Query 033266
Match_columns 123
No_of_seqs 159 out of 1998
Neff 9.3
Searched_HMMs 46136
Date Fri Mar 29 11:50:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033266.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033266hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03134 glycine-rich RNA-bind 99.7 3.3E-17 7.2E-22 106.2 9.3 66 58-123 32-97 (144)
2 KOG0149 Predicted RNA-binding 99.7 6.3E-17 1.4E-21 110.0 7.1 62 60-121 12-73 (247)
3 TIGR01659 sex-lethal sex-letha 99.7 1.1E-16 2.4E-21 116.7 6.9 64 60-123 193-256 (346)
4 KOG0113 U1 small nuclear ribon 99.7 2.8E-16 6E-21 110.0 7.8 76 46-121 87-162 (335)
5 KOG0122 Translation initiation 99.7 3.1E-16 6.7E-21 107.1 7.8 93 21-123 160-252 (270)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 5.9E-16 1.3E-20 112.8 9.1 65 59-123 2-66 (352)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.6 1.3E-15 2.9E-20 110.9 10.2 64 60-123 269-332 (352)
8 TIGR01659 sex-lethal sex-letha 99.6 1.2E-15 2.7E-20 111.3 9.9 68 56-123 103-170 (346)
9 PF00076 RRM_1: RNA recognitio 99.6 1.3E-15 2.9E-20 86.5 7.8 60 63-123 1-60 (70)
10 TIGR01645 half-pint poly-U bin 99.6 3.8E-16 8.3E-21 120.1 7.2 107 9-123 160-267 (612)
11 KOG0121 Nuclear cap-binding pr 99.6 6.9E-16 1.5E-20 96.3 6.2 65 59-123 35-99 (153)
12 PF14259 RRM_6: RNA recognitio 99.6 2.1E-14 4.6E-19 81.9 7.9 60 63-123 1-60 (70)
13 TIGR01648 hnRNP-R-Q heterogene 99.6 3.2E-14 6.9E-19 109.2 10.9 65 58-123 56-120 (578)
14 TIGR01645 half-pint poly-U bin 99.6 1.7E-14 3.7E-19 111.1 9.1 66 58-123 105-170 (612)
15 TIGR01628 PABP-1234 polyadenyl 99.6 3.3E-15 7.2E-20 115.0 5.2 66 57-123 282-347 (562)
16 TIGR01642 U2AF_lg U2 snRNP aux 99.6 1.6E-14 3.4E-19 109.9 8.0 66 58-123 293-358 (509)
17 TIGR01622 SF-CC1 splicing fact 99.5 1.6E-14 3.6E-19 108.6 7.7 64 60-123 186-249 (457)
18 KOG0117 Heterogeneous nuclear 99.5 7.2E-14 1.6E-18 102.5 8.8 66 58-123 81-146 (506)
19 KOG0148 Apoptosis-promoting RN 99.5 1.2E-14 2.6E-19 100.8 4.2 108 7-123 113-221 (321)
20 TIGR01628 PABP-1234 polyadenyl 99.5 1E-13 2.2E-18 106.9 8.8 62 62-123 2-63 (562)
21 KOG0144 RNA-binding protein CU 99.5 1.4E-13 3E-18 100.7 7.5 66 57-122 31-96 (510)
22 PLN03120 nucleic acid binding 99.5 3.3E-13 7.2E-18 94.1 8.5 58 60-120 4-61 (260)
23 TIGR01622 SF-CC1 splicing fact 99.5 4.9E-13 1.1E-17 100.6 9.7 64 58-121 87-150 (457)
24 KOG0148 Apoptosis-promoting RN 99.5 2.7E-13 5.8E-18 94.2 7.2 64 60-123 62-125 (321)
25 KOG0145 RNA-binding protein EL 99.4 3E-14 6.5E-19 98.6 1.8 100 6-123 91-190 (360)
26 KOG0131 Splicing factor 3b, su 99.4 2.6E-13 5.6E-18 89.4 5.7 68 56-123 5-72 (203)
27 smart00362 RRM_2 RNA recogniti 99.4 1.4E-12 3E-17 73.4 8.0 60 62-123 1-60 (72)
28 KOG0126 Predicted RNA-binding 99.4 8.8E-15 1.9E-19 96.4 -1.3 70 53-122 28-97 (219)
29 COG0724 RNA-binding proteins ( 99.4 1.4E-12 3.1E-17 90.3 8.5 64 60-123 115-178 (306)
30 PLN03121 nucleic acid binding 99.4 1.8E-12 3.9E-17 89.3 8.5 60 59-121 4-63 (243)
31 PLN03213 repressor of silencin 99.4 1.3E-12 2.9E-17 97.4 8.1 63 57-123 7-71 (759)
32 smart00360 RRM RNA recognition 99.4 2.6E-12 5.7E-17 72.0 7.5 59 65-123 1-59 (71)
33 KOG0144 RNA-binding protein CU 99.4 4.1E-13 8.8E-18 98.3 4.0 64 59-123 123-186 (510)
34 KOG0127 Nucleolar protein fibr 99.4 3.4E-12 7.4E-17 95.8 8.2 64 58-121 290-353 (678)
35 KOG0107 Alternative splicing f 99.3 2.6E-12 5.6E-17 84.3 6.1 60 59-123 9-68 (195)
36 KOG0145 RNA-binding protein EL 99.3 3.8E-12 8.2E-17 88.3 6.7 67 57-123 38-104 (360)
37 KOG0114 Predicted RNA-binding 99.3 1.3E-11 2.9E-16 74.6 7.7 65 56-123 14-78 (124)
38 cd00590 RRM RRM (RNA recogniti 99.3 2.1E-11 4.5E-16 68.9 8.2 61 62-123 1-61 (74)
39 KOG0108 mRNA cleavage and poly 99.3 4.7E-12 1E-16 94.4 6.9 63 61-123 19-81 (435)
40 KOG0111 Cyclophilin-type pepti 99.3 1.1E-12 2.4E-17 89.0 3.1 67 57-123 7-73 (298)
41 KOG0123 Polyadenylate-binding 99.3 2.4E-12 5.3E-17 94.7 4.8 90 8-123 47-136 (369)
42 KOG0125 Ataxin 2-binding prote 99.3 1.3E-11 2.9E-16 87.8 8.0 65 57-123 93-157 (376)
43 KOG0124 Polypyrimidine tract-b 99.3 2.6E-12 5.5E-17 92.8 4.3 64 60-123 113-176 (544)
44 KOG0130 RNA-binding protein RB 99.3 1.2E-11 2.5E-16 78.2 6.7 64 60-123 72-135 (170)
45 KOG4207 Predicted splicing fac 99.3 1.5E-11 3.3E-16 82.7 6.9 67 56-122 9-75 (256)
46 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.3 3.8E-11 8.3E-16 91.3 8.9 61 58-123 273-334 (481)
47 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.3 2.6E-11 5.7E-16 92.2 8.0 58 59-122 1-58 (481)
48 KOG0147 Transcriptional coacti 99.2 1.5E-11 3.3E-16 92.2 6.4 103 17-123 239-341 (549)
49 KOG0146 RNA-binding protein ET 99.2 3.1E-11 6.7E-16 84.1 5.3 66 56-122 15-80 (371)
50 KOG0146 RNA-binding protein ET 99.2 5.1E-11 1.1E-15 83.1 6.3 69 55-123 280-348 (371)
51 KOG0127 Nucleolar protein fibr 99.2 3.2E-11 6.9E-16 90.7 5.5 64 59-123 116-179 (678)
52 KOG0124 Polypyrimidine tract-b 99.2 8.5E-12 1.8E-16 90.2 1.8 103 13-123 170-273 (544)
53 KOG0415 Predicted peptidyl pro 99.2 6.9E-11 1.5E-15 85.1 5.7 66 57-122 236-301 (479)
54 TIGR01648 hnRNP-R-Q heterogene 99.1 1.9E-10 4.1E-15 88.7 8.1 56 60-123 233-290 (578)
55 KOG0131 Splicing factor 3b, su 99.1 2.4E-11 5.2E-16 80.2 2.1 66 58-123 94-160 (203)
56 KOG0105 Alternative splicing f 99.1 1.5E-10 3.3E-15 76.8 5.0 60 58-120 4-63 (241)
57 smart00361 RRM_1 RNA recogniti 99.1 5.3E-10 1.1E-14 63.9 6.6 50 74-123 2-58 (70)
58 KOG4208 Nucleolar RNA-binding 99.1 4.1E-10 8.9E-15 75.7 6.6 65 59-123 48-113 (214)
59 KOG4212 RNA-binding protein hn 99.1 5.4E-10 1.2E-14 82.5 6.9 63 60-123 44-107 (608)
60 KOG0117 Heterogeneous nuclear 99.1 3.6E-10 7.7E-15 83.3 5.8 56 60-123 259-314 (506)
61 KOG4205 RNA-binding protein mu 99.0 4E-10 8.6E-15 81.0 5.3 90 18-119 67-156 (311)
62 KOG4205 RNA-binding protein mu 99.0 2.6E-10 5.6E-15 82.0 4.3 61 59-119 5-65 (311)
63 KOG0110 RNA-binding protein (R 99.0 1.1E-10 2.4E-15 89.9 1.6 105 10-123 572-676 (725)
64 TIGR01642 U2AF_lg U2 snRNP aux 99.0 2.2E-09 4.8E-14 81.8 7.9 58 57-120 172-241 (509)
65 KOG0109 RNA-binding protein LA 99.0 5.8E-10 1.3E-14 78.5 3.9 55 61-123 3-57 (346)
66 KOG0153 Predicted RNA-binding 99.0 6.3E-09 1.4E-13 74.7 8.8 90 22-121 194-283 (377)
67 KOG0226 RNA-binding proteins [ 98.9 3.1E-09 6.7E-14 73.6 6.6 69 55-123 185-253 (290)
68 KOG0123 Polyadenylate-binding 98.9 2.9E-09 6.4E-14 78.5 5.7 66 57-123 267-332 (369)
69 KOG0109 RNA-binding protein LA 98.8 3.3E-09 7.2E-14 74.7 3.3 85 11-123 49-133 (346)
70 PF13893 RRM_5: RNA recognitio 98.8 3.1E-08 6.8E-13 53.9 5.8 42 77-123 1-42 (56)
71 KOG0132 RNA polymerase II C-te 98.8 1.7E-08 3.6E-13 78.9 6.1 58 60-123 421-478 (894)
72 KOG4206 Spliceosomal protein s 98.8 4.6E-08 1E-12 66.6 7.5 61 60-123 9-73 (221)
73 KOG0533 RRM motif-containing p 98.8 3E-08 6.5E-13 69.1 6.6 63 60-123 83-145 (243)
74 KOG0116 RasGAP SH3 binding pro 98.7 4.6E-08 1E-12 73.0 6.0 63 59-121 287-349 (419)
75 KOG4209 Splicing factor RNPS1, 98.6 4.6E-08 9.9E-13 68.0 4.8 65 56-120 97-161 (231)
76 KOG4661 Hsp27-ERE-TATA-binding 98.6 1.2E-07 2.6E-12 72.4 7.1 65 58-122 403-467 (940)
77 KOG4660 Protein Mei2, essentia 98.6 1.1E-07 2.4E-12 71.9 6.4 68 51-123 66-133 (549)
78 KOG1457 RNA binding protein (c 98.6 4.2E-07 9E-12 62.3 8.2 68 56-123 30-98 (284)
79 KOG4211 Splicing factor hnRNP- 98.6 4E-07 8.6E-12 68.2 8.0 62 57-121 7-68 (510)
80 KOG0110 RNA-binding protein (R 98.6 1.8E-07 3.8E-12 72.6 6.1 63 61-123 516-581 (725)
81 KOG4454 RNA binding protein (R 98.5 4.8E-08 1E-12 66.6 2.5 64 58-123 7-70 (267)
82 KOG1548 Transcription elongati 98.5 1.1E-06 2.3E-11 63.5 8.2 64 59-123 133-204 (382)
83 KOG4212 RNA-binding protein hn 98.5 3E-07 6.6E-12 68.3 5.5 61 58-123 534-594 (608)
84 KOG0120 Splicing factor U2AF, 98.4 4.8E-07 1E-11 68.6 4.6 68 56-123 285-352 (500)
85 PF04059 RRM_2: RNA recognitio 98.3 8.8E-06 1.9E-10 49.3 7.8 62 61-122 2-65 (97)
86 KOG0151 Predicted splicing reg 98.3 2.8E-06 6E-11 66.4 6.6 66 58-123 172-240 (877)
87 KOG4849 mRNA cleavage factor I 98.2 1.7E-06 3.8E-11 62.7 4.2 65 58-122 78-144 (498)
88 KOG4211 Splicing factor hnRNP- 98.1 1.7E-05 3.7E-10 59.7 8.2 63 58-121 101-164 (510)
89 KOG0106 Alternative splicing f 98.1 2.4E-06 5.3E-11 58.5 2.8 55 61-123 2-56 (216)
90 PF08777 RRM_3: RNA binding mo 98.1 1.4E-05 3.1E-10 49.1 5.7 56 61-122 2-57 (105)
91 KOG0129 Predicted RNA-binding 98.1 1.7E-05 3.6E-10 60.0 6.9 65 57-121 367-432 (520)
92 KOG0129 Predicted RNA-binding 98.1 1.3E-05 2.9E-10 60.5 6.3 62 60-122 259-326 (520)
93 KOG1457 RNA binding protein (c 98.0 7.7E-06 1.7E-10 56.2 4.2 58 61-122 211-268 (284)
94 KOG1855 Predicted RNA-binding 98.0 1.3E-05 2.9E-10 59.4 5.8 75 49-123 220-307 (484)
95 KOG0147 Transcriptional coacti 97.9 4.5E-06 9.8E-11 63.3 1.5 63 58-120 177-239 (549)
96 KOG1995 Conserved Zn-finger pr 97.9 4.7E-05 1E-09 55.3 5.9 66 57-122 63-136 (351)
97 PF14605 Nup35_RRM_2: Nup53/35 97.8 9.1E-05 2E-09 39.9 5.3 52 61-119 2-53 (53)
98 KOG4210 Nuclear localization s 97.7 2.9E-05 6.3E-10 55.7 2.4 62 59-120 183-245 (285)
99 KOG4206 Spliceosomal protein s 97.6 0.00022 4.7E-09 48.9 6.2 61 57-122 143-203 (221)
100 KOG0105 Alternative splicing f 97.6 0.00025 5.4E-09 47.6 6.3 56 60-122 115-170 (241)
101 KOG1365 RNA-binding protein Fu 97.5 0.00064 1.4E-08 50.3 7.0 60 61-121 162-225 (508)
102 KOG2314 Translation initiation 97.4 0.0005 1.1E-08 53.0 6.5 64 59-123 57-126 (698)
103 KOG0106 Alternative splicing f 97.3 0.00018 3.9E-09 49.5 2.8 58 58-123 97-154 (216)
104 PF11608 Limkain-b1: Limkain b 97.0 0.0037 8E-08 36.8 5.9 52 62-123 4-60 (90)
105 KOG3152 TBP-binding protein, a 97.0 0.00074 1.6E-08 47.3 3.4 64 60-123 74-149 (278)
106 KOG1190 Polypyrimidine tract-b 97.0 0.0034 7.4E-08 46.8 6.5 59 60-123 297-356 (492)
107 KOG1190 Polypyrimidine tract-b 96.9 0.0017 3.6E-08 48.4 4.5 55 57-117 25-79 (492)
108 KOG0115 RNA-binding protein p5 96.9 0.0013 2.8E-08 46.1 3.7 61 61-122 32-92 (275)
109 PF10309 DUF2414: Protein of u 96.9 0.011 2.4E-07 32.8 6.7 53 62-122 7-62 (62)
110 PF05172 Nup35_RRM: Nup53/35/4 96.8 0.0056 1.2E-07 37.3 5.7 63 60-123 6-75 (100)
111 KOG0128 RNA-binding protein SA 96.8 0.00072 1.6E-08 54.2 1.8 59 60-119 736-794 (881)
112 PF08675 RNA_bind: RNA binding 96.7 0.011 2.4E-07 34.8 6.0 52 62-122 11-62 (87)
113 KOG1365 RNA-binding protein Fu 96.7 0.0025 5.4E-08 47.2 4.0 62 60-122 280-344 (508)
114 COG5175 MOT2 Transcriptional r 96.6 0.0065 1.4E-07 44.4 5.3 64 59-122 113-185 (480)
115 KOG0128 RNA-binding protein SA 96.4 0.00019 4.1E-09 57.3 -3.4 62 60-121 667-728 (881)
116 KOG4307 RNA binding protein RB 96.2 0.017 3.6E-07 46.0 6.1 60 62-122 869-929 (944)
117 KOG1456 Heterogeneous nuclear 95.7 0.077 1.7E-06 39.5 7.5 63 56-123 283-346 (494)
118 KOG0112 Large RNA-binding prot 95.7 0.016 3.4E-07 47.2 4.1 60 57-122 452-511 (975)
119 KOG0120 Splicing factor U2AF, 95.7 0.034 7.5E-07 42.9 5.6 48 76-123 425-475 (500)
120 KOG2193 IGF-II mRNA-binding pr 95.5 0.02 4.4E-07 43.1 3.7 55 61-123 2-58 (584)
121 KOG1548 Transcription elongati 95.4 0.053 1.2E-06 39.8 5.7 63 57-123 262-335 (382)
122 KOG2416 Acinus (induces apopto 95.0 0.022 4.8E-07 44.5 2.7 62 56-123 440-502 (718)
123 PF07576 BRAP2: BRCA1-associat 94.8 0.53 1.2E-05 29.1 9.0 60 62-123 15-75 (110)
124 KOG2253 U1 snRNP complex, subu 94.4 0.069 1.5E-06 42.2 4.2 59 55-122 35-93 (668)
125 KOG4676 Splicing factor, argin 94.2 0.074 1.6E-06 39.8 3.8 57 62-118 9-68 (479)
126 KOG4307 RNA binding protein RB 94.1 0.051 1.1E-06 43.4 3.0 63 56-119 430-493 (944)
127 KOG1456 Heterogeneous nuclear 93.9 0.27 6E-06 36.7 6.2 58 61-123 121-180 (494)
128 KOG2591 c-Mpl binding protein, 93.5 0.79 1.7E-05 36.0 8.3 58 58-122 173-232 (684)
129 PF03467 Smg4_UPF3: Smg-4/UPF3 93.3 0.15 3.2E-06 34.2 3.9 64 59-122 6-75 (176)
130 KOG0112 Large RNA-binding prot 93.2 0.017 3.7E-07 47.0 -0.9 60 59-119 371-430 (975)
131 KOG2202 U2 snRNP splicing fact 93.0 0.042 9.1E-07 38.7 0.9 46 77-123 85-131 (260)
132 KOG2068 MOT2 transcription fac 92.8 0.11 2.3E-06 38.0 2.7 63 60-122 77-145 (327)
133 KOG1996 mRNA splicing factor [ 92.6 0.48 1E-05 34.4 5.7 50 74-123 300-350 (378)
134 KOG4210 Nuclear localization s 90.9 0.14 2.9E-06 37.0 1.5 63 59-121 87-149 (285)
135 KOG4410 5-formyltetrahydrofola 90.4 2.2 4.8E-05 31.0 7.1 58 59-122 329-394 (396)
136 PF15023 DUF4523: Protein of u 89.7 2.2 4.7E-05 27.9 6.1 60 56-122 82-145 (166)
137 PF08952 DUF1866: Domain of un 89.1 1.3 2.9E-05 28.8 4.8 58 57-122 24-90 (146)
138 KOG4676 Splicing factor, argin 88.8 0.056 1.2E-06 40.4 -1.8 61 59-123 150-210 (479)
139 KOG0804 Cytoplasmic Zn-finger 88.2 3.6 7.8E-05 31.6 7.2 61 60-123 74-136 (493)
140 KOG4285 Mitotic phosphoprotein 88.1 3.4 7.5E-05 30.2 6.8 56 60-122 197-252 (350)
141 PF11767 SET_assoc: Histone ly 80.3 8.1 0.00017 21.6 4.8 44 71-123 11-54 (66)
142 KOG4483 Uncharacterized conser 78.8 9.5 0.00021 29.1 6.0 55 59-120 390-445 (528)
143 COG0724 RNA-binding proteins ( 78.3 1.2 2.7E-05 30.2 1.3 54 57-110 222-275 (306)
144 KOG4660 Protein Mei2, essentia 74.2 7.7 0.00017 30.5 4.6 35 89-123 418-452 (549)
145 KOG2318 Uncharacterized conser 73.9 23 0.0005 28.4 7.1 37 57-93 171-212 (650)
146 PF15513 DUF4651: Domain of un 73.3 12 0.00025 20.7 4.0 16 75-90 9-24 (62)
147 KOG4008 rRNA processing protei 70.5 4.8 0.0001 28.4 2.6 34 57-90 37-70 (261)
148 PF04847 Calcipressin: Calcipr 67.1 15 0.00033 24.9 4.4 44 73-122 8-51 (184)
149 KOG4454 RNA binding protein (R 66.4 1.4 3E-05 30.8 -0.7 55 58-113 78-136 (267)
150 KOG2135 Proteins containing th 65.0 2.5 5.5E-05 32.6 0.4 54 60-119 372-426 (526)
151 PF03468 XS: XS domain; Inter 64.6 24 0.00053 21.9 4.7 44 73-119 30-74 (116)
152 PF09707 Cas_Cas2CT1978: CRISP 59.1 32 0.00069 20.3 4.3 46 61-109 26-71 (86)
153 PF10567 Nab6_mRNP_bdg: RNA-re 57.5 33 0.00071 25.1 4.9 58 60-117 15-79 (309)
154 KOG2891 Surface glycoprotein [ 53.9 29 0.00063 25.3 4.1 35 60-94 149-195 (445)
155 KOG4574 RNA-binding protein (c 52.6 8.5 0.00019 32.1 1.5 55 62-122 300-354 (1007)
156 KOG0111 Cyclophilin-type pepti 50.4 2.5 5.4E-05 29.6 -1.6 34 7-40 61-94 (298)
157 PF11411 DNA_ligase_IV: DNA li 47.1 17 0.00036 17.8 1.5 16 70-85 19-34 (36)
158 PF07292 NID: Nmi/IFP 35 domai 47.0 12 0.00025 22.3 1.1 23 59-81 51-73 (88)
159 PRK11558 putative ssRNA endonu 43.3 67 0.0015 19.4 4.0 48 61-111 28-75 (97)
160 COG5638 Uncharacterized conser 41.5 55 0.0012 25.3 4.1 40 54-93 140-184 (622)
161 KOG2295 C2H2 Zn-finger protein 40.3 3.5 7.6E-05 32.5 -2.2 51 60-110 231-281 (648)
162 PF14893 PNMA: PNMA 39.4 24 0.00052 26.2 2.0 25 58-82 16-40 (331)
163 PF15407 Spo7_2_N: Sporulation 37.9 13 0.00028 20.9 0.3 25 57-81 24-48 (67)
164 PF13046 DUF3906: Protein of u 35.7 54 0.0012 18.2 2.5 29 72-100 30-58 (64)
165 COG0030 KsgA Dimethyladenosine 35.4 60 0.0013 23.3 3.4 34 61-94 96-129 (259)
166 KOG2193 IGF-II mRNA-binding pr 35.1 2.7 5.8E-05 32.2 -3.5 60 60-123 80-140 (584)
167 COG0445 GidA Flavin-dependent 34.8 2E+02 0.0043 23.4 6.3 39 57-95 298-336 (621)
168 COG5193 LHP1 La protein, small 33.6 22 0.00047 27.2 1.0 60 60-119 174-243 (438)
169 PF03439 Spt5-NGN: Early trans 33.4 55 0.0012 18.9 2.6 22 101-122 43-64 (84)
170 PF00398 RrnaAD: Ribosomal RNA 31.8 60 0.0013 22.9 3.0 31 60-90 97-129 (262)
171 PRK11901 hypothetical protein; 30.9 1.6E+02 0.0035 22.0 5.0 60 58-122 243-304 (327)
172 PHA01632 hypothetical protein 29.1 66 0.0014 17.4 2.1 21 63-83 19-39 (64)
173 TIGR01873 cas_CT1978 CRISPR-as 28.2 1.4E+02 0.0029 17.7 3.6 48 61-111 26-74 (87)
174 PRK00274 ksgA 16S ribosomal RN 25.7 98 0.0021 22.0 3.2 22 62-83 107-128 (272)
175 cd00027 BRCT Breast Cancer Sup 24.8 1.1E+02 0.0024 15.5 3.2 27 61-87 2-28 (72)
176 KOG4213 RNA-binding protein La 23.5 2.5E+02 0.0055 19.2 4.9 55 60-120 111-168 (205)
177 PRK14548 50S ribosomal protein 23.3 1.7E+02 0.0037 17.1 5.4 58 63-123 23-82 (84)
178 TIGR00755 ksgA dimethyladenosi 22.9 1.3E+02 0.0029 20.9 3.5 24 62-85 96-119 (253)
179 PF00403 HMA: Heavy-metal-asso 21.3 1.4E+02 0.0031 15.5 6.2 56 62-123 1-60 (62)
180 PF14657 Integrase_AP2: AP2-li 21.1 1.3E+02 0.0028 15.0 3.3 28 94-121 9-36 (46)
181 PTZ00338 dimethyladenosine tra 20.2 1.2E+02 0.0026 22.0 2.8 22 62-83 103-124 (294)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.73 E-value=3.3e-17 Score=106.22 Aligned_cols=66 Identities=30% Similarity=0.495 Sum_probs=62.5
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
...++|||+|||+.++|++|+++|.+||.|..+.++.++.+++++|||||+|.+.++|+.|++.||
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~ln 97 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMD 97 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcC
Confidence 446799999999999999999999999999999999999999999999999999999999998875
No 2
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.69 E-value=6.3e-17 Score=109.96 Aligned_cols=62 Identities=31% Similarity=0.565 Sum_probs=59.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
-++||||||+|++..+.|+++|++||+|.+..++.|+.+|++|||+||+|.+.++|.+|++-
T Consensus 12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d 73 (247)
T KOG0149|consen 12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD 73 (247)
T ss_pred EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC
Confidence 46899999999999999999999999999999999999999999999999999999999864
No 3
>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=99.67 E-value=1.1e-16 Score=116.72 Aligned_cols=64 Identities=28% Similarity=0.549 Sum_probs=61.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.++|||+|||+.++|++|+++|++||.|..+.+++++.+++++|||||+|.+.++|++||+.||
T Consensus 193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~ln 256 (346)
T TIGR01659 193 DTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALN 256 (346)
T ss_pred cceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhC
Confidence 5689999999999999999999999999999999999899999999999999999999999886
No 4
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.67 E-value=2.8e-16 Score=110.01 Aligned_cols=76 Identities=59% Similarity=0.970 Sum_probs=72.2
Q ss_pred CCCCCCCCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 46 LYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 46 ~~~~~~~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
.++|..++...+++.++|||+-|+++++|..|+..|..||.|+.+.|++|+.||+++|||||+|..+.+...|.+.
T Consensus 87 ~wdP~~dp~a~gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~ 162 (335)
T KOG0113|consen 87 LWDPNNDPNAIGDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKD 162 (335)
T ss_pred hcCCCCCCcccCCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHh
Confidence 4568889999999999999999999999999999999999999999999999999999999999999999999874
No 5
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.67 E-value=3.1e-16 Score=107.14 Aligned_cols=93 Identities=30% Similarity=0.408 Sum_probs=74.9
Q ss_pred CCCCCcccCCCChHHHHHHhhccCCCCCCCCCCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCC
Q 033266 21 GSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGA 100 (123)
Q Consensus 21 ~~~~g~~i~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~ 100 (123)
+...|++|+|......+. ........-++..+|-|.||+.+++|.+|+++|.+||.|.++.|.+|+.||.
T Consensus 160 ~~~~g~yvpP~mR~ga~~----------~~g~~~R~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~ 229 (270)
T KOG0122|consen 160 GTKKGKYVPPSMRAGADR----------ASGSDMRERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGL 229 (270)
T ss_pred CCcCccccCccccCCccc----------ccccccccCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCc
Confidence 456788887765332221 0111111234677999999999999999999999999999999999999999
Q ss_pred cccEEEEEecCHHHHHHHHHHcC
Q 033266 101 SRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 101 ~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
++|||||.|.++++|.+||..||
T Consensus 230 ~kGFAFVtF~sRddA~rAI~~Ln 252 (270)
T KOG0122|consen 230 SKGFAFVTFESRDDAARAIADLN 252 (270)
T ss_pred ccceEEEEEecHHHHHHHHHHcc
Confidence 99999999999999999999886
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.66 E-value=5.9e-16 Score=112.80 Aligned_cols=65 Identities=28% Similarity=0.517 Sum_probs=61.8
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
..++|||+|||+.++|++|+++|.+||.|..+++++++.+|+++|||||+|.+.++|..||+.||
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~ 66 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLN 66 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcc
Confidence 35699999999999999999999999999999999999899999999999999999999998875
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.65 E-value=1.3e-15 Score=110.94 Aligned_cols=64 Identities=30% Similarity=0.453 Sum_probs=61.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+..|||+|||+++++++|+++|++||.|.++++++|+.+|.++|||||+|.+.++|..|+..||
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~ln 332 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLN 332 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhC
Confidence 4579999999999999999999999999999999999999999999999999999999999886
No 8
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.65 E-value=1.2e-15 Score=111.26 Aligned_cols=68 Identities=26% Similarity=0.432 Sum_probs=63.6
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 56 IGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.....++|||+|||+++++++|+++|..||.|..|+|++++.+++++|||||+|.+.++|..|++.||
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~Ln 170 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLN 170 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcC
Confidence 34457899999999999999999999999999999999999899999999999999999999998875
No 9
>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=99.65 E-value=1.3e-15 Score=86.46 Aligned_cols=60 Identities=35% Similarity=0.756 Sum_probs=56.7
Q ss_pred EEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 63 l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
|||+|||+++++++|+++|.+||.+..+.+..+ .++..+++|||+|.+.++|..|++.|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~ 60 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELN 60 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcC
Confidence 799999999999999999999999999999988 489999999999999999999999764
No 10
>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=99.64 E-value=3.8e-16 Score=120.08 Aligned_cols=107 Identities=15% Similarity=0.248 Sum_probs=80.9
Q ss_pred eeeccccCCcccCCCCCcccCCCChHHHHHHhhccCCCCCCCCC-CCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCe
Q 033266 9 VFYAGSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGD-PKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRV 87 (123)
Q Consensus 9 ~~~~~~~~~~~~~~~~g~~i~~~~~~~~r~~~~~~~~~~~~~~~-~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i 87 (123)
+++..++..+++..+.|+.|....+.. .....+..+ ........++|||+|||+++++++|+++|+.||.|
T Consensus 160 e~A~~Ai~~lnG~~i~GR~IkV~rp~~--------~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I 231 (612)
T TIGR01645 160 EAAQLALEQMNGQMLGGRNIKVGRPSN--------MPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEI 231 (612)
T ss_pred HHHHHHHHhcCCeEEecceeeeccccc--------ccccccccccccccccccceEEeecCCCCCCHHHHHHHHhhcCCe
Confidence 345566677788888888876542110 000001101 11122345799999999999999999999999999
Q ss_pred eEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 88 KNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 88 ~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.++++.+++.+|+++|||||+|.+.++|..|++.||
T Consensus 232 ~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amN 267 (612)
T TIGR01645 232 VKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMN 267 (612)
T ss_pred eEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhC
Confidence 999999999889999999999999999999999886
No 11
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.63 E-value=6.9e-16 Score=96.32 Aligned_cols=65 Identities=29% Similarity=0.551 Sum_probs=61.4
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.+++||||||++.++|++|.++|+++|.|..|.+-.|+.+..+.|||||+|.+.++|..|++.+|
T Consensus 35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~Alryis 99 (153)
T KOG0121|consen 35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYIS 99 (153)
T ss_pred hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhc
Confidence 46799999999999999999999999999999999999899999999999999999999998764
No 12
>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=99.57 E-value=2.1e-14 Score=81.93 Aligned_cols=60 Identities=38% Similarity=0.749 Sum_probs=54.7
Q ss_pred EEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 63 VFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 63 l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
|||+|||+++++++|.++|..||.|..+.+..++. +..+++|||+|.+.++|..|++.++
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~ 60 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLN 60 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCC
Confidence 79999999999999999999999999999999985 9999999999999999999998764
No 13
>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=99.57 E-value=3.2e-14 Score=109.24 Aligned_cols=65 Identities=35% Similarity=0.600 Sum_probs=61.7
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
...++|||+|||++++|++|+++|++||.|..++|++| .+|+++|||||+|.+.++|+.||+.||
T Consensus 56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~ln 120 (578)
T TIGR01648 56 GRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLN 120 (578)
T ss_pred CCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcC
Confidence 44689999999999999999999999999999999999 699999999999999999999999886
No 14
>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=99.56 E-value=1.7e-14 Score=111.06 Aligned_cols=66 Identities=36% Similarity=0.639 Sum_probs=62.5
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
...++|||+|||+.+++++|+++|.+||.|.++.++.|+.+|+++|||||+|.+.++|+.|++.||
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~ln 170 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMN 170 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcC
Confidence 346799999999999999999999999999999999999999999999999999999999998875
No 15
>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=99.56 E-value=3.3e-15 Score=115.02 Aligned_cols=66 Identities=24% Similarity=0.458 Sum_probs=61.3
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.....+|||+||++++++++|+++|++||.|.++.++.+ .+|.++|||||+|.+.++|.+|+..||
T Consensus 282 ~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~ 347 (562)
T TIGR01628 282 KAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMH 347 (562)
T ss_pred ccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhc
Confidence 345678999999999999999999999999999999999 489999999999999999999998875
No 16
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.55 E-value=1.6e-14 Score=109.92 Aligned_cols=66 Identities=30% Similarity=0.634 Sum_probs=62.3
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+..++|||+|||+.+++++|+++|..||.|..+.++.++.+|.++|||||+|.+.+.|..|++.||
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~ 358 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALN 358 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcC
Confidence 446799999999999999999999999999999999998899999999999999999999999875
No 17
>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=99.55 E-value=1.6e-14 Score=108.60 Aligned_cols=64 Identities=30% Similarity=0.618 Sum_probs=61.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.++|||+|||+.+++++|+++|.+||.|..+.++.++.+|.++|||||+|.+.++|..|+..||
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~ 249 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMN 249 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcC
Confidence 6799999999999999999999999999999999999889999999999999999999999875
No 18
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.52 E-value=7.2e-14 Score=102.46 Aligned_cols=66 Identities=36% Similarity=0.597 Sum_probs=63.7
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+..+.||||.||.++.|++|.-+|.+.|.|-.++|++|+.+|.++|||||.|.+.+.|+.|++.||
T Consensus 81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~ln 146 (506)
T KOG0117|consen 81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELN 146 (506)
T ss_pred CCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhh
Confidence 558899999999999999999999999999999999999999999999999999999999999886
No 19
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.51 E-value=1.2e-14 Score=100.78 Aligned_cols=108 Identities=19% Similarity=0.295 Sum_probs=80.0
Q ss_pred ceeeeccccCCcccCCCCCcccCCCChHHHHHHhhccCCCCCCCC-CCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccC
Q 033266 7 NSVFYAGSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLG-DPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYG 85 (123)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~r~~~~~~~~~~~~~~-~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G 85 (123)
+..+|..+++.|++..+.+|.|+-.=..-.. ..+...+. .+. -.....++.++|||||++...+|+.|+..|++||
T Consensus 113 ~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp-~e~n~~~l--tfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG 189 (321)
T KOG0148|consen 113 NKEDAENAIQQMNGQWLGRRTIRTNWATRKP-SEMNGKPL--TFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFG 189 (321)
T ss_pred chHHHHHHHHHhCCeeeccceeeccccccCc-cccCCCCc--cHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCC
Confidence 3457788899999999999999533111101 11110000 000 0112356788999999999999999999999999
Q ss_pred CeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 86 RVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 86 ~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.|.+|++..+ +||+||.|.+.+.|..||..||
T Consensus 190 ~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mN 221 (321)
T KOG0148|consen 190 PIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMN 221 (321)
T ss_pred cceEEEEecc------cceEEEEecchhhHHHHHHHhc
Confidence 9999999988 4899999999999999998876
No 20
>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=99.50 E-value=1e-13 Score=106.89 Aligned_cols=62 Identities=31% Similarity=0.543 Sum_probs=59.9
Q ss_pred EEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.|||+|||++++|++|+++|.+||.|.+|++.+|..+++++|||||+|.+.++|..|++.||
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln 63 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMN 63 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhC
Confidence 69999999999999999999999999999999999889999999999999999999998875
No 21
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.48 E-value=1.4e-13 Score=100.66 Aligned_cols=66 Identities=35% Similarity=0.610 Sum_probs=62.2
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
+.+.-++|||.+|..++|.+|+++|++||.|.+|.|++|+.++.++|||||.|.++++|.+|+..|
T Consensus 31 d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Al 96 (510)
T KOG0144|consen 31 DGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINAL 96 (510)
T ss_pred CchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHh
Confidence 455669999999999999999999999999999999999999999999999999999999999876
No 22
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.47 E-value=3.3e-13 Score=94.09 Aligned_cols=58 Identities=17% Similarity=0.200 Sum_probs=53.7
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHH
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~ 120 (123)
.++|||+|||+.+++++|+++|+.||.|.++.+++++. ++|||||+|.+.+++..|+.
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All 61 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL 61 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH
Confidence 46899999999999999999999999999999998753 56899999999999999996
No 23
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.46 E-value=4.9e-13 Score=100.62 Aligned_cols=64 Identities=28% Similarity=0.410 Sum_probs=60.5
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
.+.++|||+|||+.+++++|+++|.+||.|..+.++.++.+|.++|||||+|.+.++|.+||..
T Consensus 87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l 150 (457)
T TIGR01622 87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALAL 150 (457)
T ss_pred cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHh
Confidence 3467999999999999999999999999999999999998999999999999999999999964
No 24
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.45 E-value=2.7e-13 Score=94.20 Aligned_cols=64 Identities=34% Similarity=0.667 Sum_probs=61.9
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
-..+||+-|..+++-+.|++.|.+||+|..+++++|.+|+++|||+||.|.+.++|+.||..||
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~Mn 125 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMN 125 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhC
Confidence 4579999999999999999999999999999999999999999999999999999999999997
No 25
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.44 E-value=3e-14 Score=98.64 Aligned_cols=100 Identities=19% Similarity=0.316 Sum_probs=78.7
Q ss_pred cceeeeccccCCcccCCCCCcccCCCChHHHHHHhhccCCCCCCCCCCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccC
Q 033266 6 INSVFYAGSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYG 85 (123)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G 85 (123)
|...|+.++++.+++..+..+.|...- --|..+.-....|||.+||..++..+|+.+|++||
T Consensus 91 v~p~DAe~AintlNGLrLQ~KTIKVSy------------------ARPSs~~Ik~aNLYvSGlPktMtqkelE~iFs~fG 152 (360)
T KOG0145|consen 91 VRPKDAEKAINTLNGLRLQNKTIKVSY------------------ARPSSDSIKDANLYVSGLPKTMTQKELEQIFSPFG 152 (360)
T ss_pred cChHHHHHHHhhhcceeeccceEEEEe------------------ccCChhhhcccceEEecCCccchHHHHHHHHHHhh
Confidence 345566677777777777766664321 11111222344899999999999999999999999
Q ss_pred CeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 86 RVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 86 ~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.|..-++..|..+|.++|.+||.|..+.+|+.||..||
T Consensus 153 rIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lN 190 (360)
T KOG0145|consen 153 RIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLN 190 (360)
T ss_pred hhhhhhhhhhcccceecceeEEEecchhHHHHHHHhcc
Confidence 99888888888899999999999999999999999886
No 26
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.43 E-value=2.6e-13 Score=89.38 Aligned_cols=68 Identities=31% Similarity=0.486 Sum_probs=63.7
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 56 IGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+.++..+||||||+..++++.|.++|-+.|.|..+.+++|+.+..++||||++|.++++|+-|++.||
T Consensus 5 ~rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln 72 (203)
T KOG0131|consen 5 ERNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILN 72 (203)
T ss_pred ccCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHH
Confidence 34566799999999999999999999999999999999999999999999999999999999998775
No 27
>smart00362 RRM_2 RNA recognition motif.
Probab=99.43 E-value=1.4e-12 Score=73.41 Aligned_cols=60 Identities=37% Similarity=0.739 Sum_probs=55.4
Q ss_pred EEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+|||+|||..+++++|+++|.+||.+..+.+..++ +.++|++||+|.+.+.|+.|++.++
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~ 60 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALN 60 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhC
Confidence 48999999999999999999999999999988875 7788999999999999999998764
No 28
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.43 E-value=8.8e-15 Score=96.35 Aligned_cols=70 Identities=27% Similarity=0.430 Sum_probs=60.1
Q ss_pred CCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 53 PKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 53 ~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
....-.++.-|||||||++.||.+|-..|++||+|..+.+++|+.||+++||||+.|.+..+...|+..|
T Consensus 28 WH~~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~ 97 (219)
T KOG0126|consen 28 WHQEYKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNL 97 (219)
T ss_pred hhhhcccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEecc
Confidence 3344556779999999999999999999999999999999999999999999999999877655554433
No 29
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.41 E-value=1.4e-12 Score=90.27 Aligned_cols=64 Identities=47% Similarity=0.727 Sum_probs=61.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.++|||+|||+.+++++|.++|.+||.+..+.+..++.+|.++|||||+|.+.+++..|++.++
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~ 178 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELN 178 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcC
Confidence 5899999999999999999999999999999999998899999999999999999999999875
No 30
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.40 E-value=1.8e-12 Score=89.33 Aligned_cols=60 Identities=18% Similarity=0.226 Sum_probs=54.1
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
...+|||+||++.+++++|+++|+.||.|.++.++++. ..+++|||+|.+++.+..|+..
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAllL 63 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAVLL 63 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHHhc
Confidence 35799999999999999999999999999999999874 4457999999999999999853
No 31
>PLN03213 repressor of silencing 3; Provisional
Probab=99.40 E-value=1.3e-12 Score=97.36 Aligned_cols=63 Identities=24% Similarity=0.513 Sum_probs=56.1
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCH--HHHHHHHHHcC
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETE--REMRRAYEVCG 123 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~--~~a~~al~~l~ 123 (123)
.....+||||||++.+++++|+..|..||.|..+.|++. +| +|||||+|.+. .++.+||..||
T Consensus 7 ~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRE--TG--RGFAFVEMssdddaEeeKAISaLN 71 (759)
T PLN03213 7 GGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRT--KG--RSFAYIDFSPSSTNSLTKLFSTYN 71 (759)
T ss_pred CCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecc--cC--CceEEEEecCCcHHHHHHHHHHhc
Confidence 344569999999999999999999999999999999954 67 89999999977 68999998876
No 32
>smart00360 RRM RNA recognition motif.
Probab=99.39 E-value=2.6e-12 Score=71.95 Aligned_cols=59 Identities=44% Similarity=0.771 Sum_probs=54.8
Q ss_pred EcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 65 VGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 65 v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
|+|||..+++++|+.+|.+||.+..+.+..++.++.++|+|||+|.+.++|..|++.++
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~ 59 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALN 59 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcC
Confidence 57999999999999999999999999999888778999999999999999999998764
No 33
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.37 E-value=4.1e-13 Score=98.28 Aligned_cols=64 Identities=31% Similarity=0.545 Sum_probs=61.2
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+.++||||.|+..++|.+++++|++||.|..|.|.++. .+.++||+||.|.+++-|..||+.||
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~n 186 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALN 186 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhc
Confidence 46799999999999999999999999999999999997 89999999999999999999999886
No 34
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.36 E-value=3.4e-12 Score=95.85 Aligned_cols=64 Identities=38% Similarity=0.531 Sum_probs=61.1
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
....+|||.|||++++++.|...|++||.|.++.++.++.|+.++|.|||.|.+...++.||..
T Consensus 290 ~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~ 353 (678)
T KOG0127|consen 290 TEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEA 353 (678)
T ss_pred cccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHh
Confidence 4468999999999999999999999999999999999999999999999999999999999975
No 35
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.35 E-value=2.6e-12 Score=84.25 Aligned_cols=60 Identities=32% Similarity=0.584 Sum_probs=54.0
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
-.++||||||+..+++.+|+..|..||.+..+-|-.++ -|||||+|++..+|..|+..|+
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LD 68 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLD 68 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcC
Confidence 36799999999999999999999999999988776654 6899999999999999998875
No 36
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.33 E-value=3.8e-12 Score=88.32 Aligned_cols=67 Identities=28% Similarity=0.539 Sum_probs=62.7
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
++..+.|.|.-||..+++++++.+|...|+|.+|++++|+.+|++.||+||.|..+.+|++|+..||
T Consensus 38 ~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlN 104 (360)
T KOG0145|consen 38 DESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLN 104 (360)
T ss_pred CcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhc
Confidence 3445689999999999999999999999999999999999999999999999999999999998776
No 37
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.32 E-value=1.3e-11 Score=74.63 Aligned_cols=65 Identities=20% Similarity=0.395 Sum_probs=57.3
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 56 IGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+....+-|||.|||+.++.++..++|.+||.|..+++-..+ ..+|-|||.|++..+|..|+++|+
T Consensus 14 ppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k---~TrGTAFVVYedi~dAk~A~dhls 78 (124)
T KOG0114|consen 14 PPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK---ETRGTAFVVYEDIFDAKKACDHLS 78 (124)
T ss_pred ChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCcc---CcCceEEEEehHhhhHHHHHHHhc
Confidence 34456789999999999999999999999999999986544 458999999999999999999874
No 38
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=99.32 E-value=2.1e-11 Score=68.86 Aligned_cols=61 Identities=43% Similarity=0.755 Sum_probs=55.4
Q ss_pred EEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+|+|+|||+.+++++|+.+|..+|.+..+.+..++ .+.+++++||+|.+.++|..|++.++
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~-~~~~~~~~~v~f~s~~~a~~a~~~~~ 61 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDK-DTKSKGFAFVEFEDEEDAEKALEALN 61 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCC-CCCcceEEEEEECCHHHHHHHHHHhC
Confidence 48999999999999999999999999999998876 44778999999999999999998764
No 39
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.32 E-value=4.7e-12 Score=94.40 Aligned_cols=63 Identities=35% Similarity=0.513 Sum_probs=61.5
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+.+||||+|+++++++|..+|+..|.|..++++.|+.+|+++||+|++|.+.+.+..|++.||
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lN 81 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLN 81 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcC
Confidence 789999999999999999999999999999999999999999999999999999999999886
No 40
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.31 E-value=1.1e-12 Score=88.98 Aligned_cols=67 Identities=25% Similarity=0.497 Sum_probs=63.2
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
..+.++||||+|..+++|..|...|-+||.|..+.++.|..+++++||+||+|...++|.+||..||
T Consensus 7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMn 73 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMN 73 (298)
T ss_pred cccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCc
Confidence 3456799999999999999999999999999999999999999999999999999999999998876
No 41
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.31 E-value=2.4e-12 Score=94.68 Aligned_cols=90 Identities=23% Similarity=0.441 Sum_probs=73.6
Q ss_pred eeeeccccCCcccCCCCCcccCCCChHHHHHHhhccCCCCCCCCCCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCe
Q 033266 8 SVFYAGSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRV 87 (123)
Q Consensus 8 ~~~~~~~~~~~~~~~~~g~~i~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i 87 (123)
..++.+|++.++...+.|+.|+.. +.. .++. .+||.||+++++...|.++|+.||.|
T Consensus 47 ~~da~~A~~~~n~~~~~~~~~rim--------~s~--------rd~~-------~~~i~nl~~~~~~~~~~d~f~~~g~i 103 (369)
T KOG0123|consen 47 PADAERALDTMNFDVLKGKPIRIM--------WSQ--------RDPS-------LVFIKNLDESIDNKSLYDTFSEFGNI 103 (369)
T ss_pred HHHHHHHHHHcCCcccCCcEEEee--------hhc--------cCCc-------eeeecCCCcccCcHHHHHHHHhhcCe
Confidence 456677777777777888887433 221 1111 29999999999999999999999999
Q ss_pred eEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 88 KNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 88 ~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.+|++..+. .| ++|| ||+|.++++|.+|++.+|
T Consensus 104 lS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~n 136 (369)
T KOG0123|consen 104 LSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLN 136 (369)
T ss_pred eEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhc
Confidence 999999996 66 8999 999999999999999886
No 42
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.30 E-value=1.3e-11 Score=87.77 Aligned_cols=65 Identities=22% Similarity=0.382 Sum_probs=58.8
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.+..++|+|.|||+...|-||+.+|.+||.|..|.|+.+ ..-+|||+||+|++.++|++|-++|+
T Consensus 93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfN--ERGSKGFGFVTmen~~dadRARa~LH 157 (376)
T KOG0125|consen 93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFN--ERGSKGFGFVTMENPADADRARAELH 157 (376)
T ss_pred CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEec--cCCCCccceEEecChhhHHHHHHHhh
Confidence 445679999999999999999999999999999999988 45579999999999999999988774
No 43
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.30 E-value=2.6e-12 Score=92.81 Aligned_cols=64 Identities=38% Similarity=0.674 Sum_probs=62.2
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
-|++|||.+.++..|+.|+..|.+||.|+++.+..|+.|++++||+||+|+-++.|+.|++.||
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMN 176 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMN 176 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhc
Confidence 4899999999999999999999999999999999999999999999999999999999999987
No 44
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.30 E-value=1.2e-11 Score=78.24 Aligned_cols=64 Identities=33% Similarity=0.549 Sum_probs=61.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.-.|||.++...++|++|...|.-||+|+.+.+-.|+.||..+||++|+|.+...|++|+..||
T Consensus 72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~N 135 (170)
T KOG0130|consen 72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALN 135 (170)
T ss_pred eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhcc
Confidence 4589999999999999999999999999999999999999999999999999999999999887
No 45
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.28 E-value=1.5e-11 Score=82.73 Aligned_cols=67 Identities=34% Similarity=0.513 Sum_probs=62.5
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 56 IGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
+-+....|-|.||.+-++.++|+.+|++||.|-.|-|++|+.|+.++|||||.|....+|+.|++.|
T Consensus 9 dv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~dam 75 (256)
T KOG4207|consen 9 DVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAM 75 (256)
T ss_pred CcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhh
Confidence 3455678999999999999999999999999999999999999999999999999999999999876
No 46
>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=99.25 E-value=3.8e-11 Score=91.30 Aligned_cols=61 Identities=18% Similarity=0.306 Sum_probs=56.0
Q ss_pred CCCcEEEEcCCCC-CCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 58 DPHCTVFVGRLSH-FTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 58 ~~~~~l~v~~l~~-~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.++++|||+|||+ .+++++|+.+|+.||.|.++.+++++ +|+|||+|.+.++|..|++.||
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~ln 334 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLN 334 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhC
Confidence 4678999999998 69999999999999999999998874 6899999999999999999876
No 47
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.25 E-value=2.6e-11 Score=92.19 Aligned_cols=58 Identities=24% Similarity=0.364 Sum_probs=52.9
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
+++.|||+|||+++++++|+++|++||.|..+.++.+ ++||||+|.+.++|+.|+..+
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~ 58 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFA 58 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHh
Confidence 3578999999999999999999999999999998864 479999999999999999854
No 48
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.25 E-value=1.5e-11 Score=92.22 Aligned_cols=103 Identities=21% Similarity=0.404 Sum_probs=79.7
Q ss_pred CcccCCCCCcccCCCChHHHHHHhhccCCCCCCCCCCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecC
Q 033266 17 PIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDI 96 (123)
Q Consensus 17 ~~~~~~~~g~~i~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~ 96 (123)
.+.|+.+-|-+|-.+.+...+...++.... -.......+...||||||.+.+++++|+.+|.+||.|..+.+++|.
T Consensus 239 aLsGqrllg~pv~vq~sEaeknr~a~~s~a----~~~k~~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~ 314 (549)
T KOG0147|consen 239 ALSGQRLLGVPVIVQLSEAEKNRAANASPA----LQGKGFTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDS 314 (549)
T ss_pred hhcCCcccCceeEecccHHHHHHHHhcccc----ccccccccchhhhhhcccccCchHHHHhhhccCcccceeeeecccc
Confidence 445555667777666665555553332222 2222233444459999999999999999999999999999999998
Q ss_pred CCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 97 VTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 97 ~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.+|.++||+|++|.+.+.|..|++.||
T Consensus 315 ~tG~skgfGfi~f~~~~~ar~a~e~ln 341 (549)
T KOG0147|consen 315 ETGRSKGFGFITFVNKEDARKALEQLN 341 (549)
T ss_pred ccccccCcceEEEecHHHHHHHHHHhc
Confidence 899999999999999999999999887
No 49
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.19 E-value=3.1e-11 Score=84.15 Aligned_cols=66 Identities=29% Similarity=0.535 Sum_probs=61.6
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 56 IGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
.+.+.++||||.|...-.|++++.+|..||.|.+|.+.+.+ .|.+|||+||.|.+..+|+.||..|
T Consensus 15 rg~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aL 80 (371)
T KOG0146|consen 15 RGGDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINAL 80 (371)
T ss_pred CCccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHh
Confidence 34567899999999999999999999999999999999987 8999999999999999999999876
No 50
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.19 E-value=5.1e-11 Score=83.05 Aligned_cols=69 Identities=17% Similarity=0.366 Sum_probs=65.7
Q ss_pred CCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 55 AIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 55 ~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
..++++|+|||-.||.+..+.+|..+|..||.|.+.++..|+.|+.+|+|+||.|.+..+++.||..||
T Consensus 280 reGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMN 348 (371)
T KOG0146|consen 280 REGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMN 348 (371)
T ss_pred hcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhc
Confidence 346789999999999999999999999999999999999999999999999999999999999999987
No 51
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.19 E-value=3.2e-11 Score=90.73 Aligned_cols=64 Identities=22% Similarity=0.503 Sum_probs=59.0
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+.-+|+|.||||.+.+.+|+.+|+.||.+..+.|++.+ .|+-+|||||.|....+|..|++.+|
T Consensus 116 ~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~-dgklcGFaFV~fk~~~dA~~Al~~~N 179 (678)
T KOG0127|consen 116 PKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKK-DGKLCGFAFVQFKEKKDAEKALEFFN 179 (678)
T ss_pred ccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCC-CCCccceEEEEEeeHHHHHHHHHhcc
Confidence 35689999999999999999999999999999999887 66777999999999999999999876
No 52
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.17 E-value=8.5e-12 Score=90.15 Aligned_cols=103 Identities=17% Similarity=0.282 Sum_probs=77.6
Q ss_pred cccCCcccCCCCCcccCCCChHHHHHHhhccCCCCCCCCCCC-CCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEE
Q 033266 13 GSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPK-AIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLR 91 (123)
Q Consensus 13 ~~~~~~~~~~~~g~~i~~~~~~~~r~~~~~~~~~~~~~~~~~-~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~ 91 (123)
-+.+.|++.-+.||.|...++ ++.+...|..+.- ++....++|||..+.++.+|++|+..|+-||+|.+|.
T Consensus 170 LAlEqMNg~mlGGRNiKVgrP--------sNmpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~ 241 (544)
T KOG0124|consen 170 LALEQMNGQMLGGRNIKVGRP--------SNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQ 241 (544)
T ss_pred HHHHHhccccccCccccccCC--------CCCcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEE
Confidence 345677777788888754432 1111111211111 1122356899999999999999999999999999999
Q ss_pred EeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 92 LVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 92 ~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+-+++..+.++||+|++|.+..+...|+..||
T Consensus 242 LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMN 273 (544)
T KOG0124|consen 242 LARAPTGRGHKGYGFIEYNNLQSQSEAIASMN 273 (544)
T ss_pred eeccCCCCCccceeeEEeccccchHHHhhhcc
Confidence 99999778999999999999999999998876
No 53
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=6.9e-11 Score=85.12 Aligned_cols=66 Identities=30% Similarity=0.565 Sum_probs=62.4
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
.++...|||..|.+.+++++|.-+|+.||.|..|.+++|..||.+..||||+|.+.+++++|.-+|
T Consensus 236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKM 301 (479)
T KOG0415|consen 236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKM 301 (479)
T ss_pred CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhh
Confidence 456779999999999999999999999999999999999999999999999999999999998766
No 54
>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=99.14 E-value=1.9e-10 Score=88.71 Aligned_cols=56 Identities=27% Similarity=0.544 Sum_probs=51.5
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhcc--CCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKY--GRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~--G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.++|||+||++++++++|+++|.+| |.|.++.+++ +||||+|.+.++|.+|++.||
T Consensus 233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r--------gfAFVeF~s~e~A~kAi~~ln 290 (578)
T TIGR01648 233 VKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR--------DYAFVHFEDREDAVKAMDELN 290 (578)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec--------CeEEEEeCCHHHHHHHHHHhC
Confidence 4689999999999999999999999 9999987653 599999999999999999876
No 55
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.12 E-value=2.4e-11 Score=80.20 Aligned_cols=66 Identities=26% Similarity=0.446 Sum_probs=59.8
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeE-EEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKN-LRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~-~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+.+.++||+||.++++|..|...|+.||.+.. ..+++++.+|.++||+|+.|.+.+.+.+|++.||
T Consensus 94 ~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~n 160 (203)
T KOG0131|consen 94 DVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMN 160 (203)
T ss_pred cccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhc
Confidence 33468999999999999999999999999765 5889999899999999999999999999999876
No 56
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.10 E-value=1.5e-10 Score=76.80 Aligned_cols=60 Identities=27% Similarity=0.470 Sum_probs=51.7
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHH
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~ 120 (123)
...++|||+|||.++.+.+|+.+|.+||.|..|.|...+ .+-.||||+|++..+|+.||.
T Consensus 4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiy 63 (241)
T KOG0105|consen 4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIY 63 (241)
T ss_pred cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhh
Confidence 346799999999999999999999999999999874432 345799999999999999885
No 57
>smart00361 RRM_1 RNA recognition motif.
Probab=99.09 E-value=5.3e-10 Score=63.89 Aligned_cols=50 Identities=20% Similarity=0.420 Sum_probs=43.6
Q ss_pred HHHHHHHhh----ccCCeeEEE-EeecCCC--CCcccEEEEEecCHHHHHHHHHHcC
Q 033266 74 EDTLRKAMS----KYGRVKNLR-LVRDIVT--GASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 74 e~~l~~~f~----~~G~i~~~~-~~~~~~~--g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+++|+++|. +||.|.++. ++.++.+ +.++||+||.|.+.++|..|++.||
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~ 58 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLN 58 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhC
Confidence 567888888 999999985 6666656 8999999999999999999999876
No 58
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.08 E-value=4.1e-10 Score=75.65 Aligned_cols=65 Identities=34% Similarity=0.516 Sum_probs=59.4
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhcc-CCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKY-GRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~-G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
...-+|+..+|....+..+..+|.++ |.+..+++.+++.||.++|||||+|.+.+.|.-|-+.||
T Consensus 48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMN 113 (214)
T KOG4208|consen 48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMN 113 (214)
T ss_pred CccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhh
Confidence 34578999999999999999999998 678888998999999999999999999999999998886
No 59
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.06 E-value=5.4e-10 Score=82.48 Aligned_cols=63 Identities=25% Similarity=0.399 Sum_probs=59.0
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhh-ccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMS-KYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~-~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.+.+||.|+|++..|.+|+++|. +-|+|.+|.+..|. +|+++||+.|+|++++.+++|++.||
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~ln 107 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLN 107 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhh
Confidence 45699999999999999999997 57999999999996 99999999999999999999999886
No 60
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.05 E-value=3.6e-10 Score=83.34 Aligned_cols=56 Identities=29% Similarity=0.539 Sum_probs=52.1
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
-+.|||.||+.++||+.|+++|.+||.|.+|..++| ||||.|.++++|.+|++.||
T Consensus 259 VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~n 314 (506)
T KOG0117|consen 259 VKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETN 314 (506)
T ss_pred eeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhc
Confidence 357999999999999999999999999999987766 99999999999999999886
No 61
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.03 E-value=4e-10 Score=81.03 Aligned_cols=90 Identities=20% Similarity=0.407 Sum_probs=69.5
Q ss_pred cccCCCCCcccCCCChHHHHHHhhccCCCCCCCCCCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCC
Q 033266 18 IQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIV 97 (123)
Q Consensus 18 ~~~~~~~g~~i~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~ 97 (123)
...+.++|+.|.+++.. .+..... ........+|||++||.++++++++.+|.+||.|..+.++.|..
T Consensus 67 ~~~h~~dgr~ve~k~av-----~r~~~~~-------~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~ 134 (311)
T KOG4205|consen 67 ARTHKLDGRSVEPKRAV-----SREDQTK-------VGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKT 134 (311)
T ss_pred ccccccCCccccceecc-----Ccccccc-------cccccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeeccc
Confidence 33456889998877422 2211110 00112566999999999999999999999999999999999999
Q ss_pred CCCcccEEEEEecCHHHHHHHH
Q 033266 98 TGASRGYAFVEYETEREMRRAY 119 (123)
Q Consensus 98 ~g~~~g~~fv~f~~~~~a~~al 119 (123)
+.+++||+||.|.+++++..++
T Consensus 135 ~~~~rgFgfv~~~~e~sVdkv~ 156 (311)
T KOG4205|consen 135 TSRPRGFGFVTFDSEDSVDKVT 156 (311)
T ss_pred ccccccceeeEeccccccceec
Confidence 9999999999999998877655
No 62
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.03 E-value=2.6e-10 Score=81.99 Aligned_cols=61 Identities=34% Similarity=0.602 Sum_probs=56.4
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHH
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al 119 (123)
+.+++||++|+|+++++.|++.|.+||+|..+.+++|+.+++++||+||+|.+.+...+++
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl 65 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVL 65 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheee
Confidence 6679999999999999999999999999999999999999999999999999777666554
No 63
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.00 E-value=1.1e-10 Score=89.88 Aligned_cols=105 Identities=24% Similarity=0.444 Sum_probs=77.0
Q ss_pred eeccccCCcccCCCCCcccCCCChHHHHHHhhccCCCCCCCCCCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeE
Q 033266 10 FYAGSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKN 89 (123)
Q Consensus 10 ~~~~~~~~~~~~~~~g~~i~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~ 89 (123)
+|..++..+++..++|..+.-.-+...+ .... +.........++|+|.|||+..+-.+++.+|..||++..
T Consensus 572 ~A~~a~k~lqgtvldGH~l~lk~S~~k~---~~~~------gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlks 642 (725)
T KOG0110|consen 572 SAQAALKALQGTVLDGHKLELKISENKP---ASTV------GKKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKS 642 (725)
T ss_pred HHHHHHHHhcCceecCceEEEEeccCcc---cccc------ccccccccccceeeeeccchHHHHHHHHHHHhcccceee
Confidence 4555667788888888877533221000 0000 000001122569999999999999999999999999999
Q ss_pred EEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 90 LRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 90 ~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
++|+.....+.++|||||+|-+..+|..|+.+|.
T Consensus 643 vRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~ 676 (725)
T KOG0110|consen 643 VRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALG 676 (725)
T ss_pred eccchhhcchhhccceeeeccCcHHHHHHHHhhc
Confidence 9999886678899999999999999999998763
No 64
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.98 E-value=2.2e-09 Score=81.84 Aligned_cols=58 Identities=17% Similarity=0.280 Sum_probs=46.5
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccC------------CeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHH
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYG------------RVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G------------~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~ 120 (123)
....++|||||||+.+++++|+++|.+++ .|..+. .+..+|||||+|.+.++|..||.
T Consensus 172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~------~~~~kg~afVeF~~~e~A~~Al~ 241 (509)
T TIGR01642 172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVN------INKEKNFAFLEFRTVEEATFAMA 241 (509)
T ss_pred CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEE------ECCCCCEEEEEeCCHHHHhhhhc
Confidence 34568999999999999999999998751 223332 34457999999999999999995
No 65
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.97 E-value=5.8e-10 Score=78.49 Aligned_cols=55 Identities=27% Similarity=0.518 Sum_probs=51.3
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.+|||||||..+++.+|+.+|.+||.|.+|.|+++ |+||..++...+..||+.|+
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLh 57 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLH 57 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcc
Confidence 37999999999999999999999999999999976 99999999999999998764
No 66
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.95 E-value=6.3e-09 Score=74.75 Aligned_cols=90 Identities=21% Similarity=0.360 Sum_probs=65.0
Q ss_pred CCCCcccCCCChHHHHHHhhccCCCCCCCCCCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCc
Q 033266 22 SIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGAS 101 (123)
Q Consensus 22 ~~~g~~i~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~ 101 (123)
.|..++-..++|...+....+... +.-.++ .+..-.+|||++|...++|.+|+.+|.+||+|.++++...
T Consensus 194 ni~dryyg~ndPva~kil~ra~~~---~~lepP-eD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~------ 263 (377)
T KOG0153|consen 194 NIKDRYYGLNDPVALKILNRAGSA---GTLEPP-EDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR------ 263 (377)
T ss_pred ccccccccccChHHHHHHhhcccc---cccCCC-cccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc------
Confidence 344455555666665554443211 111221 2333568999999999999999999999999999988765
Q ss_pred ccEEEEEecCHHHHHHHHHH
Q 033266 102 RGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 102 ~g~~fv~f~~~~~a~~al~~ 121 (123)
+++|||+|.++..|+.|.+.
T Consensus 264 ~~CAFv~ftTR~aAE~Aae~ 283 (377)
T KOG0153|consen 264 KGCAFVTFTTREAAEKAAEK 283 (377)
T ss_pred cccceeeehhhHHHHHHHHh
Confidence 36999999999999998865
No 67
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.94 E-value=3.1e-09 Score=73.60 Aligned_cols=69 Identities=26% Similarity=0.512 Sum_probs=64.3
Q ss_pred CCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 55 AIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 55 ~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
++..+..+||+|.|.-+++++.|...|.+|-.-...++++++.+|+++||+||.|.+..++..|++.||
T Consensus 185 ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~ 253 (290)
T KOG0226|consen 185 EWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMN 253 (290)
T ss_pred cCccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhc
Confidence 456778899999999999999999999999888888999999999999999999999999999999886
No 68
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.90 E-value=2.9e-09 Score=78.53 Aligned_cols=66 Identities=26% Similarity=0.521 Sum_probs=61.0
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
..+...|||.|++..++.+.|+..|..+|.|.+++++.+. .|.++||+||+|.+.++|..|+..+|
T Consensus 267 ~~~~~nl~vknld~~~~~e~L~~~f~~~GeI~s~kv~~~~-~g~skG~gfV~fs~~eeA~~A~~~~n 332 (369)
T KOG0123|consen 267 SLQGANLYVKNLDETLSDEKLRKIFSSFGEITSAKVMVDE-NGKSKGFGFVEFSSPEEAKKAMTEMN 332 (369)
T ss_pred cccccccccccCccccchhHHHHHHhcccceeeEEEEecc-CCCccceEEEEcCCHHHHHHHHHhhC
Confidence 4456689999999999999999999999999999999986 89999999999999999999998775
No 69
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.81 E-value=3.3e-09 Score=74.73 Aligned_cols=85 Identities=22% Similarity=0.402 Sum_probs=67.9
Q ss_pred eccccCCcccCCCCCcccCCCChHHHHHHhhccCCCCCCCCCCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEE
Q 033266 11 YAGSYHPIQAGSIDGTDIHPHDNAICRALLCSSAGLYDPLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNL 90 (123)
Q Consensus 11 ~~~~~~~~~~~~~~g~~i~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~ 90 (123)
+.++++.+.+-.++|..|...- .+.....+++++||||.+.++..+|+..|.+||.+.++
T Consensus 49 aedairNLhgYtLhg~nInVea--------------------SksKsk~stkl~vgNis~tctn~ElRa~fe~ygpviec 108 (346)
T KOG0109|consen 49 AEDAIRNLHGYTLHGVNINVEA--------------------SKSKSKASTKLHVGNISPTCTNQELRAKFEKYGPVIEC 108 (346)
T ss_pred cHHHHhhcccceecceEEEEEe--------------------ccccCCCccccccCCCCccccCHHHhhhhcccCCceee
Confidence 3445566777778888774331 11123456799999999999999999999999999999
Q ss_pred EEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 91 RLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 91 ~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.++++ |+||.|.-.++|..|++.|+
T Consensus 109 divkd--------y~fvh~d~~eda~~air~l~ 133 (346)
T KOG0109|consen 109 DIVKD--------YAFVHFDRAEDAVEAIRGLD 133 (346)
T ss_pred eeecc--------eeEEEEeeccchHHHHhccc
Confidence 99876 99999999999999998764
No 70
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=98.78 E-value=3.1e-08 Score=53.91 Aligned_cols=42 Identities=36% Similarity=0.691 Sum_probs=36.3
Q ss_pred HHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 77 LRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 77 l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
|.++|++||.|..+.+..+. ++++||+|.+.++|..|++.||
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~ 42 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLN 42 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHT
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhC
Confidence 67899999999999887653 5899999999999999999875
No 71
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.77 E-value=1.7e-08 Score=78.90 Aligned_cols=58 Identities=21% Similarity=0.468 Sum_probs=53.9
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+++||||+|+..++|.+|..+|+.||+|.+|.++.. ++||||....+.+|.+|+.+|+
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~ 478 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLS 478 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHh
Confidence 689999999999999999999999999999988765 5899999999999999999874
No 72
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.76 E-value=4.6e-08 Score=66.64 Aligned_cols=61 Identities=21% Similarity=0.438 Sum_probs=53.9
Q ss_pred CcEEEEcCCCCCCcHHHHHH----HhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRK----AMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~----~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
..+|||.||+..+..++|++ +|++||.|..|...+ +.+.+|-|||.|.+.+.|-.|++.|+
T Consensus 9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~ 73 (221)
T KOG4206|consen 9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQ 73 (221)
T ss_pred CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhc
Confidence 34999999999999988887 999999999887654 67889999999999999999998874
No 73
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.76 E-value=3e-08 Score=69.07 Aligned_cols=63 Identities=22% Similarity=0.305 Sum_probs=59.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
..+|+|.|||+.+.+++|+++|..||.+..+.+.+++ .|.+.|.|-|.|...++|..|++.+|
T Consensus 83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~ 145 (243)
T KOG0533|consen 83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYN 145 (243)
T ss_pred cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhc
Confidence 4789999999999999999999999999999999998 99999999999999999999998765
No 74
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.68 E-value=4.6e-08 Score=72.95 Aligned_cols=63 Identities=21% Similarity=0.345 Sum_probs=52.5
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
....|||.|||.++++++|+++|.+||.|+...|....-.++..+|+||+|.+...++.+|++
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A 349 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA 349 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc
Confidence 345699999999999999999999999999887755432344449999999999999998864
No 75
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.65 E-value=4.6e-08 Score=67.97 Aligned_cols=65 Identities=18% Similarity=0.413 Sum_probs=60.3
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHH
Q 033266 56 IGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~ 120 (123)
...+...+||+|+.+.++.+++...|..||.+..+.++.++..|.++||+|++|.+.+..+.++.
T Consensus 97 ~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~ 161 (231)
T KOG4209|consen 97 KEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK 161 (231)
T ss_pred hccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh
Confidence 34556799999999999999999999999999999999999899999999999999999999987
No 76
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.63 E-value=1.2e-07 Score=72.44 Aligned_cols=65 Identities=28% Similarity=0.399 Sum_probs=59.5
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
.-.++|||.+|...+...+|+.+|++||.|.-..++.+-.+--.++|+||++.+.++|.+||..|
T Consensus 403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hL 467 (940)
T KOG4661|consen 403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHL 467 (940)
T ss_pred ccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHh
Confidence 34689999999999999999999999999999999998767677899999999999999999877
No 77
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.61 E-value=1.1e-07 Score=71.95 Aligned_cols=68 Identities=29% Similarity=0.445 Sum_probs=57.6
Q ss_pred CCCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 51 GDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 51 ~~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.+|.+..-+.++|+|-|||..+++++|..+|+.||+|+.++. +-..+|.+||+|.+..+|++|++.||
T Consensus 66 ~np~~~~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~-----t~~~~~~~~v~FyDvR~A~~Alk~l~ 133 (549)
T KOG4660|consen 66 DNPSEKDMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRE-----TPNKRGIVFVEFYDVRDAERALKALN 133 (549)
T ss_pred CCCCcccCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhc-----ccccCceEEEEEeehHhHHHHHHHHH
Confidence 344444556789999999999999999999999999999665 33457899999999999999999875
No 78
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.59 E-value=4.2e-07 Score=62.27 Aligned_cols=68 Identities=12% Similarity=0.087 Sum_probs=52.4
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEee-cCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 56 IGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVR-DIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~-~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
..+.-++|||.+||.++...+|+.+|..|-.-..+.+.. ++.....+-++|+.|.+..+|.+|+..||
T Consensus 30 ~~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLN 98 (284)
T KOG1457|consen 30 EPGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALN 98 (284)
T ss_pred cccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhc
Confidence 344568999999999999999999999985544444432 22222345799999999999999999886
No 79
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.56 E-value=4e-07 Score=68.19 Aligned_cols=62 Identities=26% Similarity=0.456 Sum_probs=53.2
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
.....-|-+.+|||++|+++|.+||+-++ |..+.+.+. +|++.|-|||+|.++++++.|+++
T Consensus 7 ~~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~--~Gr~sGeA~Ve~~seedv~~Alkk 68 (510)
T KOG4211|consen 7 GSTAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRR--NGRPSGEAYVEFTSEEDVEKALKK 68 (510)
T ss_pred CCcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEecc--CCCcCcceEEEeechHHHHHHHHh
Confidence 34455788889999999999999999985 777666654 899999999999999999999975
No 80
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.55 E-value=1.8e-07 Score=72.62 Aligned_cols=63 Identities=24% Similarity=0.365 Sum_probs=54.7
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCC---CcccEEEEEecCHHHHHHHHHHcC
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTG---ASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g---~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
++|||.||+++++.+++...|...|.|..+.|...+... .+.||+||+|.+.++|+.|++.|+
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lq 581 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQ 581 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhc
Confidence 449999999999999999999999999999887765221 245999999999999999999875
No 81
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.54 E-value=4.8e-08 Score=66.55 Aligned_cols=64 Identities=17% Similarity=0.231 Sum_probs=57.9
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+..++|||+|+...++|+-|.++|-+.|.|..+.|+.++ .+..+ ||||.|.++.+..-|++.||
T Consensus 7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~n 70 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLEN 70 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcc
Confidence 345799999999999999999999999999999998886 67777 99999999999999998876
No 82
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.48 E-value=1.1e-06 Score=63.46 Aligned_cols=64 Identities=25% Similarity=0.355 Sum_probs=56.8
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeE--------EEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKN--------LRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~--------~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
..+.|||.|||.++|-+++.++|++||-|.+ |.|.++. .|+.+|=+.+.|-..+++..|+..|+
T Consensus 133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilD 204 (382)
T KOG1548|consen 133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILD 204 (382)
T ss_pred cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhC
Confidence 3567999999999999999999999997754 7788886 69999999999999999999998774
No 83
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.48 E-value=3e-07 Score=68.26 Aligned_cols=61 Identities=20% Similarity=0.370 Sum_probs=54.4
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
...++|||.|||+++||..|++.|..||.+.++.++. .|+++| .|.|.++++|+.|+..||
T Consensus 534 rKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime---~GkskG--VVrF~s~edAEra~a~Mn 594 (608)
T KOG4212|consen 534 RKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME---NGKSKG--VVRFFSPEDAERACALMN 594 (608)
T ss_pred ccccEEEEecCCccccHHHHHHHHHhccceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhc
Confidence 4567899999999999999999999999999998843 577777 899999999999999875
No 84
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.38 E-value=4.8e-07 Score=68.64 Aligned_cols=68 Identities=32% Similarity=0.592 Sum_probs=61.7
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 56 IGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
......++||++||...++.++.+++..||.+....++.+..+|.++||||.+|.+......|+..||
T Consensus 285 ~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLn 352 (500)
T KOG0120|consen 285 VPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLN 352 (500)
T ss_pred cccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccc
Confidence 34556799999999999999999999999999999999999899999999999999988888887765
No 85
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=98.29 E-value=8.8e-06 Score=49.28 Aligned_cols=62 Identities=21% Similarity=0.378 Sum_probs=53.0
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhc--cCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSK--YGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~--~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
++|.+.|+|-..+.+.|.+++.. .|....+-++.|..++.+.|||||.|.+.+.+..-.+..
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f 65 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAF 65 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHH
Confidence 58999999999999999988865 366677888889888999999999999999988766543
No 86
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.27 E-value=2.8e-06 Score=66.37 Aligned_cols=66 Identities=17% Similarity=0.365 Sum_probs=57.2
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCC---CCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIV---TGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~---~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+..+.+||+||++.+++++|-..|..||.|..++++..+. ....+.|+||.|-++.++++|+..|+
T Consensus 172 P~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lq 240 (877)
T KOG0151|consen 172 PQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQ 240 (877)
T ss_pred CcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhc
Confidence 3467899999999999999999999999999998876542 24567799999999999999999875
No 87
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.22 E-value=1.7e-06 Score=62.72 Aligned_cols=65 Identities=22% Similarity=0.512 Sum_probs=54.6
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccC--CeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYG--RVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G--~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
.....+|||||-|++|+++|.+.+..-| .+..+++..++.+|++||||++...+.....+.++.|
T Consensus 78 Grk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiL 144 (498)
T KOG4849|consen 78 GRKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEIL 144 (498)
T ss_pred CceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhc
Confidence 3456899999999999999988887665 4667788888889999999999999988888777654
No 88
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.14 E-value=1.7e-05 Score=59.70 Aligned_cols=63 Identities=21% Similarity=0.240 Sum_probs=51.6
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCee-EEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVK-NLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~-~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
.....|-+.+||+.|++++|.+||+..--+. -+.++.++ .+++.|-|||.|.+.+.++.||..
T Consensus 101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~r 164 (510)
T KOG4211|consen 101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGR 164 (510)
T ss_pred CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHH
Confidence 3455788999999999999999998753333 35567775 788999999999999999999964
No 89
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.09 E-value=2.4e-06 Score=58.54 Aligned_cols=55 Identities=25% Similarity=0.516 Sum_probs=47.8
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
..+|||+||+.+.+.++..+|..||.+..+.+. .||+||+|.+..+|..|+..+|
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~ 56 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLD 56 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhc
Confidence 369999999999999999999999999988763 3688999999999998876543
No 90
>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=98.07 E-value=1.4e-05 Score=49.10 Aligned_cols=56 Identities=23% Similarity=0.417 Sum_probs=37.0
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
+.|.+.+++..++.++|+..|.+||.|.+|.+.+.- ..|||.|.+.+.|+.++..+
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~ 57 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKL 57 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHH
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHH
Confidence 467888999999999999999999999999886542 38999999999999998764
No 91
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=98.06 E-value=1.7e-05 Score=60.02 Aligned_cols=65 Identities=25% Similarity=0.318 Sum_probs=59.9
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhh-ccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMS-KYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~-~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
-++.++||||+||.-.+.++|..+|. -||.|..+-|-.|+.-+-++|-+-|.|.+..+..+||..
T Consensus 367 lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 367 IDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred cCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 46788999999999999999999998 599999999999987889999999999999999999864
No 92
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=98.05 E-value=1.3e-05 Score=60.51 Aligned_cols=62 Identities=26% Similarity=0.532 Sum_probs=49.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCC---CCccc---EEEEEecCHHHHHHHHHHc
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVT---GASRG---YAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~---g~~~g---~~fv~f~~~~~a~~al~~l 122 (123)
+++||||+||++++|+.|...|..||.+. +.++...+. -.++| |.|+.|+++.+....+..+
T Consensus 259 S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129|consen 259 SRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred ccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence 67999999999999999999999999754 666643211 23566 9999999999888777653
No 93
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.03 E-value=7.7e-06 Score=56.17 Aligned_cols=58 Identities=24% Similarity=0.402 Sum_probs=47.3
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
.+|||.||...++|++|+.+|+.|.....+++... .|. ..+|++|...+.|..|+..|
T Consensus 211 stlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~--~g~--~vaf~~~~~~~~at~am~~l 268 (284)
T KOG1457|consen 211 STLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR--GGM--PVAFADFEEIEQATDAMNHL 268 (284)
T ss_pred hhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC--CCc--ceEeecHHHHHHHHHHHHHh
Confidence 48999999999999999999999977665555332 344 48999999999999888655
No 94
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=98.03 E-value=1.3e-05 Score=59.40 Aligned_cols=75 Identities=27% Similarity=0.358 Sum_probs=60.0
Q ss_pred CCCCCCCCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeec---CCC--CCc--------ccEEEEEecCHHHH
Q 033266 49 PLGDPKAIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRD---IVT--GAS--------RGYAFVEYETEREM 115 (123)
Q Consensus 49 ~~~~~~~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~---~~~--g~~--------~g~~fv~f~~~~~a 115 (123)
|........-+.++|.+.|||.+-.-+.|.++|..+|.|+.|++... +.+ +.+ +-+|+|+|...+.|
T Consensus 220 Plp~~~~eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A 299 (484)
T KOG1855|consen 220 PLPEFDEEELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAA 299 (484)
T ss_pred CCCCccccccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHH
Confidence 44444444557899999999999888999999999999999998776 333 222 46789999999999
Q ss_pred HHHHHHcC
Q 033266 116 RRAYEVCG 123 (123)
Q Consensus 116 ~~al~~l~ 123 (123)
.+|.+.||
T Consensus 300 ~KA~e~~~ 307 (484)
T KOG1855|consen 300 RKARELLN 307 (484)
T ss_pred HHHHHhhc
Confidence 99998875
No 95
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.90 E-value=4.5e-06 Score=63.35 Aligned_cols=63 Identities=27% Similarity=0.410 Sum_probs=58.1
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHH
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~ 120 (123)
-+.+++|+--|+...++-+|.+||+.+|.|..|+++.|+.++.++|.+||+|.+.++...||.
T Consensus 177 Rd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia 239 (549)
T KOG0147|consen 177 RDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA 239 (549)
T ss_pred HhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh
Confidence 346789999999999999999999999999999999999999999999999999998888774
No 96
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=97.85 E-value=4.7e-05 Score=55.33 Aligned_cols=66 Identities=26% Similarity=0.304 Sum_probs=57.6
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeE--------EEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKN--------LRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~--------~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
.....+|||-+||..+++++|..+|.+||.|.. +.+-+++.|+.+|+-|.|.|.+...|+.|+.-+
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~ 136 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWF 136 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhh
Confidence 444568999999999999999999999997743 567788889999999999999999999998754
No 97
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.81 E-value=9.1e-05 Score=39.92 Aligned_cols=52 Identities=12% Similarity=0.383 Sum_probs=41.2
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHH
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al 119 (123)
+.|-|.|.+++..+..| .+|.+||+|..+.+... ....++.|.++.+|+.||
T Consensus 2 ~wI~V~Gf~~~~~~~vl-~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEEVL-EHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHHHHH-HHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 45778888888765554 48889999999887622 348999999999999885
No 98
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.66 E-value=2.9e-05 Score=55.70 Aligned_cols=62 Identities=29% Similarity=0.569 Sum_probs=55.7
Q ss_pred CCcEEE-EcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHH
Q 033266 59 PHCTVF-VGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120 (123)
Q Consensus 59 ~~~~l~-v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~ 120 (123)
...++| |++|+..+++++|+.+|..+|.|..++++.++.++..+||+|+.|........++.
T Consensus 183 ~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~ 245 (285)
T KOG4210|consen 183 PSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALN 245 (285)
T ss_pred ccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhh
Confidence 344555 99999999999999999999999999999999999999999999999888877765
No 99
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.64 E-value=0.00022 Score=48.95 Aligned_cols=61 Identities=21% Similarity=0.423 Sum_probs=52.2
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
.++...+|+.|||.+++.+.+..+|.+|+.-..++++... .+.+||+|.+...+..|...+
T Consensus 143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~l 203 (221)
T KOG4206|consen 143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQAL 203 (221)
T ss_pred CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhh
Confidence 4567789999999999999999999999999999887754 579999999888877776554
No 100
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=97.64 E-value=0.00025 Score=47.63 Aligned_cols=56 Identities=29% Similarity=0.309 Sum_probs=51.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
..+|.|.+||++.+|.+|+.+....|.+....+.+| |.+.|+|...++.+-|++.|
T Consensus 115 e~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~l 170 (241)
T KOG0105|consen 115 EYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKL 170 (241)
T ss_pred ceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhh
Confidence 458999999999999999999999999999998887 48899999999999999876
No 101
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.46 E-value=0.00064 Score=50.25 Aligned_cols=60 Identities=18% Similarity=0.201 Sum_probs=50.3
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhc-c---CCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSK-Y---GRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~-~---G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
-.|-..+||+++++.++.+||.+ | |....+.+++.+ +|+..|-|||.|..++.|+.||++
T Consensus 162 vivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 162 VIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred eEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHHH
Confidence 35667799999999999999963 2 355667777776 899999999999999999999974
No 102
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.44 E-value=0.0005 Score=52.97 Aligned_cols=64 Identities=28% Similarity=0.431 Sum_probs=52.7
Q ss_pred CCcEEEEcCCCCCCc------HHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 59 PHCTVFVGRLSHFTS------EDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~------e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
-...|+|.|+|.--. ...|..+|+++|.+....++-+.. |..+||.|++|.+..+|+.|++.||
T Consensus 57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~-ggtkG~lf~E~~~~~~A~~aVK~l~ 126 (698)
T KOG2314|consen 57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE-GGTKGYLFVEYASMRDAKKAVKSLN 126 (698)
T ss_pred cceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc-CCeeeEEEEEecChhhHHHHHHhcc
Confidence 345789999987533 235678899999999998888874 4599999999999999999999875
No 103
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.33 E-value=0.00018 Score=49.46 Aligned_cols=58 Identities=28% Similarity=0.407 Sum_probs=48.9
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
-..+.++|.+++-.+.+.+|...|.++|.+..... ..+++||+|...+++..|+..|+
T Consensus 97 ~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~ 154 (216)
T KOG0106|consen 97 RTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLD 154 (216)
T ss_pred cccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhcc
Confidence 34678999999999999999999999999854433 24699999999999999998763
No 104
>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=97.05 E-value=0.0037 Score=36.81 Aligned_cols=52 Identities=15% Similarity=0.286 Sum_probs=35.6
Q ss_pred EEEEcCCCCCCcHHHHH----HHhhccCC-eeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 62 TVFVGRLSHFTSEDTLR----KAMSKYGR-VKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~----~~f~~~G~-i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
-|||.|||.+.+...++ .++..||. |..+ + .+-|++.|.+.+.|..|.+.|.
T Consensus 4 ~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v-------~---~~tAilrF~~~~~A~RA~KRme 60 (90)
T PF11608_consen 4 LLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV-------S---GGTAILRFPNQEFAERAQKRME 60 (90)
T ss_dssp EEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHT
T ss_pred EEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE-------e---CCEEEEEeCCHHHHHHHHHhhc
Confidence 68999999999877655 55556764 5544 1 3689999999999999998774
No 105
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.03 E-value=0.00074 Score=47.31 Aligned_cols=64 Identities=22% Similarity=0.388 Sum_probs=51.3
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCC--------CCcccE----EEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVT--------GASRGY----AFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~--------g~~~g~----~fv~f~~~~~a~~al~~l~ 123 (123)
...||+++||+.+...-|+.+|.+||.|-+|-+.....+ |...+. +.|+|.+...|..+...||
T Consensus 74 ~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Ln 149 (278)
T KOG3152|consen 74 TGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLN 149 (278)
T ss_pred ceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhC
Confidence 458999999999999999999999999999877655434 222222 5689999999998888776
No 106
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=96.97 E-value=0.0034 Score=46.82 Aligned_cols=59 Identities=17% Similarity=0.318 Sum_probs=51.7
Q ss_pred CcEEEEcCCCCC-CcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHF-TSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~-~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
...|.|.||..+ +|.+.|..+|.-||.|.++.+..++ +..|.|.|.+...|+.|+++|+
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~ 356 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLE 356 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC-----CcceeeeecchhHHHHHHHHhh
Confidence 467888888765 8999999999999999999999886 3589999999999999998874
No 107
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=96.92 E-value=0.0017 Score=48.45 Aligned_cols=55 Identities=24% Similarity=0.349 Sum_probs=46.8
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHH
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRR 117 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~ 117 (123)
..+++.+.++|||++++|+++-.++.+||.|..+...+.+ ..+|++|.+.++|..
T Consensus 25 ~~pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkGk------nQAflem~d~~sAvt 79 (492)
T KOG1190|consen 25 AEPSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKGK------NQAFLEMADEESAVT 79 (492)
T ss_pred cCCcceeEeccCCccccHHHHHHhcccccceeeeeeeccc------hhhhhhhcchhhhhh
Confidence 3467789999999999999999999999999988776543 389999999888765
No 108
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.91 E-value=0.0013 Score=46.15 Aligned_cols=61 Identities=23% Similarity=0.374 Sum_probs=54.3
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
..|||.||+..+.-+.+...|+.||.|....+.-|- .+++.+-++|.|.....+..|++.+
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 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRC 92 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHHh
Confidence 579999999999999999999999999887666664 7888999999999999999998876
No 109
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.89 E-value=0.011 Score=32.76 Aligned_cols=53 Identities=19% Similarity=0.262 Sum_probs=43.5
Q ss_pred EEEEcCCCCCCcHHHHHHHhhcc---CCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSKY---GRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~~---G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
+|+|.|+.. .+.++++.+|..| ....++.|+-|. -|-|.|.+.+.|.+||..|
T Consensus 7 avhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 7 AVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 788999855 5668889999887 235689999885 6789999999999999875
No 110
>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=96.84 E-value=0.0056 Score=37.30 Aligned_cols=63 Identities=16% Similarity=0.231 Sum_probs=39.9
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEE-EeecC------CCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLR-LVRDI------VTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~-~~~~~------~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.+-|.|-+.|+..+ ..+-+.|++||.|.+.. +.++. .......+-.+.|.++.+|.+||+..+
T Consensus 6 ~~wVtVFGfp~~~~-~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG 75 (100)
T PF05172_consen 6 ETWVTVFGFPPSAS-NQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNG 75 (100)
T ss_dssp CCEEEEE---GGGH-HHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTT
T ss_pred CeEEEEEccCHHHH-HHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCC
Confidence 45688889999854 56667899999987653 11110 011234688999999999999998653
No 111
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.77 E-value=0.00072 Score=54.15 Aligned_cols=59 Identities=31% Similarity=0.416 Sum_probs=53.7
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHH
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al 119 (123)
...+||.|.|+..|.+.++.++..+|.+...+++..+ .|+++|.+|+.|.++.++..+.
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~ 794 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKV 794 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhc
Confidence 4579999999999999999999999999999988887 8999999999999988887764
No 112
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=96.71 E-value=0.011 Score=34.75 Aligned_cols=52 Identities=12% Similarity=0.238 Sum_probs=39.6
Q ss_pred EEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
..+|. .|..+...+|..+|+.||.|. |.++.|. -|||....++.+..++..+
T Consensus 11 VFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~dT-------SAfV~l~~r~~~~~v~~~~ 62 (87)
T PF08675_consen 11 VFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWINDT-------SAFVALHNRDQAKVVMNTL 62 (87)
T ss_dssp EEEEE---TT--HHHHHHHCCCCCCEE-EEEECTT-------EEEEEECCCHHHHHHHHHH
T ss_pred EEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcCC-------cEEEEeecHHHHHHHHHHh
Confidence 45554 999999999999999999864 7787773 8999999999998887654
No 113
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.69 E-value=0.0025 Score=47.24 Aligned_cols=62 Identities=16% Similarity=0.290 Sum_probs=51.9
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCC-eeE--EEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGR-VKN--LRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~-i~~--~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
...|-+.+||++.+.++|-.||.-|.. |.. +.++.+- .|++.|-|||.|.+.+.|.+|...+
T Consensus 280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~ 344 (508)
T KOG1365|consen 280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKC 344 (508)
T ss_pred CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHH
Confidence 457889999999999999999988753 444 6777774 8999999999999999999888654
No 114
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.55 E-value=0.0065 Score=44.45 Aligned_cols=64 Identities=16% Similarity=0.371 Sum_probs=45.7
Q ss_pred CCcEEEEcCCCCCCcHHH----H--HHHhhccCCeeEEEEeecCCC-CCcccEE--EEEecCHHHHHHHHHHc
Q 033266 59 PHCTVFVGRLSHFTSEDT----L--RKAMSKYGRVKNLRLVRDIVT-GASRGYA--FVEYETEREMRRAYEVC 122 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~----l--~~~f~~~G~i~~~~~~~~~~~-g~~~g~~--fv~f~~~~~a~~al~~l 122 (123)
+..-+||-+||+.+..++ | .++|.+||.|..+.+-+.--+ ....+++ |+.|.+.++|..||...
T Consensus 113 QKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~v 185 (480)
T COG5175 113 QKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEV 185 (480)
T ss_pred ecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHh
Confidence 345689999998776554 3 589999999999877544211 1222333 99999999999999753
No 115
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.41 E-value=0.00019 Score=57.31 Aligned_cols=62 Identities=26% Similarity=0.320 Sum_probs=54.6
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
..++||.||+..+.+.+|...|..+|.+..+++......++.+|+||++|...+++.+|+..
T Consensus 667 ~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f 728 (881)
T KOG0128|consen 667 LIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAF 728 (881)
T ss_pred HHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhh
Confidence 45799999999999999999999999888777665566899999999999999999998864
No 116
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.21 E-value=0.017 Score=46.02 Aligned_cols=60 Identities=18% Similarity=0.293 Sum_probs=50.4
Q ss_pred EEEEcCCCCCCcHHHHHHHhhccCCee-EEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSKYGRVK-NLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~~G~i~-~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
.|-+.|+|++++-++|-+||.-|-.+- +|.+.++ ..|+..|-|.|.|++.++|..|..-|
T Consensus 869 V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~n-d~G~pTGe~mvAfes~~eAr~A~~dl 929 (944)
T KOG4307|consen 869 VLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRN-DDGVPTGECMVAFESQEEARRASMDL 929 (944)
T ss_pred EEEecCCCccccHHHHHHHhcccccCCCceeEeec-CCCCcccceeEeecCHHHHHhhhhcc
Confidence 677889999999999999999986543 4555555 38999999999999999999998655
No 117
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=95.75 E-value=0.077 Score=39.53 Aligned_cols=63 Identities=27% Similarity=0.389 Sum_probs=54.3
Q ss_pred CCCCCcEEEEcCCCCC-CcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 56 IGDPHCTVFVGRLSHF-TSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~-~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
...+++.+.|-+|... +.-+.|..+|-.||.|.++++++.+ .|-|.|+..+....++|+..||
T Consensus 283 g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLn 346 (494)
T KOG1456|consen 283 GGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLN 346 (494)
T ss_pred CCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhc
Confidence 3456788999999886 4567899999999999999999875 4689999999999999999886
No 118
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=95.70 E-value=0.016 Score=47.17 Aligned_cols=60 Identities=18% Similarity=0.446 Sum_probs=51.3
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
....+.+|+++|..|+....|...|..||.|..|.+-. | .-|+++.|.+...++.|++.|
T Consensus 452 st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h----g--q~yayi~yes~~~aq~a~~~~ 511 (975)
T KOG0112|consen 452 STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH----G--QPYAYIQYESPPAAQAATHDM 511 (975)
T ss_pred cccceeeccCCCCCCChHHHHHHHhhccCcceeeeccc----C--CcceeeecccCccchhhHHHH
Confidence 44567899999999999999999999999999876633 2 359999999999999998765
No 119
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=95.65 E-value=0.034 Score=42.85 Aligned_cols=48 Identities=25% Similarity=0.422 Sum_probs=38.4
Q ss_pred HHHHHhhccCCeeEEEEeec-C--CCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 76 TLRKAMSKYGRVKNLRLVRD-I--VTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 76 ~l~~~f~~~G~i~~~~~~~~-~--~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+++.-+++||.|..|.++++ . +.....|--||+|.+.++++.|++.|+
T Consensus 425 dvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~ 475 (500)
T KOG0120|consen 425 DVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELT 475 (500)
T ss_pred HHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHcc
Confidence 45566678999999999887 2 234556788999999999999999874
No 120
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=95.47 E-value=0.02 Score=43.12 Aligned_cols=55 Identities=20% Similarity=0.341 Sum_probs=42.0
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhcc--CCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKY--GRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~--G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.++|++||.+..+..+|+.+|.-. +.-.. ++. ..||+|+.+.+...+.++++.++
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~--fl~------k~gyafvd~pdq~wa~kaie~~s 58 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQ--FLV------KSGYAFVDCPDQQWANKAIETLS 58 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcc--eee------ecceeeccCCchhhhhhhHHhhc
Confidence 368999999999999999999642 21111 111 24799999999999999998764
No 121
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=95.45 E-value=0.053 Score=39.80 Aligned_cols=63 Identities=14% Similarity=0.279 Sum_probs=47.3
Q ss_pred CCCCcEEEEcCCCC----CCc-------HHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 57 GDPHCTVFVGRLSH----FTS-------EDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 57 ~~~~~~l~v~~l~~----~~~-------e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
....++|.+.|+-- ..+ +++|++-..+||.|.++.|.- ..+.|.+-|.|.+.++|..|++.|+
T Consensus 262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d----~hPdGvvtV~f~n~eeA~~ciq~m~ 335 (382)
T KOG1548|consen 262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYD----RHPDGVVTVSFRNNEEADQCIQTMD 335 (382)
T ss_pred ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEec----cCCCceeEEEeCChHHHHHHHHHhc
Confidence 34456888888722 223 356677788999999987652 2467899999999999999999874
No 122
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=94.95 E-value=0.022 Score=44.52 Aligned_cols=62 Identities=16% Similarity=0.273 Sum_probs=49.7
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHhhc-cCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 56 IGDPHCTVFVGRLSHFTSEDTLRKAMSK-YGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~~~e~~l~~~f~~-~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
....++.|+|.||-.-.|.-+|+.++.+ +|.|... |+ |+ -+.+|||.|.+.++|.+...+|+
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~-Wm-Dk----IKShCyV~yss~eEA~atr~Alh 502 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF-WM-DK----IKSHCYVSYSSVEEAAATREALH 502 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHH-HH-HH----hhcceeEecccHHHHHHHHHHHh
Confidence 4566789999999999999999999995 5556554 43 32 46799999999999998887764
No 123
>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=94.81 E-value=0.53 Score=29.13 Aligned_cols=60 Identities=15% Similarity=0.242 Sum_probs=41.6
Q ss_pred EEEEcCCCCCCcHHHHHHHhhcc-CCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSKY-GRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~~-G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.+.+...|..++-++|..+.+.+ ..|..++++++. ..++-...+.|.+...|....+..|
T Consensus 15 ~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fN 75 (110)
T PF07576_consen 15 LCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFN 75 (110)
T ss_pred EEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhC
Confidence 34444555556666776555555 357788998873 3456678999999999998877654
No 124
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=94.36 E-value=0.069 Score=42.18 Aligned_cols=59 Identities=25% Similarity=0.309 Sum_probs=48.0
Q ss_pred CCCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 55 AIGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 55 ~~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
...++..++||+|+...+..+.++.++..||-|..+... + |+|++|........|++.+
T Consensus 35 ~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~--~-------fgf~~f~~~~~~~ra~r~~ 93 (668)
T KOG2253|consen 35 QPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD--K-------FGFCEFLKHIGDLRASRLL 93 (668)
T ss_pred cCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh--h-------hcccchhhHHHHHHHHHHh
Confidence 344566799999999999999999999999988765332 1 9999999988888887655
No 125
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=94.18 E-value=0.074 Score=39.77 Aligned_cols=57 Identities=16% Similarity=0.325 Sum_probs=46.1
Q ss_pred EEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCC---CCcccEEEEEecCHHHHHHH
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVT---GASRGYAFVEYETEREMRRA 118 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~---g~~~g~~fv~f~~~~~a~~a 118 (123)
.|-|.||.+.++.++++.+|.-.|.|..+.|.-+... ......|||.|.+...+..|
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~va 68 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVA 68 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHH
Confidence 7889999999999999999999999999887654321 23456899999987776554
No 126
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=94.09 E-value=0.051 Score=43.43 Aligned_cols=63 Identities=21% Similarity=0.133 Sum_probs=49.9
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeE-EEEeecCCCCCcccEEEEEecCHHHHHHHH
Q 033266 56 IGDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKN-LRLVRDIVTGASRGYAFVEYETEREMRRAY 119 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~-~~~~~~~~~g~~~g~~fv~f~~~~~a~~al 119 (123)
.......|||..||..+++.++-.+|...-.|.. |.|.+.+ +++.++.|||.|..++.+..|+
T Consensus 430 P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~ 493 (944)
T KOG4307|consen 430 PGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTAS 493 (944)
T ss_pred CCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhh
Confidence 3455779999999999999999999987655554 7777776 7888999999998865555443
No 127
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=93.85 E-value=0.27 Score=36.71 Aligned_cols=58 Identities=17% Similarity=0.213 Sum_probs=46.7
Q ss_pred cEEEEc--CCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 61 CTVFVG--RLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 61 ~~l~v~--~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
..|.+. |--+.+|-+.|..+....|.|.++.|.+. +| -.|.|+|.+.+.|++|...||
T Consensus 121 ~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk--ng---VQAmVEFdsv~~AqrAk~alN 180 (494)
T KOG1456|consen 121 KVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK--NG---VQAMVEFDSVEVAQRAKAALN 180 (494)
T ss_pred eEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec--cc---eeeEEeechhHHHHHHHhhcc
Confidence 344444 44457889999999999999999988765 44 368999999999999999887
No 128
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=93.45 E-value=0.79 Score=35.99 Aligned_cols=58 Identities=12% Similarity=0.330 Sum_probs=47.8
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhc--cCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSK--YGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~--~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
...|.|++.-||..+..++++.+|.. |..+..|.+-.+. -=||+|.+..+|+.|.+.|
T Consensus 173 ~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykyl 232 (684)
T KOG2591|consen 173 HKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYL 232 (684)
T ss_pred cceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHH
Confidence 34677888999999999999999975 7778888876652 3489999999999998765
No 129
>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=93.33 E-value=0.15 Score=34.21 Aligned_cols=64 Identities=9% Similarity=0.114 Sum_probs=37.3
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhc-cCCe---eEEEEeecCCC-C-CcccEEEEEecCHHHHHHHHHHc
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSK-YGRV---KNLRLVRDIVT-G-ASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~-~G~i---~~~~~~~~~~~-g-~~~g~~fv~f~~~~~a~~al~~l 122 (123)
...+|.|.+||+..+|+++.+.+.. ++.- ..+.-.....+ . ..-.-||+.|.+.+++..-...+
T Consensus 6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~ 75 (176)
T PF03467_consen 6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRF 75 (176)
T ss_dssp ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHC
T ss_pred cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhc
Confidence 4568999999999999998886665 5544 33331122111 1 22356899999988877665543
No 130
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=93.19 E-value=0.017 Score=46.97 Aligned_cols=60 Identities=23% Similarity=0.346 Sum_probs=48.1
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHH
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al 119 (123)
...+||+|||+..+++.+|+..|..+|.+..|.+-..+ -+...-|+|+.|.+.+.+..+.
T Consensus 371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak 430 (975)
T KOG0112|consen 371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAK 430 (975)
T ss_pred hhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccc
Confidence 36799999999999999999999999999998876553 3444568899887766555444
No 131
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=93.04 E-value=0.042 Score=38.70 Aligned_cols=46 Identities=20% Similarity=0.433 Sum_probs=35.3
Q ss_pred HHHHhh-ccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 77 LRKAMS-KYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 77 l~~~f~-~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
+...|. +||+|..+.+..+. .-.-.|-.||.|...++|++|++.||
T Consensus 85 ~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~ln 131 (260)
T KOG2202|consen 85 VFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLN 131 (260)
T ss_pred HHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHc
Confidence 333344 89999988666553 33557889999999999999999886
No 132
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=92.78 E-value=0.11 Score=37.99 Aligned_cols=63 Identities=17% Similarity=0.348 Sum_probs=45.1
Q ss_pred CcEEEEcCCCCCCcHH-HH--HHHhhccCCeeEEEEeecCC--CCC-cccEEEEEecCHHHHHHHHHHc
Q 033266 60 HCTVFVGRLSHFTSED-TL--RKAMSKYGRVKNLRLVRDIV--TGA-SRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~-~l--~~~f~~~G~i~~~~~~~~~~--~g~-~~g~~fv~f~~~~~a~~al~~l 122 (123)
..-+||-+|+.....+ .| .+.|.+||.|..+..-.++- ++. ...-++|+|...++|..||..+
T Consensus 77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v 145 (327)
T KOG2068|consen 77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDV 145 (327)
T ss_pred hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHh
Confidence 3568888998876544 44 37889999999988877651 111 1123799999999999998754
No 133
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=92.60 E-value=0.48 Score=34.35 Aligned_cols=50 Identities=24% Similarity=0.271 Sum_probs=38.7
Q ss_pred HHHHHHHhhccCCeeEEEEeecCCCCCc-ccEEEEEecCHHHHHHHHHHcC
Q 033266 74 EDTLRKAMSKYGRVKNLRLVRDIVTGAS-RGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 74 e~~l~~~f~~~G~i~~~~~~~~~~~g~~-~g~~fv~f~~~~~a~~al~~l~ 123 (123)
++++++.+.+||.|..|.|...+..-.. .---||+|...++|.+|+--||
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~Vdln 350 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLN 350 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcC
Confidence 4567888999999999988777533222 2346999999999999987765
No 134
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=90.91 E-value=0.14 Score=37.01 Aligned_cols=63 Identities=24% Similarity=0.155 Sum_probs=53.3
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
...++|++++.+.+.+.....++..+|......+.........++++++.|...+.+..++..
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~ 149 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEE 149 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHh
Confidence 467899999999999988888888888777766666555788999999999999999988864
No 135
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=90.38 E-value=2.2 Score=30.97 Aligned_cols=58 Identities=12% Similarity=0.184 Sum_probs=41.3
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCe-eEEEEeecCCCCCcccEEEEEecCH-------HHHHHHHHHc
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRV-KNLRLVRDIVTGASRGYAFVEYETE-------REMRRAYEVC 122 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i-~~~~~~~~~~~g~~~g~~fv~f~~~-------~~a~~al~~l 122 (123)
...-||++||+.++.-.+|+..+..-+.+ .++.|.- +.|-||+.|.+. +++.+++..+
T Consensus 329 ~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg------~~~k~flh~~~~~~~~~~~~~~~~~~~s~ 394 (396)
T KOG4410|consen 329 AKTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKG------HFGKCFLHFGNRKGVPSTQDDMDKVLKSL 394 (396)
T ss_pred cccceeeccCccccchHHHHHHHHhcCCCceeEeeec------CCcceeEecCCccCCCCCchHHHHHhccC
Confidence 35679999999999999999999876643 3444422 367899999654 4455555444
No 136
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=89.70 E-value=2.2 Score=27.86 Aligned_cols=60 Identities=20% Similarity=0.289 Sum_probs=42.1
Q ss_pred CCCCCcEEEEcCCCCCCc----HHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 56 IGDPHCTVFVGRLSHFTS----EDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 56 ~~~~~~~l~v~~l~~~~~----e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
.+++-.+|.|.=|...+. -..+...++.||.|.++.+. | +.-|.|.|.+..+|=.|+.+.
T Consensus 82 kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-----G--rqsavVvF~d~~SAC~Av~Af 145 (166)
T PF15023_consen 82 KEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-----G--RQSAVVVFKDITSACKAVSAF 145 (166)
T ss_pred CCCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-----C--CceEEEEehhhHHHHHHHHhh
Confidence 355667888876655543 23455566789999998663 2 347999999998888877653
No 137
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=89.08 E-value=1.3 Score=28.80 Aligned_cols=58 Identities=28% Similarity=0.385 Sum_probs=37.4
Q ss_pred CCCCcEEEEcCCCC------CCcH---HHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 57 GDPHCTVFVGRLSH------FTSE---DTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 57 ~~~~~~l~v~~l~~------~~~e---~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
+++..+|.|.-+.+ ...+ .+|-..|..||.+.-++++.+ .-.|+|.+..+|.+|+...
T Consensus 24 GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals~d 90 (146)
T PF08952_consen 24 GPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALSLD 90 (146)
T ss_dssp --TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHHGC
T ss_pred CCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHccC
Confidence 44455776664441 1222 256677889999888887654 5689999999999998754
No 138
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=88.78 E-value=0.056 Score=40.38 Aligned_cols=61 Identities=11% Similarity=0.058 Sum_probs=48.1
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
-.++++|++|+..+...++-+.|..+|++.+..+- .+....+|-++|....+...|++.+|
T Consensus 150 irRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a----sk~~s~~c~~sf~~qts~~halr~~g 210 (479)
T KOG4676|consen 150 IRRTREVQSLISAAILPESGESFERKGEVSYAHTA----SKSRSSSCSHSFRKQTSSKHALRSHG 210 (479)
T ss_pred HHhhhhhhcchhhhcchhhhhhhhhcchhhhhhhh----ccCCCcchhhhHhhhhhHHHHHHhcc
Confidence 35789999999999999999999999999887663 34445677788887777777776543
No 139
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=88.20 E-value=3.6 Score=31.62 Aligned_cols=61 Identities=15% Similarity=0.386 Sum_probs=50.1
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhcc-CCeeEEEEeecCCCCCc-ccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKY-GRVKNLRLVRDIVTGAS-RGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~-G~i~~~~~~~~~~~g~~-~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.+.|+|-.+|-.++-.+|-.|+..+ ..|..+++++| |.+ +-..++.|.+..+|....+.+|
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd---~~pnrymvLIkFr~q~da~~Fy~efN 136 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRD---GMPNRYMVLIKFRDQADADTFYEEFN 136 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeec---CCCceEEEEEEeccchhHHHHHHHcC
Confidence 6789999999999999999998865 56889999995 333 3457899999999998887665
No 140
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=88.08 E-value=3.4 Score=30.17 Aligned_cols=56 Identities=13% Similarity=0.112 Sum_probs=40.6
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
..=|-|-++|+... .-|-.+|.+||.|...... ..-.+-+|.|.++-+|++||.+.
T Consensus 197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~------~ngNwMhirYssr~~A~KALskn 252 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTP------SNGNWMHIRYSSRTHAQKALSKN 252 (350)
T ss_pred cceEEEeccCccch-hHHHHHHHhhCeeeeeecC------CCCceEEEEecchhHHHHhhhhc
Confidence 34455558887755 4456679999998775432 33458899999999999999754
No 141
>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=80.27 E-value=8.1 Score=21.62 Aligned_cols=44 Identities=18% Similarity=0.350 Sum_probs=31.4
Q ss_pred CCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 71 FTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 71 ~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.++-.+++..+..|+- . ++..|+ + -=||.|.+..+|++|....+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~--~I~~d~-t-----GfYIvF~~~~Ea~rC~~~~~ 54 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-D--RIRDDR-T-----GFYIVFNDSKEAERCFRAED 54 (66)
T ss_pred CccHHHHHHHHhcCCc-c--eEEecC-C-----EEEEEECChHHHHHHHHhcC
Confidence 4566889999999852 2 334443 3 23799999999999987653
No 142
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=78.78 E-value=9.5 Score=29.10 Aligned_cols=55 Identities=15% Similarity=0.140 Sum_probs=45.5
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHhhccCC-eeEEEEeecCCCCCcccEEEEEecCHHHHHHHHH
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAMSKYGR-VKNLRLVRDIVTGASRGYAFVEYETEREMRRAYE 120 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f~~~G~-i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~ 120 (123)
-.+.|=|-++|.....++|-..|..|+. --.|.|+.+. ++|..|.+...|..||.
T Consensus 390 lpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt 445 (528)
T KOG4483|consen 390 LPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALT 445 (528)
T ss_pred ccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhh
Confidence 4567778899999888999999999865 4568888875 89999999999888874
No 143
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=78.30 E-value=1.2 Score=30.20 Aligned_cols=54 Identities=20% Similarity=0.241 Sum_probs=38.7
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEec
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~ 110 (123)
......+++.+++..+....+...|..+|.+....+.............++.+.
T Consensus 222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 275 (306)
T COG0724 222 LEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNE 275 (306)
T ss_pred ccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchh
Confidence 455678999999999999999999999999877666555433333334443333
No 144
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=74.15 E-value=7.7 Score=30.52 Aligned_cols=35 Identities=26% Similarity=0.399 Sum_probs=25.8
Q ss_pred EEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 89 NLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 89 ~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
.+-++.|=.+....|||||.|.+.+.+....++.|
T Consensus 418 FlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFn 452 (549)
T KOG4660|consen 418 FLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFN 452 (549)
T ss_pred eEEeccccccccccceeEEeecCHHHHHHHHHHHc
Confidence 34455554456678999999999999888777653
No 145
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.89 E-value=23 Score=28.36 Aligned_cols=37 Identities=11% Similarity=0.219 Sum_probs=29.7
Q ss_pred CCCCcEEEEcCCCCC-CcHHHHHHHhhcc----CCeeEEEEe
Q 033266 57 GDPHCTVFVGRLSHF-TSEDTLRKAMSKY----GRVKNLRLV 93 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~-~~e~~l~~~f~~~----G~i~~~~~~ 93 (123)
+..+++|-|.||.|+ +...+|..+|.+| |.|.+|.|.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IY 212 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIY 212 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEec
Confidence 556789999999997 6678899888876 578887754
No 146
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=73.33 E-value=12 Score=20.75 Aligned_cols=16 Identities=25% Similarity=0.482 Sum_probs=13.4
Q ss_pred HHHHHHhhccCCeeEE
Q 033266 75 DTLRKAMSKYGRVKNL 90 (123)
Q Consensus 75 ~~l~~~f~~~G~i~~~ 90 (123)
++|+.+|+..|.|.-+
T Consensus 9 ~~iR~~fs~lG~I~vL 24 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVL 24 (62)
T ss_pred HHHHHHHHhcCcEEEE
Confidence 5799999999998654
No 147
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=70.49 E-value=4.8 Score=28.40 Aligned_cols=34 Identities=21% Similarity=0.465 Sum_probs=28.2
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEE
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNL 90 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~ 90 (123)
......+|+-|+|..++++.|.++.+++|-+..+
T Consensus 37 ~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 37 SNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred cccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 3445689999999999999999999998855444
No 148
>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=67.06 E-value=15 Score=24.86 Aligned_cols=44 Identities=16% Similarity=0.188 Sum_probs=31.6
Q ss_pred cHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 73 SEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 73 ~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
..+.|+.+|..++.+....+.+. -+-..|.|.+.+.|..+...|
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l 51 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLL 51 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTS
T ss_pred hHHHHHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHh
Confidence 34789999999998877665543 356789999999999988765
No 149
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=66.42 E-value=1.4 Score=30.80 Aligned_cols=55 Identities=25% Similarity=0.465 Sum_probs=45.4
Q ss_pred CCCcEEEEcC----CCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHH
Q 033266 58 DPHCTVFVGR----LSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETER 113 (123)
Q Consensus 58 ~~~~~l~v~~----l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~ 113 (123)
+...+++.|+ |...++++.+.+.|++.|.+..+++.++. +|+++.++|+.+.-..
T Consensus 78 e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~qr~~ 136 (267)
T KOG4454|consen 78 EEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTYQRLC 136 (267)
T ss_pred hhhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchhhhhhh
Confidence 3356788888 88889999999999999999999998886 6888889988876443
No 150
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=65.02 E-value=2.5 Score=32.60 Aligned_cols=54 Identities=19% Similarity=0.293 Sum_probs=38.8
Q ss_pred CcEEEEcCCCCCC-cHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHH
Q 033266 60 HCTVFVGRLSHFT-SEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119 (123)
Q Consensus 60 ~~~l~v~~l~~~~-~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al 119 (123)
.+.+-+.-.|+.. +-++|...|.+||.|..|.+-..+ -.|.|+|.+..+|..|.
T Consensus 372 hs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~ 426 (526)
T KOG2135|consen 372 HSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAY 426 (526)
T ss_pred cchhhhhccCCCCchHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchh
Confidence 3444455556654 458999999999999998875542 47889998888775443
No 151
>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT. SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.
Probab=64.61 E-value=24 Score=21.93 Aligned_cols=44 Identities=18% Similarity=0.390 Sum_probs=25.0
Q ss_pred cHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecC-HHHHHHHH
Q 033266 73 SEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYET-EREMRRAY 119 (123)
Q Consensus 73 ~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~-~~~a~~al 119 (123)
+-+.|.+.|+.|..++ ++...++ .-+.|++.|.|.+ -.-...|+
T Consensus 30 ~~~~l~~~l~~f~p~k-v~~l~~~--~gh~g~aiv~F~~~w~Gf~~A~ 74 (116)
T PF03468_consen 30 SNEELLDKLAEFNPLK-VKPLYGK--QGHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp -SHHHHHHHHH---SE-EEEEEET--TEEEEEEEEE--SSHHHHHHHH
T ss_pred CHHHHHHHHHhcCCce-eEECcCC--CCCcEEEEEEECCChHHHHHHH
Confidence 4478899999998765 5555554 3567899999974 34444444
No 152
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=59.12 E-value=32 Score=20.33 Aligned_cols=46 Identities=20% Similarity=0.284 Sum_probs=29.9
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEe
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEY 109 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f 109 (123)
.-+|||+++..+-|.-........+.-.-+-+..+ ....||.|-.+
T Consensus 26 ~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~---~neqG~~~~t~ 71 (86)
T PF09707_consen 26 PGVYVGNVSARVRERLWERVTEWIGDGSAVMVWSD---NNEQGFDFRTL 71 (86)
T ss_pred CCcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEcc---CCCCCEEEEEe
Confidence 35999999998887666666655544333333333 22678998777
No 153
>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=57.55 E-value=33 Score=25.13 Aligned_cols=58 Identities=5% Similarity=0.158 Sum_probs=44.1
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCC-------CCCcccEEEEEecCHHHHHH
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIV-------TGASRGYAFVEYETEREMRR 117 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~-------~g~~~g~~fv~f~~~~~a~~ 117 (123)
.+.|...|+..+++-..+-..|-+||.|.++-++.+.. .-+......+.|-+++.+..
T Consensus 15 TRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLd 79 (309)
T PF10567_consen 15 TRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLD 79 (309)
T ss_pred eHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHH
Confidence 56788999999998888888899999999998887641 11233456788888877654
No 154
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=53.87 E-value=29 Score=25.34 Aligned_cols=35 Identities=29% Similarity=0.468 Sum_probs=27.0
Q ss_pred CcEEEEcCCCCC------------CcHHHHHHHhhccCCeeEEEEee
Q 033266 60 HCTVFVGRLSHF------------TSEDTLRKAMSKYGRVKNLRLVR 94 (123)
Q Consensus 60 ~~~l~v~~l~~~------------~~e~~l~~~f~~~G~i~~~~~~~ 94 (123)
..+||+.+||-. .+++-|+..|..||.|..+.++.
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipi 195 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPI 195 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcc
Confidence 447888888752 45678999999999999887743
No 155
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=52.57 E-value=8.5 Score=32.05 Aligned_cols=55 Identities=18% Similarity=0.224 Sum_probs=43.6
Q ss_pred EEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHc
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l 122 (123)
+.++.|.+-..+...|..+|..||.+......++- ..+.|+|.+.+.|-.|+..+
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl 354 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL------NMALVSFSSVESAILALDAL 354 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhheecccc------cchhhhhHHHHHHHHhhhhh
Confidence 44555566677788899999999999988766663 48999999999988887765
No 156
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=50.38 E-value=2.5 Score=29.59 Aligned_cols=34 Identities=9% Similarity=-0.042 Sum_probs=25.9
Q ss_pred ceeeeccccCCcccCCCCCcccCCCChHHHHHHh
Q 033266 7 NSVFYAGSYHPIQAGSIDGTDIHPHDNAICRALL 40 (123)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~r~~~ 40 (123)
.+++++.+++.|+..++-||.|+..-..+.|...
T Consensus 61 ~aEDAaaAiDNMnesEL~GrtirVN~AkP~kike 94 (298)
T KOG0111|consen 61 EAEDAAAAIDNMNESELFGRTIRVNLAKPEKIKE 94 (298)
T ss_pred ccchhHHHhhcCchhhhcceeEEEeecCCccccC
Confidence 4678999999999999999999765444444433
No 157
>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=47.08 E-value=17 Score=17.82 Aligned_cols=16 Identities=25% Similarity=0.339 Sum_probs=10.2
Q ss_pred CCCcHHHHHHHhhccC
Q 033266 70 HFTSEDTLRKAMSKYG 85 (123)
Q Consensus 70 ~~~~e~~l~~~f~~~G 85 (123)
.++++++|++.|.+..
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 3688999999998764
No 158
>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=47.04 E-value=12 Score=22.26 Aligned_cols=23 Identities=26% Similarity=0.439 Sum_probs=19.6
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHh
Q 033266 59 PHCTVFVGRLSHFTSEDTLRKAM 81 (123)
Q Consensus 59 ~~~~l~v~~l~~~~~e~~l~~~f 81 (123)
..++|.|.|||....+++|++.+
T Consensus 51 s~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 51 SKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred cCCEEEEeCCCCCCChhhheeeE
Confidence 45689999999999999998754
No 159
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=43.26 E-value=67 Score=19.44 Aligned_cols=48 Identities=15% Similarity=0.202 Sum_probs=27.6
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecC
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYET 111 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~ 111 (123)
.-+|||+++..+-+.-...+-..++.-.-+-+..+ ....||.|-.+..
T Consensus 28 ~GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~---~~eqG~~~~t~G~ 75 (97)
T PRK11558 28 AGVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWAT---NTESGFEFQTFGE 75 (97)
T ss_pred CCcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcC---CCCCCcEEEecCC
Confidence 35999999888776555554444543222222222 2334888876643
No 160
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=41.48 E-value=55 Score=25.32 Aligned_cols=40 Identities=18% Similarity=0.327 Sum_probs=29.7
Q ss_pred CCCCCCCcEEEEcCCCCC-CcHHHHHHHhhcc----CCeeEEEEe
Q 033266 54 KAIGDPHCTVFVGRLSHF-TSEDTLRKAMSKY----GRVKNLRLV 93 (123)
Q Consensus 54 ~~~~~~~~~l~v~~l~~~-~~e~~l~~~f~~~----G~i~~~~~~ 93 (123)
++.+.+..+|-|-||.|+ +...+|...|+.| |.+..|.|.
T Consensus 140 pe~G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iy 184 (622)
T COG5638 140 PEEGNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIY 184 (622)
T ss_pred cCCCCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEec
Confidence 344677889999999997 6667888888765 556666653
No 161
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=40.33 E-value=3.5 Score=32.53 Aligned_cols=51 Identities=10% Similarity=0.098 Sum_probs=36.2
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEec
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYE 110 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~ 110 (123)
.+.+|+.|+++.++-++|..++..+....++.+...........+..|.|.
T Consensus 231 e~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk 281 (648)
T KOG2295|consen 231 ECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFK 281 (648)
T ss_pred HHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhc
Confidence 568999999999999999999998876666555333222233445566665
No 162
>PF14893 PNMA: PNMA
Probab=39.38 E-value=24 Score=26.21 Aligned_cols=25 Identities=20% Similarity=0.341 Sum_probs=20.7
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhh
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMS 82 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~ 82 (123)
+..+.|.|.+||.++++++|++.+.
T Consensus 16 ~~~r~lLv~giP~dc~~~ei~e~l~ 40 (331)
T PF14893_consen 16 DPQRALLVLGIPEDCEEAEIEEALQ 40 (331)
T ss_pred ChhhhheeecCCCCCCHHHHHHHHH
Confidence 3456789999999999999887774
No 163
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=37.87 E-value=13 Score=20.91 Aligned_cols=25 Identities=16% Similarity=0.185 Sum_probs=17.5
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHh
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAM 81 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f 81 (123)
..-++.+|+|++|..+-++.=..++
T Consensus 24 s~tSr~vflG~IP~~W~~~~~~~~~ 48 (67)
T PF15407_consen 24 SLTSRRVFLGPIPEIWLQDHRKSWY 48 (67)
T ss_pred HHcCceEEECCCChHHHHcCcchHH
Confidence 3456799999999987665444433
No 164
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=35.73 E-value=54 Score=18.24 Aligned_cols=29 Identities=17% Similarity=0.102 Sum_probs=20.5
Q ss_pred CcHHHHHHHhhccCCeeEEEEeecCCCCC
Q 033266 72 TSEDTLRKAMSKYGRVKNLRLVRDIVTGA 100 (123)
Q Consensus 72 ~~e~~l~~~f~~~G~i~~~~~~~~~~~g~ 100 (123)
.-+..|.++|-+-.+|..+.+...+.-++
T Consensus 30 ~~e~eler~fl~~P~v~e~~l~EKKri~~ 58 (64)
T PF13046_consen 30 LVEVELERHFLPLPEVKEVALYEKKRIRK 58 (64)
T ss_pred HHHHHhhhhccCCCCceEEEEEEEEeeeC
Confidence 34567888888888899988876653333
No 165
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=35.36 E-value=60 Score=23.30 Aligned_cols=34 Identities=18% Similarity=0.058 Sum_probs=24.3
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEee
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVR 94 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~ 94 (123)
....|+|||+.++..-+..++...-.+....++.
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M~ 129 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFIIQDMVLMV 129 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCccceEEEEe
Confidence 4567999999999998888887654443444443
No 166
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=35.06 E-value=2.7 Score=32.20 Aligned_cols=60 Identities=18% Similarity=0.245 Sum_probs=44.3
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEE-eecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRL-VRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~-~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
++++-+.|+|+...++.|..++.+||.+..|.. ..++++ -..-+.|.+.+.+..++.++|
T Consensus 80 srk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~et----avvnvty~~~~~~~~ai~kl~ 140 (584)
T KOG2193|consen 80 SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSET----AVVNVTYSAQQQHRQAIHKLN 140 (584)
T ss_pred hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHH----HHHHHHHHHHHHHHHHHHhhc
Confidence 567889999999999999999999999887754 333221 122356777777777877664
No 167
>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]
Probab=34.82 E-value=2e+02 Score=23.41 Aligned_cols=39 Identities=21% Similarity=0.242 Sum_probs=29.1
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeec
Q 033266 57 GDPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRD 95 (123)
Q Consensus 57 ~~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~ 95 (123)
+-+...+|+.+|+-+..++.=.++.........+.+.+.
T Consensus 298 Gl~~~evY~nGlSTSlP~dVQ~~~irsipGlEna~i~rp 336 (621)
T COG0445 298 GLDTDEVYPNGLSTSLPEDVQEQIIRSIPGLENAEILRP 336 (621)
T ss_pred CCCCceEecCcccccCCHHHHHHHHHhCcccccceeecc
Confidence 344668999999888887776777777767777777653
No 168
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=33.58 E-value=22 Score=27.15 Aligned_cols=60 Identities=22% Similarity=0.273 Sum_probs=45.1
Q ss_pred CcEEEEcCCCCCCcHH--------HHHHHhhc--cCCeeEEEEeecCCCCCcccEEEEEecCHHHHHHHH
Q 033266 60 HCTVFVGRLSHFTSED--------TLRKAMSK--YGRVKNLRLVRDIVTGASRGYAFVEYETEREMRRAY 119 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~--------~l~~~f~~--~G~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al 119 (123)
.+.+|+.+.......+ ++...|.. .+.+..++..++......+|--|++|.....+++.+
T Consensus 174 qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~n 243 (438)
T COG5193 174 QRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFN 243 (438)
T ss_pred hhhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHh
Confidence 4567777777655444 88888887 566677777776656677888899999999998876
No 169
>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=33.41 E-value=55 Score=18.89 Aligned_cols=22 Identities=32% Similarity=0.546 Sum_probs=19.0
Q ss_pred cccEEEEEecCHHHHHHHHHHc
Q 033266 101 SRGYAFVEYETEREMRRAYEVC 122 (123)
Q Consensus 101 ~~g~~fv~f~~~~~a~~al~~l 122 (123)
.+||-||+=.+..+...|++.+
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi 64 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGI 64 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-
T ss_pred CceEEEEEeCCHHHHHHHHhcc
Confidence 6899999999999999998754
No 170
>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=31.83 E-value=60 Score=22.88 Aligned_cols=31 Identities=32% Similarity=0.507 Sum_probs=23.5
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhh--ccCCeeEE
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMS--KYGRVKNL 90 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~--~~G~i~~~ 90 (123)
..-++|+|||+.++..-|..++. .+|....+
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~~~~~g~~~~~ 129 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLELYRFGRVRMV 129 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHHHGGGCEEEEE
T ss_pred CceEEEEEecccchHHHHHHHhhcccccccceE
Confidence 45788999999999998888886 45544433
No 171
>PRK11901 hypothetical protein; Reviewed
Probab=30.90 E-value=1.6e+02 Score=21.95 Aligned_cols=60 Identities=20% Similarity=0.279 Sum_probs=36.4
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEE--EEecCHHHHHHHHHHc
Q 033266 58 DPHCTVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAF--VEYETEREMRRAYEVC 122 (123)
Q Consensus 58 ~~~~~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~f--v~f~~~~~a~~al~~l 122 (123)
...++|-+..+ ..++.|..|..+.+ +..+.+..-...|+. +|.. =.|.+.++|..|+..|
T Consensus 243 ~~~YTLQL~Aa---s~~~~L~~f~~~~~-L~~~~VYqT~RnGkp-WYVVvyG~Y~Sr~eAk~Ai~sL 304 (327)
T PRK11901 243 ASHYTLQLSSA---SRSDTLNAYAKKQN-LSHYHVYETKRDGKP-WYVLVSGNYASSAEAKRAIATL 304 (327)
T ss_pred CCCeEEEeecC---CCHHHHHHHHHHcC-cCceEEEEEEECCce-EEEEEecCcCCHHHHHHHHHhC
Confidence 34456665554 44777888777665 333433333223443 4543 3789999999999865
No 172
>PHA01632 hypothetical protein
Probab=29.14 E-value=66 Score=17.41 Aligned_cols=21 Identities=24% Similarity=0.559 Sum_probs=17.2
Q ss_pred EEEcCCCCCCcHHHHHHHhhc
Q 033266 63 VFVGRLSHFTSEDTLRKAMSK 83 (123)
Q Consensus 63 l~v~~l~~~~~e~~l~~~f~~ 83 (123)
+.|..+|..-+|++|+..+.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 456689999999999988754
No 173
>TIGR01873 cas_CT1978 CRISPR-associated endoribonuclease Cas2, E. coli subfamily. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents a minor branch of the Cas2 family of CRISPR-associated endonuclease, whereas most Cas2 proteins are modeled instead by TIGR01573. This form of Cas2 is characteristic for the Ecoli subtype of CRISPR/Cas locus.
Probab=28.22 E-value=1.4e+02 Score=17.73 Aligned_cols=48 Identities=17% Similarity=0.241 Sum_probs=26.2
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhc-cCCeeEEEEeecCCCCCcccEEEEEecC
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSK-YGRVKNLRLVRDIVTGASRGYAFVEYET 111 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~-~G~i~~~~~~~~~~~g~~~g~~fv~f~~ 111 (123)
.-+|||+++..+-+.-...+-.. .+.- .+.+... +....||.|-.+..
T Consensus 26 ~GVyVg~~s~rVRe~lW~~v~~~~~~~G-~avm~~~--~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 26 AGVYVGGVSASVRERIWDYLAQHCPPKG-SLVITWS--SNTCPGFEFFTLGE 74 (87)
T ss_pred CCcEEcCCCHHHHHHHHHHHHHhCCCCc-cEEEEEe--CCCCCCcEEEecCC
Confidence 36999999888776544333333 2322 2222222 23345788877653
No 174
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=25.67 E-value=98 Score=21.98 Aligned_cols=22 Identities=14% Similarity=0.057 Sum_probs=18.4
Q ss_pred EEEEcCCCCCCcHHHHHHHhhc
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSK 83 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~ 83 (123)
.+.|+|+|+.++..-|..++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 5779999999998888888753
No 175
>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=24.82 E-value=1.1e+02 Score=15.53 Aligned_cols=27 Identities=19% Similarity=0.172 Sum_probs=21.0
Q ss_pred cEEEEcCCCCCCcHHHHHHHhhccCCe
Q 033266 61 CTVFVGRLSHFTSEDTLRKAMSKYGRV 87 (123)
Q Consensus 61 ~~l~v~~l~~~~~e~~l~~~f~~~G~i 87 (123)
..+++.+.........|.+++..+|..
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 357777776677889999999988863
No 176
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=23.47 E-value=2.5e+02 Score=19.23 Aligned_cols=55 Identities=18% Similarity=0.236 Sum_probs=35.3
Q ss_pred CcEEEEcCCCCCCcHHHHHHHhhc-cCCeeEEEEeecCCCC--CcccEEEEEecCHHHHHHHHH
Q 033266 60 HCTVFVGRLSHFTSEDTLRKAMSK-YGRVKNLRLVRDIVTG--ASRGYAFVEYETEREMRRAYE 120 (123)
Q Consensus 60 ~~~l~v~~l~~~~~e~~l~~~f~~-~G~i~~~~~~~~~~~g--~~~g~~fv~f~~~~~a~~al~ 120 (123)
.+++|.. .+++++..+..- -|.+..+...+.. .+ ..+|--||.|.+.+.+.++++
T Consensus 111 ~r~v~~K-----~td~ql~~l~qw~~~k~~nv~mr~~~-~k~~~fkGsvkv~f~tk~qa~a~~~ 168 (205)
T KOG4213|consen 111 ERTVYKK-----ITDDQLDDLNQWASGKGHNVKMRRHG-NKAHPFKGSVKVTFQTKEQAFANDD 168 (205)
T ss_pred Hhhhhcc-----CCHHHHHHHHHHhcccceEeeccccC-CCCCCCCCceEEEeecHHHHHhhhh
Confidence 4556654 555555554432 2677777655443 33 457889999999999888664
No 177
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=23.29 E-value=1.7e+02 Score=17.14 Aligned_cols=58 Identities=10% Similarity=0.198 Sum_probs=39.9
Q ss_pred EEEcCCCCCCcHHHHHHHhhc-cC-CeeEEEEeecCCCCCcccEEEEEecCHHHHHHHHHHcC
Q 033266 63 VFVGRLSHFTSEDTLRKAMSK-YG-RVKNLRLVRDIVTGASRGYAFVEYETEREMRRAYEVCG 123 (123)
Q Consensus 63 l~v~~l~~~~~e~~l~~~f~~-~G-~i~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~al~~l~ 123 (123)
-|+--++...+..+++..++. || .+..+....-+ . ..-=|||.+.....|......+|
T Consensus 23 ~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~-~--~~KKA~V~L~~g~~A~~va~kig 82 (84)
T PRK14548 23 KLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP-K--GEKKAYVKLAEEYDAEEIASRLG 82 (84)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC-C--CcEEEEEEeCCCCcHHHHHHhhc
Confidence 344456788999999988887 66 36666655543 2 22358999998888887765553
No 178
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=22.90 E-value=1.3e+02 Score=20.90 Aligned_cols=24 Identities=21% Similarity=0.054 Sum_probs=19.9
Q ss_pred EEEEcCCCCCCcHHHHHHHhhccC
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSKYG 85 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~~G 85 (123)
-+.|+|+|+.++...+..++..+|
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPK 119 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCC
Confidence 378999999999999998886444
No 179
>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=21.28 E-value=1.4e+02 Score=15.48 Aligned_cols=56 Identities=23% Similarity=0.283 Sum_probs=37.9
Q ss_pred EEEEcCCCCCCcHHHHHHHhhccCCeeEEEEeecCCCCCcccEEEEEecCH----HHHHHHHHHcC
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSKYGRVKNLRLVRDIVTGASRGYAFVEYETE----REMRRAYEVCG 123 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~~fv~f~~~----~~a~~al~~l~ 123 (123)
++.|.||.=.-....++..+...-.|..+.+-... +-.-|.|... +...++++.+|
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~------~~v~v~~~~~~~~~~~i~~~i~~~G 60 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLET------KTVTVTYDPDKTSIEKIIEAIEKAG 60 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTT------TEEEEEESTTTSCHHHHHHHHHHTT
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCC------CEEEEEEecCCCCHHHHHHHHHHhC
Confidence 35666676666677888999988888888775542 4666777532 56666776553
No 180
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=21.08 E-value=1.3e+02 Score=15.01 Aligned_cols=28 Identities=21% Similarity=0.230 Sum_probs=20.4
Q ss_pred ecCCCCCcccEEEEEecCHHHHHHHHHH
Q 033266 94 RDIVTGASRGYAFVEYETEREMRRAYEV 121 (123)
Q Consensus 94 ~~~~~g~~~g~~fv~f~~~~~a~~al~~ 121 (123)
.++.+|+.+...---|.+..+|..++..
T Consensus 9 ~~~~~Gkrk~~~k~GF~TkkeA~~~~~~ 36 (46)
T PF14657_consen 9 YDDETGKRKQKTKRGFKTKKEAEKALAK 36 (46)
T ss_pred EECCCCCEEEEEcCCCCcHHHHHHHHHH
Confidence 4555777766666568899999988764
No 181
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=20.21 E-value=1.2e+02 Score=22.00 Aligned_cols=22 Identities=18% Similarity=0.140 Sum_probs=18.2
Q ss_pred EEEEcCCCCCCcHHHHHHHhhc
Q 033266 62 TVFVGRLSHFTSEDTLRKAMSK 83 (123)
Q Consensus 62 ~l~v~~l~~~~~e~~l~~~f~~ 83 (123)
.+.|+|+|+.++...+..++..
T Consensus 103 d~VvaNlPY~Istpil~~ll~~ 124 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAH 124 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhc
Confidence 4778999999998888887754
Done!