~fv~f~~~~~~~~~a~~Ai 156 (171)
..++++|.+-|||.+-.-+.|.++|+.+|.|..|+|.+. .++|+|...+. |.+|.
T Consensus 228 el~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~----A~KA~ 303 (484)
T KOG1855|consen 228 ELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEA----ARKAR 303 (484)
T ss_pred ccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHH----HHHHH
Confidence 457899999999999888999999999999999999743 24588988888 99998
Q ss_pred HHHhHhC
Q 030822 157 RNLWTAG 163 (171)
Q Consensus 157 ~~l~~~~ 163 (171)
.-|+.+.
T Consensus 304 e~~~~e~ 310 (484)
T KOG1855|consen 304 ELLNPEQ 310 (484)
T ss_pred Hhhchhh
Confidence 8886553
No 141
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.69 E-value=0.0039 Score=48.86 Aligned_cols=65 Identities=17% Similarity=0.285 Sum_probs=49.3
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEE--------EEecCc-------ceeEEecCCcccHHHHHHHHHHHhHh
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILD--------VYVPKR-------FWFCHLCGRSCSRSCFSKVSRNLWTA 162 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~--------v~i~~d-------~~fv~f~~~~~~~~~a~~Ai~~l~~~ 162 (171)
....+.|||.|||..+|-+++.++|+++|-|.. |+|-++ -+-+.|--+++ .+.|++-|+++
T Consensus 131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ES----VeLA~~ilDe~ 206 (382)
T KOG1548|consen 131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRES----VELAIKILDED 206 (382)
T ss_pred cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccH----HHHHHHHhCcc
Confidence 345677999999999999999999999997643 222222 12366666777 89999999988
Q ss_pred CCCC
Q 030822 163 GCNR 166 (171)
Q Consensus 163 ~~~~ 166 (171)
.+.-
T Consensus 207 ~~rg 210 (382)
T KOG1548|consen 207 ELRG 210 (382)
T ss_pred cccC
Confidence 7653
No 142
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.66 E-value=0.002 Score=50.42 Aligned_cols=37 Identities=19% Similarity=0.438 Sum_probs=33.6
Q ss_pred ccceEEEEECCHHHHHHHHhc---CCccCCeEEEEeecCC
Q 030822 10 HRGIGFITFASADSVENLMVD---THELGGSTVVVDRATP 46 (171)
Q Consensus 10 srGfgFV~F~~~~~a~~Al~~---~~~i~gr~i~v~~a~~ 46 (171)
.+|+|||+|.+.+.|+.|... ...|+|+.|.|.|..+
T Consensus 263 ~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 263 RKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred ccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 467999999999999999985 5789999999999987
No 143
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=96.45 E-value=0.0046 Score=40.35 Aligned_cols=53 Identities=19% Similarity=0.237 Sum_probs=36.2
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEE-------------ecCcce--eEEecCCcccHHHHHHHHH
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVY-------------VPKRFW--FCHLCGRSCSRSCFSKVSR 157 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~-------------i~~d~~--fv~f~~~~~~~~~a~~Ai~ 157 (171)
..+-|.|.+.|+. ....+-++|++||.|.+.. ++.... .++|.++.+ |.+|+.
T Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~----A~rAL~ 72 (100)
T PF05172_consen 5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLS----AQRALQ 72 (100)
T ss_dssp GCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHH----HHHHHT
T ss_pred CCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHH----HHHHHH
Confidence 3566999999988 4556778899999999885 333332 389999999 888875
No 144
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.39 E-value=0.012 Score=48.45 Aligned_cols=58 Identities=26% Similarity=0.434 Sum_probs=43.4
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEec-----------Cc---ceeEEecCCcccHHHHHHHHHHHh
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP-----------KR---FWFCHLCGRSCSRSCFSKVSRNLW 160 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~-----------~d---~~fv~f~~~~~~~~~a~~Ai~~l~ 160 (171)
..-+++||||+||+.++|+.|...|..||.+. |..+ +. +.|+-|+++.. ...-+...+
T Consensus 256 ~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~s----V~~Ll~aC~ 327 (520)
T KOG0129|consen 256 PRYSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERS----VQSLLSACS 327 (520)
T ss_pred cccccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHH----HHHHHHHHh
Confidence 34578999999999999999999999999864 4444 22 55788888777 444444433
No 145
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=96.34 E-value=0.0021 Score=48.29 Aligned_cols=59 Identities=14% Similarity=0.282 Sum_probs=48.5
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcc--------------------eeEEecCCcccHHHHHHHHHHH
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRF--------------------WFCHLCGRSCSRSCFSKVSRNL 159 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~--------------------~fv~f~~~~~~~~~a~~Ai~~l 159 (171)
...-||+.+||+..+-..|+++|++||.|-.|.+.... +.|.|.+..- |......|
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~Krv----AK~iAe~L 148 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRV----AKRIAELL 148 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHH----HHHHHHHh
Confidence 45679999999999999999999999999999997541 2377777777 77777777
Q ss_pred hHh
Q 030822 160 WTA 162 (171)
Q Consensus 160 ~~~ 162 (171)
|+.
T Consensus 149 nn~ 151 (278)
T KOG3152|consen 149 NNT 151 (278)
T ss_pred CCC
Confidence 764
No 146
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.27 E-value=0.014 Score=34.64 Aligned_cols=54 Identities=11% Similarity=0.175 Sum_probs=43.9
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcc---cceEEEEecCc-ceeEEecCCcccHHHHHHHHHHH
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRF---GRILDVYVPKR-FWFCHLCGRSCSRSCFSKVSRNL 159 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~f---G~v~~v~i~~d-~~fv~f~~~~~~~~~a~~Ai~~l 159 (171)
..+|+|+|+. +.+.++++.+|..| .....|..+-| ...|.|.+.+. |.+|+..|
T Consensus 5 peavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDtScNvvf~d~~~----A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDTSCNVVFKDEET----AARALVAL 62 (62)
T ss_pred eceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCCcEEEEECCHHH----HHHHHHcC
Confidence 4679999996 68889999999999 23457777777 45799999999 99998765
No 147
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.21 E-value=0.011 Score=38.64 Aligned_cols=42 Identities=17% Similarity=0.252 Sum_probs=36.3
Q ss_pred CCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCC
Q 030822 6 GSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (171)
Q Consensus 6 ~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~ 47 (171)
.|..-||-|||.|++-.+|.+|+.. +.-+.++.+.|-+..+.
T Consensus 52 ~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~ 95 (124)
T KOG0114|consen 52 NTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPE 95 (124)
T ss_pred CccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHH
Confidence 4556789999999999999999995 78899999999887653
No 148
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=95.91 E-value=0.014 Score=37.18 Aligned_cols=71 Identities=17% Similarity=0.241 Sum_probs=46.9
Q ss_pred EEEEECCHHHHHHHHhcC---CccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCccCCCCCC
Q 030822 14 GFITFASADSVENLMVDT---HELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHPGSF 90 (171)
Q Consensus 14 gFV~F~~~~~a~~Al~~~---~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 90 (171)
|.|+|.++.-|++.++.+ ..+++..+.|...--......... -
T Consensus 1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~P~~~~~~~k~q--------------v-------------------- 46 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVSPVTLGHLQKFQ--------------V-------------------- 46 (88)
T ss_pred CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEEeEecCCceEEE--------------E--------------------
Confidence 679999999999999952 356777776653311100000000 0
Q ss_pred CCCCCCCCCCCceEEEeCCCCCCCHHHHHHHhh
Q 030822 91 YGRGESSQRIGKKIFVGRLPQEATAEDLRRYFS 123 (171)
Q Consensus 91 ~~~~~~~~~~~~~lfV~nLp~~~te~~L~~~F~ 123 (171)
....+.++|-|.|||...++++|++..+
T Consensus 47 -----~~~vs~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 47 -----FSGVSKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred -----EEcccCCEEEEeCCCCCCChhhheeeEE
Confidence 0134578999999999999999988654
No 149
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=95.76 E-value=0.012 Score=46.24 Aligned_cols=66 Identities=12% Similarity=0.000 Sum_probs=53.1
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEE--------EecCc--------ceeEEecCCcccHHHHHHHHHHHhH
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDV--------YVPKR--------FWFCHLCGRSCSRSCFSKVSRNLWT 161 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v--------~i~~d--------~~fv~f~~~~~~~~~a~~Ai~~l~~ 161 (171)
.....+|||-+||..+++.+|.++|.+.|.|..= .|-+| .++|.|.+..+ |..||..+++
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~----akaai~~~ag 138 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPA----AKAAIEWFAG 138 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhh----hhhhhhhhcc
Confidence 4456799999999999999999999999876432 22233 35799999988 9999999988
Q ss_pred hCCCCc
Q 030822 162 AGCNRF 167 (171)
Q Consensus 162 ~~~~~~ 167 (171)
+..+.+
T Consensus 139 kdf~gn 144 (351)
T KOG1995|consen 139 KDFCGN 144 (351)
T ss_pred ccccCC
Confidence 877653
No 150
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=95.65 E-value=0.015 Score=48.61 Aligned_cols=44 Identities=23% Similarity=0.397 Sum_probs=36.2
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecC
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRAT 45 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~ 45 (171)
+++-.+---|-||||++.+.++|.+||++ .++|.||-|.|..+.
T Consensus 438 VTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 438 VTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred eecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 34444445678999999999999999997 568999999998775
No 151
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=95.37 E-value=0.071 Score=43.56 Aligned_cols=39 Identities=28% Similarity=0.550 Sum_probs=33.8
Q ss_pred CCccceEEEEECCHHHHHHHHhc-CCccCCeEEEEeecCC
Q 030822 8 KAHRGIGFITFASADSVENLMVD-THELGGSTVVVDRATP 46 (171)
Q Consensus 8 g~srGfgFV~F~~~~~a~~Al~~-~~~i~gr~i~v~~a~~ 46 (171)
+++..||||+|++.++++.||.. ...|+++++.|+.-.+
T Consensus 327 ~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~ 366 (419)
T KOG0116|consen 327 GKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRP 366 (419)
T ss_pred CCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEeccc
Confidence 45559999999999999999996 7899999999986554
No 152
>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=95.15 E-value=0.048 Score=34.33 Aligned_cols=35 Identities=14% Similarity=0.256 Sum_probs=26.3
Q ss_pred ccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeec
Q 030822 10 HRGIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (171)
Q Consensus 10 srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a 44 (171)
+.|-|+|.|.+++.|++|.+. +..+.|.+|.|.+.
T Consensus 38 ~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~ 74 (90)
T PF11608_consen 38 SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFS 74 (90)
T ss_dssp -TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS
T ss_pred eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEc
Confidence 457899999999999999994 77889999999976
No 153
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.01 E-value=0.042 Score=43.21 Aligned_cols=60 Identities=15% Similarity=0.300 Sum_probs=47.6
Q ss_pred CCCceEEEeCCCCCCCHHH------HHHHhhcccceEEEEecCcc---------e--eEEecCCcccHHHHHHHHHHHhH
Q 030822 99 RIGKKIFVGRLPQEATAED------LRRYFSRFGRILDVYVPKRF---------W--FCHLCGRSCSRSCFSKVSRNLWT 161 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~------L~~~F~~fG~v~~v~i~~d~---------~--fv~f~~~~~~~~~a~~Ai~~l~~ 161 (171)
....-+||-+||+.+..++ =.++|++||.|..|.|-+.- . .++|...++ |.++|.+..+
T Consensus 112 vQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~ked----AarcIa~vDg 187 (480)
T COG5175 112 VQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKED----AARCIAEVDG 187 (480)
T ss_pred eecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHH----HHHHHHHhcc
Confidence 3456689999999876655 35789999999999887542 1 589999999 9999998866
Q ss_pred h
Q 030822 162 A 162 (171)
Q Consensus 162 ~ 162 (171)
.
T Consensus 188 s 188 (480)
T COG5175 188 S 188 (480)
T ss_pred c
Confidence 4
No 154
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=94.97 E-value=0.031 Score=46.66 Aligned_cols=40 Identities=23% Similarity=0.375 Sum_probs=29.6
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHhc--CCccC-CeEEEEe
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMVD--THELG-GSTVVVD 42 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~-gr~i~v~ 42 (171)
|-|..+| .+||.|++|+++.+|+.|+++ |+.|+ +++..|.
T Consensus 97 P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~ 139 (698)
T KOG2314|consen 97 PIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVR 139 (698)
T ss_pred ccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccceEEee
Confidence 5566555 999999999999999999995 44443 3444443
No 155
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=94.79 E-value=0.043 Score=47.48 Aligned_cols=39 Identities=21% Similarity=0.341 Sum_probs=35.2
Q ss_pred CccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCC
Q 030822 9 AHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (171)
Q Consensus 9 ~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~ 47 (171)
-+||||||.+...++|++||.+ .+.+.++.|+|.|+..+
T Consensus 455 ~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~ 495 (894)
T KOG0132|consen 455 PPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGK 495 (894)
T ss_pred cCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccC
Confidence 3799999999999999999996 68899999999999754
No 156
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=94.62 E-value=0.19 Score=42.14 Aligned_cols=64 Identities=9% Similarity=0.240 Sum_probs=51.8
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhc--ccceEEEEecC-cceeEEecCCcccHHHHHHHHHHHhHhCCCCccc
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSR--FGRILDVYVPK-RFWFCHLCGRSCSRSCFSKVSRNLWTAGCNRFSH 169 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~--fG~v~~v~i~~-d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~~~~~ 169 (171)
-|-|.++-||.++..|+++.+|.- +-++++|.... |-.+|+|.+..+ |..|.+-|. ..+|.|+.
T Consensus 175 RcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~nWyITfesd~D----AQqAykylr-eevk~fqg 241 (684)
T KOG2591|consen 175 RCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDNWYITFESDTD----AQQAYKYLR-EEVKTFQG 241 (684)
T ss_pred eeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCceEEEeecchh----HHHHHHHHH-HHHHhhcC
Confidence 466777999999999999999975 77889998764 567899999999 999998883 34555544
No 157
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=94.59 E-value=0.0023 Score=55.36 Aligned_cols=56 Identities=23% Similarity=0.161 Sum_probs=47.3
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEec--------CcceeEEecCCcccHHHHHHHHHHH
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP--------KRFWFCHLCGRSCSRSCFSKVSRNL 159 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~--------~d~~fv~f~~~~~~~~~a~~Ai~~l 159 (171)
...++||.||++.+.+.+|...|+++|.+..++|. +..+.+.|...++ +.+||...
T Consensus 666 ~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~----~~aaV~f~ 729 (881)
T KOG0128|consen 666 DLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEH----AGAAVAFR 729 (881)
T ss_pred HHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCc----hhhhhhhh
Confidence 35789999999999999999999999999988876 3356789999999 77777654
No 158
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=94.51 E-value=0.04 Score=42.49 Aligned_cols=45 Identities=11% Similarity=0.110 Sum_probs=38.1
Q ss_pred HHHHHHHhhcccceEEEEecCc---------ceeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 115 AEDLRRYFSRFGRILDVYVPKR---------FWFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 115 e~~L~~~F~~fG~v~~v~i~~d---------~~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
++++++..++||+|..|.|.-+ +-||+|...++ |.+|+..|||-.
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~----aiKA~VdlnGRy 353 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVES----AIKAVVDLNGRY 353 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHH----HHHHHHhcCCce
Confidence 3677888999999999998754 34899999999 999999998743
No 159
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=94.51 E-value=0.0098 Score=51.94 Aligned_cols=66 Identities=17% Similarity=0.226 Sum_probs=54.3
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-------ceeEEecCCcccHHHHHHHHHHHhHhCCCCc
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCSRSCFSKVSRNLWTAGCNRF 167 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~~~ 167 (171)
.....+||++||+..+++.+|+..|..+|.|.+|.|-.- ++||.|.+... +-.|...|.+-.+-.+
T Consensus 369 ~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dm----tp~ak~e~s~~~I~~g 441 (975)
T KOG0112|consen 369 FRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDM----TPSAKFEESGPLIGNG 441 (975)
T ss_pred hhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhcccc----CcccchhhcCCccccC
Confidence 456789999999999999999999999999999998643 67899998888 7777776665555444
No 160
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=94.47 E-value=0.033 Score=40.21 Aligned_cols=59 Identities=15% Similarity=0.125 Sum_probs=38.9
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhc-ccce---EEEE--ecC--------cceeEEecCCcccHHHHHHHHHHHhHh
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSR-FGRI---LDVY--VPK--------RFWFCHLCGRSCSRSCFSKVSRNLWTA 162 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~-fG~v---~~v~--i~~--------d~~fv~f~~~~~~~~~a~~Ai~~l~~~ 162 (171)
...+|.|++||+++||+++++..++ ++.- .++. ... -++.+.|.+.++ +..-...++|.
T Consensus 6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~----~~~F~~~~~g~ 78 (176)
T PF03467_consen 6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPED----LLEFRDRFDGH 78 (176)
T ss_dssp ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHH----HHHHHHHCTTE
T ss_pred cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHH----HHHHHHhcCCc
Confidence 4679999999999999999998887 6665 3333 111 145699999988 66666666654
No 161
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=93.87 E-value=0.057 Score=45.16 Aligned_cols=62 Identities=19% Similarity=0.320 Sum_probs=49.9
Q ss_pred CCCceEEEeCCCCCCC------HHHHHHHhhcccceEEEEecCc-------ceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 99 RIGKKIFVGRLPQEAT------AEDLRRYFSRFGRILDVYVPKR-------FWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~t------e~~L~~~F~~fG~v~~v~i~~d-------~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
.-...|+|-|+|---. ..-|..+|+++|+|+...++.| +.|+.|.+..+ |+.|+++|||..+
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~----A~~aVK~l~G~~l 130 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRD----AKKAVKSLNGKRL 130 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhh----HHHHHHhccccee
Confidence 3457899999985322 2456789999999999999955 55899999999 9999999988654
No 162
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=93.75 E-value=0.077 Score=42.52 Aligned_cols=46 Identities=15% Similarity=0.314 Sum_probs=41.0
Q ss_pred ceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc-----------ceeEEecCCcc
Q 030822 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR-----------FWFCHLCGRSC 147 (171)
Q Consensus 102 ~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d-----------~~fv~f~~~~~ 147 (171)
.-|-|.||.++++.++++-||...|.|.++.|... -.||.|.+...
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~s 64 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQS 64 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcc
Confidence 47999999999999999999999999999998753 35899999887
No 163
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=93.55 E-value=0.16 Score=35.24 Aligned_cols=60 Identities=20% Similarity=0.185 Sum_probs=45.5
Q ss_pred CCCCceEEEeCCCCCCC-HHHHH---HHhhcccceEEEEec-CcceeEEecCCcccHHHHHHHHHHHhH
Q 030822 98 QRIGKKIFVGRLPQEAT-AEDLR---RYFSRFGRILDVYVP-KRFWFCHLCGRSCSRSCFSKVSRNLWT 161 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~t-e~~L~---~~F~~fG~v~~v~i~-~d~~fv~f~~~~~~~~~a~~Ai~~l~~ 161 (171)
.++-.+|.|+=|..++. .+||+ +..+.||+|.+|.+. +.-+-|.|.+... |-+|+.+++.
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGrqsavVvF~d~~S----AC~Av~Af~s 147 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGRQSAVVVFKDITS----ACKAVSAFQS 147 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecCCceEEEEehhhHH----HHHHHHhhcC
Confidence 55678899977766543 24444 455779999999887 4567799999999 9999988864
No 164
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=92.80 E-value=0.31 Score=33.97 Aligned_cols=53 Identities=9% Similarity=0.104 Sum_probs=37.7
Q ss_pred CCceEEEeCCCCC------CCH---HHHHHHhhcccceEEEEecCcceeEEecCCcccHHHHHHHH
Q 030822 100 IGKKIFVGRLPQE------ATA---EDLRRYFSRFGRILDVYVPKRFWFCHLCGRSCSRSCFSKVS 156 (171)
Q Consensus 100 ~~~~lfV~nLp~~------~te---~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai 156 (171)
+..+|.|.=+.+. .++ .+|-+.|.+||.|+-++++-+.-.|+|.+-.. |.+|+
T Consensus 26 pDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~~mwVTF~dg~s----ALaal 87 (146)
T PF08952_consen 26 PDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGDTMWVTFRDGQS----ALAAL 87 (146)
T ss_dssp TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETTCEEEEESSCHH----HHHHH
T ss_pred CCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCCeEEEEECccHH----HHHHH
Confidence 4567777655522 222 37888899999999999999999999999888 66554
No 165
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=92.69 E-value=0.062 Score=41.82 Aligned_cols=47 Identities=21% Similarity=0.571 Sum_probs=41.2
Q ss_pred CCCCCCCCCccceEEEEECCHHHHHHHHh-cCCccCCeEEEEeecCCC
Q 030822 1 MPKDQGSKAHRGIGFITFASADSVENLMV-DTHELGGSTVVVDRATPK 47 (171)
Q Consensus 1 i~~D~~tg~srGfgFV~F~~~~~a~~Al~-~~~~i~gr~i~v~~a~~~ 47 (171)
++.++.+|.++|||||.|.+......++. ..+.+.++.+.+....++
T Consensus 217 ~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 264 (285)
T KOG4210|consen 217 LPTDEESGDSKGFAYVDFSAGNSKKLALNDQTRSIGGRPLRLEEDEPR 264 (285)
T ss_pred cCCCCCccchhhhhhhhhhhchhHHHHhhcccCcccCcccccccCCCC
Confidence 46678899999999999999999999998 467899999999877665
No 166
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=92.65 E-value=0.091 Score=41.50 Aligned_cols=46 Identities=15% Similarity=0.287 Sum_probs=40.2
Q ss_pred CCCCCCCCccceEEEEECCHHHHHHHHh--cCCccCCeEEEEeecCCC
Q 030822 2 PKDQGSKAHRGIGFITFASADSVENLMV--DTHELGGSTVVVDRATPK 47 (171)
Q Consensus 2 ~~D~~tg~srGfgFV~F~~~~~a~~Al~--~~~~i~gr~i~v~~a~~~ 47 (171)
-+|+.|+++||=|-|+|.++..|+.||. +...+.|-+|.|..|..+
T Consensus 107 y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~~r 154 (351)
T KOG1995|consen 107 YTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAERR 154 (351)
T ss_pred cccccccCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhhhc
Confidence 4789999999999999999999999999 477888888888877654
No 167
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=92.63 E-value=0.074 Score=44.77 Aligned_cols=63 Identities=10% Similarity=0.150 Sum_probs=52.8
Q ss_pred CCCCCceEEEeCCCCCCCHHHHHHHhh-cccceEEEEe--cCcceeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 97 SQRIGKKIFVGRLPQEATAEDLRRYFS-RFGRILDVYV--PKRFWFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 97 ~~~~~~~lfV~nLp~~~te~~L~~~F~-~fG~v~~v~i--~~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
....++.|+|.||-.-.|.-+|+.+.+ ..|.|++..| ++-..||.|.+.++ |...+..||+..
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDkIKShCyV~yss~eE----A~atr~AlhnV~ 505 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDKIKSHCYVSYSSVEE----AAATREALHNVQ 505 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHHHHHHhhcceeEecccHHH----HHHHHHHHhccc
Confidence 356688999999999999999999999 5677777633 35678999999999 999999999864
No 168
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=92.14 E-value=0.16 Score=41.18 Aligned_cols=57 Identities=19% Similarity=0.252 Sum_probs=44.5
Q ss_pred ceEEEeCCCCCCCHHHHHHHhhcc--cceEEEEecCcceeEEecCCcccHHHHHHHHHHHhHh
Q 030822 102 KKIFVGRLPQEATAEDLRRYFSRF--GRILDVYVPKRFWFCHLCGRSCSRSCFSKVSRNLWTA 162 (171)
Q Consensus 102 ~~lfV~nLp~~~te~~L~~~F~~f--G~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~l~~~ 162 (171)
.++|++||.+.++..+|+.+|... |---.+-+...+.||...+..- |.+||+.|++.
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k~gyafvd~pdq~w----a~kaie~~sgk 60 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKSGYAFVDCPDQQW----ANKAIETLSGK 60 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeeecceeeccCCchhh----hhhhHHhhchh
Confidence 469999999999999999999864 2222233445678898888888 99999988764
No 169
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.88 E-value=0.11 Score=40.85 Aligned_cols=31 Identities=16% Similarity=0.368 Sum_probs=27.9
Q ss_pred EEEECCHHHHHHHHhc--CCccCCeEEEEeecC
Q 030822 15 FITFASADSVENLMVD--THELGGSTVVVDRAT 45 (171)
Q Consensus 15 FV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~ 45 (171)
||+|.+.|+|.+||.+ +..++||.|+..+.+
T Consensus 169 YITy~~kedAarcIa~vDgs~~DGr~lkatYGT 201 (480)
T COG5175 169 YITYSTKEDAARCIAEVDGSLLDGRVLKATYGT 201 (480)
T ss_pred EEEecchHHHHHHHHHhccccccCceEeeecCc
Confidence 9999999999999995 899999999887654
No 170
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=91.32 E-value=0.37 Score=40.32 Aligned_cols=37 Identities=22% Similarity=0.402 Sum_probs=32.3
Q ss_pred CCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEE
Q 030822 4 DQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVV 40 (171)
Q Consensus 4 D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~ 40 (171)
++.|-..+|-.||+|-|.-+|++|++. ..+|.|+.|.
T Consensus 105 ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 105 IRETPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred hhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 356778899999999999999999995 6788888886
No 171
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=91.11 E-value=0.08 Score=36.82 Aligned_cols=84 Identities=15% Similarity=0.193 Sum_probs=59.4
Q ss_pred ccceEEEEECCHHHHHHHHhc-CCccCCeEEEEeecCCCCCCCCCCCcCCCCCCCCccccchhhhhhhccCCCCccCCCC
Q 030822 10 HRGIGFITFASADSVENLMVD-THELGGSTVVVDRATPKEDDFRPVGRMSHGGYGAYNAYISAATRYAALGAPTLYDHPG 88 (171)
Q Consensus 10 srGfgFV~F~~~~~a~~Al~~-~~~i~gr~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 88 (171)
..|+..+.|.+.+++++++.. ...++|..+.++.-.|........
T Consensus 54 ~~~~fl~~F~~~~d~~~vl~~~p~~~~~~~~~l~~W~~~~~~~~~~---------------------------------- 99 (153)
T PF14111_consen 54 GDNLFLFQFESEEDRQRVLKGGPWNFNGHFLILQRWSPDFNPSEVK---------------------------------- 99 (153)
T ss_pred CCCeEEEEEEeccceeEEEecccccccccchhhhhhcccccccccc----------------------------------
Confidence 467889999999999999986 566778777776554332110000
Q ss_pred CCCCCCCCCCCCCceEEEeCCCCC-CCHHHHHHHhhcccceEEEEecC
Q 030822 89 SFYGRGESSQRIGKKIFVGRLPQE-ATAEDLRRYFSRFGRILDVYVPK 135 (171)
Q Consensus 89 ~~~~~~~~~~~~~~~lfV~nLp~~-~te~~L~~~F~~fG~v~~v~i~~ 135 (171)
-.....=|-|.|||.. ++++-|+.+-+.+|.+.++....
T Consensus 100 --------~~~~~vWVri~glP~~~~~~~~~~~i~~~iG~~i~vD~~t 139 (153)
T PF14111_consen 100 --------FEHIPVWVRIYGLPLHLWSEEILKAIGSKIGEPIEVDENT 139 (153)
T ss_pred --------eeccchhhhhccCCHHHhhhHHHHHHHHhcCCeEEEEcCC
Confidence 0111233566899986 88999999999999999998653
No 172
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=90.54 E-value=0.26 Score=42.03 Aligned_cols=58 Identities=21% Similarity=0.225 Sum_probs=51.2
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcceeEEecCCcccHHHHHHHHHHHhH
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRFWFCHLCGRSCSRSCFSKVSRNLWT 161 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~l~~ 161 (171)
++.-++||+|+.+.+..+-++.+....|-|.++.... |+|..|..+.- +..|+..|+-
T Consensus 38 ~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~-fgf~~f~~~~~----~~ra~r~~t~ 95 (668)
T KOG2253|consen 38 PPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK-FGFCEFLKHIG----DLRASRLLTE 95 (668)
T ss_pred CCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh-hcccchhhHHH----HHHHHHHhcc
Confidence 4567899999999999999999999999999998877 99999999888 8888877754
No 173
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=89.91 E-value=0.12 Score=41.37 Aligned_cols=34 Identities=18% Similarity=0.095 Sum_probs=31.4
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcccceEEEEec
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVP 134 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~ 134 (171)
.++|+|.+|+..|...++-++|..+|.|.+..+.
T Consensus 151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a 184 (479)
T KOG4676|consen 151 RRTREVQSLISAAILPESGESFERKGEVSYAHTA 184 (479)
T ss_pred Hhhhhhhcchhhhcchhhhhhhhhcchhhhhhhh
Confidence 3789999999999999999999999999988875
No 174
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=89.14 E-value=0.12 Score=39.05 Aligned_cols=43 Identities=14% Similarity=0.215 Sum_probs=34.0
Q ss_pred HHHHHHhh-cccceEEEEecCcc-------eeEEecCCcccHHHHHHHHHHHhHh
Q 030822 116 EDLRRYFS-RFGRILDVYVPKRF-------WFCHLCGRSCSRSCFSKVSRNLWTA 162 (171)
Q Consensus 116 ~~L~~~F~-~fG~v~~v~i~~d~-------~fv~f~~~~~~~~~a~~Ai~~l~~~ 162 (171)
++|...|+ +||+|++++|-.+. ..|+|...++ |+.|+..||+-
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~----ae~a~~~lnnR 133 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEED----AEAALEDLNNR 133 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHH----HHHHHHHHcCc
Confidence 45555555 89999999886653 3599999999 99999999864
No 175
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=89.07 E-value=3.5 Score=35.92 Aligned_cols=57 Identities=12% Similarity=0.130 Sum_probs=44.3
Q ss_pred eEEEeCCCCCCCHHHHHHHhhcccceEEEEec-Cc-------ceeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVP-KR-------FWFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 103 ~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~-~d-------~~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
.|-+.|+|++++-+||-++|..|-.+-.-.++ ++ -.-|-|++.++ |..|...|++-.
T Consensus 869 V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~e----Ar~A~~dl~~~~ 933 (944)
T KOG4307|consen 869 VLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEE----ARRASMDLDGQK 933 (944)
T ss_pred EEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHH----HHhhhhccccCc
Confidence 78899999999999999999999544333222 21 23499999999 999998887644
No 176
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=88.65 E-value=0.94 Score=34.40 Aligned_cols=42 Identities=14% Similarity=0.226 Sum_probs=36.7
Q ss_pred CCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecCCC
Q 030822 6 GSKAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRATPK 47 (171)
Q Consensus 6 ~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~~ 47 (171)
..|+|.|.|=|.|...++|.+||+. +..++|+.+.+....+.
T Consensus 119 ~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~ 162 (243)
T KOG0533|consen 119 RAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSP 162 (243)
T ss_pred CCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCc
Confidence 4899999999999999999999994 78899999988766443
No 177
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=88.06 E-value=0.21 Score=41.05 Aligned_cols=59 Identities=17% Similarity=0.135 Sum_probs=42.4
Q ss_pred CceEEEeCCCCCCC-HHHHHHHhhcccceEEEEecC--cceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 101 GKKIFVGRLPQEAT-AEDLRRYFSRFGRILDVYVPK--RFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 101 ~~~lfV~nLp~~~t-e~~L~~~F~~fG~v~~v~i~~--d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
.+.|=+.-.|+..+ -.+|..+|.+||.|..|.|-. +.+.|+|..+.+ |-+| ...|++.+
T Consensus 372 hs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~~~a~vTF~t~ae----ag~a-~~s~~avl 433 (526)
T KOG2135|consen 372 HSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSSLHAVVTFKTRAE----AGEA-YASHGAVL 433 (526)
T ss_pred cchhhhhccCCCCchHhhhhhhhhhcCccccccccCchhhheeeeecccc----ccch-hcccccee
Confidence 34455555666544 589999999999999999865 478899999988 6444 23444444
No 178
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=87.64 E-value=1.2 Score=34.82 Aligned_cols=53 Identities=17% Similarity=0.192 Sum_probs=39.7
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCccee--EEecCCcccHHHHHHHHHH
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRFWF--CHLCGRSCSRSCFSKVSRN 158 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~~f--v~f~~~~~~~~~a~~Ai~~ 158 (171)
..=|-|.+.|+.... .|..+|++||.|++......-.+ |.|.++.+ |.+||..
T Consensus 197 D~WVTVfGFppg~~s-~vL~~F~~cG~Vvkhv~~~ngNwMhirYssr~~----A~KALsk 251 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQVS-IVLNLFSRCGEVVKHVTPSNGNWMHIRYSSRTH----AQKALSK 251 (350)
T ss_pred cceEEEeccCccchh-HHHHHHHhhCeeeeeecCCCCceEEEEecchhH----HHHhhhh
Confidence 445677788876555 45677999999999887755444 88999999 8888753
No 179
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=87.58 E-value=1.1 Score=31.20 Aligned_cols=35 Identities=23% Similarity=0.366 Sum_probs=28.4
Q ss_pred eEEEEECCHHHHHHHHh-cCCccCCeEEEEeecCCC
Q 030822 13 IGFITFASADSVENLMV-DTHELGGSTVVVDRATPK 47 (171)
Q Consensus 13 fgFV~F~~~~~a~~Al~-~~~~i~gr~i~v~~a~~~ 47 (171)
-=.|+|.+-++|-+|++ ++..+.|+.|.|+.-.|.
T Consensus 72 ~mwVTF~dg~sALaals~dg~~v~g~~l~i~LKtpd 107 (146)
T PF08952_consen 72 TMWVTFRDGQSALAALSLDGIQVNGRTLKIRLKTPD 107 (146)
T ss_dssp CEEEEESSCHHHHHHHHGCCSEETTEEEEEEE----
T ss_pred eEEEEECccHHHHHHHccCCcEECCEEEEEEeCCcc
Confidence 35799999999999999 599999999999987664
No 180
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=85.86 E-value=1.6 Score=34.31 Aligned_cols=31 Identities=23% Similarity=0.164 Sum_probs=22.8
Q ss_pred EEEEECCHHHHHHHHhcCCccCCeEEEEeec
Q 030822 14 GFITFASADSVENLMVDTHELGGSTVVVDRA 44 (171)
Q Consensus 14 gFV~F~~~~~a~~Al~~~~~i~gr~i~v~~a 44 (171)
|||+|++..+|+.|++..+..+++.+.+..|
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~~~~~v~~A 31 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRPNSWRVSPA 31 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCCCCceEeeC
Confidence 7999999999999998533344455566544
No 181
>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=85.79 E-value=5.1 Score=26.58 Aligned_cols=63 Identities=8% Similarity=0.015 Sum_probs=46.6
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcc-cceEEEEecCcce------eEEecCCcccHHHHHHHHHHHhHhCCCCc
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRF-GRILDVYVPKRFW------FCHLCGRSCSRSCFSKVSRNLWTAGCNRF 167 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~f-G~v~~v~i~~d~~------fv~f~~~~~~~~~a~~Ai~~l~~~~~~~~ 167 (171)
...+.+...|+-++-++|..+.+++ ..|..++|++|.. -++|.+... |..=.+.+||...|-.
T Consensus 13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~----Ad~Fy~~fNGk~Fnsl 82 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQES----ADEFYEEFNGKPFNSL 82 (110)
T ss_pred ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHH----HHHHHHHhCCCccCCC
Confidence 3444445566667777887776766 5677889998843 389999999 8888899998877654
No 182
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=84.26 E-value=0.68 Score=36.47 Aligned_cols=59 Identities=17% Similarity=0.229 Sum_probs=45.0
Q ss_pred CCceEEEeCCCCCCCHH-HHH--HHhhcccceEEEEecCcc-----------eeEEecCCcccHHHHHHHHHHHhHh
Q 030822 100 IGKKIFVGRLPQEATAE-DLR--RYFSRFGRILDVYVPKRF-----------WFCHLCGRSCSRSCFSKVSRNLWTA 162 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~-~L~--~~F~~fG~v~~v~i~~d~-----------~fv~f~~~~~~~~~a~~Ai~~l~~~ 162 (171)
...-+||-+|+....++ .|+ +.|.+||.|..|.+-++. ..|+|...++ |..+|...++.
T Consensus 76 qknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~ed----a~rci~~v~g~ 148 (327)
T KOG2068|consen 76 QKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEED----ADRCIDDVDGF 148 (327)
T ss_pred hhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHh----hhhHHHHhhhH
Confidence 45678888999875544 443 579999999999998875 2488888888 88888887664
No 183
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=81.82 E-value=0.98 Score=34.31 Aligned_cols=35 Identities=17% Similarity=0.297 Sum_probs=30.9
Q ss_pred ccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeec
Q 030822 10 HRGIGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (171)
Q Consensus 10 srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a 44 (171)
-+|=.||.|...++|++|++. +.++.|++|...+.
T Consensus 109 l~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~ 145 (260)
T KOG2202|consen 109 LVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS 145 (260)
T ss_pred hhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence 467889999999999999995 78999999988765
No 184
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=80.87 E-value=1.9 Score=33.54 Aligned_cols=30 Identities=27% Similarity=0.356 Sum_probs=26.0
Q ss_pred EEEEECCHHHHHHHHhc--CCccCCeEEEEee
Q 030822 14 GFITFASADSVENLMVD--THELGGSTVVVDR 43 (171)
Q Consensus 14 gFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~ 43 (171)
-||+|+..++|-+|+-+ +..|+||.+.-.+
T Consensus 332 iFveF~r~e~aiKA~VdlnGRyFGGr~v~A~F 363 (378)
T KOG1996|consen 332 IFVEFERVESAIKAVVDLNGRYFGGRVVSACF 363 (378)
T ss_pred eeeeeccHHHHHHHHHhcCCceecceeeehee
Confidence 59999999999999884 8999999886554
No 185
>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=80.62 E-value=3.1 Score=32.35 Aligned_cols=64 Identities=14% Similarity=0.225 Sum_probs=53.0
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcc---------------eeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRF---------------WFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~---------------~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
..+.|...|+..+++=..+-..|.+||+|++|.++.+. --+.|-+++.|..+--..++.|+...
T Consensus 14 rTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK 92 (309)
T PF10567_consen 14 RTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFK 92 (309)
T ss_pred eeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHH
Confidence 46778899999999888889999999999999999765 13888888888888888888876543
No 186
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=79.47 E-value=5.5 Score=32.87 Aligned_cols=65 Identities=14% Similarity=0.186 Sum_probs=56.3
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcc-cceEEEEecCcce------eEEecCCcccHHHHHHHHHHHhHhCCCCcc
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRF-GRILDVYVPKRFW------FCHLCGRSCSRSCFSKVSRNLWTAGCNRFS 168 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~f-G~v~~v~i~~d~~------fv~f~~~~~~~~~a~~Ai~~l~~~~~~~~~ 168 (171)
++..|+|-.+|-.++-.||-.+...| -.|.+++|++|.. -++|++..+ |..-...+||..+|...
T Consensus 73 ~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~d----a~~Fy~efNGk~Fn~le 144 (493)
T KOG0804|consen 73 SSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQAD----ADTFYEEFNGKQFNSLE 144 (493)
T ss_pred CCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchh----HHHHHHHcCCCcCCCCC
Confidence 37899999999999999999988876 6889999999832 399999999 99999999998888754
No 187
>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=77.67 E-value=5.8 Score=25.84 Aligned_cols=35 Identities=17% Similarity=0.122 Sum_probs=27.4
Q ss_pred ccceEEEEECCHHHHHHHHhc-CCccCCeEE-EEeec
Q 030822 10 HRGIGFITFASADSVENLMVD-THELGGSTV-VVDRA 44 (171)
Q Consensus 10 srGfgFV~F~~~~~a~~Al~~-~~~i~gr~i-~v~~a 44 (171)
...+--|+|.++.+|++||+. +..+.|..+ -|+++
T Consensus 53 ~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mvGV~~~ 89 (100)
T PF05172_consen 53 GGNWIHITYDNPLSAQRALQKNGTIFSGSLMVGVKPC 89 (100)
T ss_dssp CTTEEEEEESSHHHHHHHHTTTTEEETTCEEEEEEE-
T ss_pred CCCEEEEECCCHHHHHHHHHhCCeEEcCcEEEEEEEc
Confidence 345889999999999999995 888887654 45655
No 188
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=77.52 E-value=8.8 Score=33.63 Aligned_cols=38 Identities=13% Similarity=0.243 Sum_probs=33.5
Q ss_pred CCccceEEEEECCHHHHHHHHhc--CCccCCeEEEEeecC
Q 030822 8 KAHRGIGFITFASADSVENLMVD--THELGGSTVVVDRAT 45 (171)
Q Consensus 8 g~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~ 45 (171)
.+.+-||||.|-+..+|++|++. +..+.++.+++-|+.
T Consensus 216 ~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWgk 255 (877)
T KOG0151|consen 216 RRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWGK 255 (877)
T ss_pred ccccccceeeehhhhhHHHHHHHhcceeeeeeeeeecccc
Confidence 45678999999999999999995 788899999998884
No 189
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=74.17 E-value=4.2 Score=24.00 Aligned_cols=19 Identities=37% Similarity=0.850 Sum_probs=16.4
Q ss_pred HHHHHHhhcccceEEEEec
Q 030822 116 EDLRRYFSRFGRILDVYVP 134 (171)
Q Consensus 116 ~~L~~~F~~fG~v~~v~i~ 134 (171)
.+||+.|++.|+|.-+.|-
T Consensus 9 ~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHhcCcEEEEEEc
Confidence 5899999999999877764
No 190
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=72.11 E-value=2.2 Score=34.08 Aligned_cols=27 Identities=26% Similarity=0.229 Sum_probs=22.7
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhccc
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFG 126 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG 126 (171)
..-.+|||||-|.+|++||.+....-|
T Consensus 79 rk~~~YvGNL~W~TTD~DL~~A~~S~G 105 (498)
T KOG4849|consen 79 RKYCCYVGNLLWYTTDADLLKALQSTG 105 (498)
T ss_pred ceEEEEecceeEEeccHHHHHHHHhhh
Confidence 445799999999999999988887765
No 191
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=71.82 E-value=4 Score=31.64 Aligned_cols=34 Identities=29% Similarity=0.615 Sum_probs=27.8
Q ss_pred CceEEEeCCCCC------------CCHHHHHHHhhcccceEEEEec
Q 030822 101 GKKIFVGRLPQE------------ATAEDLRRYFSRFGRILDVYVP 134 (171)
Q Consensus 101 ~~~lfV~nLp~~------------~te~~L~~~F~~fG~v~~v~i~ 134 (171)
..+|++.+||-. .+++.|+..|..||.|..|.|+
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdip 194 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIP 194 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCc
Confidence 456777777743 3578999999999999999997
No 192
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=70.84 E-value=1.8 Score=38.40 Aligned_cols=59 Identities=10% Similarity=0.068 Sum_probs=50.1
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcc--eeEEecCCcccHHHHHHHHHHHhHhC
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRF--WFCHLCGRSCSRSCFSKVSRNLWTAG 163 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~--~fv~f~~~~~~~~~a~~Ai~~l~~~~ 163 (171)
..+.++-|.+-..+..-|.-+|++||.|.+++..+|. +-|.|...+. |..|...|+|..
T Consensus 298 qp~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~N~alvs~~s~~s----ai~a~dAl~gke 358 (1007)
T KOG4574|consen 298 QPKQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDLNMALVSFSSVES----AILALDALQGKE 358 (1007)
T ss_pred cchhhhhcccccchHHHHHHHHHhhcchhhheecccccchhhhhHHHHH----HHHhhhhhcCCc
Confidence 4567778888889999999999999999999998885 4588988888 888888888754
No 193
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=69.10 E-value=4.3 Score=30.64 Aligned_cols=42 Identities=21% Similarity=0.437 Sum_probs=34.5
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCccee
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRFWF 139 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~~f 139 (171)
.....++|+-|+|..+|++-|....++.|-+..+...-.+++
T Consensus 37 ~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~y~~e~gl 78 (261)
T KOG4008|consen 37 SNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQELLYNDEFGL 78 (261)
T ss_pred cccccceeeecccccccHHHHHHHHHHhhhhhheecccchhh
Confidence 456789999999999999999999999998777765544443
No 194
>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=69.00 E-value=7.7 Score=28.22 Aligned_cols=43 Identities=14% Similarity=0.145 Sum_probs=34.1
Q ss_pred CHHHHHHHhhcccceEEEEecCcce--eEEecCCcccHHHHHHHHHHHh
Q 030822 114 TAEDLRRYFSRFGRILDVYVPKRFW--FCHLCGRSCSRSCFSKVSRNLW 160 (171)
Q Consensus 114 te~~L~~~F~~fG~v~~v~i~~d~~--fv~f~~~~~~~~~a~~Ai~~l~ 160 (171)
..+.|+++|..|+.+....+.+.+. -|.|.+.+. |..|...||
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sFrRi~v~f~~~~~----A~~~r~~l~ 52 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSFRRIRVVFESPES----AQRARQLLH 52 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTTTEEEEE-SSTTH----HHHHHHTST
T ss_pred hHHHHHHHHHhcCCceEEEEcCCCCEEEEEeCCHHH----HHHHHHHhc
Confidence 4589999999999999998887754 599999999 999988888
No 195
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=64.72 E-value=9.7 Score=30.54 Aligned_cols=38 Identities=18% Similarity=0.328 Sum_probs=30.0
Q ss_pred CCCCCCccceEEEEECCHHHHHHHHhc--CCccCCeEEEE
Q 030822 4 DQGSKAHRGIGFITFASADSVENLMVD--THELGGSTVVV 41 (171)
Q Consensus 4 D~~tg~srGfgFV~F~~~~~a~~Al~~--~~~i~gr~i~v 41 (171)
++..|.|||||.|..-+...+.+-|+- ...|.|..-.|
T Consensus 117 NR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V 156 (498)
T KOG4849|consen 117 NRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTV 156 (498)
T ss_pred cccCCcccceEEEEecchHHHHHHHHhcccceecCCCCee
Confidence 577899999999999999988888873 45666655444
No 196
>PRK15464 cold shock-like protein CspH; Provisional
Probab=62.47 E-value=4.1 Score=24.67 Aligned_cols=10 Identities=40% Similarity=0.584 Sum_probs=7.7
Q ss_pred CccceEEEEE
Q 030822 9 AHRGIGFITF 18 (171)
Q Consensus 9 ~srGfgFV~F 18 (171)
..||||||+=
T Consensus 14 ~~KGfGFI~~ 23 (70)
T PRK15464 14 RKSGKGFIIP 23 (70)
T ss_pred CCCCeEEEcc
Confidence 3689999943
No 197
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=62.30 E-value=4.9 Score=24.60 Aligned_cols=9 Identities=44% Similarity=0.973 Sum_probs=7.3
Q ss_pred CccceEEEE
Q 030822 9 AHRGIGFIT 17 (171)
Q Consensus 9 ~srGfgFV~ 17 (171)
..||||||+
T Consensus 11 ~~KGfGFI~ 19 (74)
T PRK09937 11 NAKGFGFIC 19 (74)
T ss_pred CCCCeEEEe
Confidence 469999994
No 198
>PRK14998 cold shock-like protein CspD; Provisional
Probab=62.20 E-value=4.9 Score=24.52 Aligned_cols=10 Identities=40% Similarity=0.750 Sum_probs=7.7
Q ss_pred CccceEEEEE
Q 030822 9 AHRGIGFITF 18 (171)
Q Consensus 9 ~srGfgFV~F 18 (171)
..||||||+=
T Consensus 11 ~~kGfGFI~~ 20 (73)
T PRK14998 11 NAKGFGFICP 20 (73)
T ss_pred CCCceEEEec
Confidence 4699999943
No 199
>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=61.92 E-value=8.2 Score=25.28 Aligned_cols=18 Identities=11% Similarity=0.499 Sum_probs=13.5
Q ss_pred eEEEEECCHHHHHHHHhc
Q 030822 13 IGFITFASADSVENLMVD 30 (171)
Q Consensus 13 fgFV~F~~~~~a~~Al~~ 30 (171)
-|||-|.+++.|++|+..
T Consensus 39 ~g~VRf~~~~~A~~a~~~ 56 (105)
T PF08777_consen 39 EGYVRFKTPEAAQKALEK 56 (105)
T ss_dssp EEEEEESS---HHHHHHH
T ss_pred EEEEEECCcchHHHHHHH
Confidence 589999999999999984
No 200
>PRK15463 cold shock-like protein CspF; Provisional
Probab=61.14 E-value=4.6 Score=24.40 Aligned_cols=10 Identities=40% Similarity=0.557 Sum_probs=7.6
Q ss_pred CccceEEEEE
Q 030822 9 AHRGIGFITF 18 (171)
Q Consensus 9 ~srGfgFV~F 18 (171)
..||||||+=
T Consensus 14 ~~kGfGFI~~ 23 (70)
T PRK15463 14 GKSGKGLITP 23 (70)
T ss_pred CCCceEEEec
Confidence 3589999953
No 201
>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=60.11 E-value=13 Score=22.52 Aligned_cols=31 Identities=23% Similarity=0.449 Sum_probs=15.3
Q ss_pred eEEEEECCHHHHHHHHhc--CCccCCeEEEEeec
Q 030822 13 IGFITFASADSVENLMVD--THELGGSTVVVDRA 44 (171)
Q Consensus 13 fgFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a 44 (171)
|.||+-... .|+++++. +..+.|+++.|+.|
T Consensus 42 ~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 42 FSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp -EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred EEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence 788877654 56666663 67899999998764
No 202
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=59.97 E-value=7.2 Score=22.46 Aligned_cols=35 Identities=17% Similarity=0.340 Sum_probs=17.5
Q ss_pred CccceEEEEECCHH-H---HHHHHhcCCccCCeEEEEeecC
Q 030822 9 AHRGIGFITFASAD-S---VENLMVDTHELGGSTVVVDRAT 45 (171)
Q Consensus 9 ~srGfgFV~F~~~~-~---a~~Al~~~~~i~gr~i~v~~a~ 45 (171)
.++|||||.-.+.. + ....| ..-++|-++.|....
T Consensus 6 ~~~GfGFv~~~~~~~DifIp~~~l--~~A~~gD~V~v~i~~ 44 (58)
T PF08206_consen 6 HPKGFGFVIPDDGGEDIFIPPRNL--NGAMDGDKVLVRITP 44 (58)
T ss_dssp -SSS-EEEEECT-TEEEEE-HHHH--TTS-TT-EEEEEEEE
T ss_pred EcCCCEEEEECCCCCCEEECHHHH--CCCCCCCEEEEEEec
Confidence 47899999988711 0 11111 234667777776544
No 203
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=59.92 E-value=4.9 Score=24.16 Aligned_cols=9 Identities=56% Similarity=1.117 Sum_probs=7.3
Q ss_pred CccceEEEE
Q 030822 9 AHRGIGFIT 17 (171)
Q Consensus 9 ~srGfgFV~ 17 (171)
..||||||+
T Consensus 13 ~~kGyGFI~ 21 (69)
T PRK09507 13 ESKGFGFIT 21 (69)
T ss_pred CCCCcEEEe
Confidence 369999994
No 204
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=58.73 E-value=6.3 Score=23.59 Aligned_cols=12 Identities=33% Similarity=0.637 Sum_probs=8.8
Q ss_pred CccceEEEEECC
Q 030822 9 AHRGIGFITFAS 20 (171)
Q Consensus 9 ~srGfgFV~F~~ 20 (171)
..||||||+=.+
T Consensus 11 ~~kGfGFI~~~~ 22 (68)
T TIGR02381 11 NAKGFGFICPEG 22 (68)
T ss_pred CCCCeEEEecCC
Confidence 369999995443
No 205
>PRK10943 cold shock-like protein CspC; Provisional
Probab=58.73 E-value=5.2 Score=24.05 Aligned_cols=10 Identities=50% Similarity=0.879 Sum_probs=7.7
Q ss_pred CccceEEEEE
Q 030822 9 AHRGIGFITF 18 (171)
Q Consensus 9 ~srGfgFV~F 18 (171)
..||||||+=
T Consensus 13 ~~kGfGFI~~ 22 (69)
T PRK10943 13 ESKGFGFITP 22 (69)
T ss_pred CCCCcEEEec
Confidence 3599999943
No 206
>PRK09890 cold shock protein CspG; Provisional
Probab=56.55 E-value=6.1 Score=23.84 Aligned_cols=9 Identities=56% Similarity=0.999 Sum_probs=7.2
Q ss_pred ccceEEEEE
Q 030822 10 HRGIGFITF 18 (171)
Q Consensus 10 srGfgFV~F 18 (171)
.||||||+=
T Consensus 15 ~kGfGFI~~ 23 (70)
T PRK09890 15 DKGFGFITP 23 (70)
T ss_pred CCCcEEEec
Confidence 599999943
No 207
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=56.28 E-value=6.2 Score=23.77 Aligned_cols=8 Identities=63% Similarity=1.281 Sum_probs=6.9
Q ss_pred ccceEEEE
Q 030822 10 HRGIGFIT 17 (171)
Q Consensus 10 srGfgFV~ 17 (171)
.||||||+
T Consensus 15 ~kGfGFI~ 22 (70)
T PRK10354 15 DKGFGFIT 22 (70)
T ss_pred CCCcEEEe
Confidence 59999995
No 208
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=55.48 E-value=11 Score=28.92 Aligned_cols=36 Identities=17% Similarity=0.084 Sum_probs=28.7
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR 136 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d 136 (171)
.....|+||||+++..-|..++..--.+....+|..
T Consensus 95 ~~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M~Q 130 (259)
T COG0030 95 QPYKVVANLPYNISSPILFKLLEEKFIIQDMVLMVQ 130 (259)
T ss_pred CCCEEEEcCCCcccHHHHHHHHhccCccceEEEEeH
Confidence 345778999999999999999988766666666654
No 209
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=54.42 E-value=7.1 Score=33.18 Aligned_cols=28 Identities=18% Similarity=0.428 Sum_probs=22.7
Q ss_pred EEEECCHHHHHHHHh---c-CCccCCeEEEEe
Q 030822 15 FITFASADSVENLMV---D-THELGGSTVVVD 42 (171)
Q Consensus 15 FV~F~~~~~a~~Al~---~-~~~i~gr~i~v~ 42 (171)
||+|++..+|+.|.+ + ..+|.|+.|.-+
T Consensus 216 yITfesd~DAQqAykylreevk~fqgKpImAR 247 (684)
T KOG2591|consen 216 YITFESDTDAQQAYKYLREEVKTFQGKPIMAR 247 (684)
T ss_pred EEEeecchhHHHHHHHHHHHHHhhcCcchhhh
Confidence 899999999999977 2 567888887543
No 210
>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=49.73 E-value=49 Score=19.76 Aligned_cols=48 Identities=8% Similarity=0.036 Sum_probs=35.8
Q ss_pred CCCHHHHHHHhhcccceEEEEecCcceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 112 EATAEDLRRYFSRFGRILDVYVPKRFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 112 ~~te~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
.++-++++..+..|+- .+|..-+.--+|.|.+..| |++.....|+...
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~I~~d~tGfYIvF~~~~E----a~rC~~~~~~~~~ 58 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DRIRDDRTGFYIVFNDSKE----AERCFRAEDGTLF 58 (66)
T ss_pred CccHHHHHHHHhcCCc-ceEEecCCEEEEEECChHH----HHHHHHhcCCCEE
Confidence 4677899999999965 4455444444699999999 8888877776543
No 211
>cd04458 CSP_CDS Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.
Probab=49.07 E-value=10 Score=22.07 Aligned_cols=11 Identities=45% Similarity=0.824 Sum_probs=8.1
Q ss_pred ccceEEEEECC
Q 030822 10 HRGIGFITFAS 20 (171)
Q Consensus 10 srGfgFV~F~~ 20 (171)
.||||||+=.+
T Consensus 11 ~kGfGFI~~~~ 21 (65)
T cd04458 11 EKGFGFITPDD 21 (65)
T ss_pred CCCeEEEecCC
Confidence 48999995443
No 212
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=48.98 E-value=4.9 Score=31.78 Aligned_cols=33 Identities=15% Similarity=0.247 Sum_probs=27.6
Q ss_pred EEEEECCHHHHHHHHhc--CCccCCeEEEEeecCC
Q 030822 14 GFITFASADSVENLMVD--THELGGSTVVVDRATP 46 (171)
Q Consensus 14 gFV~F~~~~~a~~Al~~--~~~i~gr~i~v~~a~~ 46 (171)
++|+|+..++|..||.. +...+|+.++..+...
T Consensus 128 ~yITy~~~eda~rci~~v~g~~~dg~~lka~~gtt 162 (327)
T KOG2068|consen 128 VYITYEEEEDADRCIDDVDGFVDDGRALKASLGTT 162 (327)
T ss_pred ccccccchHhhhhHHHHhhhHHhhhhhhHHhhCCC
Confidence 79999999999999995 7888898876665543
No 213
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=48.53 E-value=15 Score=21.43 Aligned_cols=11 Identities=45% Similarity=0.803 Sum_probs=8.9
Q ss_pred ccceEEEEECC
Q 030822 10 HRGIGFITFAS 20 (171)
Q Consensus 10 srGfgFV~F~~ 20 (171)
.+|||||+-.+
T Consensus 11 ~kgyGFI~~~~ 21 (66)
T PF00313_consen 11 EKGYGFITSDD 21 (66)
T ss_dssp TTTEEEEEETT
T ss_pred CCCceEEEEcc
Confidence 58999997655
No 214
>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=47.77 E-value=15 Score=19.15 Aligned_cols=15 Identities=20% Similarity=0.565 Sum_probs=9.9
Q ss_pred CCCHHHHHHHhhccc
Q 030822 112 EATAEDLRRYFSRFG 126 (171)
Q Consensus 112 ~~te~~L~~~F~~fG 126 (171)
.+++++|+++|.+-+
T Consensus 20 Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 20 DTDEDQLKEVFNRIK 34 (36)
T ss_dssp ---HHHHHHHHHCS-
T ss_pred cCCHHHHHHHHHHhc
Confidence 578999999998754
No 215
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=46.57 E-value=68 Score=25.20 Aligned_cols=48 Identities=15% Similarity=0.158 Sum_probs=35.5
Q ss_pred CCceEEEeCCCCCCCHHHHHHHhhcccce-EEEEe--cCcceeEEecCCcc
Q 030822 100 IGKKIFVGRLPQEATAEDLRRYFSRFGRI-LDVYV--PKRFWFCHLCGRSC 147 (171)
Q Consensus 100 ~~~~lfV~nLp~~~te~~L~~~F~~fG~v-~~v~i--~~d~~fv~f~~~~~ 147 (171)
...-|+++|||.++.-.||+....+-|-+ .++.. +..+.|++|-++..
T Consensus 329 ~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg~~~k~flh~~~~~~ 379 (396)
T KOG4410|consen 329 AKTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKGHFGKCFLHFGNRKG 379 (396)
T ss_pred cccceeeccCccccchHHHHHHHHhcCCCceeEeeecCCcceeEecCCccC
Confidence 45669999999999999999998887643 22222 24578999988653
No 216
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=43.97 E-value=14 Score=31.45 Aligned_cols=62 Identities=6% Similarity=0.056 Sum_probs=48.6
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhcccceEEEEecC--------cceeEEecCCcccHHHHHHHHHHHhHhCC
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK--------RFWFCHLCGRSCSRSCFSKVSRNLWTAGC 164 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~--------d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~ 164 (171)
...++||++|++++.+-.+|..++..+--+..+-+.. ++..|+|+.--. ...|.-+||+...
T Consensus 229 hke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~n----i~~a~~aLn~irl 298 (648)
T KOG2295|consen 229 HKECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTN----IKEACWALNGIRL 298 (648)
T ss_pred hHHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccc----hHHHHHHhhhccc
Confidence 3468899999999999999999999886666555543 355699998888 7888888877654
No 217
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=43.45 E-value=61 Score=18.27 Aligned_cols=44 Identities=14% Similarity=0.058 Sum_probs=32.6
Q ss_pred eEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc--ceeEEecCCc
Q 030822 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR--FWFCHLCGRS 146 (171)
Q Consensus 103 ~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d--~~fv~f~~~~ 146 (171)
++.|.||.-.--...++..+...-.|.++.+-.. ...|.|....
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~ 46 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDK 46 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTT
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCC
Confidence 4677788777778889999999888888887654 4456666554
No 218
>COG1278 CspC Cold shock proteins [Transcription]
Probab=43.12 E-value=11 Score=22.70 Aligned_cols=12 Identities=50% Similarity=0.811 Sum_probs=8.6
Q ss_pred CccceEEEEECC
Q 030822 9 AHRGIGFITFAS 20 (171)
Q Consensus 9 ~srGfgFV~F~~ 20 (171)
..||||||+=++
T Consensus 11 ~~KGfGFI~p~~ 22 (67)
T COG1278 11 ATKGFGFITPED 22 (67)
T ss_pred CCCcceEcCCCC
Confidence 468999995433
No 219
>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=40.39 E-value=30 Score=26.36 Aligned_cols=34 Identities=32% Similarity=0.545 Sum_probs=26.2
Q ss_pred CceEEEeCCCCCCCHHHHHHHhh--cccceEEEEec
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFS--RFGRILDVYVP 134 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~--~fG~v~~v~i~ 134 (171)
..-++|+|||+..+..-|.+++. .||.+.-+-++
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~~~~~g~~~~~l~v 132 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLELYRFGRVRMVLMV 132 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHHHGGGCEEEEEEEE
T ss_pred CceEEEEEecccchHHHHHHHhhcccccccceEEEE
Confidence 46789999999999999999987 46655544443
No 220
>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=37.66 E-value=51 Score=20.48 Aligned_cols=22 Identities=9% Similarity=0.226 Sum_probs=20.3
Q ss_pred CccceEEEEECCHHHHHHHHhc
Q 030822 9 AHRGIGFITFASADSVENLMVD 30 (171)
Q Consensus 9 ~srGfgFV~F~~~~~a~~Al~~ 30 (171)
.-+||=||+=.+++++.+|++.
T Consensus 42 ~lkGyIyVEA~~~~~V~~ai~g 63 (84)
T PF03439_consen 42 SLKGYIYVEAERESDVKEAIRG 63 (84)
T ss_dssp TSTSEEEEEESSHHHHHHHHTT
T ss_pred CCceEEEEEeCCHHHHHHHHhc
Confidence 3799999999999999999986
No 221
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=37.30 E-value=15 Score=22.10 Aligned_cols=25 Identities=12% Similarity=0.503 Sum_probs=17.5
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHHh
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRYF 122 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~F 122 (171)
...++++|||++|..|-++.=...+
T Consensus 24 s~tSr~vflG~IP~~W~~~~~~~~~ 48 (67)
T PF15407_consen 24 SLTSRRVFLGPIPEIWLQDHRKSWY 48 (67)
T ss_pred HHcCceEEECCCChHHHHcCcchHH
Confidence 3468999999999877665433333
No 222
>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=36.38 E-value=78 Score=17.47 Aligned_cols=46 Identities=9% Similarity=0.108 Sum_probs=33.1
Q ss_pred ceEEEeCCCCCCCHHHHHHHhhcccceEEEEecCcceeEEecCCcc
Q 030822 102 KKIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKRFWFCHLCGRSC 147 (171)
Q Consensus 102 ~~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~ 147 (171)
..+++.+.....+.++|.++...+|.-..-.+..+...+-..+...
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~v~~~~~~~~thvI~~~~~~ 47 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGKVTSSVSKKTTHVIVGSDAG 47 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCEEeccccCCceEEEECCCCC
Confidence 4677877766889999999999998755555554555566665554
No 223
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=35.66 E-value=35 Score=22.18 Aligned_cols=21 Identities=10% Similarity=0.381 Sum_probs=14.6
Q ss_pred CCCCccceEEEEECCHHHHHHH
Q 030822 6 GSKAHRGIGFITFASADSVENL 27 (171)
Q Consensus 6 ~tg~srGfgFV~F~~~~~a~~A 27 (171)
..|+|.|||.| |.+.+.+.+.
T Consensus 61 G~g~s~G~a~I-Yds~e~~kk~ 81 (99)
T PRK01178 61 GMGKSKGYAKV-YDDKERARKI 81 (99)
T ss_pred CCceEEEEEEE-ECCHHHHHhh
Confidence 35788888888 6666666543
No 224
>PF12623 Hen1_L: RNA repair, ligase-Pnkp-associating, region of Hen1; InterPro: IPR024740 This entry represents the N-terminal domain of the bacterial Hen1 protein, which is a 3' terminal RNA ribose 2'-O-methyltransferase that is involved in bacterial RNA repair []. Hen1 forms a heterotetramer with Pnkp. The heterotetramer has been shown to repair transfer RNAs cleaved by ribotoxins in vitro []. The N-terminal domain of Hen1 contributes to the ligase activity of the heterotetramer.
Probab=35.01 E-value=1.2e+02 Score=22.99 Aligned_cols=55 Identities=24% Similarity=0.300 Sum_probs=38.4
Q ss_pred CceEEEeCCCCCCCHHHHHHHhhcccceEEE-EecCccee----------EEecCCcccHHHHHHHHHHH
Q 030822 101 GKKIFVGRLPQEATAEDLRRYFSRFGRILDV-YVPKRFWF----------CHLCGRSCSRSCFSKVSRNL 159 (171)
Q Consensus 101 ~~~lfV~nLp~~~te~~L~~~F~~fG~v~~v-~i~~d~~f----------v~f~~~~~~~~~a~~Ai~~l 159 (171)
.-++-|.-||-.-.++-++++|++.|--+.+ .++.|..| ++..+..- ...|+..|
T Consensus 118 pL~v~~p~lp~rGg~~l~~rLFePLGw~V~a~~~~Ld~~fP~WG~S~y~~l~L~g~~r----l~daL~HL 183 (245)
T PF12623_consen 118 PLEVRLPALPCRGGEELVRRLFEPLGWTVTAEPVPLDEQFPEWGDSRYVDLTLTGTVR----LADALNHL 183 (245)
T ss_pred ceEEEeeeeecCCcHHHHHHhhcCcCceEEeEeccCCccCccccCCcceEEEEeeeEE----HHHHHhhh
Confidence 4568888899888999999999999965555 45566443 66666555 55555443
No 225
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=34.80 E-value=1.2e+02 Score=19.07 Aligned_cols=45 Identities=16% Similarity=0.139 Sum_probs=35.0
Q ss_pred eEEEeCCCCCCCHHHHHHHhhc-cc-ceEEEEecC---c--ceeEEecCCcc
Q 030822 103 KIFVGRLPQEATAEDLRRYFSR-FG-RILDVYVPK---R--FWFCHLCGRSC 147 (171)
Q Consensus 103 ~lfV~nLp~~~te~~L~~~F~~-fG-~v~~v~i~~---d--~~fv~f~~~~~ 147 (171)
+-|+.-.+..++..++++.++. || .|.+|+.+. + .++|++.....
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~~~~KKA~V~L~~g~~ 73 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPKGEKKAYVKLAEEYD 73 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCcEEEEEEeCCCCc
Confidence 5677778999999999999987 55 666666542 2 57899999888
No 226
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=34.14 E-value=35 Score=26.20 Aligned_cols=34 Identities=24% Similarity=0.164 Sum_probs=24.5
Q ss_pred eEEEeCCCCCCCHHHHHHHhhcccceEEEEecCc
Q 030822 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPKR 136 (171)
Q Consensus 103 ~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~d 136 (171)
-+.|+||||..+..-|..+...--.+..+.++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~~~~~~~~~l~~Q 140 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEERDPIRDMVVMVQ 140 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhcCCCCCeeEEEeH
Confidence 5789999999999999988864223455555433
No 227
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=33.55 E-value=57 Score=25.79 Aligned_cols=44 Identities=14% Similarity=0.191 Sum_probs=33.1
Q ss_pred CCCCCCccceEEEEECCHHHHHHHHhc-CCccCCeE-EEEeecCCC
Q 030822 4 DQGSKAHRGIGFITFASADSVENLMVD-THELGGST-VVVDRATPK 47 (171)
Q Consensus 4 D~~tg~srGfgFV~F~~~~~a~~Al~~-~~~i~gr~-i~v~~a~~~ 47 (171)
+-.+++.--|=+|.|.+.-+|++||.. +..|+|-. |-|+.++.+
T Consensus 225 khv~~~ngNwMhirYssr~~A~KALskng~ii~g~vmiGVkpCtDk 270 (350)
T KOG4285|consen 225 KHVTPSNGNWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPCTDK 270 (350)
T ss_pred eeecCCCCceEEEEecchhHHHHhhhhcCeeeccceEEeeeecCCH
Confidence 445665556999999999999999994 88887754 456666543
No 228
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=33.00 E-value=50 Score=25.83 Aligned_cols=33 Identities=6% Similarity=0.026 Sum_probs=24.9
Q ss_pred eEEEeCCCCCCCHHHHHHHhhcccceEEEEecC
Q 030822 103 KIFVGRLPQEATAEDLRRYFSRFGRILDVYVPK 135 (171)
Q Consensus 103 ~lfV~nLp~~~te~~L~~~F~~fG~v~~v~i~~ 135 (171)
-+.|.||||.++...|..+......+..+.+|.
T Consensus 103 d~VvaNlPY~Istpil~~ll~~~~~~~~~vlm~ 135 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAHRPLFRCAVLMF 135 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhcCCCCceeeeee
Confidence 477899999999999998886544555555543
No 229
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=32.80 E-value=53 Score=19.13 Aligned_cols=28 Identities=18% Similarity=0.246 Sum_probs=20.4
Q ss_pred EECCHHHHHHHHhcCCccCCeEEEEeec
Q 030822 17 TFASADSVENLMVDTHELGGSTVVVDRA 44 (171)
Q Consensus 17 ~F~~~~~a~~Al~~~~~i~gr~i~v~~a 44 (171)
.|.+.++.+.||..-....++.+.+...
T Consensus 9 ~F~~~~e~k~av~~yai~~~~~~~v~ks 36 (67)
T PF03108_consen 9 TFPSKEEFKEAVREYAIKNGFEFKVKKS 36 (67)
T ss_pred EECCHHHHHHHHHHHHHhcCcEEEEecc
Confidence 6999999999999644445666666544
No 230
>COG0858 RbfA Ribosome-binding factor A [Translation, ribosomal structure and biogenesis]
Probab=32.06 E-value=89 Score=20.94 Aligned_cols=34 Identities=21% Similarity=0.158 Sum_probs=20.9
Q ss_pred ccceEEEEecCcc--eeEEec--C-Cc-ccHHHHHHHHHHHhHh
Q 030822 125 FGRILDVYVPKRF--WFCHLC--G-RS-CSRSCFSKVSRNLWTA 162 (171)
Q Consensus 125 fG~v~~v~i~~d~--~fv~f~--~-~~-~~~~~a~~Ai~~l~~~ 162 (171)
.+.|++|.+..|. +.|.++ + .. + .++++..|+.|
T Consensus 33 ~~~Vt~V~vS~Dl~~A~Vyvt~l~~~~~~----~~~~~~~L~~A 72 (118)
T COG0858 33 LVTVTDVEVSKDLSHAKVYVTVLGDEESS----KAEILAALNKA 72 (118)
T ss_pred ceEEEEEEEcCCCceEEEEEEecCCchhh----HHHHHHHHHHh
Confidence 4558999999983 444444 2 22 3 55566666654
No 231
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=31.44 E-value=21 Score=25.91 Aligned_cols=60 Identities=10% Similarity=0.125 Sum_probs=41.5
Q ss_pred ceEEEeCCCCCCC-----HHHHHHHhhcccceEEEEecCccee--EEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 102 KKIFVGRLPQEAT-----AEDLRRYFSRFGRILDVYVPKRFWF--CHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 102 ~~lfV~nLp~~~t-----e~~L~~~F~~fG~v~~v~i~~d~~f--v~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
..+++-+++..+- ......+|.+|-+..-.++.+.+.+ |-|.+.+. |..|...+|+.+++
T Consensus 11 ~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrsfrrvRi~f~~p~~----a~~a~i~~~~~~f~ 77 (193)
T KOG4019|consen 11 TAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRSFRRVRINFSNPEA----AADARIKLHSTSFN 77 (193)
T ss_pred ceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHhhceeEEeccChhH----HHHHHHHhhhcccC
Confidence 4455666665432 2445566777777666666666665 67889999 99999999988765
No 232
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=31.12 E-value=26 Score=29.35 Aligned_cols=35 Identities=11% Similarity=0.134 Sum_probs=29.8
Q ss_pred eEEEEECCHHHHHHHHh-cCCccCCeEEEEeecCCC
Q 030822 13 IGFITFASADSVENLMV-DTHELGGSTVVVDRATPK 47 (171)
Q Consensus 13 fgFV~F~~~~~a~~Al~-~~~~i~gr~i~v~~a~~~ 47 (171)
-|.|+|.+..+|-+|-. .+..|+||-|+|.|-.+.
T Consensus 411 ~a~vTF~t~aeag~a~~s~~avlnnr~iKl~whnps 446 (526)
T KOG2135|consen 411 HAVVTFKTRAEAGEAYASHGAVLNNRFIKLFWHNPS 446 (526)
T ss_pred hheeeeeccccccchhccccceecCceeEEEEecCC
Confidence 47999999999977666 588999999999998764
No 233
>COG3411 Ferredoxin [Energy production and conversion]
Probab=30.43 E-value=35 Score=20.29 Aligned_cols=20 Identities=25% Similarity=0.501 Sum_probs=14.9
Q ss_pred CHHHHHHHHhcCCccCCeEEE
Q 030822 20 SADSVENLMVDTHELGGSTVV 40 (171)
Q Consensus 20 ~~~~a~~Al~~~~~i~gr~i~ 40 (171)
++++|++.+++ |.+.|+++.
T Consensus 33 ~p~~a~rIv~~-hl~~Gr~Ve 52 (64)
T COG3411 33 DPEDARRIVQS-HLLGGRPVE 52 (64)
T ss_pred CHHHHHHHHHH-HHhCCCcch
Confidence 78888888775 667787764
No 234
>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=30.03 E-value=1.4e+02 Score=18.40 Aligned_cols=45 Identities=16% Similarity=0.222 Sum_probs=34.7
Q ss_pred eEEEeCCCCCCCHHHHHHHhhc-cc-ceEEEEec---Cc--ceeEEecCCcc
Q 030822 103 KIFVGRLPQEATAEDLRRYFSR-FG-RILDVYVP---KR--FWFCHLCGRSC 147 (171)
Q Consensus 103 ~lfV~nLp~~~te~~L~~~F~~-fG-~v~~v~i~---~d--~~fv~f~~~~~ 147 (171)
+-|+...+..++..++++.++. || .|..|+.+ .+ .++|++..-..
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~~~KKA~VtL~~g~~ 66 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPRGEKKAYVKLAEEYA 66 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCceEEEEEECCCCc
Confidence 5777789999999999998887 55 56666554 22 57899988877
No 235
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=28.08 E-value=76 Score=23.96 Aligned_cols=26 Identities=12% Similarity=0.064 Sum_probs=21.8
Q ss_pred eEEEeCCCCCCCHHHHHHHhhcccce
Q 030822 103 KIFVGRLPQEATAEDLRRYFSRFGRI 128 (171)
Q Consensus 103 ~lfV~nLp~~~te~~L~~~F~~fG~v 128 (171)
-+.|+|||+.++...|.+++..+|..
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~~~ 121 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPKFR 121 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCCCc
Confidence 47899999999999999999766543
No 236
>cd03485 MutL_Trans_hPMS_1_like MutL_Trans_hPMS1_like: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to human PSM1 (hPSM1) and yeast MLH2. hPSM1 and yMLH2 are members of the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. PMS1 forms a heterodimer with MLH1. The MLH1-PMS1 complex functions in meiosis. Loss of yMLH2 results in a small but significant decrease in spore viability and a significant increase in gene conversion frequencies. A role for hMLH1-hPMS1 in DNA mismatch repair has not been established. Mutation in hMLH1 accounts for a large fraction of Lynch syndrome (HNPCC) families, however there is no convincing evidence to support hPMS1 having a role in HNPCC predisposition.
Probab=27.05 E-value=79 Score=21.31 Aligned_cols=59 Identities=22% Similarity=0.210 Sum_probs=37.5
Q ss_pred CceEEEeCCCCCC-C--HHHHHHHhhccc-------------------ceEEEEecCcceeEEecCCcccHHHHHHHHHH
Q 030822 101 GKKIFVGRLPQEA-T--AEDLRRYFSRFG-------------------RILDVYVPKRFWFCHLCGRSCSRSCFSKVSRN 158 (171)
Q Consensus 101 ~~~lfV~nLp~~~-t--e~~L~~~F~~fG-------------------~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~ 158 (171)
..-+||-+=|-.. . ...|.+.|..+. ..++|.|..++.-|.|.++.....+...|++.
T Consensus 50 ~q~~fVN~R~v~~~~~l~k~i~~~y~~~~~~~~~~~~P~~~L~i~~~~~~vDVNVhP~K~eV~f~~e~~v~~~i~~~v~~ 129 (132)
T cd03485 50 GKFISVNSRPVSLGKDIGKLLRQYYSSAYRKSSLRRYPVFFLNILCPPGLVDVNIEPDKDDVLLQNKEAVLQAVENLLES 129 (132)
T ss_pred cEEEEECCeecccchHHHHHHHHHHHHHhccccccCCCEEEEEEEcCCCceeeccCCccCEEEEcChHHHHHHHHHHHHH
Confidence 4568887766553 2 344555555433 22455666677889999999966666666665
Q ss_pred H
Q 030822 159 L 159 (171)
Q Consensus 159 l 159 (171)
+
T Consensus 130 ~ 130 (132)
T cd03485 130 L 130 (132)
T ss_pred H
Confidence 4
No 237
>PF12993 DUF3877: Domain of unknown function, E. rectale Gene description (DUF3877); InterPro: IPR024539 This entry represents proteins of unknown function found primarily in Firmicutes. The Eubacterium rectale gene appears to be upregulated in the presence of Bacteroides thetaiotaomicron compared to growth in pure culture [].
Probab=25.78 E-value=1.4e+02 Score=21.59 Aligned_cols=34 Identities=15% Similarity=0.127 Sum_probs=24.4
Q ss_pred CCCCHHHHHHHhhcccceEEEEecCccee---EEecC
Q 030822 111 QEATAEDLRRYFSRFGRILDVYVPKRFWF---CHLCG 144 (171)
Q Consensus 111 ~~~te~~L~~~F~~fG~v~~v~i~~d~~f---v~f~~ 144 (171)
..+|-++++++|.+|+.=+.+.=+.+-.| |.|.+
T Consensus 107 hgcT~e~I~~~F~~ys~~~~~e~~~~~eFD~~i~Fed 143 (175)
T PF12993_consen 107 HGCTLEDILELFHKYSDNVHCEEMDNGEFDYLIYFED 143 (175)
T ss_pred CCcCHHHHHHHHHHhcCCeEEEeecCCCCCEEEEecC
Confidence 57899999999999998655554443333 66664
No 238
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=25.65 E-value=1e+02 Score=21.51 Aligned_cols=23 Identities=22% Similarity=0.238 Sum_probs=19.4
Q ss_pred eEEEeCCCCCCCHHHHHHHhhcc
Q 030822 103 KIFVGRLPQEATAEDLRRYFSRF 125 (171)
Q Consensus 103 ~lfV~nLp~~~te~~L~~~F~~f 125 (171)
-+.+.|+|+..+.+.|..++...
T Consensus 79 d~vi~n~Py~~~~~~i~~~l~~~ 101 (169)
T smart00650 79 YKVVGNLPYNISTPILFKLLEEP 101 (169)
T ss_pred CEEEECCCcccHHHHHHHHHhcC
Confidence 46789999999999999998754
No 239
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=25.31 E-value=1e+02 Score=27.60 Aligned_cols=37 Identities=16% Similarity=0.131 Sum_probs=27.2
Q ss_pred CccceEEEEECCHHHHHHHHhcCCccCCeEEEEeecC
Q 030822 9 AHRGIGFITFASADSVENLMVDTHELGGSTVVVDRAT 45 (171)
Q Consensus 9 ~srGfgFV~F~~~~~a~~Al~~~~~i~gr~i~v~~a~ 45 (171)
+-.+.|||+|++...|+.|.+..+..+-....+.+|-
T Consensus 303 ~~~~~aFVtf~sr~~A~~~aq~~~~~~~~~w~~~~AP 339 (728)
T KOG1134|consen 303 KPLPAAFVTFKSRYGAAVAAQTQQSLNPTKWLTEFAP 339 (728)
T ss_pred CCCceEEEEEEeeHHHHHHHHhhhcCCCCceEEEecC
Confidence 5578999999999999999986444444445556553
No 240
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=25.27 E-value=65 Score=22.16 Aligned_cols=19 Identities=16% Similarity=0.487 Sum_probs=13.3
Q ss_pred CCCccceEEEEECCHHHHHH
Q 030822 7 SKAHRGIGFITFASADSVEN 26 (171)
Q Consensus 7 tg~srGfgFV~F~~~~~a~~ 26 (171)
.|+|.|||.| |.+.+.+.+
T Consensus 68 ~g~StG~a~I-Yds~e~~kk 86 (132)
T PTZ00071 68 GGKTTGFGLI-YDNLAALKK 86 (132)
T ss_pred CceEEEEEEE-ECCHHHHHh
Confidence 5788888888 666665543
No 241
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.26 E-value=1.1e+02 Score=26.46 Aligned_cols=36 Identities=31% Similarity=0.406 Sum_probs=31.1
Q ss_pred CCCceEEEeCCCCC-CCHHHHHHHhhcc----cceEEEEec
Q 030822 99 RIGKKIFVGRLPQE-ATAEDLRRYFSRF----GRILDVYVP 134 (171)
Q Consensus 99 ~~~~~lfV~nLp~~-~te~~L~~~F~~f----G~v~~v~i~ 134 (171)
...++|-|=||.|. +.-.||.-+|..| |.|.+|.|-
T Consensus 172 ~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IY 212 (650)
T KOG2318|consen 172 EETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIY 212 (650)
T ss_pred cccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEec
Confidence 45789999999995 8889999999987 699999984
No 242
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=24.57 E-value=1.3e+02 Score=24.92 Aligned_cols=37 Identities=27% Similarity=0.393 Sum_probs=30.6
Q ss_pred CCCCceEEEeCCCCC-CCHHHHHHHhhcc----cceEEEEec
Q 030822 98 QRIGKKIFVGRLPQE-ATAEDLRRYFSRF----GRILDVYVP 134 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~-~te~~L~~~F~~f----G~v~~v~i~ 134 (171)
.....+|-|=||.|. +...+|.-.|+.| |.|..|.|-
T Consensus 143 G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iy 184 (622)
T COG5638 143 GNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIY 184 (622)
T ss_pred CCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEec
Confidence 345788999999995 8889999999976 788888874
No 243
>COG1337 CRISPR system related protein, RAMP superfamily [Defense mechanisms]
Probab=24.42 E-value=44 Score=25.62 Aligned_cols=14 Identities=29% Similarity=0.553 Sum_probs=11.7
Q ss_pred CCccceEEEEECCH
Q 030822 8 KAHRGIGFITFASA 21 (171)
Q Consensus 8 g~srGfgFV~F~~~ 21 (171)
..|||||.|.|...
T Consensus 199 sgSRGyG~Vkf~~~ 212 (249)
T COG1337 199 SGSRGYGKVKFEIG 212 (249)
T ss_pred CCCcceEEEEEEee
Confidence 46899999998765
No 244
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=24.37 E-value=1.6e+02 Score=23.95 Aligned_cols=49 Identities=8% Similarity=-0.096 Sum_probs=38.7
Q ss_pred CCHHHHHHHhhcccceEEEEecCcceeEEecCCcccHHHHHHHHHHHhHhCCC
Q 030822 113 ATAEDLRRYFSRFGRILDVYVPKRFWFCHLCGRSCSRSCFSKVSRNLWTAGCN 165 (171)
Q Consensus 113 ~te~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~~~~~a~~Ai~~l~~~~~~ 165 (171)
-+-++|..+|..---+--++--++-.|+.|.++.+ ...-|.+.|+...+
T Consensus 262 K~Y~~Le~HF~~~hy~ct~qtc~~~k~~vf~~~~e----l~~h~~~~h~~~~~ 310 (493)
T COG5236 262 KSYEDLEAHFRNAHYCCTFQTCRVGKCYVFPYHTE----LLEHLTRFHKVNAR 310 (493)
T ss_pred hCHHHHHHHhhcCceEEEEEEEecCcEEEeccHHH----HHHHHHHHhhcccc
Confidence 34578888888766676677777888999999999 88888888876543
No 245
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=24.36 E-value=69 Score=21.59 Aligned_cols=20 Identities=20% Similarity=0.488 Sum_probs=14.5
Q ss_pred CCCCccceEEEEECCHHHHHH
Q 030822 6 GSKAHRGIGFITFASADSVEN 26 (171)
Q Consensus 6 ~tg~srGfgFV~F~~~~~a~~ 26 (171)
.+|+|.|||.| |.+.|.|.+
T Consensus 65 GggkstgfalI-Ydsve~akk 84 (132)
T KOG3424|consen 65 GGGKSTGFALI-YDSVEYAKK 84 (132)
T ss_pred CCcccceeeee-eehHHHHHh
Confidence 47999999998 555555543
No 246
>PF14893 PNMA: PNMA
Probab=23.19 E-value=73 Score=25.53 Aligned_cols=26 Identities=8% Similarity=0.285 Sum_probs=21.4
Q ss_pred CCCceEEEeCCCCCCCHHHHHHHhhc
Q 030822 99 RIGKKIFVGRLPQEATAEDLRRYFSR 124 (171)
Q Consensus 99 ~~~~~lfV~nLp~~~te~~L~~~F~~ 124 (171)
...+.|.|.+||.+++++++++....
T Consensus 16 ~~~r~lLv~giP~dc~~~ei~e~l~~ 41 (331)
T PF14893_consen 16 DPQRALLVLGIPEDCEEAEIEEALQA 41 (331)
T ss_pred ChhhhheeecCCCCCCHHHHHHHHHH
Confidence 34678999999999999888877654
No 247
>PHA01632 hypothetical protein
Probab=23.16 E-value=87 Score=18.04 Aligned_cols=21 Identities=33% Similarity=0.755 Sum_probs=17.0
Q ss_pred EEEeCCCCCCCHHHHHHHhhc
Q 030822 104 IFVGRLPQEATAEDLRRYFSR 124 (171)
Q Consensus 104 lfV~nLp~~~te~~L~~~F~~ 124 (171)
|.|-.+|..-|+++|+....+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 445788999999999988765
No 248
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=22.29 E-value=83 Score=19.67 Aligned_cols=20 Identities=20% Similarity=0.439 Sum_probs=14.2
Q ss_pred CCCccceEEEEECCHHHHHHH
Q 030822 7 SKAHRGIGFITFASADSVENL 27 (171)
Q Consensus 7 tg~srGfgFV~F~~~~~a~~A 27 (171)
.|++.|||.| |.+.+.+.+.
T Consensus 44 ~~~s~g~a~I-Yd~~e~~kk~ 63 (84)
T PF01282_consen 44 GGKSTGFAKI-YDSAEALKKF 63 (84)
T ss_dssp SSEEEEEEEE-ESSHHHHHHH
T ss_pred CceEEEEEEE-eCCHHHHHHh
Confidence 4678888888 6777666543
No 249
>PF06014 DUF910: Bacterial protein of unknown function (DUF910); InterPro: IPR009256 This family consists of several short bacterial proteins of unknown function.; PDB: 2NN4_A.
Probab=22.13 E-value=57 Score=19.25 Aligned_cols=16 Identities=31% Similarity=0.629 Sum_probs=9.4
Q ss_pred HHHHHHhhcccceEEE
Q 030822 116 EDLRRYFSRFGRILDV 131 (171)
Q Consensus 116 ~~L~~~F~~fG~v~~v 131 (171)
=|+.+++.+||.++.+
T Consensus 5 yDVqQLLK~fG~~IY~ 20 (62)
T PF06014_consen 5 YDVQQLLKKFGIIIYV 20 (62)
T ss_dssp HHHHHHHHTTS-----
T ss_pred HHHHHHHHHCCEEEEe
Confidence 4788999999986543
No 250
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=22.01 E-value=78 Score=16.28 Aligned_cols=17 Identities=18% Similarity=0.323 Sum_probs=14.5
Q ss_pred CCCHHHHHHHhhcccce
Q 030822 112 EATAEDLRRYFSRFGRI 128 (171)
Q Consensus 112 ~~te~~L~~~F~~fG~v 128 (171)
++++++|++....+|-+
T Consensus 3 tWs~~~L~~wL~~~gi~ 19 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIP 19 (38)
T ss_pred CCCHHHHHHHHHHcCCC
Confidence 58899999999999853
No 251
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=21.97 E-value=1.4e+02 Score=18.83 Aligned_cols=32 Identities=13% Similarity=0.321 Sum_probs=25.0
Q ss_pred eEEEeCCCCCCCHHHHHHHhhc-cc-ceEEEEec
Q 030822 103 KIFVGRLPQEATAEDLRRYFSR-FG-RILDVYVP 134 (171)
Q Consensus 103 ~lfV~nLp~~~te~~L~~~F~~-fG-~v~~v~i~ 134 (171)
+-|+..++..+|..+|++.++. || .|.+|+.+
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~ 54 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTM 54 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEe
Confidence 5677789999999999999987 55 55566544
No 252
>PF07872 DUF1659: Protein of unknown function (DUF1659); InterPro: IPR012454 This family consists of hypothetical bacterial proteins of unknown function
Probab=21.12 E-value=1.1e+02 Score=16.72 Aligned_cols=24 Identities=29% Similarity=0.224 Sum_probs=18.7
Q ss_pred CCCCceEEEeCCCCCCCHHHHHHH
Q 030822 98 QRIGKKIFVGRLPQEATAEDLRRY 121 (171)
Q Consensus 98 ~~~~~~lfV~nLp~~~te~~L~~~ 121 (171)
.+..++.-+.|+-+++++++|.++
T Consensus 21 kpi~k~ks~~nvk~~Atdedl~~V 44 (47)
T PF07872_consen 21 KPIFKTKSFSNVKPDATDEDLYDV 44 (47)
T ss_pred CEEEEeeehhhcCCCCCHHHHHHH
Confidence 344566667899999999999875
No 253
>PF12631 GTPase_Cys_C: Catalytic cysteine-containing C-terminus of GTPase, MnmE; PDB: 1XZQ_A 1XZP_A 2GJ8_D 3GEH_A 3GEI_B 3GEE_A.
Probab=20.60 E-value=87 Score=18.78 Aligned_cols=15 Identities=33% Similarity=0.470 Sum_probs=10.8
Q ss_pred CCCCHHHHHHHhhcc
Q 030822 111 QEATAEDLRRYFSRF 125 (171)
Q Consensus 111 ~~~te~~L~~~F~~f 125 (171)
...+++-|..+|+.|
T Consensus 58 ~~~~ediLd~IFs~F 72 (73)
T PF12631_consen 58 EVVTEDILDNIFSNF 72 (73)
T ss_dssp SS--HHHHHHHHCTS
T ss_pred CCChHHHHHHHHHhh
Confidence 367888999999887
No 254
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=20.45 E-value=2.9e+02 Score=18.83 Aligned_cols=43 Identities=9% Similarity=0.040 Sum_probs=28.3
Q ss_pred EEEeCCCC----CCCHHHHHHHhhcccceEEEEecCcceeEEecCCcc
Q 030822 104 IFVGRLPQ----EATAEDLRRYFSRFGRILDVYVPKRFWFCHLCGRSC 147 (171)
Q Consensus 104 lfV~nLp~----~~te~~L~~~F~~fG~v~~v~i~~d~~fv~f~~~~~ 147 (171)
+|++++.- .+.=.+|+++|...| ..+|+-...-+.|-|.+..+
T Consensus 6 aLLRGINVGG~nki~MaeLr~~l~~~G-f~~V~Tyi~SGNvvf~~~~~ 52 (137)
T PF08002_consen 6 ALLRGINVGGKNKIKMAELREALEDLG-FTNVRTYIQSGNVVFESDRD 52 (137)
T ss_dssp EEESS-SBTTBS---HHHHHHHHHHCT--EEEEEETTTTEEEEEESS-
T ss_pred EEEcceecCCCCcccHHHHHHHHHHcC-CCCceEEEeeCCEEEecCCC
Confidence 55666632 366799999999998 57777666777888886555
No 255
>smart00457 MACPF membrane-attack complex / perforin.
Probab=20.19 E-value=54 Score=23.73 Aligned_cols=22 Identities=18% Similarity=0.549 Sum_probs=19.6
Q ss_pred EeCCCCCCCHHHHHHHhhcccc
Q 030822 106 VGRLPQEATAEDLRRYFSRFGR 127 (171)
Q Consensus 106 V~nLp~~~te~~L~~~F~~fG~ 127 (171)
+.+||...+..+...+|..||+
T Consensus 30 l~~Lp~~~~~~~~~~fi~~yGT 51 (194)
T smart00457 30 LRDLPDQYNRGAYARFIDKYGT 51 (194)
T ss_pred HHhCccccCHHHHHHHHHHhCC
Confidence 4589999999999999999996
Done!