Query 034004
Match_columns 106
No_of_seqs 102 out of 1574
Neff 10.3
Searched_HMMs 46136
Date Fri Mar 29 08:43:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034004.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034004hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03134 glycine-rich RNA-bind 99.9 6.8E-21 1.5E-25 112.0 11.7 82 24-105 32-113 (144)
2 KOG0122 Translation initiation 99.8 3.2E-19 6.9E-24 110.2 10.3 81 25-105 188-268 (270)
3 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 5.4E-19 1.2E-23 116.8 11.9 79 26-104 269-347 (352)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 4.7E-19 1E-23 117.1 11.2 81 25-105 2-82 (352)
5 TIGR01659 sex-lethal sex-letha 99.8 8.6E-19 1.9E-23 115.6 10.7 84 22-105 103-186 (346)
6 PF00076 RRM_1: RNA recognitio 99.8 2.9E-18 6.3E-23 89.1 9.7 70 29-99 1-70 (70)
7 TIGR01659 sex-lethal sex-letha 99.8 6.3E-18 1.4E-22 111.5 10.8 82 24-105 191-274 (346)
8 PF14259 RRM_6: RNA recognitio 99.7 5.2E-17 1.1E-21 84.6 10.1 70 29-99 1-70 (70)
9 TIGR01648 hnRNP-R-Q heterogene 99.7 2.3E-17 5.1E-22 114.2 10.7 100 2-103 35-135 (578)
10 KOG0121 Nuclear cap-binding pr 99.7 8E-18 1.7E-22 95.1 6.7 79 24-102 34-112 (153)
11 TIGR01645 half-pint poly-U bin 99.7 6.3E-17 1.4E-21 112.5 11.5 79 26-104 204-282 (612)
12 TIGR01645 half-pint poly-U bin 99.7 8.1E-17 1.7E-21 111.9 10.1 79 24-102 105-183 (612)
13 KOG0125 Ataxin 2-binding prote 99.7 5.7E-17 1.2E-21 103.9 8.6 82 21-104 91-172 (376)
14 PLN03120 nucleic acid binding 99.7 1.9E-16 4.1E-21 99.8 10.3 75 26-104 4-78 (260)
15 TIGR01628 PABP-1234 polyadenyl 99.7 1.3E-16 2.9E-21 111.1 10.6 78 28-105 2-79 (562)
16 KOG0145 RNA-binding protein EL 99.7 1.2E-16 2.7E-21 100.0 8.9 84 22-105 37-120 (360)
17 KOG0107 Alternative splicing f 99.7 1.2E-16 2.6E-21 94.6 7.8 76 24-104 8-83 (195)
18 TIGR01642 U2AF_lg U2 snRNP aux 99.7 4.5E-16 9.8E-21 107.2 11.7 80 25-104 294-373 (509)
19 TIGR01622 SF-CC1 splicing fact 99.7 4.3E-16 9.3E-21 106.2 11.1 79 26-104 186-264 (457)
20 KOG0117 Heterogeneous nuclear 99.7 3.6E-16 7.7E-21 103.6 10.0 100 3-103 61-161 (506)
21 KOG4207 Predicted splicing fac 99.7 1.1E-16 2.4E-21 97.1 6.8 86 20-105 7-92 (256)
22 KOG0113 U1 small nuclear ribon 99.7 3.5E-16 7.6E-21 99.2 9.0 80 24-103 99-178 (335)
23 smart00362 RRM_2 RNA recogniti 99.7 1.1E-15 2.5E-20 78.9 9.3 72 28-101 1-72 (72)
24 KOG0149 Predicted RNA-binding 99.7 1.8E-16 4E-21 97.6 7.1 77 26-103 12-88 (247)
25 TIGR01622 SF-CC1 splicing fact 99.7 1.5E-15 3.3E-20 103.5 11.1 80 24-104 87-166 (457)
26 KOG0111 Cyclophilin-type pepti 99.7 1.1E-16 2.5E-21 98.0 4.2 82 25-106 9-90 (298)
27 PLN03213 repressor of silencin 99.6 1.5E-15 3.3E-20 102.3 9.5 79 23-105 7-87 (759)
28 TIGR01628 PABP-1234 polyadenyl 99.6 3.2E-15 6.9E-20 104.3 11.0 80 25-105 284-363 (562)
29 PLN03121 nucleic acid binding 99.6 3.8E-15 8.1E-20 92.8 10.1 74 25-102 4-77 (243)
30 KOG0114 Predicted RNA-binding 99.6 3.7E-15 8E-20 81.5 8.6 81 22-105 14-94 (124)
31 KOG0148 Apoptosis-promoting RN 99.6 3.9E-15 8.5E-20 93.5 9.7 77 23-105 161-237 (321)
32 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 6.7E-15 1.4E-19 101.1 11.3 77 24-105 273-350 (481)
33 smart00360 RRM RNA recognition 99.6 5.6E-15 1.2E-19 76.0 8.4 71 31-101 1-71 (71)
34 KOG0130 RNA-binding protein RB 99.6 1.8E-15 3.8E-20 86.5 6.3 78 26-103 72-149 (170)
35 KOG0108 mRNA cleavage and poly 99.6 4.2E-15 9.2E-20 100.0 8.2 79 27-105 19-97 (435)
36 COG0724 RNA-binding proteins ( 99.6 1.3E-14 2.7E-19 91.9 10.0 79 26-104 115-193 (306)
37 cd00590 RRM RRM (RNA recogniti 99.6 3.7E-14 7.9E-19 73.6 9.9 74 28-102 1-74 (74)
38 TIGR01648 hnRNP-R-Q heterogene 99.6 1.9E-14 4.2E-19 99.9 10.3 72 26-105 233-306 (578)
39 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 3.7E-14 8.1E-19 97.4 10.4 73 26-104 2-76 (481)
40 KOG0105 Alternative splicing f 99.6 1.2E-14 2.6E-19 87.1 6.5 78 24-104 4-81 (241)
41 KOG0131 Splicing factor 3b, su 99.6 1E-14 2.2E-19 87.0 5.9 81 24-104 7-87 (203)
42 KOG0117 Heterogeneous nuclear 99.6 2.1E-14 4.6E-19 95.4 7.5 72 26-105 259-330 (506)
43 KOG0127 Nucleolar protein fibr 99.5 3.5E-14 7.6E-19 96.4 8.2 77 26-103 117-193 (678)
44 KOG0124 Polypyrimidine tract-b 99.5 8.4E-15 1.8E-19 95.6 4.6 77 25-101 112-188 (544)
45 KOG0144 RNA-binding protein CU 99.5 1.4E-14 3.1E-19 95.9 5.4 79 26-105 124-205 (510)
46 PF13893 RRM_5: RNA recognitio 99.5 1.9E-13 4.1E-18 68.3 8.3 56 43-103 1-56 (56)
47 KOG0126 Predicted RNA-binding 99.5 2.9E-15 6.2E-20 89.4 1.0 77 26-102 35-111 (219)
48 KOG0148 Apoptosis-promoting RN 99.5 1.2E-13 2.5E-18 87.0 7.9 79 26-104 62-140 (321)
49 KOG0145 RNA-binding protein EL 99.5 3.7E-13 8.1E-18 84.6 10.0 82 22-103 274-355 (360)
50 KOG0131 Splicing factor 3b, su 99.5 4.6E-14 1E-18 84.2 5.1 102 4-105 71-176 (203)
51 KOG0144 RNA-binding protein CU 99.5 1.8E-13 3.8E-18 90.8 7.5 83 24-106 32-117 (510)
52 KOG0147 Transcriptional coacti 99.5 1.3E-13 2.9E-18 93.4 6.5 74 29-102 281-354 (549)
53 KOG0146 RNA-binding protein ET 99.5 9.3E-14 2E-18 87.6 5.0 86 20-105 279-364 (371)
54 KOG4206 Spliceosomal protein s 99.5 4.8E-13 1E-17 82.2 7.7 79 25-106 8-90 (221)
55 smart00361 RRM_1 RNA recogniti 99.5 9.3E-13 2E-17 68.6 7.8 62 40-101 2-70 (70)
56 KOG0109 RNA-binding protein LA 99.4 4E-13 8.6E-18 85.4 5.9 70 27-104 3-72 (346)
57 KOG4208 Nucleolar RNA-binding 99.4 1.9E-12 4.1E-17 78.7 8.2 84 22-105 45-129 (214)
58 KOG0415 Predicted peptidyl pro 99.4 7.2E-13 1.6E-17 86.3 6.7 81 24-104 237-317 (479)
59 KOG0127 Nucleolar protein fibr 99.4 8.1E-13 1.8E-17 89.9 7.2 80 26-105 5-84 (678)
60 KOG4212 RNA-binding protein hn 99.4 1.4E-12 3.1E-17 86.9 8.1 76 26-102 44-120 (608)
61 KOG0153 Predicted RNA-binding 99.4 2.2E-12 4.9E-17 83.6 8.3 80 20-105 222-302 (377)
62 TIGR01642 U2AF_lg U2 snRNP aux 99.3 1.1E-11 2.4E-16 85.7 9.4 72 24-102 173-256 (509)
63 KOG0110 RNA-binding protein (R 99.3 1.4E-12 3E-17 90.7 4.7 81 26-106 613-693 (725)
64 KOG4661 Hsp27-ERE-TATA-binding 99.3 5E-12 1.1E-16 86.9 7.3 81 25-105 404-484 (940)
65 KOG0123 Polyadenylate-binding 99.3 1.3E-11 2.8E-16 82.4 8.5 73 27-102 77-149 (369)
66 KOG0109 RNA-binding protein LA 99.3 4E-12 8.6E-17 80.9 5.7 74 23-104 75-148 (346)
67 KOG0123 Polyadenylate-binding 99.3 2E-11 4.3E-16 81.5 8.1 73 28-106 3-75 (369)
68 KOG0110 RNA-binding protein (R 99.3 3.4E-11 7.3E-16 84.0 8.1 78 27-104 516-596 (725)
69 KOG0146 RNA-binding protein ET 99.3 2.4E-11 5.2E-16 76.8 6.7 81 25-106 18-101 (371)
70 KOG0533 RRM motif-containing p 99.2 9E-11 2E-15 73.9 8.5 81 22-103 79-159 (243)
71 KOG0132 RNA polymerase II C-te 99.2 4.9E-11 1.1E-15 84.1 7.3 72 26-103 421-492 (894)
72 KOG1457 RNA binding protein (c 99.2 3.9E-10 8.4E-15 69.8 10.3 83 24-106 32-118 (284)
73 KOG0124 Polypyrimidine tract-b 99.2 1.5E-10 3.3E-15 76.0 7.3 75 27-101 211-285 (544)
74 PF04059 RRM_2: RNA recognitio 99.2 7.5E-10 1.6E-14 60.8 8.9 79 26-104 1-85 (97)
75 KOG4660 Protein Mei2, essentia 99.1 7.7E-11 1.7E-15 80.4 4.1 72 23-99 72-143 (549)
76 KOG4212 RNA-binding protein hn 99.1 1E-09 2.2E-14 73.7 7.5 76 22-102 532-607 (608)
77 KOG0116 RasGAP SH3 binding pro 99.1 8E-10 1.7E-14 74.6 7.1 77 26-103 288-364 (419)
78 KOG0151 Predicted splicing reg 99.0 1.6E-09 3.4E-14 76.2 8.0 83 22-104 170-255 (877)
79 KOG1190 Polypyrimidine tract-b 99.0 4.7E-09 1E-13 69.8 8.8 75 26-105 297-372 (492)
80 KOG1548 Transcription elongati 99.0 6.8E-09 1.5E-13 67.7 8.4 78 26-104 134-219 (382)
81 KOG4205 RNA-binding protein mu 98.9 2E-09 4.3E-14 70.3 5.1 78 25-103 5-82 (311)
82 KOG0106 Alternative splicing f 98.9 2.1E-09 4.6E-14 66.6 4.0 70 27-104 2-71 (216)
83 KOG4205 RNA-binding protein mu 98.9 9.1E-09 2E-13 67.2 6.7 79 26-105 97-175 (311)
84 KOG4209 Splicing factor RNPS1, 98.9 1.1E-08 2.5E-13 64.4 6.3 80 23-103 98-177 (231)
85 KOG0226 RNA-binding proteins [ 98.8 3.5E-09 7.6E-14 66.6 3.6 81 23-103 187-267 (290)
86 KOG4454 RNA binding protein (R 98.8 2.7E-09 5.8E-14 65.9 1.8 79 22-102 5-83 (267)
87 KOG4211 Splicing factor hnRNP- 98.8 6.8E-08 1.5E-12 65.6 8.4 78 23-104 7-84 (510)
88 PF11608 Limkain-b1: Limkain b 98.8 7.8E-08 1.7E-12 51.1 6.7 67 27-103 3-74 (90)
89 KOG0120 Splicing factor U2AF, 98.6 4.7E-08 1E-12 67.2 4.4 84 20-103 283-366 (500)
90 KOG1457 RNA binding protein (c 98.6 5.4E-08 1.2E-12 60.4 3.9 64 27-94 211-274 (284)
91 KOG4211 Splicing factor hnRNP- 98.6 4.8E-07 1E-11 61.6 7.7 77 25-103 102-179 (510)
92 KOG4206 Spliceosomal protein s 98.5 1.1E-06 2.4E-11 54.5 7.8 78 23-105 143-221 (221)
93 KOG0147 Transcriptional coacti 98.5 3.1E-08 6.6E-13 67.9 0.8 79 25-104 178-256 (549)
94 KOG1995 Conserved Zn-finger pr 98.3 8E-07 1.7E-11 58.4 4.1 82 23-104 63-152 (351)
95 PF08777 RRM_3: RNA binding mo 98.3 3.3E-06 7.1E-11 47.3 5.9 69 27-101 2-75 (105)
96 COG5175 MOT2 Transcriptional r 98.3 5E-06 1.1E-10 54.8 6.6 76 28-103 116-200 (480)
97 KOG3152 TBP-binding protein, a 98.2 1.2E-06 2.6E-11 55.4 3.3 71 27-97 75-157 (278)
98 KOG1456 Heterogeneous nuclear 98.2 2.6E-05 5.6E-10 52.1 9.0 78 24-106 285-363 (494)
99 KOG4307 RNA binding protein RB 98.2 1.4E-05 3.1E-10 56.9 8.1 76 26-102 867-943 (944)
100 KOG0129 Predicted RNA-binding 98.2 1.1E-05 2.3E-10 55.5 6.7 64 23-86 367-431 (520)
101 KOG0106 Alternative splicing f 98.1 3.2E-06 7E-11 52.7 3.6 76 20-103 93-168 (216)
102 KOG1190 Polypyrimidine tract-b 98.1 1.3E-05 2.8E-10 53.9 6.5 76 25-105 413-490 (492)
103 KOG1365 RNA-binding protein Fu 98.1 6.8E-06 1.5E-10 54.9 4.4 82 21-103 275-359 (508)
104 KOG0120 Splicing factor U2AF, 98.0 3.1E-05 6.7E-10 53.7 7.1 66 41-106 424-492 (500)
105 KOG1548 Transcription elongati 98.0 4.8E-05 1E-09 50.2 7.6 75 25-103 264-349 (382)
106 KOG4210 Nuclear localization s 98.0 7.1E-06 1.5E-10 53.5 3.6 79 26-105 184-263 (285)
107 KOG1456 Heterogeneous nuclear 98.0 6.6E-05 1.4E-09 50.2 8.0 70 32-106 128-199 (494)
108 KOG2314 Translation initiation 98.0 0.0001 2.2E-09 51.6 8.5 77 24-101 56-139 (698)
109 KOG4849 mRNA cleavage factor I 97.9 1.4E-05 3E-10 53.0 3.4 77 27-103 81-160 (498)
110 PF14605 Nup35_RRM_2: Nup53/35 97.9 6.5E-05 1.4E-09 36.9 4.9 52 27-85 2-53 (53)
111 PF08675 RNA_bind: RNA binding 97.7 0.0005 1.1E-08 36.7 7.0 57 25-90 8-64 (87)
112 PF08952 DUF1866: Domain of un 97.6 0.00088 1.9E-08 39.5 7.8 57 41-106 51-107 (146)
113 PF10309 DUF2414: Protein of u 97.6 0.00096 2.1E-08 33.7 6.6 55 26-88 5-62 (62)
114 PF05172 Nup35_RRM: Nup53/35/4 97.6 0.0012 2.5E-08 36.7 7.5 76 26-103 6-89 (100)
115 KOG0112 Large RNA-binding prot 97.6 0.00012 2.6E-09 53.6 4.2 76 24-105 453-530 (975)
116 KOG1365 RNA-binding protein Fu 97.6 0.00066 1.4E-08 45.7 7.3 68 27-96 162-233 (508)
117 KOG0105 Alternative splicing f 97.5 0.0011 2.4E-08 40.6 7.5 67 20-93 109-175 (241)
118 KOG1855 Predicted RNA-binding 97.3 0.00059 1.3E-08 46.4 4.5 68 24-91 229-309 (484)
119 KOG0129 Predicted RNA-binding 97.3 0.0014 3E-08 45.6 6.2 63 24-87 257-325 (520)
120 KOG2193 IGF-II mRNA-binding pr 97.2 0.0005 1.1E-08 46.9 4.0 70 28-103 3-73 (584)
121 KOG1996 mRNA splicing factor [ 97.2 0.0023 5E-08 41.8 6.7 64 40-103 300-364 (378)
122 KOG0128 RNA-binding protein SA 97.1 0.00027 5.8E-09 51.5 1.6 76 26-102 736-811 (881)
123 PF03467 Smg4_UPF3: Smg-4/UPF3 97.1 0.0022 4.8E-08 39.1 5.2 70 24-93 5-80 (176)
124 PF15023 DUF4523: Protein of u 97.1 0.0085 1.8E-07 35.3 7.3 78 18-103 78-159 (166)
125 KOG0128 RNA-binding protein SA 96.9 3.3E-05 7.1E-10 56.0 -4.0 68 27-94 668-735 (881)
126 KOG4307 RNA binding protein RB 96.8 0.0013 2.7E-08 47.5 3.2 79 23-102 431-510 (944)
127 KOG0112 Large RNA-binding prot 96.7 0.00033 7.2E-09 51.4 -0.7 80 22-102 368-447 (975)
128 KOG4676 Splicing factor, argin 96.7 0.0075 1.6E-07 40.9 5.6 76 26-102 7-86 (479)
129 KOG2416 Acinus (induces apopto 96.6 0.0029 6.3E-08 44.9 3.7 79 21-105 439-521 (718)
130 KOG2202 U2 snRNP splicing fact 96.6 0.0012 2.5E-08 42.2 1.5 62 41-103 83-145 (260)
131 KOG0115 RNA-binding protein p5 96.4 0.0054 1.2E-07 39.3 3.6 61 27-88 32-92 (275)
132 KOG4660 Protein Mei2, essentia 96.2 0.013 2.9E-07 41.2 5.1 81 23-103 385-470 (549)
133 PF07576 BRAP2: BRCA1-associat 96.1 0.1 2.2E-06 29.5 8.3 67 26-94 12-80 (110)
134 PF04847 Calcipressin: Calcipr 95.9 0.05 1.1E-06 33.5 6.1 60 39-104 8-69 (184)
135 KOG2135 Proteins containing th 95.7 0.007 1.5E-07 41.9 1.8 71 28-105 374-445 (526)
136 PF03880 DbpA: DbpA RNA bindin 95.4 0.16 3.4E-06 26.4 6.5 67 28-103 2-74 (74)
137 KOG2068 MOT2 transcription fac 95.4 0.0077 1.7E-07 39.9 1.3 75 28-102 79-159 (327)
138 KOG0804 Cytoplasmic Zn-finger 94.7 0.24 5.1E-06 34.5 6.7 69 24-94 72-141 (493)
139 KOG2591 c-Mpl binding protein, 94.6 0.081 1.8E-06 37.7 4.5 68 26-100 175-246 (684)
140 KOG4285 Mitotic phosphoprotein 93.1 0.64 1.4E-05 30.9 6.2 60 29-96 200-259 (350)
141 PF11767 SET_assoc: Histone ly 92.8 0.7 1.5E-05 23.7 5.7 54 38-100 12-65 (66)
142 KOG4574 RNA-binding protein (c 92.7 0.1 2.2E-06 39.0 2.4 73 27-105 299-373 (1007)
143 KOG4210 Nuclear localization s 91.3 0.15 3.3E-06 33.6 1.9 74 25-98 87-160 (285)
144 KOG2253 U1 snRNP complex, subu 91.2 0.22 4.7E-06 36.2 2.7 68 24-100 38-105 (668)
145 KOG2193 IGF-II mRNA-binding pr 91.1 0.0024 5.1E-08 43.7 -6.7 78 21-102 75-153 (584)
146 KOG4483 Uncharacterized conser 90.8 1 2.2E-05 31.2 5.3 57 24-87 389-446 (528)
147 KOG4410 5-formyltetrahydrofola 90.5 1.1 2.4E-05 29.7 5.1 46 27-78 331-377 (396)
148 PF15513 DUF4651: Domain of un 80.6 5.8 0.00013 20.1 3.7 19 41-59 9-27 (62)
149 PF07292 NID: Nmi/IFP 35 domai 80.2 1.6 3.4E-05 23.7 1.8 27 22-48 48-74 (88)
150 KOG4454 RNA binding protein (R 78.3 0.44 9.6E-06 30.3 -0.8 64 27-91 81-148 (267)
151 KOG2295 C2H2 Zn-finger protein 73.8 0.35 7.7E-06 34.6 -2.2 69 26-94 231-299 (648)
152 PF02714 DUF221: Domain of unk 64.9 11 0.00023 25.1 3.3 22 71-92 1-22 (325)
153 COG0724 RNA-binding proteins ( 63.9 15 0.00034 22.8 3.8 63 24-86 223-285 (306)
154 KOG1295 Nonsense-mediated deca 63.2 26 0.00056 24.3 4.8 69 25-93 6-77 (376)
155 smart00596 PRE_C2HC PRE_C2HC d 62.3 15 0.00032 19.0 2.8 59 41-102 2-61 (69)
156 PF07530 PRE_C2HC: Associated 61.5 21 0.00045 18.3 3.5 61 41-104 2-63 (68)
157 COG5193 LHP1 La protein, small 59.1 5.6 0.00012 27.7 1.2 60 27-86 175-244 (438)
158 KOG4019 Calcineurin-mediated s 58.4 11 0.00023 23.5 2.2 72 26-103 10-87 (193)
159 KOG4213 RNA-binding protein La 56.8 23 0.0005 22.1 3.4 56 27-87 112-169 (205)
160 KOG4008 rRNA processing protei 53.1 14 0.0003 24.0 2.2 33 24-56 38-70 (261)
161 PF03468 XS: XS domain; Inter 49.4 49 0.0011 18.9 4.5 45 39-86 30-75 (116)
162 KOG2318 Uncharacterized conser 49.0 1.1E+02 0.0024 22.8 7.0 75 23-97 171-297 (650)
163 PF13600 DUF4140: N-terminal d 46.7 12 0.00026 20.5 1.1 36 23-60 20-57 (104)
164 KOG4676 Splicing factor, argin 46.5 1.9 4.1E-05 29.8 -2.5 62 26-92 151-212 (479)
165 PF10567 Nab6_mRNP_bdg: RNA-re 43.9 68 0.0015 21.7 4.3 58 25-82 14-78 (309)
166 PF15063 TC1: Thyroid cancer p 43.6 14 0.00031 19.5 1.0 27 27-53 26-52 (79)
167 KOG4365 Uncharacterized conser 42.1 3.1 6.7E-05 29.3 -2.1 50 28-77 5-54 (572)
168 KOG2891 Surface glycoprotein [ 40.9 40 0.00086 22.6 2.9 72 21-92 144-246 (445)
169 COG0150 PurM Phosphoribosylami 37.6 7.6 0.00016 26.5 -0.7 47 41-91 276-322 (345)
170 PRK10905 cell division protein 35.1 1.3E+02 0.0028 20.7 4.6 62 25-90 246-308 (328)
171 PRK11901 hypothetical protein; 32.9 1.7E+02 0.0036 20.2 6.3 63 24-91 243-307 (327)
172 PF02946 GTF2I: GTF2I-like rep 32.1 85 0.0018 16.6 3.1 28 27-54 35-70 (76)
173 PF12623 Hen1_L: RNA repair, l 30.4 1.6E+02 0.0035 19.3 5.4 65 23-88 115-183 (245)
174 KOG0156 Cytochrome P450 CYP2 s 30.1 1.4E+02 0.0031 21.6 4.5 59 30-98 36-97 (489)
175 PF05573 NosL: NosL; InterPro 28.5 1.3E+02 0.0029 17.7 3.8 26 65-90 111-136 (149)
176 PF03439 Spt5-NGN: Early trans 27.4 1.1E+02 0.0023 16.2 3.4 26 67-92 43-68 (84)
177 TIGR02542 B_forsyth_147 Bacter 26.2 81 0.0018 18.2 2.2 23 34-58 11-33 (145)
178 KOG1134 Uncharacterized conser 25.8 1.2E+02 0.0026 23.3 3.6 31 66-96 303-333 (728)
179 PHA01632 hypothetical protein 25.7 77 0.0017 15.7 1.8 20 30-49 20-39 (64)
180 KOG3702 Nuclear polyadenylated 24.2 91 0.002 23.5 2.7 62 25-86 510-571 (681)
181 COG0030 KsgA Dimethyladenosine 24.2 1.4E+02 0.0029 19.8 3.3 26 27-52 96-121 (259)
182 cd00027 BRCT Breast Cancer Sup 24.1 93 0.002 14.5 2.9 27 27-53 2-28 (72)
183 PHA01782 hypothetical protein 23.9 54 0.0012 20.1 1.3 24 31-54 60-83 (177)
184 COG0445 GidA Flavin-dependent 23.0 3.2E+02 0.007 20.6 5.1 42 20-61 295-336 (621)
185 PF15643 Tox-PL-2: Papain fold 22.0 1.1E+02 0.0024 17.1 2.2 29 74-102 18-46 (100)
186 PF14111 DUF4283: Domain of un 21.8 1.4E+02 0.003 17.2 2.8 30 29-58 107-137 (153)
187 PF13773 DUF4170: Domain of un 21.7 1.2E+02 0.0025 15.7 2.1 26 72-97 29-54 (69)
188 PF13046 DUF3906: Protein of u 20.1 1.4E+02 0.0031 15.2 2.6 33 39-73 31-63 (64)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.87 E-value=6.8e-21 Score=111.97 Aligned_cols=82 Identities=56% Similarity=0.910 Sum_probs=77.7
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
...++|||+|||..+++++|+++|.+||.|..+.++.++.++++++||||+|.+.++|++|+..|++..|+|+.|+|+++
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a 111 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA 111 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence 45678999999999999999999999999999999999989999999999999999999999999999999999999987
Q ss_pred cC
Q 034004 104 HK 105 (106)
Q Consensus 104 ~~ 105 (106)
.+
T Consensus 112 ~~ 113 (144)
T PLN03134 112 ND 113 (144)
T ss_pred Cc
Confidence 54
No 2
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.82 E-value=3.2e-19 Score=110.18 Aligned_cols=81 Identities=31% Similarity=0.493 Sum_probs=78.5
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
...+|.|+||+.++++.+|+++|.+||.+.++.+..++.+|.++|||||.|.++++|++||..|||.-++...|+|+|++
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwsk 267 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSK 267 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecC
Confidence 56789999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred C
Q 034004 105 K 105 (106)
Q Consensus 105 ~ 105 (106)
|
T Consensus 268 P 268 (270)
T KOG0122|consen 268 P 268 (270)
T ss_pred C
Confidence 7
No 3
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.81 E-value=5.4e-19 Score=116.76 Aligned_cols=79 Identities=38% Similarity=0.581 Sum_probs=75.5
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
..+|||+|||..+++++|+++|++||.|..+.++.++.++.++|||||+|.+.++|.+|+..|||..++|+.|+|+|..
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~ 347 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKT 347 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcc
Confidence 3479999999999999999999999999999999999899999999999999999999999999999999999999854
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.81 E-value=4.7e-19 Score=117.06 Aligned_cols=81 Identities=36% Similarity=0.629 Sum_probs=76.9
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
+..+|||+|||..+++++|+++|+.||.|..+.++.++.+|+++|||||+|.+.++|++|+..|+|..+.|+.|.|++++
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~ 81 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR 81 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence 46789999999999999999999999999999999998899999999999999999999999999999999999999875
Q ss_pred C
Q 034004 105 K 105 (106)
Q Consensus 105 ~ 105 (106)
+
T Consensus 82 ~ 82 (352)
T TIGR01661 82 P 82 (352)
T ss_pred c
Confidence 3
No 5
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.80 E-value=8.6e-19 Score=115.58 Aligned_cols=84 Identities=35% Similarity=0.544 Sum_probs=78.9
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 22 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
+....++|||+|||.++++++|+++|+.+|.|..+.++.+..++.+++||||+|.+.++|++|++.|++..+.+++|+|+
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~ 182 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS 182 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence 44567899999999999999999999999999999999998899999999999999999999999999999999999999
Q ss_pred eccC
Q 034004 102 YAHK 105 (106)
Q Consensus 102 ~~~~ 105 (106)
++++
T Consensus 183 ~a~p 186 (346)
T TIGR01659 183 YARP 186 (346)
T ss_pred cccc
Confidence 8764
No 6
>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=99.79 E-value=2.9e-18 Score=89.10 Aligned_cols=70 Identities=43% Similarity=0.792 Sum_probs=66.5
Q ss_pred EEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEE
Q 034004 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIR 99 (106)
Q Consensus 29 l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~ 99 (106)
|||+|||..+++++|+++|++||.+..+.+..+ .++..+++|||.|.+.++|++|++.++|..+.|+.|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 799999999999999999999999999999887 4788999999999999999999999999999999885
No 7
>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=99.77 E-value=6.3e-18 Score=111.51 Aligned_cols=82 Identities=28% Similarity=0.574 Sum_probs=75.5
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCC--eEEEEE
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDG--RNIRVN 101 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~--~~i~v~ 101 (106)
...++|||+|||..+++++|+++|++||.|..+.++.++.+++++++|||+|.+.++|++|++.||+..+.+ ++|+|.
T Consensus 191 ~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~ 270 (346)
T TIGR01659 191 IKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVR 270 (346)
T ss_pred cccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEE
Confidence 346789999999999999999999999999999999998899999999999999999999999999998865 789998
Q ss_pred eccC
Q 034004 102 YAHK 105 (106)
Q Consensus 102 ~~~~ 105 (106)
+++.
T Consensus 271 ~a~~ 274 (346)
T TIGR01659 271 LAEE 274 (346)
T ss_pred ECCc
Confidence 8764
No 8
>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=99.75 E-value=5.2e-17 Score=84.63 Aligned_cols=70 Identities=37% Similarity=0.686 Sum_probs=64.5
Q ss_pred EEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEE
Q 034004 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIR 99 (106)
Q Consensus 29 l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~ 99 (106)
|||+|||.++++++|.++|+.+|.|..+.+..++. +..+++|||+|.+.++|+.|+..+++..++|+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 68999999999999999999999999999999876 88999999999999999999999999999999875
No 9
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.74 E-value=2.3e-17 Score=114.22 Aligned_cols=100 Identities=27% Similarity=0.431 Sum_probs=86.1
Q ss_pred ccccCceeecccccccccccCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHH
Q 034004 2 QWLNGSVRFSHSVRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81 (106)
Q Consensus 2 ~~~n~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a 81 (106)
.-+||...+..|+..+.. ..+...++|||+|||.++++++|+.+|+++|.|..++++.+ .++.+++||||+|.+.++|
T Consensus 35 ~~~~g~r~~g~Pp~~~~~-~~p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A 112 (578)
T TIGR01648 35 VQENGQRKYGGPPPGWSG-VQPGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEA 112 (578)
T ss_pred cccCCcccCCCCCCcccC-CCCCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHH
Confidence 457888999877766543 33456789999999999999999999999999999999999 5899999999999999999
Q ss_pred HHHHHHhCCeeeC-CeEEEEEec
Q 034004 82 GEAIKEMDGLLLD-GRNIRVNYA 103 (106)
Q Consensus 82 ~~a~~~l~~~~i~-~~~i~v~~~ 103 (106)
++|++.||+..+. ++.+.|..+
T Consensus 113 ~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 113 KEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred HHHHHHcCCCeecCCcccccccc
Confidence 9999999999874 677666544
No 10
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.74 E-value=8e-18 Score=95.09 Aligned_cols=79 Identities=28% Similarity=0.537 Sum_probs=75.1
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
..++||||+||...++++.|.++|+..|+|.++-+-+++....++|||||+|.+.++|+.|++.+++..++.++|++.|
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~ 112 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDW 112 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeec
Confidence 3578999999999999999999999999999999999988888999999999999999999999999999999999987
No 11
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.73 E-value=6.3e-17 Score=112.48 Aligned_cols=79 Identities=25% Similarity=0.474 Sum_probs=75.3
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
.++|||+|||.++++++|+++|+.||.|..+.+..++.+++++|||||+|.+.++|..|+..+|+..++|+.|+|.++-
T Consensus 204 ~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi 282 (612)
T TIGR01645 204 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 282 (612)
T ss_pred cceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecC
Confidence 4689999999999999999999999999999999998889999999999999999999999999999999999998754
No 12
>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=99.72 E-value=8.1e-17 Score=111.94 Aligned_cols=79 Identities=30% Similarity=0.641 Sum_probs=75.1
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
...++|||+|||..+++++|+++|..||.|..+.+..++.+++++|||||+|.+.++|+.|++.|||..++|+.|+|..
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~r 183 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 183 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecc
Confidence 3467899999999999999999999999999999999998999999999999999999999999999999999999975
No 13
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.72 E-value=5.7e-17 Score=103.93 Aligned_cols=82 Identities=28% Similarity=0.596 Sum_probs=74.3
Q ss_pred cCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEE
Q 034004 21 SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRV 100 (106)
Q Consensus 21 ~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v 100 (106)
+.+..+++|+|+|||+...+-||+..|.+||+|..++|+.+. ..++||+||.|+++++|++|-+.|||..|+|++|+|
T Consensus 91 ~s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEV 168 (376)
T KOG0125|consen 91 SSKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEV 168 (376)
T ss_pred CCCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEEEE
Confidence 344557899999999999999999999999999999999885 447899999999999999999999999999999999
Q ss_pred Eecc
Q 034004 101 NYAH 104 (106)
Q Consensus 101 ~~~~ 104 (106)
.-+.
T Consensus 169 n~AT 172 (376)
T KOG0125|consen 169 NNAT 172 (376)
T ss_pred eccc
Confidence 7653
No 14
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.71 E-value=1.9e-16 Score=99.81 Aligned_cols=75 Identities=17% Similarity=0.292 Sum_probs=69.2
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
.++|||+|||+.+++++|+++|+.+|.|.++.+..+.. .+++|||+|.+.++++.|+. |+|..+.|+.|+|.++.
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAE 78 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEecc
Confidence 46899999999999999999999999999999988753 46899999999999999996 99999999999998864
No 15
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.71 E-value=1.3e-16 Score=111.10 Aligned_cols=78 Identities=36% Similarity=0.618 Sum_probs=74.7
Q ss_pred eEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEeccC
Q 034004 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAHK 105 (106)
Q Consensus 28 ~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~~ 105 (106)
.|||+|||.++++++|+++|+.+|.|..+.+.++..+++++|||||+|.+.++|++|+..+++..+.|+.|+|.|+..
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~ 79 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQR 79 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccc
Confidence 699999999999999999999999999999999998899999999999999999999999999999999999998754
No 16
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.71 E-value=1.2e-16 Score=100.03 Aligned_cols=84 Identities=37% Similarity=0.656 Sum_probs=80.1
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 22 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
.+++.+.|.|.-||+++++++++.+|+..|+|..+++++++-+|.+.||+||.|-++++|++|+..|||..+..+.|+|+
T Consensus 37 t~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVS 116 (360)
T KOG0145|consen 37 TDESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVS 116 (360)
T ss_pred cCcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEE
Confidence 45667789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eccC
Q 034004 102 YAHK 105 (106)
Q Consensus 102 ~~~~ 105 (106)
|+.|
T Consensus 117 yARP 120 (360)
T KOG0145|consen 117 YARP 120 (360)
T ss_pred eccC
Confidence 9876
No 17
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.70 E-value=1.2e-16 Score=94.61 Aligned_cols=76 Identities=30% Similarity=0.528 Sum_probs=69.1
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
...++|||+||+..+++.+|+..|..||.+..+-+-.. +.|||||+|+++.+|+.|+..|+|..|+|..|+|+++
T Consensus 8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn-----PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S 82 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN-----PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELS 82 (195)
T ss_pred CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec-----CCCceEEeccCcccHHHHHhhcCCccccCceEEEEee
Confidence 45789999999999999999999999999988766554 4789999999999999999999999999999999886
Q ss_pred c
Q 034004 104 H 104 (106)
Q Consensus 104 ~ 104 (106)
.
T Consensus 83 ~ 83 (195)
T KOG0107|consen 83 T 83 (195)
T ss_pred c
Confidence 4
No 18
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.70 E-value=4.5e-16 Score=107.22 Aligned_cols=80 Identities=25% Similarity=0.471 Sum_probs=75.8
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
..++|||+|||..+++++|+++|..||.|..+.++.+..+|.++|||||+|.+.+.|..|+..|+|..++|+.|.|.++.
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~ 373 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRAC 373 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECc
Confidence 45789999999999999999999999999999999998899999999999999999999999999999999999998864
No 19
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.69 E-value=4.3e-16 Score=106.16 Aligned_cols=79 Identities=38% Similarity=0.720 Sum_probs=75.6
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
.++|||+|||..+++++|+.+|+.||.|..+.+..++.+|.++|+|||+|.+.++|.+|+..|+|..+.|+.|+|.++.
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ 264 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence 5899999999999999999999999999999999998888999999999999999999999999999999999999954
No 20
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.69 E-value=3.6e-16 Score=103.64 Aligned_cols=100 Identities=27% Similarity=0.434 Sum_probs=88.4
Q ss_pred cccCceeecccccccccccCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHH
Q 034004 3 WLNGSVRFSHSVRFIRLLSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82 (106)
Q Consensus 3 ~~n~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~ 82 (106)
.-||++++..|+..+..+ .++..+.|||+.||.++.+++|.-+|.+.|+|-.+++..++.+|.++|||||.|.+.+.|+
T Consensus 61 ve~gqrk~ggPpP~weg~-~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq 139 (506)
T KOG0117|consen 61 VENGQRKYGGPPPGWEGP-PPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQ 139 (506)
T ss_pred EeccccccCCCCCcccCC-CCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHH
Confidence 347888888776665543 4477899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCeee-CCeEEEEEec
Q 034004 83 EAIKEMDGLLL-DGRNIRVNYA 103 (106)
Q Consensus 83 ~a~~~l~~~~i-~~~~i~v~~~ 103 (106)
.|++.||+.+| .|+.|.|+.+
T Consensus 140 ~Aik~lnn~Eir~GK~igvc~S 161 (506)
T KOG0117|consen 140 EAIKELNNYEIRPGKLLGVCVS 161 (506)
T ss_pred HHHHHhhCccccCCCEeEEEEe
Confidence 99999999997 5788888764
No 21
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.69 E-value=1.1e-16 Score=97.13 Aligned_cols=86 Identities=37% Similarity=0.591 Sum_probs=80.5
Q ss_pred ccCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEE
Q 034004 20 LSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIR 99 (106)
Q Consensus 20 ~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~ 99 (106)
+++-++...|-|.||..-++.++|+..|++||.|-.+.|++++.++..+|||||.|....+|+.|+..|+|.+++|+-|.
T Consensus 7 PPdv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelr 86 (256)
T KOG4207|consen 7 PPDVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELR 86 (256)
T ss_pred CCCcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceee
Confidence 45556778899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeccC
Q 034004 100 VNYAHK 105 (106)
Q Consensus 100 v~~~~~ 105 (106)
|+.++.
T Consensus 87 Vq~ary 92 (256)
T KOG4207|consen 87 VQMARY 92 (256)
T ss_pred ehhhhc
Confidence 987653
No 22
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.68 E-value=3.5e-16 Score=99.22 Aligned_cols=80 Identities=36% Similarity=0.709 Sum_probs=76.1
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
.+=+||||+-|+..+++..|+..|..||.|..|.++.+..+|+++|||||+|++.-+..+|.+.-+|..|+|+.|.|.+-
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE 178 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE 178 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence 44579999999999999999999999999999999999999999999999999999999999999999999999999863
No 23
>smart00362 RRM_2 RNA recognition motif.
Probab=99.68 E-value=1.1e-15 Score=78.93 Aligned_cols=72 Identities=43% Similarity=0.724 Sum_probs=66.5
Q ss_pred eEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 28 ~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
+|+|+|||..++.++|+++|..+|.+..+.+..++ +.++++||++|.+...|+.|+..+++..+.|+++.|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 48999999999999999999999999999888775 6788999999999999999999999999999998874
No 24
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.68 E-value=1.8e-16 Score=97.58 Aligned_cols=77 Identities=45% Similarity=0.781 Sum_probs=70.0
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
-++|||++|++.+..++|+++|++||+|....++.++.+|+++||+||.|.+.+.|.+|++. .+..|+|++..+.++
T Consensus 12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNcnlA 88 (247)
T KOG0149|consen 12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANCNLA 88 (247)
T ss_pred EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccccccchh
Confidence 45799999999999999999999999999999999999999999999999999999999985 457899988766543
No 25
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.66 E-value=1.5e-15 Score=103.46 Aligned_cols=80 Identities=26% Similarity=0.432 Sum_probs=74.6
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
...++|||+|||..+++++|+++|+.+|.|..+.++.++.++.++|+|||+|.+.++|++|+. |+|..+.|++|.|.++
T Consensus 87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~~ 165 (457)
T TIGR01622 87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQSS 165 (457)
T ss_pred cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEeec
Confidence 346799999999999999999999999999999999998899999999999999999999997 8999999999999875
Q ss_pred c
Q 034004 104 H 104 (106)
Q Consensus 104 ~ 104 (106)
.
T Consensus 166 ~ 166 (457)
T TIGR01622 166 Q 166 (457)
T ss_pred c
Confidence 4
No 26
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=1.1e-16 Score=98.03 Aligned_cols=82 Identities=37% Similarity=0.632 Sum_probs=78.7
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
..++|||++|..++++..|..-|-+||+|..++++.+..+++++||+||+|...++|.+|+..+|+.++.|+.|+|.+++
T Consensus 9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~Ak 88 (298)
T KOG0111|consen 9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAK 88 (298)
T ss_pred cceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecC
Confidence 45789999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CC
Q 034004 105 KD 106 (106)
Q Consensus 105 ~~ 106 (106)
|+
T Consensus 89 P~ 90 (298)
T KOG0111|consen 89 PE 90 (298)
T ss_pred Cc
Confidence 74
No 27
>PLN03213 repressor of silencing 3; Provisional
Probab=99.65 E-value=1.5e-15 Score=102.31 Aligned_cols=79 Identities=19% Similarity=0.437 Sum_probs=71.6
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCH--HHHHHHHHHhCCeeeCCeEEEE
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASE--AAAGEAIKEMDGLLLDGRNIRV 100 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~--~~a~~a~~~l~~~~i~~~~i~v 100 (106)
.....+|||+||++.+++++|+..|+.||.|..+.+++. +| +|||||+|... ..+.+|+..|||..+.|+.|+|
T Consensus 7 ~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRE--TG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKV 82 (759)
T PLN03213 7 GGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRT--KG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRL 82 (759)
T ss_pred CCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecc--cC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEE
Confidence 345678999999999999999999999999999999843 55 99999999987 7899999999999999999999
Q ss_pred EeccC
Q 034004 101 NYAHK 105 (106)
Q Consensus 101 ~~~~~ 105 (106)
..+++
T Consensus 83 NKAKP 87 (759)
T PLN03213 83 EKAKE 87 (759)
T ss_pred eeccH
Confidence 98875
No 28
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.64 E-value=3.2e-15 Score=104.27 Aligned_cols=80 Identities=34% Similarity=0.629 Sum_probs=75.2
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
...+|||+||+..+++++|+++|+.||.|..+.+..+. ++.++|+|||.|.+.++|.+|+..+|+..+.|++|.|.++.
T Consensus 284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~-~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~ 362 (562)
T TIGR01628 284 QGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDE-KGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQ 362 (562)
T ss_pred CCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECC-CCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEecc
Confidence 45679999999999999999999999999999999984 89999999999999999999999999999999999999876
Q ss_pred C
Q 034004 105 K 105 (106)
Q Consensus 105 ~ 105 (106)
.
T Consensus 363 ~ 363 (562)
T TIGR01628 363 R 363 (562)
T ss_pred C
Confidence 4
No 29
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.64 E-value=3.8e-15 Score=92.80 Aligned_cols=74 Identities=19% Similarity=0.220 Sum_probs=67.4
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
...+|||+||++.+++++|++||+.+|.|..+.+..+.. ..++|||+|.+++.++.|+. |+|..|.+++|.|..
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~e---t~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~ 77 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGE---YACTAYVTFKDAYALETAVL-LSGATIVDQRVCITR 77 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCC---cceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEe
Confidence 457999999999999999999999999999999988743 34799999999999999995 999999999999875
No 30
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.64 E-value=3.7e-15 Score=81.54 Aligned_cols=81 Identities=23% Similarity=0.405 Sum_probs=71.8
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 22 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
+++..+.|||.|||..++.++.-++|+.||.|..+++-..+. .+|.|||.|++..+|.+|+..|+|..++++.+.|-
T Consensus 14 ppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~---TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vl 90 (124)
T KOG0114|consen 14 PPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE---TRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVL 90 (124)
T ss_pred ChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccC---cCceEEEEehHhhhHHHHHHHhcccccCCceEEEE
Confidence 445577899999999999999999999999999998865543 57899999999999999999999999999999987
Q ss_pred eccC
Q 034004 102 YAHK 105 (106)
Q Consensus 102 ~~~~ 105 (106)
+..+
T Consensus 91 yyq~ 94 (124)
T KOG0114|consen 91 YYQP 94 (124)
T ss_pred ecCH
Confidence 7543
No 31
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.64 E-value=3.9e-15 Score=93.54 Aligned_cols=77 Identities=30% Similarity=0.623 Sum_probs=71.9
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
.+..++||++|++..++++.|++.|++||.|..+++..++ ||+||.|.+.+.|..||..+|+.+|.|..++.+|
T Consensus 161 sp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q------GYaFVrF~tkEaAahAIv~mNntei~G~~VkCsW 234 (321)
T KOG0148|consen 161 SPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ------GYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSW 234 (321)
T ss_pred CCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc------ceEEEEecchhhHHHHHHHhcCceeCceEEEEec
Confidence 3456899999999999999999999999999999998886 7999999999999999999999999999999999
Q ss_pred ccC
Q 034004 103 AHK 105 (106)
Q Consensus 103 ~~~ 105 (106)
.+.
T Consensus 235 GKe 237 (321)
T KOG0148|consen 235 GKE 237 (321)
T ss_pred ccc
Confidence 764
No 32
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.63 E-value=6.7e-15 Score=101.11 Aligned_cols=77 Identities=22% Similarity=0.349 Sum_probs=70.5
Q ss_pred CCCceEEEcCCCC-CCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 24 NSRTKLFIGGLSY-DTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 24 ~~~~~l~v~nlp~-~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
...++|||+|||. .+++++|+.+|+.||.|..+.+..++ +|+|||+|.+.++|+.|+..|||..+.|+.|+|++
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~ 347 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCP 347 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEE
Confidence 3567999999998 69999999999999999999998764 58999999999999999999999999999999998
Q ss_pred ccC
Q 034004 103 AHK 105 (106)
Q Consensus 103 ~~~ 105 (106)
++.
T Consensus 348 s~~ 350 (481)
T TIGR01649 348 SKQ 350 (481)
T ss_pred ccc
Confidence 754
No 33
>smart00360 RRM RNA recognition motif.
Probab=99.63 E-value=5.6e-15 Score=76.02 Aligned_cols=71 Identities=38% Similarity=0.725 Sum_probs=65.9
Q ss_pred EcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 31 IGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 31 v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
|+|||..+++++|+++|..+|.+..+.+..++.++.++++|||+|.+.+.|..|+..+++..+.|+.+.|+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 57899999999999999999999999998887678899999999999999999999999999999998873
No 34
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.62 E-value=1.8e-15 Score=86.46 Aligned_cols=78 Identities=29% Similarity=0.537 Sum_probs=75.1
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
...|||+++....++++|.+.|+.||.|+.+-+.++..+|.-+|||.|+|.+...|++|+..+||..+.|..|.|.|+
T Consensus 72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~ 149 (170)
T KOG0130|consen 72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWC 149 (170)
T ss_pred eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEE
Confidence 468999999999999999999999999999999999999999999999999999999999999999999999999884
No 35
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.61 E-value=4.2e-15 Score=100.03 Aligned_cols=79 Identities=34% Similarity=0.771 Sum_probs=76.7
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEeccC
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAHK 105 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~~ 105 (106)
+.+||+|+|.+++++.|..+|+..|.|..++++.|+.+|+++||+|++|.+.+.++.|++.|||..+.|++|+|.|+..
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~ 97 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN 97 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence 7899999999999999999999999999999999999999999999999999999999999999999999999998754
No 36
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.61 E-value=1.3e-14 Score=91.92 Aligned_cols=79 Identities=43% Similarity=0.782 Sum_probs=75.5
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
.++|||+|||..+++++|.++|..+|.+..+.+..++.++..+|+|||.|.+.+++..|+..+++..+.|++|.|.++.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 5899999999999999999999999999999999998899999999999999999999999999999999999999853
No 37
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=99.60 E-value=3.7e-14 Score=73.56 Aligned_cols=74 Identities=34% Similarity=0.701 Sum_probs=67.7
Q ss_pred eEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 28 ~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
+|+|+|||..+++++++++|+.+|.+..+.+..++. +.+.++|||+|.+.+.|+.|+..+++..+.|+.+.|++
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~-~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKD-TKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCC-CCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 489999999999999999999999999999988763 36789999999999999999999999999999998874
No 38
>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=99.59 E-value=1.9e-14 Score=99.94 Aligned_cols=72 Identities=32% Similarity=0.567 Sum_probs=66.7
Q ss_pred CceEEEcCCCCCCCHHHHHHhhccc--CCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQH--GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~--g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
.++|||+||+.++++++|+++|+.| |.|.++.+. ++||||+|.+.++|++|++.||+..|+|+.|+|+|+
T Consensus 233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~A 304 (578)
T TIGR01648 233 VKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI--------RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLA 304 (578)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee--------cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence 4689999999999999999999999 999988764 359999999999999999999999999999999998
Q ss_pred cC
Q 034004 104 HK 105 (106)
Q Consensus 104 ~~ 105 (106)
++
T Consensus 305 kp 306 (578)
T TIGR01648 305 KP 306 (578)
T ss_pred cC
Confidence 75
No 39
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.57 E-value=3.7e-14 Score=97.45 Aligned_cols=73 Identities=19% Similarity=0.269 Sum_probs=66.4
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHh--CCeeeCCeEEEEEec
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM--DGLLLDGRNIRVNYA 103 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l--~~~~i~~~~i~v~~~ 103 (106)
+++|||+|||..+++++|+++|++||.|..+.+..+ +++|||+|.+.++|++|+..+ ++..+.|++|.|.|+
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s 75 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYS 75 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEec
Confidence 578999999999999999999999999999988753 479999999999999999864 778899999999987
Q ss_pred c
Q 034004 104 H 104 (106)
Q Consensus 104 ~ 104 (106)
.
T Consensus 76 ~ 76 (481)
T TIGR01649 76 T 76 (481)
T ss_pred C
Confidence 5
No 40
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.56 E-value=1.2e-14 Score=87.13 Aligned_cols=78 Identities=27% Similarity=0.479 Sum_probs=69.9
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
...+++||+|||..+.+.+|+++|-+||.|..|.+...+ .+.+||||+|+++.+|+.|+..-+|..++|.+|+|+++
T Consensus 4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfp 80 (241)
T KOG0105|consen 4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFP 80 (241)
T ss_pred cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEEEec
Confidence 346789999999999999999999999999999886554 24679999999999999999999999999999999986
Q ss_pred c
Q 034004 104 H 104 (106)
Q Consensus 104 ~ 104 (106)
.
T Consensus 81 r 81 (241)
T KOG0105|consen 81 R 81 (241)
T ss_pred c
Confidence 4
No 41
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.56 E-value=1e-14 Score=86.99 Aligned_cols=81 Identities=38% Similarity=0.603 Sum_probs=76.6
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
....||||+||+..+++.-|.++|-+.|.|..+.+++++.+.+++||||++|.+.++|+-|++.||...+.|++|+|..+
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka 86 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA 86 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence 45679999999999999999999999999999999999999999999999999999999999999988899999999876
Q ss_pred c
Q 034004 104 H 104 (106)
Q Consensus 104 ~ 104 (106)
.
T Consensus 87 s 87 (203)
T KOG0131|consen 87 S 87 (203)
T ss_pred c
Confidence 5
No 42
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.55 E-value=2.1e-14 Score=95.38 Aligned_cols=72 Identities=36% Similarity=0.503 Sum_probs=67.0
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEeccC
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAHK 105 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~~ 105 (106)
...|||+||+.++|++.|+..|..||.+.++..++ .||||+|.++++|-+|++.+||..|+|..|.|.+++|
T Consensus 259 VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~r--------DYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP 330 (506)
T KOG0117|consen 259 VKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPR--------DYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKP 330 (506)
T ss_pred eeeeeeeccchhhhHHHHHHHHHhccceEEeeccc--------ceeEEeecchHHHHHHHHHhcCceecCceEEEEecCC
Confidence 35799999999999999999999999999987654 4999999999999999999999999999999999886
No 43
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.54 E-value=3.5e-14 Score=96.45 Aligned_cols=77 Identities=27% Similarity=0.586 Sum_probs=72.4
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
...|.|+|||+.+...+|...|+.||.+..+.|+..+ .|+-+|||||+|....+|..|++.+|+..|+|++|.|.|+
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~-dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWA 193 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKK-DGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWA 193 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCC-CCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeee
Confidence 5679999999999999999999999999999999776 6666799999999999999999999999999999999996
No 44
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.54 E-value=8.4e-15 Score=95.65 Aligned_cols=77 Identities=31% Similarity=0.667 Sum_probs=74.1
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
.-+.+||+.+.+++.++.|+.-|.+||.|+.+.+.+++.++++++||||+|+-++.|+-|++.+||.+++|+.|+|-
T Consensus 112 iMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVg 188 (544)
T KOG0124|consen 112 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVG 188 (544)
T ss_pred HhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCcccccc
Confidence 35789999999999999999999999999999999999999999999999999999999999999999999999985
No 45
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.53 E-value=1.4e-14 Score=95.89 Aligned_cols=79 Identities=34% Similarity=0.611 Sum_probs=73.5
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCee-eCC--eEEEEEe
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLL-LDG--RNIRVNY 102 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~-i~~--~~i~v~~ 102 (106)
.++|||+.|++.+++.+++++|++||.|..+.+.++. .+.++|||||.|.+.+.|..|++.|||.. +.| .+|.|+|
T Consensus 124 e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkF 202 (510)
T KOG0144|consen 124 ERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKF 202 (510)
T ss_pred chhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEe
Confidence 6789999999999999999999999999999999998 89999999999999999999999999985 555 6899999
Q ss_pred ccC
Q 034004 103 AHK 105 (106)
Q Consensus 103 ~~~ 105 (106)
++.
T Consensus 203 ADt 205 (510)
T KOG0144|consen 203 ADT 205 (510)
T ss_pred ccc
Confidence 864
No 46
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=99.53 E-value=1.9e-13 Score=68.26 Aligned_cols=56 Identities=38% Similarity=0.746 Sum_probs=50.0
Q ss_pred HHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 43 LKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 43 l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
|.++|++||.|..+.+.... +++|||+|.+.++|+.|++.|||..+.|++|+|+||
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 57889999999999886553 579999999999999999999999999999999986
No 47
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.52 E-value=2.9e-15 Score=89.42 Aligned_cols=77 Identities=32% Similarity=0.660 Sum_probs=73.2
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
..-|||+|||...++.+|--.|++||.+..+-+++++.+|+++||||+-|++..+..-|+.-|||..|.|+.|+|..
T Consensus 35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDH 111 (219)
T KOG0126|consen 35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDH 111 (219)
T ss_pred ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeee
Confidence 34699999999999999999999999999999999999999999999999999999999999999999999999975
No 48
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.51 E-value=1.2e-13 Score=87.00 Aligned_cols=79 Identities=42% Similarity=0.728 Sum_probs=75.3
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
-..+||+-|...++-++|++-|.+||+|...+++++..++|++||+||.|-+.++|+.||..+||.=|++|.|+-.|+.
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWAT 140 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWAT 140 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccc
Confidence 3478999999999999999999999999999999999999999999999999999999999999999999999998864
No 49
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=3.7e-13 Score=84.61 Aligned_cols=82 Identities=32% Similarity=0.535 Sum_probs=76.4
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 22 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
.+.....+||-||.++..+..|+++|++||.+..+++.++..+.+.+||+||.+.+.++|..|+..|||..+.++.+.|+
T Consensus 274 ~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVs 353 (360)
T KOG0145|consen 274 GPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVS 353 (360)
T ss_pred CCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEE
Confidence 33446689999999999999999999999999999999999889999999999999999999999999999999999998
Q ss_pred ec
Q 034004 102 YA 103 (106)
Q Consensus 102 ~~ 103 (106)
+-
T Consensus 354 FK 355 (360)
T KOG0145|consen 354 FK 355 (360)
T ss_pred Ee
Confidence 73
No 50
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.50 E-value=4.6e-14 Score=84.22 Aligned_cols=102 Identities=33% Similarity=0.562 Sum_probs=86.8
Q ss_pred ccCceeecccccccccc---cCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeE-EEEeecCCCCCccceEEEEeCCHH
Q 034004 4 LNGSVRFSHSVRFIRLL---SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIE-VKVICDRVTGQSRGYGFVKFASEA 79 (106)
Q Consensus 4 ~n~~~~~~~~~~~~~~~---~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~-~~~~~~~~~~~~~~~~fv~f~~~~ 79 (106)
||...-|+.+.+..+.. .....+..+||+||.+++.+.-|.+.|+.||.+.. .++.+++.+|.+++++|+.|++.+
T Consensus 71 ln~VkLYgrpIrv~kas~~~~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfe 150 (203)
T KOG0131|consen 71 LNMVKLYGRPIRVNKASAHQKNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFE 150 (203)
T ss_pred HHHHHhcCceeEEEecccccccccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHH
Confidence 56666667666665544 33344678999999999999999999999999754 588888889999999999999999
Q ss_pred HHHHHHHHhCCeeeCCeEEEEEeccC
Q 034004 80 AAGEAIKEMDGLLLDGRNIRVNYAHK 105 (106)
Q Consensus 80 ~a~~a~~~l~~~~i~~~~i~v~~~~~ 105 (106)
.+.+|+..+||..+.++++.|+++.+
T Consensus 151 asd~ai~s~ngq~l~nr~itv~ya~k 176 (203)
T KOG0131|consen 151 ASDAAIGSMNGQYLCNRPITVSYAFK 176 (203)
T ss_pred HHHHHHHHhccchhcCCceEEEEEEe
Confidence 99999999999999999999999765
No 51
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.48 E-value=1.8e-13 Score=90.82 Aligned_cols=83 Identities=35% Similarity=0.610 Sum_probs=74.6
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCee-eCC--eEEEE
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLL-LDG--RNIRV 100 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~-i~~--~~i~v 100 (106)
.+.-++||+.+|+.++|.+|+.+|++||.|..|-+.+|+.++.++|||||.|.++++|.+|+..||+.. +.| ++|.|
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqv 111 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQV 111 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceee
Confidence 344579999999999999999999999999999999999999999999999999999999999998875 555 78888
Q ss_pred EeccCC
Q 034004 101 NYAHKD 106 (106)
Q Consensus 101 ~~~~~~ 106 (106)
++++.|
T Consensus 112 k~Ad~E 117 (510)
T KOG0144|consen 112 KYADGE 117 (510)
T ss_pred cccchh
Confidence 887643
No 52
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.47 E-value=1.3e-13 Score=93.40 Aligned_cols=74 Identities=34% Similarity=0.719 Sum_probs=71.9
Q ss_pred EEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 29 l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
|||+||..++++++++.+|.+||.|..+.+..+..+|..+||+|++|.+.++|.+|++.|||.+|-|+.|+|..
T Consensus 281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~ 354 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSV 354 (549)
T ss_pred hhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEE
Confidence 89999999999999999999999999999999988999999999999999999999999999999999999975
No 53
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.46 E-value=9.3e-14 Score=87.56 Aligned_cols=86 Identities=30% Similarity=0.490 Sum_probs=79.2
Q ss_pred ccCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEE
Q 034004 20 LSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIR 99 (106)
Q Consensus 20 ~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~ 99 (106)
..+.+..+.|||-.||.+....+|-..|-+||.|...++..++.+..+++|+||.|+++.++++||..+||..|+.++++
T Consensus 279 qreGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLK 358 (371)
T KOG0146|consen 279 QREGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLK 358 (371)
T ss_pred hhcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhh
Confidence 34556789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeccC
Q 034004 100 VNYAHK 105 (106)
Q Consensus 100 v~~~~~ 105 (106)
|..-++
T Consensus 359 VQLKRP 364 (371)
T KOG0146|consen 359 VQLKRP 364 (371)
T ss_pred hhhcCc
Confidence 986443
No 54
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.46 E-value=4.8e-13 Score=82.17 Aligned_cols=79 Identities=30% Similarity=0.566 Sum_probs=71.0
Q ss_pred CCceEEEcCCCCCCCHHHHHH----hhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEE
Q 034004 25 SRTKLFIGGLSYDTNETVLKD----AFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRV 100 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~----~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v 100 (106)
+..|+||.||+..+..++|++ +|++||.|..|.... +.+.+|-|||.|.+.+.|-.|+..|+|..+.|+.+++
T Consensus 8 pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mri 84 (221)
T KOG4206|consen 8 PNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRI 84 (221)
T ss_pred CCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhhe
Confidence 334999999999999999999 999999999886644 4568899999999999999999999999999999999
Q ss_pred EeccCC
Q 034004 101 NYAHKD 106 (106)
Q Consensus 101 ~~~~~~ 106 (106)
.||+.|
T Consensus 85 qyA~s~ 90 (221)
T KOG4206|consen 85 QYAKSD 90 (221)
T ss_pred ecccCc
Confidence 998764
No 55
>smart00361 RRM_1 RNA recognition motif.
Probab=99.46 E-value=9.3e-13 Score=68.64 Aligned_cols=62 Identities=24% Similarity=0.535 Sum_probs=54.0
Q ss_pred HHHHHHhhc----ccCCeeEEE-EeecCCC--CCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 40 ETVLKDAFG----QHGEIIEVK-VICDRVT--GQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 40 ~~~l~~~f~----~~g~i~~~~-~~~~~~~--~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
+++|+++|+ .||.+..+. +..++.+ +.++|++||.|.+.++|++|+..|||..+.|+.|.++
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence 467888888 999999885 6666555 8899999999999999999999999999999999863
No 56
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.42 E-value=4e-13 Score=85.39 Aligned_cols=70 Identities=37% Similarity=0.687 Sum_probs=65.9
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
..+||+|||..+++.+|+.+|.+||+|..|.|+++ |+||+.++...++.+++.||+..|.|..|.|+-++
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSk 72 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASK 72 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecc
Confidence 46899999999999999999999999999999776 89999999999999999999999999999998765
No 57
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.42 E-value=1.9e-12 Score=78.66 Aligned_cols=84 Identities=24% Similarity=0.380 Sum_probs=74.3
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHhhccc-CCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEE
Q 034004 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQH-GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRV 100 (106)
Q Consensus 22 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~-g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v 100 (106)
......-+++..+|....+.++..+|+++ |.+.+.++.+++.+|.++|||||+|++.+.|.-|.+++|+..+.++.+.+
T Consensus 45 ~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c 124 (214)
T KOG4208|consen 45 EQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLEC 124 (214)
T ss_pred ccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeee
Confidence 33445668999999999999999999988 67888899899999999999999999999999999999999999998888
Q ss_pred EeccC
Q 034004 101 NYAHK 105 (106)
Q Consensus 101 ~~~~~ 105 (106)
.+-.+
T Consensus 125 ~vmpp 129 (214)
T KOG4208|consen 125 HVMPP 129 (214)
T ss_pred EEeCc
Confidence 76443
No 58
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.42 E-value=7.2e-13 Score=86.32 Aligned_cols=81 Identities=32% Similarity=0.557 Sum_probs=76.6
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
++...|||-.|.+-++.++|+-+|+.||.|..+.+.++..+|.+..||||+|.+.+++++|.-.+.+..|+.++|+|.++
T Consensus 237 PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFS 316 (479)
T KOG0415|consen 237 PPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFS 316 (479)
T ss_pred CCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehh
Confidence 45568999999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred c
Q 034004 104 H 104 (106)
Q Consensus 104 ~ 104 (106)
.
T Consensus 317 Q 317 (479)
T KOG0415|consen 317 Q 317 (479)
T ss_pred h
Confidence 4
No 59
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.41 E-value=8.1e-13 Score=89.94 Aligned_cols=80 Identities=29% Similarity=0.521 Sum_probs=75.7
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEeccC
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAHK 105 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~~ 105 (106)
+.||||++||+.++.++|.++|+..|+|..+.++.++.++.++||+||.|+..++++.|+....+..+.|+.|.|..+++
T Consensus 5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~ 84 (678)
T KOG0127|consen 5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKK 84 (678)
T ss_pred CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccc
Confidence 37899999999999999999999999999999999998889999999999999999999999999999999999988754
No 60
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.41 E-value=1.4e-12 Score=86.94 Aligned_cols=76 Identities=26% Similarity=0.483 Sum_probs=71.3
Q ss_pred CceEEEcCCCCCCCHHHHHHhhc-ccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFG-QHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~-~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
.+.+||+|+|.++...+|++++. +.|.|.++++..+. ++|++++|.|+|++++.+++|++.||.+.+.|+.|.|+.
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKE 120 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKE 120 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEec
Confidence 45699999999999999999997 58999999999987 899999999999999999999999999999999999974
No 61
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.40 E-value=2.2e-12 Score=83.56 Aligned_cols=80 Identities=28% Similarity=0.553 Sum_probs=69.4
Q ss_pred ccCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHH-HhCCeeeCCeEE
Q 034004 20 LSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK-EMDGLLLDGRNI 98 (106)
Q Consensus 20 ~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~-~l~~~~i~~~~i 98 (106)
++++....+|||++|...+++.+|++.|.+||+|..+.+.... ++|||+|.+.+.|+.|.+ .++...|+|.+|
T Consensus 222 pPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl 295 (377)
T KOG0153|consen 222 PPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVINGFRL 295 (377)
T ss_pred CCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHhhcceeeecceEE
Confidence 4455567899999999999999999999999999999987765 589999999999999886 456556899999
Q ss_pred EEEeccC
Q 034004 99 RVNYAHK 105 (106)
Q Consensus 99 ~v~~~~~ 105 (106)
.|.|+.+
T Consensus 296 ~i~Wg~~ 302 (377)
T KOG0153|consen 296 KIKWGRP 302 (377)
T ss_pred EEEeCCC
Confidence 9999764
No 62
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.34 E-value=1.1e-11 Score=85.66 Aligned_cols=72 Identities=17% Similarity=0.427 Sum_probs=58.9
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhccc------------CCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCe
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQH------------GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGL 91 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~------------g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~ 91 (106)
...++|||+|||..+++++|.++|..+ +.|..+.+ +..++||||+|.+.++|+.||. |+|.
T Consensus 173 ~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~~~kg~afVeF~~~e~A~~Al~-l~g~ 245 (509)
T TIGR01642 173 RQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------NKEKNFAFLEFRTVEEATFAMA-LDSI 245 (509)
T ss_pred ccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------CCCCCEEEEEeCCHHHHhhhhc-CCCe
Confidence 346799999999999999999999864 12333333 3356899999999999999995 9999
Q ss_pred eeCCeEEEEEe
Q 034004 92 LLDGRNIRVNY 102 (106)
Q Consensus 92 ~i~~~~i~v~~ 102 (106)
.+.|..|+|..
T Consensus 246 ~~~g~~l~v~r 256 (509)
T TIGR01642 246 IYSNVFLKIRR 256 (509)
T ss_pred EeeCceeEecC
Confidence 99999998863
No 63
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.34 E-value=1.4e-12 Score=90.75 Aligned_cols=81 Identities=23% Similarity=0.494 Sum_probs=75.8
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEeccC
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAHK 105 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~~ 105 (106)
.+.|.|.|+|+..+..+++.+|..||.+..++++.....+.++|||||.|-++.+|..|+..|.++.+.|+++.++|++.
T Consensus 613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~ 692 (725)
T KOG0110|consen 613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKS 692 (725)
T ss_pred cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhcc
Confidence 56899999999999999999999999999999988866778899999999999999999999998899999999999986
Q ss_pred C
Q 034004 106 D 106 (106)
Q Consensus 106 ~ 106 (106)
|
T Consensus 693 d 693 (725)
T KOG0110|consen 693 D 693 (725)
T ss_pred c
Confidence 5
No 64
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.34 E-value=5e-12 Score=86.88 Aligned_cols=81 Identities=32% Similarity=0.508 Sum_probs=76.2
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
..+.+||++|...+...+|+.+|++||+|.-..++.+..+...++|+||.+.+...|.+||..||...+.|+.|.|+.++
T Consensus 404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 45789999999999999999999999999999999998888899999999999999999999999999999999998776
Q ss_pred C
Q 034004 105 K 105 (106)
Q Consensus 105 ~ 105 (106)
.
T Consensus 484 N 484 (940)
T KOG4661|consen 484 N 484 (940)
T ss_pred c
Confidence 4
No 65
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.32 E-value=1.3e-11 Score=82.38 Aligned_cols=73 Identities=40% Similarity=0.734 Sum_probs=67.7
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
..+||.||++.++..+|.++|+.||.|..|++..+. .| .+|+ ||+|++.+.|++|+..+||..+.+++|.|..
T Consensus 77 ~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~ 149 (369)
T KOG0123|consen 77 SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGL 149 (369)
T ss_pred ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEee
Confidence 339999999999999999999999999999999987 45 8889 9999999999999999999999999988854
No 66
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.32 E-value=4e-12 Score=80.93 Aligned_cols=74 Identities=31% Similarity=0.551 Sum_probs=68.7
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
....++++|+|+.+.++.++++..|.+||.+..+.++++ ++||+|+..++|..|++.|++.+++|++++|+.
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~ 146 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQL 146 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhcccccccccceeeeee
Confidence 456778999999999999999999999999999999776 899999999999999999999999999999987
Q ss_pred cc
Q 034004 103 AH 104 (106)
Q Consensus 103 ~~ 104 (106)
+.
T Consensus 147 st 148 (346)
T KOG0109|consen 147 ST 148 (346)
T ss_pred ec
Confidence 64
No 67
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.29 E-value=2e-11 Score=81.48 Aligned_cols=73 Identities=34% Similarity=0.634 Sum_probs=69.0
Q ss_pred eEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEeccCC
Q 034004 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAHKD 106 (106)
Q Consensus 28 ~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~~~ 106 (106)
.+||+ +.+++..|.++|+++|.+..+++.++. + +.|||||.|.++.+|++|+..+|...+.|++|++.|+..|
T Consensus 3 sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd 75 (369)
T KOG0123|consen 3 SLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRD 75 (369)
T ss_pred ceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccC
Confidence 47887 899999999999999999999999998 6 9999999999999999999999999999999999998765
No 68
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.26 E-value=3.4e-11 Score=84.02 Aligned_cols=78 Identities=32% Similarity=0.637 Sum_probs=69.7
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCC---CccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTG---QSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~---~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
+++||.||++.++.+++...|...|.|..+.|...+... .+.|||||+|.+.++|+.|++.|+|..++|+.|.|+++
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S 595 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKIS 595 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEec
Confidence 349999999999999999999999999999887765321 25699999999999999999999999999999999987
Q ss_pred c
Q 034004 104 H 104 (106)
Q Consensus 104 ~ 104 (106)
.
T Consensus 596 ~ 596 (725)
T KOG0110|consen 596 E 596 (725)
T ss_pred c
Confidence 5
No 69
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.26 E-value=2.4e-11 Score=76.84 Aligned_cols=81 Identities=35% Similarity=0.566 Sum_probs=72.6
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCee-eCC--eEEEEE
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLL-LDG--RNIRVN 101 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~-i~~--~~i~v~ 101 (106)
.+++|||+.|.+.-.+++++++|.+||.+..+.+.+.+ .|.++|++||-|.+..+|++||..|||.. +.| .-+.|+
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK 96 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVK 96 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEE
Confidence 56899999999999999999999999999999998887 88999999999999999999999999986 444 568888
Q ss_pred eccCC
Q 034004 102 YAHKD 106 (106)
Q Consensus 102 ~~~~~ 106 (106)
++.-|
T Consensus 97 ~ADTd 101 (371)
T KOG0146|consen 97 FADTD 101 (371)
T ss_pred eccch
Confidence 87643
No 70
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.24 E-value=9e-11 Score=73.94 Aligned_cols=81 Identities=32% Similarity=0.536 Sum_probs=73.3
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 22 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
.+...++|+|.|||..+..++|+++|..||.+..+.+..++ .|.+.|.|-|.|...++|.++++.|++..++|..+++.
T Consensus 79 ~~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~ 157 (243)
T KOG0533|consen 79 NETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIE 157 (243)
T ss_pred cCCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeE
Confidence 44556889999999999999999999999988888888877 88899999999999999999999999988999998887
Q ss_pred ec
Q 034004 102 YA 103 (106)
Q Consensus 102 ~~ 103 (106)
..
T Consensus 158 ~i 159 (243)
T KOG0533|consen 158 II 159 (243)
T ss_pred Ee
Confidence 54
No 71
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.22 E-value=4.9e-11 Score=84.05 Aligned_cols=72 Identities=25% Similarity=0.542 Sum_probs=67.0
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
++||||++|+.++++.+|...|+.||.|..+.+... +++|||.+..+++|++|+..|++..+.++.|++.|+
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa 492 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWA 492 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhcccccceeeEEeee
Confidence 579999999999999999999999999999877554 579999999999999999999999999999999996
No 72
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.22 E-value=3.9e-10 Score=69.76 Aligned_cols=83 Identities=18% Similarity=0.308 Sum_probs=66.4
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCC-CCccceEEEEeCCHHHHHHHHHHhCCeeeC---CeEEE
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVT-GQSRGYGFVKFASEAAAGEAIKEMDGLLLD---GRNIR 99 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~-~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~---~~~i~ 99 (106)
...+||||++||.++...+|..+|+.+-.-....+...... ...+.+||+.|.+.+.|.+|+..|||..++ +..++
T Consensus 32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLh 111 (284)
T KOG1457|consen 32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLH 111 (284)
T ss_pred cccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeE
Confidence 34789999999999999999999998865555544433322 223468999999999999999999999986 57899
Q ss_pred EEeccCC
Q 034004 100 VNYAHKD 106 (106)
Q Consensus 100 v~~~~~~ 106 (106)
+++++.+
T Consensus 112 iElAKSN 118 (284)
T KOG1457|consen 112 IELAKSN 118 (284)
T ss_pred eeehhcC
Confidence 9887754
No 73
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.17 E-value=1.5e-10 Score=76.05 Aligned_cols=75 Identities=27% Similarity=0.529 Sum_probs=71.0
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
..+||..+.++.++++|+..|..||+|..|.+-+.+..+.++||+|++|.+.+....|+..+|=..++|..++|-
T Consensus 211 nRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVG 285 (544)
T KOG0124|consen 211 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVG 285 (544)
T ss_pred heEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecc
Confidence 579999999999999999999999999999999999889999999999999999999999999888999988885
No 74
>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=99.17 E-value=7.5e-10 Score=60.82 Aligned_cols=79 Identities=23% Similarity=0.297 Sum_probs=68.5
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcc--cCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeC----CeEEE
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQ--HGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLD----GRNIR 99 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~--~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~----~~~i~ 99 (106)
.+||.++|+|...+.++|.+++.. .|....+.++.+..++.+.|||||.|.+++.+.+....++|.... .+.+.
T Consensus 1 RTTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~ 80 (97)
T PF04059_consen 1 RTTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCE 80 (97)
T ss_pred CeeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEE
Confidence 368999999999999999999864 467788888999889999999999999999999999999999865 35677
Q ss_pred EEecc
Q 034004 100 VNYAH 104 (106)
Q Consensus 100 v~~~~ 104 (106)
|.||+
T Consensus 81 i~yAr 85 (97)
T PF04059_consen 81 ISYAR 85 (97)
T ss_pred EehhH
Confidence 77764
No 75
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.11 E-value=7.7e-11 Score=80.37 Aligned_cols=72 Identities=26% Similarity=0.395 Sum_probs=63.9
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEE
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIR 99 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~ 99 (106)
.-..++|+|-|||..++.++|+++|+.||+|+.++.-. ..++.+||+|.+.-+|++|++.|++..+.|++|+
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~-----~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETP-----NKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccc-----ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 34568999999999999999999999999999876633 3578999999999999999999999999887765
No 76
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.06 E-value=1e-09 Score=73.66 Aligned_cols=76 Identities=33% Similarity=0.580 Sum_probs=66.9
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 22 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
.....++|+|.|||.+.|.+.|++.|..+|.+.+..+.. .++.++ .|.|.++++|+.|+..+++..++|+.|.|.
T Consensus 532 aarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime---~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~ 606 (608)
T KOG4212|consen 532 AARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME---NGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVT 606 (608)
T ss_pred ccccccEEEEecCCccccHHHHHHHHHhccceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhccCcccCceeeee
Confidence 334467899999999999999999999999999888732 466665 899999999999999999999999999998
Q ss_pred e
Q 034004 102 Y 102 (106)
Q Consensus 102 ~ 102 (106)
|
T Consensus 607 y 607 (608)
T KOG4212|consen 607 Y 607 (608)
T ss_pred e
Confidence 7
No 77
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.06 E-value=8e-10 Score=74.56 Aligned_cols=77 Identities=29% Similarity=0.454 Sum_probs=65.9
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
..+|||.|||.++++++|+++|..||.|....|......++..+||||+|.+...++.++.. +...|+++++.|+.-
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek 364 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEK 364 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEec
Confidence 34599999999999999999999999999988866543455559999999999999999986 467799999999853
No 78
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=99.04 E-value=1.6e-09 Score=76.18 Aligned_cols=83 Identities=28% Similarity=0.574 Sum_probs=72.7
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCC---CCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEE
Q 034004 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV---TGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNI 98 (106)
Q Consensus 22 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~---~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i 98 (106)
.++..+.+||+||++.++++.|-..|+.||.+..+.+.+... ....+.++||.|-++.++++|+..|+|..+.+..+
T Consensus 170 gDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~ 249 (877)
T KOG0151|consen 170 GDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEM 249 (877)
T ss_pred CCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeee
Confidence 345577899999999999999999999999999998877652 23356689999999999999999999999999999
Q ss_pred EEEecc
Q 034004 99 RVNYAH 104 (106)
Q Consensus 99 ~v~~~~ 104 (106)
++-|++
T Consensus 250 K~gWgk 255 (877)
T KOG0151|consen 250 KLGWGK 255 (877)
T ss_pred eecccc
Confidence 998875
No 79
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=99.00 E-value=4.7e-09 Score=69.82 Aligned_cols=75 Identities=21% Similarity=0.438 Sum_probs=67.5
Q ss_pred CceEEEcCCCCC-CCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 26 RTKLFIGGLSYD-TNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 26 ~~~l~v~nlp~~-~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
...|-|+||..+ ++.+.|..+|+.||+|.++.+..++. ..|.|+|.+...|+.|++.|+|..+.|++|+|.+++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 467788888765 99999999999999999999988863 479999999999999999999999999999999876
Q ss_pred C
Q 034004 105 K 105 (106)
Q Consensus 105 ~ 105 (106)
.
T Consensus 372 H 372 (492)
T KOG1190|consen 372 H 372 (492)
T ss_pred C
Confidence 3
No 80
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.97 E-value=6.8e-09 Score=67.72 Aligned_cols=78 Identities=26% Similarity=0.437 Sum_probs=69.4
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCee--------EEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeE
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEII--------EVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRN 97 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~--------~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~ 97 (106)
.+.|||+|||..+|.+++..+|+++|-|. .|.+.++. .|+.+|=|.+.|...+++.-|+..|++..+.|+.
T Consensus 134 Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~ 212 (382)
T KOG1548|consen 134 NTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDELRGKK 212 (382)
T ss_pred CceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcccccCcE
Confidence 45699999999999999999999999763 36676776 5999999999999999999999999999999999
Q ss_pred EEEEecc
Q 034004 98 IRVNYAH 104 (106)
Q Consensus 98 i~v~~~~ 104 (106)
|+|+.|+
T Consensus 213 ~rVerAk 219 (382)
T KOG1548|consen 213 LRVERAK 219 (382)
T ss_pred EEEehhh
Confidence 9998664
No 81
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.93 E-value=2e-09 Score=70.26 Aligned_cols=78 Identities=41% Similarity=0.709 Sum_probs=68.6
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
..+++||++|++.++++.|++.|.+||++..+.+.+++.++..++|+||.|++++...+++.. ..+.|+|+.|.+..+
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~-~~h~~dgr~ve~k~a 82 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNA-RTHKLDGRSVEPKRA 82 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecc-cccccCCccccceec
Confidence 567899999999999999999999999999999999999999999999999999988888853 345678887776544
No 82
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.89 E-value=2.1e-09 Score=66.60 Aligned_cols=70 Identities=30% Similarity=0.578 Sum_probs=63.1
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
..+||++||..+.+.+++.||..||++..+.+. .+|+||+|.+..+|..|+..|++..+.+..+.|+++.
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r 71 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHAR 71 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCceecceeeeeeccc
Confidence 358999999999999999999999999888763 3578999999999999999999999999888888865
No 83
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.88 E-value=9.1e-09 Score=67.23 Aligned_cols=79 Identities=34% Similarity=0.595 Sum_probs=71.2
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEeccC
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAHK 105 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~~ 105 (106)
...+||++||..+++.++++.|.++|.|..+.+..+.....+++|+||.|.+.+.+.+++. ..-+.+.++.+.|..+.+
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~p 175 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAIP 175 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeeccc
Confidence 4589999999999999999999999999999999999999999999999999999999886 456678899999887654
No 84
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.85 E-value=1.1e-08 Score=64.42 Aligned_cols=80 Identities=26% Similarity=0.449 Sum_probs=73.5
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
....+.+||+|+...++..++...|..+|.+..+.++.+...+.+++++|++|.+.+.++.++. |++..+.+..+.|.+
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~ 176 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTL 176 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeee
Confidence 3456789999999999999999999999999999999998888899999999999999999999 999999999999876
Q ss_pred c
Q 034004 103 A 103 (106)
Q Consensus 103 ~ 103 (106)
-
T Consensus 177 ~ 177 (231)
T KOG4209|consen 177 K 177 (231)
T ss_pred e
Confidence 3
No 85
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.84 E-value=3.5e-09 Score=66.56 Aligned_cols=81 Identities=35% Similarity=0.599 Sum_probs=74.0
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
+..+..||.+-|-.+++.+.|.+.|.+|-......+++++.+++++||+||.|.++.++..|+..++|..++.++|++..
T Consensus 187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk 266 (290)
T KOG0226|consen 187 DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK 266 (290)
T ss_pred ccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence 34578899999999999999999999998888888899999999999999999999999999999999999999988765
Q ss_pred c
Q 034004 103 A 103 (106)
Q Consensus 103 ~ 103 (106)
+
T Consensus 267 S 267 (290)
T KOG0226|consen 267 S 267 (290)
T ss_pred h
Confidence 4
No 86
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.78 E-value=2.7e-09 Score=65.87 Aligned_cols=79 Identities=16% Similarity=0.257 Sum_probs=70.0
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 22 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
..+..+||||.|+-..++++-|.++|-+.|.|..+.|...+ .++.+ ||||.|.+....+-|++-+||..+.+..+.+.
T Consensus 5 aae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~ 82 (267)
T KOG4454|consen 5 AAEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRT 82 (267)
T ss_pred CcchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhhcc
Confidence 44567899999999999999999999999999999998876 56666 99999999999999999999999988877765
Q ss_pred e
Q 034004 102 Y 102 (106)
Q Consensus 102 ~ 102 (106)
+
T Consensus 83 ~ 83 (267)
T KOG4454|consen 83 L 83 (267)
T ss_pred c
Confidence 4
No 87
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.77 E-value=6.8e-08 Score=65.58 Aligned_cols=78 Identities=24% Similarity=0.357 Sum_probs=63.9
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
......|.+++||+++|+++|.+||+.. .|..+.+.+. +|++.|-|||+|.+.+++++|++ .+...+..+-|.|-.
T Consensus 7 ~~~~~~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r~--~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~ 82 (510)
T KOG4211|consen 7 GSTAFEVRLRGLPWSATEKEILDFFSNC-GIENLEIPRR--NGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFT 82 (510)
T ss_pred CCcceEEEecCCCccccHHHHHHHHhcC-ceeEEEEecc--CCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEc
Confidence 3445678889999999999999999876 4766555443 78999999999999999999998 566778888888876
Q ss_pred cc
Q 034004 103 AH 104 (106)
Q Consensus 103 ~~ 104 (106)
+.
T Consensus 83 ~~ 84 (510)
T KOG4211|consen 83 AG 84 (510)
T ss_pred cC
Confidence 53
No 88
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=98.76 E-value=7.8e-08 Score=51.09 Aligned_cols=67 Identities=22% Similarity=0.470 Sum_probs=45.9
Q ss_pred ceEEEcCCCCCCCHHHHHHhhc----cc-CCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 27 TKLFIGGLSYDTNETVLKDAFG----QH-GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~----~~-g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
+.|+|.|||.+.....++.-+. .. |++..+. .+.|++.|.+.+.|++|.+.++|-.+.|.+|.|+
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~----------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~ 72 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS----------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe----------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEE
Confidence 4689999999998877666554 33 4566541 2579999999999999999999999999999999
Q ss_pred ec
Q 034004 102 YA 103 (106)
Q Consensus 102 ~~ 103 (106)
+.
T Consensus 73 ~~ 74 (90)
T PF11608_consen 73 FS 74 (90)
T ss_dssp SS
T ss_pred Ec
Confidence 86
No 89
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.63 E-value=4.7e-08 Score=67.17 Aligned_cols=84 Identities=25% Similarity=0.530 Sum_probs=76.3
Q ss_pred ccCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEE
Q 034004 20 LSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIR 99 (106)
Q Consensus 20 ~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~ 99 (106)
+........++|++||...++..+.+++..+|.+....++.+..+|-+++|||.+|.++.....|+..|||..+++..+.
T Consensus 283 t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lv 362 (500)
T KOG0120|consen 283 TDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLV 362 (500)
T ss_pred cCcccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeE
Confidence 33445567899999999999999999999999999999999988899999999999999999999999999999999998
Q ss_pred EEec
Q 034004 100 VNYA 103 (106)
Q Consensus 100 v~~~ 103 (106)
|..+
T Consensus 363 vq~A 366 (500)
T KOG0120|consen 363 VQRA 366 (500)
T ss_pred eehh
Confidence 8764
No 90
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.61 E-value=5.4e-08 Score=60.43 Aligned_cols=64 Identities=23% Similarity=0.336 Sum_probs=54.9
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeC
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLD 94 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~ 94 (106)
.|+||.||..++++++|+.+|+.|.....+++... ...++||++|++.+.|..|+..|+|..|.
T Consensus 211 stlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~----~g~~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 211 STLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR----GGMPVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred hhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC----CCcceEeecHHHHHHHHHHHHHhhcceec
Confidence 48999999999999999999999987777666332 24578999999999999999999998764
No 91
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.56 E-value=4.8e-07 Score=61.61 Aligned_cols=77 Identities=21% Similarity=0.300 Sum_probs=60.6
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeE-EEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIE-VKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~-~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
....|.+++||+.+++++|.+||+..--+.. +.++.++ .+.+.+.|||+|++.+.|+.|+.. |...|..+-|.|-.+
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVFRS 179 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEeehh
Confidence 4568999999999999999999987643333 4455555 566899999999999999999974 556677777877543
No 92
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.52 E-value=1.1e-06 Score=54.50 Aligned_cols=78 Identities=24% Similarity=0.486 Sum_probs=67.8
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeC-CeEEEEE
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLD-GRNIRVN 101 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~-~~~i~v~ 101 (106)
-++..++++.|||.+++.+.+..+|.+|.....++++... .+.|||+|.+...+..|...+++..|- ...+.+.
T Consensus 143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~ 217 (221)
T KOG4206|consen 143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQIT 217 (221)
T ss_pred CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceeccCceEEec
Confidence 3445688999999999999999999999999998887764 468999999999999999999999886 7889888
Q ss_pred eccC
Q 034004 102 YAHK 105 (106)
Q Consensus 102 ~~~~ 105 (106)
++++
T Consensus 218 ~a~K 221 (221)
T KOG4206|consen 218 FAKK 221 (221)
T ss_pred ccCC
Confidence 8764
No 93
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.50 E-value=3.1e-08 Score=67.93 Aligned_cols=79 Identities=25% Similarity=0.407 Sum_probs=72.7
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
..+|+|+..+...+++.+|.+||+..|+|..+.++.+..++-.+|.+||+|.+.+....|+. |.|..+.|.+|.|..+.
T Consensus 178 d~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~pv~vq~sE 256 (549)
T KOG0147|consen 178 DQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPVIVQLSE 256 (549)
T ss_pred hHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCceeEecccH
Confidence 45789999999999999999999999999999999999899999999999999999999994 99999999999987643
No 94
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.33 E-value=8e-07 Score=58.42 Aligned_cols=82 Identities=28% Similarity=0.366 Sum_probs=71.1
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccCCee--------EEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeC
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEII--------EVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLD 94 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~--------~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~ 94 (106)
....-++||-+||.+++++++..+|.+.|.|. .+.+-+++.+++.++-|.|.|.+...|+.|+.-+++..+.
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~ 142 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC 142 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence 34456899999999999999999999988763 2456677789999999999999999999999999999999
Q ss_pred CeEEEEEecc
Q 034004 95 GRNIRVNYAH 104 (106)
Q Consensus 95 ~~~i~v~~~~ 104 (106)
+..|+|..+.
T Consensus 143 gn~ikvs~a~ 152 (351)
T KOG1995|consen 143 GNTIKVSLAE 152 (351)
T ss_pred CCCchhhhhh
Confidence 9999987654
No 95
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=98.31 E-value=3.3e-06 Score=47.25 Aligned_cols=69 Identities=26% Similarity=0.441 Sum_probs=42.9
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCe-----eeCCeEEEEE
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGL-----LLDGRNIRVN 101 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~-----~i~~~~i~v~ 101 (106)
..|.+.+++..++.++|+..|+.+|.|.++.+.... ..|+|.|.+++.|+.|+..+... .+.+..+.++
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~ 75 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLE 75 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEE
Confidence 468888999999999999999999999998886654 37999999999999999765332 4555555544
No 96
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.26 E-value=5e-06 Score=54.76 Aligned_cols=76 Identities=24% Similarity=0.467 Sum_probs=58.5
Q ss_pred eEEEcCCCCCCCHHH------HHHhhcccCCeeEEEEeecCCC-CCccce--EEEEeCCHHHHHHHHHHhCCeeeCCeEE
Q 034004 28 KLFIGGLSYDTNETV------LKDAFGQHGEIIEVKVICDRVT-GQSRGY--GFVKFASEAAAGEAIKEMDGLLLDGRNI 98 (106)
Q Consensus 28 ~l~v~nlp~~~~~~~------l~~~f~~~g~i~~~~~~~~~~~-~~~~~~--~fv~f~~~~~a~~a~~~l~~~~i~~~~i 98 (106)
-+||-+||+.+..++ -.++|++||+|..|.+.+.-.+ ....++ .||.|...++|.+||...+|..++|+-|
T Consensus 116 LvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~l 195 (480)
T COG5175 116 LVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVL 195 (480)
T ss_pred eeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceE
Confidence 478989988766544 3578999999999877544211 111222 3999999999999999999999999999
Q ss_pred EEEec
Q 034004 99 RVNYA 103 (106)
Q Consensus 99 ~v~~~ 103 (106)
+..|.
T Consensus 196 katYG 200 (480)
T COG5175 196 KATYG 200 (480)
T ss_pred eeecC
Confidence 98874
No 97
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=98.23 E-value=1.2e-06 Score=55.37 Aligned_cols=71 Identities=17% Similarity=0.293 Sum_probs=59.0
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCC--------CCccc----eEEEEeCCHHHHHHHHHHhCCeeeC
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVT--------GQSRG----YGFVKFASEAAAGEAIKEMDGLLLD 94 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~--------~~~~~----~~fv~f~~~~~a~~a~~~l~~~~i~ 94 (106)
..||+++||+......|+++|+.||.|-++.+.....+ |.+.. .+.|+|.+...|..+...||+..|+
T Consensus 75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Ig 154 (278)
T KOG3152|consen 75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIG 154 (278)
T ss_pred eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccC
Confidence 57999999999999999999999999998887655433 22222 3568999999999999999999999
Q ss_pred CeE
Q 034004 95 GRN 97 (106)
Q Consensus 95 ~~~ 97 (106)
|++
T Consensus 155 gkk 157 (278)
T KOG3152|consen 155 GKK 157 (278)
T ss_pred CCC
Confidence 864
No 98
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.20 E-value=2.6e-05 Score=52.09 Aligned_cols=78 Identities=19% Similarity=0.291 Sum_probs=68.8
Q ss_pred CCCceEEEcCCCCC-CCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 24 NSRTKLFIGGLSYD-TNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 24 ~~~~~l~v~nlp~~-~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
.+.+.++|.+|... ++.+.|..+|..||.|.++.+.+.+ .+.|.|++-+....++|+..||+..+-|.+|.|..
T Consensus 285 ~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~ 359 (494)
T KOG1456|consen 285 APGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCV 359 (494)
T ss_pred CCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceEEEee
Confidence 34677899999876 7789999999999999999998776 46899999999999999999999999999999988
Q ss_pred ccCC
Q 034004 103 AHKD 106 (106)
Q Consensus 103 ~~~~ 106 (106)
++++
T Consensus 360 SkQ~ 363 (494)
T KOG1456|consen 360 SKQN 363 (494)
T ss_pred cccc
Confidence 8763
No 99
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.19 E-value=1.4e-05 Score=56.94 Aligned_cols=76 Identities=17% Similarity=0.254 Sum_probs=65.3
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCe-eEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEI-IEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i-~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
.+.|-+.|+|+.++.++|-+||..|-.+ -.|.+..+. .|+..|.|-|.|++.+.|.+|...|++..|.++.+.+.+
T Consensus 867 p~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd-~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 867 PRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRND-DGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred CeEEEecCCCccccHHHHHHHhcccccCCCceeEeecC-CCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 3467889999999999999999999654 445555554 799999999999999999999999999999999988764
No 100
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=98.15 E-value=1.1e-05 Score=55.51 Aligned_cols=64 Identities=25% Similarity=0.339 Sum_probs=59.4
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhc-ccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHH
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFG-QHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~-~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~ 86 (106)
-++.+||||++||.-++..+|..+|. .||.|..+.|-.+++-+.++|-|-|.|.+.+.-.+||.
T Consensus 367 lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs 431 (520)
T KOG0129|consen 367 IDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS 431 (520)
T ss_pred cCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence 35678999999999999999999998 69999999999998889999999999999999999996
No 101
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.13 E-value=3.2e-06 Score=52.66 Aligned_cols=76 Identities=32% Similarity=0.502 Sum_probs=63.9
Q ss_pred ccCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEE
Q 034004 20 LSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIR 99 (106)
Q Consensus 20 ~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~ 99 (106)
..+....+.+.|.+++..+...+|.+.|+.+|.+..... ..+++||.|+...++..|+..|++..+.++.|.
T Consensus 93 ~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~ 164 (216)
T KOG0106|consen 93 RPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRIS 164 (216)
T ss_pred CCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccchhhcCceee
Confidence 334556778899999999999999999999999843323 346899999999999999999999999999998
Q ss_pred EEec
Q 034004 100 VNYA 103 (106)
Q Consensus 100 v~~~ 103 (106)
+...
T Consensus 165 ~~~~ 168 (216)
T KOG0106|consen 165 VEKN 168 (216)
T ss_pred eccc
Confidence 8654
No 102
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.13 E-value=1.3e-05 Score=53.89 Aligned_cols=76 Identities=18% Similarity=0.305 Sum_probs=62.5
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCe-eEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeC-CeEEEEEe
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEI-IEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLD-GRNIRVNY 102 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i-~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~-~~~i~v~~ 102 (106)
+..++.++|+|.++++++++..|...|.. +...+ .++.+.++.+++.+.+.|..|+..++++.++ +..++|++
T Consensus 413 psatlHlsnip~svsee~lk~~f~~~g~~vkafkf-----f~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSF 487 (492)
T KOG1190|consen 413 PSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKF-----FQKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSF 487 (492)
T ss_pred chhheeeccCCcccchhHHHHhhhcCCceEEeeee-----cCCCcceeecccCChhHhhhhccccccccCCCCceEEEEe
Confidence 44689999999999999999999987765 33333 2335569999999999999999999999876 56999999
Q ss_pred ccC
Q 034004 103 AHK 105 (106)
Q Consensus 103 ~~~ 105 (106)
++.
T Consensus 488 Sks 490 (492)
T KOG1190|consen 488 SKS 490 (492)
T ss_pred ecc
Confidence 875
No 103
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=98.07 E-value=6.8e-06 Score=54.89 Aligned_cols=82 Identities=21% Similarity=0.332 Sum_probs=66.2
Q ss_pred cCCCCCceEEEcCCCCCCCHHHHHHhhcccCC-eeE--EEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeE
Q 034004 21 SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGE-IIE--VKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRN 97 (106)
Q Consensus 21 ~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~-i~~--~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~ 97 (106)
+...+...|.+++||.+.+.++|.+||..|.. +.. +-++.+. .|.+.|.|||+|.+.+.|.+|....++....++.
T Consensus 275 p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RY 353 (508)
T KOG1365|consen 275 PPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRY 353 (508)
T ss_pred CCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccce
Confidence 34444567999999999999999999998864 333 5555654 7889999999999999999999988888778888
Q ss_pred EEEEec
Q 034004 98 IRVNYA 103 (106)
Q Consensus 98 i~v~~~ 103 (106)
|.|-.+
T Consensus 354 iEvfp~ 359 (508)
T KOG1365|consen 354 IEVFPC 359 (508)
T ss_pred EEEeec
Confidence 888643
No 104
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.03 E-value=3.1e-05 Score=53.70 Aligned_cols=66 Identities=20% Similarity=0.326 Sum_probs=53.3
Q ss_pred HHHHHhhcccCCeeEEEEeecCCC---CCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEeccCC
Q 034004 41 TVLKDAFGQHGEIIEVKVICDRVT---GQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAHKD 106 (106)
Q Consensus 41 ~~l~~~f~~~g~i~~~~~~~~~~~---~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~~~ 106 (106)
++++..++.||.|..|.++++... .-..|-.||+|.+.+++++|++.|+|..+.++.+..+|..+|
T Consensus 424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYydeD 492 (500)
T KOG0120|consen 424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDED 492 (500)
T ss_pred HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCHH
Confidence 455666788999999999887212 224455799999999999999999999999999999986543
No 105
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.03 E-value=4.8e-05 Score=50.20 Aligned_cols=75 Identities=21% Similarity=0.354 Sum_probs=59.9
Q ss_pred CCceEEEcCCCC----CCC-------HHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeee
Q 034004 25 SRTKLFIGGLSY----DTN-------ETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLL 93 (106)
Q Consensus 25 ~~~~l~v~nlp~----~~~-------~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i 93 (106)
..++|.+.|+-. ..+ .++|+.-+.++|.+..+.+.-.. +.|.+-|.|.+...|..|++.|+|.-+
T Consensus 264 ~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~h----PdGvvtV~f~n~eeA~~ciq~m~GR~f 339 (382)
T KOG1548|consen 264 ADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRH----PDGVVTVSFRNNEEADQCIQTMDGRWF 339 (382)
T ss_pred CCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccC----CCceeEEEeCChHHHHHHHHHhcCeee
Confidence 357888888621 222 35667778899999998776443 568999999999999999999999999
Q ss_pred CCeEEEEEec
Q 034004 94 DGRNIRVNYA 103 (106)
Q Consensus 94 ~~~~i~v~~~ 103 (106)
+|+.|..+..
T Consensus 340 dgRql~A~i~ 349 (382)
T KOG1548|consen 340 DGRQLTASIW 349 (382)
T ss_pred cceEEEEEEe
Confidence 9999998764
No 106
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.01 E-value=7.1e-06 Score=53.45 Aligned_cols=79 Identities=25% Similarity=0.526 Sum_probs=70.1
Q ss_pred CceEE-EcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 26 RTKLF-IGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 26 ~~~l~-v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
..+++ +.+++..++.++|...|...|.+..+++..+..++...+++++.|........++.. +...+.++.+.+....
T Consensus 184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 262 (285)
T KOG4210|consen 184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDE 262 (285)
T ss_pred cccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCC
Confidence 44555 999999999999999999999999999999999999999999999999999999987 7778899988887655
Q ss_pred C
Q 034004 105 K 105 (106)
Q Consensus 105 ~ 105 (106)
+
T Consensus 263 ~ 263 (285)
T KOG4210|consen 263 P 263 (285)
T ss_pred C
Confidence 4
No 107
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.01 E-value=6.6e-05 Score=50.21 Aligned_cols=70 Identities=19% Similarity=0.304 Sum_probs=58.9
Q ss_pred cCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCC--eEEEEEeccCC
Q 034004 32 GGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDG--RNIRVNYAHKD 106 (106)
Q Consensus 32 ~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~--~~i~v~~~~~~ 106 (106)
-|--.-++.+.|..++...|++.++.+.+.. + --|.|+|++.+.|++|...|||..|.. ..|+|+|++++
T Consensus 128 lNp~YpItvDVly~Icnp~GkVlRIvIfkkn--g---VQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~ 199 (494)
T KOG1456|consen 128 LNPQYPITVDVLYTICNPQGKVLRIVIFKKN--G---VQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPT 199 (494)
T ss_pred ecCccccchhhhhhhcCCCCceEEEEEEecc--c---eeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcc
Confidence 3555568889999999999999999887652 2 368999999999999999999999864 57899999875
No 108
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.96 E-value=0.0001 Score=51.62 Aligned_cols=77 Identities=27% Similarity=0.442 Sum_probs=61.8
Q ss_pred CCCceEEEcCCCCCCC------HHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeC-Ce
Q 034004 24 NSRTKLFIGGLSYDTN------ETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLD-GR 96 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~------~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~-~~ 96 (106)
.-...|.|.|+|.--. ..-|..+|+++|++....++.+.. |..+|+.|++|.+..+|+.|++.|||..++ ++
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~-ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknH 134 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE-GGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNH 134 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc-CCeeeEEEEEecChhhHHHHHHhcccceecccc
Confidence 3356788999997543 234566789999999998887774 448999999999999999999999999986 56
Q ss_pred EEEEE
Q 034004 97 NIRVN 101 (106)
Q Consensus 97 ~i~v~ 101 (106)
...|.
T Consensus 135 tf~v~ 139 (698)
T KOG2314|consen 135 TFFVR 139 (698)
T ss_pred eEEee
Confidence 66664
No 109
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=97.90 E-value=1.4e-05 Score=52.97 Aligned_cols=77 Identities=23% Similarity=0.448 Sum_probs=64.2
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccC--CeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCe-EEEEEec
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHG--EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGR-NIRVNYA 103 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g--~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~-~i~v~~~ 103 (106)
-.+||+||-++++.++|.+-+.+.| ++..+++..++.+|.++|||.+..-+.....+.++.|-..+|.|. +...++.
T Consensus 81 ~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~N 160 (498)
T KOG4849|consen 81 YCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSYN 160 (498)
T ss_pred EEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeeccc
Confidence 3689999999999999998887766 567778888888999999999999999999999998888888874 4444443
No 110
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.88 E-value=6.5e-05 Score=36.86 Aligned_cols=52 Identities=29% Similarity=0.464 Sum_probs=40.8
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHH
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~ 85 (106)
+.|-|++.+....+.. ...|..+|.|....+.. .....++.|.+..+|++|+
T Consensus 2 ~wI~V~Gf~~~~~~~v-l~~F~~fGeI~~~~~~~------~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEEV-LEHFASFGEIVDIYVPE------STNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHHHH-HHHHHhcCCEEEEEcCC------CCcEEEEEECCHHHHHhhC
Confidence 4677889998777555 45777899999987752 2347999999999999885
No 111
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=97.73 E-value=0.0005 Score=36.68 Aligned_cols=57 Identities=16% Similarity=0.248 Sum_probs=42.3
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCC
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDG 90 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~ 90 (106)
..+..+|+ .|.++...+|.++|++||.|. +.+..+- .|||...+.+.+..++..+..
T Consensus 8 RdHVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~dT-------SAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 8 RDHVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWINDT-------SAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp GCCEEEEE---TT--HHHHHHHCCCCCCEE-EEEECTT-------EEEEEECCCHHHHHHHHHHTT
T ss_pred cceEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcCC-------cEEEEeecHHHHHHHHHHhcc
Confidence 34556676 999999999999999999874 4554443 799999999999999987754
No 112
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.63 E-value=0.00088 Score=39.46 Aligned_cols=57 Identities=28% Similarity=0.524 Sum_probs=44.2
Q ss_pred HHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEeccCC
Q 034004 41 TVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAHKD 106 (106)
Q Consensus 41 ~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~~~ 106 (106)
..|-+.|..||.+.-++++.+ .-.|.|.+...|-+|+. ++|..+.|+.|+|+.-.+|
T Consensus 51 ~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtpd 107 (146)
T PF08952_consen 51 DELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTPD 107 (146)
T ss_dssp HHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE----
T ss_pred HHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCcc
Confidence 367777889999887777554 36899999999999997 8999999999999876554
No 113
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.59 E-value=0.00096 Score=33.70 Aligned_cols=55 Identities=20% Similarity=0.222 Sum_probs=44.4
Q ss_pred CceEEEcCCCCCCCHHHHHHhhccc---CCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHh
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQH---GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~---g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l 88 (106)
...|+|.++.. .+.+++..+|..| ....++++..+. .|-|.|.+...|.+|+..|
T Consensus 5 peavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 45799999855 6667889999887 246788998886 5889999999999999754
No 114
>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=97.58 E-value=0.0012 Score=36.68 Aligned_cols=76 Identities=16% Similarity=0.250 Sum_probs=48.2
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEE-EeecC------CCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCe-E
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVK-VICDR------VTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGR-N 97 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~-~~~~~------~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~-~ 97 (106)
.+-|.|-+.|+.. ...+-+.|+++|.|.... ..... ........-.+.|+++.+|++||. -||..+.|. .
T Consensus 6 ~~wVtVFGfp~~~-~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~m 83 (100)
T PF05172_consen 6 ETWVTVFGFPPSA-SNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLM 83 (100)
T ss_dssp CCEEEEE---GGG-HHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEE
T ss_pred CeEEEEEccCHHH-HHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEE
Confidence 4457777899984 466777899999987653 10000 011133467899999999999998 699999874 5
Q ss_pred EEEEec
Q 034004 98 IRVNYA 103 (106)
Q Consensus 98 i~v~~~ 103 (106)
+-|.+.
T Consensus 84 vGV~~~ 89 (100)
T PF05172_consen 84 VGVKPC 89 (100)
T ss_dssp EEEEE-
T ss_pred EEEEEc
Confidence 556665
No 115
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.56 E-value=0.00012 Score=53.57 Aligned_cols=76 Identities=29% Similarity=0.445 Sum_probs=65.9
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCC--eEEEEE
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDG--RNIRVN 101 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~--~~i~v~ 101 (106)
...+.+++++|+.++....+.+.|..||.+..|.+-.. ..|++++|++...+++|+..+.|..+++ ++++|.
T Consensus 453 t~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg------q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvd 526 (975)
T KOG0112|consen 453 TPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG------QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVD 526 (975)
T ss_pred ccceeeccCCCCCCChHHHHHHHhhccCcceeeecccC------CcceeeecccCccchhhHHHHhcCcCCCCCcccccc
Confidence 44678999999999999999999999999998776443 3699999999999999999999999876 678888
Q ss_pred eccC
Q 034004 102 YAHK 105 (106)
Q Consensus 102 ~~~~ 105 (106)
++..
T Consensus 527 la~~ 530 (975)
T KOG0112|consen 527 LASP 530 (975)
T ss_pred cccC
Confidence 8754
No 116
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.55 E-value=0.00066 Score=45.75 Aligned_cols=68 Identities=25% Similarity=0.367 Sum_probs=52.5
Q ss_pred ceEEEcCCCCCCCHHHHHHhhccc----CCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCe
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQH----GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGR 96 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~----g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~ 96 (106)
-.|..++||.++++.++..||.+. |....+.++..+ +|+..|-||+.|...++|+.|+.. |...++.+
T Consensus 162 vivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqR 233 (508)
T KOG1365|consen 162 VIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRK-HRQNIGQR 233 (508)
T ss_pred eEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHHH-HHHHHhHH
Confidence 356778999999999999999632 345666666666 788999999999999999999964 33334333
No 117
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=97.54 E-value=0.0011 Score=40.59 Aligned_cols=67 Identities=21% Similarity=0.326 Sum_probs=57.4
Q ss_pred ccCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeee
Q 034004 20 LSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLL 93 (106)
Q Consensus 20 ~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i 93 (106)
++.--+...|.|++||.+-+.++|++.....|++.+..+.++ +++.|+|-..++.+-|+..|.....
T Consensus 109 ppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~ 175 (241)
T KOG0105|consen 109 PPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKF 175 (241)
T ss_pred CcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhccccc
Confidence 344455678999999999999999999999999999888776 3789999999999999998877654
No 118
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.27 E-value=0.00059 Score=46.43 Aligned_cols=68 Identities=18% Similarity=0.250 Sum_probs=55.5
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeec---CCC--CC--------ccceEEEEeCCHHHHHHHHHHhCC
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICD---RVT--GQ--------SRGYGFVKFASEAAAGEAIKEMDG 90 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~---~~~--~~--------~~~~~fv~f~~~~~a~~a~~~l~~ 90 (106)
-..++|.+.|||.+-.-+-|.++|+.+|.|..|+|... +.+ +. .+-+|+|+|...+.|.+|.+.++.
T Consensus 229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~ 308 (484)
T KOG1855|consen 229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP 308 (484)
T ss_pred cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence 46788999999999888999999999999999999877 321 11 144689999999999999987754
Q ss_pred e
Q 034004 91 L 91 (106)
Q Consensus 91 ~ 91 (106)
.
T Consensus 309 e 309 (484)
T KOG1855|consen 309 E 309 (484)
T ss_pred h
Confidence 3
No 119
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.26 E-value=0.0014 Score=45.56 Aligned_cols=63 Identities=27% Similarity=0.524 Sum_probs=46.9
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCC---CCCccc---eEEEEeCCHHHHHHHHHH
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRV---TGQSRG---YGFVKFASEAAAGEAIKE 87 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~---~~~~~~---~~fv~f~~~~~a~~a~~~ 87 (106)
...+.|||++||+.++++.|...|..||.+. +.++.... ..-++| |+|+.|++...++..+..
T Consensus 257 ~~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~a 325 (520)
T KOG0129|consen 257 RYSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSA 325 (520)
T ss_pred ccccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHH
Confidence 3467899999999999999999999999653 33432111 112455 999999999888876653
No 120
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.24 E-value=0.0005 Score=46.86 Aligned_cols=70 Identities=29% Similarity=0.461 Sum_probs=54.2
Q ss_pred eEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCee-eCCeEEEEEec
Q 034004 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLL-LDGRNIRVNYA 103 (106)
Q Consensus 28 ~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~-i~~~~i~v~~~ 103 (106)
.+|++||.+..+.++++..|+...-...-.+.. ..||+|+...+...+.++++.++|.. +.|.++.+..+
T Consensus 3 klyignL~p~~~psdl~svfg~ak~~~~g~fl~------k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~s 73 (584)
T KOG2193|consen 3 KLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV------KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHS 73 (584)
T ss_pred cccccccCCCCChHHHHHHhccccCCCCcceee------ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccch
Confidence 589999999999999999997541111111111 24699999999999999999999985 88998888754
No 121
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.23 E-value=0.0023 Score=41.79 Aligned_cols=64 Identities=19% Similarity=0.271 Sum_probs=51.2
Q ss_pred HHHHHHhhcccCCeeEEEEeecCCCCCccce-EEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 40 ETVLKDAFGQHGEIIEVKVICDRVTGQSRGY-GFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 40 ~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~-~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
++++...+.+||++..+-+...+........ -||+|...+.|.+|+-.|||..++|+.++..+.
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fy 364 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFY 364 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheec
Confidence 4567777899999999888777633333332 599999999999999999999999998887654
No 122
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.07 E-value=0.00027 Score=51.49 Aligned_cols=76 Identities=20% Similarity=0.328 Sum_probs=63.4
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
...++|+|.|+..+.+.++.++..+|.+..+.++..+ .|+++|-+++.|.+..++.++........+....+.|..
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~v 811 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQV 811 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhhhhhhcCccccc
Confidence 4578999999999999999999999999888887776 899999999999999999988866555555545555544
No 123
>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=97.06 E-value=0.0022 Score=39.12 Aligned_cols=70 Identities=13% Similarity=0.124 Sum_probs=44.5
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcc-cCCe---eEEEEeecCCCC--CccceEEEEeCCHHHHHHHHHHhCCeee
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQ-HGEI---IEVKVICDRVTG--QSRGYGFVKFASEAAAGEAIKEMDGLLL 93 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~-~g~i---~~~~~~~~~~~~--~~~~~~fv~f~~~~~a~~a~~~l~~~~i 93 (106)
.....|.|++||++.+++++...+++ ++.- .+.........- ....-||+.|.+.+++......++|..+
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F 80 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVF 80 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEE
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEE
Confidence 34568999999999999998887776 5544 333322222111 1234589999999999999999999874
No 124
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=97.06 E-value=0.0085 Score=35.31 Aligned_cols=78 Identities=13% Similarity=0.193 Sum_probs=56.1
Q ss_pred ccccCCCCCceEEEcCCCCCCCH----HHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeee
Q 034004 18 RLLSDSNSRTKLFIGGLSYDTNE----TVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLL 93 (106)
Q Consensus 18 ~~~~~~~~~~~l~v~nlp~~~~~----~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i 93 (106)
.....+++-.||.|+=|+.++.. .++...++.||.|..+... ++..|.|.|.+..+|=.|+..++. ..
T Consensus 78 kk~~kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-------GrqsavVvF~d~~SAC~Av~Af~s-~~ 149 (166)
T PF15023_consen 78 KKNTKEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-------GRQSAVVVFKDITSACKAVSAFQS-RA 149 (166)
T ss_pred cccCCCCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-------CCceEEEEehhhHHHHHHHHhhcC-CC
Confidence 33445566778888766666543 4455567889999887552 345799999999999999998875 66
Q ss_pred CCeEEEEEec
Q 034004 94 DGRNIRVNYA 103 (106)
Q Consensus 94 ~~~~i~v~~~ 103 (106)
.|..+..+|.
T Consensus 150 pgtm~qCsWq 159 (166)
T PF15023_consen 150 PGTMFQCSWQ 159 (166)
T ss_pred CCceEEeecc
Confidence 6777777764
No 125
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.93 E-value=3.3e-05 Score=56.00 Aligned_cols=68 Identities=26% Similarity=0.435 Sum_probs=58.0
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeC
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLD 94 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~ 94 (106)
.++|++||+..+.+.+|...|..+|.+..+++..+...+..+|.|++.|..++.+.+++....+..++
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 36899999999999999999999998888877766667889999999999999999999765554444
No 126
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.84 E-value=0.0013 Score=47.51 Aligned_cols=79 Identities=19% Similarity=0.120 Sum_probs=62.5
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccCCeeE-EEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIE-VKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~-~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
......|||..||..+.+..+-++|.....|.. |.+...+ +++.++.|||.|.....+..|...-+.+.++.+.|+|.
T Consensus 431 ~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~ 509 (944)
T KOG4307|consen 431 GGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVD 509 (944)
T ss_pred CCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCceEEEee
Confidence 345678999999999999999999987655544 7777666 67788999999999888777776556666777888886
Q ss_pred e
Q 034004 102 Y 102 (106)
Q Consensus 102 ~ 102 (106)
-
T Consensus 510 s 510 (944)
T KOG4307|consen 510 S 510 (944)
T ss_pred c
Confidence 3
No 127
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.65 E-value=0.00033 Score=51.35 Aligned_cols=80 Identities=24% Similarity=0.396 Sum_probs=64.2
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 22 DSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 22 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
+....++||++||+..+++.+|+..|..+|.+..+.+...+ -+...-++|+.|.+.+.+..+...+.+..|..-.+++.
T Consensus 368 D~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~g 446 (975)
T KOG0112|consen 368 DFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIG 446 (975)
T ss_pred chhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhcCCccccCccccc
Confidence 33457899999999999999999999999999999887664 33445588999999999999888888887765444443
Q ss_pred e
Q 034004 102 Y 102 (106)
Q Consensus 102 ~ 102 (106)
+
T Consensus 447 l 447 (975)
T KOG0112|consen 447 L 447 (975)
T ss_pred c
Confidence 3
No 128
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=96.65 E-value=0.0075 Score=40.91 Aligned_cols=76 Identities=17% Similarity=0.223 Sum_probs=56.9
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCC---CCccceEEEEeCCHHHHHHHHHHhCCeee-CCeEEEEE
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVT---GQSRGYGFVKFASEAAAGEAIKEMDGLLL-DGRNIRVN 101 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~---~~~~~~~fv~f~~~~~a~~a~~~l~~~~i-~~~~i~v~ 101 (106)
...|.|.||.++++.+.++.+|+-.|+|..+.+...... ....-.|||-|.+.+.+..|.. |-++.+ +-..|.+-
T Consensus 7 ~~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdraliv~p 85 (479)
T KOG4676|consen 7 LGVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALIVRP 85 (479)
T ss_pred CceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEEEEe
Confidence 347899999999999999999999999998877553321 2234479999999999888876 666654 44444444
Q ss_pred e
Q 034004 102 Y 102 (106)
Q Consensus 102 ~ 102 (106)
+
T Consensus 86 ~ 86 (479)
T KOG4676|consen 86 Y 86 (479)
T ss_pred c
Confidence 4
No 129
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=96.62 E-value=0.0029 Score=44.89 Aligned_cols=79 Identities=15% Similarity=0.253 Sum_probs=60.6
Q ss_pred cCCCCCceEEEcCCCCCCCHHHHHHhhcccCC-eeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeee---CCe
Q 034004 21 SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGE-IIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLL---DGR 96 (106)
Q Consensus 21 ~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~-i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i---~~~ 96 (106)
........|+|.||-.-.|.-.|+.+++.-|. |... |+.. -+.+|||.|.+.+.|.+....|||... +.+
T Consensus 439 sR~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~-WmDk-----IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK 512 (718)
T KOG2416|consen 439 SRKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF-WMDK-----IKSHCYVSYSSVEEAAATREALHNVQWPPSNPK 512 (718)
T ss_pred CCCCccceEeeecccccchHHHHHHHHhhccCchHHH-HHHH-----hhcceeEecccHHHHHHHHHHHhccccCCCCCc
Confidence 34455678999999999999999999996554 4333 4322 245899999999999999999999975 346
Q ss_pred EEEEEeccC
Q 034004 97 NIRVNYAHK 105 (106)
Q Consensus 97 ~i~v~~~~~ 105 (106)
.|.+.|...
T Consensus 513 ~L~adf~~~ 521 (718)
T KOG2416|consen 513 HLIADFVRA 521 (718)
T ss_pred eeEeeecch
Confidence 788877654
No 130
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=96.59 E-value=0.0012 Score=42.18 Aligned_cols=62 Identities=26% Similarity=0.361 Sum_probs=46.5
Q ss_pred HHHHHhhc-ccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEec
Q 034004 41 TVLKDAFG-QHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYA 103 (106)
Q Consensus 41 ~~l~~~f~-~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~ 103 (106)
+++...+. +||.|..+.+..+- .-.-.|=++|.|...++|++|++.||+.-+.|++|...++
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~ 145 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS 145 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence 44455555 78999877554432 2223455799999999999999999999999999988764
No 131
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.40 E-value=0.0054 Score=39.30 Aligned_cols=61 Identities=25% Similarity=0.408 Sum_probs=51.8
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHh
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l 88 (106)
..|||.||+..++-+-+++-|+.||.+..-.+..+. .+++.+-++|.|.....+.+|+...
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~ 92 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRC 92 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHHh
Confidence 469999999999999999999999999776555554 5777788999999998888888765
No 132
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=96.25 E-value=0.013 Score=41.19 Aligned_cols=81 Identities=21% Similarity=0.239 Sum_probs=53.5
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhc-ccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeee---CC-eE
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFG-QHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLL---DG-RN 97 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~-~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i---~~-~~ 97 (106)
+...+++.|.|+|...|...|...-. ..|.-.++.++-+..+....|||||.|-+++.+..+.+.+||... .+ +.
T Consensus 385 e~~rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Ki 464 (549)
T KOG4660|consen 385 ECPRTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKI 464 (549)
T ss_pred cCchhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceee
Confidence 33444555555554444333333221 245556677788877888999999999999999999999999963 33 44
Q ss_pred EEEEec
Q 034004 98 IRVNYA 103 (106)
Q Consensus 98 i~v~~~ 103 (106)
+.+.|+
T Consensus 465 a~itYA 470 (549)
T KOG4660|consen 465 ASITYA 470 (549)
T ss_pred eeeehh
Confidence 555554
No 133
>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=96.13 E-value=0.1 Score=29.48 Aligned_cols=67 Identities=21% Similarity=0.219 Sum_probs=47.2
Q ss_pred CceEEEcCCCCC-CCHHHHHHhhccc-CCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeC
Q 034004 26 RTKLFIGGLSYD-TNETVLKDAFGQH-GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLD 94 (106)
Q Consensus 26 ~~~l~v~nlp~~-~~~~~l~~~f~~~-g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~ 94 (106)
..++.+-..|.. ++.+.|..+.+.+ ..+..+++.++. ..++-.+.+.|.+...|......+||..+.
T Consensus 12 ~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 12 RSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred CceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 344555455555 5556666555554 457788888874 235667899999999999999999999654
No 134
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=95.94 E-value=0.05 Score=33.53 Aligned_cols=60 Identities=20% Similarity=0.263 Sum_probs=43.5
Q ss_pred CHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhC--CeeeCCeEEEEEecc
Q 034004 39 NETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMD--GLLLDGRNIRVNYAH 104 (106)
Q Consensus 39 ~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~--~~~i~~~~i~v~~~~ 104 (106)
..+.|+.+|..++.+..+...... +-..|.|.+.+.|+.+...|+ +..+.|..+++.++.
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sF------rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~ 69 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSF------RRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQ 69 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTT------TEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE---
T ss_pred hHHHHHHHHHhcCCceEEEEcCCC------CEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcc
Confidence 347899999999988776654443 347899999999999999999 889999999998763
No 135
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=95.69 E-value=0.007 Score=41.91 Aligned_cols=71 Identities=27% Similarity=0.356 Sum_probs=55.7
Q ss_pred eEEEcCCCCCC-CHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEeccC
Q 034004 28 KLFIGGLSYDT-NETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAHK 105 (106)
Q Consensus 28 ~l~v~nlp~~~-~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~~ 105 (106)
.+-+...|... +.++|...|++||.|..|++-... ..|.|.|.+.-.|-.|-. .++..|+++.|+|.|-++
T Consensus 374 ~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnp 445 (526)
T KOG2135|consen 374 PLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNP 445 (526)
T ss_pred hhhhhccCCCCchHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchhc-cccceecCceeEEEEecC
Confidence 44555566664 458999999999999999885553 468999999888866664 688999999999998654
No 136
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=95.44 E-value=0.16 Score=26.43 Aligned_cols=67 Identities=21% Similarity=0.409 Sum_probs=37.2
Q ss_pred eEEEc-CCCCCCCHHHHHHhhcccCC-----eeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 28 KLFIG-GLSYDTNETVLKDAFGQHGE-----IIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 28 ~l~v~-nlp~~~~~~~l~~~f~~~g~-----i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
++|+. +--..++..+|-.++...+. |-.+.+.. .|+|++... +.++.++..|++..+.|++++|+
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~--------~~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve 72 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------NFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------S-EEEEE-T-T-HHHHHHHHTT--SSS----EE
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEee--------eEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEE
Confidence 34553 34456778888888876543 45555533 378888764 47788899999999999999998
Q ss_pred ec
Q 034004 102 YA 103 (106)
Q Consensus 102 ~~ 103 (106)
.+
T Consensus 73 ~A 74 (74)
T PF03880_consen 73 RA 74 (74)
T ss_dssp E-
T ss_pred EC
Confidence 64
No 137
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=95.42 E-value=0.0077 Score=39.91 Aligned_cols=75 Identities=24% Similarity=0.461 Sum_probs=54.5
Q ss_pred eEEEcCCCCCCCHHH-HH--HhhcccCCeeEEEEeecCC--CC-CccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEE
Q 034004 28 KLFIGGLSYDTNETV-LK--DAFGQHGEIIEVKVICDRV--TG-QSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVN 101 (106)
Q Consensus 28 ~l~v~nlp~~~~~~~-l~--~~f~~~g~i~~~~~~~~~~--~~-~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~ 101 (106)
-+|+-+|+.....+. |+ ..|++||.+..+....+.. .+ .+...++|.|...++|..||...+|...+|+.++.+
T Consensus 79 lvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka~ 158 (327)
T KOG2068|consen 79 LVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKAS 158 (327)
T ss_pred hhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHHh
Confidence 467888887765433 33 3478899999888777551 11 123347999999999999999999998888876655
Q ss_pred e
Q 034004 102 Y 102 (106)
Q Consensus 102 ~ 102 (106)
+
T Consensus 159 ~ 159 (327)
T KOG2068|consen 159 L 159 (327)
T ss_pred h
Confidence 4
No 138
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=94.71 E-value=0.24 Score=34.52 Aligned_cols=69 Identities=20% Similarity=0.234 Sum_probs=56.7
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhccc-CCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeC
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQH-GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLD 94 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~-g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~ 94 (106)
.+.+.|+|-.+|-.++-.++-.|+..+ ..|..++++++. -.++=...|.|.+..+|....+.+||..+.
T Consensus 72 ~~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~--~pnrymvLIkFr~q~da~~Fy~efNGk~Fn 141 (493)
T KOG0804|consen 72 SSSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDG--MPNRYMVLIKFRDQADADTFYEEFNGKQFN 141 (493)
T ss_pred CCCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecC--CCceEEEEEEeccchhHHHHHHHcCCCcCC
Confidence 337789999999999999999999875 458899998853 223445789999999999999999999754
No 139
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=94.64 E-value=0.081 Score=37.69 Aligned_cols=68 Identities=19% Similarity=0.273 Sum_probs=51.6
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcc--cCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCe--eeCCeEEEE
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQ--HGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGL--LLDGRNIRV 100 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~--~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~--~i~~~~i~v 100 (106)
.+.+.++-||..+..++++.+|.. .-++..|++-.+. -=||.|++..+|+.|.+.|..- ++.|+.|..
T Consensus 175 RcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKpImA 246 (684)
T KOG2591|consen 175 RCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKPIMA 246 (684)
T ss_pred eeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence 467788999999999999999975 4567777776664 2489999999999998766433 355655543
No 140
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=93.08 E-value=0.64 Score=30.91 Aligned_cols=60 Identities=17% Similarity=0.396 Sum_probs=44.2
Q ss_pred EEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCe
Q 034004 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGR 96 (106)
Q Consensus 29 l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~ 96 (106)
|.|-++|+.-. ..+...|.++|.|....... + -.+-+|.|.+...|++||. .+|..|+|.
T Consensus 200 VTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~~---n---gNwMhirYssr~~A~KALs-kng~ii~g~ 259 (350)
T KOG4285|consen 200 VTVFGFPPGQV-SIVLNLFSRCGEVVKHVTPS---N---GNWMHIRYSSRTHAQKALS-KNGTIIDGD 259 (350)
T ss_pred EEEeccCccch-hHHHHHHHhhCeeeeeecCC---C---CceEEEEecchhHHHHhhh-hcCeeeccc
Confidence 44557777644 55677899999987654431 2 2367899999999999997 588888874
No 141
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=92.84 E-value=0.7 Score=23.66 Aligned_cols=54 Identities=17% Similarity=0.137 Sum_probs=40.2
Q ss_pred CCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEE
Q 034004 38 TNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRV 100 (106)
Q Consensus 38 ~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v 100 (106)
++-.+++..+..|+... + ..++ + .=||.|.+..+|++|....++..+.+.++.+
T Consensus 12 ~~v~d~K~~Lr~y~~~~-I--~~d~-t-----GfYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 12 VTVEDFKKRLRKYRWDR-I--RDDR-T-----GFYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred ccHHHHHHHHhcCCcce-E--EecC-C-----EEEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 56688999999886432 2 2332 2 2489999999999999999998887776654
No 142
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=92.68 E-value=0.1 Score=38.96 Aligned_cols=73 Identities=19% Similarity=0.250 Sum_probs=59.2
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeee--CCeEEEEEecc
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLL--DGRNIRVNYAH 104 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i--~~~~i~v~~~~ 104 (106)
.+.++.|.+-+.+-..|.-+|..||.+......++. ..|.|.|...+.|-.|+..|+|..+ -|-+.+|.+++
T Consensus 299 p~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak 372 (1007)
T KOG4574|consen 299 PKQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL------NMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAK 372 (1007)
T ss_pred chhhhhcccccchHHHHHHHHHhhcchhhheecccc------cchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecc
Confidence 345666677778888899999999999887666654 4799999999999999999999974 57778888775
Q ss_pred C
Q 034004 105 K 105 (106)
Q Consensus 105 ~ 105 (106)
.
T Consensus 373 ~ 373 (1007)
T KOG4574|consen 373 T 373 (1007)
T ss_pred c
Confidence 3
No 143
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=91.30 E-value=0.15 Score=33.59 Aligned_cols=74 Identities=23% Similarity=0.241 Sum_probs=55.6
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEE
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNI 98 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i 98 (106)
..++.|++++...+.+.+...++..+|................++++.+.|...+.+..++.........+..+
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~ 160 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKG 160 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccc
Confidence 46788999999999888888888888866555444444466788999999999999999998544444444433
No 144
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=91.25 E-value=0.22 Score=36.18 Aligned_cols=68 Identities=21% Similarity=0.367 Sum_probs=54.6
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEE
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRV 100 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v 100 (106)
+...++||+|+-..+..+-+..+....|.|..+.. -.|+|.+|........++..++...++|..+.+
T Consensus 38 ~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr---------~~fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~ 105 (668)
T KOG2253|consen 38 PPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKR---------DKFGFCEFLKHIGDLRASRLLTELNIDDQKLIE 105 (668)
T ss_pred CCCceeEecchhhhhhHHHHHHHHhhCCcchhhhh---------hhhcccchhhHHHHHHHHHHhcccCCCcchhhc
Confidence 44668999999999999999999988887754322 238999999999999999888888887766544
No 145
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=91.09 E-value=0.0024 Score=43.72 Aligned_cols=78 Identities=18% Similarity=0.314 Sum_probs=60.6
Q ss_pred cCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEee-cCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEE
Q 034004 21 SDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVIC-DRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIR 99 (106)
Q Consensus 21 ~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~-~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~ 99 (106)
+.....+.+.+.|+|+....+.+..++..||.+..+..+. ++. .-..-+.|...+.++.++..|+|..+....++
T Consensus 75 ~kkqrsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~e----tavvnvty~~~~~~~~ai~kl~g~Q~en~~~k 150 (584)
T KOG2193|consen 75 PKKQRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSE----TAVVNVTYSAQQQHRQAIHKLNGPQLENQHLK 150 (584)
T ss_pred hHHHHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchH----HHHHHHHHHHHHHHHHHHHhhcchHhhhhhhh
Confidence 3334456789999999999999999999999998875432 221 11234678889999999999999999888877
Q ss_pred EEe
Q 034004 100 VNY 102 (106)
Q Consensus 100 v~~ 102 (106)
+.|
T Consensus 151 ~~Y 153 (584)
T KOG2193|consen 151 VGY 153 (584)
T ss_pred ccc
Confidence 765
No 146
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.81 E-value=1 Score=31.24 Aligned_cols=57 Identities=21% Similarity=0.156 Sum_probs=48.9
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCC-eeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHH
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGE-IIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~-i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~ 87 (106)
+-.+.|-|.++|.....++|...|+.|+. -..|.|+.+. +++..|.+...|..|+..
T Consensus 389 dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 389 DLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALTL 446 (528)
T ss_pred cccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhhc
Confidence 34678889999999999999999999864 5778888886 899999999999999864
No 147
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=90.50 E-value=1.1 Score=29.72 Aligned_cols=46 Identities=20% Similarity=0.216 Sum_probs=35.7
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCC-eeEEEEeecCCCCCccceEEEEeCCH
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGE-IIEVKVICDRVTGQSRGYGFVKFASE 78 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~-i~~~~~~~~~~~~~~~~~~fv~f~~~ 78 (106)
+-++++||+.++.-.+|+..+...+- ..++.|.- +.+-||++|-+.
T Consensus 331 ~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg------~~~k~flh~~~~ 377 (396)
T KOG4410|consen 331 TDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKG------HFGKCFLHFGNR 377 (396)
T ss_pred cceeeccCccccchHHHHHHHHhcCCCceeEeeec------CCcceeEecCCc
Confidence 46999999999999999999988764 45666533 346799999663
No 148
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=80.56 E-value=5.8 Score=20.05 Aligned_cols=19 Identities=32% Similarity=0.401 Sum_probs=15.7
Q ss_pred HHHHHhhcccCCeeEEEEe
Q 034004 41 TVLKDAFGQHGEIIEVKVI 59 (106)
Q Consensus 41 ~~l~~~f~~~g~i~~~~~~ 59 (106)
++||++|+..|.|.-+.+.
T Consensus 9 ~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHhcCcEEEEEEc
Confidence 6899999999999766553
No 149
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=80.20 E-value=1.6 Score=23.73 Aligned_cols=27 Identities=19% Similarity=0.367 Sum_probs=22.2
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHhhc
Q 034004 22 DSNSRTKLFIGGLSYDTNETVLKDAFG 48 (106)
Q Consensus 22 ~~~~~~~l~v~nlp~~~~~~~l~~~f~ 48 (106)
...+.++|-|+|||....+++|++.+.
T Consensus 48 ~~vs~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 48 SGVSKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred EcccCCEEEEeCCCCCCChhhheeeEE
Confidence 445678999999999999999887654
No 150
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=78.25 E-value=0.44 Score=30.31 Aligned_cols=64 Identities=31% Similarity=0.505 Sum_probs=46.0
Q ss_pred ceEEEcC----CCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCe
Q 034004 27 TKLFIGG----LSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGL 91 (106)
Q Consensus 27 ~~l~v~n----lp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~ 91 (106)
.+++-++ |...++.+.+...|+..|.+...++..+. .+.++.++++.+........++..+.+.
T Consensus 81 ~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~qr~~~~P~~~~~y~~l 148 (267)
T KOG4454|consen 81 RTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTYQRLCAVPFALDLYQGL 148 (267)
T ss_pred cccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchhhhhhhcCcHHhhhhccc
Confidence 3444554 56667788888888888988888887776 4667888888887776666666655544
No 151
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=73.85 E-value=0.35 Score=34.60 Aligned_cols=69 Identities=10% Similarity=0.105 Sum_probs=47.6
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeC
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLD 94 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~ 94 (106)
.+.++++|++++++-+.|...+..+..+.++.+..........-...+.|+-.....-|+..||+..+.
T Consensus 231 e~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~ 299 (648)
T KOG2295|consen 231 ECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLR 299 (648)
T ss_pred HHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccc
Confidence 467899999999999999999998877777666444333334445667777544455555566666544
No 152
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=64.92 E-value=11 Score=25.13 Aligned_cols=22 Identities=27% Similarity=0.301 Sum_probs=18.1
Q ss_pred EEEEeCCHHHHHHHHHHhCCee
Q 034004 71 GFVKFASEAAAGEAIKEMDGLL 92 (106)
Q Consensus 71 ~fv~f~~~~~a~~a~~~l~~~~ 92 (106)
|||.|++..+|+.+++.+....
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~ 22 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR 22 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC
Confidence 6999999999999998654443
No 153
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=63.87 E-value=15 Score=22.76 Aligned_cols=63 Identities=22% Similarity=0.327 Sum_probs=41.1
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHH
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~ 86 (106)
.....+++.+++..+....+...|..+|.+....+.............++.+.....+.....
T Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 285 (306)
T COG0724 223 EKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNS 285 (306)
T ss_pred cccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhc
Confidence 445678999999999999999999999999766665554333233333333333334333333
No 154
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=63.23 E-value=26 Score=24.32 Aligned_cols=69 Identities=13% Similarity=0.198 Sum_probs=46.9
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCC-eeEEEEeecCCC--CCccceEEEEeCCHHHHHHHHHHhCCeee
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGE-IIEVKVICDRVT--GQSRGYGFVKFASEAAAGEAIKEMDGLLL 93 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~-i~~~~~~~~~~~--~~~~~~~fv~f~~~~~a~~a~~~l~~~~i 93 (106)
....+.|.+||+..++.++..-..++-. +....+.....+ ..-.+.++|.|....+.......++|+.+
T Consensus 6 ~~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~if 77 (376)
T KOG1295|consen 6 AKVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIF 77 (376)
T ss_pred cceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEE
Confidence 4457888999999999988888777532 222222211111 11245689999999998888888888873
No 155
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=62.32 E-value=15 Score=19.05 Aligned_cols=59 Identities=17% Similarity=0.244 Sum_probs=36.2
Q ss_pred HHHHHhhcccC-CeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 41 TVLKDAFGQHG-EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 41 ~~l~~~f~~~g-~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
++|.+-|...| .+..+.-...+.++.+...-+|+.....+... .|+=..+++.++.|+-
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr 61 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVER 61 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEec
Confidence 35666677776 46677666666566677777777664332221 3444457788888874
No 156
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=61.50 E-value=21 Score=18.27 Aligned_cols=61 Identities=15% Similarity=0.227 Sum_probs=36.2
Q ss_pred HHHHHhhcccC-CeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEEEEEecc
Q 034004 41 TVLKDAFGQHG-EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNIRVNYAH 104 (106)
Q Consensus 41 ~~l~~~f~~~g-~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i~v~~~~ 104 (106)
++|.+-|...| .+..+.-.....++.+...-||+.+...+. .+.|+=..+++..++|+...
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~---k~i~~Ik~l~~~~V~vE~~~ 63 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNN---KEIYKIKTLCGQRVKVERPR 63 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccc---cceeehHhhCCeEEEEecCC
Confidence 34556666655 466665555554666777778887655432 22334445777888887543
No 157
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=59.05 E-value=5.6 Score=27.69 Aligned_cols=60 Identities=18% Similarity=0.209 Sum_probs=45.4
Q ss_pred ceEEEcCCCCCCCH--------HHHHHhhcc--cCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHH
Q 034004 27 TKLFIGGLSYDTNE--------TVLKDAFGQ--HGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86 (106)
Q Consensus 27 ~~l~v~nlp~~~~~--------~~l~~~f~~--~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~ 86 (106)
+.+|+.+....... +++..+|.. .+.+..+...++......+|..|++|.....+++...
T Consensus 175 r~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 175 RDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 45666666655443 488888987 5667777777776677788889999999999998873
No 158
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=58.37 E-value=11 Score=23.47 Aligned_cols=72 Identities=14% Similarity=0.242 Sum_probs=44.5
Q ss_pred CceEEEcCCCCCCCH-----HHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCe-EEE
Q 034004 26 RTKLFIGGLSYDTNE-----TVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGR-NIR 99 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~-----~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~-~i~ 99 (106)
..++.+-+++..+.. .....+|.++.+....++.+. .+..-|.|.++..|..|...+++..+.|. .+.
T Consensus 10 p~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrs------frrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k 83 (193)
T KOG4019|consen 10 PTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRS------FRRVRINFSNPEAAADARIKLHSTSFNGKNELK 83 (193)
T ss_pred cceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHh------hceeEEeccChhHHHHHHHHhhhcccCCCceEE
Confidence 344555555554332 333455666655544444332 23456899999999999999999998876 555
Q ss_pred EEec
Q 034004 100 VNYA 103 (106)
Q Consensus 100 v~~~ 103 (106)
.-++
T Consensus 84 ~yfa 87 (193)
T KOG4019|consen 84 LYFA 87 (193)
T ss_pred EEEc
Confidence 5443
No 159
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=56.75 E-value=23 Score=22.09 Aligned_cols=56 Identities=16% Similarity=0.052 Sum_probs=36.1
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCC--CccceEEEEeCCHHHHHHHHHH
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTG--QSRGYGFVKFASEAAAGEAIKE 87 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~--~~~~~~fv~f~~~~~a~~a~~~ 87 (106)
+++|.. |.....++|-++-+ |++.++....+. .+ ...|..|+.|...+.+.+++..
T Consensus 112 r~v~~K--~td~ql~~l~qw~~--~k~~nv~mr~~~-~k~~~fkGsvkv~f~tk~qa~a~~~~ 169 (205)
T KOG4213|consen 112 RTVYKK--ITDDQLDDLNQWAS--GKGHNVKMRRHG-NKAHPFKGSVKVTFQTKEQAFANDDT 169 (205)
T ss_pred hhhhcc--CCHHHHHHHHHHhc--ccceEeeccccC-CCCCCCCCceEEEeecHHHHHhhhhh
Confidence 455544 32233344444444 788888776554 33 5677889999999999987753
No 160
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=53.14 E-value=14 Score=23.98 Aligned_cols=33 Identities=27% Similarity=0.365 Sum_probs=27.0
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEE
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEV 56 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~ 56 (106)
....++|+-|+|..++++.+.++.++.|-+...
T Consensus 38 ~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 38 NEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred ccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 345679999999999999999999988755443
No 161
>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=49.37 E-value=49 Score=18.86 Aligned_cols=45 Identities=18% Similarity=0.336 Sum_probs=25.7
Q ss_pred CHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCC-HHHHHHHHH
Q 034004 39 NETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS-EAAAGEAIK 86 (106)
Q Consensus 39 ~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~-~~~a~~a~~ 86 (106)
+.+.|.+.|+.|.... +....++ ..+.+++.|.|.. -.-...|+.
T Consensus 30 ~~~~l~~~l~~f~p~k-v~~l~~~--~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 30 SNEELLDKLAEFNPLK-VKPLYGK--QGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp -SHHHHHHHHH---SE-EEEEEET--TEEEEEEEEE--SSHHHHHHHHH
T ss_pred CHHHHHHHHHhcCCce-eEECcCC--CCCcEEEEEEECCChHHHHHHHH
Confidence 4578889998887664 4444554 2478899999974 455555553
No 162
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.97 E-value=1.1e+02 Score=22.83 Aligned_cols=75 Identities=21% Similarity=0.329 Sum_probs=53.5
Q ss_pred CCCCceEEEcCCCCC-CCHHHHHHhhccc----CCeeEEEEeecCC----------CCC---------------------
Q 034004 23 SNSRTKLFIGGLSYD-TNETVLKDAFGQH----GEIIEVKVICDRV----------TGQ--------------------- 66 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~-~~~~~l~~~f~~~----g~i~~~~~~~~~~----------~~~--------------------- 66 (106)
...++.|-|=|+.+. +...+|-.+|.+| |.|..+.|..... .|.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 445677888899997 7778888888765 5677777643210 111
Q ss_pred ----------------ccceEEEEeCCHHHHHHHHHHhCCeeeCCeE
Q 034004 67 ----------------SRGYGFVKFASEAAAGEAIKEMDGLLLDGRN 97 (106)
Q Consensus 67 ----------------~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~ 97 (106)
..=||.|+|.+...|.+......|..+....
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~ 297 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSA 297 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceecccc
Confidence 1126889999999999999999999876543
No 163
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=46.70 E-value=12 Score=20.52 Aligned_cols=36 Identities=17% Similarity=0.308 Sum_probs=24.8
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccC--CeeEEEEee
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHG--EIIEVKVIC 60 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g--~i~~~~~~~ 60 (106)
+.+.+.|.+.+||..+.+++|+- +..| .|..+.+..
T Consensus 20 ~~G~~~i~~~~Lp~~~d~~Sl~V--~~~g~~~i~~v~~~~ 57 (104)
T PF13600_consen 20 PAGENEIIFEGLPPSLDPDSLRV--SGEGGVTILSVRFRR 57 (104)
T ss_pred CCCceEEEEeCCCcccCCCcEEE--EecCCEEEEEEEEEE
Confidence 34667999999999999988863 3333 455554433
No 164
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=46.47 E-value=1.9 Score=29.84 Aligned_cols=62 Identities=13% Similarity=0.125 Sum_probs=45.1
Q ss_pred CceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCee
Q 034004 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLL 92 (106)
Q Consensus 26 ~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~ 92 (106)
.++++|.+|+..+...++-..|..+|.+.+..+... ....+|-+.|........|+. .+|..
T Consensus 151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask----~~s~~c~~sf~~qts~~halr-~~gre 212 (479)
T KOG4676|consen 151 RRTREVQSLISAAILPESGESFERKGEVSYAHTASK----SRSSSCSHSFRKQTSSKHALR-SHGRE 212 (479)
T ss_pred Hhhhhhhcchhhhcchhhhhhhhhcchhhhhhhhcc----CCCcchhhhHhhhhhHHHHHH-hcchh
Confidence 478999999999999999999999998876555332 233456678887777777776 34544
No 165
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=43.94 E-value=68 Score=21.67 Aligned_cols=58 Identities=12% Similarity=0.135 Sum_probs=42.0
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecC-------CCCCccceEEEEeCCHHHHH
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDR-------VTGQSRGYGFVKFASEAAAG 82 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~-------~~~~~~~~~fv~f~~~~~a~ 82 (106)
..+.|.+.|+..+++-..+-..|..||.|..+.+..+. ...+......+.|-+...+-
T Consensus 14 rTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CL 78 (309)
T PF10567_consen 14 RTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICL 78 (309)
T ss_pred eeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHH
Confidence 35668889999999888888889999999999887664 11222345667777766543
No 166
>PF15063 TC1: Thyroid cancer protein 1
Probab=43.64 E-value=14 Score=19.45 Aligned_cols=27 Identities=19% Similarity=0.190 Sum_probs=22.7
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCe
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEI 53 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i 53 (106)
++--+.|+-.+++...|+.+|...|+.
T Consensus 26 RKkasaNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 26 RKKASANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred hhhhhhhhhhccCHHHHHHHHHHccch
Confidence 344567999999999999999998865
No 167
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.06 E-value=3.1 Score=29.35 Aligned_cols=50 Identities=8% Similarity=-0.207 Sum_probs=36.3
Q ss_pred eEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCC
Q 034004 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFAS 77 (106)
Q Consensus 28 ~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~ 77 (106)
..++.-+|-..+++++...|..||-|..+.....-..+.....+|++...
T Consensus 5 ~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~ 54 (572)
T KOG4365|consen 5 KKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK 54 (572)
T ss_pred hhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec
Confidence 34566788888999999999999988777665554455556667776553
No 168
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=40.87 E-value=40 Score=22.63 Aligned_cols=72 Identities=21% Similarity=0.422 Sum_probs=44.7
Q ss_pred cCCCCCceEEEcCCCC------------CCCHHHHHHhhcccCCeeEEEEeecC-----CCCCcc-----ce--------
Q 034004 21 SDSNSRTKLFIGGLSY------------DTNETVLKDAFGQHGEIIEVKVICDR-----VTGQSR-----GY-------- 70 (106)
Q Consensus 21 ~~~~~~~~l~v~nlp~------------~~~~~~l~~~f~~~g~i~~~~~~~~~-----~~~~~~-----~~-------- 70 (106)
.+...+.|+++.+||- ..+++.|+..|..||.|..+.++-.. -+|+.. ||
T Consensus 144 kpgerpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlff 223 (445)
T KOG2891|consen 144 KPGERPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFF 223 (445)
T ss_pred CCCCCCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhH
Confidence 3445566788887764 25678899999999999887765322 122222 22
Q ss_pred -EEEEeCCHHHHHHHHHHhCCee
Q 034004 71 -GFVKFASEAAAGEAIKEMDGLL 92 (106)
Q Consensus 71 -~fv~f~~~~~a~~a~~~l~~~~ 92 (106)
|||+|........|+..|.|..
T Consensus 224 eayvqfmeykgfa~amdalr~~k 246 (445)
T KOG2891|consen 224 EAYVQFMEYKGFAQAMDALRGMK 246 (445)
T ss_pred HHHHHHHHHHhHHHHHHHHhcch
Confidence 3355555555666776676653
No 169
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=37.61 E-value=7.6 Score=26.48 Aligned_cols=47 Identities=15% Similarity=0.174 Sum_probs=33.1
Q ss_pred HHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCe
Q 034004 41 TVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGL 91 (106)
Q Consensus 41 ~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~ 91 (106)
..+.+++.+.|.+..-.+.+-. +.|.+|+..-..++++++++.|.+.
T Consensus 276 p~iF~~i~~~G~v~~~EM~rtF----NmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 276 PPIFKWLQKAGNVEREEMYRTF----NMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred cHHHHHHHHhcCCCHHHHHHHh----cCccceEEEEcHHHHHHHHHHHHhc
Confidence 4556666677766554444433 5678899898999999999888764
No 170
>PRK10905 cell division protein DamX; Validated
Probab=35.15 E-value=1.3e+02 Score=20.65 Aligned_cols=62 Identities=19% Similarity=0.059 Sum_probs=36.8
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCc-cceEEEEeCCHHHHHHHHHHhCC
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQS-RGYGFVKFASEAAAGEAIKEMDG 90 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~-~~~~fv~f~~~~~a~~a~~~l~~ 90 (106)
...+|.|..+. +.+.++.|..+.|. ....+.....+|+. .-.-+-.|.+.++|.+|+..|-.
T Consensus 246 ~~YTLQL~A~S---s~~~l~~fakKlgL-~~y~vy~TtRnGkpWYVV~yG~YaSraeAk~AiakLPa 308 (328)
T PRK10905 246 SHYTLQLSSSS---NYDNLNGWAKKENL-KNYVVYETTRNGQPWYVLVSGVYASKEEAKRAVSTLPA 308 (328)
T ss_pred CceEEEEEecC---CHHHHHHHHHHcCC-CceEEEEeccCCceEEEEEecCCCCHHHHHHHHHHCCH
Confidence 34566665554 45677777776653 22223233224431 22335689999999999988754
No 171
>PRK11901 hypothetical protein; Reviewed
Probab=32.92 E-value=1.7e+02 Score=20.19 Aligned_cols=63 Identities=19% Similarity=0.171 Sum_probs=39.3
Q ss_pred CCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceE--EEEeCCHHHHHHHHHHhCCe
Q 034004 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYG--FVKFASEAAAGEAIKEMDGL 91 (106)
Q Consensus 24 ~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~--fv~f~~~~~a~~a~~~l~~~ 91 (106)
....+|.+..+ ..++.|..|....+ +..+.+.....+|+ .+|. +-.|.+.+.|..|+..|-..
T Consensus 243 ~~~YTLQL~Aa---s~~~~L~~f~~~~~-L~~~~VYqT~RnGk-pWYVVvyG~Y~Sr~eAk~Ai~sLPa~ 307 (327)
T PRK11901 243 ASHYTLQLSSA---SRSDTLNAYAKKQN-LSHYHVYETKRDGK-PWYVLVSGNYASSAEAKRAIATLPAE 307 (327)
T ss_pred CCCeEEEeecC---CCHHHHHHHHHHcC-cCceEEEEEEECCc-eEEEEEecCcCCHHHHHHHHHhCCHH
Confidence 44556766554 44777888877664 33333333332333 3344 55899999999999988543
No 172
>PF02946 GTF2I: GTF2I-like repeat; InterPro: IPR004212 This region of sequence similarity is found up to six times in a variety of proteins including general transcription factor II-I (GTF2I). It has been suggested that this may be a DNA binding domain [, ].; PDB: 2E3L_A 2D99_A 2DN4_A 2D9B_A 2EJE_A 1Q60_A 2DZR_A 2DN5_A 2DZQ_A 2ED2_A.
Probab=32.06 E-value=85 Score=16.60 Aligned_cols=28 Identities=14% Similarity=0.227 Sum_probs=14.3
Q ss_pred ceEEEcCCCCCCC--------HHHHHHhhcccCCee
Q 034004 27 TKLFIGGLSYDTN--------ETVLKDAFGQHGEII 54 (106)
Q Consensus 27 ~~l~v~nlp~~~~--------~~~l~~~f~~~g~i~ 54 (106)
..|+|.+||..+. ...|+.++..-..|.
T Consensus 35 ~~v~V~GLPegi~fr~P~~Y~i~~L~~IL~~~~~I~ 70 (76)
T PF02946_consen 35 EAVYVQGLPEGIPFRRPSNYGIPRLEKILEASSRIR 70 (76)
T ss_dssp TTEEEES--TT--SS-TTTS-HHHHHHHHHTTTT-E
T ss_pred CcEEEEeCCCCCcCCCCCcCCHHHHHHHHHccCCcE
Confidence 3589999988664 455555555444444
No 173
>PF12623 Hen1_L: RNA repair, ligase-Pnkp-associating, region of Hen1; InterPro: IPR024740 This entry represents the N-terminal domain of the bacterial Hen1 protein, which is a 3' terminal RNA ribose 2'-O-methyltransferase that is involved in bacterial RNA repair []. Hen1 forms a heterotetramer with Pnkp. The heterotetramer has been shown to repair transfer RNAs cleaved by ribotoxins in vitro []. The N-terminal domain of Hen1 contributes to the ligase activity of the heterotetramer.
Probab=30.42 E-value=1.6e+02 Score=19.27 Aligned_cols=65 Identities=17% Similarity=0.230 Sum_probs=43.0
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHhhcccCCeeE-EEEeecC---CCCCccceEEEEeCCHHHHHHHHHHh
Q 034004 23 SNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIE-VKVICDR---VTGQSRGYGFVKFASEAAAGEAIKEM 88 (106)
Q Consensus 23 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~-~~~~~~~---~~~~~~~~~fv~f~~~~~a~~a~~~l 88 (106)
..-+-++.|.-+|-.-.++-++++|++.|--.. -.+..+. ..|.++ |..+........+.++..|
T Consensus 115 ~~~pL~v~~p~lp~rGg~~l~~rLFePLGw~V~a~~~~Ld~~fP~WG~S~-y~~l~L~g~~rl~daL~HL 183 (245)
T PF12623_consen 115 TPIPLEVRLPALPCRGGEELVRRLFEPLGWTVTAEPVPLDEQFPEWGDSR-YVDLTLTGTVRLADALNHL 183 (245)
T ss_pred CCCceEEEeeeeecCCcHHHHHHhhcCcCceEEeEeccCCccCccccCCc-ceEEEEeeeEEHHHHHhhh
Confidence 334557888889988889999999999885433 3444443 234444 5666666666666666654
No 174
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=30.14 E-value=1.4e+02 Score=21.58 Aligned_cols=59 Identities=19% Similarity=0.189 Sum_probs=41.0
Q ss_pred EEcCCCCCCC---HHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHHHhCCeeeCCeEE
Q 034004 30 FIGGLSYDTN---ETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLLLDGRNI 98 (106)
Q Consensus 30 ~v~nlp~~~~---~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~~i 98 (106)
.|+||+.-.. ...+.++-.+||.+-.+.+-.. -.|...+.+.|+.++.. ++..+.+++.
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~~---------~~Vviss~~~akE~l~~-~d~~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGSV---------PVVVISSYEAAKEVLVK-QDLEFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecCc---------eEEEECCHHHHHHHHHh-CCccccCCCC
Confidence 4778766533 4666676678999987666222 36788889999998874 5666776654
No 175
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=28.51 E-value=1.3e+02 Score=17.74 Aligned_cols=26 Identities=31% Similarity=0.363 Sum_probs=17.8
Q ss_pred CCccceEEEEeCCHHHHHHHHHHhCC
Q 034004 65 GQSRGYGFVKFASEAAAGEAIKEMDG 90 (106)
Q Consensus 65 ~~~~~~~fv~f~~~~~a~~a~~~l~~ 90 (106)
..+.|...+-|.+.++|++......|
T Consensus 111 ~~pMg~~~~aF~~~~~A~~F~~~~GG 136 (149)
T PF05573_consen 111 RGPMGPDLIAFASKEDAEAFAKEHGG 136 (149)
T ss_dssp S-TTS--EEEES-HHHHHHHHHHTEE
T ss_pred CCCCCCcccccCCHHHHHHHHHHcCC
Confidence 34567889999999999999987543
No 176
>PF03439 Spt5-NGN: Early transcription elongation factor of RNA pol II, NGN section; InterPro: IPR005100 Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4 []. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit []. ; PDB: 3H7H_B 3QQC_D 3P8B_B 2EXU_A.
Probab=27.44 E-value=1.1e+02 Score=16.21 Aligned_cols=26 Identities=27% Similarity=0.442 Sum_probs=21.7
Q ss_pred ccceEEEEeCCHHHHHHHHHHhCCee
Q 034004 67 SRGYGFVKFASEAAAGEAIKEMDGLL 92 (106)
Q Consensus 67 ~~~~~fv~f~~~~~a~~a~~~l~~~~ 92 (106)
.+||-||+=.+..++..|+..+.+..
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred CceEEEEEeCCHHHHHHHHhccccee
Confidence 67999999999999999998776554
No 177
>TIGR02542 B_forsyth_147 Bacteroides forsythus 147-residue repeat. The longest predicted protein in Bacteroides forsythus ATCC 43037 is over 3000 residues long and lacks homology to other known proteins. Immediately after the signal sequence are four tandem repeats, approximately 147 residues long. This model describes that repeat. This model describes that repeat.
Probab=26.24 E-value=81 Score=18.24 Aligned_cols=23 Identities=39% Similarity=0.384 Sum_probs=18.1
Q ss_pred CCCCCCHHHHHHhhcccCCeeEEEE
Q 034004 34 LSYDTNETVLKDAFGQHGEIIEVKV 58 (106)
Q Consensus 34 lp~~~~~~~l~~~f~~~g~i~~~~~ 58 (106)
||+.++ .|.+.|++.|+|..+-.
T Consensus 11 lPPYTn--KLSDYfeSPGKI~svIt 33 (145)
T TIGR02542 11 LPPYTN--KLSDYFESPGKIQSVIT 33 (145)
T ss_pred cCCccc--hhhHHhcCCCceEEEEE
Confidence 788765 67899999999977643
No 178
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=25.83 E-value=1.2e+02 Score=23.27 Aligned_cols=31 Identities=23% Similarity=0.160 Sum_probs=23.2
Q ss_pred CccceEEEEeCCHHHHHHHHHHhCCeeeCCe
Q 034004 66 QSRGYGFVKFASEAAAGEAIKEMDGLLLDGR 96 (106)
Q Consensus 66 ~~~~~~fv~f~~~~~a~~a~~~l~~~~i~~~ 96 (106)
+..+.|||.|.+...|+.|.+..+.......
T Consensus 303 ~~~~~aFVtf~sr~~A~~~aq~~~~~~~~~w 333 (728)
T KOG1134|consen 303 KPLPAAFVTFKSRYGAAVAAQTQQSLNPTKW 333 (728)
T ss_pred CCCceEEEEEEeeHHHHHHHHhhhcCCCCce
Confidence 4567899999999999999986544444333
No 179
>PHA01632 hypothetical protein
Probab=25.65 E-value=77 Score=15.67 Aligned_cols=20 Identities=15% Similarity=0.278 Sum_probs=16.0
Q ss_pred EEcCCCCCCCHHHHHHhhcc
Q 034004 30 FIGGLSYDTNETVLKDAFGQ 49 (106)
Q Consensus 30 ~v~nlp~~~~~~~l~~~f~~ 49 (106)
.|...|...++++|+..+.+
T Consensus 20 lieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 20 LIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred ehhhcCCCCCHHHHHHHHHH
Confidence 34688999999999987653
No 180
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=24.22 E-value=91 Score=23.53 Aligned_cols=62 Identities=19% Similarity=0.213 Sum_probs=45.7
Q ss_pred CCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeecCCCCCccceEEEEeCCHHHHHHHHH
Q 034004 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86 (106)
Q Consensus 25 ~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~ 86 (106)
...+|++.+-....+...+...+...+.+....++.....+....-++++|..+..+..|..
T Consensus 510 s~p~i~~~~~~~~s~~~s~s~~s~~~~~ltk~k~l~~Cky~~~Ct~a~Ce~~HPtaa~~~~s 571 (681)
T KOG3702|consen 510 SQPTIFVANGHGGSNPDSLSRHSEKKNELTKAKILTRCKYGPACTSAECEFAHPTAAENAKS 571 (681)
T ss_pred CCCceecccccccCCCcchhhCcccccccccceeeccccCCCcCCchhhhhcCCcchhhhhc
Confidence 33477887777777777778888778877777666666566666678999999888866543
No 181
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=24.17 E-value=1.4e+02 Score=19.81 Aligned_cols=26 Identities=12% Similarity=0.178 Sum_probs=20.6
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCC
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGE 52 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~ 52 (106)
....|+|||.+++..-+..++...-.
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~ 121 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFI 121 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCc
Confidence 45678999999999998888865433
No 182
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=24.10 E-value=93 Score=14.47 Aligned_cols=27 Identities=19% Similarity=0.165 Sum_probs=20.8
Q ss_pred ceEEEcCCCCCCCHHHHHHhhcccCCe
Q 034004 27 TKLFIGGLSYDTNETVLKDAFGQHGEI 53 (106)
Q Consensus 27 ~~l~v~nlp~~~~~~~l~~~f~~~g~i 53 (106)
..+++.+.........|.+++..+|.-
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 356777776677889999999988764
No 183
>PHA01782 hypothetical protein
Probab=23.90 E-value=54 Score=20.09 Aligned_cols=24 Identities=8% Similarity=0.207 Sum_probs=20.9
Q ss_pred EcCCCCCCCHHHHHHhhcccCCee
Q 034004 31 IGGLSYDTNETVLKDAFGQHGEII 54 (106)
Q Consensus 31 v~nlp~~~~~~~l~~~f~~~g~i~ 54 (106)
+..+|.......|.++|..||++.
T Consensus 60 ~~aMPKGsRrnAL~~wlv~~Gkv~ 83 (177)
T PHA01782 60 YEAMPKGSRRNALAEWLVKFGKVQ 83 (177)
T ss_pred HHHccccchhhHHHHHHHHhCCcc
Confidence 346899999999999999999874
No 184
>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]
Probab=23.00 E-value=3.2e+02 Score=20.61 Aligned_cols=42 Identities=12% Similarity=0.166 Sum_probs=30.2
Q ss_pred ccCCCCCceEEEcCCCCCCCHHHHHHhhcccCCeeEEEEeec
Q 034004 20 LSDSNSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICD 61 (106)
Q Consensus 20 ~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~g~i~~~~~~~~ 61 (106)
-++.....++|+.+|..+..++.=.++....-....+.+.+.
T Consensus 295 EPEGl~~~evY~nGlSTSlP~dVQ~~~irsipGlEna~i~rp 336 (621)
T COG0445 295 EPEGLDTDEVYPNGLSTSLPEDVQEQIIRSIPGLENAEILRP 336 (621)
T ss_pred cCCCCCCceEecCcccccCCHHHHHHHHHhCcccccceeecc
Confidence 344455678999999888888776777777666777766554
No 185
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=22.04 E-value=1.1e+02 Score=17.09 Aligned_cols=29 Identities=17% Similarity=0.151 Sum_probs=23.0
Q ss_pred EeCCHHHHHHHHHHhCCeeeCCeEEEEEe
Q 034004 74 KFASEAAAGEAIKEMDGLLLDGRNIRVNY 102 (106)
Q Consensus 74 ~f~~~~~a~~a~~~l~~~~i~~~~i~v~~ 102 (106)
.|.-.+.|.+..+.|....|.|..|+++-
T Consensus 18 ~~qC~~cA~Al~~~L~~~gI~Gk~i~l~T 46 (100)
T PF15643_consen 18 IFQCVECASALKQFLKQAGIPGKIIRLYT 46 (100)
T ss_pred ceehHHHHHHHHHHHHHCCCCceEEEEEe
Confidence 45556777777788888889999998874
No 186
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=21.78 E-value=1.4e+02 Score=17.21 Aligned_cols=30 Identities=37% Similarity=0.355 Sum_probs=23.4
Q ss_pred EEEcCCCCC-CCHHHHHHhhcccCCeeEEEE
Q 034004 29 LFIGGLSYD-TNETVLKDAFGQHGEIIEVKV 58 (106)
Q Consensus 29 l~v~nlp~~-~~~~~l~~~f~~~g~i~~~~~ 58 (106)
|.|.|||.. .+++.++.+.+..|.+..+..
T Consensus 107 Vri~glP~~~~~~~~~~~i~~~iG~~i~vD~ 137 (153)
T PF14111_consen 107 VRIYGLPLHLWSEEILKAIGSKIGEPIEVDE 137 (153)
T ss_pred hhhccCCHHHhhhHHHHHHHHhcCCeEEEEc
Confidence 556799998 566788888888999887654
No 187
>PF13773 DUF4170: Domain of unknown function (DUF4170)
Probab=21.67 E-value=1.2e+02 Score=15.74 Aligned_cols=26 Identities=19% Similarity=0.083 Sum_probs=20.3
Q ss_pred EEEeCCHHHHHHHHHHhCCeeeCCeE
Q 034004 72 FVKFASEAAAGEAIKEMDGLLLDGRN 97 (106)
Q Consensus 72 fv~f~~~~~a~~a~~~l~~~~i~~~~ 97 (106)
.--|.+.+.|.+|++..-+..+++.-
T Consensus 29 VG~fp~y~~A~~aWrakAq~TVDnA~ 54 (69)
T PF13773_consen 29 VGIFPDYASAYAAWRAKAQRTVDNAH 54 (69)
T ss_pred EecCCChHHHHHHHHHHHhCchhcce
Confidence 34688889999999988777777643
No 188
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=20.09 E-value=1.4e+02 Score=15.17 Aligned_cols=33 Identities=27% Similarity=0.349 Sum_probs=21.3
Q ss_pred CHHHHHHhhcccCCeeEEEEeecCCCCCccceEEE
Q 034004 39 NETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFV 73 (106)
Q Consensus 39 ~~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~~~fv 73 (106)
-+..|.+.|-+...+..+.+...+.- .+|-|||
T Consensus 31 ~e~eler~fl~~P~v~e~~l~EKKri--~~G~gyV 63 (64)
T PF13046_consen 31 VEVELERHFLPLPEVKEVALYEKKRI--RKGAGYV 63 (64)
T ss_pred HHHHhhhhccCCCCceEEEEEEEEee--eCCceeE
Confidence 35667777877778888888766533 3344454
Done!