Query 021044
Match_columns 318
No_of_seqs 382 out of 2221
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 07:10:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021044.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021044hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0116 RasGAP SH3 binding pro 100.0 5.5E-41 1.2E-45 325.2 22.5 280 1-318 68-355 (419)
2 KOG2104 Nuclear transport fact 99.8 3.2E-20 6.9E-25 148.0 7.4 65 2-67 57-124 (126)
3 cd00780 NTF2 Nuclear transport 99.7 4.1E-17 8.9E-22 133.7 8.9 65 1-66 53-119 (119)
4 PF02136 NTF2: Nuclear transpo 99.6 9.6E-15 2.1E-19 118.6 7.5 63 2-64 52-118 (118)
5 PLN03134 glycine-rich RNA-bind 99.4 1.5E-12 3.2E-17 110.6 9.0 65 250-314 33-97 (144)
6 KOG0149 Predicted RNA-binding 99.4 1.5E-12 3.3E-17 116.2 7.2 66 249-314 10-75 (247)
7 PF00076 RRM_1: RNA recognitio 99.3 4.5E-12 9.8E-17 92.5 8.5 61 254-315 1-61 (70)
8 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.3 9.2E-12 2E-16 119.2 11.2 67 249-315 267-333 (352)
9 KOG4353 RNA export factor NXT1 99.3 1.7E-12 3.7E-17 105.4 3.6 64 3-67 64-137 (139)
10 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.2 2E-11 4.4E-16 116.9 9.0 64 251-314 3-66 (352)
11 TIGR01659 sex-lethal sex-letha 99.2 3E-11 6.6E-16 116.4 9.8 68 247-314 103-170 (346)
12 PF14259 RRM_6: RNA recognitio 99.2 4.1E-11 9E-16 88.2 7.9 63 254-317 1-64 (70)
13 KOG0125 Ataxin 2-binding prote 99.2 8.5E-11 1.8E-15 109.4 9.4 64 250-315 95-158 (376)
14 TIGR01645 half-pint poly-U bin 99.1 9.7E-11 2.1E-15 119.5 8.8 65 250-314 106-170 (612)
15 KOG0122 Translation initiation 99.1 3E-10 6.5E-15 102.1 10.3 66 249-314 187-252 (270)
16 TIGR01659 sex-lethal sex-letha 99.1 1.6E-10 3.6E-15 111.3 8.7 66 251-316 193-258 (346)
17 KOG0107 Alternative splicing f 99.1 1.4E-10 3.1E-15 99.5 5.8 60 250-314 9-68 (195)
18 KOG0117 Heterogeneous nuclear 99.1 3.2E-10 6.8E-15 109.3 8.6 66 250-315 82-147 (506)
19 KOG0121 Nuclear cap-binding pr 99.1 1.9E-10 4.1E-15 94.2 5.9 67 249-315 34-100 (153)
20 PLN03120 nucleic acid binding 99.1 3.9E-10 8.4E-15 103.5 8.4 59 251-312 4-62 (260)
21 TIGR01645 half-pint poly-U bin 99.1 3.5E-10 7.6E-15 115.5 8.8 66 250-315 203-268 (612)
22 TIGR01648 hnRNP-R-Q heterogene 99.1 3.9E-10 8.5E-15 114.7 8.7 64 250-314 57-120 (578)
23 smart00362 RRM_2 RNA recogniti 99.0 1E-09 2.2E-14 78.9 8.1 60 253-314 1-60 (72)
24 KOG0144 RNA-binding protein CU 99.0 6.7E-10 1.5E-14 106.7 8.9 69 248-316 31-99 (510)
25 PLN03213 repressor of silencin 99.0 7.4E-10 1.6E-14 107.9 8.0 62 249-314 8-71 (759)
26 PLN03121 nucleic acid binding 99.0 1.1E-09 2.4E-14 99.2 8.2 62 250-314 4-65 (243)
27 KOG0113 U1 small nuclear ribon 99.0 1.4E-09 3E-14 100.3 8.7 66 249-314 99-164 (335)
28 TIGR01628 PABP-1234 polyadenyl 99.0 1.1E-09 2.5E-14 111.7 8.8 63 253-315 2-64 (562)
29 TIGR01642 U2AF_lg U2 snRNP aux 99.0 1.3E-09 2.8E-14 109.6 8.9 65 250-314 294-358 (509)
30 TIGR01622 SF-CC1 splicing fact 99.0 1.9E-09 4.1E-14 107.1 9.0 65 249-313 87-151 (457)
31 smart00360 RRM RNA recognition 99.0 3.1E-09 6.8E-14 75.9 7.7 59 256-314 1-59 (71)
32 TIGR01628 PABP-1234 polyadenyl 99.0 1.8E-09 4E-14 110.2 8.8 65 250-315 284-348 (562)
33 COG0724 RNA-binding proteins ( 98.9 3.3E-09 7.1E-14 95.0 8.3 64 251-314 115-178 (306)
34 TIGR01622 SF-CC1 splicing fact 98.9 3.4E-09 7.3E-14 105.3 8.7 65 251-315 186-250 (457)
35 KOG0127 Nucleolar protein fibr 98.9 5.1E-09 1.1E-13 103.2 8.8 67 247-313 288-354 (678)
36 KOG0144 RNA-binding protein CU 98.9 1.2E-09 2.6E-14 104.9 4.2 65 250-315 123-187 (510)
37 KOG0148 Apoptosis-promoting RN 98.8 6.3E-09 1.4E-13 94.9 7.3 66 251-316 62-127 (321)
38 KOG0114 Predicted RNA-binding 98.8 7.6E-09 1.6E-13 81.9 6.7 63 250-315 17-79 (124)
39 KOG0146 RNA-binding protein ET 98.8 5E-09 1.1E-13 95.5 6.1 67 248-314 282-348 (371)
40 cd00590 RRM RRM (RNA recogniti 98.8 2E-08 4.4E-13 72.4 8.3 63 253-316 1-63 (74)
41 KOG0105 Alternative splicing f 98.8 4.1E-09 9E-14 91.4 4.7 62 250-314 5-66 (241)
42 KOG0126 Predicted RNA-binding 98.8 6.3E-10 1.4E-14 96.1 -1.6 71 244-314 28-98 (219)
43 KOG4207 Predicted splicing fac 98.8 1E-08 2.2E-13 90.4 5.4 66 250-315 12-77 (256)
44 KOG0131 Splicing factor 3b, su 98.7 1.2E-08 2.7E-13 88.2 4.8 66 249-314 7-72 (203)
45 KOG0124 Polypyrimidine tract-b 98.7 9.9E-09 2.1E-13 97.0 4.1 69 250-318 112-181 (544)
46 KOG0148 Apoptosis-promoting RN 98.7 2.9E-08 6.2E-13 90.7 6.9 60 249-314 162-221 (321)
47 KOG0145 RNA-binding protein EL 98.7 6.6E-08 1.4E-12 87.9 8.9 65 250-314 40-104 (360)
48 KOG0145 RNA-binding protein EL 98.7 1.2E-08 2.5E-13 92.7 3.9 66 250-315 126-191 (360)
49 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.7 3.9E-08 8.5E-13 98.9 8.2 57 251-313 2-58 (481)
50 KOG0130 RNA-binding protein RB 98.6 5.3E-08 1.1E-12 80.6 5.7 65 250-314 71-135 (170)
51 KOG0111 Cyclophilin-type pepti 98.6 1.4E-08 3.1E-13 90.1 2.5 65 250-314 9-73 (298)
52 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.6 9.7E-08 2.1E-12 96.1 8.5 60 250-314 274-334 (481)
53 TIGR01648 hnRNP-R-Q heterogene 98.6 1E-07 2.2E-12 97.3 8.5 57 250-314 232-290 (578)
54 KOG0108 mRNA cleavage and poly 98.6 7.2E-08 1.6E-12 95.1 6.6 63 252-314 19-81 (435)
55 KOG0117 Heterogeneous nuclear 98.6 8.5E-08 1.9E-12 92.7 6.4 73 235-315 243-315 (506)
56 KOG0146 RNA-binding protein ET 98.6 6.4E-08 1.4E-12 88.3 5.3 64 250-314 18-81 (371)
57 KOG0147 Transcriptional coacti 98.6 4.3E-08 9.3E-13 96.9 4.4 66 250-315 277-342 (549)
58 smart00361 RRM_1 RNA recogniti 98.6 2.2E-07 4.8E-12 68.9 6.7 51 265-315 2-59 (70)
59 KOG0109 RNA-binding protein LA 98.5 7.7E-08 1.7E-12 88.7 4.0 56 252-315 3-58 (346)
60 KOG0127 Nucleolar protein fibr 98.5 1.7E-07 3.7E-12 92.6 6.1 65 250-314 4-68 (678)
61 KOG4205 RNA-binding protein mu 98.5 9.6E-08 2.1E-12 90.5 3.6 67 250-316 5-71 (311)
62 KOG0123 Polyadenylate-binding 98.4 4.1E-07 9E-12 88.5 7.2 61 254-317 79-139 (369)
63 KOG0110 RNA-binding protein (R 98.4 1.9E-07 4.2E-12 94.6 4.1 65 250-314 612-676 (725)
64 TIGR01642 U2AF_lg U2 snRNP aux 98.4 6.6E-07 1.4E-11 90.0 7.3 56 250-311 174-241 (509)
65 KOG0124 Polypyrimidine tract-b 98.4 4.5E-07 9.9E-12 85.9 5.5 68 248-315 207-274 (544)
66 KOG4661 Hsp27-ERE-TATA-binding 98.3 2.1E-06 4.6E-11 85.4 9.6 66 250-315 404-469 (940)
67 KOG4208 Nucleolar RNA-binding 98.3 1.1E-06 2.4E-11 77.6 6.8 66 250-315 48-114 (214)
68 KOG0131 Splicing factor 3b, su 98.3 6.4E-07 1.4E-11 77.7 4.4 65 250-314 95-160 (203)
69 KOG0415 Predicted peptidyl pro 98.2 1.3E-06 2.7E-11 82.7 5.1 63 252-314 240-302 (479)
70 KOG0151 Predicted splicing reg 98.2 4.7E-06 1E-10 84.8 7.6 70 248-317 171-243 (877)
71 KOG4205 RNA-binding protein mu 98.2 2.7E-06 5.9E-11 80.7 5.5 63 250-312 96-158 (311)
72 PF13893 RRM_5: RNA recognitio 98.1 7.7E-06 1.7E-10 57.6 6.4 43 268-315 1-43 (56)
73 KOG0110 RNA-binding protein (R 98.1 3.7E-06 8.1E-11 85.5 6.3 66 250-315 514-582 (725)
74 KOG4212 RNA-binding protein hn 98.1 8.2E-06 1.8E-10 79.1 7.2 65 250-315 43-108 (608)
75 KOG4206 Spliceosomal protein s 98.1 1E-05 2.2E-10 72.5 7.0 61 252-315 10-74 (221)
76 KOG0109 RNA-binding protein LA 98.0 3.8E-06 8.2E-11 77.7 3.9 57 250-314 77-133 (346)
77 KOG0132 RNA polymerase II C-te 98.0 8E-06 1.7E-10 83.9 6.5 59 250-314 420-478 (894)
78 KOG0153 Predicted RNA-binding 98.0 1.1E-05 2.4E-10 76.2 6.1 60 249-314 226-285 (377)
79 KOG1457 RNA binding protein (c 98.0 5.3E-05 1.2E-09 67.9 9.5 68 249-316 32-100 (284)
80 KOG0226 RNA-binding proteins [ 97.9 1.9E-05 4.1E-10 71.9 6.0 65 250-314 189-253 (290)
81 KOG0123 Polyadenylate-binding 97.9 2.4E-05 5.1E-10 76.3 6.9 64 250-314 269-332 (369)
82 KOG0106 Alternative splicing f 97.8 1.2E-05 2.5E-10 72.4 2.7 56 252-315 2-57 (216)
83 KOG1457 RNA binding protein (c 97.6 0.00011 2.4E-09 65.9 5.9 61 251-315 210-270 (284)
84 KOG4212 RNA-binding protein hn 97.6 0.00012 2.7E-09 71.1 6.4 62 249-315 534-595 (608)
85 PF04059 RRM_2: RNA recognitio 97.5 0.00069 1.5E-08 53.7 8.4 63 252-314 2-66 (97)
86 KOG4660 Protein Mei2, essentia 97.5 0.00015 3.2E-09 72.4 5.5 60 250-314 74-133 (549)
87 KOG4209 Splicing factor RNPS1, 97.4 0.00014 3.1E-09 66.5 4.3 63 249-311 99-161 (231)
88 KOG0533 RRM motif-containing p 97.4 0.00032 6.9E-09 64.4 6.5 65 250-315 82-146 (243)
89 PF08777 RRM_3: RNA binding mo 97.2 0.0012 2.5E-08 53.2 6.4 58 251-314 1-58 (105)
90 KOG0129 Predicted RNA-binding 97.1 0.0012 2.7E-08 65.5 6.7 65 249-314 257-327 (520)
91 KOG1548 Transcription elongati 97.0 0.0016 3.4E-08 61.9 6.9 65 250-314 133-204 (382)
92 KOG4454 RNA binding protein (R 97.0 0.00039 8.4E-09 62.3 2.1 62 251-314 9-70 (267)
93 KOG4211 Splicing factor hnRNP- 96.9 0.0029 6.4E-08 62.5 7.6 66 250-318 9-74 (510)
94 KOG0120 Splicing factor U2AF, 96.8 0.00094 2E-08 67.0 3.3 67 250-316 288-354 (500)
95 KOG4211 Splicing factor hnRNP- 96.7 0.0039 8.4E-08 61.7 7.0 66 252-318 104-170 (510)
96 KOG0147 Transcriptional coacti 96.6 0.00082 1.8E-08 67.1 1.3 65 247-311 175-239 (549)
97 KOG0129 Predicted RNA-binding 96.4 0.0072 1.6E-07 60.2 6.4 66 250-315 369-435 (520)
98 PF14605 Nup35_RRM_2: Nup53/35 96.1 0.017 3.8E-07 40.5 5.3 52 252-310 2-53 (53)
99 KOG4849 mRNA cleavage factor I 95.9 0.0099 2.1E-07 56.7 4.7 65 250-314 79-145 (498)
100 KOG4210 Nuclear localization s 95.8 0.0045 9.8E-08 58.4 1.8 61 251-311 184-245 (285)
101 KOG0128 RNA-binding protein SA 95.5 0.0024 5.1E-08 66.8 -1.5 66 249-314 665-730 (881)
102 KOG1365 RNA-binding protein Fu 95.4 0.041 8.8E-07 53.2 6.8 67 252-318 162-231 (508)
103 KOG4206 Spliceosomal protein s 94.8 0.077 1.7E-06 47.9 6.4 60 251-315 146-205 (221)
104 KOG0106 Alternative splicing f 94.7 0.017 3.6E-07 52.2 1.8 57 250-314 98-154 (216)
105 KOG0115 RNA-binding protein p5 94.6 0.037 8E-07 50.9 3.7 61 252-313 32-92 (275)
106 KOG1855 Predicted RNA-binding 94.5 0.041 8.9E-07 53.8 4.0 66 248-313 228-306 (484)
107 PF11608 Limkain-b1: Limkain b 94.0 0.22 4.8E-06 38.4 6.4 53 252-314 3-60 (90)
108 PF05172 Nup35_RRM: Nup53/35/4 93.9 0.062 1.3E-06 42.8 3.4 67 250-317 5-78 (100)
109 KOG1995 Conserved Zn-finger pr 93.7 0.081 1.8E-06 50.7 4.3 64 250-313 65-136 (351)
110 KOG1190 Polypyrimidine tract-b 93.2 0.064 1.4E-06 52.3 2.8 53 250-308 27-79 (492)
111 KOG2193 IGF-II mRNA-binding pr 93.1 0.096 2.1E-06 51.3 3.8 58 252-315 2-59 (584)
112 PF10309 DUF2414: Protein of u 93.0 0.47 1E-05 34.5 6.3 55 250-313 4-62 (62)
113 KOG2314 Translation initiation 92.9 0.13 2.8E-06 52.1 4.5 64 251-315 58-127 (698)
114 KOG1365 RNA-binding protein Fu 92.3 0.15 3.2E-06 49.5 3.7 65 252-316 281-347 (508)
115 KOG0128 RNA-binding protein SA 92.0 0.07 1.5E-06 56.2 1.4 64 251-315 736-799 (881)
116 KOG0105 Alternative splicing f 91.6 0.56 1.2E-05 41.4 6.3 57 251-314 115-171 (241)
117 COG5175 MOT2 Transcriptional r 91.6 0.33 7.1E-06 46.4 5.2 63 252-314 115-186 (480)
118 KOG3152 TBP-binding protein, a 91.5 0.15 3.3E-06 46.9 2.9 65 250-314 73-149 (278)
119 KOG0112 Large RNA-binding prot 91.1 0.23 5.1E-06 52.7 4.1 58 250-313 454-511 (975)
120 KOG4307 RNA binding protein RB 91.1 0.46 1E-05 49.4 6.1 62 253-314 869-930 (944)
121 KOG1190 Polypyrimidine tract-b 90.0 1.5 3.3E-05 43.0 8.2 59 251-314 297-356 (492)
122 PF08675 RNA_bind: RNA binding 89.8 1.5 3.3E-05 33.8 6.5 55 251-314 9-63 (87)
123 cd00531 NTF2_like Nuclear tran 89.7 2.7 5.8E-05 32.2 8.3 57 8-64 64-123 (124)
124 KOG0112 Large RNA-binding prot 87.7 0.12 2.6E-06 54.8 -0.9 65 249-314 370-434 (975)
125 KOG0120 Splicing factor U2AF, 87.5 0.94 2E-05 45.9 5.2 50 266-315 424-476 (500)
126 KOG4676 Splicing factor, argin 85.9 0.56 1.2E-05 45.7 2.6 59 252-310 8-69 (479)
127 PF15023 DUF4523: Protein of u 85.7 2.7 5.9E-05 35.7 6.2 60 249-315 84-147 (166)
128 KOG2253 U1 snRNP complex, subu 85.2 1.1 2.4E-05 46.3 4.4 55 251-314 40-94 (668)
129 KOG1456 Heterogeneous nuclear 85.0 2.7 5.9E-05 40.9 6.6 60 250-314 286-346 (494)
130 KOG2416 Acinus (induces apopto 83.8 0.6 1.3E-05 47.7 1.8 60 250-315 443-503 (718)
131 KOG1548 Transcription elongati 80.0 4.4 9.5E-05 39.1 5.9 62 250-315 264-336 (382)
132 PF10429 Mtr2: Nuclear pore RN 79.3 3 6.5E-05 36.1 4.2 49 2-51 59-109 (166)
133 KOG1456 Heterogeneous nuclear 78.7 3.6 7.8E-05 40.1 5.0 55 251-311 31-85 (494)
134 PF03467 Smg4_UPF3: Smg-4/UPF3 78.4 2.3 5E-05 37.2 3.4 64 250-313 6-75 (176)
135 KOG2591 c-Mpl binding protein, 78.1 8.4 0.00018 39.4 7.5 63 245-314 169-233 (684)
136 KOG4210 Nuclear localization s 77.6 1.3 2.7E-05 42.0 1.6 65 250-314 87-151 (285)
137 KOG2068 MOT2 transcription fac 76.2 2.3 5.1E-05 40.7 3.0 66 252-317 78-149 (327)
138 KOG4410 5-formyltetrahydrofola 75.9 3.7 7.9E-05 38.7 4.1 50 250-304 329-378 (396)
139 KOG4285 Mitotic phosphoprotein 75.6 4.8 0.0001 38.2 4.8 59 253-318 199-257 (350)
140 KOG4307 RNA binding protein RB 68.5 7 0.00015 41.0 4.5 62 249-311 432-494 (944)
141 KOG4660 Protein Mei2, essentia 68.4 7.7 0.00017 39.5 4.7 64 253-316 390-454 (549)
142 PF13474 SnoaL_3: SnoaL-like d 66.2 38 0.00082 26.1 7.6 52 9-61 62-115 (121)
143 KOG2202 U2 snRNP splicing fact 64.2 3.3 7.1E-05 38.3 1.1 48 266-315 83-132 (260)
144 KOG1996 mRNA splicing factor [ 57.4 27 0.00058 33.2 5.8 50 265-314 300-350 (378)
145 PF08952 DUF1866: Domain of un 54.5 25 0.00055 29.9 4.7 44 266-317 51-94 (146)
146 PRK11901 hypothetical protein; 50.2 2.3E+02 0.005 27.4 10.9 61 250-315 244-306 (327)
147 PF15008 DUF4518: Domain of un 45.3 29 0.00063 32.4 4.0 52 13-65 205-259 (262)
148 KOG4676 Splicing factor, argin 43.6 5.7 0.00012 39.0 -0.9 60 251-314 151-210 (479)
149 PF07576 BRAP2: BRCA1-associat 42.0 1.8E+02 0.004 23.4 8.5 62 252-314 13-75 (110)
150 PF11767 SET_assoc: Histone ly 39.2 1.3E+02 0.0028 22.0 5.9 44 262-314 11-54 (66)
151 KOG2891 Surface glycoprotein [ 37.0 32 0.0007 32.4 3.0 23 263-285 173-195 (445)
152 KOG3763 mRNA export factor TAP 36.3 77 0.0017 32.8 5.7 63 2-66 424-497 (585)
153 PF15513 DUF4651: Domain of un 34.7 65 0.0014 23.4 3.6 19 266-284 9-27 (62)
154 KOG3430 Dynein light chain typ 34.4 56 0.0012 25.5 3.4 29 266-302 41-71 (90)
155 COG0724 RNA-binding proteins ( 31.5 51 0.0011 28.6 3.3 35 249-283 223-257 (306)
156 KOG4454 RNA binding protein (R 31.4 11 0.00024 34.3 -1.0 67 246-313 75-145 (267)
157 PF03468 XS: XS domain; Inter 30.6 90 0.002 25.4 4.3 44 264-310 30-74 (116)
158 PF05629 Nanovirus_C8: Nanovir 29.3 1.3E+02 0.0029 25.0 5.0 61 9-70 28-106 (153)
159 KOG4483 Uncharacterized conser 27.0 98 0.0021 30.8 4.5 55 252-312 392-446 (528)
160 PF09707 Cas_Cas2CT1978: CRISP 25.5 1.4E+02 0.0031 23.0 4.4 47 252-301 26-72 (86)
161 TIGR01873 cas_CT1978 CRISPR-as 25.4 73 0.0016 24.7 2.7 48 252-302 26-74 (87)
162 KOG4574 RNA-binding protein (c 24.4 36 0.00079 36.7 1.2 59 251-315 298-356 (1007)
163 PRK10905 cell division protein 23.1 5.2E+02 0.011 25.0 8.5 61 250-315 246-308 (328)
164 cd05701 S1_Rrp5_repeat_hs10 S1 22.2 31 0.00067 25.3 0.1 11 58-68 35-45 (69)
165 KOG2135 Proteins containing th 21.3 33 0.00072 34.6 0.2 46 259-310 380-426 (526)
166 PRK11558 putative ssRNA endonu 20.9 1.6E+02 0.0035 23.3 3.9 49 252-303 28-76 (97)
167 COG2075 RPL24A Ribosomal prote 20.6 75 0.0016 23.3 1.8 16 51-66 16-33 (66)
168 PF12893 Lumazine_bd_2: Putati 20.0 4.3E+02 0.0093 20.6 7.9 46 9-63 71-116 (116)
No 1
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=100.00 E-value=5.5e-41 Score=325.23 Aligned_cols=280 Identities=32% Similarity=0.472 Sum_probs=163.0
Q ss_pred CCCCccce--EEEEeeecccCCCcEEEEEEEEEEecCCccccceeEEEEeeeeCCeEEEEcceEeeeccccccCCccccc
Q 021044 1 MSLNYSGI--EIKTAHSLESWNGGVLVMVSGSVQVKDFSARRKFVQTFFLAPQEKGYFVLNDIFHFIGEEQFHHHPAVLL 78 (318)
Q Consensus 1 ~sl~~~~~--~i~~~D~q~s~~~gvlv~v~G~l~~~~~~~~~~F~Q~F~L~~~~~~y~v~nDifr~~~~~~~~~~~~~~~ 78 (318)
|+|+|..| +|.++|+|.|+++||||+|+|.|++++.+ +|+|+|||||+||+++|||+||||||+|++...+...
T Consensus 68 ~sld~~~~s~eI~tvdsQ~S~~~GvvI~VtG~lt~~~~~-rRkF~QtFfLapq~~~yfVlNDiFRfvde~~~~e~~~--- 143 (419)
T KOG0116|consen 68 MSLDYEVCSVEISTVDSQASLEKGVVIMVTGYLTNKDGP-RRKFSQTFFLAPQEKGYFVLNDIFRFVDEEFEPEANT--- 143 (419)
T ss_pred eecCCCceeEEEEEEehhhhccCCeEEEEEEEEEeCCCc-ceEEEEEEEEeecCCceEEEechhhhccccccccccc---
Confidence 78999987 89999999999999999999999999987 7999999999999999999999999999876221110
Q ss_pred cccccCcCCCCCCCCCCCCCCC-CCCCccccccccCcccc---cCCCcCCCCC-CccccccCCCCcCcccCCCCcccccc
Q 021044 79 AHSNFNSKLSASVTIPEPVPNH-LMGGEIQAREYVSPVDV---KQNGLIDDYS-FPEQRLQQVPESENILEDSPAEELNG 153 (318)
Q Consensus 79 ~~~~~~~~~~~~~~~~ep~~~~-~~~~~~~~~~~~~~~~~---~~~~~~~~~~-~~e~~~~~~~~~~~v~~e~~~~e~~~ 153 (318)
.. +|++-..+ ..... +...+.++.+ +.+....... +.+++..... .+ ...+.. +|...
T Consensus 144 --~~----------vp~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~V~~~~~~~~~-~~-~~~~~~-ee~v~ 206 (419)
T KOG0116|consen 144 --DE----------VPEANPAVVVSVEK--ASQLVEAVVESEPEPEPEPKAEDEVEVPEEATVE-DE-AKEKTK-EELVI 206 (419)
T ss_pred --cc----------CCCCCcceeecccc--cccccccccccCCCCcccccccCceecccccccc-cc-ccccCc-hhhcc
Confidence 00 01110000 00000 0000001100 0000000000 0000000000 00 000011 11000
Q ss_pred ccccccccccCCCCCCCCCCCCCCCcchhhHHHHHhhCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCccccCCCccc
Q 021044 154 SLQNAVNAAQDYLPASVEEPVGEPQKHTYASILRVAKGQSTPSVTPQPSVSKNISPVSDW-NHVPQPTTQQETVSSYAYE 232 (318)
Q Consensus 154 ~~~~~~~~~~~~~~~~~~~~~ee~~kksyAsiv~~~k~~~~~~~~p~~p~~k~~~p~~~~-~~~~~p~~~~~~~~~~~~~ 232 (318)
. ..+...+. .++.+.+|+|||||+++++....+......|. +. ..| ++...+.+.....++.+..
T Consensus 207 ~-----~~~~~~p~----~~~~~~~~~s~asv~~~~~~~~~~~~~~~~p~-~~----~~~~~p~~~~~~~~~s~~~~p~~ 272 (419)
T KOG0116|consen 207 Q-----QTVSEAPA----APQGDAPKKSFASVVKVLKKSAAVQQSKGSPP-QI----QPQQQPSTKPQAERQSKPPSPVR 272 (419)
T ss_pred c-----ccccCCCc----cccccccchhhhhhhhhcccccccceeccCCC-cc----ccccCCccCcchhhccCCCCccc
Confidence 0 01111111 12689999999999998877655422111111 10 111 1111111111111111111
Q ss_pred CCCCCCCCCCccccccccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHH
Q 021044 233 KSWADTGEEISAVEDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 312 (318)
Q Consensus 233 ~~~~~~~~~~~~~~~~~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~a 312 (318)
.... ......+....+..|||+|||++++..+|+++|++||.|+..+|+++...++..|||||+|++..+++.||++
T Consensus 273 ~~~~---~n~~~~~~~~~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A 349 (419)
T KOG0116|consen 273 ESKS---GNSNNQEPRADGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA 349 (419)
T ss_pred cccc---cccCCcceeecccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc
Confidence 1111 1122233344566799999999999999999999999999999999886666669999999999999999999
Q ss_pred hhhccC
Q 021044 313 CILMWH 318 (318)
Q Consensus 313 l~~~~~ 318 (318)
.++++|
T Consensus 350 sp~~ig 355 (419)
T KOG0116|consen 350 SPLEIG 355 (419)
T ss_pred CccccC
Confidence 998876
No 2
>KOG2104 consensus Nuclear transport factor 2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.81 E-value=3.2e-20 Score=148.03 Aligned_cols=65 Identities=37% Similarity=0.633 Sum_probs=60.0
Q ss_pred CCCccce--EEEEeeecccCCCcEEEEEEEEEEecCCccccceeEEEEeeee-CCeEEEEcceEeeecc
Q 021044 2 SLNYSGI--EIKTAHSLESWNGGVLVMVSGSVQVKDFSARRKFVQTFFLAPQ-EKGYFVLNDIFHFIGE 67 (318)
Q Consensus 2 sl~~~~~--~i~~~D~q~s~~~gvlv~v~G~l~~~~~~~~~~F~Q~F~L~~~-~~~y~v~nDifr~~~~ 67 (318)
||||++| .|+++||||+.+|||||+|+|.|+.++++ ..+|+|+|+|.+. +|+|||.|||||+...
T Consensus 57 sLpFqkiqh~IttvD~QPt~~g~ilv~V~G~Lk~dEd~-~~~FsQvF~L~~n~~~~~~v~ndiFRLn~~ 124 (126)
T KOG2104|consen 57 SLPFQKIQHSITTVDSQPTPDGGILVMVVGQLKLDEDP-ILRFSQVFLLKPNIQGSYYVFNDIFRLNLH 124 (126)
T ss_pred cCChhhhhceeeecccccCCCCcEEEEEeeeeeeccCC-ccceeeEEEEeEcCCCCEEEEeeeEEEecc
Confidence 8999998 69999999999999999999999999765 7899999999998 5899999999999653
No 3
>cd00780 NTF2 Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of macromolecules, ions and small molecules between the cytoplasm and nucleus. This bi-directional transport of macromolecules across the nuclear envelope requires many soluble factors that includes GDP-binding protein Ran (RanGDP). RanGDP is required for both import and export of proteins and poly(A) RNA. RanGDP also has been implicated in cell cycle control, specifically in mitotic spindle assembly. In interphase cells, RanGDP is predominately nuclear and thought to be GTP bound, but it is also present in the cytoplasm, probably in the GDP-bound state. NTF2 mediates the nuclear import of RanGDP. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins.
Probab=99.70 E-value=4.1e-17 Score=133.69 Aligned_cols=65 Identities=51% Similarity=0.788 Sum_probs=59.8
Q ss_pred CCCC--ccceEEEEeeecccCCCcEEEEEEEEEEecCCccccceeEEEEeeeeCCeEEEEcceEeeec
Q 021044 1 MSLN--YSGIEIKTAHSLESWNGGVLVMVSGSVQVKDFSARRKFVQTFFLAPQEKGYFVLNDIFHFIG 66 (318)
Q Consensus 1 ~sl~--~~~~~i~~~D~q~s~~~gvlv~v~G~l~~~~~~~~~~F~Q~F~L~~~~~~y~v~nDifr~~~ 66 (318)
++|| ..+++|.++|||++.++||||+|+|.|+.++.. .|+|+|+|+|.+++++|||+||||||++
T Consensus 53 ~~lp~~~~~~~i~~~d~q~~~~~~ili~V~G~~~~~~~~-~~~F~q~F~L~~~~~~~~I~nD~fr~~~ 119 (119)
T cd00780 53 SSLPFQKTKHKITTVDSQPTPSGGVIVMVTGSLKLDEQP-PRKFSQTFVLAPQNGGYFVLNDIFRFVD 119 (119)
T ss_pred HhCCCcceEEEEEEEeeeEcCCCCEEEEEEEEEEECCCC-ceeEeEEEEEEecCCeEEEEeeEEEecC
Confidence 4688 567899999999999999999999999999864 7999999999999999999999999985
No 4
>PF02136 NTF2: Nuclear transport factor 2 (NTF2) domain; InterPro: IPR002075 Nuclear transport factor 2 (NTF2) is a homodimer which stimulates efficient nuclear import of a cargo protein. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins. NTF2 folds into a cone with a deep hydrophobic cavity, the opening of which is surrounded by several negatively charged residues. RanGDP binds to NTF2 by inserting a conserved phenylalanine residue into the hydrophobic pocket of NTF2 and making electrostatic interactions with the conserved negatively charged residues that surround the cavity []. This entry represent the main structural domain of NTF2 and related domains which are found in other nuclear import proteins.; GO: 0006810 transport, 0005622 intracellular; PDB: 3UJM_B 1JKG_B 1JN5_B 1M98_A 3MG1_A 3MG2_A 3MG3_B 2Z76_A 2Z7A_D 2Z77_A ....
Probab=99.55 E-value=9.6e-15 Score=118.60 Aligned_cols=63 Identities=40% Similarity=0.680 Sum_probs=57.2
Q ss_pred CCCcc--ceEEEEeeec--ccCCCcEEEEEEEEEEecCCccccceeEEEEeeeeCCeEEEEcceEee
Q 021044 2 SLNYS--GIEIKTAHSL--ESWNGGVLVMVSGSVQVKDFSARRKFVQTFFLAPQEKGYFVLNDIFHF 64 (318)
Q Consensus 2 sl~~~--~~~i~~~D~q--~s~~~gvlv~v~G~l~~~~~~~~~~F~Q~F~L~~~~~~y~v~nDifr~ 64 (318)
+|+++ ++.|+++||| ++.+++|+|.|+|.++.++....|+|+|+|+|.+.+++|||.||||||
T Consensus 52 ~l~~~~~~~~i~~~d~qp~~~~~~~i~i~v~G~~~~~~~~~~~~F~q~FvL~~~~~~~~I~nd~~r~ 118 (118)
T PF02136_consen 52 SLPATGVQHRITSVDCQPSPSSDGSILITVTGQFKEDDNPNPRRFSQTFVLVPQNNGYFIANDIFRF 118 (118)
T ss_dssp HHTTSSEEEEEEEEEEEEEEECCSEEEEEEEEEEEETTSEEEEEEEEEEEEEEETTEEEEEEEEEEE
T ss_pred cCCCcccEEEecccccccccccCCcEEEEEEeEEEecCCCcccEEEEEEEEEEcCCEEEEEeeEEEC
Confidence 36677 5789999999 578999999999999999986469999999999999999999999998
No 5
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.39 E-value=1.5e-12 Score=110.55 Aligned_cols=65 Identities=15% Similarity=0.350 Sum_probs=60.8
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..++|||+||+.++++++|+++|++||.|..+.|.++..+++++|||||+|.+.++|++||+.|.
T Consensus 33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~ln 97 (144)
T PLN03134 33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMD 97 (144)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcC
Confidence 46889999999999999999999999999999988888888899999999999999999999874
No 6
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.35 E-value=1.5e-12 Score=116.25 Aligned_cols=66 Identities=20% Similarity=0.325 Sum_probs=61.5
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
...++||||+|++.++.+.|+++|++||.|.+..|..++.+|++||||||+|.|.++|.+|++...
T Consensus 10 T~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~ 75 (247)
T KOG0149|consen 10 TTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN 75 (247)
T ss_pred ceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC
Confidence 367899999999999999999999999999999888888899999999999999999999997653
No 7
>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=99.35 E-value=4.5e-12 Score=92.51 Aligned_cols=61 Identities=38% Similarity=0.563 Sum_probs=55.0
Q ss_pred eEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 254 VYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 254 IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
|||+|||.++++++|+++|++||.|..+.+... ..+..+|||||+|.+.++|++|++.++.
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g 61 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNG 61 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCC
Confidence 799999999999999999999999999877554 5666799999999999999999998863
No 8
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.32 E-value=9.2e-12 Score=119.25 Aligned_cols=67 Identities=18% Similarity=0.237 Sum_probs=62.0
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
..+++|||+|||.++++++|+++|++||.|..++|..+..++.++|||||.|.+.++|.+||.+|..
T Consensus 267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG 333 (352)
T TIGR01661 267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNG 333 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCC
Confidence 3567899999999999999999999999999999887777888999999999999999999999864
No 9
>KOG4353 consensus RNA export factor NXT1 [RNA processing and modification]
Probab=99.29 E-value=1.7e-12 Score=105.38 Aligned_cols=64 Identities=31% Similarity=0.428 Sum_probs=57.3
Q ss_pred CCccceEEEEeeecccCCC------cEEEEEEEEEEecCCccccceeEEEEeeeeCCeEE----EEcceEeeecc
Q 021044 3 LNYSGIEIKTAHSLESWNG------GVLVMVSGSVQVKDFSARRKFVQTFFLAPQEKGYF----VLNDIFHFIGE 67 (318)
Q Consensus 3 l~~~~~~i~~~D~q~s~~~------gvlv~v~G~l~~~~~~~~~~F~Q~F~L~~~~~~y~----v~nDifr~~~~ 67 (318)
||.++++|..+||||-+++ +|||+|+|.++++|+. .|.|.|+|+|..+++.|. |..|+|||+|-
T Consensus 64 LPsS~~qi~~lD~Qpv~dqat~~q~~vLvvvsGtVkFdG~k-~r~F~qt~ll~~e~~~~k~~~~v~Sd~fr~~d~ 137 (139)
T KOG4353|consen 64 LPSSEFQINDLDCQPVHDQATGSQTTVLVVVSGTVKFDGNK-QRVFNQTFLLTAEDPPFKTVWKVASDCFRFQDW 137 (139)
T ss_pred CCCccccccccccccchhhcccccceEEEEEeeeEEEcCCc-cccccceeEEeecCCccchhhhhhhhhhhhhhc
Confidence 8999999999999985532 4999999999999985 799999999999998777 99999999873
No 10
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.24 E-value=2e-11 Score=116.89 Aligned_cols=64 Identities=23% Similarity=0.352 Sum_probs=59.9
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.++|||+|||.++++++|+++|++||+|..+.|..+..+|+++|||||+|.+.++|.+||+.|.
T Consensus 3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~ 66 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLN 66 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcc
Confidence 4789999999999999999999999999999887777778889999999999999999999875
No 11
>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=99.24 E-value=3e-11 Score=116.37 Aligned_cols=68 Identities=18% Similarity=0.344 Sum_probs=62.4
Q ss_pred ccccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 247 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 247 ~~~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.....++|||+|||.++++++|+++|+.||.|..|+|..+..+++++|||||+|.+.++|++||+.|.
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 33467999999999999999999999999999999888777788889999999999999999999875
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=99.23 E-value=4.1e-11 Score=88.22 Aligned_cols=63 Identities=29% Similarity=0.508 Sum_probs=53.7
Q ss_pred eEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh-hcc
Q 021044 254 VYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI-LMW 317 (318)
Q Consensus 254 IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~-~~~ 317 (318)
|||+|||.++++++|+++|+.||.|..+.+....+ +.++|+|||+|.+.++|.+|++.++ .+|
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~ 64 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEI 64 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEE
Confidence 79999999999999999999999999987654433 7779999999999999999999987 444
No 13
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.18 E-value=8.5e-11 Score=109.40 Aligned_cols=64 Identities=19% Similarity=0.323 Sum_probs=57.1
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
.-++|||.|||+...+.||+.+|.+||+|.++.|.+.. +| +||||||+|++.++|++|-.+|+.
T Consensus 95 ~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE-RG-SKGFGFVTmen~~dadRARa~LHg 158 (376)
T KOG0125|consen 95 TPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE-RG-SKGFGFVTMENPADADRARAELHG 158 (376)
T ss_pred CCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc-CC-CCccceEEecChhhHHHHHHHhhc
Confidence 45899999999999999999999999999999885443 33 699999999999999999999874
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=99.15 E-value=9.7e-11 Score=119.48 Aligned_cols=65 Identities=25% Similarity=0.314 Sum_probs=61.1
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..++||||||++++++++|+++|.+||.|.++.|.++..+++++|||||+|.+.++|++||+.|.
T Consensus 106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~ln 170 (612)
T TIGR01645 106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMN 170 (612)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcC
Confidence 56899999999999999999999999999999888877788899999999999999999999875
No 15
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.13 E-value=3e-10 Score=102.09 Aligned_cols=66 Identities=23% Similarity=0.367 Sum_probs=62.2
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+.++|-|.||+.++++.+|+++|.+||.|..+.|.++..+|.+||||||.|.+.++|.+||..|.
T Consensus 187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~Ln 252 (270)
T KOG0122|consen 187 DDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLN 252 (270)
T ss_pred CccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHcc
Confidence 366889999999999999999999999999999998888899999999999999999999999886
No 16
>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=99.12 E-value=1.6e-10 Score=111.32 Aligned_cols=66 Identities=20% Similarity=0.386 Sum_probs=60.3
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhc
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILM 316 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~ 316 (318)
.++|||+|||.++++++|+++|++||.|..+.|..+..+++.+|||||+|.+.++|++||+.|..+
T Consensus 193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~ 258 (346)
T TIGR01659 193 DTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNV 258 (346)
T ss_pred cceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCC
Confidence 468999999999999999999999999999988777668888999999999999999999988643
No 17
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.09 E-value=1.4e-10 Score=99.53 Aligned_cols=60 Identities=35% Similarity=0.443 Sum_probs=54.9
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
-.++||||||+.++++.+|+.+|..||.|..+||... ..|||||+|++..+|..|+..|.
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn-----PPGfAFVEFed~RDA~DAvr~LD 68 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN-----PPGFAFVEFEDPRDAEDAVRYLD 68 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec-----CCCceEEeccCcccHHHHHhhcC
Confidence 4689999999999999999999999999999988642 46999999999999999999885
No 18
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.08 E-value=3.2e-10 Score=109.28 Aligned_cols=66 Identities=23% Similarity=0.298 Sum_probs=63.2
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
.+|-||||.||.++.+++|..+|++.|+|..++++|+..+|.+||||||+|.+.+.|+.||+.|..
T Consensus 82 ~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn 147 (506)
T KOG0117|consen 82 RGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNN 147 (506)
T ss_pred CCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhC
Confidence 689999999999999999999999999999999999989999999999999999999999999863
No 19
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.08 E-value=1.9e-10 Score=94.16 Aligned_cols=67 Identities=24% Similarity=0.272 Sum_probs=59.0
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
..+++||||||++.+++++|.++|+++|.|+.+-+-++..+.+..|||||+|.+.++|..||+-+..
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~Alryisg 100 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISG 100 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhcc
Confidence 5679999999999999999999999999999974445556667789999999999999999987753
No 20
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.07 E-value=3.9e-10 Score=103.53 Aligned_cols=59 Identities=24% Similarity=0.336 Sum_probs=52.2
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHH
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 312 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~a 312 (318)
.++|||+||++.+++++|+++|+.||.|.++.|..+. ..+|||||+|.+.+++..||..
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~---~~~GfAFVtF~d~eaAe~AllL 62 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSEN---ERSQIAYVTFKDPQGAETALLL 62 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecC---CCCCEEEEEeCcHHHHHHHHHh
Confidence 5799999999999999999999999999998775433 2479999999999999999963
No 21
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.07 E-value=3.5e-10 Score=115.46 Aligned_cols=66 Identities=23% Similarity=0.451 Sum_probs=60.5
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
..++|||+||+.++++++|+++|+.||.|..++|..+..++++||||||+|++.++|.+||+.|..
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg 268 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNL 268 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCC
Confidence 457999999999999999999999999999998876666778899999999999999999999864
No 22
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.06 E-value=3.9e-10 Score=114.74 Aligned_cols=64 Identities=23% Similarity=0.326 Sum_probs=59.7
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+++|||+|||.++++++|+++|++||.|..++|+++ .++++||||||+|.+.++|++||+.|.
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~ln 120 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLN 120 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcC
Confidence 4589999999999999999999999999999988766 678899999999999999999999986
No 23
>smart00362 RRM_2 RNA recognition motif.
Probab=99.05 E-value=1e-09 Score=78.93 Aligned_cols=60 Identities=35% Similarity=0.584 Sum_probs=53.1
Q ss_pred eeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 253 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 253 ~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
+|||+|||.+++.++|+++|.+||.+..+.+... .+.++|+|||+|.+.+.|++|++.+.
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~--~~~~~~~~~v~f~~~~~a~~a~~~~~ 60 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKD--TGKSKGFAFVEFESEEDAEKAIEALN 60 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecC--CCCCCceEEEEeCCHHHHHHHHHHhC
Confidence 5899999999999999999999999998765433 26678999999999999999999876
No 24
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.04 E-value=6.7e-10 Score=106.66 Aligned_cols=69 Identities=16% Similarity=0.304 Sum_probs=62.6
Q ss_pred cccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhc
Q 021044 248 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILM 316 (318)
Q Consensus 248 ~~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~ 316 (318)
+.+.-++|||-+|..++|.+||.+|++||.|..|.|..++.++.++|||||.|.+.++|.+|+.+|+.+
T Consensus 31 d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ 99 (510)
T KOG0144|consen 31 DGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQ 99 (510)
T ss_pred CchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcc
Confidence 346789999999999999999999999999999887777777888999999999999999999999754
No 25
>PLN03213 repressor of silencing 3; Provisional
Probab=99.01 E-value=7.4e-10 Score=107.88 Aligned_cols=62 Identities=18% Similarity=0.295 Sum_probs=54.8
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCH--HHHHHHHHHhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDM--TGVRNAVEVCI 314 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~--~~a~~Al~al~ 314 (318)
..+.+||||||++.+++++|+.+|..||.|..+.|. +.+ +||||||+|... .++.+||..|.
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RET--GRGFAFVEMssdddaEeeKAISaLN 71 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTK--GRSFAYIDFSPSSTNSLTKLFSTYN 71 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--ccc--CCceEEEEecCCcHHHHHHHHHHhc
Confidence 357899999999999999999999999999998775 333 499999999987 68999999885
No 26
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.00 E-value=1.1e-09 Score=99.16 Aligned_cols=62 Identities=23% Similarity=0.341 Sum_probs=53.9
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+++|||+||++.+|+++|+++|+.||.|.++.|..+ +..+|||||+|.+.+++..||....
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D---~et~gfAfVtF~d~~aaetAllLnG 65 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRS---GEYACTAYVTFKDAYALETAVLLSG 65 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecC---CCcceEEEEEECCHHHHHHHHhcCC
Confidence 5789999999999999999999999999999877543 2345899999999999999996544
No 27
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.99 E-value=1.4e-09 Score=100.29 Aligned_cols=66 Identities=26% Similarity=0.407 Sum_probs=60.6
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
+..++|||+-|++++++..|+..|.+||+|+.+.|..+.-+|+++|||||+|++..++..|.+...
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~ad 164 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDAD 164 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhcc
Confidence 367999999999999999999999999999999887777789999999999999999999987663
No 28
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=98.99 E-value=1.1e-09 Score=111.68 Aligned_cols=63 Identities=30% Similarity=0.501 Sum_probs=58.4
Q ss_pred eeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 253 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 253 ~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
+|||||||.++|+++|+++|++||.|..++|..+..+++++|||||+|.+.++|++||+.+..
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~ 64 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNF 64 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCC
Confidence 699999999999999999999999999998877776788899999999999999999998863
No 29
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.98 E-value=1.3e-09 Score=109.60 Aligned_cols=65 Identities=25% Similarity=0.417 Sum_probs=59.9
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..++|||+|||..+++++|+++|+.||.|..+.|..+..+|.++|||||+|.+.+.|..||+.|.
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~ 358 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALN 358 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcC
Confidence 45899999999999999999999999999998887666678889999999999999999999885
No 30
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=98.96 E-value=1.9e-09 Score=107.07 Aligned_cols=65 Identities=23% Similarity=0.341 Sum_probs=59.1
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 313 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al 313 (318)
...++|||+|||.++++.+|+++|++||.|..+.|..+..+++++|||||+|.+.++|.+||...
T Consensus 87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~ 151 (457)
T TIGR01622 87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALT 151 (457)
T ss_pred cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhC
Confidence 35689999999999999999999999999999988777777888999999999999999999744
No 31
>smart00360 RRM RNA recognition motif.
Probab=98.96 E-value=3.1e-09 Score=75.93 Aligned_cols=59 Identities=39% Similarity=0.572 Sum_probs=52.8
Q ss_pred eccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 256 VRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 256 VgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
|+|||..+++++|+.+|++||.|..+.+......+.++|||||+|.+.+.|.+|++.+.
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 68999999999999999999999998776555456779999999999999999999886
No 32
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=98.95 E-value=1.8e-09 Score=110.18 Aligned_cols=65 Identities=28% Similarity=0.421 Sum_probs=59.4
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
.+++|||+||+.++++++|+++|++||.|..+.|..+ .++.++|||||+|.+.++|.+||+.+..
T Consensus 284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g 348 (562)
T TIGR01628 284 QGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHG 348 (562)
T ss_pred CCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcC
Confidence 5688999999999999999999999999999988655 6788899999999999999999998863
No 33
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.92 E-value=3.3e-09 Score=94.95 Aligned_cols=64 Identities=33% Similarity=0.488 Sum_probs=59.4
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.++||||||+..+++++|+++|.+||.+..+.+..+...+..+|||||+|.+.+.+..|++.+.
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 5899999999999999999999999999998777666678889999999999999999999886
No 34
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=98.91 E-value=3.4e-09 Score=105.28 Aligned_cols=65 Identities=23% Similarity=0.409 Sum_probs=59.7
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
.++|||+||+.++++++|+++|++||.|..+.+..+..+|.++|||||+|.+.++|.+||+.|..
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g 250 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNG 250 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCC
Confidence 58899999999999999999999999999998877766778899999999999999999998863
No 35
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.89 E-value=5.1e-09 Score=103.18 Aligned_cols=67 Identities=34% Similarity=0.503 Sum_probs=62.6
Q ss_pred ccccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHh
Q 021044 247 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 313 (318)
Q Consensus 247 ~~~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al 313 (318)
+...+.+|||+|||+++|+++|.++|++||.|..+.|.+...++.++|.|||.|.+...++.||.+.
T Consensus 288 n~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~A 354 (678)
T KOG0127|consen 288 NITEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAA 354 (678)
T ss_pred cccccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhc
Confidence 3456799999999999999999999999999999999888889999999999999999999999876
No 36
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.88 E-value=1.2e-09 Score=104.92 Aligned_cols=65 Identities=23% Similarity=0.346 Sum_probs=59.3
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
+.++||||-|+..+++.+++++|++||.|++|.|. |...+.+||||||.|.+.+.|..||++|+.
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~il-rd~~~~sRGcaFV~fstke~A~~Aika~ng 187 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYIL-RDPDGLSRGCAFVKFSTKEMAVAAIKALNG 187 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccchhhhe-ecccccccceeEEEEehHHHHHHHHHhhcc
Confidence 35899999999999999999999999999999884 555678999999999999999999999874
No 37
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.85 E-value=6.3e-09 Score=94.89 Aligned_cols=66 Identities=26% Similarity=0.418 Sum_probs=62.0
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhc
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILM 316 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~ 316 (318)
-..+|||.|...++.++||+.|.+||+|.+++|.++..+++++|||||.|-..++|++||..|..-
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGq 127 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQ 127 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCe
Confidence 367999999999999999999999999999999988899999999999999999999999998743
No 38
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.84 E-value=7.6e-09 Score=81.91 Aligned_cols=63 Identities=25% Similarity=0.382 Sum_probs=53.1
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
..+-|||+|||+++|.++..++|++||.|..++|- ..+ .-+|-|||.|++..+|.+|++-|..
T Consensus 17 vnriLyirNLp~~ITseemydlFGkyg~IrQIRiG--~~k-~TrGTAFVVYedi~dAk~A~dhlsg 79 (124)
T KOG0114|consen 17 VNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIG--NTK-ETRGTAFVVYEDIFDAKKACDHLSG 79 (124)
T ss_pred hheeEEEecCCccccHHHHHHHhhcccceEEEEec--Ccc-CcCceEEEEehHhhhHHHHHHHhcc
Confidence 34679999999999999999999999999996552 222 2389999999999999999987753
No 39
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.83 E-value=5e-09 Score=95.45 Aligned_cols=67 Identities=21% Similarity=0.476 Sum_probs=63.9
Q ss_pred cccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 248 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 248 ~~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..++|+|||-+||....+.+|..+|-.||.|.+.++.+++.+.++||||||.|++..+++.||.++.
T Consensus 282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMN 348 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMN 348 (371)
T ss_pred CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhc
Confidence 3589999999999999999999999999999999999999999999999999999999999999986
No 40
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=98.83 E-value=2e-08 Score=72.39 Aligned_cols=63 Identities=37% Similarity=0.572 Sum_probs=54.0
Q ss_pred eeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhc
Q 021044 253 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILM 316 (318)
Q Consensus 253 ~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~ 316 (318)
+|||+|||..+++++|+++|+.||.|..+.+.... .+.++|+|||+|.+.++|..|++.+..+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~-~~~~~~~~~v~f~s~~~a~~a~~~~~~~ 63 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDK-DTKSKGFAFVEFEDEEDAEKALEALNGK 63 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCC-CCCcceEEEEEECCHHHHHHHHHHhCCC
Confidence 48999999999999999999999999997665333 3356899999999999999999987644
No 41
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.81 E-value=4.1e-09 Score=91.38 Aligned_cols=62 Identities=32% Similarity=0.491 Sum_probs=52.8
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..++|||||||.++.+.+|+++|-+||.|..+.+. ...+ ..+||||+|++..+|+.||....
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK--~r~g-~ppfafVeFEd~RDAeDAiygRd 66 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELK--NRPG-PPPFAFVEFEDPRDAEDAIYGRD 66 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEec--cCCC-CCCeeEEEecCccchhhhhhccc
Confidence 35899999999999999999999999999996553 3222 46999999999999999997654
No 42
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.78 E-value=6.3e-10 Score=96.14 Aligned_cols=71 Identities=20% Similarity=0.340 Sum_probs=61.1
Q ss_pred cccccccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 244 AVEDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 244 ~~~~~~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
...+..++..|||||||+..|+.+|.-.|++||.|..+.+.++..+|+++||||..|++..+..-|+..+.
T Consensus 28 WH~~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~N 98 (219)
T KOG0126|consen 28 WHQEYKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLN 98 (219)
T ss_pred hhhhcccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccC
Confidence 34445577899999999999999999999999999998887777889999999999999887776666654
No 43
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=98.76 E-value=1e-08 Score=90.42 Aligned_cols=66 Identities=21% Similarity=0.293 Sum_probs=61.4
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
..+.|-|-||.+.++.++|+.+|++||.|-++.|..+..++.++|||||.|.+..+|+.||.+|..
T Consensus 12 gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG 77 (256)
T KOG4207|consen 12 GMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDG 77 (256)
T ss_pred cceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcc
Confidence 457899999999999999999999999999998888888888999999999999999999999963
No 44
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.72 E-value=1.2e-08 Score=88.22 Aligned_cols=66 Identities=23% Similarity=0.271 Sum_probs=59.5
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+..+||||||+..+++..|.++|-+.|+|..+++..+.-+...+||||++|.+.++|+-||+.|.
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln 72 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILN 72 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHH
Confidence 467899999999999999999999999999997776555566679999999999999999999987
No 45
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.71 E-value=9.9e-09 Score=96.96 Aligned_cols=69 Identities=25% Similarity=0.299 Sum_probs=61.9
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh-hccC
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI-LMWH 318 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~-~~~~ 318 (318)
-.|+||||.+.+.+.++.||..|..||+|+++.+..+.-+++++||+||+|+-++.|+-|++.++ .|+|
T Consensus 112 iMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlG 181 (544)
T KOG0124|consen 112 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLG 181 (544)
T ss_pred HhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhcccccc
Confidence 46999999999999999999999999999997776677788899999999999999999999985 4443
No 46
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.71 E-value=2.9e-08 Score=90.66 Aligned_cols=60 Identities=28% Similarity=0.436 Sum_probs=53.9
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+.|+||+||++.-+++++||+.|+.||.|.+++|.. -+||+||.|++.++|.+||..+.
T Consensus 162 p~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk------~qGYaFVrF~tkEaAahAIv~mN 221 (321)
T KOG0148|consen 162 PDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFK------DQGYAFVRFETKEAAAHAIVQMN 221 (321)
T ss_pred CCCceEEeCCcCccccHHHHHHhcccCCcceEEEEec------ccceEEEEecchhhHHHHHHHhc
Confidence 3679999999999999999999999999999987742 25999999999999999998875
No 47
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.70 E-value=6.6e-08 Score=87.93 Aligned_cols=65 Identities=20% Similarity=0.337 Sum_probs=60.9
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..++|.|..||.++|.++||.+|...|.|.+|++.++.-+|++-|||||.|-++.+|++||..|.
T Consensus 40 skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlN 104 (360)
T KOG0145|consen 40 SKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLN 104 (360)
T ss_pred ccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhc
Confidence 45789999999999999999999999999999998777789999999999999999999999885
No 48
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.69 E-value=1.2e-08 Score=92.73 Aligned_cols=66 Identities=17% Similarity=0.370 Sum_probs=61.6
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
++.+|||.+||..+|..+|+.+|++||.|..-+|..+.-+|.+||.|||.|+...+|+.||+.|..
T Consensus 126 k~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG 191 (360)
T KOG0145|consen 126 KDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNG 191 (360)
T ss_pred cccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccC
Confidence 568899999999999999999999999999988888888888899999999999999999999863
No 49
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.69 E-value=3.9e-08 Score=98.88 Aligned_cols=57 Identities=35% Similarity=0.486 Sum_probs=51.2
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 313 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al 313 (318)
++.|||||||..+++++|+++|++||.|..+.+. + ++|||||+|++.++|++||+.+
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~-~-----~k~~afVef~~~e~A~~Ai~~~ 58 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMML-P-----GKRQALVEFEDEESAKACVNFA 58 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEE-C-----CCCEEEEEeCchHHHHHHHHHh
Confidence 4789999999999999999999999999998653 1 3689999999999999999875
No 50
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.63 E-value=5.3e-08 Score=80.62 Aligned_cols=65 Identities=22% Similarity=0.396 Sum_probs=62.1
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
++--|||.++....+++++.+.|..||.|+.+.+.++.++|..+||+.|+|++...|++||.++.
T Consensus 71 EGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~N 135 (170)
T KOG0130|consen 71 EGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALN 135 (170)
T ss_pred eeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhcc
Confidence 57889999999999999999999999999999999999999999999999999999999999886
No 51
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.63 E-value=1.4e-08 Score=90.15 Aligned_cols=65 Identities=22% Similarity=0.404 Sum_probs=61.0
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
+.++||||+|...+++.-|...|-.||.|+.+.+.++..+++.||||||+|+..++|..||..|.
T Consensus 9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMn 73 (298)
T KOG0111|consen 9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMN 73 (298)
T ss_pred cceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCc
Confidence 55899999999999999999999999999999888888889999999999999999999998774
No 52
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.62 E-value=9.7e-08 Score=96.05 Aligned_cols=60 Identities=15% Similarity=0.097 Sum_probs=53.5
Q ss_pred cceeeEeccCCC-CCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPP-SVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~-~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+++|||+||+. .+++++|+++|+.||.|..+.|+.. .+|||||+|.+.++|.+||+.|.
T Consensus 274 ~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~-----~~g~afV~f~~~~~A~~Ai~~ln 334 (481)
T TIGR01649 274 PGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKN-----KKETALIEMADPYQAQLALTHLN 334 (481)
T ss_pred CCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeC-----CCCEEEEEECCHHHHHHHHHHhC
Confidence 568999999998 6999999999999999999877532 26999999999999999999885
No 53
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.62 E-value=1e-07 Score=97.33 Aligned_cols=57 Identities=33% Similarity=0.528 Sum_probs=51.3
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcC--CCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKF--GELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~f--G~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..++|||+||+.++++++|+++|++| |.|..+.+. ++||||+|.+.++|.+||+.|.
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~ln 290 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI--------RDYAFVHFEDREDAVKAMDELN 290 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee--------cCeEEEEeCCHHHHHHHHHHhC
Confidence 34789999999999999999999999 999987542 5799999999999999999885
No 54
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.59 E-value=7.2e-08 Score=95.07 Aligned_cols=63 Identities=25% Similarity=0.315 Sum_probs=60.7
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
+.+||||+|+++++++|..+|+..|.|.+.++..+..+|+.+||||++|.+.+.+.+|++.|.
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 889999999999999999999999999999988888899999999999999999999999986
No 55
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.58 E-value=8.5e-08 Score=92.75 Aligned_cols=73 Identities=26% Similarity=0.309 Sum_probs=58.2
Q ss_pred CCCCCCCCccccccccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 235 WADTGEEISAVEDEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 235 ~~~~~~~~~~~~~~~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.|...++....+.-.+-+-|||+||+.++|++.|+++|++||.|..+.. .|-||||.|.++++|.+||+.+.
T Consensus 243 dWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk--------~rDYaFVHf~eR~davkAm~~~n 314 (506)
T KOG0117|consen 243 DWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKK--------PRDYAFVHFAEREDAVKAMKETN 314 (506)
T ss_pred eccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhccceEEeec--------ccceeEEeecchHHHHHHHHHhc
Confidence 3544444433333446678999999999999999999999999998633 25699999999999999999886
Q ss_pred h
Q 021044 315 L 315 (318)
Q Consensus 315 ~ 315 (318)
.
T Consensus 315 g 315 (506)
T KOG0117|consen 315 G 315 (506)
T ss_pred C
Confidence 3
No 56
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.58 E-value=6.4e-08 Score=88.29 Aligned_cols=64 Identities=22% Similarity=0.363 Sum_probs=59.2
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
+.++||||-|...-.++++|.+|..||.|.+|.+ ++...|.+|||+||.|.+..+|+.||.+|+
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tv-lrg~dg~sKGCAFVKf~s~~eAqaAI~aLH 81 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTV-LRGPDGNSKGCAFVKFSSHAEAQAAINALH 81 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEE-ecCCCCCCCCceEEEeccchHHHHHHHHhc
Confidence 4589999999999999999999999999999966 677788899999999999999999999986
No 57
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.58 E-value=4.3e-08 Score=96.88 Aligned_cols=66 Identities=21% Similarity=0.356 Sum_probs=60.2
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
...++|||||.+++++++|+.+|+.||.|..+.+.++..+|..+|||||+|.+.+.|++|+..|..
T Consensus 277 p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lng 342 (549)
T KOG0147|consen 277 PMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNG 342 (549)
T ss_pred chhhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhcc
Confidence 344599999999999999999999999999988877777899999999999999999999998864
No 58
>smart00361 RRM_1 RNA recognition motif.
Probab=98.55 E-value=2.2e-07 Score=68.89 Aligned_cols=51 Identities=18% Similarity=0.253 Sum_probs=43.2
Q ss_pred HHHHHHHhh----cCCCeEEeE-EEEeCCC--CCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 265 ESEIAEEFK----KFGELSSEG-VVIRSRK--DVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 265 e~~L~~~F~----~fG~I~~~~-i~~~~~~--~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
+++|+++|+ +||.|..+. |.++..+ +.++|||||.|.+.++|.+|++.|..
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g 59 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNG 59 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCC
Confidence 467888888 999999985 5555555 77899999999999999999998863
No 59
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.51 E-value=7.7e-08 Score=88.68 Aligned_cols=56 Identities=27% Similarity=0.484 Sum_probs=51.9
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
.+|||||||.++++.+|+.+|++||+|..|.|. |.||||..++...+..||+.|+.
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv--------KNYgFVHiEdktaaedairNLhg 58 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIV--------KNYGFVHIEDKTAAEDAIRNLHG 58 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeee--------cccceEEeecccccHHHHhhccc
Confidence 479999999999999999999999999999985 57999999999999999998864
No 60
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.49 E-value=1.7e-07 Score=92.61 Aligned_cols=65 Identities=22% Similarity=0.273 Sum_probs=57.2
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+.+|||++||+.++.++|.++|+.+|+|+.|.+......+..||||||.|.-.+++++||....
T Consensus 4 ~g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~ 68 (678)
T KOG0127|consen 4 SGATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETE 68 (678)
T ss_pred CCceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhh
Confidence 35899999999999999999999999999999765555555679999999999999999997653
No 61
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.47 E-value=9.6e-08 Score=90.47 Aligned_cols=67 Identities=21% Similarity=0.325 Sum_probs=60.6
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhc
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILM 316 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~ 316 (318)
+.++||||+|++.++++.|++.|.+||.|..|.++.+..++.+|||+||+|.+.+.+.++|......
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~ 71 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHK 71 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccc
Confidence 5799999999999999999999999999999988777778888999999999999999888776543
No 62
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.44 E-value=4.1e-07 Score=88.49 Aligned_cols=61 Identities=28% Similarity=0.481 Sum_probs=55.3
Q ss_pred eEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhcc
Q 021044 254 VYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMW 317 (318)
Q Consensus 254 IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~~ 317 (318)
|||.||+..++...|.++|+.||.|.+|++..+. .| ++|| ||.|++.++|++||+.+..++
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~l 139 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGML 139 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcc
Confidence 9999999999999999999999999999886554 34 7999 999999999999999887654
No 63
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.40 E-value=1.9e-07 Score=94.65 Aligned_cols=65 Identities=25% Similarity=0.370 Sum_probs=59.8
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+++|+|+|||+..+-.+++.+|..||.|++++|....+++.+||||||+|-+...|.+|+++|.
T Consensus 612 ~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~ 676 (725)
T KOG0110|consen 612 KGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALG 676 (725)
T ss_pred ccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhc
Confidence 46899999999999999999999999999999887666677789999999999999999998885
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=98.38 E-value=6.6e-07 Score=90.05 Aligned_cols=56 Identities=23% Similarity=0.452 Sum_probs=45.6
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcC------------CCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHH
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKF------------GELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVE 311 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~f------------G~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~ 311 (318)
..++|||||||+++++++|+++|.+| +.|..+. .+..+|||||+|.+.++|..||.
T Consensus 174 ~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~------~~~~kg~afVeF~~~e~A~~Al~ 241 (509)
T TIGR01642 174 QARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVN------INKEKNFAFLEFRTVEEATFAMA 241 (509)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEE------ECCCCCEEEEEeCCHHHHhhhhc
Confidence 56899999999999999999999975 2333321 13357999999999999999995
No 65
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.37 E-value=4.5e-07 Score=85.89 Aligned_cols=68 Identities=22% Similarity=0.444 Sum_probs=60.3
Q ss_pred cccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 248 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 248 ~~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
.....+|||..+..+.+++||+..|+.||+|..|.+......+.+|||||++|.+..+...||..+++
T Consensus 207 Ak~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNl 274 (544)
T KOG0124|consen 207 AKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNL 274 (544)
T ss_pred HHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcch
Confidence 35678999999999999999999999999999998876665666799999999999999999987764
No 66
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.35 E-value=2.1e-06 Score=85.35 Aligned_cols=66 Identities=20% Similarity=0.389 Sum_probs=57.2
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
-+++|||.+|+..+...+|+.+|++||.|.-..|....++---+|||||++.+...|-+||..|+.
T Consensus 404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHr 469 (940)
T KOG4661|consen 404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHR 469 (940)
T ss_pred cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhh
Confidence 468999999999999999999999999999887765544433489999999999999999998863
No 67
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.34 E-value=1.1e-06 Score=77.60 Aligned_cols=66 Identities=30% Similarity=0.379 Sum_probs=55.9
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcC-CCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKF-GELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~f-G~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
...-+|++.+|+-..+..+..+|.+| |.+...++.+..++|.++|||||+|++.+.|.-|-+.|+.
T Consensus 48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNN 114 (214)
T KOG4208|consen 48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNN 114 (214)
T ss_pred CccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhh
Confidence 34568999999999999999999998 7777765545556788899999999999999999888863
No 68
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.31 E-value=6.4e-07 Score=77.69 Aligned_cols=65 Identities=20% Similarity=0.332 Sum_probs=57.4
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEe-EEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSE-GVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~-~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
-+.++|||||...+++..|.+.|+.||.|... .|+.+.++|.++|||||.|.+.+.+.+||.++.
T Consensus 95 vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~n 160 (203)
T KOG0131|consen 95 VGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMN 160 (203)
T ss_pred ccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhc
Confidence 45899999999999999999999999998764 455566778889999999999999999999885
No 69
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=1.3e-06 Score=82.66 Aligned_cols=63 Identities=24% Similarity=0.423 Sum_probs=58.6
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.-|||-.|.+-++.++|+-+|+.||.|..|.|..+..+|.+-+||||+|++.+++++|.-.|.
T Consensus 240 NVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMd 302 (479)
T KOG0415|consen 240 NVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMD 302 (479)
T ss_pred ceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhc
Confidence 569999999999999999999999999999998888888889999999999999999987764
No 70
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.16 E-value=4.7e-06 Score=84.76 Aligned_cols=70 Identities=26% Similarity=0.367 Sum_probs=60.2
Q ss_pred cccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCC---CCCCccEEEEEEcCHHHHHHHHHHhhhcc
Q 021044 248 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR---KDVGICYAFVEFEDMTGVRNAVEVCILMW 317 (318)
Q Consensus 248 ~~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~---~~~~rgfgFV~F~~~~~a~~Al~al~~~~ 317 (318)
+...+++||+||+..+++..|...|+.||+|..++|+..+. +...+-||||-|.+..++++|++.|+.+|
T Consensus 171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~i 243 (877)
T KOG0151|consen 171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGII 243 (877)
T ss_pred CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhccee
Confidence 45778999999999999999999999999999988876543 23346789999999999999999997543
No 71
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.15 E-value=2.7e-06 Score=80.65 Aligned_cols=63 Identities=21% Similarity=0.453 Sum_probs=57.6
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHH
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 312 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~a 312 (318)
..++||||+||.++++.+|++.|.+||.|..+.++++..+...+|||||.|++.+++.+++..
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~ 158 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQ 158 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceeccc
Confidence 467999999999999999999999999999988888888888899999999999999887653
No 72
>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=98.14 E-value=7.7e-06 Score=57.56 Aligned_cols=43 Identities=30% Similarity=0.451 Sum_probs=34.9
Q ss_pred HHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 268 IAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 268 L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
|+++|++||.|..+.+ ..++ +|+|||+|.+.++|++|++.|+.
T Consensus 1 L~~~f~~fG~V~~i~~--~~~~---~~~a~V~f~~~~~A~~a~~~l~~ 43 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKI--FKKK---RGFAFVEFASVEDAQKAIEQLNG 43 (56)
T ss_dssp HHHHHTTTS-EEEEEE--ETTS---TTEEEEEESSHHHHHHHHHHHTT
T ss_pred ChHHhCCcccEEEEEE--EeCC---CCEEEEEECCHHHHHHHHHHhCC
Confidence 6889999999999644 3322 59999999999999999998863
No 73
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.13 E-value=3.7e-06 Score=85.54 Aligned_cols=66 Identities=18% Similarity=0.301 Sum_probs=56.3
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCC---CCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD---VGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~---~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
.-++|||.||+++++.++|+.+|.+.|.|..+.|.+..+.. .+.|||||+|.+.++|++|+++|++
T Consensus 514 ~~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqg 582 (725)
T KOG0110|consen 514 TETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQG 582 (725)
T ss_pred cchhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcC
Confidence 33459999999999999999999999999998776555421 2359999999999999999999873
No 74
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.08 E-value=8.2e-06 Score=79.09 Aligned_cols=65 Identities=23% Similarity=0.321 Sum_probs=58.0
Q ss_pred cceeeEeccCCCCCCHHHHHHHhh-cCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFK-KFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~-~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
..+.+||.|||+++...+|+++|. +-|.|..|.+.++ ..|+.||||.|+|++++.+++|++.|..
T Consensus 43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D-~~GK~rGcavVEFk~~E~~qKa~E~lnk 108 (608)
T KOG4212|consen 43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFD-ESGKARGCAVVEFKDPENVQKALEKLNK 108 (608)
T ss_pred ccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecc-cCCCcCCceEEEeeCHHHHHHHHHHhhh
Confidence 456799999999999999999995 8999999987554 4788999999999999999999999864
No 75
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.07 E-value=1e-05 Score=72.49 Aligned_cols=61 Identities=20% Similarity=0.309 Sum_probs=52.5
Q ss_pred eeeEeccCCCCCCHHHHHH----HhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 252 KSVYVRNLPPSVSESEIAE----EFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~----~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
.+|||+||+..+..++|+. +|++||.|..+. ...+.+.||-|||.|.+.+.|-.|+++|..
T Consensus 10 ~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~---a~kt~KmRGQA~VvFk~~~~As~A~r~l~g 74 (221)
T KOG4206|consen 10 GTLYINNLNEKIKKDELKRSLYLLFSQFGKILDIS---AFKTPKMRGQAFVVFKETEAASAALRALQG 74 (221)
T ss_pred ceEeehhccccccHHHHHHHHHHHHHhhCCeEEEE---ecCCCCccCceEEEecChhHHHHHHHHhcC
Confidence 4999999999999999988 999999999853 233556689999999999999999998863
No 76
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.04 E-value=3.8e-06 Score=77.70 Aligned_cols=57 Identities=25% Similarity=0.429 Sum_probs=52.5
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
-.++|+||||.+.++..+||..|.+||++..|.|. ++|+||.|+-.++|..||+.|.
T Consensus 77 ~stkl~vgNis~tctn~ElRa~fe~ygpviecdiv--------kdy~fvh~d~~eda~~air~l~ 133 (346)
T KOG0109|consen 77 ASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIV--------KDYAFVHFDRAEDAVEAIRGLD 133 (346)
T ss_pred CccccccCCCCccccCHHHhhhhcccCCceeeeee--------cceeEEEEeeccchHHHHhccc
Confidence 45889999999999999999999999999999885 6899999999999999997764
No 77
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.03 E-value=8e-06 Score=83.85 Aligned_cols=59 Identities=22% Similarity=0.369 Sum_probs=52.4
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
-+++||||+|+.++++.+|..+|+.||.|.++.+ .. .||||||.+....+|.+||.+|.
T Consensus 420 ~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~l--i~----~R~cAfI~M~~RqdA~kalqkl~ 478 (894)
T KOG0132|consen 420 CSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIIL--IP----PRGCAFIKMVRRQDAEKALQKLS 478 (894)
T ss_pred eeeeeeeccccchhhHHHHHHHHHhcccceeEee--cc----CCceeEEEEeehhHHHHHHHHHh
Confidence 3588999999999999999999999999999633 22 47999999999999999999885
No 78
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.99 E-value=1.1e-05 Score=76.22 Aligned_cols=60 Identities=28% Similarity=0.459 Sum_probs=52.4
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
...++||||+|-..+++.+|+++|.+||.|+.+.+.. ++|+|||+|.+..+|+.|...+.
T Consensus 226 ~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~------~~~CAFv~ftTR~aAE~Aae~~~ 285 (377)
T KOG0153|consen 226 TSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILP------RKGCAFVTFTTREAAEKAAEKSF 285 (377)
T ss_pred cceeEEEecccccchhHHHHHHHHhhcCCeeeEEeec------ccccceeeehhhHHHHHHHHhhc
Confidence 3568999999999999999999999999999976642 25789999999999999987764
No 79
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.96 E-value=5.3e-05 Score=67.90 Aligned_cols=68 Identities=21% Similarity=0.249 Sum_probs=55.8
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCC-ccEEEEEEcCHHHHHHHHHHhhhc
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVG-ICYAFVEFEDMTGVRNAVEVCILM 316 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~-rgfgFV~F~~~~~a~~Al~al~~~ 316 (318)
+..++|||.+||.++...+|..+|..|-.-..+.+.+..+.++. +-+||++|.+...|..|+++|+.|
T Consensus 32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGv 100 (284)
T KOG1457|consen 32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGV 100 (284)
T ss_pred cccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCe
Confidence 35799999999999999999999999877777656544433222 479999999999999999999755
No 80
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=97.91 E-value=1.9e-05 Score=71.89 Aligned_cols=65 Identities=23% Similarity=0.343 Sum_probs=60.0
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
...+||.|.|...++.+.|-..|.+|-......+..++++|+++|||||-|.+..++.+|++.|.
T Consensus 189 ~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~ 253 (290)
T KOG0226|consen 189 DDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMN 253 (290)
T ss_pred ccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhc
Confidence 56899999999999999999999999988887787788899999999999999999999999885
No 81
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=97.90 E-value=2.4e-05 Score=76.29 Aligned_cols=64 Identities=25% Similarity=0.472 Sum_probs=57.5
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
...+|||.||+..++.+.|+.+|+.||.|..++|+. ...+.++|||||.|...++|.+|+..+.
T Consensus 269 ~~~nl~vknld~~~~~e~L~~~f~~~GeI~s~kv~~-~~~g~skG~gfV~fs~~eeA~~A~~~~n 332 (369)
T KOG0123|consen 269 QGANLYVKNLDETLSDEKLRKIFSSFGEITSAKVMV-DENGKSKGFGFVEFSSPEEAKKAMTEMN 332 (369)
T ss_pred cccccccccCccccchhHHHHHHhcccceeeEEEEe-ccCCCccceEEEEcCCHHHHHHHHHhhC
Confidence 568899999999999999999999999999987754 4467889999999999999999988775
No 82
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.80 E-value=1.2e-05 Score=72.39 Aligned_cols=56 Identities=29% Similarity=0.451 Sum_probs=49.5
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
.++|||+|+..+.+.+|+.+|+.||.+..+.+. .|||||+|++..+|..|+.-+..
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~ 57 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDG 57 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcC
Confidence 579999999999999999999999999986432 48999999999999999987753
No 83
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.62 E-value=0.00011 Score=65.91 Aligned_cols=61 Identities=21% Similarity=0.439 Sum_probs=50.7
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
-.+|||.||..++++++|+.+|+.|.....++| +.+. |.+.+|++|++.+.|..||..|+.
T Consensus 210 cstlfianl~~~~~ed~l~~~~~~~~gf~~l~~--~~~~--g~~vaf~~~~~~~~at~am~~lqg 270 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDELKQLLSRYPGFHILKI--RARG--GMPVAFADFEEIEQATDAMNHLQG 270 (284)
T ss_pred hhhHhhhccCCCCCHHHHHHHHHhCCCceEEEE--ecCC--CcceEeecHHHHHHHHHHHHHhhc
Confidence 357999999999999999999999988776544 3333 468999999999999999887764
No 84
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.59 E-value=0.00012 Score=71.13 Aligned_cols=62 Identities=15% Similarity=0.230 Sum_probs=53.6
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
.+.|+|||+|||+++|...|++-|..||.+..+.| +. .|+.+| .|.|.+.+.|++|+..+..
T Consensus 534 rKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadi-me--~GkskG--VVrF~s~edAEra~a~Mng 595 (608)
T KOG4212|consen 534 RKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADI-ME--NGKSKG--VVRFFSPEDAERACALMNG 595 (608)
T ss_pred ccccEEEEecCCccccHHHHHHHHHhccceehhhh-hc--cCCccc--eEEecCHHHHHHHHHHhcc
Confidence 56799999999999999999999999999999877 22 344555 8999999999999988753
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=97.50 E-value=0.00069 Score=53.69 Aligned_cols=63 Identities=17% Similarity=0.270 Sum_probs=52.0
Q ss_pred eeeEeccCCCCCCHHHHHHHhhc--CCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKK--FGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~--fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
++|-|+|||...+..+|.+++.. .|....+-+.++..++.+.|||||.|.+.+.+.+-.+...
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~ 66 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFN 66 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHc
Confidence 68999999999999999998864 4555666677777788889999999999999887766654
No 86
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.49 E-value=0.00015 Score=72.43 Aligned_cols=60 Identities=27% Similarity=0.323 Sum_probs=51.8
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..++|+|-|||..+++++|+.+|+.||.|+.+ ++-. ..+|..||+|.|...|++|+++|.
T Consensus 74 ~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~i--r~t~---~~~~~~~v~FyDvR~A~~Alk~l~ 133 (549)
T KOG4660|consen 74 NQGTLVVFNLPRSVSNDTLLRIFGAYGEIREI--RETP---NKRGIVFVEFYDVRDAERALKALN 133 (549)
T ss_pred ccceEEEEecCCcCCHHHHHHHHHhhcchhhh--hccc---ccCceEEEEEeehHhHHHHHHHHH
Confidence 45789999999999999999999999999983 3222 236899999999999999999985
No 87
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.43 E-value=0.00014 Score=66.47 Aligned_cols=63 Identities=24% Similarity=0.275 Sum_probs=57.2
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHH
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVE 311 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~ 311 (318)
.+.+.+||||+.+.++..++..+|+.||.|..+.|..+...+.++||+||+|.+.+.++.+|+
T Consensus 99 ~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~ 161 (231)
T KOG4209|consen 99 VDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK 161 (231)
T ss_pred cCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh
Confidence 356889999999999999999999999999877777777777889999999999999999988
No 88
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=97.43 E-value=0.00032 Score=64.38 Aligned_cols=65 Identities=29% Similarity=0.331 Sum_probs=56.1
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
..++|+|.||++.+++.+|+++|..||.++.+-+.. ...|.+.|.|-|.|...++|.+|++.+..
T Consensus 82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy-~~~G~s~Gta~v~~~r~~DA~~avk~~~g 146 (243)
T KOG0533|consen 82 RSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHY-DRAGRSLGTADVSFNRRDDAERAVKKYNG 146 (243)
T ss_pred CcceeeeecCCcCcchHHHHHHHHHhccceEEeecc-CCCCCCCccceeeecchHhHHHHHHHhcC
Confidence 458899999999999999999999999888865543 33567789999999999999999998864
No 89
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=97.18 E-value=0.0012 Score=53.16 Aligned_cols=58 Identities=22% Similarity=0.305 Sum_probs=36.8
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
|+-|+|.++...++.++|+++|+.||.|..+.+. . +-.-|||.|.+.+.|+.|+..+-
T Consensus 1 G~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~----~--G~~~g~VRf~~~~~A~~a~~~~~ 58 (105)
T PF08777_consen 1 GCILKFSGLGEPTSREDIKEAFSQFGEVAYVDFS----R--GDTEGYVRFKTPEAAQKALEKLK 58 (105)
T ss_dssp --EEEEEE--SS--HHHHHHHT-SS--EEEEE------T--T-SEEEEEESS---HHHHHHHHH
T ss_pred CeEEEEecCCCCcCHHHHHHHHHhcCCcceEEec----C--CCCEEEEEECCcchHHHHHHHHH
Confidence 3568888999999999999999999999986542 2 34568999999999999998764
No 90
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.07 E-value=0.0012 Score=65.52 Aligned_cols=65 Identities=25% Similarity=0.472 Sum_probs=51.2
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCC-CC--CCcc---EEEEEEcCHHHHHHHHHHhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSR-KD--VGIC---YAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~-~~--~~rg---fgFV~F~~~~~a~~Al~al~ 314 (318)
.-.++||||+||.+++++.|...|..||.+...+-. +.. ++ ..+| |.|..|++..+++.-|.++.
T Consensus 257 ~~S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~-k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~ 327 (520)
T KOG0129|consen 257 RYSRKVFVGGLPWDITEAQINASFGQFGSVKVDWPG-KANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS 327 (520)
T ss_pred ccccceeecCCCccccHHHHHhhcccccceEeecCC-CccccccCCCCCcccEEEEEecchHHHHHHHHHHh
Confidence 456899999999999999999999999998765332 111 11 1256 99999999999998887763
No 91
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.05 E-value=0.0016 Score=61.91 Aligned_cols=65 Identities=25% Similarity=0.267 Sum_probs=54.2
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEe------EEEE-eCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSE------GVVI-RSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~------~i~~-~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..++|||.|||.++|.+++.++|++||-|... +|.+ +.+.|+.+|=|.+.|...+++.-||+.|.
T Consensus 133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilD 204 (382)
T KOG1548|consen 133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILD 204 (382)
T ss_pred cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhC
Confidence 56789999999999999999999999988663 2222 33457779999999999999999998874
No 92
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=96.98 E-value=0.00039 Score=62.30 Aligned_cols=62 Identities=23% Similarity=0.283 Sum_probs=52.0
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.++|||+|+...++++.|.++|-+-|+|..++|.-. +.+..+ ||||.|.+.-++.-|++.+.
T Consensus 9 drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~-~d~~~k-Fa~v~f~~E~sv~~a~~L~n 70 (267)
T KOG4454|consen 9 DRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSG-QDQEQK-FAYVFFPNENSVQLAGQLEN 70 (267)
T ss_pred hhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCC-ccCCCc-eeeeecccccchhhhhhhcc
Confidence 489999999999999999999999999999765322 223334 99999999999999998775
No 93
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.90 E-value=0.0029 Score=62.54 Aligned_cols=66 Identities=27% Similarity=0.283 Sum_probs=53.6
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhccC
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 318 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~~~ 318 (318)
...-|-+++||+++|+++|.++|+.++ |.. +.+...+|+..|=|||+|.+.+++++||+.--.+||
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~--~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg 74 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNCG-IEN--LEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMG 74 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcCc-eeE--EEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhC
Confidence 345677789999999999999999885 555 334455677889999999999999999998765554
No 94
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=96.79 E-value=0.00094 Score=66.96 Aligned_cols=67 Identities=24% Similarity=0.315 Sum_probs=59.8
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhc
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILM 316 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~ 316 (318)
..++|||++||...++.+++++...||.++...+..+...|-++||+|.+|-+..-...|+..|..|
T Consensus 288 ~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm 354 (500)
T KOG0120|consen 288 SPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGM 354 (500)
T ss_pred ccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchh
Confidence 5688999999999999999999999999999877767777788999999999999988888887654
No 95
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.73 E-value=0.0039 Score=61.71 Aligned_cols=66 Identities=24% Similarity=0.255 Sum_probs=51.6
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEE-EEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhccC
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGV-VIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 318 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i-~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~~~ 318 (318)
.-|-+++||+.|++++|.++|.-.-.+.. .| .++..+++..|=|||.|++.+.+++||...-..||
T Consensus 104 ~vVRLRGLPfscte~dI~~FFaGL~Iv~~-gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~iG 170 (510)
T KOG4211|consen 104 GVVRLRGLPFSCTEEDIVEFFAGLEIVPD-GILLPMDQRGRPTGEAFVQFESQESAEIALGRHRENIG 170 (510)
T ss_pred ceEEecCCCccCcHHHHHHHhcCCccccc-ceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHhhc
Confidence 55778999999999999999986543333 34 44455666778999999999999999987655544
No 96
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=96.59 E-value=0.00082 Score=67.11 Aligned_cols=65 Identities=20% Similarity=0.303 Sum_probs=58.8
Q ss_pred ccccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHH
Q 021044 247 DEEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVE 311 (318)
Q Consensus 247 ~~~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~ 311 (318)
++...+++|+--|....+..+|.++|+.+|.|..+.|..+...+.++|.|||+|.|.+++.-||-
T Consensus 175 eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia 239 (549)
T KOG0147|consen 175 EERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA 239 (549)
T ss_pred hHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh
Confidence 34577899999999999999999999999999999998888888889999999999999988874
No 97
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.38 E-value=0.0072 Score=60.19 Aligned_cols=66 Identities=18% Similarity=0.266 Sum_probs=57.9
Q ss_pred cceeeEeccCCCCCCHHHHHHHhh-cCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFK-KFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~-~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
..++||||+||.-++..+|-.+|. -||.|..++|-++..=+..+|-|-|+|.+..+-.+||.+.-+
T Consensus 369 prrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsarFv 435 (520)
T KOG0129|consen 369 PRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISARFV 435 (520)
T ss_pred ccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhhheE
Confidence 568999999999999999999998 899999998876654455689999999999999999987643
No 98
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=96.05 E-value=0.017 Score=40.47 Aligned_cols=52 Identities=21% Similarity=0.464 Sum_probs=38.9
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHH
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAV 310 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al 310 (318)
+.|-|.+.+.... +.++.+|..||.|....+ . ...-+.++.|.+..+|++||
T Consensus 2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~--~----~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYV--P----ESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHH-HHHHHHHHhcCCEEEEEc--C----CCCcEEEEEECCHHHHHhhC
Confidence 3466777776665 456668999999998544 2 23568999999999999985
No 99
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=95.94 E-value=0.0099 Score=56.69 Aligned_cols=65 Identities=14% Similarity=0.185 Sum_probs=50.3
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeE--EeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELS--SEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~--~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
+...+|||||-+++|+++|.+.....|--. ++++.-.+.+|+++|||.+...+..++.+-|+.|+
T Consensus 79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP 145 (498)
T KOG4849|consen 79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILP 145 (498)
T ss_pred ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcc
Confidence 557899999999999999999887655322 22222234478899999999999888888888886
No 100
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=95.80 E-value=0.0045 Score=58.37 Aligned_cols=61 Identities=20% Similarity=0.343 Sum_probs=52.2
Q ss_pred ceeeE-eccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHH
Q 021044 251 IKSVY-VRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVE 311 (318)
Q Consensus 251 ~~~If-VgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~ 311 (318)
..++| +++|+++++.++|+.+|..+|.|..+++.-+...+..+||||+.|........++.
T Consensus 184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~ 245 (285)
T KOG4210|consen 184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALN 245 (285)
T ss_pred cccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhh
Confidence 34555 99999999999999999999999997665555566678999999999999888887
No 101
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=95.47 E-value=0.0024 Score=66.82 Aligned_cols=66 Identities=26% Similarity=0.366 Sum_probs=57.3
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+..++||+||+..+.+.+|...|..+|.+..+.|.+-.++++-||+|++.|.+.+++.+||.-.-
T Consensus 665 R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d 730 (881)
T KOG0128|consen 665 RDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRD 730 (881)
T ss_pred HHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhh
Confidence 456789999999999999999999999999987766455677789999999999999999986553
No 102
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=95.44 E-value=0.041 Score=53.23 Aligned_cols=67 Identities=16% Similarity=0.074 Sum_probs=49.3
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCe---EEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhccC
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGEL---SSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 318 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I---~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~~~ 318 (318)
--|-.++||+++++.++.++|..--.| ...-+.+....|+..|=|||.|...+.|+.||...--+||
T Consensus 162 vivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iG 231 (508)
T KOG1365|consen 162 VIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNIG 231 (508)
T ss_pred eEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHHh
Confidence 456678999999999999999632222 1111334444666779999999999999999988765554
No 103
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=94.84 E-value=0.077 Score=47.86 Aligned_cols=60 Identities=17% Similarity=0.237 Sum_probs=49.5
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
...+|+-|||..++.+.|..+|.+|+..+.+++ ...+ ++.+||+|.+...+..|..++..
T Consensus 146 n~ilf~~niP~es~~e~l~~lf~qf~g~keir~--i~~~---~~iAfve~~~d~~a~~a~~~lq~ 205 (221)
T KOG4206|consen 146 NNILFLTNIPSESESEMLSDLFEQFPGFKEIRL--IPPR---SGIAFVEFLSDRQASAAQQALQG 205 (221)
T ss_pred ceEEEEecCCcchhHHHHHHHHhhCcccceeEe--ccCC---CceeEEecchhhhhHHHhhhhcc
Confidence 467999999999999999999999999988543 2222 48999999998888888877753
No 104
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=94.71 E-value=0.017 Score=52.23 Aligned_cols=57 Identities=28% Similarity=0.362 Sum_probs=49.2
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..+.+.+.|++..+...+|.+.|.++|.+... +. .++++||.|...+++.+||..|+
T Consensus 98 s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~-~~-------~~~~~~v~Fs~~~da~ra~~~l~ 154 (216)
T KOG0106|consen 98 THFRLIVRNLSLRVSWQDLKDHFRPAGEVTYV-DA-------RRNFAFVEFSEQEDAKRALEKLD 154 (216)
T ss_pred ccceeeeccchhhhhHHHHhhhhcccCCCchh-hh-------hccccceeehhhhhhhhcchhcc
Confidence 35889999999999999999999999999442 21 36899999999999999998885
No 105
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=94.57 E-value=0.037 Score=50.86 Aligned_cols=61 Identities=23% Similarity=0.386 Sum_probs=52.5
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHh
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 313 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al 313 (318)
..|||.||..-+..+.|+..|..||.|....+. ..+.++..+=++|.|...-.+.+|+..+
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 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAK-VDDRGKPTREGIVEFAKKPNARKAARRC 92 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheee-ecccccccccchhhhhcchhHHHHHHHh
Confidence 679999999999999999999999999987444 4456667778899999999999998876
No 106
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=94.47 E-value=0.041 Score=53.84 Aligned_cols=66 Identities=23% Similarity=0.332 Sum_probs=53.2
Q ss_pred cccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEe---CC--CCCC--------ccEEEEEEcCHHHHHHHHHHh
Q 021044 248 EEEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIR---SR--KDVG--------ICYAFVEFEDMTGVRNAVEVC 313 (318)
Q Consensus 248 ~~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~---~~--~~~~--------rgfgFV~F~~~~~a~~Al~al 313 (318)
+..+++|.+-|||.+-.-+.|.++|+.+|.|+.++|... .. ++.. +-+|||+|+..+.|.+|.+.+
T Consensus 228 el~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~ 306 (484)
T KOG1855|consen 228 ELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELL 306 (484)
T ss_pred ccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhh
Confidence 347899999999999888999999999999999887533 11 1111 456899999999999998776
No 107
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=94.03 E-value=0.22 Score=38.43 Aligned_cols=53 Identities=23% Similarity=0.224 Sum_probs=36.7
Q ss_pred eeeEeccCCCCCCHH----HHHHHhhcCCC-eEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 252 KSVYVRNLPPSVSES----EIAEEFKKFGE-LSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 252 ~~IfVgnLp~~~te~----~L~~~F~~fG~-I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.-|||.|||.+.+.. .|+.++..+|- +.. | ..|-|++.|.+.+.|.+|.+.|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~--v--------~~~tAilrF~~~~~A~RA~KRme 60 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLS--V--------SGGTAILRFPNQEFAERAQKRME 60 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHT
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEE--E--------eCCEEEEEeCCHHHHHHHHHhhc
Confidence 458999999998764 56677777764 333 2 13789999999999999998875
No 108
>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=93.93 E-value=0.062 Score=42.83 Aligned_cols=67 Identities=19% Similarity=0.312 Sum_probs=43.1
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeC-------CCCCCccEEEEEEcCHHHHHHHHHHhhhcc
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRS-------RKDVGICYAFVEFEDMTGVRNAVEVCILMW 317 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~-------~~~~~rgfgFV~F~~~~~a~~Al~al~~~~ 317 (318)
..+.|.|-+.|... ...+.+.|++||.|....-.++. ....+..+-.|.|.+..+|++||+....++
T Consensus 5 ~~~wVtVFGfp~~~-~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~ 78 (100)
T PF05172_consen 5 SETWVTVFGFPPSA-SNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIF 78 (100)
T ss_dssp GCCEEEEE---GGG-HHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEE
T ss_pred CCeEEEEEccCHHH-HHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEE
Confidence 34567787888874 56778889999999874200010 011235788999999999999998876554
No 109
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=93.72 E-value=0.081 Score=50.71 Aligned_cols=64 Identities=22% Similarity=0.312 Sum_probs=52.1
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEe--------EEEEeCCCCCCccEEEEEEcCHHHHHHHHHHh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSE--------GVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 313 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~--------~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al 313 (318)
..-+|||-+|+.+++..+|..+|.++|.|+.- +|-....++..+|=|.|.|++...|+.||.-+
T Consensus 65 ~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~ 136 (351)
T KOG1995|consen 65 DNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWF 136 (351)
T ss_pred ccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhh
Confidence 45789999999999999999999999988653 22223345666899999999999999998754
No 110
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=93.24 E-value=0.064 Score=52.31 Aligned_cols=53 Identities=30% Similarity=0.340 Sum_probs=43.6
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHH
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRN 308 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~ 308 (318)
..+-|++||||+++++.+|-.++..||.|..+.. + +| +.-||++|.+.++|..
T Consensus 27 pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~-l---kG--knQAflem~d~~sAvt 79 (492)
T KOG1190|consen 27 PSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLM-L---KG--KNQAFLEMADEESAVT 79 (492)
T ss_pred CcceeEeccCCccccHHHHHHhcccccceeeeee-e---cc--chhhhhhhcchhhhhh
Confidence 3477999999999999999999999999998522 1 22 4479999999888765
No 111
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=93.10 E-value=0.096 Score=51.32 Aligned_cols=58 Identities=26% Similarity=0.381 Sum_probs=43.8
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
.++|+|||....+..+|+.+|+..---....+++. .||+||.+.+...+.+|++.+..
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k------~gyafvd~pdq~wa~kaie~~sg 59 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK------SGYAFVDCPDQQWANKAIETLSG 59 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeee------cceeeccCCchhhhhhhHHhhch
Confidence 46899999999999999999974311111112222 48999999999999999998863
No 112
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=92.99 E-value=0.47 Score=34.47 Aligned_cols=55 Identities=18% Similarity=0.273 Sum_probs=41.5
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcC----CCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKF----GELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 313 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~f----G~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al 313 (318)
+..+|+|+|+ .+++.++++.+|..| ++.. |....++ -|-|.|.+...|.+||.+|
T Consensus 4 rpeavhirGv-d~lsT~dI~~y~~~y~~~~~~~~---IEWIdDt-----ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 4 RPEAVHIRGV-DELSTDDIKAYFSEYFDEEGPFR---IEWIDDT-----SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eeceEEEEcC-CCCCHHHHHHHHHHhcccCCCce---EEEecCC-----cEEEEECCHHHHHHHHHcC
Confidence 3467999998 568889999999988 5432 3333333 2679999999999999875
No 113
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=92.95 E-value=0.13 Score=52.14 Aligned_cols=64 Identities=22% Similarity=0.214 Sum_probs=47.5
Q ss_pred ceeeEeccCCCCCC------HHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 251 IKSVYVRNLPPSVS------ESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 251 ~~~IfVgnLp~~~t------e~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
...|+|-|+|---. ..-|..+|+++|+|....+.+... |..+||.|++|.+..+|+.|++.+..
T Consensus 58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~-ggtkG~lf~E~~~~~~A~~aVK~l~G 127 (698)
T KOG2314|consen 58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE-GGTKGYLFVEYASMRDAKKAVKSLNG 127 (698)
T ss_pred ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc-CCeeeEEEEEecChhhHHHHHHhccc
Confidence 35677777765422 234667899999998865544433 33689999999999999999999864
No 114
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=92.26 E-value=0.15 Score=49.53 Aligned_cols=65 Identities=20% Similarity=0.261 Sum_probs=50.3
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEe-EEE-EeCCCCCCccEEEEEEcCHHHHHHHHHHhhhc
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSE-GVV-IRSRKDVGICYAFVEFEDMTGVRNAVEVCILM 316 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~-~i~-~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~ 316 (318)
..|-+++||+..+.++|..+|+.|-.-... ++. +.+..|...|=|||.|.+.+.+..|....+..
T Consensus 281 dcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~ 347 (508)
T KOG1365|consen 281 DCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKK 347 (508)
T ss_pred CeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHh
Confidence 457789999999999999999988754332 222 34446666799999999999999998877644
No 115
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=92.04 E-value=0.07 Score=56.23 Aligned_cols=64 Identities=17% Similarity=0.127 Sum_probs=54.6
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
...+||+|+|+..|.+.|+.+|.++|.+++..+ +..+.|+.+|.+||.|.+...+.+++....+
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~-vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~ 799 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRL-VTVRAGKPKGKARVDYNTEADASRKVASVDV 799 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccch-hhhhccccccceeccCCCcchhhhhcccchh
Confidence 467999999999999999999999999999753 4455788899999999999998887755543
No 116
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=91.63 E-value=0.56 Score=41.45 Aligned_cols=57 Identities=23% Similarity=0.235 Sum_probs=49.7
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
-.++.|.+||.+.+..+|+++..+-|.+....+.. -|+|.|+|...+++.-|++.|.
T Consensus 115 e~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~r-------Dg~GvV~~~r~eDMkYAvr~ld 171 (241)
T KOG0105|consen 115 EYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQR-------DGVGVVEYLRKEDMKYAVRKLD 171 (241)
T ss_pred ceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeec-------ccceeeeeeehhhHHHHHHhhc
Confidence 36789999999999999999999999998876642 2689999999999999998874
No 117
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.56 E-value=0.33 Score=46.45 Aligned_cols=63 Identities=17% Similarity=0.346 Sum_probs=44.1
Q ss_pred eeeEeccCCCCCCHHH------HHHHhhcCCCeEEeEEEEeCC--CCCCccEE-EEEEcCHHHHHHHHHHhh
Q 021044 252 KSVYVRNLPPSVSESE------IAEEFKKFGELSSEGVVIRSR--KDVGICYA-FVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~------L~~~F~~fG~I~~~~i~~~~~--~~~~rgfg-FV~F~~~~~a~~Al~al~ 314 (318)
.-+||-+|+..+-.++ -.++|++||.|..+.|..+.. ..+..-+| ||+|...++|.+||.+..
T Consensus 115 NLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vD 186 (480)
T COG5175 115 NLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVD 186 (480)
T ss_pred ceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhc
Confidence 4579999998875554 357899999999965433221 11112243 999999999999998764
No 118
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=91.50 E-value=0.15 Score=46.87 Aligned_cols=65 Identities=18% Similarity=0.294 Sum_probs=49.0
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCC--------CCCc----cEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRK--------DVGI----CYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~--------~~~r----gfgFV~F~~~~~a~~Al~al~ 314 (318)
...-||+++||..+....||++|.+||.|-.+.+.-..+. |..+ .=|.|+|.+-..|.++...|+
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Ln 149 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLN 149 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhC
Confidence 3467999999999999999999999999988655432222 1122 125799999988888877774
No 119
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=91.13 E-value=0.23 Score=52.75 Aligned_cols=58 Identities=22% Similarity=0.379 Sum_probs=49.7
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 313 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al 313 (318)
..+.+|+|+|..|+....|..+|..||.|..+.+ +. +.-|++|.|++...++.|++.+
T Consensus 454 ~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy----~h--gq~yayi~yes~~~aq~a~~~~ 511 (975)
T KOG0112|consen 454 PTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDY----RH--GQPYAYIQYESPPAAQAATHDM 511 (975)
T ss_pred cceeeccCCCCCCChHHHHHHHhhccCcceeeec----cc--CCcceeeecccCccchhhHHHH
Confidence 4588999999999999999999999999998543 22 3579999999999998888765
No 120
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=91.13 E-value=0.46 Score=49.36 Aligned_cols=62 Identities=21% Similarity=0.192 Sum_probs=51.8
Q ss_pred eeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 253 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 253 ~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
-|-+.|+|++++-++|.++|..|-.+-..-++.+.++|...|=|.|.|++.++|.+|...|.
T Consensus 869 V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~ 930 (944)
T KOG4307|consen 869 VLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLD 930 (944)
T ss_pred EEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccc
Confidence 67889999999999999999999777554333455677778999999999999999987663
No 121
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=90.02 E-value=1.5 Score=43.04 Aligned_cols=59 Identities=17% Similarity=0.189 Sum_probs=49.3
Q ss_pred ceeeEeccCCCC-CCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 251 IKSVYVRNLPPS-VSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 251 ~~~IfVgnLp~~-~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+.|-|.||... +|.+-|..+|+-||.|..+.|.... +--|.|.|.|...|+-|++.|.
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 577889999765 7999999999999999998774322 2469999999999999998884
No 122
>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=89.80 E-value=1.5 Score=33.82 Aligned_cols=55 Identities=16% Similarity=0.250 Sum_probs=41.0
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+-.|+. .|..+...||.++|+.||.|.--+| .+ .-|||...+.+.+..++..+.
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I~VsWi---~d-----TSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQIYVSWI---ND-----TSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCEEEEEE---CT-----TEEEEEECCCHHHHHHHHHHT
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcEEEEEE---cC-----CcEEEEeecHHHHHHHHHHhc
Confidence 3556666 9999999999999999999976544 22 459999999999999888764
No 123
>cd00531 NTF2_like Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of divergent evolution wherein the proteins have many common structural details but diverge greatly in their function. For example, nuclear transport factor 2 (NTF2) mediates the nuclear import of RanGDP and binds to both RanGDP and FxFG repeat-containing nucleoporins while Ketosteroid isomerases catalyze the isomerization of delta-5-3-ketosteroid to delta-4-3-ketosteroid, by intramolecular transfer of the C4-beta proton to the C6-beta position. While the function of the beta sub-unit of the Ring hydroxylating dioxygenases is not known, Scytalone Dehydratases catalyzes two reactions in the biosynthetic pathway that produces fungal melanin. Members of the NTF2-like superfamily are widely distributed among bacteria, archaea
Probab=89.66 E-value=2.7 Score=32.16 Aligned_cols=57 Identities=25% Similarity=0.213 Sum_probs=44.1
Q ss_pred eEEEEeeecccCC-CcEEEEEEEEEEecCC--ccccceeEEEEeeeeCCeEEEEcceEee
Q 021044 8 IEIKTAHSLESWN-GGVLVMVSGSVQVKDF--SARRKFVQTFFLAPQEKGYFVLNDIFHF 64 (318)
Q Consensus 8 ~~i~~~D~q~s~~-~gvlv~v~G~l~~~~~--~~~~~F~Q~F~L~~~~~~y~v~nDifr~ 64 (318)
+.+.+++.+...+ .+.++.+.|.+...+. ...+.|.+.|.+...+++|.|.++.++|
T Consensus 64 h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~w~i~~~~~~~ 123 (124)
T cd00531 64 HLVSNVDVQPGDDGEGVVVSVFGVLRTRGDGEQDVFAGGQTFVLRPQGGGGKIANRRFRL 123 (124)
T ss_pred EEEEeEEEEeCCCCEEEEEEEEEEEEEccCCceeEEEEEEEEEEEEeCCEEEEEEEEEec
Confidence 3457888887543 3466777788877652 4467899999999999999999999987
No 124
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=87.74 E-value=0.12 Score=54.79 Aligned_cols=65 Identities=20% Similarity=0.274 Sum_probs=53.6
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
....+||+|||...+++.+|+..|..+|.+..+.|.... -++.--||||.|.+...+.+|+..+.
T Consensus 370 ~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s 434 (975)
T KOG0112|consen 370 RATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEES 434 (975)
T ss_pred hhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhc
Confidence 456789999999999999999999999999997775432 34456799999999888888776653
No 125
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=87.48 E-value=0.94 Score=45.87 Aligned_cols=50 Identities=26% Similarity=0.286 Sum_probs=38.0
Q ss_pred HHHHHHhhcCCCeEEeEEEEeCC---CCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 266 SEIAEEFKKFGELSSEGVVIRSR---KDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 266 ~~L~~~F~~fG~I~~~~i~~~~~---~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
++++..+.+||.|..|.|..... ...|.|--||+|.+.+++++|+.+|..
T Consensus 424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~G 476 (500)
T KOG0120|consen 424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTG 476 (500)
T ss_pred HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccC
Confidence 46666788999999987654422 123356679999999999999999863
No 126
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=85.91 E-value=0.56 Score=45.69 Aligned_cols=59 Identities=20% Similarity=0.287 Sum_probs=45.1
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCC---CCccEEEEEEcCHHHHHHHH
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKD---VGICYAFVEFEDMTGVRNAV 310 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~---~~rgfgFV~F~~~~~a~~Al 310 (318)
.-|-|.||..+++.++++.||+..|.|..+.+.-.-+.. .....|||.|.|...+..|-
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ 69 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ 69 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh
Confidence 478999999999999999999999999996553211111 12467999999988776653
No 127
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=85.69 E-value=2.7 Score=35.71 Aligned_cols=60 Identities=23% Similarity=0.336 Sum_probs=45.4
Q ss_pred ccceeeEeccCCCCCCH-HHHHH---HhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 249 EEIKSVYVRNLPPSVSE-SEIAE---EFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te-~~L~~---~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
....+|-|+-|..++.. ++|+. .++.||+|.++.. .|+--|.|.|.|..+|=+|+.+.+-
T Consensus 84 pPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~-------cGrqsavVvF~d~~SAC~Av~Af~s 147 (166)
T PF15023_consen 84 PPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTL-------CGRQSAVVVFKDITSACKAVSAFQS 147 (166)
T ss_pred CCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeee-------cCCceEEEEehhhHHHHHHHHhhcC
Confidence 35678889988888643 45554 4578999999633 2466799999999999999988763
No 128
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=85.25 E-value=1.1 Score=46.34 Aligned_cols=55 Identities=24% Similarity=0.181 Sum_probs=47.2
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..++||||+...+...-++.+...+|.|..+... -|||..|.++....+|+..+.
T Consensus 40 ~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~---------~fgf~~f~~~~~~~ra~r~~t 94 (668)
T KOG2253|consen 40 RDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD---------KFGFCEFLKHIGDLRASRLLT 94 (668)
T ss_pred CceeEecchhhhhhHHHHHHHHhhCCcchhhhhh---------hhcccchhhHHHHHHHHHHhc
Confidence 4679999999999999999999999999885321 299999999999999888774
No 129
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=84.97 E-value=2.7 Score=40.90 Aligned_cols=60 Identities=18% Similarity=0.167 Sum_probs=50.5
Q ss_pred cceeeEeccCCCC-CCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPS-VSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~-~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.++-+.|-+|... ++.+.|..+|..||.|..+..+ +.. .|-|.|++.|...+++|+.-|.
T Consensus 286 ~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFm-kTk----~gtamVemgd~~aver~v~hLn 346 (494)
T KOG1456|consen 286 PGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFM-KTK----PGTAMVEMGDAYAVERAVTHLN 346 (494)
T ss_pred CCcEEEEEeccccccchhhhhhhhhhcCceeeEEEe-ecc----cceeEEEcCcHHHHHHHHHHhc
Confidence 5788999999876 6779999999999999997653 322 4789999999999999998775
No 130
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=83.80 E-value=0.6 Score=47.73 Aligned_cols=60 Identities=10% Similarity=0.050 Sum_probs=47.5
Q ss_pred cceeeEeccCCCCCCHHHHHHHhh-cCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFK-KFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~-~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
-...|||.||-.-.|..+|+.+++ ..|.|...|| + +-+.-|||.|.+.+.|..-+.+|+.
T Consensus 443 ~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~Wm--D----kIKShCyV~yss~eEA~atr~Alhn 503 (718)
T KOG2416|consen 443 PSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWM--D----KIKSHCYVSYSSVEEAAATREALHN 503 (718)
T ss_pred ccceEeeecccccchHHHHHHHHhhccCchHHHHH--H----HhhcceeEecccHHHHHHHHHHHhc
Confidence 457799999999999999999998 5666666533 1 1245689999999999988888863
No 131
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=79.96 E-value=4.4 Score=39.09 Aligned_cols=62 Identities=16% Similarity=0.195 Sum_probs=46.0
Q ss_pred cceeeEeccCCC----CCC-------HHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPP----SVS-------ESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~----~~t-------e~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
..++|-++|+-. ..+ .++|++...+||.+..+.|. .+ .+.|.+-|.|.+.+.|..||+.|..
T Consensus 264 ~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~-d~---hPdGvvtV~f~n~eeA~~ciq~m~G 336 (382)
T KOG1548|consen 264 ADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVY-DR---HPDGVVTVSFRNNEEADQCIQTMDG 336 (382)
T ss_pred CCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEe-cc---CCCceeEEEeCChHHHHHHHHHhcC
Confidence 447788888732 223 35667778899999997442 22 2468999999999999999999864
No 132
>PF10429 Mtr2: Nuclear pore RNA shuttling protein Mtr2; InterPro: IPR019488 Mtr2 is a monomeric, dual-action, RNA-shuttle protein found in yeasts. Transport across the nuclear-cytoplasmic membrane is via the macro-molecular membrane-spanning nuclear pore complex, NPC. The pore is lined by a subset of NPC members called nucleoporins that present FG (Phe-Gly) receptors, characteristically GLFG and FXFG motifs, for shuttling RNAs and proteins. RNA cargo is bound to soluble transport proteins (nuclear export factors) such as Mex67 in yeasts, and TAP in metazoa, which pass along the pore by binding to successive FG receptors. Mtr2 when bound to Mex67 maximises this FG-binding. Mtr2 also acts independently of Mex67 in transporting the large ribosomal RNA subunit through the pore []. ; PDB: 1Q40_A 1Q42_A 1OF5_B.
Probab=79.32 E-value=3 Score=36.08 Aligned_cols=49 Identities=10% Similarity=0.036 Sum_probs=34.8
Q ss_pred CCC-ccceEEEEeeecccCCC-cEEEEEEEEEEecCCccccceeEEEEeeee
Q 021044 2 SLN-YSGIEIKTAHSLESWNG-GVLVMVSGSVQVKDFSARRKFVQTFFLAPQ 51 (318)
Q Consensus 2 sl~-~~~~~i~~~D~q~s~~~-gvlv~v~G~l~~~~~~~~~~F~Q~F~L~~~ 51 (318)
+++ .++|+++++||+.-.+. .++|.|+|.+.+|+. .+-|--|+..|.+.
T Consensus 59 ~~pv~TqH~L~s~D~H~IPGsgt~i~N~n~KVRFDEs-Grdk~G~~a~l~~~ 109 (166)
T PF10429_consen 59 QQPVQTQHQLTSFDCHVIPGSGTFIINVNCKVRFDES-GRDKLGEDADLPQP 109 (166)
T ss_dssp CCS--EEEEEEEEEEEEETTTTEEEEEEEEEEEEB-S-SB-TTS-B--TTS-
T ss_pred hCccceeeeeeeeeeeEeCCCCeEEEeeeEEEEecCC-CCCCCCCceeeccc
Confidence 345 56789999999997744 489999999999876 46789999998765
No 133
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=78.69 E-value=3.6 Score=40.09 Aligned_cols=55 Identities=33% Similarity=0.492 Sum_probs=44.9
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHH
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVE 311 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~ 311 (318)
+--+.|++|-..+++.+|-+..+.||.|..+.. ... +.-+.|+|++.+.|..++.
T Consensus 31 spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~--~P~----~r~alvefedi~~akn~Vn 85 (494)
T KOG1456|consen 31 SPVVHVRGLHQGVVEADLVEALSNFGPIAYVTC--MPH----KRQALVEFEDIEGAKNCVN 85 (494)
T ss_pred CceEEEeccccccchhHHHHHHhcCCceEEEEe--ccc----cceeeeeeccccchhhhee
Confidence 456899999999999999999999999998633 222 3458999999998887764
No 134
>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=78.43 E-value=2.3 Score=37.22 Aligned_cols=64 Identities=17% Similarity=0.216 Sum_probs=36.8
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhc-CCCe---EEeEEEEeCCC--CCCccEEEEEEcCHHHHHHHHHHh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKK-FGEL---SSEGVVIRSRK--DVGICYAFVEFEDMTGVRNAVEVC 313 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~-fG~I---~~~~i~~~~~~--~~~rgfgFV~F~~~~~a~~Al~al 313 (318)
.+.+|-||+||+++|++++.+.+.. +|.- ....-...... ....+-|||.|.+.+.+..-+..+
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 5689999999999999988886665 5555 22210011111 111456899999988877666554
No 135
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=78.13 E-value=8.4 Score=39.42 Aligned_cols=63 Identities=17% Similarity=0.186 Sum_probs=48.6
Q ss_pred ccccccceeeEeccCCCCCCHHHHHHHhhc--CCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 245 VEDEEEIKSVYVRNLPPSVSESEIAEEFKK--FGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 245 ~~~~~~~~~IfVgnLp~~~te~~L~~~F~~--fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.....+.|-|.++-||.++..++++.+|+. +-++.+|..... . -.||+|++..+|+.|.+.|.
T Consensus 169 Vrp~~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N--~-----nWyITfesd~DAQqAykylr 233 (684)
T KOG2591|consen 169 VRPNHKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHN--D-----NWYITFESDTDAQQAYKYLR 233 (684)
T ss_pred cccCcceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeec--C-----ceEEEeecchhHHHHHHHHH
Confidence 333445677889999999999999999974 666777654322 1 25999999999999998875
No 136
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=77.64 E-value=1.3 Score=41.95 Aligned_cols=65 Identities=15% Similarity=0.006 Sum_probs=55.1
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
..+++|+|++..++.+.+...+|..+|....+......+....+||+.+.|...+.+..||....
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~ 151 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESG 151 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhh
Confidence 46889999999999999899999999988877655555666779999999999999999987664
No 137
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=76.21 E-value=2.3 Score=40.65 Aligned_cols=66 Identities=17% Similarity=0.346 Sum_probs=44.1
Q ss_pred eeeEeccCCCCCCHH-HHH--HHhhcCCCeEEeEEEEeC--CCCCC-ccEEEEEEcCHHHHHHHHHHhhhcc
Q 021044 252 KSVYVRNLPPSVSES-EIA--EEFKKFGELSSEGVVIRS--RKDVG-ICYAFVEFEDMTGVRNAVEVCILMW 317 (318)
Q Consensus 252 ~~IfVgnLp~~~te~-~L~--~~F~~fG~I~~~~i~~~~--~~~~~-rgfgFV~F~~~~~a~~Al~al~~~~ 317 (318)
.-+||-+|+.....+ .|+ +.|.+||.|..+.+..+. ..+.+ .+-++|+|+..++|..||.....++
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~ 149 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFV 149 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHH
Confidence 457888888776444 333 478899999986332211 11111 3447999999999999998876543
No 138
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=75.91 E-value=3.7 Score=38.66 Aligned_cols=50 Identities=16% Similarity=0.248 Sum_probs=37.1
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHH
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMT 304 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~ 304 (318)
-.+-||++||+.++...+|+..+.+.|..-- .| ..+| .+|-||..|.+..
T Consensus 329 ~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm-~i---swkg-~~~k~flh~~~~~ 378 (396)
T KOG4410|consen 329 AKTDIKLTNLSRDIRVKDLKSELRKRECTPM-SI---SWKG-HFGKCFLHFGNRK 378 (396)
T ss_pred cccceeeccCccccchHHHHHHHHhcCCCce-eE---eeec-CCcceeEecCCcc
Confidence 3456999999999999999999988876421 12 2233 3677899998753
No 139
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=75.62 E-value=4.8 Score=38.15 Aligned_cols=59 Identities=19% Similarity=0.236 Sum_probs=42.4
Q ss_pred eeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhccC
Q 021044 253 SVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMWH 318 (318)
Q Consensus 253 ~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~~~ 318 (318)
.|-|-+.+... ...|..+|.+||.|.+. . ..++ ..|-+|.|.+..+|++||.....||+
T Consensus 199 WVTVfGFppg~-~s~vL~~F~~cG~Vvkh--v-~~~n---gNwMhirYssr~~A~KALskng~ii~ 257 (350)
T KOG4285|consen 199 WVTVFGFPPGQ-VSIVLNLFSRCGEVVKH--V-TPSN---GNWMHIRYSSRTHAQKALSKNGTIID 257 (350)
T ss_pred eEEEeccCccc-hhHHHHHHHhhCeeeee--e-cCCC---CceEEEEecchhHHHHhhhhcCeeec
Confidence 33344565554 35677889999999883 2 2233 36889999999999999988876653
No 140
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=68.51 E-value=7 Score=41.05 Aligned_cols=62 Identities=21% Similarity=0.129 Sum_probs=48.7
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEE-EeCCCCCCccEEEEEEcCHHHHHHHHH
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVV-IRSRKDVGICYAFVEFEDMTGVRNAVE 311 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~-~~~~~~~~rgfgFV~F~~~~~a~~Al~ 311 (318)
.-+..|||..||..+++.++-++|+..-.|.+. |. .+.-++..++-|||.|...+++.+|+.
T Consensus 432 ~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~-I~lt~~P~~~~~~~afv~F~~~~a~~~a~~ 494 (944)
T KOG4307|consen 432 GAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDF-IELTRLPTDLLRPAAFVAFIHPTAPLTASS 494 (944)
T ss_pred CccceEEeccCCccccccchhhhhhhhhhhhhe-eEeccCCcccccchhhheeccccccchhhh
Confidence 356789999999999999999999988888774 32 234466668999999998777666543
No 141
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=68.42 E-value=7.7 Score=39.52 Aligned_cols=64 Identities=13% Similarity=0.175 Sum_probs=40.3
Q ss_pred eeEeccCCCCCCHHHHHHHh-hcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhc
Q 021044 253 SVYVRNLPPSVSESEIAEEF-KKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILM 316 (318)
Q Consensus 253 ~IfVgnLp~~~te~~L~~~F-~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~ 316 (318)
++-|+|++...|-..|...- +..|.=..+.+.++..+....|||||.|-+.+.+.+..++...+
T Consensus 390 t~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk 454 (549)
T KOG4660|consen 390 TLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGK 454 (549)
T ss_pred hhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCC
Confidence 34444444444433333331 22454445556666666667899999999999999998887643
No 142
>PF13474 SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE7_A 3BB9_E 3CNX_A 3F7S_A 3GWR_B.
Probab=66.21 E-value=38 Score=26.09 Aligned_cols=52 Identities=10% Similarity=0.047 Sum_probs=32.2
Q ss_pred EEEEeeecccCCCcEEEEEEEEEEe--cCCccccceeEEEEeeeeCCeEEEEcce
Q 021044 9 EIKTAHSLESWNGGVLVMVSGSVQV--KDFSARRKFVQTFFLAPQEKGYFVLNDI 61 (318)
Q Consensus 9 ~i~~~D~q~s~~~gvlv~v~G~l~~--~~~~~~~~F~Q~F~L~~~~~~y~v~nDi 61 (318)
.+..+..+. .++.+++...+.+++ ++....+++-.||+|...+++|.|...-
T Consensus 62 ~~~~~~v~~-~~~~a~~~~~~~~~~~~~~~~~~~~~r~t~v~~k~~~~Wki~h~H 115 (121)
T PF13474_consen 62 EFEDVQVSV-SGDVAVVTGEFRLRFRNDGEEIEMRGRATFVFRKEDGGWKIVHIH 115 (121)
T ss_dssp EEEEEEEEE-ETTEEEEEEEEEEEEECTTCEEEEEEEEEEEEEEETTEEEEEEEE
T ss_pred EEEEEEEEE-CCCEEEEEEEEEEEEecCCccceeeEEEEEEEEEECCEEEEEEEE
Confidence 344444443 234455555555544 3444446788999999999999987543
No 143
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=64.21 E-value=3.3 Score=38.29 Aligned_cols=48 Identities=19% Similarity=0.249 Sum_probs=34.9
Q ss_pred HHHHHHhh-cCCCeEEeEEEEeCCCCC-CccEEEEEEcCHHHHHHHHHHhhh
Q 021044 266 SEIAEEFK-KFGELSSEGVVIRSRKDV-GICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 266 ~~L~~~F~-~fG~I~~~~i~~~~~~~~-~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
+++...|. +||.|..+.| ..+-+. -+|=.+|.|...++|++|++.|+.
T Consensus 83 Ed~f~E~~~kygEiee~~V--c~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnn 132 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNV--CDNLGDHLVGNVYVKFRSEEDAEAALEDLNN 132 (260)
T ss_pred HHHHHHHHHHhhhhhhhhh--hcccchhhhhhhhhhcccHHHHHHHHHHHcC
Confidence 44555555 9999998533 333332 378899999999999999998863
No 144
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=57.37 E-value=27 Score=33.20 Aligned_cols=50 Identities=26% Similarity=0.284 Sum_probs=35.4
Q ss_pred HHHHHHHhhcCCCeEEeEEEEeCCCCCC-ccEEEEEEcCHHHHHHHHHHhh
Q 021044 265 ESEIAEEFKKFGELSSEGVVIRSRKDVG-ICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 265 e~~L~~~F~~fG~I~~~~i~~~~~~~~~-rgfgFV~F~~~~~a~~Al~al~ 314 (318)
++++++...+||.|..|-|......-.. .---||+|+..+++.+|+--|.
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 3567778889999999866554332212 2336999999999888886664
No 145
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=54.48 E-value=25 Score=29.89 Aligned_cols=44 Identities=18% Similarity=0.242 Sum_probs=30.8
Q ss_pred HHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhhcc
Q 021044 266 SEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCILMW 317 (318)
Q Consensus 266 ~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~~~ 317 (318)
.+|-+.|..||.+.=+++ .. +--+|+|.+.++|.+|+....+.+
T Consensus 51 ~~ll~~~~~~GevvLvRf--v~------~~mwVTF~dg~sALaals~dg~~v 94 (146)
T PF08952_consen 51 DELLQKFAQYGEVVLVRF--VG------DTMWVTFRDGQSALAALSLDGIQV 94 (146)
T ss_dssp HHHHHHHHCCS-ECEEEE--ET------TCEEEEESSCHHHHHHHHGCCSEE
T ss_pred HHHHHHHHhCCceEEEEE--eC------CeEEEEECccHHHHHHHccCCcEE
Confidence 467788999998764322 21 346899999999999987765543
No 146
>PRK11901 hypothetical protein; Reviewed
Probab=50.20 E-value=2.3e+02 Score=27.38 Aligned_cols=61 Identities=15% Similarity=0.139 Sum_probs=37.7
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEE--EEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFV--EFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV--~F~~~~~a~~Al~al~~ 315 (318)
..++|=+.. ...++.|+.|..+.+ +..+++....++|+ .+|..| .|.+.+.|++|+..|+-
T Consensus 244 ~~YTLQL~A---as~~~~L~~f~~~~~-L~~~~VYqT~RnGk-pWYVVvyG~Y~Sr~eAk~Ai~sLPa 306 (327)
T PRK11901 244 SHYTLQLSS---ASRSDTLNAYAKKQN-LSHYHVYETKRDGK-PWYVLVSGNYASSAEAKRAIATLPA 306 (327)
T ss_pred CCeEEEeec---CCCHHHHHHHHHHcC-cCceEEEEEEECCc-eEEEEEecCcCCHHHHHHHHHhCCH
Confidence 344554443 355777888877776 33344433333332 345433 78999999999999974
No 147
>PF15008 DUF4518: Domain of unknown function (DUF4518)
Probab=45.31 E-value=29 Score=32.41 Aligned_cols=52 Identities=25% Similarity=0.179 Sum_probs=40.4
Q ss_pred eeecccCCCcEEEEEEEEEEecCCccccceeEEEEeeee---CCeEEEEcceEeee
Q 021044 13 AHSLESWNGGVLVMVSGSVQVKDFSARRKFVQTFFLAPQ---EKGYFVLNDIFHFI 65 (318)
Q Consensus 13 ~D~q~s~~~gvlv~v~G~l~~~~~~~~~~F~Q~F~L~~~---~~~y~v~nDifr~~ 65 (318)
+.|..+.-|-|+|.|+|.|-.++.+ .=-|-|.|=|... +|.|.|-+==+|..
T Consensus 205 ~k~~~~phGlV~V~v~GTvH~~~~C-lGiFEq~FGLiRdP~~~N~WKiK~~~l~i~ 259 (262)
T PF15008_consen 205 VKGRISPHGLVLVAVCGTVHRDNTC-LGIFEQIFGLIRDPFAENNWKIKFVNLRIR 259 (262)
T ss_pred cceEEcCCCcEEEEEeeeEecCCce-EeehhhhhhcccCccccCceeEEEEEEEEE
Confidence 5566666777999999999988877 4679999999865 48898876555543
No 148
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=43.64 E-value=5.7 Score=38.97 Aligned_cols=60 Identities=18% Similarity=0.156 Sum_probs=47.4
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.+++||++|...+...++.++|..+|.+...++. .+...-||.+.|....+...|++...
T Consensus 151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a----sk~~s~~c~~sf~~qts~~halr~~g 210 (479)
T KOG4676|consen 151 RRTREVQSLISAAILPESGESFERKGEVSYAHTA----SKSRSSSCSHSFRKQTSSKHALRSHG 210 (479)
T ss_pred Hhhhhhhcchhhhcchhhhhhhhhcchhhhhhhh----ccCCCcchhhhHhhhhhHHHHHHhcc
Confidence 3789999999999999999999999999886543 22234567799988887777776654
No 149
>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=42.00 E-value=1.8e+02 Score=23.37 Aligned_cols=62 Identities=11% Similarity=0.002 Sum_probs=38.3
Q ss_pred eeeEe-ccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 252 KSVYV-RNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 252 ~~IfV-gnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
+.+.+ ...|..++.++|..+...+-..... +++.++...++....+.|.+...|..-.+.++
T Consensus 13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~-~riird~~pnrymVLikF~~~~~Ad~Fy~~fN 75 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEH-IRIIRDGTPNRYMVLIKFRDQESADEFYEEFN 75 (110)
T ss_pred ceEEEEEeCcccccHHHHHHhhhcccccEEE-EEEeeCCCCceEEEEEEECCHHHHHHHHHHhC
Confidence 44444 4445555666776655555444432 44444444457788999999999988776654
No 150
>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=39.17 E-value=1.3e+02 Score=21.98 Aligned_cols=44 Identities=11% Similarity=0.247 Sum_probs=33.2
Q ss_pred CCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhh
Q 021044 262 SVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCI 314 (318)
Q Consensus 262 ~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~ 314 (318)
.++-.+++..+++|+... |+ ..+ .|| ||.|.+..+|+++.++..
T Consensus 11 ~~~v~d~K~~Lr~y~~~~---I~-~d~----tGf-YIvF~~~~Ea~rC~~~~~ 54 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRWDR---IR-DDR----TGF-YIVFNDSKEAERCFRAED 54 (66)
T ss_pred CccHHHHHHHHhcCCcce---EE-ecC----CEE-EEEECChHHHHHHHHhcC
Confidence 467789999999998654 22 222 243 899999999999998765
No 151
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=36.95 E-value=32 Score=32.40 Aligned_cols=23 Identities=30% Similarity=0.585 Sum_probs=19.5
Q ss_pred CCHHHHHHHhhcCCCeEEeEEEE
Q 021044 263 VSESEIAEEFKKFGELSSEGVVI 285 (318)
Q Consensus 263 ~te~~L~~~F~~fG~I~~~~i~~ 285 (318)
-+++.|+..|..||.|..+.|.+
T Consensus 173 pse~rlr~a~eafg~ir~vdipi 195 (445)
T KOG2891|consen 173 PSEDRLRKAFEAFGEIRNVDIPI 195 (445)
T ss_pred ChHHHHHHHHHHhccceecCCcc
Confidence 45789999999999999887754
No 152
>KOG3763 consensus mRNA export factor TAP/MEX67 [RNA processing and modification]
Probab=36.31 E-value=77 Score=32.80 Aligned_cols=63 Identities=19% Similarity=0.299 Sum_probs=42.4
Q ss_pred CCCccceEEE----EeeecccCCCcEEEEEEEEEEecCCccc---cc---eeEEEEeeeeC-CeEEEEcceEeeec
Q 021044 2 SLNYSGIEIK----TAHSLESWNGGVLVMVSGSVQVKDFSAR---RK---FVQTFFLAPQE-KGYFVLNDIFHFIG 66 (318)
Q Consensus 2 sl~~~~~~i~----~~D~q~s~~~gvlv~v~G~l~~~~~~~~---~~---F~Q~F~L~~~~-~~y~v~nDifr~~~ 66 (318)
.||-++|... .+=+|. .+++.+.|.|.+.-.+.... +. |+-||+..|.+ .+--|.||.+---+
T Consensus 424 ~LPkT~Hdl~s~vvDv~~~~--~~~l~ftv~G~f~d~~g~~~~s~~~~~~FtRtfvv~P~~ns~l~iv~d~Lfi~~ 497 (585)
T KOG3763|consen 424 ALPKTQHDLDSFVVDVWYQT--GNLLGFTVAGVFRDGEGQNSPSNRALLGFTRTFVVTPRENSGLAIVNDQLFIAS 497 (585)
T ss_pred hCccchhhhhhhheeeeecc--cceEEEEEEEEeecCCccCCcccccccccceEEEEeeCCCCceEEEeceeEEee
Confidence 3666655322 333333 56789999999975433322 34 99999999987 58889999875543
No 153
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=34.71 E-value=65 Score=23.37 Aligned_cols=19 Identities=32% Similarity=0.422 Sum_probs=16.1
Q ss_pred HHHHHHhhcCCCeEEeEEE
Q 021044 266 SEIAEEFKKFGELSSEGVV 284 (318)
Q Consensus 266 ~~L~~~F~~fG~I~~~~i~ 284 (318)
.+||++|+..|.|.-+-+.
T Consensus 9 ~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHhcCcEEEEEEc
Confidence 6899999999999886554
No 154
>KOG3430 consensus Dynein light chain type 1 [Cytoskeleton]
Probab=34.35 E-value=56 Score=25.47 Aligned_cols=29 Identities=34% Similarity=0.474 Sum_probs=18.5
Q ss_pred HHHHHHh-hcCCCeEEeEEEEeCCCCCCccEE-EEEEcC
Q 021044 266 SEIAEEF-KKFGELSSEGVVIRSRKDVGICYA-FVEFED 302 (318)
Q Consensus 266 ~~L~~~F-~~fG~I~~~~i~~~~~~~~~rgfg-FV~F~~ 302 (318)
..|++.| ++||.-..|-+ |++|| ||+++.
T Consensus 41 ~~iKkefDkkyG~~Whciv--------G~~FGs~vThe~ 71 (90)
T KOG3430|consen 41 AFIKKEFDKKYGPTWHCIV--------GRNFGSYVTHET 71 (90)
T ss_pred HHHHHHHhhhcCCccEEEE--------cCCcceEEEeec
Confidence 4566777 68999888733 34454 566553
No 155
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=31.52 E-value=51 Score=28.60 Aligned_cols=35 Identities=34% Similarity=0.604 Sum_probs=30.5
Q ss_pred ccceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEE
Q 021044 249 EEIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGV 283 (318)
Q Consensus 249 ~~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i 283 (318)
.....+++++++..++...+...|..+|.+....+
T Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 257 (306)
T COG0724 223 EKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASL 257 (306)
T ss_pred cccceeeccccccccchhHHHHhccccccceeeec
Confidence 35688999999999999999999999999966443
No 156
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=31.40 E-value=11 Score=34.30 Aligned_cols=67 Identities=21% Similarity=0.369 Sum_probs=50.1
Q ss_pred cccccceeeEecc----CCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHh
Q 021044 246 EDEEEIKSVYVRN----LPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVC 313 (318)
Q Consensus 246 ~~~~~~~~IfVgn----Lp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al 313 (318)
.......+++.|+ |...++++.+...|+.-|++..+++-... .+..+.|+|+++......-.++...
T Consensus 75 ~~~e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~qr~~~~P~~~~~y 145 (267)
T KOG4454|consen 75 EEDEEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTYQRLCAVPFALDLY 145 (267)
T ss_pred ccchhhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchhhhhhhcCcHHhhhh
Confidence 3334557788888 88889999999999999999997664433 3667889999987766665565543
No 157
>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=30.56 E-value=90 Score=25.35 Aligned_cols=44 Identities=25% Similarity=0.482 Sum_probs=24.5
Q ss_pred CHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcC-HHHHHHHH
Q 021044 264 SESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFED-MTGVRNAV 310 (318)
Q Consensus 264 te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~-~~~a~~Al 310 (318)
+...|++.|..|..++.. .. -... -..|++.|.|.. ......|+
T Consensus 30 ~~~~l~~~l~~f~p~kv~-~l-~~~~-gh~g~aiv~F~~~w~Gf~~A~ 74 (116)
T PF03468_consen 30 SNEELLDKLAEFNPLKVK-PL-YGKQ-GHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp -SHHHHHHHHH---SEEE-EE-EETT-EEEEEEEEE--SSHHHHHHHH
T ss_pred CHHHHHHHHHhcCCceeE-EC-cCCC-CCcEEEEEEECCChHHHHHHH
Confidence 458899999999998753 22 2222 247999999965 44444554
No 158
>PF05629 Nanovirus_C8: Nanovirus component 8 (C8) protein; InterPro: IPR008706 This family consists of a group of 17.4 kDa nanovirus proteins which are highly related to the Faba bean necrotic yellows virus component 8 protein whose function is unknown [].
Probab=29.26 E-value=1.3e+02 Score=24.98 Aligned_cols=61 Identities=21% Similarity=0.231 Sum_probs=39.2
Q ss_pred EEEEeeecccC-CCc-------EEEEEEEEEEecCCccccceeEEEEeeeeC----------CeEEEEcceEeeeccccc
Q 021044 9 EIKTAHSLESW-NGG-------VLVMVSGSVQVKDFSARRKFVQTFFLAPQE----------KGYFVLNDIFHFIGEEQF 70 (318)
Q Consensus 9 ~i~~~D~q~s~-~~g-------vlv~v~G~l~~~~~~~~~~F~Q~F~L~~~~----------~~y~v~nDifr~~~~~~~ 70 (318)
.|..+|+-..- ++. +.|...|.+..++. +.|.|.|.-.+.-.| |||.-|||..-|..+..+
T Consensus 28 ~~~C~DS~~gkl~~pRKVLL~S~~v~FnGSF~G~NR-NVRG~l~vsm~~DDG~~RPi~~vP~GGY~YHnDy~Y~eG~~t~ 106 (153)
T PF05629_consen 28 EFTCCDSMKGKLKDPRKVLLVSCSVSFNGSFYGSNR-NVRGQLQVSMRQDDGVMRPIGYVPIGGYLYHNDYGYYEGQKTF 106 (153)
T ss_pred EEEeeeccCCccCCCceEEEEEEEEEecceeecCCc-ceeeEEEEEEEcCCCeeeeEEEEeecceEEeccceEEeccceE
Confidence 46666765532 222 33444566665544 468899987764433 689999999999887654
No 159
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.00 E-value=98 Score=30.77 Aligned_cols=55 Identities=9% Similarity=0.234 Sum_probs=39.7
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHH
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEV 312 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~a 312 (318)
+-|-|-+.|.....++|...|+.||.- .++|+...++ .+|-.|.+...|..||..
T Consensus 392 HVlEIydfp~efkteDll~~f~~yq~k-gfdIkWvDdt-----halaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 392 HVLEIYDFPDEFKTEDLLKAFETYQNK-GFDIKWVDDT-----HALAVFSSVNRAAEALTL 446 (528)
T ss_pred ceeEeccCchhhccHHHHHHHHHhhcC-CceeEEeecc-----eeEEeecchHHHHHHhhc
Confidence 556677888887778899999999863 3345555443 578889888888777654
No 160
>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=25.51 E-value=1.4e+02 Score=23.01 Aligned_cols=47 Identities=21% Similarity=0.264 Sum_probs=30.7
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEc
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFE 301 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~ 301 (318)
.-+||||++..+.+.-...+.+..+.-.-+ ++-+... ..||+|-.+.
T Consensus 26 ~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~--m~~~~~n-eqG~~~~t~G 72 (86)
T PF09707_consen 26 PGVYVGNVSARVRERLWERVTEWIGDGSAV--MVWSDNN-EQGFDFRTLG 72 (86)
T ss_pred CCcEEcCCCHHHHHHHHHHHHhhCCCccEE--EEEccCC-CCCEEEEEeC
Confidence 459999999998887777766655544442 2222222 5799997773
No 161
>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=25.44 E-value=73 Score=24.72 Aligned_cols=48 Identities=21% Similarity=0.180 Sum_probs=26.4
Q ss_pred eeeEeccCCCCCCHHHHHHHhhc-CCCeEEeEEEEeCCCCCCccEEEEEEcC
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKK-FGELSSEGVVIRSRKDVGICYAFVEFED 302 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~-fG~I~~~~i~~~~~~~~~rgfgFV~F~~ 302 (318)
.-+|||+++..+.+.--..+-+. .+.-. +.+........||.|-++.+
T Consensus 26 ~GVyVg~~s~rVRe~lW~~v~~~~~~~G~---avm~~~~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 26 AGVYVGGVSASVRERIWDYLAQHCPPKGS---LVITWSSNTCPGFEFFTLGE 74 (87)
T ss_pred CCcEEcCCCHHHHHHHHHHHHHhCCCCcc---EEEEEeCCCCCCcEEEecCC
Confidence 56999999888876544333333 23222 22222222245799887754
No 162
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=24.40 E-value=36 Score=36.71 Aligned_cols=59 Identities=17% Similarity=0.210 Sum_probs=47.3
Q ss_pred ceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHHHHhhh
Q 021044 251 IKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 251 ~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al~al~~ 315 (318)
..+.++-|..-+.+...|..+|.+||.+.++|.. |. ...+.|.|...+.|-.|+.+++.
T Consensus 298 qp~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtl-r~-----~N~alvs~~s~~sai~a~dAl~g 356 (1007)
T KOG4574|consen 298 QPKQSLENNAVNLTSSSLATLCSDYGSVASAWTL-RD-----LNMALVSFSSVESAILALDALQG 356 (1007)
T ss_pred cchhhhhcccccchHHHHHHHHHhhcchhhheec-cc-----ccchhhhhHHHHHHHHhhhhhcC
Confidence 3556677778888999999999999999997542 32 24689999999999999988864
No 163
>PRK10905 cell division protein DamX; Validated
Probab=23.12 E-value=5.2e+02 Score=24.97 Aligned_cols=61 Identities=11% Similarity=0.002 Sum_probs=36.8
Q ss_pred cceeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEE--EEEcCHHHHHHHHHHhhh
Q 021044 250 EIKSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAF--VEFEDMTGVRNAVEVCIL 315 (318)
Q Consensus 250 ~~~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgF--V~F~~~~~a~~Al~al~~ 315 (318)
..+.|=|+.+ .+.+.|+.+-.+.|- ....+....++|+ ..|-. =.|.+.++|++||..|+-
T Consensus 246 ~~YTLQL~A~---Ss~~~l~~fakKlgL-~~y~vy~TtRnGk-pWYVV~yG~YaSraeAk~AiakLPa 308 (328)
T PRK10905 246 SHYTLQLSSS---SNYDNLNGWAKKENL-KNYVVYETTRNGQ-PWYVLVSGVYASKEEAKRAVSTLPA 308 (328)
T ss_pred CceEEEEEec---CCHHHHHHHHHHcCC-CceEEEEeccCCc-eEEEEEecCCCCHHHHHHHHHHCCH
Confidence 3455555544 455777777777753 3322333333332 24442 378999999999999974
No 164
>cd05701 S1_Rrp5_repeat_hs10 S1_Rrp5_repeat_hs10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 10 (hs10). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=22.23 E-value=31 Score=25.25 Aligned_cols=11 Identities=55% Similarity=0.845 Sum_probs=8.6
Q ss_pred EcceEeeeccc
Q 021044 58 LNDIFHFIGEE 68 (318)
Q Consensus 58 ~nDifr~~~~~ 68 (318)
+||+|||--+.
T Consensus 35 LNdtfrf~sek 45 (69)
T cd05701 35 LNDTFRFDSEK 45 (69)
T ss_pred cccccccccee
Confidence 79999995543
No 165
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=21.32 E-value=33 Score=34.55 Aligned_cols=46 Identities=22% Similarity=0.305 Sum_probs=32.0
Q ss_pred CCCCC-CHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCHHHHHHHH
Q 021044 259 LPPSV-SESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDMTGVRNAV 310 (318)
Q Consensus 259 Lp~~~-te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~~~a~~Al 310 (318)
.++.. +.++|..+|.+||.|..|.+... ---|.|+|.+..+|-.|.
T Consensus 380 ~~~glnt~a~ln~hfA~fG~i~n~qv~~~------~~~a~vTF~t~aeag~a~ 426 (526)
T KOG2135|consen 380 SPFGLNTIADLNPHFAQFGEIENIQVDYS------SLHAVVTFKTRAEAGEAY 426 (526)
T ss_pred cCCCCchHhhhhhhhhhcCccccccccCc------hhhheeeeeccccccchh
Confidence 44554 56899999999999999755322 224688888877774443
No 166
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=20.91 E-value=1.6e+02 Score=23.31 Aligned_cols=49 Identities=14% Similarity=0.153 Sum_probs=29.5
Q ss_pred eeeEeccCCCCCCHHHHHHHhhcCCCeEEeEEEEeCCCCCCccEEEEEEcCH
Q 021044 252 KSVYVRNLPPSVSESEIAEEFKKFGELSSEGVVIRSRKDVGICYAFVEFEDM 303 (318)
Q Consensus 252 ~~IfVgnLp~~~te~~L~~~F~~fG~I~~~~i~~~~~~~~~rgfgFV~F~~~ 303 (318)
.-+|||+++..+.+.--..+-+.+|.-.-+ +....++ ..||+|-++.+.
T Consensus 28 ~GVyVg~~S~rVRd~lW~~v~~~~~~G~av-mv~~~~~--eqG~~~~t~G~~ 76 (97)
T PRK11558 28 AGVYVGDVSRRIREMIWQQVTQLAEEGNVV-MAWATNT--ESGFEFQTFGEN 76 (97)
T ss_pred CCcEEcCCCHHHHHHHHHHHHHhCCCCcEE-EEEcCCC--CCCcEEEecCCC
Confidence 569999998888776555555555543332 2222222 348998777543
No 167
>COG2075 RPL24A Ribosomal protein L24E [Translation, ribosomal structure and biogenesis]
Probab=20.63 E-value=75 Score=23.33 Aligned_cols=16 Identities=25% Similarity=0.416 Sum_probs=12.4
Q ss_pred eCCeEEEEcc--eEeeec
Q 021044 51 QEKGYFVLND--IFHFIG 66 (318)
Q Consensus 51 ~~~~y~v~nD--ifr~~~ 66 (318)
.-|.+||.|| ||||..
T Consensus 16 GtG~m~Vr~Dg~v~~Fcs 33 (66)
T COG2075 16 GTGIMYVRNDGKVLRFCS 33 (66)
T ss_pred CceEEEEecCCeEEEEec
Confidence 3478999998 788864
No 168
>PF12893 Lumazine_bd_2: Putative lumazine-binding; PDB: 3BLZ_C 3DUK_F 3FKA_C.
Probab=20.03 E-value=4.3e+02 Score=20.56 Aligned_cols=46 Identities=17% Similarity=0.222 Sum_probs=32.2
Q ss_pred EEEEeeecccCCCcEEEEEEEEEEecCCccccceeEEEEeeeeCCeEEEEcceEe
Q 021044 9 EIKTAHSLESWNGGVLVMVSGSVQVKDFSARRKFVQTFFLAPQEKGYFVLNDIFH 63 (318)
Q Consensus 9 ~i~~~D~q~s~~~gvlv~v~G~l~~~~~~~~~~F~Q~F~L~~~~~~y~v~nDifr 63 (318)
.|.++|... +.-++.|.-.+. + +.|.=.|.|...+|+|.|.|=+|.
T Consensus 71 ~i~~i~i~g---~~A~a~v~~~~~--~----~~~~d~~~L~K~dg~WkIv~k~~~ 116 (116)
T PF12893_consen 71 SILSIDIDG---DVASAKVEYEFP--G----FWFVDYFTLVKTDGGWKIVSKVYH 116 (116)
T ss_dssp EEEEEEEET---TEEEEEEEEEEE--T----EEEEEEEEEEEETTEEEEEEEEEE
T ss_pred EEEEEEEEC---CEEEEEEEEEEC--C----CceEEEEEEEEECCEEEEEEEecC
Confidence 466666654 334444444443 2 379999999999999999998874
Done!