Query 036554
Match_columns 105
No_of_seqs 122 out of 1420
Neff 10.1
Searched_HMMs 46136
Date Fri Mar 29 03:09:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036554.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036554hhsearch_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 99.8 1.3E-19 2.9E-24 107.5 12.2 78 27-104 29-112 (144)
2 TIGR01659 sex-lethal sex-letha 99.8 6.5E-18 1.4E-22 112.5 11.2 78 28-105 103-186 (346)
3 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 1.1E-17 2.4E-22 111.5 11.5 74 31-104 268-347 (352)
4 KOG0122 Translation initiation 99.8 1.5E-17 3.2E-22 103.9 11.2 77 29-105 186-268 (270)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 1.4E-17 2.9E-22 111.1 9.8 75 31-105 2-82 (352)
6 PF00076 RRM_1: RNA recognitio 99.7 3.6E-17 7.7E-22 85.7 7.5 65 35-99 1-70 (70)
7 KOG0148 Apoptosis-promoting RN 99.7 9.6E-17 2.1E-21 101.7 10.5 78 28-105 160-237 (321)
8 KOG0121 Nuclear cap-binding pr 99.7 3.2E-17 7E-22 93.6 6.8 75 29-103 33-113 (153)
9 PLN03120 nucleic acid binding 99.7 2.4E-16 5.1E-21 100.3 10.2 72 32-104 4-78 (260)
10 KOG0107 Alternative splicing f 99.7 1.2E-16 2.5E-21 95.6 7.7 73 32-104 10-83 (195)
11 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.7 2.3E-16 5E-21 109.2 10.4 74 31-104 1-76 (481)
12 PF14259 RRM_6: RNA recognitio 99.7 7.7E-16 1.7E-20 80.9 8.0 65 35-99 1-70 (70)
13 PLN03213 repressor of silencin 99.7 5.3E-16 1.2E-20 105.5 9.0 75 31-105 9-87 (759)
14 TIGR01648 hnRNP-R-Q heterogene 99.7 1E-15 2.2E-20 107.2 10.4 73 31-105 232-306 (578)
15 TIGR01659 sex-lethal sex-letha 99.7 1.2E-15 2.6E-20 101.7 10.3 75 31-105 192-274 (346)
16 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.7 1.6E-15 3.5E-20 105.0 10.8 76 29-104 272-349 (481)
17 KOG0111 Cyclophilin-type pepti 99.6 1.7E-16 3.7E-21 98.2 4.1 76 30-105 8-89 (298)
18 TIGR01622 SF-CC1 splicing fact 99.6 2.7E-15 5.9E-20 103.1 10.2 74 31-104 185-264 (457)
19 smart00362 RRM_2 RNA recogniti 99.6 6.3E-15 1.4E-19 76.7 8.9 68 34-101 1-72 (72)
20 KOG0125 Ataxin 2-binding prote 99.6 2E-15 4.3E-20 97.9 8.0 73 32-104 96-172 (376)
21 TIGR01645 half-pint poly-U bin 99.6 4.7E-15 1E-19 104.2 10.4 74 31-104 203-282 (612)
22 KOG0114 Predicted RNA-binding 99.6 8.5E-15 1.8E-19 81.0 9.2 77 28-104 14-93 (124)
23 TIGR01645 half-pint poly-U bin 99.6 2.9E-15 6.3E-20 105.3 9.1 73 31-103 106-184 (612)
24 TIGR01642 U2AF_lg U2 snRNP aux 99.6 1E-14 2.2E-19 101.4 11.0 75 30-104 293-373 (509)
25 PLN03121 nucleic acid binding 99.6 8.2E-15 1.8E-19 92.2 9.5 72 30-102 3-77 (243)
26 KOG0105 Alternative splicing f 99.6 2.5E-15 5.4E-20 91.0 6.7 74 31-104 5-81 (241)
27 TIGR01628 PABP-1234 polyadenyl 99.6 6.1E-15 1.3E-19 103.7 9.8 71 34-104 2-78 (562)
28 TIGR01628 PABP-1234 polyadenyl 99.6 1.1E-14 2.3E-19 102.5 10.5 75 30-104 283-362 (562)
29 KOG0145 RNA-binding protein EL 99.6 2.3E-14 5E-19 90.9 10.4 77 29-105 38-120 (360)
30 TIGR01622 SF-CC1 splicing fact 99.6 3.8E-14 8.2E-19 97.5 12.3 74 30-104 87-166 (457)
31 PF13893 RRM_5: RNA recognitio 99.6 2.1E-14 4.6E-19 72.4 8.2 55 49-103 1-56 (56)
32 KOG0149 Predicted RNA-binding 99.6 4.6E-15 1E-19 92.4 6.8 72 31-103 11-88 (247)
33 KOG4207 Predicted splicing fac 99.6 5.9E-15 1.3E-19 90.6 7.1 76 29-104 10-91 (256)
34 KOG0113 U1 small nuclear ribon 99.6 2.7E-14 6E-19 91.6 9.8 78 26-103 95-178 (335)
35 KOG0130 RNA-binding protein RB 99.6 5E-15 1.1E-19 85.5 5.8 75 29-103 69-149 (170)
36 KOG0117 Heterogeneous nuclear 99.6 1.1E-14 2.3E-19 97.7 8.0 74 30-105 257-330 (506)
37 TIGR01648 hnRNP-R-Q heterogene 99.6 4.5E-14 9.8E-19 99.0 10.9 73 31-103 57-135 (578)
38 KOG0117 Heterogeneous nuclear 99.6 6.7E-14 1.4E-18 94.0 10.6 76 28-103 79-161 (506)
39 cd00590 RRM RRM (RNA recogniti 99.6 1.1E-13 2.4E-18 72.3 9.2 69 34-102 1-74 (74)
40 KOG0153 Predicted RNA-binding 99.5 3.2E-14 7E-19 92.8 8.0 78 28-105 224-302 (377)
41 KOG0132 RNA polymerase II C-te 99.5 1.1E-13 2.3E-18 98.0 10.3 73 32-104 421-493 (894)
42 KOG4206 Spliceosomal protein s 99.5 1.1E-13 2.3E-18 85.9 8.2 77 29-105 6-89 (221)
43 COG0724 RNA-binding proteins ( 99.5 2.5E-13 5.4E-18 86.6 9.5 73 32-104 115-193 (306)
44 KOG0148 Apoptosis-promoting RN 99.5 1.2E-13 2.5E-18 87.9 7.6 72 32-103 62-139 (321)
45 KOG0109 RNA-binding protein LA 99.5 3.8E-14 8.2E-19 90.9 5.4 70 33-104 3-72 (346)
46 TIGR01642 U2AF_lg U2 snRNP aux 99.5 1.5E-13 3.3E-18 95.6 8.9 71 31-102 174-256 (509)
47 KOG0144 RNA-binding protein CU 99.5 3.5E-14 7.6E-19 95.0 5.3 76 30-105 122-205 (510)
48 smart00360 RRM RNA recognition 99.5 3.3E-13 7.1E-18 69.9 7.8 65 37-101 1-71 (71)
49 KOG0131 Splicing factor 3b, su 99.5 1.4E-13 3E-18 83.1 7.0 73 31-103 8-86 (203)
50 KOG0127 Nucleolar protein fibr 99.5 2E-13 4.2E-18 93.8 8.0 72 32-103 117-193 (678)
51 KOG0126 Predicted RNA-binding 99.5 5.1E-15 1.1E-19 89.3 -0.4 72 31-102 34-111 (219)
52 KOG0108 mRNA cleavage and poly 99.5 3.7E-13 8E-18 91.7 7.9 72 33-104 19-96 (435)
53 KOG0144 RNA-binding protein CU 99.4 1E-12 2.2E-17 88.1 8.9 75 30-104 32-115 (510)
54 KOG0145 RNA-binding protein EL 99.4 3.8E-12 8.3E-17 80.9 9.5 73 31-103 277-355 (360)
55 KOG0124 Polypyrimidine tract-b 99.4 7.1E-13 1.5E-17 87.6 4.6 70 33-102 114-189 (544)
56 KOG4212 RNA-binding protein hn 99.4 1.1E-11 2.5E-16 83.5 9.9 71 32-102 44-120 (608)
57 KOG4212 RNA-binding protein hn 99.3 1.7E-11 3.8E-16 82.7 8.1 76 28-103 532-608 (608)
58 KOG0415 Predicted peptidyl pro 99.3 9.8E-12 2.1E-16 81.9 6.6 77 28-104 235-317 (479)
59 KOG0109 RNA-binding protein LA 99.3 1E-11 2.2E-16 79.9 5.2 73 29-103 75-147 (346)
60 KOG0127 Nucleolar protein fibr 99.2 2.8E-11 6.1E-16 83.4 7.1 73 33-105 6-84 (678)
61 KOG0146 RNA-binding protein ET 99.2 3.1E-11 6.7E-16 77.1 6.7 73 31-103 18-98 (371)
62 KOG0147 Transcriptional coacti 99.2 2E-11 4.3E-16 83.8 5.9 70 33-102 279-354 (549)
63 KOG4661 Hsp27-ERE-TATA-binding 99.2 8.5E-11 1.8E-15 81.8 9.0 74 31-104 404-483 (940)
64 smart00361 RRM_1 RNA recogniti 99.2 1.1E-10 2.3E-15 61.4 7.2 56 46-101 2-70 (70)
65 KOG0151 Predicted splicing reg 99.2 8.1E-11 1.8E-15 83.2 8.5 79 27-105 169-256 (877)
66 KOG0131 Splicing factor 3b, su 99.2 3E-11 6.4E-16 73.1 5.3 75 30-104 94-175 (203)
67 KOG0146 RNA-binding protein ET 99.2 3.6E-11 7.7E-16 76.8 5.3 78 28-105 281-364 (371)
68 KOG0110 RNA-binding protein (R 99.2 5.1E-11 1.1E-15 83.9 5.2 76 29-104 610-691 (725)
69 KOG0110 RNA-binding protein (R 99.1 2.4E-10 5.3E-15 80.6 7.7 71 34-104 517-596 (725)
70 KOG1457 RNA binding protein (c 99.1 6.2E-10 1.4E-14 69.5 8.2 74 32-105 34-117 (284)
71 KOG0123 Polyadenylate-binding 99.1 5.9E-10 1.3E-14 75.2 8.2 69 34-103 78-150 (369)
72 KOG0533 RRM motif-containing p 99.0 3.7E-09 8.1E-14 67.4 8.6 74 30-103 81-159 (243)
73 KOG0106 Alternative splicing f 99.0 5.1E-10 1.1E-14 70.0 4.0 70 33-104 2-71 (216)
74 KOG0124 Polypyrimidine tract-b 99.0 1.9E-09 4E-14 71.8 6.4 69 33-101 211-285 (544)
75 KOG0123 Polyadenylate-binding 99.0 3.3E-09 7.2E-14 71.6 7.8 69 33-104 2-73 (369)
76 KOG1190 Polypyrimidine tract-b 98.9 9.8E-09 2.1E-13 69.0 8.2 73 32-104 297-371 (492)
77 KOG4208 Nucleolar RNA-binding 98.9 1.4E-08 2.9E-13 62.7 8.2 76 28-103 45-127 (214)
78 KOG0116 RasGAP SH3 binding pro 98.9 5.1E-09 1.1E-13 71.4 6.7 72 32-104 288-365 (419)
79 KOG4660 Protein Mei2, essentia 98.9 2.1E-09 4.6E-14 74.2 4.5 71 29-99 72-143 (549)
80 KOG1548 Transcription elongati 98.9 2.9E-08 6.3E-13 65.5 9.5 75 30-104 132-219 (382)
81 KOG1456 Heterogeneous nuclear 98.8 1.7E-07 3.6E-12 62.7 11.3 78 27-104 282-361 (494)
82 KOG1456 Heterogeneous nuclear 98.8 4.6E-08 1E-12 65.3 8.6 75 31-105 119-198 (494)
83 KOG4454 RNA binding protein (R 98.8 2.3E-09 5E-14 66.8 2.3 74 29-102 6-83 (267)
84 KOG4206 Spliceosomal protein s 98.8 6.5E-08 1.4E-12 60.5 8.1 78 28-105 142-221 (221)
85 KOG4205 RNA-binding protein mu 98.8 7.8E-09 1.7E-13 68.2 4.2 70 31-101 5-80 (311)
86 PF04059 RRM_2: RNA recognitio 98.8 2.2E-07 4.9E-12 51.6 8.8 72 33-104 2-85 (97)
87 KOG4209 Splicing factor RNPS1, 98.7 6.4E-08 1.4E-12 61.6 5.8 74 29-103 98-177 (231)
88 PF11608 Limkain-b1: Limkain b 98.7 5.1E-07 1.1E-11 48.5 8.0 67 33-103 3-74 (90)
89 KOG4205 RNA-binding protein mu 98.6 6.7E-08 1.5E-12 63.8 5.1 73 31-104 96-174 (311)
90 PF08777 RRM_3: RNA binding mo 98.6 3.1E-07 6.7E-12 51.9 7.0 68 33-100 2-74 (105)
91 KOG1190 Polypyrimidine tract-b 98.6 8.6E-08 1.9E-12 64.6 4.6 77 27-103 23-101 (492)
92 KOG0106 Alternative splicing f 98.5 2.1E-07 4.6E-12 58.4 4.7 72 29-102 96-167 (216)
93 KOG1457 RNA binding protein (c 98.5 1.8E-07 3.9E-12 58.8 4.1 62 33-94 211-274 (284)
94 KOG4211 Splicing factor hnRNP- 98.5 1.4E-06 3.1E-11 59.9 8.0 70 30-101 8-81 (510)
95 KOG1995 Conserved Zn-finger pr 98.4 1.5E-06 3.3E-11 57.7 6.6 76 29-104 63-152 (351)
96 KOG0105 Alternative splicing f 98.3 3.2E-05 7E-10 47.6 10.3 63 31-94 114-176 (241)
97 PF14605 Nup35_RRM_2: Nup53/35 98.3 4.5E-06 9.7E-11 41.4 5.3 52 33-85 2-53 (53)
98 COG5175 MOT2 Transcriptional r 98.3 4.9E-06 1.1E-10 55.3 6.8 72 32-103 114-200 (480)
99 KOG0226 RNA-binding proteins [ 98.2 2.1E-06 4.7E-11 54.8 4.4 71 31-101 189-265 (290)
100 KOG2416 Acinus (induces apopto 98.2 2.2E-06 4.8E-11 60.4 4.3 77 28-104 440-520 (718)
101 KOG0120 Splicing factor U2AF, 98.1 3.9E-06 8.4E-11 58.5 4.6 72 32-103 289-366 (500)
102 KOG0112 Large RNA-binding prot 98.1 6E-06 1.3E-10 60.5 5.0 78 28-105 451-530 (975)
103 KOG1548 Transcription elongati 98.1 2.4E-05 5.2E-10 52.0 7.3 74 29-102 262-348 (382)
104 KOG4211 Splicing factor hnRNP- 98.1 2.2E-05 4.7E-10 54.3 7.0 70 31-101 102-177 (510)
105 KOG0147 Transcriptional coacti 98.0 2.1E-05 4.5E-10 54.9 6.3 74 29-102 440-524 (549)
106 PF05172 Nup35_RRM: Nup53/35/4 98.0 5E-05 1.1E-09 42.5 6.7 70 32-103 6-89 (100)
107 KOG4307 RNA binding protein RB 98.0 0.00015 3.2E-09 52.5 10.2 70 33-102 868-943 (944)
108 KOG0120 Splicing factor U2AF, 97.9 4.8E-05 1E-09 53.3 6.9 76 28-103 395-489 (500)
109 KOG1855 Predicted RNA-binding 97.9 1.4E-05 3E-10 54.5 3.2 62 30-91 229-309 (484)
110 KOG3152 TBP-binding protein, a 97.8 1.6E-05 3.5E-10 50.9 2.6 66 32-97 74-157 (278)
111 KOG0129 Predicted RNA-binding 97.7 0.00016 3.5E-09 50.4 6.3 56 32-88 259-326 (520)
112 PF08675 RNA_bind: RNA binding 97.7 0.00065 1.4E-08 36.6 7.2 55 32-89 9-63 (87)
113 PF08952 DUF1866: Domain of un 97.7 0.00045 9.8E-09 41.0 7.2 72 29-103 24-104 (146)
114 KOG4849 mRNA cleavage factor I 97.6 8.5E-05 1.8E-09 49.8 3.5 65 33-97 81-153 (498)
115 KOG4210 Nuclear localization s 97.6 5.5E-05 1.2E-09 49.8 2.5 72 32-104 184-262 (285)
116 KOG2135 Proteins containing th 97.6 8.2E-05 1.8E-09 51.4 3.3 76 29-105 369-445 (526)
117 KOG4676 Splicing factor, argin 97.5 0.00017 3.8E-09 48.9 3.7 66 34-100 9-83 (479)
118 KOG2202 U2 snRNP splicing fact 97.4 0.00011 2.3E-09 47.2 2.3 57 47-103 83-145 (260)
119 KOG2193 IGF-II mRNA-binding pr 97.4 0.00032 7E-09 48.2 4.1 70 33-102 2-72 (584)
120 KOG1365 RNA-binding protein Fu 97.3 0.00052 1.1E-08 46.6 4.6 70 32-101 280-357 (508)
121 KOG0129 Predicted RNA-binding 97.3 0.0012 2.7E-08 46.1 6.5 59 28-86 366-431 (520)
122 KOG1996 mRNA splicing factor [ 97.2 0.0013 2.9E-08 43.3 5.8 57 47-103 301-364 (378)
123 KOG2314 Translation initiation 97.2 0.0015 3.2E-08 46.4 6.3 70 32-101 58-139 (698)
124 PF04847 Calcipressin: Calcipr 97.1 0.0023 5E-08 39.7 5.9 60 45-104 8-69 (184)
125 PF10309 DUF2414: Protein of u 97.1 0.0091 2E-07 30.5 6.8 55 32-88 5-62 (62)
126 KOG0112 Large RNA-binding prot 96.9 0.0002 4.3E-09 52.9 -0.4 75 28-102 368-447 (975)
127 PF15023 DUF4523: Protein of u 96.8 0.023 4.9E-07 33.9 7.9 75 27-103 81-159 (166)
128 PF03880 DbpA: DbpA RNA bindin 96.8 0.022 4.8E-07 30.0 7.3 66 35-103 3-74 (74)
129 KOG4410 5-formyltetrahydrofola 96.8 0.011 2.3E-07 39.1 6.7 53 28-80 326-379 (396)
130 KOG4307 RNA binding protein RB 96.4 0.0063 1.4E-07 44.5 4.5 76 27-102 429-510 (944)
131 KOG4574 RNA-binding protein (c 96.4 0.0036 7.8E-08 46.4 3.0 64 42-105 308-373 (1007)
132 KOG2253 U1 snRNP complex, subu 96.3 0.0039 8.4E-08 45.0 2.9 70 28-100 36-105 (668)
133 KOG0128 RNA-binding protein SA 96.3 0.002 4.4E-08 47.6 1.5 70 32-101 736-810 (881)
134 KOG4285 Mitotic phosphoprotein 95.9 0.058 1.3E-06 35.9 6.4 61 35-97 200-260 (350)
135 KOG1365 RNA-binding protein Fu 95.8 0.15 3.3E-06 35.1 8.3 60 34-94 163-231 (508)
136 PF03467 Smg4_UPF3: Smg-4/UPF3 95.7 0.016 3.4E-07 35.7 3.4 64 31-94 6-81 (176)
137 KOG2068 MOT2 transcription fac 95.7 0.0046 1E-07 41.3 0.9 71 33-103 78-160 (327)
138 PF07576 BRAP2: BRCA1-associat 95.5 0.21 4.5E-06 28.5 9.0 63 33-95 13-81 (110)
139 KOG4660 Protein Mei2, essentia 95.0 0.07 1.5E-06 38.1 5.1 38 67-104 430-471 (549)
140 KOG0115 RNA-binding protein p5 95.0 0.047 1E-06 35.5 3.9 57 33-89 32-93 (275)
141 KOG0128 RNA-binding protein SA 94.9 0.0017 3.7E-08 47.9 -3.2 60 33-92 668-733 (881)
142 KOG2591 c-Mpl binding protein, 94.7 0.19 4E-06 36.3 6.4 68 31-99 174-245 (684)
143 PF11767 SET_assoc: Histone ly 93.8 0.48 1E-05 24.5 6.1 55 43-100 11-65 (66)
144 KOG0804 Cytoplasmic Zn-finger 93.3 0.58 1.3E-05 33.0 6.6 65 31-95 73-142 (493)
145 KOG2318 Uncharacterized conser 92.5 1.6 3.5E-05 31.8 8.0 74 29-102 171-304 (650)
146 KOG4019 Calcineurin-mediated s 90.5 0.35 7.5E-06 30.0 2.8 72 33-104 11-88 (193)
147 KOG4483 Uncharacterized conser 89.9 1.1 2.4E-05 31.2 5.0 55 32-87 391-446 (528)
148 KOG2193 IGF-II mRNA-binding pr 87.7 0.014 3.1E-07 40.4 -5.0 74 29-102 77-153 (584)
149 KOG4210 Nuclear localization s 84.0 1 2.3E-05 30.0 2.4 59 31-89 87-151 (285)
150 PF10567 Nab6_mRNP_bdg: RNA-re 83.7 5.2 0.00011 26.9 5.4 75 29-103 12-105 (309)
151 KOG4676 Splicing factor, argin 82.6 0.16 3.4E-06 35.1 -1.9 61 33-94 152-214 (479)
152 PF07292 NID: Nmi/IFP 35 domai 76.7 1.9 4.1E-05 23.6 1.5 23 31-53 51-73 (88)
153 PF15513 DUF4651: Domain of un 67.0 15 0.00034 18.7 3.8 19 47-65 9-27 (62)
154 KOG2295 C2H2 Zn-finger protein 58.9 2 4.4E-05 31.2 -0.9 64 32-95 231-300 (648)
155 PF00403 HMA: Heavy-metal-asso 57.9 22 0.00047 17.3 6.6 45 34-78 1-45 (62)
156 PF02714 DUF221: Domain of unk 56.2 21 0.00047 23.8 3.6 21 71-91 1-21 (325)
157 KOG4008 rRNA processing protei 55.0 13 0.00027 24.4 2.2 35 29-63 37-71 (261)
158 KOG1295 Nonsense-mediated deca 55.0 23 0.00049 24.8 3.5 61 33-93 8-77 (376)
159 PF03468 XS: XS domain; Inter 53.1 43 0.00092 19.3 4.5 53 34-86 10-75 (116)
160 COG0030 KsgA Dimethyladenosine 52.8 32 0.00069 22.8 3.8 27 33-59 96-122 (259)
161 PF11823 DUF3343: Protein of u 45.0 44 0.00096 17.1 3.5 25 70-94 3-27 (73)
162 KOG0156 Cytochrome P450 CYP2 s 44.9 84 0.0018 22.8 5.2 59 36-98 36-97 (489)
163 PRK11634 ATP-dependent RNA hel 42.9 1.4E+02 0.0031 22.4 7.8 68 34-104 488-561 (629)
164 PF09707 Cas_Cas2CT1978: CRISP 42.9 57 0.0012 17.8 4.1 46 31-76 24-72 (86)
165 PF03439 Spt5-NGN: Early trans 40.2 46 0.001 17.7 2.7 33 59-91 34-67 (84)
166 COG2608 CopZ Copper chaperone 40.0 55 0.0012 16.8 5.3 45 33-77 4-48 (71)
167 PF14893 PNMA: PNMA 37.8 28 0.00061 23.9 2.0 26 30-55 16-41 (331)
168 KOG2891 Surface glycoprotein [ 37.5 66 0.0014 21.8 3.5 35 31-65 148-194 (445)
169 PRK11558 putative ssRNA endonu 36.6 80 0.0017 17.7 3.8 47 31-77 26-75 (97)
170 PF15063 TC1: Thyroid cancer p 35.6 26 0.00057 18.6 1.2 30 30-59 23-52 (79)
171 smart00457 MACPF membrane-atta 35.5 38 0.00082 21.0 2.2 27 37-63 30-58 (194)
172 PF00398 RrnaAD: Ribosomal RNA 35.3 54 0.0012 21.4 3.0 29 32-60 97-127 (262)
173 PF15407 Spo7_2_N: Sporulation 34.7 17 0.00038 18.8 0.5 17 31-47 26-42 (67)
174 PF11411 DNA_ligase_IV: DNA li 34.6 37 0.0008 15.3 1.5 15 43-57 20-34 (36)
175 PRK00274 ksgA 16S ribosomal RN 34.5 70 0.0015 21.0 3.4 22 34-55 107-128 (272)
176 PHA01632 hypothetical protein 33.3 54 0.0012 16.4 2.0 21 35-55 19-39 (64)
177 TIGR00755 ksgA dimethyladenosi 32.3 82 0.0018 20.4 3.4 24 34-57 96-119 (253)
178 PF14751 DUF4474: Domain of un 32.2 1.4E+02 0.003 19.8 4.3 37 69-105 146-189 (241)
179 PTZ00338 dimethyladenosine tra 31.6 75 0.0016 21.4 3.2 22 34-55 103-124 (294)
180 PF15643 Tox-PL-2: Papain fold 29.6 82 0.0018 17.7 2.6 28 74-101 18-45 (100)
181 cd00027 BRCT Breast Cancer Sup 28.6 76 0.0016 14.9 3.1 26 33-58 2-27 (72)
182 COG0150 PurM Phosphoribosylami 28.4 27 0.00058 24.2 0.7 46 46-91 275-322 (345)
183 PF03672 UPF0154: Uncharacteri 28.2 59 0.0013 16.7 1.7 18 41-58 29-46 (64)
184 PF10281 Ish1: Putative stress 27.9 66 0.0014 14.2 1.8 17 43-59 3-19 (38)
185 PF01823 MACPF: MAC/Perforin d 27.1 45 0.00097 20.5 1.5 22 37-58 53-77 (212)
186 smart00650 rADc Ribosomal RNA 27.0 1.4E+02 0.003 17.8 3.6 23 33-55 78-100 (169)
187 PF09341 Pcc1: Transcription f 26.5 1E+02 0.0023 15.8 3.2 20 70-89 4-23 (76)
188 PRK00523 hypothetical protein; 25.4 75 0.0016 16.8 1.9 18 41-58 37-54 (72)
189 PF09702 Cas_Csa5: CRISPR-asso 23.6 1.3E+02 0.0029 17.1 2.7 23 29-54 61-83 (105)
190 COG4009 Uncharacterized protei 23.1 93 0.002 16.8 2.0 25 34-58 50-74 (88)
191 cd04489 ExoVII_LU_OBF ExoVII_L 23.1 67 0.0014 16.3 1.5 9 68-76 16-24 (78)
192 COG5638 Uncharacterized conser 22.0 2E+02 0.0044 20.8 3.9 37 29-65 143-184 (622)
193 PRK01844 hypothetical protein; 21.8 90 0.002 16.4 1.8 18 41-58 36-53 (72)
194 PF14111 DUF4283: Domain of un 21.1 75 0.0016 18.5 1.6 32 35-66 107-139 (153)
195 KOG4388 Hormone-sensitive lipa 20.9 2.7E+02 0.0059 21.4 4.5 59 31-89 788-852 (880)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.84 E-value=1.3e-19 Score=107.54 Aligned_cols=78 Identities=29% Similarity=0.523 Sum_probs=71.1
Q ss_pred CCCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEE
Q 036554 27 ANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRI 100 (105)
Q Consensus 27 ~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v 100 (105)
.....+++|||+|||+.+++++|+++|.+||.|..+.++ +.++||||+|.+.++|+.|++.|++..|.|+.|+|
T Consensus 29 ~~~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V 108 (144)
T PLN03134 29 SLRLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRV 108 (144)
T ss_pred cccCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence 334456799999999999999999999999999999886 24799999999999999999999999999999999
Q ss_pred Eecc
Q 036554 101 EFAK 104 (105)
Q Consensus 101 ~~~k 104 (105)
.|++
T Consensus 109 ~~a~ 112 (144)
T PLN03134 109 NPAN 112 (144)
T ss_pred EeCC
Confidence 9985
No 2
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.77 E-value=6.5e-18 Score=112.47 Aligned_cols=78 Identities=22% Similarity=0.460 Sum_probs=71.0
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
.....++|||+|||+++++++|+++|..||.|..|+|+. .++||||+|.+.++|+.|++.|++..+.+++|+|.
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 344568999999999999999999999999999998863 45899999999999999999999999999999999
Q ss_pred eccC
Q 036554 102 FAKA 105 (105)
Q Consensus 102 ~~k~ 105 (105)
|++|
T Consensus 183 ~a~p 186 (346)
T TIGR01659 183 YARP 186 (346)
T ss_pred cccc
Confidence 9864
No 3
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.77 E-value=1.1e-17 Score=111.52 Aligned_cols=74 Identities=24% Similarity=0.452 Sum_probs=68.6
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
.+.+|||+|||+.+++++|+++|.+||.|..++++. .+|||||+|.+.++|..|+..|||..++|+.|+|.|+.
T Consensus 268 ~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~ 347 (352)
T TIGR01661 268 AGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKT 347 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcc
Confidence 345799999999999999999999999999999873 47999999999999999999999999999999999964
No 4
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.77 E-value=1.5e-17 Score=103.93 Aligned_cols=77 Identities=27% Similarity=0.522 Sum_probs=71.3
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
..+..+|-|.||+.++++++|+++|.+||.|..+.+.+ .+|||||+|.++++|++|++.|+|.-++.-.|+|+|
T Consensus 186 R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEw 265 (270)
T KOG0122|consen 186 RDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEW 265 (270)
T ss_pred CCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEe
Confidence 34668899999999999999999999999999988863 479999999999999999999999999999999999
Q ss_pred ccC
Q 036554 103 AKA 105 (105)
Q Consensus 103 ~k~ 105 (105)
+||
T Consensus 266 skP 268 (270)
T KOG0122|consen 266 SKP 268 (270)
T ss_pred cCC
Confidence 997
No 5
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.75 E-value=1.4e-17 Score=111.05 Aligned_cols=75 Identities=24% Similarity=0.505 Sum_probs=69.5
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
+..+|||+|||..+++++|+++|..||+|..++++. .+|||||+|.+.++|+.|++.|++..+.|+.|+|.|++
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 357899999999999999999999999999998863 46899999999999999999999999999999999986
Q ss_pred C
Q 036554 105 A 105 (105)
Q Consensus 105 ~ 105 (105)
|
T Consensus 82 ~ 82 (352)
T TIGR01661 82 P 82 (352)
T ss_pred c
Confidence 4
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=99.73 E-value=3.6e-17 Score=85.68 Aligned_cols=65 Identities=38% Similarity=0.731 Sum_probs=60.7
Q ss_pred EEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC-----CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEE
Q 036554 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQP-----GRSYAFINFKIEEDAIASMKALQGFPLAGNPLR 99 (105)
Q Consensus 35 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~ 99 (105)
|||+|||+++++++|+++|.+||.+..+.+.. .+++|||+|.+.++|+.|++.|++..+.|+.|+
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 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 79999999999999999999999998888875 368999999999999999999999999999875
No 7
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.73 E-value=9.6e-17 Score=101.71 Aligned_cols=78 Identities=23% Similarity=0.519 Sum_probs=74.1
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEeccC
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAKA 105 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k~ 105 (105)
..+..++||++|++..++|+.+++.|.+||.|.+|++.+.+||+||.|++.+.|..|+..+|+..|.|+.++..|.|+
T Consensus 160 ssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe 237 (321)
T KOG0148|consen 160 SSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKE 237 (321)
T ss_pred CCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecccceEEEEecchhhHHHHHHHhcCceeCceEEEEecccc
Confidence 456779999999999999999999999999999999999999999999999999999999999999999999999874
No 8
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.72 E-value=3.2e-17 Score=93.65 Aligned_cols=75 Identities=23% Similarity=0.493 Sum_probs=68.3
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
...+++|||+||+..++|+.|.++|+.+|+|..|.+- +..|||||+|.+.++|+.|++.+++..++.++|++.|
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~ 112 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDW 112 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeec
Confidence 3457899999999999999999999999999888663 3468999999999999999999999999999999988
Q ss_pred c
Q 036554 103 A 103 (105)
Q Consensus 103 ~ 103 (105)
.
T Consensus 113 D 113 (153)
T KOG0121|consen 113 D 113 (153)
T ss_pred c
Confidence 4
No 9
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.70 E-value=2.4e-16 Score=100.33 Aligned_cols=72 Identities=25% Similarity=0.360 Sum_probs=67.0
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC---CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP---GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~---~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
.++|||+|||+.+++++|+++|+.||.|.++.|.. .+++|||+|.+.+.|+.|+. |++..|.|+.|.|.++.
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 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAE 78 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEecc
Confidence 47999999999999999999999999999999974 36899999999999999996 99999999999998875
No 10
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.70 E-value=1.2e-16 Score=95.63 Aligned_cols=73 Identities=27% Similarity=0.533 Sum_probs=67.3
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe-CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ-PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
.++|||+||+..+++.+|+..|..||.+..+.|- ...+||||+|+++.+|+.|+..|+|..|.|..|+|++++
T Consensus 10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~ 83 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELST 83 (195)
T ss_pred CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeec
Confidence 5799999999999999999999999999888775 346899999999999999999999999999999998864
No 11
>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=99.70 E-value=2.3e-16 Score=109.19 Aligned_cols=74 Identities=28% Similarity=0.499 Sum_probs=69.4
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHh--cCCccCCceEEEEecc
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKAL--QGFPLAGNPLRIEFAK 104 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l--~~~~~~g~~l~v~~~k 104 (105)
|+++|||+|||+.+++++|+++|++||.|..+.+++.+++|||+|.+.++|+.|++.+ ++..+.|++|.|.|++
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~ 76 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPGKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYST 76 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecC
Confidence 5789999999999999999999999999999999998999999999999999999975 6788999999999974
No 12
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.67 E-value=7.7e-16 Score=80.90 Aligned_cols=65 Identities=35% Similarity=0.648 Sum_probs=58.4
Q ss_pred EEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC-----CcEEEEEeCCHHHHHHHHHHhcCCccCCceEE
Q 036554 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPG-----RSYAFINFKIEEDAIASMKALQGFPLAGNPLR 99 (105)
Q Consensus 35 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~-----~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~ 99 (105)
|||+|||+.+++++|.++|..+|.|..+.+... +++|||+|.+.++|..|++.+++..+.|+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 799999999999999999999999999988855 58999999999999999999988999998874
No 13
>PLN03213 repressor of silencing 3; Provisional
Probab=99.67 E-value=5.3e-16 Score=105.46 Aligned_cols=75 Identities=29% Similarity=0.498 Sum_probs=69.4
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC--CCcEEEEEeCCH--HHHHHHHHHhcCCccCCceEEEEeccC
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP--GRSYAFINFKIE--EDAIASMKALQGFPLAGNPLRIEFAKA 105 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~--~~g~~fv~f~~~--~~a~~a~~~l~~~~~~g~~l~v~~~k~ 105 (105)
.+.+||||||++.+++++|+..|..||.|..+.|++ .+|||||+|.+. ..+..|+..|||..+.|+.|+|.-|||
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP 87 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE 87 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence 347899999999999999999999999999999983 578999999987 789999999999999999999999885
No 14
>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=99.66 E-value=1e-15 Score=107.22 Aligned_cols=73 Identities=34% Similarity=0.576 Sum_probs=68.4
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcC--CCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEeccC
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRF--GELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAKA 105 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~--g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k~ 105 (105)
...+|||+||+..+++++|+++|.+| |.|.++.++ ++||||+|.+.++|+.|++.||+..|.|+.|+|.|++|
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~--rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp 306 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI--RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKP 306 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee--cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence 45789999999999999999999999 999998877 46999999999999999999999999999999999975
No 15
>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=99.66 E-value=1.2e-15 Score=101.69 Aligned_cols=75 Identities=27% Similarity=0.482 Sum_probs=67.1
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCC--ceEEEEe
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAG--NPLRIEF 102 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~ 102 (105)
...+|||+|||+.+++++|+++|.+||.|..+.++. .+++|||+|.+.++|+.|++.|++..+.+ ++|+|.|
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~ 271 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRL 271 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence 356899999999999999999999999999998873 25899999999999999999999998875 6899998
Q ss_pred ccC
Q 036554 103 AKA 105 (105)
Q Consensus 103 ~k~ 105 (105)
+++
T Consensus 272 a~~ 274 (346)
T TIGR01659 272 AEE 274 (346)
T ss_pred CCc
Confidence 863
No 16
>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=99.66 E-value=1.6e-15 Score=105.03 Aligned_cols=76 Identities=28% Similarity=0.415 Sum_probs=70.1
Q ss_pred CCCccEEEEcCCCC-CcCHHHHHHHhhcCCCeeEEEEeCC-CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 29 TPPSRHLWVGNLSH-NIEEANLTDQFLRFGELESVAFQPG-RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 29 ~~~~~~l~v~nl~~-~~~~~~l~~~f~~~g~i~~~~~~~~-~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
.+++.+|||+||++ .+++++|+++|..||.|..+++++. +++|||+|.+.++|+.|++.||+..+.|+.|+|.+++
T Consensus 272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~ 349 (481)
T TIGR01649 272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSK 349 (481)
T ss_pred CCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcc
Confidence 34678999999998 6999999999999999999998754 6899999999999999999999999999999999875
No 17
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.64 E-value=1.7e-16 Score=98.25 Aligned_cols=76 Identities=29% Similarity=0.604 Sum_probs=71.6
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
...++|||++|..++++..|...|-+||+|.++.++ ++++|+||+|...++|.+|+..||...+.|+.|+|.||
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~A 87 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLA 87 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeec
Confidence 345899999999999999999999999999999886 67899999999999999999999999999999999999
Q ss_pred cC
Q 036554 104 KA 105 (105)
Q Consensus 104 k~ 105 (105)
+|
T Consensus 88 kP 89 (298)
T KOG0111|consen 88 KP 89 (298)
T ss_pred CC
Confidence 87
No 18
>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=99.64 E-value=2.7e-15 Score=103.12 Aligned_cols=74 Identities=35% Similarity=0.711 Sum_probs=68.8
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
..++|||+|||..+++++|+.+|..||.|..+.+. +.+++|||+|.+.+.|..|+..|++..|.|+.|+|.|++
T Consensus 185 ~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 185 NFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ 264 (457)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence 36899999999999999999999999999999887 346899999999999999999999999999999999964
No 19
>smart00362 RRM_2 RNA recognition motif.
Probab=99.63 E-value=6.3e-15 Score=76.70 Aligned_cols=68 Identities=43% Similarity=0.782 Sum_probs=62.6
Q ss_pred EEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCC----cEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR----SYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~----g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
+|+|+|||..+++++|+++|.+||.+..+.+.... +++||+|.+.+.|+.|+..+++..+.|+.|.|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 48999999999999999999999999999887654 899999999999999999999999999988763
No 20
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.63 E-value=2e-15 Score=97.90 Aligned_cols=73 Identities=21% Similarity=0.413 Sum_probs=68.2
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC----CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP----GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~----~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
..+|+|.|+|+...+.||+.+|.+||.|.+|.|+- +|||+||+|++.++|++|-+.|||..+.||+|.|..+.
T Consensus 96 pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~AT 172 (376)
T KOG0125|consen 96 PKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNAT 172 (376)
T ss_pred CceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccc
Confidence 36899999999999999999999999999999873 48999999999999999999999999999999998763
No 21
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.63 E-value=4.7e-15 Score=104.23 Aligned_cols=74 Identities=19% Similarity=0.420 Sum_probs=68.7
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
..++|||+|||+++++++|+.+|+.||.|..+++.+ .+|||||+|.+.++|..|++.||+..+.|+.|+|.++.
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi 282 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 282 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecC
Confidence 347899999999999999999999999999998863 47899999999999999999999999999999999864
No 22
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.63 E-value=8.5e-15 Score=81.00 Aligned_cols=77 Identities=21% Similarity=0.366 Sum_probs=69.9
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe---CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ---PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
+...++.|||.|||..++.++..++|.+||.|..+++- ..+|-|||.|++..+|..|++.|.|..+.++.|.|-|..
T Consensus 14 ppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq 93 (124)
T KOG0114|consen 14 PPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQ 93 (124)
T ss_pred ChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecC
Confidence 34557899999999999999999999999999999885 347999999999999999999999999999999998754
No 23
>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=99.62 E-value=2.9e-15 Score=105.28 Aligned_cols=73 Identities=21% Similarity=0.497 Sum_probs=67.3
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
..++|||+|||+.+++++|+++|.+||.|..+.+. +++|||||+|.+.++|+.|++.||+..+.|+.|+|.+.
T Consensus 106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp 184 (612)
T TIGR01645 106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 184 (612)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence 34789999999999999999999999999999886 35799999999999999999999999999999999754
No 24
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.61 E-value=1e-14 Score=101.44 Aligned_cols=75 Identities=23% Similarity=0.412 Sum_probs=68.8
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
...++|||+|||..+++++|+++|..||.|..+.+++ .+|||||+|.+.+.|..|+..|++..+.|+.|.|.++
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 3457999999999999999999999999999888763 4789999999999999999999999999999999987
Q ss_pred c
Q 036554 104 K 104 (105)
Q Consensus 104 k 104 (105)
.
T Consensus 373 ~ 373 (509)
T TIGR01642 373 C 373 (509)
T ss_pred c
Confidence 4
No 25
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.61 E-value=8.2e-15 Score=92.20 Aligned_cols=72 Identities=24% Similarity=0.270 Sum_probs=65.4
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC---CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG---RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~---~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
+.+.+|||+||++.+++++|+++|+.||.|.+|.|... +++|||+|.+++.++.|+. |+|..|.+++|.|..
T Consensus 3 ~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~ 77 (243)
T PLN03121 3 PGGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITR 77 (243)
T ss_pred CCceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEe
Confidence 34589999999999999999999999999999999853 4799999999999999996 999999999988854
No 26
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.61 E-value=2.5e-15 Score=90.96 Aligned_cols=74 Identities=30% Similarity=0.648 Sum_probs=67.9
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC---CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG---RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~---~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
..++|||+|||.++.+.+|+++|.+||.|..|.+... ..||||+|++..+|+.|+..-++..++|+.|+|+|++
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfpr 81 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPR 81 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEecc
Confidence 4579999999999999999999999999999888632 4699999999999999999999999999999999975
No 27
>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=99.61 E-value=6.1e-15 Score=103.75 Aligned_cols=71 Identities=32% Similarity=0.571 Sum_probs=66.2
Q ss_pred EEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
+|||+|||.++++++|+++|.+||.|..|++.+ .+|+|||+|.+.++|+.|++.+++..+.|+.|+|.|++
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~ 78 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQ 78 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccc
Confidence 699999999999999999999999999998863 45899999999999999999999999999999999864
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=99.61 E-value=1.1e-14 Score=102.53 Aligned_cols=75 Identities=27% Similarity=0.507 Sum_probs=69.3
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC-----CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP-----GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
....+|||+||++.+++++|+++|..||.|..++++. .+|++||+|.+.++|..|+..||+..+.|++|.|.|++
T Consensus 283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~ 362 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQ 362 (562)
T ss_pred cCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEecc
Confidence 3457899999999999999999999999999998863 46899999999999999999999999999999999975
No 29
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.60 E-value=2.3e-14 Score=90.86 Aligned_cols=77 Identities=25% Similarity=0.485 Sum_probs=70.7
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC------CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~------~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
+.....|.|.-||..+++++++.+|...|+|+.|++++. -||+||.|.++++|++|+..|||..+..+.|+|+|
T Consensus 38 ~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSy 117 (360)
T KOG0145|consen 38 DESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSY 117 (360)
T ss_pred CcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEe
Confidence 344567889999999999999999999999999999853 48999999999999999999999999999999999
Q ss_pred ccC
Q 036554 103 AKA 105 (105)
Q Consensus 103 ~k~ 105 (105)
|+|
T Consensus 118 ARP 120 (360)
T KOG0145|consen 118 ARP 120 (360)
T ss_pred ccC
Confidence 987
No 30
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.60 E-value=3.8e-14 Score=97.49 Aligned_cols=74 Identities=23% Similarity=0.406 Sum_probs=67.3
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
.+.++|||+|||..+++++|+++|..||.|..+.++. .+|+|||+|.+.++|+.|+. |++..+.|++|.|.++
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 3467999999999999999999999999999999873 47899999999999999997 8999999999999875
Q ss_pred c
Q 036554 104 K 104 (105)
Q Consensus 104 k 104 (105)
+
T Consensus 166 ~ 166 (457)
T TIGR01622 166 Q 166 (457)
T ss_pred c
Confidence 3
No 31
>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=99.59 E-value=2.1e-14 Score=72.39 Aligned_cols=55 Identities=31% Similarity=0.651 Sum_probs=51.0
Q ss_pred HHHHhhcCCCeeEEEEeCCC-cEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 49 LTDQFLRFGELESVAFQPGR-SYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 49 l~~~f~~~g~i~~~~~~~~~-g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
|.++|++||+|..+.+...+ ++|||+|.+.++|..|++.||+..+.|++|+|.||
T Consensus 1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 57899999999999998776 99999999999999999999999999999999986
No 32
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.59 E-value=4.6e-15 Score=92.38 Aligned_cols=72 Identities=22% Similarity=0.384 Sum_probs=61.9
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
.-++|||++|+|++..+.|+++|++||+|.+..++ ++||++||+|.+.+.|++|++ -.+-.|+||+-.+.+|
T Consensus 11 ~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~-dp~piIdGR~aNcnlA 88 (247)
T KOG0149|consen 11 TFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACK-DPNPIIDGRKANCNLA 88 (247)
T ss_pred eEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhc-CCCCcccccccccchh
Confidence 34689999999999999999999999999988876 468999999999999999998 3455788887666553
No 33
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.59 E-value=5.9e-15 Score=90.63 Aligned_cols=76 Identities=28% Similarity=0.476 Sum_probs=69.4
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
...-..|-|-||.+.++.++|+.+|.+||.|-+|.|.. .+|||||-|....+|+.|++.|+|..++|+.|.|++
T Consensus 10 v~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ 89 (256)
T KOG4207|consen 10 VEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQM 89 (256)
T ss_pred cccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehh
Confidence 33446899999999999999999999999999999873 479999999999999999999999999999999988
Q ss_pred cc
Q 036554 103 AK 104 (105)
Q Consensus 103 ~k 104 (105)
|+
T Consensus 90 ar 91 (256)
T KOG4207|consen 90 AR 91 (256)
T ss_pred hh
Confidence 75
No 34
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.58 E-value=2.7e-14 Score=91.63 Aligned_cols=78 Identities=24% Similarity=0.518 Sum_probs=70.7
Q ss_pred CCCCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEE
Q 036554 26 RANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLR 99 (105)
Q Consensus 26 ~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~ 99 (105)
.....|-+||||+-|+.+++|..|+..|..||.|..|.|+ +++|||||+|.+..+...|.+..+|..|+|+.|.
T Consensus 95 ~a~gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~ 174 (335)
T KOG0113|consen 95 NAIGDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRIL 174 (335)
T ss_pred cccCCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEE
Confidence 3344567899999999999999999999999999999987 4579999999999999999999999999999999
Q ss_pred EEec
Q 036554 100 IEFA 103 (105)
Q Consensus 100 v~~~ 103 (105)
|.+-
T Consensus 175 VDvE 178 (335)
T KOG0113|consen 175 VDVE 178 (335)
T ss_pred EEec
Confidence 9863
No 35
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.58 E-value=5e-15 Score=85.51 Aligned_cols=75 Identities=20% Similarity=0.495 Sum_probs=68.8
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
...+..|||.++...+++++|.+.|..||+|..+.+.. -+|||.|+|.+.+.|+.|+..+|+..+.++.|.|.|
T Consensus 69 SVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw 148 (170)
T KOG0130|consen 69 SVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDW 148 (170)
T ss_pred ceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEE
Confidence 34568999999999999999999999999999988762 368999999999999999999999999999999999
Q ss_pred c
Q 036554 103 A 103 (105)
Q Consensus 103 ~ 103 (105)
+
T Consensus 149 ~ 149 (170)
T KOG0130|consen 149 C 149 (170)
T ss_pred E
Confidence 6
No 36
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.58 E-value=1.1e-14 Score=97.72 Aligned_cols=74 Identities=36% Similarity=0.613 Sum_probs=69.0
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEeccC
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAKA 105 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k~ 105 (105)
..-..|||.||+..+|++.|+++|.+||.|.+|+.+ +.||||.|..+++|-.||+.+|+..|+|..|.|.+|||
T Consensus 257 s~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~--rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP 330 (506)
T KOG0117|consen 257 SKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKP--RDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKP 330 (506)
T ss_pred hheeeeeeeccchhhhHHHHHHHHHhccceEEeecc--cceeEEeecchHHHHHHHHHhcCceecCceEEEEecCC
Confidence 344789999999999999999999999999998777 45999999999999999999999999999999999997
No 37
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.57 E-value=4.5e-14 Score=99.03 Aligned_cols=73 Identities=23% Similarity=0.453 Sum_probs=65.3
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe-----CCCcEEEEEeCCHHHHHHHHHHhcCCccC-CceEEEEec
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ-----PGRSYAFINFKIEEDAIASMKALQGFPLA-GNPLRIEFA 103 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~g~~fv~f~~~~~a~~a~~~l~~~~~~-g~~l~v~~~ 103 (105)
..++|||+|||+++++++|+.+|.++|.|..++++ ++++||||+|.+.++|+.|++.||+..+. ++.|.|+++
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence 45899999999999999999999999999999886 35799999999999999999999998875 777776654
No 38
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.56 E-value=6.7e-14 Score=93.95 Aligned_cols=76 Identities=24% Similarity=0.499 Sum_probs=69.3
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccC-CceEEE
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLA-GNPLRI 100 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~-g~~l~v 100 (105)
..+.++-|||+.||.++.|++|..+|.+.|+|-+++++. ++|||||+|.+.+.|+.|++.||+..|. |+.|.|
T Consensus 79 ~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igv 158 (506)
T KOG0117|consen 79 PPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGV 158 (506)
T ss_pred CCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEE
Confidence 346679999999999999999999999999999999873 5899999999999999999999999887 888988
Q ss_pred Eec
Q 036554 101 EFA 103 (105)
Q Consensus 101 ~~~ 103 (105)
+.+
T Consensus 159 c~S 161 (506)
T KOG0117|consen 159 CVS 161 (506)
T ss_pred EEe
Confidence 764
No 39
>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=99.56 E-value=1.1e-13 Score=72.30 Aligned_cols=69 Identities=43% Similarity=0.799 Sum_probs=63.5
Q ss_pred EEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC-----CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG-----RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~-----~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
+|+|+|||..+++++|+.+|..+|.|..+.+... ++++||+|.+.+.|..|++.+++..++++.+.|.|
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 4899999999999999999999999999888743 68999999999999999999999999999998875
No 40
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.55 E-value=3.2e-14 Score=92.83 Aligned_cols=78 Identities=23% Similarity=0.542 Sum_probs=69.7
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHh-cCCccCCceEEEEeccC
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKAL-QGFPLAGNPLRIEFAKA 105 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l-~~~~~~g~~l~v~~~k~ 105 (105)
.+..-.+|||++|.+.+++.+|+++|.+||+|..+.+...+++|||+|.+++.|+.|...+ +...|+|..|+|.|.++
T Consensus 224 eD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 224 EDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred cccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 3444579999999999999999999999999999999998999999999999999988854 55678999999999875
No 41
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.54 E-value=1.1e-13 Score=97.96 Aligned_cols=73 Identities=34% Similarity=0.658 Sum_probs=70.4
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
++||||+.|+..+++.+|..+|.+||+|..|.++..++||||.+..+++|+.|+..|.+..+.++.|+|.|+-
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~ 493 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAV 493 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeec
Confidence 5899999999999999999999999999999999999999999999999999999999999999999999973
No 42
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.52 E-value=1.1e-13 Score=85.90 Aligned_cols=77 Identities=38% Similarity=0.684 Sum_probs=69.4
Q ss_pred CCCccEEEEcCCCCCcCHHHHHH----HhhcCCCeeEEEEe---CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTD----QFLRFGELESVAFQ---PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~----~f~~~g~i~~~~~~---~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
..+..+|||.||+..+..++|+. +|++||.|.+|... +.+|.|||.|.+.+.|..|+..|+|..+.|++++|+
T Consensus 6 ~~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriq 85 (221)
T KOG4206|consen 6 VNPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQ 85 (221)
T ss_pred cCCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhhee
Confidence 34555999999999999998877 99999999988775 457999999999999999999999999999999999
Q ss_pred eccC
Q 036554 102 FAKA 105 (105)
Q Consensus 102 ~~k~ 105 (105)
||+.
T Consensus 86 yA~s 89 (221)
T KOG4206|consen 86 YAKS 89 (221)
T ss_pred cccC
Confidence 9874
No 43
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.51 E-value=2.5e-13 Score=86.57 Aligned_cols=73 Identities=36% Similarity=0.680 Sum_probs=67.5
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
..+|||+|||..+++++|+++|..||.+..+.+. ..+++|||+|.+.+.+..|+..+++..+.|+.|.|.++.
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 5899999999999999999999999999888775 346999999999999999999999999999999999854
No 44
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.50 E-value=1.2e-13 Score=87.90 Aligned_cols=72 Identities=29% Similarity=0.571 Sum_probs=68.0
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
-..+||+.|...++.+.|++.|.+||+|.+++++ ++|||+||.|.+.++|+.|+..|||.=|.+|.|+..||
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWA 139 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWA 139 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeecccc
Confidence 4579999999999999999999999999999987 46899999999999999999999999999999999996
No 45
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.50 E-value=3.8e-14 Score=90.86 Aligned_cols=70 Identities=24% Similarity=0.516 Sum_probs=66.1
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
.+|||+|||..+++.+|+.+|++||+|.+|.|+++ ++||..++...++.++..||+.+|+|..|+|+-+|
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 47999999999999999999999999999999965 99999999999999999999999999999998765
No 46
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.50 E-value=1.5e-13 Score=95.56 Aligned_cols=71 Identities=25% Similarity=0.440 Sum_probs=62.4
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcC------------CCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceE
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRF------------GELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPL 98 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~------------g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l 98 (105)
..++|||+|||+.+++++|.++|..+ +.|..+.+.+.++||||+|.+.+.|+.||. |++..+.|+.|
T Consensus 174 ~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~~kg~afVeF~~~e~A~~Al~-l~g~~~~g~~l 252 (509)
T TIGR01642 174 QARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKEKNFAFLEFRTVEEATFAMA-LDSIIYSNVFL 252 (509)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECCCCCEEEEEeCCHHHHhhhhc-CCCeEeeCcee
Confidence 35789999999999999999999974 245666677788999999999999999996 99999999999
Q ss_pred EEEe
Q 036554 99 RIEF 102 (105)
Q Consensus 99 ~v~~ 102 (105)
+|..
T Consensus 253 ~v~r 256 (509)
T TIGR01642 253 KIRR 256 (509)
T ss_pred EecC
Confidence 9864
No 47
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.50 E-value=3.5e-14 Score=95.00 Aligned_cols=76 Identities=37% Similarity=0.639 Sum_probs=67.9
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC-----CCcEEEEEeCCHHHHHHHHHHhcCC-ccCC--ceEEEE
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP-----GRSYAFINFKIEEDAIASMKALQGF-PLAG--NPLRIE 101 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~g~~fv~f~~~~~a~~a~~~l~~~-~~~g--~~l~v~ 101 (105)
...++|||+.|+..++|++++++|.+||.|++|.|++ .|||+||.|.+++.|..|++.||+. ++.| .+|.|.
T Consensus 122 ~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVk 201 (510)
T KOG0144|consen 122 VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVK 201 (510)
T ss_pred ccchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEE
Confidence 3468999999999999999999999999999999984 5899999999999999999999995 4555 679999
Q ss_pred eccC
Q 036554 102 FAKA 105 (105)
Q Consensus 102 ~~k~ 105 (105)
||.+
T Consensus 202 FADt 205 (510)
T KOG0144|consen 202 FADT 205 (510)
T ss_pred eccc
Confidence 9853
No 48
>smart00360 RRM RNA recognition motif.
Probab=99.49 E-value=3.3e-13 Score=69.86 Aligned_cols=65 Identities=40% Similarity=0.762 Sum_probs=58.8
Q ss_pred EcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC------CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 37 VGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 37 v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~------~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
|+|||..+++++|+.+|.+||.|..+.+... +++|||+|.+.+.|..|+..+++..+.++.|+|.
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 5789999999999999999999999888643 5799999999999999999999999999988773
No 49
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.49 E-value=1.4e-13 Score=83.05 Aligned_cols=73 Identities=32% Similarity=0.540 Sum_probs=67.4
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
...+|||+||+..++++.|+++|-+.|.|..+.+.+ ++||||++|.++++|+-|++.|+...+.|++|+|.-+
T Consensus 8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka 86 (203)
T KOG0131|consen 8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA 86 (203)
T ss_pred CCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence 457999999999999999999999999999998863 5799999999999999999999988999999999764
No 50
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.48 E-value=2e-13 Score=93.77 Aligned_cols=72 Identities=24% Similarity=0.518 Sum_probs=68.2
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC-----CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG-----RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~-----~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
..+|+|.|||+.+...+|+.+|+.||.|.++.|++. .|||||.|....+|..|++.+|+..|.|++|.|+||
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 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWA 193 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeee
Confidence 678999999999999999999999999999999842 589999999999999999999999999999999997
No 51
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.47 E-value=5.1e-15 Score=89.27 Aligned_cols=72 Identities=19% Similarity=0.528 Sum_probs=66.2
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
.+.-|||+|||++.+|.+|..+|++||.|..|.++ +++||||+.|++....-.|+..|||..|.|+.|+|.-
T Consensus 34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDH 111 (219)
T KOG0126|consen 34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDH 111 (219)
T ss_pred cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeee
Confidence 45689999999999999999999999999999887 3579999999999999999999999999999999853
No 52
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.46 E-value=3.7e-13 Score=91.65 Aligned_cols=72 Identities=26% Similarity=0.459 Sum_probs=68.1
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
+.|||||+|++++++.|..+|...|.|..+++. +.+||+|++|.+.+.++.|++.||+..+.|++|+|.|+.
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~ 96 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYAS 96 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccc
Confidence 899999999999999999999999999999886 347999999999999999999999999999999999974
No 53
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.44 E-value=1e-12 Score=88.13 Aligned_cols=75 Identities=20% Similarity=0.520 Sum_probs=65.8
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCC-ccCC--ceEEE
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGF-PLAG--NPLRI 100 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~-~~~g--~~l~v 100 (105)
...-++||+.+|..++|.+|+.+|++||.|.+|.+++ .+|||||.|.+.++|.+|+..||+. .+-| .+|.|
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 4456899999999999999999999999999999885 3689999999999999999999986 4444 67888
Q ss_pred Eecc
Q 036554 101 EFAK 104 (105)
Q Consensus 101 ~~~k 104 (105)
.||.
T Consensus 112 k~Ad 115 (510)
T KOG0144|consen 112 KYAD 115 (510)
T ss_pred cccc
Confidence 8863
No 54
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.41 E-value=3.8e-12 Score=80.91 Aligned_cols=73 Identities=23% Similarity=0.424 Sum_probs=67.8
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
.+..|||-||.++++|..|+.+|.+||.|..+++++ =|||+||++.+-++|..|+..|||..+.++.|.|.|.
T Consensus 277 ~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFK 355 (360)
T KOG0145|consen 277 GGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFK 355 (360)
T ss_pred CeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEe
Confidence 467899999999999999999999999999999874 2689999999999999999999999999999999884
No 55
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.37 E-value=7.1e-13 Score=87.63 Aligned_cols=70 Identities=21% Similarity=0.535 Sum_probs=65.4
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
++|||+.+.++..|+.|+..|.+||.|..+.+. ++++||||+|+-++.|+.|++.||+..+.|+.|+|..
T Consensus 114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr 189 (544)
T KOG0124|consen 114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 189 (544)
T ss_pred HheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence 789999999999999999999999999988763 6799999999999999999999999999999999864
No 56
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.36 E-value=1.1e-11 Score=83.54 Aligned_cols=71 Identities=23% Similarity=0.404 Sum_probs=64.8
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhh-cCCCeeEEEEe-----CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFL-RFGELESVAFQ-----PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~-~~g~i~~~~~~-----~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
.+.+||+|+|++..+.+|++++. +.|+|..|.+. +.++||.|+|++++.++.|++.||...++|++|+|.-
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKE 120 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKE 120 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEec
Confidence 45699999999999999999998 47889999886 5689999999999999999999999999999999853
No 57
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.30 E-value=1.7e-11 Score=82.68 Aligned_cols=76 Identities=20% Similarity=0.326 Sum_probs=67.6
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe-CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ-PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
..+..++|+|.|||.++|++.|++-|.++|.|....|+ ..+....|.|.++++|++|+..|++..++|+.|+|.|.
T Consensus 532 aarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~GkskGVVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~ 608 (608)
T KOG4212|consen 532 AARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMENGKSKGVVRFFSPEDAERACALMNGSRLDGRNIKVTYF 608 (608)
T ss_pred ccccccEEEEecCCccccHHHHHHHHHhccceehhhhhccCCccceEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence 45567899999999999999999999999999888775 33445689999999999999999999999999999874
No 58
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=9.8e-12 Score=81.95 Aligned_cols=77 Identities=23% Similarity=0.428 Sum_probs=70.7
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC------CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~------~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
..||...|||..|.+-+++++|.-+|+.||.|..|.+++. -.+|||+|.+.++++.|.-.|++.-|+.+.|+|.
T Consensus 235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVD 314 (479)
T KOG0415|consen 235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVD 314 (479)
T ss_pred cCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEee
Confidence 4667889999999999999999999999999999998843 3599999999999999999999999999999999
Q ss_pred ecc
Q 036554 102 FAK 104 (105)
Q Consensus 102 ~~k 104 (105)
|++
T Consensus 315 FSQ 317 (479)
T KOG0415|consen 315 FSQ 317 (479)
T ss_pred hhh
Confidence 875
No 59
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.26 E-value=1e-11 Score=79.90 Aligned_cols=73 Identities=25% Similarity=0.533 Sum_probs=68.3
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
..++.+|+|+|+.+.++-++++..|.+||.+.++.|.+ +++||.|...++|..|++.|++..++|+.++|+++
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivk--dy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~s 147 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVK--DYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLS 147 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcccCCceeeeeec--ceeEEEEeeccchHHHHhcccccccccceeeeeee
Confidence 44678999999999999999999999999999999995 49999999999999999999999999999999875
No 60
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.25 E-value=2.8e-11 Score=83.40 Aligned_cols=73 Identities=22% Similarity=0.394 Sum_probs=68.0
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEeccC
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAKA 105 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k~ 105 (105)
.+|||++||+.++.++|.++|+.+|+|..+.+.. .+||+||+|...+++++|+...++..+.|+.|.|..+++
T Consensus 6 ~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~ 84 (678)
T KOG0127|consen 6 ATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKK 84 (678)
T ss_pred ceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccc
Confidence 7999999999999999999999999999998873 478999999999999999999999999999999988763
No 61
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.24 E-value=3.1e-11 Score=77.11 Aligned_cols=73 Identities=29% Similarity=0.538 Sum_probs=64.6
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC-----CCcEEEEEeCCHHHHHHHHHHhcCCc-cC--CceEEEEe
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP-----GRSYAFINFKIEEDAIASMKALQGFP-LA--GNPLRIEF 102 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~g~~fv~f~~~~~a~~a~~~l~~~~-~~--g~~l~v~~ 102 (105)
+.++|||+.|...-.|++++.+|..||.|.+|.+.+ .|||+||.|.+..+|+.|+..|||.. +- ...|.|.|
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ 97 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKF 97 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEe
Confidence 457999999999999999999999999999999884 58999999999999999999999963 33 46688888
Q ss_pred c
Q 036554 103 A 103 (105)
Q Consensus 103 ~ 103 (105)
+
T Consensus 98 A 98 (371)
T KOG0146|consen 98 A 98 (371)
T ss_pred c
Confidence 6
No 62
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.24 E-value=2e-11 Score=83.84 Aligned_cols=70 Identities=39% Similarity=0.698 Sum_probs=64.6
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
..|||+||.+.+++++++..|.+||.|..+.+.+ .+||+|++|.+.+.|..|+..|||..+-|+.|+|..
T Consensus 279 ~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~ 354 (549)
T KOG0147|consen 279 RRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSV 354 (549)
T ss_pred hhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEE
Confidence 3499999999999999999999999999988763 479999999999999999999999999999999865
No 63
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.24 E-value=8.5e-11 Score=81.75 Aligned_cols=74 Identities=26% Similarity=0.508 Sum_probs=67.4
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC------CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~------~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
-++.|||.+|+..+...+|+.+|++||.|.-.+++++ +.|+||++.+..+|..||..||...+.|+.|.|.-+|
T Consensus 404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 3579999999999999999999999999988877742 5799999999999999999999999999999998775
No 64
>smart00361 RRM_1 RNA recognition motif.
Probab=99.23 E-value=1.1e-10 Score=61.36 Aligned_cols=56 Identities=25% Similarity=0.483 Sum_probs=47.7
Q ss_pred HHHHHHHhh----cCCCeeEEE-Ee--C------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 46 EANLTDQFL----RFGELESVA-FQ--P------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 46 ~~~l~~~f~----~~g~i~~~~-~~--~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
+++|+++|. .||.|..+. +. + .+|++||+|.+.++|+.|+..|||..+.|+.|+++
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 567888888 999998874 32 1 37899999999999999999999999999998763
No 65
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=99.22 E-value=8.1e-11 Score=83.17 Aligned_cols=79 Identities=33% Similarity=0.548 Sum_probs=71.6
Q ss_pred CCCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe---------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCce
Q 036554 27 ANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ---------PGRSYAFINFKIEEDAIASMKALQGFPLAGNP 97 (105)
Q Consensus 27 ~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~ 97 (105)
..+|.++.|||+||++.++++.|...|..||.+..++++ +.+.|+||.|-++.+|++|++.|+|..+.+..
T Consensus 169 dgDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e 248 (877)
T KOG0151|consen 169 DGDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYE 248 (877)
T ss_pred CCCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeee
Confidence 346778899999999999999999999999999988886 23579999999999999999999999999999
Q ss_pred EEEEeccC
Q 036554 98 LRIEFAKA 105 (105)
Q Consensus 98 l~v~~~k~ 105 (105)
+++-|+|+
T Consensus 249 ~K~gWgk~ 256 (877)
T KOG0151|consen 249 MKLGWGKA 256 (877)
T ss_pred eeeccccc
Confidence 99999874
No 66
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.22 E-value=3e-11 Score=73.09 Aligned_cols=75 Identities=29% Similarity=0.482 Sum_probs=65.3
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeE-EEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELES-VAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~-~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
.-+..+||+||.+.+++..|.+.|+.||.+.. -+++ ..++++|+.|.+.+.+.+|+..+++..+..+++.|.|
T Consensus 94 ~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~y 173 (203)
T KOG0131|consen 94 DVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSY 173 (203)
T ss_pred cccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEE
Confidence 34478999999999999999999999998543 2332 3468999999999999999999999999999999999
Q ss_pred cc
Q 036554 103 AK 104 (105)
Q Consensus 103 ~k 104 (105)
++
T Consensus 174 a~ 175 (203)
T KOG0131|consen 174 AF 175 (203)
T ss_pred EE
Confidence 75
No 67
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.20 E-value=3.6e-11 Score=76.84 Aligned_cols=78 Identities=23% Similarity=0.522 Sum_probs=69.2
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
..++++.|||--||.+..+.+|...|-+||.|...++. .+|.|+||.|.+...++.|+..|||.-|.=+.|+|.
T Consensus 281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQ 360 (371)
T KOG0146|consen 281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQ 360 (371)
T ss_pred cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhh
Confidence 45678999999999999999999999999998776653 457899999999999999999999999888888988
Q ss_pred eccC
Q 036554 102 FAKA 105 (105)
Q Consensus 102 ~~k~ 105 (105)
+.+|
T Consensus 361 LKRP 364 (371)
T KOG0146|consen 361 LKRP 364 (371)
T ss_pred hcCc
Confidence 7664
No 68
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.16 E-value=5.1e-11 Score=83.93 Aligned_cols=76 Identities=26% Similarity=0.459 Sum_probs=69.6
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
......|+|.|+|+..+-.+++.+|..||.+..+++++ ++|||||+|-++.+|.+|+..|.+.-+.|+.|.++|
T Consensus 610 kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEw 689 (725)
T KOG0110|consen 610 KKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEW 689 (725)
T ss_pred ccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheeh
Confidence 33357999999999999999999999999999999974 478999999999999999999998889999999999
Q ss_pred cc
Q 036554 103 AK 104 (105)
Q Consensus 103 ~k 104 (105)
++
T Consensus 690 A~ 691 (725)
T KOG0110|consen 690 AK 691 (725)
T ss_pred hc
Confidence 86
No 69
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.14 E-value=2.4e-10 Score=80.61 Aligned_cols=71 Identities=31% Similarity=0.517 Sum_probs=65.4
Q ss_pred EEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC---------CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG---------RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~---------~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
+|||.||++.++.+++...|...|.|..+.|.+. .||+||+|.+.+.|+.|++.|+|..++|+.|.|.++.
T Consensus 517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE 596 (725)
T ss_pred hhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence 3999999999999999999999999999887643 2999999999999999999999999999999998864
No 70
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.13 E-value=6.2e-10 Score=69.54 Aligned_cols=74 Identities=31% Similarity=0.539 Sum_probs=63.1
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe-CC------CcEEEEEeCCHHHHHHHHHHhcCCccC---CceEEEE
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ-PG------RSYAFINFKIEEDAIASMKALQGFPLA---GNPLRIE 101 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-~~------~g~~fv~f~~~~~a~~a~~~l~~~~~~---g~~l~v~ 101 (105)
-++|||.+||-++...+|..+|..|-..+...+. .. +.++|++|.+.+.|.+|+..|||..++ +..|+++
T Consensus 34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiE 113 (284)
T KOG1457|consen 34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIE 113 (284)
T ss_pred cceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEee
Confidence 5899999999999999999999998765544443 11 359999999999999999999999887 7889999
Q ss_pred eccC
Q 036554 102 FAKA 105 (105)
Q Consensus 102 ~~k~ 105 (105)
+||.
T Consensus 114 lAKS 117 (284)
T KOG1457|consen 114 LAKS 117 (284)
T ss_pred ehhc
Confidence 9873
No 71
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.11 E-value=5.9e-10 Score=75.19 Aligned_cols=69 Identities=28% Similarity=0.562 Sum_probs=63.5
Q ss_pred EEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC----CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQP----GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~----~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
.|||-||++.++..+|.+.|+.||+|..|++.. .+|+ ||.|.+.+.|..|++.+||..+.+++|.|...
T Consensus 78 ~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~ 150 (369)
T KOG0123|consen 78 LVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLF 150 (369)
T ss_pred eeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeec
Confidence 399999999999999999999999999999974 3678 99999999999999999999999999988543
No 72
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.02 E-value=3.7e-09 Score=67.36 Aligned_cols=74 Identities=32% Similarity=0.501 Sum_probs=65.1
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC-----CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP-----GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
....+|+|.|||+.+.+++|+++|..|+.+..+.+.. ..|.|-|.|...++|.++++.+|+..++|+++++...
T Consensus 81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i 159 (243)
T KOG0533|consen 81 TRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEII 159 (243)
T ss_pred CCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEe
Confidence 3347899999999999999999999999888777762 3589999999999999999999999999999887653
No 73
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.99 E-value=5.1e-10 Score=69.99 Aligned_cols=70 Identities=23% Similarity=0.492 Sum_probs=64.5
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
..+||++||+.+.+.+++.+|..||.+.++.+.. +|+||+|.+..+|..|+.-+|+..+.+..+.|.|++
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 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKN--GFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHAR 71 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceeec--ccceeccCchhhhhcccchhcCceecceeeeeeccc
Confidence 3699999999999999999999999999887774 588999999999999999999999999889999876
No 74
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.98 E-value=1.9e-09 Score=71.76 Aligned_cols=69 Identities=20% Similarity=0.485 Sum_probs=64.4
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
.+|||..+.++.++++|+..|..||+|..|.+- .++||+|++|.+......|+..||-..+.|+.|+|-
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 689999999999999999999999999999885 468999999999999999999999999999988874
No 75
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.98 E-value=3.3e-09 Score=71.60 Aligned_cols=69 Identities=30% Similarity=0.506 Sum_probs=62.3
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe---CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ---PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
..|||| +++++.+|.+.|+++|.+..+++. .+-|+|||.|.++.+|++||+.||-..+.|++|++.|+.
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~ 73 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDATSLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQ 73 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecCCccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhc
Confidence 368998 899999999999999998888765 345899999999999999999999999999999999964
No 76
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.92 E-value=9.8e-09 Score=69.02 Aligned_cols=73 Identities=26% Similarity=0.389 Sum_probs=66.4
Q ss_pred ccEEEEcCCCC-CcCHHHHHHHhhcCCCeeEEEEeCC-CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 32 SRHLWVGNLSH-NIEEANLTDQFLRFGELESVAFQPG-RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 32 ~~~l~v~nl~~-~~~~~~l~~~f~~~g~i~~~~~~~~-~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
+..|.|.||.. .++.+.|..+|.-||+|.+++|..+ +-.|.|.|.+...|+.|++.|+|..+.|++|+|.++|
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCcceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 57899999875 5899999999999999999999854 4699999999999999999999999999999999986
No 77
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.92 E-value=1.4e-08 Score=62.73 Aligned_cols=76 Identities=20% Similarity=0.395 Sum_probs=64.7
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcC-CCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEE
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRF-GELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRI 100 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~-g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v 100 (105)
.......++|..+|..+.+..|..+|.++ |.+..+++-+ ++|||||+|++.+.|..|-+.||+.-+.++.|.+
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 34445679999999999999999999998 5577777742 4799999999999999999999999999998888
Q ss_pred Eec
Q 036554 101 EFA 103 (105)
Q Consensus 101 ~~~ 103 (105)
.+-
T Consensus 125 ~vm 127 (214)
T KOG4208|consen 125 HVM 127 (214)
T ss_pred EEe
Confidence 763
No 78
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.91 E-value=5.1e-09 Score=71.39 Aligned_cols=72 Identities=21% Similarity=0.412 Sum_probs=61.5
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC------CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~------~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
..+|||.|||.+++.++|+++|..||.|....|... .+|+||+|.+...++.++.+ +-..+.+++|.|+..+
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek~ 365 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEKR 365 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEecc
Confidence 355999999999999999999999999988777531 27999999999999999985 4677889999987644
No 79
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.90 E-value=2.1e-09 Score=74.23 Aligned_cols=71 Identities=27% Similarity=0.382 Sum_probs=63.5
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC-CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEE
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP-GRSYAFINFKIEEDAIASMKALQGFPLAGNPLR 99 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~ 99 (105)
+-+..+|+|-|||..+++++|...|..||+|..++... .++.+||+|-+...|++|++.|++..+.|+.|+
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 44568999999999999999999999999999876653 468999999999999999999999998887765
No 80
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.90 E-value=2.9e-08 Score=65.45 Aligned_cols=75 Identities=21% Similarity=0.268 Sum_probs=64.5
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeE--------EEEe-----CCCcEEEEEeCCHHHHHHHHHHhcCCccCCc
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELES--------VAFQ-----PGRSYAFINFKIEEDAIASMKALQGFPLAGN 96 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~--------~~~~-----~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~ 96 (105)
.....|||.|||.++|.+++..+|+.+|-|.. |++. +.+|-+.+.|-..++++.|++.|++..+.|+
T Consensus 132 ~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~ 211 (382)
T KOG1548|consen 132 KVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGK 211 (382)
T ss_pred ccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCc
Confidence 34567999999999999999999999997643 4444 2478999999999999999999999999999
Q ss_pred eEEEEecc
Q 036554 97 PLRIEFAK 104 (105)
Q Consensus 97 ~l~v~~~k 104 (105)
.|+|+-|+
T Consensus 212 ~~rVerAk 219 (382)
T KOG1548|consen 212 KLRVERAK 219 (382)
T ss_pred EEEEehhh
Confidence 99998664
No 81
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.83 E-value=1.7e-07 Score=62.74 Aligned_cols=78 Identities=22% Similarity=0.329 Sum_probs=69.7
Q ss_pred CCCCCccEEEEcCCCC-CcCHHHHHHHhhcCCCeeEEEEeCC-CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 27 ANTPPSRHLWVGNLSH-NIEEANLTDQFLRFGELESVAFQPG-RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 27 ~~~~~~~~l~v~nl~~-~~~~~~l~~~f~~~g~i~~~~~~~~-~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
....+++.++|.+|.. .++.+.|..+|..||.|.++++++. .+-|.|++.+..+.++|+..||+..+-|.+|.|+.+|
T Consensus 282 ~g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~Sk 361 (494)
T KOG1456|consen 282 GGGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSK 361 (494)
T ss_pred CCCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecccceeEEEcCcHHHHHHHHHHhccCccccceEEEeecc
Confidence 4455678999999985 5889999999999999999999865 4899999999999999999999999999999998876
No 82
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.82 E-value=4.6e-08 Score=65.33 Aligned_cols=75 Identities=25% Similarity=0.274 Sum_probs=63.8
Q ss_pred CccEEEEc--CCCCCcCHHHHHHHhhcCCCeeEEEEeCCCc-EEEEEeCCHHHHHHHHHHhcCCccC-C-ceEEEEeccC
Q 036554 31 PSRHLWVG--NLSHNIEEANLTDQFLRFGELESVAFQPGRS-YAFINFKIEEDAIASMKALQGFPLA-G-NPLRIEFAKA 105 (105)
Q Consensus 31 ~~~~l~v~--nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g-~~fv~f~~~~~a~~a~~~l~~~~~~-g-~~l~v~~~k~ 105 (105)
+...|.+. |--+.++.+.|..++...|+|.+|.|.+..+ .|.|+|++.+.|++|...|||..|. | +.|+|+||||
T Consensus 119 pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP 198 (494)
T KOG1456|consen 119 PNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKP 198 (494)
T ss_pred CCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEeccceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCc
Confidence 34555555 5556789999999999999999998886555 8999999999999999999999877 4 7899999997
No 83
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.82 E-value=2.3e-09 Score=66.82 Aligned_cols=74 Identities=20% Similarity=0.316 Sum_probs=65.5
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC----CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG----RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~----~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
.+..++|||+|+...++++-|.++|-..|.|..+.|.+. ..||||.|.++..+..|++.+||..+.++.+.+.+
T Consensus 6 ae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~ 83 (267)
T KOG4454|consen 6 AEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEEQRTL 83 (267)
T ss_pred cchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchhhccc
Confidence 445689999999999999999999999999999988742 13999999999999999999999999988887765
No 84
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.79 E-value=6.5e-08 Score=60.45 Aligned_cols=78 Identities=32% Similarity=0.567 Sum_probs=69.9
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC-CcEEEEEeCCHHHHHHHHHHhcCCccC-CceEEEEeccC
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG-RSYAFINFKIEEDAIASMKALQGFPLA-GNPLRIEFAKA 105 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~-~g~~fv~f~~~~~a~~a~~~l~~~~~~-g~~l~v~~~k~ 105 (105)
..++...+++.|||..++.+.+..+|.+|....+++++.. .+.|||+|.+...+..|...+++..|. ...+.|.++++
T Consensus 142 ~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a~K 221 (221)
T KOG4206|consen 142 MAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRSGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFAKK 221 (221)
T ss_pred CCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCCCceeEEecchhhhhHHHhhhhccceeccCceEEecccCC
Confidence 3667789999999999999999999999999999988864 579999999999999999999998887 78899998864
No 85
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.79 E-value=7.8e-09 Score=68.17 Aligned_cols=70 Identities=26% Similarity=0.480 Sum_probs=59.0
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
..++|||++|+++++++.|+..|.+||+|.++.+++ .++|+||+|.+.+...+++. ...+.|.|+.|.+.
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k 80 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPK 80 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccce
Confidence 568999999999999999999999999999998874 46899999999998888877 34456777665543
No 86
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=98.76 E-value=2.2e-07 Score=51.57 Aligned_cols=72 Identities=21% Similarity=0.319 Sum_probs=56.6
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcC--CCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccC----CceEEE
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRF--GELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLA----GNPLRI 100 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~--g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~----g~~l~v 100 (105)
++|+|.|+|-..+.++|.+.+... |....+.++ .+.|+|||.|.+.+.+....+.++|..+. .+...|
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i 81 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI 81 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence 589999999999999998888754 333333332 34699999999999999999999998665 355677
Q ss_pred Eecc
Q 036554 101 EFAK 104 (105)
Q Consensus 101 ~~~k 104 (105)
.||+
T Consensus 82 ~yAr 85 (97)
T PF04059_consen 82 SYAR 85 (97)
T ss_pred ehhH
Confidence 7764
No 87
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.68 E-value=6.4e-08 Score=61.62 Aligned_cols=74 Identities=19% Similarity=0.407 Sum_probs=65.2
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
..+...+||+|+...++.+.+...|+.||.+..+.+. ..++++||+|.+.+.++.++. |++..|.++.+.|.+
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 4456899999999999988899999999999766665 247899999999999999999 999999999998876
Q ss_pred c
Q 036554 103 A 103 (105)
Q Consensus 103 ~ 103 (105)
.
T Consensus 177 ~ 177 (231)
T KOG4209|consen 177 K 177 (231)
T ss_pred e
Confidence 4
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=98.66 E-value=5.1e-07 Score=48.50 Aligned_cols=67 Identities=25% Similarity=0.344 Sum_probs=46.9
Q ss_pred cEEEEcCCCCCcCHHHH----HHHhhcCCC-eeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 33 RHLWVGNLSHNIEEANL----TDQFLRFGE-LESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l----~~~f~~~g~-i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
..|+|.|||.+.+...| +.+...+|. |..+ . .+.|++.|.+.+.|++|.+.|+|-.+-|+.|.|.|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~--~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~ 74 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--S--GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFS 74 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--e--CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEc
Confidence 46899999998877666 455557775 5554 2 479999999999999999999999999999999986
No 89
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.64 E-value=6.7e-08 Score=63.81 Aligned_cols=73 Identities=21% Similarity=0.422 Sum_probs=62.0
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
.+.++||++||.+++++++++.|.+||.|..+.++ +.++|+||+|.+.+.+..++. ..-+.|.++.+.|.-|-
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~ 174 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAI 174 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeecc
Confidence 45699999999999999999999999988877665 357999999999999988866 45678889888887654
No 90
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=98.63 E-value=3.1e-07 Score=51.86 Aligned_cols=68 Identities=22% Similarity=0.433 Sum_probs=44.4
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCC-----ccCCceEEE
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGF-----PLAGNPLRI 100 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~-----~~~g~~l~v 100 (105)
..|.|.+++..++.++|+..|.+||.|..|.+..+...+||-|.+.+.|+.++..+... .+.+..+.+
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~ 74 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTL 74 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEE
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEE
Confidence 57889999999999999999999999999999988889999999999999999976543 444554444
No 91
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.59 E-value=8.6e-08 Score=64.60 Aligned_cols=77 Identities=25% Similarity=0.461 Sum_probs=64.9
Q ss_pred CCCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCC--ccCCceEEEEec
Q 036554 27 ANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGF--PLAGNPLRIEFA 103 (105)
Q Consensus 27 ~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~--~~~g~~l~v~~~ 103 (105)
+...+++.|+++|||++++|+++..++.+||.|..+.+.+++..||++|.+.+.|...+...... .+.+++|.|.|+
T Consensus 23 ~~~~pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkGknQAflem~d~~sAvtmv~~y~~~~p~lr~~~~yiq~s 101 (492)
T KOG1190|consen 23 SMAEPSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKGKNQAFLEMADEESAVTMVNYYTSVTPVLRGQPIYIQYS 101 (492)
T ss_pred cccCCcceeEeccCCccccHHHHHHhcccccceeeeeeeccchhhhhhhcchhhhhheeecccccCccccCcceeehhh
Confidence 44557899999999999999999999999999999999999999999999999988755555444 355778887764
No 92
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.51 E-value=2.1e-07 Score=58.40 Aligned_cols=72 Identities=32% Similarity=0.462 Sum_probs=62.6
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
....+.+.|.+++..+.+++|.+.|.++|.+....+ ..+++||.|...+++..|+..|++..+.++.|.+..
T Consensus 96 ~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~ 167 (216)
T KOG0106|consen 96 SRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEK 167 (216)
T ss_pred ccccceeeeccchhhhhHHHHhhhhcccCCCchhhh--hccccceeehhhhhhhhcchhccchhhcCceeeecc
Confidence 344578999999999999999999999999854434 467999999999999999999999999999988743
No 93
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.50 E-value=1.8e-07 Score=58.77 Aligned_cols=62 Identities=29% Similarity=0.444 Sum_probs=53.4
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC--CCcEEEEEeCCHHHHHHHHHHhcCCccC
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP--GRSYAFINFKIEEDAIASMKALQGFPLA 94 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~--~~g~~fv~f~~~~~a~~a~~~l~~~~~~ 94 (105)
.+|||-||..+++|++|+.+|..|.....++|.. +..+||++|+..+.|+.||..|+|.-|.
T Consensus 211 stlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 211 STLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred hhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHHHHHHHHHHHHhhcceec
Confidence 5899999999999999999999998866666653 3459999999999999999999986544
No 94
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.46 E-value=1.4e-06 Score=59.89 Aligned_cols=70 Identities=17% Similarity=0.268 Sum_probs=56.9
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe----CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ----PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
.....|-+.+|||.+|+++|.++|..++ |..+.+. +..|.|||+|.+.++++.|++ .+...+..+-|.|-
T Consensus 8 ~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf 81 (510)
T KOG4211|consen 8 STAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVF 81 (510)
T ss_pred CcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEE
Confidence 3446788889999999999999999887 5666555 346899999999999999999 57677777777663
No 95
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.39 E-value=1.5e-06 Score=57.65 Aligned_cols=76 Identities=17% Similarity=0.330 Sum_probs=64.2
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeE--------EEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccC
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELES--------VAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLA 94 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~--------~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~ 94 (105)
.....+|||.+||..+++++|.++|.+++.|.. +.+. ..|+-|.|+|.+...|+.|+.-+++..+.
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 445679999999999999999999999986532 2221 35789999999999999999999999999
Q ss_pred CceEEEEecc
Q 036554 95 GNPLRIEFAK 104 (105)
Q Consensus 95 g~~l~v~~~k 104 (105)
+.+|+|.+|+
T Consensus 143 gn~ikvs~a~ 152 (351)
T KOG1995|consen 143 GNTIKVSLAE 152 (351)
T ss_pred CCCchhhhhh
Confidence 9999998764
No 96
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.30 E-value=3.2e-05 Score=47.58 Aligned_cols=63 Identities=14% Similarity=0.172 Sum_probs=55.8
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccC
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLA 94 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~ 94 (105)
....|.|.+||+..++++|+++..+.|++....+.+. +.+.|+|...++.+-|+..|....+.
T Consensus 114 Se~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-g~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 114 SEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-GVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred cceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-cceeeeeeehhhHHHHHHhhcccccc
Confidence 3468999999999999999999999999988877763 69999999999999999999887655
No 97
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=98.28 E-value=4.5e-06 Score=41.41 Aligned_cols=52 Identities=15% Similarity=0.437 Sum_probs=43.3
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHH
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASM 85 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~ 85 (105)
+.|-|.+.+++.. +.+..+|..+|+|.+..+.......++.|.++.+|+.|+
T Consensus 2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVPESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcCCCCcEEEEEECCHHHHHhhC
Confidence 4577888887655 556668889999999988866789999999999999885
No 98
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.27 E-value=4.9e-06 Score=55.30 Aligned_cols=72 Identities=18% Similarity=0.420 Sum_probs=59.0
Q ss_pred ccEEEEcCCCCCcCHHH----H--HHHhhcCCCeeEEEEeCC-------Cc--EEEEEeCCHHHHHHHHHHhcCCccCCc
Q 036554 32 SRHLWVGNLSHNIEEAN----L--TDQFLRFGELESVAFQPG-------RS--YAFINFKIEEDAIASMKALQGFPLAGN 96 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~----l--~~~f~~~g~i~~~~~~~~-------~g--~~fv~f~~~~~a~~a~~~l~~~~~~g~ 96 (105)
..-+||-+|++.+..++ | .++|.+||.|..+.+.+. .+ -.|++|.+.++|.+|+...+|..++|+
T Consensus 114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr 193 (480)
T COG5175 114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGR 193 (480)
T ss_pred cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCc
Confidence 45689999988766554 2 578999999999888642 12 349999999999999999999999999
Q ss_pred eEEEEec
Q 036554 97 PLRIEFA 103 (105)
Q Consensus 97 ~l~v~~~ 103 (105)
.|+..|.
T Consensus 194 ~lkatYG 200 (480)
T COG5175 194 VLKATYG 200 (480)
T ss_pred eEeeecC
Confidence 9998774
No 99
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.24 E-value=2.1e-06 Score=54.82 Aligned_cols=71 Identities=17% Similarity=0.498 Sum_probs=60.8
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
...+||-+.|.-+++++.+-..|.+|-.....+++ +.+||+||.|.+..++.+||..|+|.+++.++|+++
T Consensus 189 ~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklR 265 (290)
T KOG0226|consen 189 DDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLR 265 (290)
T ss_pred ccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhh
Confidence 34789999999999999999999998765444443 567999999999999999999999999999988764
No 100
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=98.20 E-value=2.2e-06 Score=60.36 Aligned_cols=77 Identities=21% Similarity=0.299 Sum_probs=63.3
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhh-cCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccC---CceEEEEec
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFL-RFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLA---GNPLRIEFA 103 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~-~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~---g~~l~v~~~ 103 (105)
..+++..|+|.||-..+|.-.|+.++. ..|.|....|.+.+.+|||.|.+.++|.+...+|||..+- .+-|.+.|.
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDkIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~ 519 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDKIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFV 519 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHHHHHHhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeec
Confidence 455678999999999999999999999 4556777755577889999999999999999999997543 466777775
Q ss_pred c
Q 036554 104 K 104 (105)
Q Consensus 104 k 104 (105)
.
T Consensus 520 ~ 520 (718)
T KOG2416|consen 520 R 520 (718)
T ss_pred c
Confidence 3
No 101
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.15 E-value=3.9e-06 Score=58.51 Aligned_cols=72 Identities=19% Similarity=0.381 Sum_probs=64.5
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
...++|++||...++..+.+++..||.+....+. .+++|||.+|.+......|+..|||+-+.+..|.|..|
T Consensus 289 ~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A 366 (500)
T KOG0120|consen 289 PNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRA 366 (500)
T ss_pred cchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehh
Confidence 4689999999999999999999999998776665 25789999999999999999999999999999988765
No 102
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.10 E-value=6e-06 Score=60.48 Aligned_cols=78 Identities=28% Similarity=0.573 Sum_probs=70.2
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCC--ceEEEEeccC
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAG--NPLRIEFAKA 105 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~~k~ 105 (105)
...+++.+|+++|..+.....+...|..||.|..|.+.....|+|+.|++...++.|+..|-+..+.+ +.|.|.|+++
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~ 530 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASP 530 (975)
T ss_pred ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecccCCcceeeecccCccchhhHHHHhcCcCCCCCcccccccccC
Confidence 45567899999999999999999999999999999888888899999999999999999999998885 6688888763
No 103
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.10 E-value=2.4e-05 Score=52.03 Aligned_cols=74 Identities=18% Similarity=0.325 Sum_probs=60.0
Q ss_pred CCCccEEEEcCCCC----CcC-------HHHHHHHhhcCCCeeEEEEe--CCCcEEEEEeCCHHHHHHHHHHhcCCccCC
Q 036554 29 TPPSRHLWVGNLSH----NIE-------EANLTDQFLRFGELESVAFQ--PGRSYAFINFKIEEDAIASMKALQGFPLAG 95 (105)
Q Consensus 29 ~~~~~~l~v~nl~~----~~~-------~~~l~~~f~~~g~i~~~~~~--~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g 95 (105)
....++|.+.|+-. ..+ .++|+.-+.+||.|..|.+. .+.|.+-|.|.+.+.|..|++.|+|..+.|
T Consensus 262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdg 341 (382)
T KOG1548|consen 262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDG 341 (382)
T ss_pred ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecc
Confidence 44457898998632 222 35667778999999999887 457899999999999999999999999999
Q ss_pred ceEEEEe
Q 036554 96 NPLRIEF 102 (105)
Q Consensus 96 ~~l~v~~ 102 (105)
+.|....
T Consensus 342 Rql~A~i 348 (382)
T KOG1548|consen 342 RQLTASI 348 (382)
T ss_pred eEEEEEE
Confidence 9988654
No 104
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.08 E-value=2.2e-05 Score=54.29 Aligned_cols=70 Identities=11% Similarity=0.175 Sum_probs=54.0
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeE-EEEe-----CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELES-VAFQ-----PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~-~~~~-----~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
....|-+.+||+.+++++|.++|+..--+.. +.++ +..+.|||.|++.+.|+.|+. -|...|..+-|.|-
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF 177 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVF 177 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEee
Confidence 3468999999999999999999987654443 2222 345899999999999999998 36666777766653
No 105
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.03 E-value=2.1e-05 Score=54.95 Aligned_cols=74 Identities=18% Similarity=0.325 Sum_probs=59.5
Q ss_pred CCCccEEEEcCCCC-------CcCH---HHHHHHhhcCCCeeEEEEeCCC-cEEEEEeCCHHHHHHHHHHhcCCccCCce
Q 036554 29 TPPSRHLWVGNLSH-------NIEE---ANLTDQFLRFGELESVAFQPGR-SYAFINFKIEEDAIASMKALQGFPLAGNP 97 (105)
Q Consensus 29 ~~~~~~l~v~nl~~-------~~~~---~~l~~~f~~~g~i~~~~~~~~~-g~~fv~f~~~~~a~~a~~~l~~~~~~g~~ 97 (105)
..++..+.+.|+=. ++.+ +++.+.+.++|.|.+|.+.++. |+.||.|.+.+.|..|+..|||.-|.|+.
T Consensus 440 ~i~t~C~lL~nMFdpstete~n~d~eI~edV~Eec~k~g~v~hi~vd~ns~g~VYvrc~s~~~A~~a~~alhgrWF~gr~ 519 (549)
T KOG0147|consen 440 DIPTQCLLLSNMFDPSTETEPNWDQEIREDVIEECGKHGKVCHIFVDKNSAGCVYVRCPSAEAAGTAVKALHGRWFAGRM 519 (549)
T ss_pred CCccHHHHHhhcCCcccccCcchhhHHHHHHHHHHHhcCCeeEEEEccCCCceEEEecCcHHHHHHHHHHHhhhhhccce
Confidence 35666677777521 1221 4666777899999999998765 99999999999999999999999999999
Q ss_pred EEEEe
Q 036554 98 LRIEF 102 (105)
Q Consensus 98 l~v~~ 102 (105)
|.+.|
T Consensus 520 Ita~~ 524 (549)
T KOG0147|consen 520 ITAKY 524 (549)
T ss_pred eEEEE
Confidence 98876
No 106
>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=98.02 E-value=5e-05 Score=42.48 Aligned_cols=70 Identities=13% Similarity=0.219 Sum_probs=51.1
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEE-------------EeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCce-
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVA-------------FQPGRSYAFINFKIEEDAIASMKALQGFPLAGNP- 97 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~-------------~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~- 97 (105)
.+-|.|-+.|+. ....+...|++||.|.+.. .....+...+.|.++.+|.+||. -||..+.|..
T Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~m 83 (100)
T PF05172_consen 6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLM 83 (100)
T ss_dssp CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEE
T ss_pred CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEE
Confidence 345778888877 5578888999999987764 44556799999999999999999 6999888754
Q ss_pred EEEEec
Q 036554 98 LRIEFA 103 (105)
Q Consensus 98 l~v~~~ 103 (105)
+-|.|.
T Consensus 84 vGV~~~ 89 (100)
T PF05172_consen 84 VGVKPC 89 (100)
T ss_dssp EEEEE-
T ss_pred EEEEEc
Confidence 446654
No 107
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.00 E-value=0.00015 Score=52.46 Aligned_cols=70 Identities=14% Similarity=0.257 Sum_probs=58.5
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCee-EEEEe-----CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELE-SVAFQ-----PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~-~~~~~-----~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
+.|-+.|+|++++-++|.++|..|-.+. .|.+. ...|.|.|.|++.++|.+|...|++..|..+.+++..
T Consensus 868 ~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 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 3788999999999999999999887542 23332 2358999999999999999999999999999988764
No 108
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.95 E-value=4.8e-05 Score=53.25 Aligned_cols=76 Identities=21% Similarity=0.393 Sum_probs=58.2
Q ss_pred CCCCccEEEEcCCCC--C-cCH-------HHHHHHhhcCCCeeEEEEeC---------CCcEEEEEeCCHHHHHHHHHHh
Q 036554 28 NTPPSRHLWVGNLSH--N-IEE-------ANLTDQFLRFGELESVAFQP---------GRSYAFINFKIEEDAIASMKAL 88 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~--~-~~~-------~~l~~~f~~~g~i~~~~~~~---------~~g~~fv~f~~~~~a~~a~~~l 88 (105)
...++..|.+.|+-. + ..+ ++++..+.+||.|..|.+.. +.|..||+|.+.++++.|++.|
T Consensus 395 ~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L 474 (500)
T KOG0120|consen 395 AGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEEL 474 (500)
T ss_pred CCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHc
Confidence 344566777777421 1 122 35566678899999888864 3478999999999999999999
Q ss_pred cCCccCCceEEEEec
Q 036554 89 QGFPLAGNPLRIEFA 103 (105)
Q Consensus 89 ~~~~~~g~~l~v~~~ 103 (105)
+|..+.++.+...|.
T Consensus 475 ~GrKF~nRtVvtsYy 489 (500)
T KOG0120|consen 475 TGRKFANRTVVASYY 489 (500)
T ss_pred cCceeCCcEEEEEec
Confidence 999999999988874
No 109
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.87 E-value=1.4e-05 Score=54.49 Aligned_cols=62 Identities=23% Similarity=0.278 Sum_probs=54.0
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC-------------------CcEEEEEeCCHHHHHHHHHHhcC
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG-------------------RSYAFINFKIEEDAIASMKALQG 90 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~-------------------~g~~fv~f~~~~~a~~a~~~l~~ 90 (105)
-++++|.+.|||.+-.-+.|.++|..+|.|..|+|.+. +-+|+|+|...+.|..|.+.|+.
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 36799999999998888999999999999999998642 45899999999999999998754
Q ss_pred C
Q 036554 91 F 91 (105)
Q Consensus 91 ~ 91 (105)
.
T Consensus 309 e 309 (484)
T KOG1855|consen 309 E 309 (484)
T ss_pred h
Confidence 3
No 110
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.81 E-value=1.6e-05 Score=50.87 Aligned_cols=66 Identities=20% Similarity=0.387 Sum_probs=56.4
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC------------------CcEEEEEeCCHHHHHHHHHHhcCCcc
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------------------RSYAFINFKIEEDAIASMKALQGFPL 93 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~------------------~g~~fv~f~~~~~a~~a~~~l~~~~~ 93 (105)
.-.||++++|+.++...++.+|..||.|-+|.+.+. -..+.|+|.+...|..+...||+..|
T Consensus 74 ~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~I 153 (278)
T KOG3152|consen 74 TGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPI 153 (278)
T ss_pred ceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCcc
Confidence 368999999999999999999999999999887521 12456899999999999999999998
Q ss_pred CCce
Q 036554 94 AGNP 97 (105)
Q Consensus 94 ~g~~ 97 (105)
.|+.
T Consensus 154 ggkk 157 (278)
T KOG3152|consen 154 GGKK 157 (278)
T ss_pred CCCC
Confidence 8753
No 111
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.71 E-value=0.00016 Score=50.39 Aligned_cols=56 Identities=32% Similarity=0.618 Sum_probs=45.7
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe---------CCCc---EEEEEeCCHHHHHHHHHHh
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ---------PGRS---YAFINFKIEEDAIASMKAL 88 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---------~~~g---~~fv~f~~~~~a~~a~~~l 88 (105)
+++||||+||++++|+.|...|..||.+ .+.+. ..+| |+|+.|+++..+...+...
T Consensus 259 S~KVFvGGlp~dise~~i~~~F~~FGs~-~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129|consen 259 SRKVFVGGLPWDITEAQINASFGQFGSV-KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred ccceeecCCCccccHHHHHhhcccccce-EeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence 5799999999999999999999999974 23332 2356 9999999999888877644
No 112
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=97.70 E-value=0.00065 Score=36.61 Aligned_cols=55 Identities=16% Similarity=0.355 Sum_probs=41.2
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhc
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQ 89 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~ 89 (105)
.+..+|+ .|..+...+|..+|++||.|. |.++. ---|||....++.+..++..+.
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~-dTSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWIN-DTSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCEE-EEEEC-TTEEEEEECCCHHHHHHHHHHT
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEc-CCcEEEEeecHHHHHHHHHHhc
Confidence 3566666 899999999999999999864 44443 2489999999999999999775
No 113
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.69 E-value=0.00045 Score=41.03 Aligned_cols=72 Identities=25% Similarity=0.509 Sum_probs=51.2
Q ss_pred CCCccEEEEcCCC------CCcCH---HHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEE
Q 036554 29 TPPSRHLWVGNLS------HNIEE---ANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLR 99 (105)
Q Consensus 29 ~~~~~~l~v~nl~------~~~~~---~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~ 99 (105)
.||..+|.|.=+. ..+.+ ..|...|..||.+.-+++... .-.|+|.+-+.|-+|+. ++|..+.|+.|+
T Consensus 24 GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~--~mwVTF~dg~sALaals-~dg~~v~g~~l~ 100 (146)
T PF08952_consen 24 GPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD--TMWVTFRDGQSALAALS-LDGIQVNGRTLK 100 (146)
T ss_dssp --TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT--CEEEEESSCHHHHHHHH-GCCSEETTEEEE
T ss_pred CCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC--eEEEEECccHHHHHHHc-cCCcEECCEEEE
Confidence 4455666666444 12333 256677888999888888854 77899999999999998 899999999999
Q ss_pred EEec
Q 036554 100 IEFA 103 (105)
Q Consensus 100 v~~~ 103 (105)
|++.
T Consensus 101 i~LK 104 (146)
T PF08952_consen 101 IRLK 104 (146)
T ss_dssp EEE-
T ss_pred EEeC
Confidence 9864
No 114
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=97.58 E-value=8.5e-05 Score=49.80 Aligned_cols=65 Identities=20% Similarity=0.336 Sum_probs=55.0
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCC--eeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCccCCce
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGE--LESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFPLAGNP 97 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~--i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~ 97 (105)
..+||+||-|++++++|.+.+...|- +.++++. .+||||.+...+.......|+.|...+|.|+.
T Consensus 81 ~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~ 153 (498)
T KOG4849|consen 81 YCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQS 153 (498)
T ss_pred EEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCC
Confidence 46999999999999999999888773 4555443 35899999999999999999999999999864
No 115
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.58 E-value=5.5e-05 Score=49.81 Aligned_cols=72 Identities=25% Similarity=0.558 Sum_probs=60.7
Q ss_pred ccEEE-EcCCCCCcCHHHHHHHhhcCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 32 SRHLW-VGNLSHNIEEANLTDQFLRFGELESVAFQP------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 32 ~~~l~-v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
..+++ |++++..+++++|+.+|..+|.|..+++.. .++++|+.|.....+..++.. +...+.++++.+.+.+
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 34455 999999999999999999999999888863 368999999999998888886 7778888888887754
No 116
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=97.57 E-value=8.2e-05 Score=51.41 Aligned_cols=76 Identities=18% Similarity=0.276 Sum_probs=60.5
Q ss_pred CCCccEEEEcCCCCCc-CHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEeccC
Q 036554 29 TPPSRHLWVGNLSHNI-EEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAKA 105 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~-~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k~ 105 (105)
....+.|-+.-.++.. +-++|..+|.+||.|..|.+-.....|.|+|.+..+|-.|.. .++..|+++.|+|.|-+|
T Consensus 369 ~~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnp 445 (526)
T KOG2135|consen 369 VVDHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSSLHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNP 445 (526)
T ss_pred hcccchhhhhccCCCCchHhhhhhhhhhcCccccccccCchhhheeeeeccccccchhc-cccceecCceeEEEEecC
Confidence 3444566666666665 447899999999999999887655689999999999866655 689999999999999654
No 117
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.46 E-value=0.00017 Score=48.90 Aligned_cols=66 Identities=14% Similarity=0.260 Sum_probs=54.6
Q ss_pred EEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC---------CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEE
Q 036554 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQP---------GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRI 100 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~---------~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v 100 (105)
.|.|.||.+.++.+.++.+|...|.|.++.++. ..-.|||.|.+...+..|.- |.+..+-++.|.|
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdraliv 83 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALIV 83 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEEE
Confidence 899999999999999999999999999998863 23589999999888876644 7777666665554
No 118
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.42 E-value=0.00011 Score=47.15 Aligned_cols=57 Identities=23% Similarity=0.465 Sum_probs=46.2
Q ss_pred HHHHHHhh-cCCCeeEEEEeCC-----CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 47 ANLTDQFL-RFGELESVAFQPG-----RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 47 ~~l~~~f~-~~g~i~~~~~~~~-----~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
+++...|. +||+|..+.+-.+ .|-+||.|...++|++|++.||+.-+.|++|...+.
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 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS 145 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence 34455555 8999988766432 578899999999999999999999999999987763
No 119
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.36 E-value=0.00032 Score=48.18 Aligned_cols=70 Identities=26% Similarity=0.355 Sum_probs=55.1
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCC-ccCCceEEEEe
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGF-PLAGNPLRIEF 102 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~-~~~g~~l~v~~ 102 (105)
..+|++||.+..+..+++.+|...--...-.++...+++||.+.+...|..+++.+++. .+.|..+.+..
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~ 72 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEH 72 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeeecceeeccCCchhhhhhhHHhhchhhhhcCceeeccc
Confidence 36899999999999999999875422222233334589999999999999999999985 67788877765
No 120
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.31 E-value=0.00052 Score=46.64 Aligned_cols=70 Identities=14% Similarity=0.131 Sum_probs=56.4
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCC-eeE--EEEe-----CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGE-LES--VAFQ-----PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~-i~~--~~~~-----~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
...|-+.+||+..+.++|..+|..|.. |.. +.+. +..|.|||.|.+.+.|.+|....+.....++.|.|-
T Consensus 280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvf 357 (508)
T KOG1365|consen 280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVF 357 (508)
T ss_pred CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEe
Confidence 457889999999999999999998875 332 4443 346899999999999999999888777777777764
No 121
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.31 E-value=0.0012 Score=46.14 Aligned_cols=59 Identities=19% Similarity=0.329 Sum_probs=51.2
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhh-cCCCeeEEEEeC------CCcEEEEEeCCHHHHHHHHH
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFL-RFGELESVAFQP------GRSYAFINFKIEEDAIASMK 86 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~-~~g~i~~~~~~~------~~g~~fv~f~~~~~a~~a~~ 86 (105)
.-.+.+|||||+||..++.++|-.++. -||.|..+-|.. .+|-+-|+|.+-..--+|+.
T Consensus 366 ~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs 431 (520)
T KOG0129|consen 366 PIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS 431 (520)
T ss_pred ccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence 455678999999999999999999999 799998887753 47899999999998888887
No 122
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.24 E-value=0.0013 Score=43.27 Aligned_cols=57 Identities=19% Similarity=0.296 Sum_probs=47.5
Q ss_pred HHHHHHhhcCCCeeEEEEeCC-------CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 47 ANLTDQFLRFGELESVAFQPG-------RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 47 ~~l~~~f~~~g~i~~~~~~~~-------~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
+++.+.+.+||.|..|.|... .---||+|+..+.|..|+--|||.+|.|+.++.+|.
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fy 364 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFY 364 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheec
Confidence 467788999999988877522 124699999999999999999999999999988874
No 123
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.23 E-value=0.0015 Score=46.45 Aligned_cols=70 Identities=19% Similarity=0.293 Sum_probs=54.4
Q ss_pred ccEEEEcCCCCCc--C----HHHHHHHhhcCCCeeEEEEe-----CCCcEEEEEeCCHHHHHHHHHHhcCCccC-CceEE
Q 036554 32 SRHLWVGNLSHNI--E----EANLTDQFLRFGELESVAFQ-----PGRSYAFINFKIEEDAIASMKALQGFPLA-GNPLR 99 (105)
Q Consensus 32 ~~~l~v~nl~~~~--~----~~~l~~~f~~~g~i~~~~~~-----~~~g~~fv~f~~~~~a~~a~~~l~~~~~~-g~~l~ 99 (105)
...|.|.|+|--- . ...|..+|+++|++....++ ..+|+.|++|.+...|+.|++.|||..++ .+.+.
T Consensus 58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~ 137 (698)
T KOG2314|consen 58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFF 137 (698)
T ss_pred ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEE
Confidence 3678899988532 1 23457789999998877775 24789999999999999999999999877 56666
Q ss_pred EE
Q 036554 100 IE 101 (105)
Q Consensus 100 v~ 101 (105)
|.
T Consensus 138 v~ 139 (698)
T KOG2314|consen 138 VR 139 (698)
T ss_pred ee
Confidence 54
No 124
>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=97.13 E-value=0.0023 Score=39.66 Aligned_cols=60 Identities=20% Similarity=0.252 Sum_probs=47.0
Q ss_pred CHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhc--CCccCCceEEEEecc
Q 036554 45 EEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQ--GFPLAGNPLRIEFAK 104 (105)
Q Consensus 45 ~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~--~~~~~g~~l~v~~~k 104 (105)
..+.|+.+|..++.+..+..+++-+-..|.|.+.+.|..+...|+ +..+.|..+++-|+.
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~ 69 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQ 69 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE---
T ss_pred hHHHHHHHHHhcCCceEEEEcCCCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcc
Confidence 457899999999998888888877788999999999999999999 889999999988764
No 125
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.09 E-value=0.0091 Score=30.47 Aligned_cols=55 Identities=15% Similarity=0.245 Sum_probs=42.9
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcC---CCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHh
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRF---GELESVAFQPGRSYAFINFKIEEDAIASMKAL 88 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~---g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l 88 (105)
..+|+|.++. +++.++|+.+|..| .....+.++.. .-|-|.|.+...|.+|+..|
T Consensus 5 peavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdD-tScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDD-TSCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecC-CcEEEEECCHHHHHHHHHcC
Confidence 3579999985 57889999999998 12466777653 26778999999999998754
No 126
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.88 E-value=0.0002 Score=52.92 Aligned_cols=75 Identities=21% Similarity=0.369 Sum_probs=61.8
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC-----CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG-----RSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~-----~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
....+++||++||+..+++.+|+..|..+|.+.+|.|... .-++|+.|.+..++..++..+.+..|....+++.+
T Consensus 368 D~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~gl 447 (975)
T KOG0112|consen 368 DFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGL 447 (975)
T ss_pred chhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCcccccc
Confidence 3445789999999999999999999999999999888642 35999999999999999998888776644444443
No 127
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=96.84 E-value=0.023 Score=33.87 Aligned_cols=75 Identities=24% Similarity=0.388 Sum_probs=53.4
Q ss_pred CCCCCccEEEEcCCCCCc----CHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 27 ANTPPSRHLWVGNLSHNI----EEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 27 ~~~~~~~~l~v~nl~~~~----~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
..++|-.+|.|.=|...+ +...+...++.||.|..+.+. ++.-|.|.|.+...|-.|+.+++. ..-|..+...|
T Consensus 81 ~kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-GrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsW 158 (166)
T PF15023_consen 81 TKEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-GRQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSW 158 (166)
T ss_pred CCCCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-CCceEEEEehhhHHHHHHHHhhcC-CCCCceEEeec
Confidence 345666788887555443 334555667789999887554 467999999999999999998886 34455666666
Q ss_pred c
Q 036554 103 A 103 (105)
Q Consensus 103 ~ 103 (105)
-
T Consensus 159 q 159 (166)
T PF15023_consen 159 Q 159 (166)
T ss_pred c
Confidence 3
No 128
>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=96.83 E-value=0.022 Score=29.97 Aligned_cols=66 Identities=17% Similarity=0.322 Sum_probs=38.6
Q ss_pred EEEc-CCCCCcCHHHHHHHhhcCCC-----eeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEec
Q 036554 35 LWVG-NLSHNIEEANLTDQFLRFGE-----LESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFA 103 (105)
Q Consensus 35 l~v~-nl~~~~~~~~l~~~f~~~g~-----i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~ 103 (105)
+||. +--..++..+|..++...+. |-.+.+... ++||+-.. +.++.+++.|++..+.|++++|+.|
T Consensus 3 l~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~--~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 3 LFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFDN--FSFVEVPE-EVAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp EEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-SS---EEEEE-T-T-HHHHHHHHTT--SSS----EEE-
T ss_pred EEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEeee--EEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence 4443 23456788888888887654 566767654 88988875 4778899999999999999999864
No 129
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=96.76 E-value=0.011 Score=39.09 Aligned_cols=53 Identities=15% Similarity=0.222 Sum_probs=44.5
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCC-eeEEEEeCCCcEEEEEeCCHHH
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGE-LESVAFQPGRSYAFINFKIEED 80 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~-i~~~~~~~~~g~~fv~f~~~~~ 80 (105)
..+...-|+++||+.++.-.+|+..+.+.+. ...+.|.-+.+-||+.|.+...
T Consensus 326 ~a~~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg~~~k~flh~~~~~~ 379 (396)
T KOG4410|consen 326 EAGAKTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKGHFGKCFLHFGNRKG 379 (396)
T ss_pred cCccccceeeccCccccchHHHHHHHHhcCCCceeEeeecCCcceeEecCCccC
Confidence 3444567999999999999999999999887 4788888888999999987643
No 130
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.44 E-value=0.0063 Score=44.49 Aligned_cols=76 Identities=14% Similarity=0.153 Sum_probs=58.5
Q ss_pred CCCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeE-EEEe-----CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEE
Q 036554 27 ANTPPSRHLWVGNLSHNIEEANLTDQFLRFGELES-VAFQ-----PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRI 100 (105)
Q Consensus 27 ~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~-~~~~-----~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v 100 (105)
...+.+..|||..||..+++..+.++|.....|++ |.+- +.++.|||.|....++..|...-+..++..+.|+|
T Consensus 429 ~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv 508 (944)
T KOG4307|consen 429 FPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRV 508 (944)
T ss_pred CCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEe
Confidence 45556789999999999999999999988777766 4443 23579999999977777666545666777788888
Q ss_pred Ee
Q 036554 101 EF 102 (105)
Q Consensus 101 ~~ 102 (105)
+-
T Consensus 509 ~s 510 (944)
T KOG4307|consen 509 DS 510 (944)
T ss_pred ec
Confidence 64
No 131
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=96.35 E-value=0.0036 Score=46.44 Aligned_cols=64 Identities=30% Similarity=0.449 Sum_probs=55.0
Q ss_pred CCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccC--CceEEEEeccC
Q 036554 42 HNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLA--GNPLRIEFAKA 105 (105)
Q Consensus 42 ~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~--g~~l~v~~~k~ 105 (105)
-..+...|-.+|..||.+.....++.-.+|.|+|.+.+.|..|+++++|+.+. |-+.+|.+||+
T Consensus 308 v~~tSssL~~l~s~yg~v~s~wtlr~~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~ 373 (1007)
T KOG4574|consen 308 VNLTSSSLATLCSDYGSVASAWTLRDLNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKT 373 (1007)
T ss_pred ccchHHHHHHHHHhhcchhhheecccccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccc
Confidence 34566778889999999999988888889999999999999999999998644 77889988874
No 132
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=96.31 E-value=0.0039 Score=44.99 Aligned_cols=70 Identities=17% Similarity=0.259 Sum_probs=60.0
Q ss_pred CCCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEE
Q 036554 28 NTPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRI 100 (105)
Q Consensus 28 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v 100 (105)
+.++..++||+|+...+..+-+...+..+|-|..+...+ |+|..|.......+++..++-..+++..+.+
T Consensus 36 ~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~ 105 (668)
T KOG2253|consen 36 PLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---FGFCEFLKHIGDLRASRLLTELNIDDQKLIE 105 (668)
T ss_pred CCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---hcccchhhHHHHHHHHHHhcccCCCcchhhc
Confidence 455678999999999999999999999999887765554 9999999999999999999888888776554
No 133
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.29 E-value=0.002 Score=47.56 Aligned_cols=70 Identities=11% Similarity=0.112 Sum_probs=57.7
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe-----CCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ-----PGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
...++|.|+|+..|.+.++.++..+|.+..+.++ +.+|.++|.|.+...+..+........+.-..+.|.
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~ 810 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQ 810 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCcccc
Confidence 4679999999999999999999999998887765 357899999999999999888777666554444443
No 134
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=95.86 E-value=0.058 Score=35.91 Aligned_cols=61 Identities=15% Similarity=0.214 Sum_probs=47.7
Q ss_pred EEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCce
Q 036554 35 LWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNP 97 (105)
Q Consensus 35 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~ 97 (105)
|-|-+.|+. ....|..+|..||.|.+......-.+-+|-|.++-+|+.||. .++..|++..
T Consensus 200 VTVfGFppg-~~s~vL~~F~~cG~Vvkhv~~~ngNwMhirYssr~~A~KALs-kng~ii~g~v 260 (350)
T KOG4285|consen 200 VTVFGFPPG-QVSIVLNLFSRCGEVVKHVTPSNGNWMHIRYSSRTHAQKALS-KNGTIIDGDV 260 (350)
T ss_pred EEEeccCcc-chhHHHHHHHhhCeeeeeecCCCCceEEEEecchhHHHHhhh-hcCeeeccce
Confidence 445566654 346788899999998877665545689999999999999999 5888888754
No 135
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=95.76 E-value=0.15 Score=35.14 Aligned_cols=60 Identities=20% Similarity=0.225 Sum_probs=43.1
Q ss_pred EEEEcCCCCCcCHHHHHHHhhcC---C-CeeEEEEe-----CCCcEEEEEeCCHHHHHHHHHHhcCCccC
Q 036554 34 HLWVGNLSHNIEEANLTDQFLRF---G-ELESVAFQ-----PGRSYAFINFKIEEDAIASMKALQGFPLA 94 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~~---g-~i~~~~~~-----~~~g~~fv~f~~~~~a~~a~~~l~~~~~~ 94 (105)
.|-+.+||++.++.++.++|.+- + ....+.++ +..|-|||.|..++.|+.|+.. |...+.
T Consensus 163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iG 231 (508)
T KOG1365|consen 163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRK-HRQNIG 231 (508)
T ss_pred EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHH-HHHHHh
Confidence 45566899999999999999632 2 23344343 2358999999999999999884 444333
No 136
>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=95.74 E-value=0.016 Score=35.73 Aligned_cols=64 Identities=22% Similarity=0.274 Sum_probs=43.7
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhc-CCCe---eEEEEe--------CCCcEEEEEeCCHHHHHHHHHHhcCCccC
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLR-FGEL---ESVAFQ--------PGRSYAFINFKIEEDAIASMKALQGFPLA 94 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~-~g~i---~~~~~~--------~~~g~~fv~f~~~~~a~~a~~~l~~~~~~ 94 (105)
...+|.|.+||+..+++++...+.+ ++.- ..+.-. ....-||+.|.+.+++......++|..+.
T Consensus 6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~ 81 (176)
T PF03467_consen 6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFV 81 (176)
T ss_dssp ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE
T ss_pred cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEE
Confidence 4568999999999999999887776 5543 222211 11358999999999999999999997654
No 137
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=95.66 E-value=0.0046 Score=41.28 Aligned_cols=71 Identities=20% Similarity=0.433 Sum_probs=53.6
Q ss_pred cEEEEcCCCCCcCHHHH---HHHhhcCCCeeEEEEeCC---------CcEEEEEeCCHHHHHHHHHHhcCCccCCceEEE
Q 036554 33 RHLWVGNLSHNIEEANL---TDQFLRFGELESVAFQPG---------RSYAFINFKIEEDAIASMKALQGFPLAGNPLRI 100 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l---~~~f~~~g~i~~~~~~~~---------~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v 100 (105)
.-+||-+|+....++.+ ...|.+||.|..+.+.+. -.-++|+|...++|..|+...+|....|+.|+.
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka 157 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKA 157 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHH
Confidence 56778888876655544 346778888888776531 125799999999999999999999888887766
Q ss_pred Eec
Q 036554 101 EFA 103 (105)
Q Consensus 101 ~~~ 103 (105)
.+.
T Consensus 158 ~~g 160 (327)
T KOG2068|consen 158 SLG 160 (327)
T ss_pred hhC
Confidence 553
No 138
>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=95.54 E-value=0.21 Score=28.49 Aligned_cols=63 Identities=19% Similarity=0.168 Sum_probs=44.3
Q ss_pred cEEEEcCCCC-CcCHHHHHHHhhcCCC-eeEEEEeC----CCcEEEEEeCCHHHHHHHHHHhcCCccCC
Q 036554 33 RHLWVGNLSH-NIEEANLTDQFLRFGE-LESVAFQP----GRSYAFINFKIEEDAIASMKALQGFPLAG 95 (105)
Q Consensus 33 ~~l~v~nl~~-~~~~~~l~~~f~~~g~-i~~~~~~~----~~g~~fv~f~~~~~a~~a~~~l~~~~~~g 95 (105)
..+.+--.|+ .++.+.|..+...+-. |..+++++ ++-.+.+.|.+.+.|......+||+.++.
T Consensus 13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 3444444444 4555566655555544 67777774 35588999999999999999999997764
No 139
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=95.05 E-value=0.07 Score=38.06 Aligned_cols=38 Identities=32% Similarity=0.420 Sum_probs=29.8
Q ss_pred CCcEEEEEeCCHHHHHHHHHHhcCCccC---C-ceEEEEecc
Q 036554 67 GRSYAFINFKIEEDAIASMKALQGFPLA---G-NPLRIEFAK 104 (105)
Q Consensus 67 ~~g~~fv~f~~~~~a~~a~~~l~~~~~~---g-~~l~v~~~k 104 (105)
+.|||||.|.+.+.+..+.++.||+.+. + +...+.||+
T Consensus 430 NvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYAr 471 (549)
T KOG4660|consen 430 NVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYAR 471 (549)
T ss_pred ccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhh
Confidence 4589999999999999999999998543 3 345566653
No 140
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=95.05 E-value=0.047 Score=35.49 Aligned_cols=57 Identities=21% Similarity=0.326 Sum_probs=47.6
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe-----CCCcEEEEEeCCHHHHHHHHHHhc
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ-----PGRSYAFINFKIEEDAIASMKALQ 89 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~g~~fv~f~~~~~a~~a~~~l~ 89 (105)
..|+|.||+..++-+.+...|+.||+|....+. +..+..+|.|.....+..|.....
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~ 93 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCR 93 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhc
Confidence 679999999999999999999999998655443 334688999999999888888663
No 141
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=94.86 E-value=0.0017 Score=47.94 Aligned_cols=60 Identities=27% Similarity=0.344 Sum_probs=49.4
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhcCCc
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQGFP 92 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~~~~ 92 (105)
.++||.||+..+.++++...|..++.+..+.+. +-+|.||+.|...+.+.+++.......
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~ 733 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCF 733 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhh
Confidence 578999999999999999999999986655443 336999999999999999998555443
No 142
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=94.68 E-value=0.19 Score=36.28 Aligned_cols=68 Identities=16% Similarity=0.223 Sum_probs=51.1
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhc--CCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcC--CccCCceEE
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLR--FGELESVAFQPGRSYAFINFKIEEDAIASMKALQG--FPLAGNPLR 99 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~--~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~--~~~~g~~l~ 99 (105)
..+.|++.-||..+..++++.+|.. +-.+..|.+--+ .-=||+|++..+|+.|.+.|.- .+|.|++|.
T Consensus 174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N-~nWyITfesd~DAQqAykylreevk~fqgKpIm 245 (684)
T KOG2591|consen 174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHN-DNWYITFESDTDAQQAYKYLREEVKTFQGKPIM 245 (684)
T ss_pred ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeec-CceEEEeecchhHHHHHHHHHHHHHhhcCcchh
Confidence 4578888999999999999999975 444566655432 2448999999999999998754 466776654
No 143
>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=93.76 E-value=0.48 Score=24.47 Aligned_cols=55 Identities=11% Similarity=0.248 Sum_probs=41.1
Q ss_pred CcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEE
Q 036554 43 NIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRI 100 (105)
Q Consensus 43 ~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v 100 (105)
.++-++++.-|..|+- .++ ...+---||.|.+..+|+++....++..+-.-.|.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~I--~~d~tGfYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DRI--RDDRTGFYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-ceE--EecCCEEEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 4567899999999873 333 333446689999999999999988888766555543
No 144
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=93.31 E-value=0.58 Score=32.96 Aligned_cols=65 Identities=15% Similarity=0.206 Sum_probs=54.5
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCC-eeEEEEeC----CCcEEEEEeCCHHHHHHHHHHhcCCccCC
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGE-LESVAFQP----GRSYAFINFKIEEDAIASMKALQGFPLAG 95 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~-i~~~~~~~----~~g~~fv~f~~~~~a~~a~~~l~~~~~~g 95 (105)
++..|.|-.+|-.++..+|..|+..+-. |..+++++ .+-.+.+.|.+..+|....+.+||..++.
T Consensus 73 ~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 73 SSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 3678999999999999999988886654 78888874 34588899999999999999999987774
No 145
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.53 E-value=1.6 Score=31.85 Aligned_cols=74 Identities=26% Similarity=0.367 Sum_probs=56.1
Q ss_pred CCCccEEEEcCCCCC-cCHHHHHHHhhcC----CCeeEEEEeC---------------C---------------------
Q 036554 29 TPPSRHLWVGNLSHN-IEEANLTDQFLRF----GELESVAFQP---------------G--------------------- 67 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~-~~~~~l~~~f~~~----g~i~~~~~~~---------------~--------------------- 67 (105)
..++++|-|.|+.|+ +...+|..+|..| |.|..|.|.+ +
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 445789999999986 6778888887765 4688888741 0
Q ss_pred -----------------CcEEEEEeCCHHHHHHHHHHhcCCccCC--ceEEEEe
Q 036554 68 -----------------RSYAFINFKIEEDAIASMKALQGFPLAG--NPLRIEF 102 (105)
Q Consensus 68 -----------------~g~~fv~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~ 102 (105)
.-||.|+|.+...|......+.|..+.. ..|-++|
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRF 304 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRF 304 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeee
Confidence 1488999999999999999999987774 4444443
No 146
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=90.55 E-value=0.35 Score=30.02 Aligned_cols=72 Identities=18% Similarity=0.219 Sum_probs=50.6
Q ss_pred cEEEEcCCCCCcCH-----HHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCc-eEEEEecc
Q 036554 33 RHLWVGNLSHNIEE-----ANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGN-PLRIEFAK 104 (105)
Q Consensus 33 ~~l~v~nl~~~~~~-----~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~-~l~v~~~k 104 (105)
.++.+.+++..+-. .....+|..+.+.....+.++.+...|.|.+...|..|.-.++...+.|. .++.=++.
T Consensus 11 ~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrsfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ 88 (193)
T KOG4019|consen 11 TAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRSFRRVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQ 88 (193)
T ss_pred ceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHhhceeEEeccChhHHHHHHHHhhhcccCCCceEEEEEcc
Confidence 45677777655322 23355666666655555667777888999999999999999999999887 56654443
No 147
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.86 E-value=1.1 Score=31.25 Aligned_cols=55 Identities=11% Similarity=0.157 Sum_probs=46.1
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCC-eeEEEEeCCCcEEEEEeCCHHHHHHHHHH
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGE-LESVAFQPGRSYAFINFKIEEDAIASMKA 87 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~-i~~~~~~~~~g~~fv~f~~~~~a~~a~~~ 87 (105)
.+.|-|.++|.....++|...|..|+. --+|.|+.. -+++..|.+...|..|+..
T Consensus 391 pHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDd-thalaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 391 PHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDD-THALAVFSSVNRAAEALTL 446 (528)
T ss_pred cceeEeccCchhhccHHHHHHHHHhhcCCceeEEeec-ceeEEeecchHHHHHHhhc
Confidence 478999999999999999999999986 356666643 3899999999999999884
No 148
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=87.70 E-value=0.014 Score=40.43 Aligned_cols=74 Identities=14% Similarity=0.297 Sum_probs=59.1
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC---CCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEe
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP---GRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEF 102 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~---~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~ 102 (105)
...++.+-|.|+|+...++.+..++..||.+..|.... .....-|+|...+.+..++..+++.-+....+++.|
T Consensus 77 kqrsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~Y 153 (584)
T KOG2193|consen 77 KQRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGY 153 (584)
T ss_pred HHHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhccc
Confidence 34467899999999999999999999999988775532 123445688899999999999999877777777665
No 149
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=83.98 E-value=1 Score=29.96 Aligned_cols=59 Identities=20% Similarity=0.204 Sum_probs=46.9
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe------CCCcEEEEEeCCHHHHHHHHHHhc
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ------PGRSYAFINFKIEEDAIASMKALQ 89 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~g~~fv~f~~~~~a~~a~~~l~ 89 (105)
...++|++++...+.+.+...++..+|......+. ..++++++.|...+.+..++....
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~ 151 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESG 151 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhh
Confidence 45789999999998888888888888875544332 457899999999999999998433
No 150
>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=83.67 E-value=5.2 Score=26.86 Aligned_cols=75 Identities=20% Similarity=0.357 Sum_probs=53.9
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCC-------------cEEEEEeCCHHHHHHHHH----HhcC-
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGR-------------SYAFINFKIEEDAIASMK----ALQG- 90 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~-------------g~~fv~f~~~~~a~~a~~----~l~~- 90 (105)
.-.++.|.+.|+...++--.+...|-+||+|+.+.+.... ....+.|-+.+.|-.... .|.-
T Consensus 12 ~YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEf 91 (309)
T PF10567_consen 12 EYRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEF 91 (309)
T ss_pred cceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHH
Confidence 3346889999999888888888889999999999887543 567789998887765433 2221
Q ss_pred -CccCCceEEEEec
Q 036554 91 -FPLAGNPLRIEFA 103 (105)
Q Consensus 91 -~~~~g~~l~v~~~ 103 (105)
..+....|++.|.
T Consensus 92 K~~L~S~~L~lsFV 105 (309)
T PF10567_consen 92 KTKLKSESLTLSFV 105 (309)
T ss_pred HHhcCCcceeEEEE
Confidence 2455666666653
No 151
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=82.55 E-value=0.16 Score=35.14 Aligned_cols=61 Identities=16% Similarity=0.112 Sum_probs=44.6
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeC--CCcEEEEEeCCHHHHHHHHHHhcCCccC
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQP--GRSYAFINFKIEEDAIASMKALQGFPLA 94 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~--~~g~~fv~f~~~~~a~~a~~~l~~~~~~ 94 (105)
++++|++|+..+...++-+.|..+|.+....+-. ...+|.++|.......-|+. ++|..+.
T Consensus 152 Rt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask~~s~~c~~sf~~qts~~halr-~~gre~k 214 (479)
T KOG4676|consen 152 RTREVQSLISAAILPESGESFERKGEVSYAHTASKSRSSSCSHSFRKQTSSKHALR-SHGRERK 214 (479)
T ss_pred hhhhhhcchhhhcchhhhhhhhhcchhhhhhhhccCCCcchhhhHhhhhhHHHHHH-hcchhhh
Confidence 6799999999999999999999999987766642 23466677776655555665 4555443
No 152
>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=76.67 E-value=1.9 Score=23.59 Aligned_cols=23 Identities=22% Similarity=0.488 Sum_probs=19.7
Q ss_pred CccEEEEcCCCCCcCHHHHHHHh
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQF 53 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f 53 (105)
..++|.|.|||....++.+++.+
T Consensus 51 s~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 51 SKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred cCCEEEEeCCCCCCChhhheeeE
Confidence 45789999999999999988764
No 153
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=67.02 E-value=15 Score=18.70 Aligned_cols=19 Identities=21% Similarity=0.440 Sum_probs=15.2
Q ss_pred HHHHHHhhcCCCeeEEEEe
Q 036554 47 ANLTDQFLRFGELESVAFQ 65 (105)
Q Consensus 47 ~~l~~~f~~~g~i~~~~~~ 65 (105)
.+|+.+|+..|+|.-+.+.
T Consensus 9 ~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHhcCcEEEEEEc
Confidence 6789999999998765553
No 154
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=58.87 E-value=2 Score=31.22 Aligned_cols=64 Identities=20% Similarity=0.202 Sum_probs=44.8
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCC------CcEEEEEeCCHHHHHHHHHHhcCCccCC
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPG------RSYAFINFKIEEDAIASMKALQGFPLAG 95 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~------~g~~fv~f~~~~~a~~a~~~l~~~~~~g 95 (105)
.+.|++.|+++.++-++|..++..+..+..+.+-.. .....|+|.-.-....|+.+||+..+..
T Consensus 231 e~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s 300 (648)
T KOG2295|consen 231 ECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRS 300 (648)
T ss_pred HHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhccccc
Confidence 467899999999999999999998877666554321 2355667775555555666677765443
No 155
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=57.85 E-value=22 Score=17.32 Aligned_cols=45 Identities=7% Similarity=0.096 Sum_probs=37.1
Q ss_pred EEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCH
Q 036554 34 HLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKIE 78 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~ 78 (105)
++.|.|+.-..-...++..+...-.|..+.+....+.+-|.|...
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~ 45 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPD 45 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTT
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecC
Confidence 467778877777788999999998899998887778888888854
No 156
>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=56.20 E-value=21 Score=23.84 Aligned_cols=21 Identities=24% Similarity=0.411 Sum_probs=18.1
Q ss_pred EEEEeCCHHHHHHHHHHhcCC
Q 036554 71 AFINFKIEEDAIASMKALQGF 91 (105)
Q Consensus 71 ~fv~f~~~~~a~~a~~~l~~~ 91 (105)
|||+|.+..+|+.+.+.+...
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~ 21 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSK 21 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcC
Confidence 699999999999999966554
No 157
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=54.99 E-value=13 Score=24.37 Aligned_cols=35 Identities=14% Similarity=0.218 Sum_probs=28.9
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEE
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFLRFGELESVA 63 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~ 63 (105)
......+|+-|+|...+++.+..+....|-+..+.
T Consensus 37 ~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~ 71 (261)
T KOG4008|consen 37 SNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQELL 71 (261)
T ss_pred cccccceeeecccccccHHHHHHHHHHhhhhhhee
Confidence 44567899999999999999999999988655443
No 158
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=54.99 E-value=23 Score=24.76 Aligned_cols=61 Identities=28% Similarity=0.352 Sum_probs=43.1
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCC-eeEEEEeC--------CCcEEEEEeCCHHHHHHHHHHhcCCcc
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGE-LESVAFQP--------GRSYAFINFKIEEDAIASMKALQGFPL 93 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~-i~~~~~~~--------~~g~~fv~f~~~~~a~~a~~~l~~~~~ 93 (105)
..|.|.+||+..++.++..-+.++-. +....+.+ ..+.+||.|...++.......++|..+
T Consensus 8 ~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~if 77 (376)
T KOG1295|consen 8 VKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIF 77 (376)
T ss_pred eeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEE
Confidence 56788899999999988877776543 22222221 136889999999998777777777643
No 159
>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=53.07 E-value=43 Score=19.25 Aligned_cols=53 Identities=15% Similarity=0.238 Sum_probs=26.4
Q ss_pred EEEEcCCCCC---------cCHHHHHHHhhcCCCeeEEEEeC---CCcEEEEEeC-CHHHHHHHHH
Q 036554 34 HLWVGNLSHN---------IEEANLTDQFLRFGELESVAFQP---GRSYAFINFK-IEEDAIASMK 86 (105)
Q Consensus 34 ~l~v~nl~~~---------~~~~~l~~~f~~~g~i~~~~~~~---~~g~~fv~f~-~~~~a~~a~~ 86 (105)
++.|-|++.. .+-+.|.+.|..|..+.-..+.. +.+++.|.|. +..-...|+.
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~kv~~l~~~~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLKVKPLYGKQGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SEEEEEEETTEEEEEEEEE--SSHHHHHHHHH
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCceeEECcCCCCCcEEEEEEECCChHHHHHHHH
Confidence 5666677543 34478889999888764333332 3579999999 5555555554
No 160
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=52.82 E-value=32 Score=22.82 Aligned_cols=27 Identities=22% Similarity=-0.001 Sum_probs=22.2
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCe
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGEL 59 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i 59 (105)
....|+|||+.++..-+..++...-.+
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~ 122 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFII 122 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCcc
Confidence 467799999999999999988765544
No 161
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=45.01 E-value=44 Score=17.14 Aligned_cols=25 Identities=28% Similarity=0.402 Sum_probs=19.1
Q ss_pred EEEEEeCCHHHHHHHHHHhcCCccC
Q 036554 70 YAFINFKIEEDAIASMKALQGFPLA 94 (105)
Q Consensus 70 ~~fv~f~~~~~a~~a~~~l~~~~~~ 94 (105)
..++.|.+...|..+-+.|....+.
T Consensus 3 ~~~i~F~st~~a~~~ek~lk~~gi~ 27 (73)
T PF11823_consen 3 YYLITFPSTHDAMKAEKLLKKNGIP 27 (73)
T ss_pred eEEEEECCHHHHHHHHHHHHHCCCc
Confidence 5688999998888888877665443
No 162
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=44.93 E-value=84 Score=22.85 Aligned_cols=59 Identities=15% Similarity=0.184 Sum_probs=41.8
Q ss_pred EEcCCCCCc---CHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceE
Q 036554 36 WVGNLSHNI---EEANLTDQFLRFGELESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPL 98 (105)
Q Consensus 36 ~v~nl~~~~---~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l 98 (105)
+||||+.-. ....+.++-.+||.|..+++-. ...|...+.+.|..++. -++..+.+|+.
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~---~~~Vviss~~~akE~l~-~~d~~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGS---VPVVVISSYEAAKEVLV-KQDLEFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecC---ceEEEECCHHHHHHHHH-hCCccccCCCC
Confidence 478876432 4456677777899988766543 34777888899999988 46777777664
No 163
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=42.91 E-value=1.4e+02 Score=22.44 Aligned_cols=68 Identities=6% Similarity=0.141 Sum_probs=48.5
Q ss_pred EEEEc-CCCCCcCHHHHHHHhhcCCC-----eeEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCceEEEEecc
Q 036554 34 HLWVG-NLSHNIEEANLTDQFLRFGE-----LESVAFQPGRSYAFINFKIEEDAIASMKALQGFPLAGNPLRIEFAK 104 (105)
Q Consensus 34 ~l~v~-nl~~~~~~~~l~~~f~~~g~-----i~~~~~~~~~g~~fv~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~k 104 (105)
+++|. +-...++..+|..++..-+. |-.+.|... |.||+... ..+...+..|++..+.|+.|.|..++
T Consensus 488 ~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~~~--~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 561 (629)
T PRK11634 488 LYRIEVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLFAS--HSTIELPK-GMPGEVLQHFTRTRILNKPMNMQLLG 561 (629)
T ss_pred EEEEecccccCCCHHHHHHHHHhhcCCChhhCCcEEEeCC--ceEEEcCh-hhHHHHHHHhccccccCCceEEEECC
Confidence 35554 33456788888888776654 344555543 88888774 55778888999999999999988753
No 164
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=42.86 E-value=57 Score=17.77 Aligned_cols=46 Identities=17% Similarity=0.224 Sum_probs=28.8
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe---CCCcEEEEEeC
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ---PGRSYAFINFK 76 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~g~~fv~f~ 76 (105)
...-|||++++..+.+.-+..+....++-..+-+. ...||.|.++.
T Consensus 24 i~~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~~neqG~~~~t~G 72 (86)
T PF09707_consen 24 IRPGVYVGNVSARVRERLWERVTEWIGDGSAVMVWSDNNEQGFDFRTLG 72 (86)
T ss_pred cCCCcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEccCCCCCEEEEEeC
Confidence 34569999999888876666666544432222222 34578887763
No 165
>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=40.20 E-value=46 Score=17.73 Aligned_cols=33 Identities=12% Similarity=0.299 Sum_probs=23.0
Q ss_pred eeEEEEe-CCCcEEEEEeCCHHHHHHHHHHhcCC
Q 036554 59 LESVAFQ-PGRSYAFINFKIEEDAIASMKALQGF 91 (105)
Q Consensus 59 i~~~~~~-~~~g~~fv~f~~~~~a~~a~~~l~~~ 91 (105)
|..+... ..+|+-||+=.+..++..|++.+.+.
T Consensus 34 I~Si~~~~~lkGyIyVEA~~~~~V~~ai~gi~~i 67 (84)
T PF03439_consen 34 IYSIFAPDSLKGYIYVEAERESDVKEAIRGIRHI 67 (84)
T ss_dssp --EEEE-TTSTSEEEEEESSHHHHHHHHTT-TTE
T ss_pred eEEEEEeCCCceEEEEEeCCHHHHHHHHhcccce
Confidence 4444443 35899999999999999998877654
No 166
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=39.98 E-value=55 Score=16.76 Aligned_cols=45 Identities=13% Similarity=0.121 Sum_probs=35.4
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEeCCCcEEEEEeCC
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGELESVAFQPGRSYAFINFKI 77 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~g~~fv~f~~ 77 (105)
.++.|.++.-.--...+...+.....+..+.+....+.+.|.|.+
T Consensus 4 ~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~ 48 (71)
T COG2608 4 TTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDS 48 (71)
T ss_pred EEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcC
Confidence 356777776665667888999988888888887777789999997
No 167
>PF14893 PNMA: PNMA
Probab=37.80 E-value=28 Score=23.92 Aligned_cols=26 Identities=27% Similarity=0.436 Sum_probs=21.5
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhc
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLR 55 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~ 55 (105)
.+-+.|.|.++|.++.+++|++.++.
T Consensus 16 ~~~r~lLv~giP~dc~~~ei~e~l~~ 41 (331)
T PF14893_consen 16 DPQRALLVLGIPEDCEEAEIEEALQA 41 (331)
T ss_pred ChhhhheeecCCCCCCHHHHHHHHHH
Confidence 34578999999999999999887664
No 168
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=37.54 E-value=66 Score=21.82 Aligned_cols=35 Identities=20% Similarity=0.386 Sum_probs=26.5
Q ss_pred CccEEEEcCCCCC------------cCHHHHHHHhhcCCCeeEEEEe
Q 036554 31 PSRHLWVGNLSHN------------IEEANLTDQFLRFGELESVAFQ 65 (105)
Q Consensus 31 ~~~~l~v~nl~~~------------~~~~~l~~~f~~~g~i~~~~~~ 65 (105)
...+|++.+||-. -+++.|+..|..||.|..+.|+
T Consensus 148 rpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdip 194 (445)
T KOG2891|consen 148 RPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIP 194 (445)
T ss_pred CCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCc
Confidence 3457888887742 3567889999999999888774
No 169
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=36.57 E-value=80 Score=17.67 Aligned_cols=47 Identities=19% Similarity=0.167 Sum_probs=27.8
Q ss_pred CccEEEEcCCCCCcCHHHHHHHhhcCCCeeEEEEe---CCCcEEEEEeCC
Q 036554 31 PSRHLWVGNLSHNIEEANLTDQFLRFGELESVAFQ---PGRSYAFINFKI 77 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~g~~fv~f~~ 77 (105)
...-|||++++..+.+.-...+.+.+++-.-+-+. ...||.|.++..
T Consensus 26 v~~GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~~~eqG~~~~t~G~ 75 (97)
T PRK11558 26 VRAGVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWATNTESGFEFQTFGE 75 (97)
T ss_pred cCCCcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcCCCCCCcEEEecCC
Confidence 34569999998887766555555544432222222 234788877664
No 170
>PF15063 TC1: Thyroid cancer protein 1
Probab=35.64 E-value=26 Score=18.63 Aligned_cols=30 Identities=23% Similarity=0.289 Sum_probs=24.8
Q ss_pred CCccEEEEcCCCCCcCHHHHHHHhhcCCCe
Q 036554 30 PPSRHLWVGNLSHNIEEANLTDQFLRFGEL 59 (105)
Q Consensus 30 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i 59 (105)
...++--+.|+-.+++...|..+|..-|+.
T Consensus 23 t~~RKkasaNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 23 TASRKKASANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred hHHhhhhhhhhhhccCHHHHHHHHHHccch
Confidence 345666778888999999999999999973
No 171
>smart00457 MACPF membrane-attack complex / perforin.
Probab=35.46 E-value=38 Score=21.01 Aligned_cols=27 Identities=11% Similarity=0.297 Sum_probs=21.0
Q ss_pred EcCCCCCcCHHHHHHHhhcCCC--eeEEE
Q 036554 37 VGNLSHNIEEANLTDQFLRFGE--LESVA 63 (105)
Q Consensus 37 v~nl~~~~~~~~l~~~f~~~g~--i~~~~ 63 (105)
+..||...+......+|..||. |..+.
T Consensus 30 l~~Lp~~~~~~~~~~fi~~yGTH~i~s~~ 58 (194)
T smart00457 30 LRDLPDQYNRGAYARFIDKYGTHYITSAT 58 (194)
T ss_pred HHhCccccCHHHHHHHHHHhCCeEEEeee
Confidence 3468888888899999999997 44443
No 172
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=35.34 E-value=54 Score=21.38 Aligned_cols=29 Identities=38% Similarity=0.499 Sum_probs=22.4
Q ss_pred ccEEEEcCCCCCcCHHHHHHHhh--cCCCee
Q 036554 32 SRHLWVGNLSHNIEEANLTDQFL--RFGELE 60 (105)
Q Consensus 32 ~~~l~v~nl~~~~~~~~l~~~f~--~~g~i~ 60 (105)
...+.|+|||..++..-|..++. .+|...
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~~~~~g~~~ 127 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLELYRFGRVR 127 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHHHGGGCEEE
T ss_pred CceEEEEEecccchHHHHHHHhhcccccccc
Confidence 45788999999999999988886 344333
No 173
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=34.69 E-value=17 Score=18.76 Aligned_cols=17 Identities=18% Similarity=0.356 Sum_probs=13.2
Q ss_pred CccEEEEcCCCCCcCHH
Q 036554 31 PSRHLWVGNLSHNIEEA 47 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~ 47 (105)
-++++|||.+|..+-.+
T Consensus 26 tSr~vflG~IP~~W~~~ 42 (67)
T PF15407_consen 26 TSRRVFLGPIPEIWLQD 42 (67)
T ss_pred cCceEEECCCChHHHHc
Confidence 46899999999876544
No 174
>PF11411 DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536 DNA ligase IV along with Xrcc4 functions in DNA non-homologous end joining. This process is required to mend double-strand breaks. Upon ligase binding to an Xrcc4 dimer, the helical tails unwind leading to a flat interaction surface []. ; GO: 0003910 DNA ligase (ATP) activity; PDB: 3II6_Y 2E2W_A 1IK9_C.
Probab=34.62 E-value=37 Score=15.32 Aligned_cols=15 Identities=27% Similarity=0.494 Sum_probs=9.3
Q ss_pred CcCHHHHHHHhhcCC
Q 036554 43 NIEEANLTDQFLRFG 57 (105)
Q Consensus 43 ~~~~~~l~~~f~~~g 57 (105)
+++++.|++.|....
T Consensus 20 Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 20 DTDEDQLKEVFNRIK 34 (36)
T ss_dssp ---HHHHHHHHHCS-
T ss_pred cCCHHHHHHHHHHhc
Confidence 578889999987754
No 175
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=34.49 E-value=70 Score=21.04 Aligned_cols=22 Identities=27% Similarity=0.129 Sum_probs=18.6
Q ss_pred EEEEcCCCCCcCHHHHHHHhhc
Q 036554 34 HLWVGNLSHNIEEANLTDQFLR 55 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~ 55 (105)
.+.|+|+|+.++...|..++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 5779999999998888888754
No 176
>PHA01632 hypothetical protein
Probab=33.33 E-value=54 Score=16.35 Aligned_cols=21 Identities=10% Similarity=0.260 Sum_probs=16.1
Q ss_pred EEEcCCCCCcCHHHHHHHhhc
Q 036554 35 LWVGNLSHNIEEANLTDQFLR 55 (105)
Q Consensus 35 l~v~nl~~~~~~~~l~~~f~~ 55 (105)
|.|..+|..-++++|+..+.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 445578999999999887654
No 177
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=32.28 E-value=82 Score=20.35 Aligned_cols=24 Identities=21% Similarity=0.075 Sum_probs=19.9
Q ss_pred EEEEcCCCCCcCHHHHHHHhhcCC
Q 036554 34 HLWVGNLSHNIEEANLTDQFLRFG 57 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~~g 57 (105)
.+.|+|+|+.++...+..++..++
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPK 119 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCC
Confidence 478999999999999999886444
No 178
>PF14751 DUF4474: Domain of unknown function (DUF4474)
Probab=32.21 E-value=1.4e+02 Score=19.75 Aligned_cols=37 Identities=27% Similarity=0.291 Sum_probs=27.9
Q ss_pred cEEEEEeCCHHHHHHHHHHhcCC-------ccCCceEEEEeccC
Q 036554 69 SYAFINFKIEEDAIASMKALQGF-------PLAGNPLRIEFAKA 105 (105)
Q Consensus 69 g~~fv~f~~~~~a~~a~~~l~~~-------~~~g~~l~v~~~k~ 105 (105)
..+-|.|.+....++.+..|... .+.|..+.+.+.+|
T Consensus 146 m~~~I~f~d~~M~~aF~~~l~~~GY~~~e~~i~gntv~~~f~~p 189 (241)
T PF14751_consen 146 MDITIDFPDEEMWEAFIDGLKKAGYSEKEFSICGNTVSFHFDKP 189 (241)
T ss_pred EEEEEEeChHHHHHHHHHHHHHcCCCcceEEEeCCEEEEEeCCC
Confidence 46789999999999988877533 45577777777665
No 179
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=31.61 E-value=75 Score=21.37 Aligned_cols=22 Identities=14% Similarity=0.172 Sum_probs=18.6
Q ss_pred EEEEcCCCCCcCHHHHHHHhhc
Q 036554 34 HLWVGNLSHNIEEANLTDQFLR 55 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~ 55 (105)
.+.|.|+|+.++...+..++..
T Consensus 103 d~VvaNlPY~Istpil~~ll~~ 124 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAH 124 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhc
Confidence 4778999999999998888854
No 180
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=29.58 E-value=82 Score=17.74 Aligned_cols=28 Identities=25% Similarity=0.215 Sum_probs=22.2
Q ss_pred EeCCHHHHHHHHHHhcCCccCCceEEEE
Q 036554 74 NFKIEEDAIASMKALQGFPLAGNPLRIE 101 (105)
Q Consensus 74 ~f~~~~~a~~a~~~l~~~~~~g~~l~v~ 101 (105)
.|.-.+-|.+.++.|....|.|+.|++.
T Consensus 18 ~~qC~~cA~Al~~~L~~~gI~Gk~i~l~ 45 (100)
T PF15643_consen 18 IFQCVECASALKQFLKQAGIPGKIIRLY 45 (100)
T ss_pred ceehHHHHHHHHHHHHHCCCCceEEEEE
Confidence 5566677788888899899999888775
No 181
>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=28.62 E-value=76 Score=14.93 Aligned_cols=26 Identities=12% Similarity=0.115 Sum_probs=20.9
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhcCCC
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLRFGE 58 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~~g~ 58 (105)
..+++.+.......+.|.+.+..+|.
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg 27 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGG 27 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCC
Confidence 35777777667788999999999987
No 182
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=28.38 E-value=27 Score=24.15 Aligned_cols=46 Identities=15% Similarity=0.150 Sum_probs=34.2
Q ss_pred HHHHHHHhhcCCCeeEEEEeC--CCcEEEEEeCCHHHHHHHHHHhcCC
Q 036554 46 EANLTDQFLRFGELESVAFQP--GRSYAFINFKIEEDAIASMKALQGF 91 (105)
Q Consensus 46 ~~~l~~~f~~~g~i~~~~~~~--~~g~~fv~f~~~~~a~~a~~~l~~~ 91 (105)
...|.+++++.|.+..-.+.+ +.|.+|+.....++++.+++.|.+.
T Consensus 275 ~p~iF~~i~~~G~v~~~EM~rtFNmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 275 PPPIFKWLQKAGNVEREEMYRTFNMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred CcHHHHHHHHhcCCCHHHHHHHhcCccceEEEEcHHHHHHHHHHHHhc
Confidence 356777788888765443332 4578899999999999999988764
No 183
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=28.23 E-value=59 Score=16.72 Aligned_cols=18 Identities=17% Similarity=0.383 Sum_probs=15.3
Q ss_pred CCCcCHHHHHHHhhcCCC
Q 036554 41 SHNIEEANLTDQFLRFGE 58 (105)
Q Consensus 41 ~~~~~~~~l~~~f~~~g~ 58 (105)
.+.++|+.|+..+.+.|.
T Consensus 29 NPpine~mir~M~~QMG~ 46 (64)
T PF03672_consen 29 NPPINEKMIRAMMMQMGR 46 (64)
T ss_pred CCCCCHHHHHHHHHHhCC
Confidence 456899999999999885
No 184
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=27.94 E-value=66 Score=14.24 Aligned_cols=17 Identities=12% Similarity=0.159 Sum_probs=13.7
Q ss_pred CcCHHHHHHHhhcCCCe
Q 036554 43 NIEEANLTDQFLRFGEL 59 (105)
Q Consensus 43 ~~~~~~l~~~f~~~g~i 59 (105)
.+++++|+..+..+|-+
T Consensus 3 tWs~~~L~~wL~~~gi~ 19 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIP 19 (38)
T ss_pred CCCHHHHHHHHHHcCCC
Confidence 46789999999988853
No 185
>PF01823 MACPF: MAC/Perforin domain; InterPro: IPR020864 The membrane attack complex/perforin (MACPF) domain is conserved in bacteria, fungi, mammals and plants. It was originally identified and named as being common to five complement components (C6, C7, C8-alpha, C8-beta, and C9) and perforin. These molecules perform critical functions in innate and adaptive immunity. The MAC family proteins and perforin are known to participate in lytic pore formation. In response to pathogen infection, a sequential and highly specific interaction between the constituent elements occurs to form transmembrane channels which are known as the membrane-attack complex (MAC).Only a few other MACPF proteins have been characterised and several are thought to form pores for invasion or protection [, , ]. Examples are proteins from malarial parasites [], the cytolytic toxins from sea anemones [], and proteins that provide plant immunity [, ]. Functionally uncharacterised MACPF proteins are also evident in pathogenic bacteria such as Chlamydia spp [] and Photorhabdus luminescens (Xenorhabdus luminescens) []. The MACPF domain is commonly found to be associated with other N- and C-terminal domains, such as TSP1 (see PDOC50092 from PROSITEDOC), LDLRA (see PDOC00929 from PROSITEDOC), EGF-like (see PDOC00021 from PROSITEDOC),Sushi/CCP/SCR (see PDOC50923 from PROSITEDOC), FIMAC or C2 (see PDOC00380 from PROSITEDOC). They probably control or target MACPF function [, ]. The MACPF domain oligomerizes, undergoes conformational change, and is required for lytic activity. The MACPF domain consists of a central kinked four-stranded antiparallel beta sheet surrounded by alpha helices and beta strands, forming two structural segments. Overall, the MACPF domain has a thin L-shaped appearance. MACPF domains exhibit limited sequence similarity but contain a signature [YW]-G-[TS]-H-[FY]-x(6)-G-G motif [, , ]. Some proteins known to contain a MACPF domain are listed below: Vertebrate complement proteins C6 to C9. Complement factors C6 to C9 assemble to form a scaffold, the membrane attack complex (MAC), that permits C9 polymerisation into pores that lyse Gram-negative pathogens [, ]. Vertebrate perforin. It is delivered by natural killer cells and cytotoxic T lymphocytes and forms oligomeric pores (12 to 18 monomers) in the plasma membrane of either virus-infected or transformed cells. Arabidopsis thaliana (Mouse-ear cress) constitutively activated cell death 1 (CAD1) protein. It is likely to act as a mediator that recognises plant signals for pathogen infection []. Arabidopsis thaliana (Mouse-ear cress) necrotic spotted lesions 1 (NSL1) protein []. Venomous sea anemone Phyllodiscus semoni (Night anemone) toxins PsTX-60A and PsTX-60B []. Venomous sea anemone Actineria villosa (Okinawan sea anemone) toxin AvTX-60A []. Plasmodium sporozoite microneme protein essential for cell traversal 2 (SPECT2). It is essential for the membrane-wounding activity of the sporozoite and is involved in its traversal of the sinusoidal cell layer prior to hepatocyte-infection []. P. luminescens Plu-MACPF. Although nonlytic, it was shown to bind to cell membranes []. Chlamydial putative uncharacterised protein CT153 []. ; PDB: 2QP2_A 3OJY_B 3NSJ_A 4E0S_B 3T5O_A 4A5W_B 2QQH_A 2RD7_A.
Probab=27.10 E-value=45 Score=20.54 Aligned_cols=22 Identities=18% Similarity=0.347 Sum_probs=14.8
Q ss_pred EcCCCCCcCHHH---HHHHhhcCCC
Q 036554 37 VGNLSHNIEEAN---LTDQFLRFGE 58 (105)
Q Consensus 37 v~nl~~~~~~~~---l~~~f~~~g~ 58 (105)
|..||...+... +.++|..||.
T Consensus 53 l~~L~~~~~~~~~~~y~~f~~~yGT 77 (212)
T PF01823_consen 53 LNALPAEYNSDNTDEYYRFFDKYGT 77 (212)
T ss_dssp HHTSHSS--HHHHHHHHHHHHHH-S
T ss_pred HHhhCcccCccchHHHHHHHHHhCc
Confidence 446777777776 7889999998
No 186
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=27.02 E-value=1.4e+02 Score=17.85 Aligned_cols=23 Identities=30% Similarity=0.203 Sum_probs=18.7
Q ss_pred cEEEEcCCCCCcCHHHHHHHhhc
Q 036554 33 RHLWVGNLSHNIEEANLTDQFLR 55 (105)
Q Consensus 33 ~~l~v~nl~~~~~~~~l~~~f~~ 55 (105)
.-+.++|+|+.++.+.+..++..
T Consensus 78 ~d~vi~n~Py~~~~~~i~~~l~~ 100 (169)
T smart00650 78 PYKVVGNLPYNISTPILFKLLEE 100 (169)
T ss_pred CCEEEECCCcccHHHHHHHHHhc
Confidence 35678999999988888888764
No 187
>PF09341 Pcc1: Transcription factor Pcc1; InterPro: IPR015419 Pcc1 is a proposed transcription factor involved in the expression of genes regulated by alpha-factor and galactose; component of the EKC/KEOPS protein complex with Kae1, Gon7, Bud32, and Cgi121; related to human cancer-testis antigens [].; PDB: 2BNR_C 2P5W_C 3KLA_C 2F54_C 2P5E_C 2F53_C 3ENO_E 3ENC_B.
Probab=26.46 E-value=1e+02 Score=15.84 Aligned_cols=20 Identities=30% Similarity=0.275 Sum_probs=15.3
Q ss_pred EEEEEeCCHHHHHHHHHHhc
Q 036554 70 YAFINFKIEEDAIASMKALQ 89 (105)
Q Consensus 70 ~~fv~f~~~~~a~~a~~~l~ 89 (105)
..-+.|.+.+.|+.+++.|.
T Consensus 4 ~l~i~f~s~~~A~ii~~sL~ 23 (76)
T PF09341_consen 4 TLEIPFESEEKAEIIYRSLK 23 (76)
T ss_dssp EEEEE-SSHHHHHHHHHHHH
T ss_pred EEEEEeCCHHHHHHHHHHhC
Confidence 45689999999999888663
No 188
>PRK00523 hypothetical protein; Provisional
Probab=25.36 E-value=75 Score=16.76 Aligned_cols=18 Identities=17% Similarity=0.431 Sum_probs=15.4
Q ss_pred CCCcCHHHHHHHhhcCCC
Q 036554 41 SHNIEEANLTDQFLRFGE 58 (105)
Q Consensus 41 ~~~~~~~~l~~~f~~~g~ 58 (105)
.+.++|+.|+..+.+.|.
T Consensus 37 NPpine~mir~M~~QMGq 54 (72)
T PRK00523 37 NPPITENMIRAMYMQMGR 54 (72)
T ss_pred CcCCCHHHHHHHHHHhCC
Confidence 456899999999999885
No 189
>PF09702 Cas_Csa5: CRISPR-associated protein (Cas_Csa5); InterPro: IPR010157 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor family of Cas protein found in various species of Sulfolobus and Pyrococcus (all archaeal). It is found with two different CRISPR loci in Sulfolobus solfataricus.
Probab=23.63 E-value=1.3e+02 Score=17.06 Aligned_cols=23 Identities=17% Similarity=0.232 Sum_probs=15.8
Q ss_pred CCCccEEEEcCCCCCcCHHHHHHHhh
Q 036554 29 TPPSRHLWVGNLSHNIEEANLTDQFL 54 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~~~~~~l~~~f~ 54 (105)
...+..++++.||.+ ++++.|+.
T Consensus 61 ekeg~~i~~g~lPt~---~eVe~Fl~ 83 (105)
T PF09702_consen 61 EKEGNYIIVGYLPTD---EEVEDFLD 83 (105)
T ss_pred cCCCCEEecCCCCCh---HHHHHHHH
Confidence 445688999999954 55665554
No 190
>COG4009 Uncharacterized protein conserved in archaea [Function unknown]
Probab=23.15 E-value=93 Score=16.80 Aligned_cols=25 Identities=16% Similarity=0.209 Sum_probs=18.5
Q ss_pred EEEEcCCCCCcCHHHHHHHhhcCCC
Q 036554 34 HLWVGNLSHNIEEANLTDQFLRFGE 58 (105)
Q Consensus 34 ~l~v~nl~~~~~~~~l~~~f~~~g~ 58 (105)
.-+|--|....+++++++.|...|.
T Consensus 50 Sy~V~Fl~~~~s~eev~~ele~mga 74 (88)
T COG4009 50 SYYVVFLEEVESEEEVERELEDMGA 74 (88)
T ss_pred eEEEEEEeccCCHHHHHHHHHHhCc
Confidence 3444456677889999999988774
No 191
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=23.14 E-value=67 Score=16.28 Aligned_cols=9 Identities=11% Similarity=0.320 Sum_probs=4.2
Q ss_pred CcEEEEEeC
Q 036554 68 RSYAFINFK 76 (105)
Q Consensus 68 ~g~~fv~f~ 76 (105)
+|++|++..
T Consensus 16 ~g~~~~~L~ 24 (78)
T cd04489 16 SGHLYFTLK 24 (78)
T ss_pred CcEEEEEEE
Confidence 345554443
No 192
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=22.04 E-value=2e+02 Score=20.78 Aligned_cols=37 Identities=27% Similarity=0.483 Sum_probs=26.3
Q ss_pred CCCccEEEEcCCCCC-cCHHHHHHHhhcC----CCeeEEEEe
Q 036554 29 TPPSRHLWVGNLSHN-IEEANLTDQFLRF----GELESVAFQ 65 (105)
Q Consensus 29 ~~~~~~l~v~nl~~~-~~~~~l~~~f~~~----g~i~~~~~~ 65 (105)
..++.+|-|-|+.|+ +...+|...|+.| |.+..|.|.
T Consensus 143 G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iy 184 (622)
T COG5638 143 GNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIY 184 (622)
T ss_pred CCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEec
Confidence 445678999999975 5667787777654 347777775
No 193
>PRK01844 hypothetical protein; Provisional
Probab=21.83 E-value=90 Score=16.45 Aligned_cols=18 Identities=22% Similarity=0.388 Sum_probs=15.3
Q ss_pred CCCcCHHHHHHHhhcCCC
Q 036554 41 SHNIEEANLTDQFLRFGE 58 (105)
Q Consensus 41 ~~~~~~~~l~~~f~~~g~ 58 (105)
.+.++|+.|+..+.+.|.
T Consensus 36 NPpine~mir~Mm~QMGq 53 (72)
T PRK01844 36 NPPINEQMLKMMMMQMGQ 53 (72)
T ss_pred CCCCCHHHHHHHHHHhCC
Confidence 356899999999999885
No 194
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=21.14 E-value=75 Score=18.48 Aligned_cols=32 Identities=19% Similarity=0.068 Sum_probs=24.6
Q ss_pred EEEcCCCCC-cCHHHHHHHhhcCCCeeEEEEeC
Q 036554 35 LWVGNLSHN-IEEANLTDQFLRFGELESVAFQP 66 (105)
Q Consensus 35 l~v~nl~~~-~~~~~l~~~f~~~g~i~~~~~~~ 66 (105)
|-|.|||.. .+++.++.+.+..|.+..+....
T Consensus 107 Vri~glP~~~~~~~~~~~i~~~iG~~i~vD~~t 139 (153)
T PF14111_consen 107 VRIYGLPLHLWSEEILKAIGSKIGEPIEVDENT 139 (153)
T ss_pred hhhccCCHHHhhhHHHHHHHHhcCCeEEEEcCC
Confidence 445599987 57778888888999988886653
No 195
>KOG4388 consensus Hormone-sensitive lipase HSL [Lipid transport and metabolism]
Probab=20.92 E-value=2.7e+02 Score=21.44 Aligned_cols=59 Identities=14% Similarity=0.304 Sum_probs=40.2
Q ss_pred CccEEEEcCCCCCcCHH-HHHHHhhcCCCeeEEEEeCCCcEEEEEeC-----CHHHHHHHHHHhc
Q 036554 31 PSRHLWVGNLSHNIEEA-NLTDQFLRFGELESVAFQPGRSYAFINFK-----IEEDAIASMKALQ 89 (105)
Q Consensus 31 ~~~~l~v~nl~~~~~~~-~l~~~f~~~g~i~~~~~~~~~g~~fv~f~-----~~~~a~~a~~~l~ 89 (105)
|...+...++++-.++. .+-.-+...|.+..+.++..-.++|++|. ..+.++.+++.|.
T Consensus 788 Pp~~i~ac~mDP~LDD~vmfA~kLr~lG~~v~l~vle~lPHGFLnft~ls~E~~~~~~~CI~rl~ 852 (880)
T KOG4388|consen 788 PPVHIVACAMDPMLDDSVMFARKLRNLGQPVTLRVLEDLPHGFLNFTALSRETRQAAELCIERLR 852 (880)
T ss_pred CCceEEEeccCcchhHHHHHHHHHHhcCCceeehhhhcCCccceeHHhhCHHHHHHHHHHHHHHH
Confidence 34556666776655543 34556778899888888877778888886 3466667777654
Done!