Query 043937
Match_columns 123
No_of_seqs 111 out of 1892
Neff 9.2
Searched_HMMs 46136
Date Fri Mar 29 09:43:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043937.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043937hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03134 glycine-rich RNA-bind 99.9 2.2E-21 4.7E-26 126.1 11.2 107 12-123 1-107 (144)
2 PF00076 RRM_1: RNA recognitio 99.8 2.2E-18 4.7E-23 98.3 8.9 69 53-122 1-69 (70)
3 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 2.4E-18 5.2E-23 125.6 9.4 74 50-123 269-342 (352)
4 KOG0117 Heterogeneous nuclear 99.8 1.6E-18 3.5E-23 126.8 8.4 111 8-122 45-155 (506)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 7.9E-18 1.7E-22 122.9 9.6 73 50-122 3-75 (352)
6 TIGR01648 hnRNP-R-Q heterogene 99.7 1.7E-17 3.6E-22 127.4 11.5 109 6-119 18-126 (578)
7 TIGR01659 sex-lethal sex-letha 99.7 1.3E-17 2.9E-22 121.8 9.9 77 47-123 104-180 (346)
8 PF14259 RRM_6: RNA recognitio 99.7 3.8E-17 8.3E-22 93.6 9.1 69 53-122 1-69 (70)
9 KOG0121 Nuclear cap-binding pr 99.7 9.5E-18 2.1E-22 104.9 6.4 76 47-122 33-108 (153)
10 KOG0149 Predicted RNA-binding 99.7 1.9E-17 4.1E-22 112.8 7.5 70 51-121 13-82 (247)
11 TIGR01659 sex-lethal sex-letha 99.7 1.8E-16 3.8E-21 116.0 11.5 72 49-120 192-263 (346)
12 TIGR01645 half-pint poly-U bin 99.7 1.7E-16 3.7E-21 122.3 11.5 119 4-122 148-276 (612)
13 TIGR01645 half-pint poly-U bin 99.7 1.2E-16 2.6E-21 123.1 9.3 75 49-123 106-180 (612)
14 KOG0125 Ataxin 2-binding prote 99.7 4E-16 8.8E-21 110.7 7.9 73 49-123 95-167 (376)
15 PLN03120 nucleic acid binding 99.7 9.6E-16 2.1E-20 107.0 9.3 70 49-122 3-72 (260)
16 KOG0122 Translation initiation 99.7 5.4E-16 1.2E-20 106.3 7.7 70 49-118 188-257 (270)
17 KOG0148 Apoptosis-promoting RN 99.6 1.4E-15 3.1E-20 105.7 9.6 112 5-122 102-230 (321)
18 KOG0107 Alternative splicing f 99.6 5.3E-16 1.2E-20 101.7 7.0 70 48-122 8-77 (195)
19 KOG0113 U1 small nuclear ribon 99.6 1.1E-15 2.3E-20 107.4 8.6 76 48-123 99-174 (335)
20 TIGR01622 SF-CC1 splicing fact 99.6 2.1E-15 4.5E-20 113.7 10.3 74 49-122 185-258 (457)
21 TIGR01628 PABP-1234 polyadenyl 99.6 2.1E-15 4.6E-20 116.4 9.7 71 52-122 2-72 (562)
22 PLN03121 nucleic acid binding 99.6 2.6E-15 5.7E-20 103.4 9.1 70 49-122 4-73 (243)
23 TIGR01628 PABP-1234 polyadenyl 99.6 3.6E-15 7.8E-20 115.1 10.7 73 49-122 284-356 (562)
24 TIGR01642 U2AF_lg U2 snRNP aux 99.6 3.6E-15 7.9E-20 113.7 9.8 74 49-122 294-367 (509)
25 smart00362 RRM_2 RNA recogniti 99.6 6.8E-15 1.5E-19 83.2 8.6 69 52-122 1-69 (72)
26 TIGR01622 SF-CC1 splicing fact 99.6 1E-14 2.2E-19 110.0 10.5 74 48-122 87-160 (457)
27 smart00360 RRM RNA recognition 99.6 1.3E-14 2.8E-19 81.7 8.1 68 55-122 1-68 (71)
28 PLN03213 repressor of silencin 99.6 1.1E-14 2.3E-19 108.6 8.6 72 48-123 8-81 (759)
29 KOG0130 RNA-binding protein RB 99.6 5.4E-15 1.2E-19 93.4 6.1 78 45-122 67-144 (170)
30 COG0724 RNA-binding proteins ( 99.6 2.1E-14 4.6E-19 99.7 9.0 74 50-123 115-188 (306)
31 KOG0148 Apoptosis-promoting RN 99.6 1.5E-14 3.3E-19 100.6 8.0 73 50-122 62-134 (321)
32 KOG0126 Predicted RNA-binding 99.6 3.5E-16 7.6E-21 103.2 -0.5 73 50-122 35-107 (219)
33 KOG4207 Predicted splicing fac 99.5 1.5E-14 3.2E-19 97.3 6.2 73 50-122 13-85 (256)
34 KOG0108 mRNA cleavage and poly 99.5 2.3E-14 5E-19 106.9 7.1 73 51-123 19-91 (435)
35 KOG0114 Predicted RNA-binding 99.5 6.7E-14 1.5E-18 84.7 7.1 70 50-122 18-87 (124)
36 cd00590 RRM RRM (RNA recogniti 99.5 2.3E-13 5E-18 77.2 9.1 70 52-122 1-70 (74)
37 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 2.1E-13 4.6E-18 103.8 10.6 70 48-122 273-343 (481)
38 KOG0123 Polyadenylate-binding 99.5 2.1E-13 4.6E-18 100.5 9.1 104 5-122 37-145 (369)
39 TIGR01648 hnRNP-R-Q heterogene 99.5 3.3E-13 7.2E-18 104.0 9.9 89 26-123 210-300 (578)
40 KOG0127 Nucleolar protein fibr 99.5 1.5E-13 3.2E-18 103.3 7.3 72 50-122 117-188 (678)
41 KOG0124 Polypyrimidine tract-b 99.5 5.6E-14 1.2E-18 101.5 4.9 74 50-123 113-186 (544)
42 KOG0145 RNA-binding protein EL 99.5 1.7E-13 3.8E-18 95.1 7.0 77 47-123 38-114 (360)
43 KOG0131 Splicing factor 3b, su 99.5 8.3E-14 1.8E-18 92.0 4.3 76 48-123 7-82 (203)
44 KOG0144 RNA-binding protein CU 99.4 4.2E-13 9E-18 98.5 8.2 71 48-118 32-102 (510)
45 KOG0117 Heterogeneous nuclear 99.4 2.7E-13 5.9E-18 99.7 6.4 87 26-122 236-323 (506)
46 KOG0111 Cyclophilin-type pepti 99.4 5.9E-14 1.3E-18 95.4 2.6 75 48-122 8-82 (298)
47 smart00361 RRM_1 RNA recogniti 99.4 1E-12 2.2E-17 75.4 7.3 59 64-122 2-67 (70)
48 KOG0144 RNA-binding protein CU 99.4 1.3E-13 2.8E-18 101.1 4.3 70 46-116 120-189 (510)
49 KOG0147 Transcriptional coacti 99.4 2.2E-13 4.7E-18 102.2 4.8 73 51-123 279-351 (549)
50 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.4 1.4E-12 3E-17 99.4 8.8 67 50-122 2-70 (481)
51 KOG0146 RNA-binding protein ET 99.4 7.6E-13 1.6E-17 92.3 6.4 79 45-123 280-358 (371)
52 KOG0105 Alternative splicing f 99.4 6.8E-13 1.5E-17 88.1 5.1 72 48-122 4-75 (241)
53 KOG0145 RNA-binding protein EL 99.4 4.4E-12 9.5E-17 88.2 8.8 74 49-122 277-350 (360)
54 KOG4212 RNA-binding protein hn 99.4 2E-12 4.3E-17 95.3 6.9 73 50-123 44-117 (608)
55 KOG0110 RNA-binding protein (R 99.3 2.9E-12 6.3E-17 98.6 6.2 120 4-123 559-686 (725)
56 KOG4208 Nucleolar RNA-binding 99.3 4.6E-12 9.9E-17 85.2 6.4 74 49-122 48-122 (214)
57 KOG0127 Nucleolar protein fibr 99.3 5.3E-12 1.2E-16 95.1 6.8 74 49-122 4-77 (678)
58 TIGR01642 U2AF_lg U2 snRNP aux 99.3 1.3E-11 2.7E-16 94.3 8.8 69 47-122 172-252 (509)
59 KOG0415 Predicted peptidyl pro 99.2 1.5E-11 3.2E-16 88.7 6.0 75 48-122 237-311 (479)
60 KOG0146 RNA-binding protein ET 99.2 1.7E-11 3.6E-16 85.7 6.0 69 47-116 16-84 (371)
61 PF13893 RRM_5: RNA recognitio 99.2 5.7E-11 1.2E-15 65.1 6.5 51 67-122 1-51 (56)
62 KOG4661 Hsp27-ERE-TATA-binding 99.2 4.5E-11 9.7E-16 90.9 6.2 74 49-122 404-477 (940)
63 KOG0109 RNA-binding protein LA 99.2 2.4E-11 5.1E-16 85.6 4.3 64 51-122 3-66 (346)
64 KOG0131 Splicing factor 3b, su 99.2 6.7E-11 1.5E-15 78.3 5.6 96 22-122 73-169 (203)
65 KOG4205 RNA-binding protein mu 99.1 5.5E-11 1.2E-15 85.6 4.7 73 49-122 5-77 (311)
66 KOG4212 RNA-binding protein hn 99.1 1.1E-10 2.3E-15 86.3 5.8 72 47-123 533-604 (608)
67 KOG0124 Polypyrimidine tract-b 99.1 1.7E-10 3.7E-15 83.8 6.2 74 49-122 209-282 (544)
68 KOG4206 Spliceosomal protein s 99.1 3.5E-10 7.7E-15 77.0 7.2 68 52-122 11-82 (221)
69 KOG0533 RRM motif-containing p 99.1 4.3E-10 9.2E-15 78.4 7.0 73 50-123 83-155 (243)
70 KOG0123 Polyadenylate-binding 99.0 7E-10 1.5E-14 82.0 7.3 65 52-122 3-67 (369)
71 KOG0110 RNA-binding protein (R 99.0 6E-10 1.3E-14 86.1 6.8 72 51-122 516-590 (725)
72 KOG0153 Predicted RNA-binding 99.0 7.2E-10 1.6E-14 79.7 6.6 69 48-122 226-295 (377)
73 KOG0109 RNA-binding protein LA 99.0 2.5E-10 5.5E-15 80.5 4.0 67 49-123 77-143 (346)
74 KOG0226 RNA-binding proteins [ 99.0 1E-09 2.2E-14 76.1 6.6 77 47-123 187-263 (290)
75 KOG4209 Splicing factor RNPS1, 99.0 1E-09 2.2E-14 76.4 5.6 77 45-122 96-172 (231)
76 KOG1548 Transcription elongati 99.0 3.2E-09 6.9E-14 76.4 8.2 72 50-122 134-213 (382)
77 KOG4660 Protein Mei2, essentia 99.0 6.4E-10 1.4E-14 84.0 4.8 72 47-123 72-143 (549)
78 KOG0132 RNA polymerase II C-te 99.0 1E-09 2.2E-14 85.7 6.0 67 50-122 421-487 (894)
79 KOG4205 RNA-binding protein mu 98.9 4.3E-09 9.4E-14 75.9 5.6 72 49-121 96-167 (311)
80 KOG0116 RasGAP SH3 binding pro 98.8 7.1E-09 1.5E-13 77.4 5.8 72 50-122 288-359 (419)
81 PF04059 RRM_2: RNA recognitio 98.8 1.2E-07 2.6E-12 57.5 8.8 69 51-119 2-72 (97)
82 KOG1457 RNA binding protein (c 98.8 1.1E-07 2.5E-12 65.1 9.3 73 48-120 32-105 (284)
83 KOG4454 RNA binding protein (R 98.7 5.7E-09 1.2E-13 71.2 2.4 74 48-123 7-80 (267)
84 KOG0120 Splicing factor U2AF, 98.7 1.6E-08 3.5E-13 76.7 3.8 75 49-123 288-362 (500)
85 KOG0151 Predicted splicing reg 98.6 9E-08 1.9E-12 74.6 6.0 76 47-122 171-249 (877)
86 KOG0106 Alternative splicing f 98.6 3.5E-08 7.5E-13 67.7 3.4 64 51-122 2-65 (216)
87 KOG4211 Splicing factor hnRNP- 98.5 3.3E-07 7.2E-12 68.8 6.9 67 50-120 10-76 (510)
88 KOG0147 Transcriptional coacti 98.5 5.4E-08 1.2E-12 73.7 1.3 75 47-122 176-250 (549)
89 KOG4849 mRNA cleavage factor I 98.5 1.6E-07 3.4E-12 68.2 3.5 72 50-121 80-153 (498)
90 KOG1190 Polypyrimidine tract-b 98.4 1E-06 2.2E-11 65.1 7.1 68 50-122 297-365 (492)
91 KOG1457 RNA binding protein (c 98.4 5.2E-07 1.1E-11 62.0 4.2 65 50-118 210-274 (284)
92 PF08777 RRM_3: RNA binding mo 98.3 2.7E-06 5.8E-11 52.5 6.2 59 51-115 2-60 (105)
93 PF11608 Limkain-b1: Limkain b 98.3 7.4E-06 1.6E-10 48.1 7.1 62 51-122 3-69 (90)
94 KOG1995 Conserved Zn-finger pr 98.2 2.2E-06 4.7E-11 62.2 4.8 75 49-123 65-147 (351)
95 KOG0105 Alternative splicing f 98.2 7.5E-06 1.6E-10 54.9 6.8 64 48-118 113-176 (241)
96 COG5175 MOT2 Transcriptional r 98.2 8.4E-06 1.8E-10 59.2 6.9 86 37-122 101-195 (480)
97 KOG4210 Nuclear localization s 98.1 2.3E-06 4.9E-11 61.5 3.1 71 51-122 186-256 (285)
98 KOG4211 Splicing factor hnRNP- 98.1 1.1E-05 2.4E-10 60.9 6.4 70 49-120 102-172 (510)
99 KOG0106 Alternative splicing f 98.1 2.2E-06 4.8E-11 58.9 2.5 68 47-122 96-163 (216)
100 KOG3152 TBP-binding protein, a 98.0 7.6E-06 1.6E-10 57.2 4.0 73 49-121 73-157 (278)
101 KOG1365 RNA-binding protein Fu 98.0 2.5E-05 5.5E-10 57.6 6.5 109 12-121 235-353 (508)
102 KOG4206 Spliceosomal protein s 97.9 6.8E-05 1.5E-09 51.5 7.6 67 47-118 143-209 (221)
103 KOG2314 Translation initiation 97.9 8.2E-05 1.8E-09 57.3 7.6 70 48-118 56-131 (698)
104 PF14605 Nup35_RRM_2: Nup53/35 97.8 0.0001 2.2E-09 39.8 5.1 51 52-109 3-53 (53)
105 KOG4307 RNA binding protein RB 97.7 9.8E-05 2.1E-09 58.2 6.5 71 51-122 868-939 (944)
106 KOG0129 Predicted RNA-binding 97.7 0.00015 3.2E-09 55.2 6.2 64 48-111 257-325 (520)
107 KOG1456 Heterogeneous nuclear 97.6 0.00056 1.2E-08 50.5 7.8 70 48-122 285-355 (494)
108 KOG0129 Predicted RNA-binding 97.5 0.00041 8.9E-09 52.9 6.7 63 49-111 369-432 (520)
109 KOG1365 RNA-binding protein Fu 97.5 0.00019 4.2E-09 53.0 4.7 59 51-110 162-224 (508)
110 KOG0120 Splicing factor U2AF, 97.5 0.00034 7.4E-09 53.6 5.9 59 65-123 424-485 (500)
111 KOG1548 Transcription elongati 97.3 0.00076 1.6E-08 49.2 6.2 72 47-122 262-344 (382)
112 PF05172 Nup35_RRM: Nup53/35/4 97.3 0.0012 2.6E-08 40.3 6.1 70 50-121 6-82 (100)
113 KOG0112 Large RNA-binding prot 97.3 0.0007 1.5E-08 54.7 5.9 68 47-120 452-519 (975)
114 KOG2193 IGF-II mRNA-binding pr 97.0 0.00092 2E-08 50.2 3.9 66 51-122 2-68 (584)
115 KOG1855 Predicted RNA-binding 97.0 0.0015 3.3E-08 49.0 5.0 69 46-114 227-308 (484)
116 KOG0115 RNA-binding protein p5 97.0 0.002 4.4E-08 45.3 5.3 66 51-117 32-97 (275)
117 PF03467 Smg4_UPF3: Smg-4/UPF3 97.0 0.0018 3.9E-08 43.5 4.7 73 49-121 6-84 (176)
118 KOG0128 RNA-binding protein SA 96.9 0.00039 8.4E-09 55.7 1.5 63 50-113 736-798 (881)
119 KOG1190 Polypyrimidine tract-b 96.8 0.0033 7.1E-08 47.0 5.6 69 48-121 412-481 (492)
120 PF08675 RNA_bind: RNA binding 96.7 0.021 4.5E-07 33.7 7.1 54 51-113 10-63 (87)
121 KOG4676 Splicing factor, argin 96.6 0.002 4.4E-08 47.8 3.2 69 52-121 9-80 (479)
122 KOG0128 RNA-binding protein SA 96.6 0.0001 2.2E-09 59.0 -3.8 62 51-112 668-729 (881)
123 KOG2068 MOT2 transcription fac 96.5 0.0017 3.6E-08 47.2 2.1 81 42-122 69-155 (327)
124 KOG2202 U2 snRNP splicing fact 96.4 0.0014 2.9E-08 46.1 1.3 56 67-123 85-141 (260)
125 PF08952 DUF1866: Domain of un 96.2 0.028 6E-07 36.6 6.3 66 48-122 25-99 (146)
126 PF07576 BRAP2: BRCA1-associat 96.0 0.19 4E-06 31.3 9.3 65 52-118 15-80 (110)
127 KOG2416 Acinus (induces apopto 95.9 0.0053 1.2E-07 47.9 2.3 65 46-116 440-505 (718)
128 PF10309 DUF2414: Protein of u 95.5 0.15 3.3E-06 28.3 6.5 53 51-112 6-62 (62)
129 KOG1996 mRNA splicing factor [ 95.5 0.068 1.5E-06 38.7 6.2 57 66-122 302-359 (378)
130 KOG0112 Large RNA-binding prot 95.2 0.0073 1.6E-07 49.1 0.9 72 47-119 369-440 (975)
131 KOG1456 Heterogeneous nuclear 95.1 0.11 2.4E-06 38.8 6.5 58 56-118 128-185 (494)
132 KOG4307 RNA binding protein RB 94.6 0.037 8E-07 44.3 3.1 61 48-109 432-493 (944)
133 PF15023 DUF4523: Protein of u 94.1 0.31 6.7E-06 31.8 6.1 62 47-115 83-148 (166)
134 PF04847 Calcipressin: Calcipr 93.7 0.22 4.9E-06 33.7 5.2 54 63-122 8-63 (184)
135 KOG2253 U1 snRNP complex, subu 93.4 0.1 2.2E-06 41.4 3.6 67 47-122 37-103 (668)
136 PF11767 SET_assoc: Histone ly 92.9 0.7 1.5E-05 26.0 5.6 53 61-122 11-63 (66)
137 KOG4210 Nuclear localization s 92.6 0.081 1.7E-06 38.3 1.9 70 49-119 87-157 (285)
138 KOG4660 Protein Mei2, essentia 92.5 0.29 6.2E-06 38.2 4.7 43 74-116 413-455 (549)
139 KOG2591 c-Mpl binding protein, 91.4 1 2.3E-05 35.4 6.7 59 49-114 174-234 (684)
140 KOG4285 Mitotic phosphoprotein 90.8 1.2 2.6E-05 32.5 6.1 63 51-121 198-260 (350)
141 KOG2135 Proteins containing th 88.1 0.21 4.5E-06 38.4 0.7 66 51-123 373-439 (526)
142 PF03880 DbpA: DbpA RNA bindin 87.3 3.8 8.1E-05 23.2 6.3 55 60-123 11-70 (74)
143 KOG0804 Cytoplasmic Zn-finger 86.7 4.2 9.1E-05 31.3 6.8 68 49-119 73-142 (493)
144 KOG4410 5-formyltetrahydrofola 85.7 5.6 0.00012 29.0 6.8 47 51-102 331-377 (396)
145 KOG2318 Uncharacterized conser 82.1 8.3 0.00018 30.8 6.8 74 47-120 171-296 (650)
146 KOG4574 RNA-binding protein (c 79.6 1.2 2.5E-05 36.9 1.6 59 53-117 301-359 (1007)
147 KOG1295 Nonsense-mediated deca 75.2 5.5 0.00012 30.0 4.0 71 51-121 8-81 (376)
148 COG0724 RNA-binding proteins ( 74.7 7.3 0.00016 26.4 4.4 63 48-110 223-285 (306)
149 PF03468 XS: XS domain; Inter 71.5 16 0.00035 22.8 4.9 45 63-110 30-75 (116)
150 PF07292 NID: Nmi/IFP 35 domai 70.1 3.3 7.2E-05 24.7 1.5 29 42-70 44-72 (88)
151 KOG4454 RNA binding protein (R 69.3 1.2 2.5E-05 31.2 -0.5 67 50-117 80-150 (267)
152 PF15513 DUF4651: Domain of un 66.1 19 0.0004 20.0 3.9 18 65-82 9-26 (62)
153 KOG4213 RNA-binding protein La 65.6 16 0.00035 24.9 4.2 56 49-110 110-168 (205)
154 KOG4676 Splicing factor, argin 65.3 1.1 2.4E-05 33.9 -1.4 61 51-116 152-212 (479)
155 KOG4365 Uncharacterized conser 59.9 2.1 4.6E-05 32.9 -0.7 51 51-101 4-54 (572)
156 PF09707 Cas_Cas2CT1978: CRISP 48.9 54 0.0012 19.4 4.1 46 52-100 27-72 (86)
157 PF10567 Nab6_mRNP_bdg: RNA-re 48.5 48 0.001 24.4 4.6 57 49-105 14-77 (309)
158 KOG4008 rRNA processing protei 47.2 18 0.00039 25.7 2.2 34 48-81 38-71 (261)
159 PF11411 DNA_ligase_IV: DNA li 43.6 21 0.00044 17.6 1.5 17 60-76 19-35 (36)
160 PF03439 Spt5-NGN: Early trans 40.3 44 0.00096 19.3 2.9 26 91-116 43-68 (84)
161 cd00027 BRCT Breast Cancer Sup 38.8 58 0.0013 16.7 3.2 27 51-77 2-28 (72)
162 PRK11558 putative ssRNA endonu 38.7 73 0.0016 19.3 3.7 47 52-101 29-75 (97)
163 KOG2295 C2H2 Zn-finger protein 37.7 5.1 0.00011 31.8 -1.7 70 50-119 231-300 (648)
164 PRK14548 50S ribosomal protein 36.9 90 0.002 18.3 5.8 55 52-109 22-78 (84)
165 KOG2891 Surface glycoprotein [ 36.8 56 0.0012 24.0 3.4 34 51-84 150-195 (445)
166 KOG0156 Cytochrome P450 CYP2 s 36.2 1.1E+02 0.0023 24.1 5.2 58 54-121 36-96 (489)
167 PHA01632 hypothetical protein 33.9 48 0.001 18.0 2.1 21 53-73 19-39 (64)
168 COG5193 LHP1 La protein, small 33.6 22 0.00047 27.2 1.0 60 50-109 174-243 (438)
169 KOG4483 Uncharacterized conser 32.6 2.4E+02 0.0052 22.0 7.6 54 50-110 391-445 (528)
170 PF13046 DUF3906: Protein of u 30.4 79 0.0017 17.6 2.6 33 63-97 31-63 (64)
171 TIGR03636 L23_arch archaeal ri 29.5 1.2E+02 0.0026 17.5 5.8 54 52-108 15-70 (77)
172 PF05189 RTC_insert: RNA 3'-te 28.9 1.3E+02 0.0029 17.9 4.5 47 53-99 13-64 (103)
173 PF15063 TC1: Thyroid cancer p 26.6 52 0.0011 19.0 1.6 27 51-77 26-52 (79)
174 PRK11901 hypothetical protein; 24.2 2.2E+02 0.0048 21.3 4.8 53 61-115 253-307 (327)
175 KOG4019 Calcineurin-mediated s 24.0 45 0.00098 22.8 1.1 62 53-120 13-79 (193)
176 PF11823 DUF3343: Protein of u 23.5 1E+02 0.0022 17.1 2.5 25 94-118 3-27 (73)
177 COG0030 KsgA Dimethyladenosine 23.3 1.4E+02 0.0031 21.4 3.7 27 51-77 96-122 (259)
178 PF00398 RrnaAD: Ribosomal RNA 23.1 84 0.0018 22.2 2.5 23 50-72 97-119 (262)
179 PF14893 PNMA: PNMA 23.0 68 0.0015 23.9 2.0 23 51-73 19-41 (331)
180 TIGR00755 ksgA dimethyladenosi 20.8 1.6E+02 0.0034 20.6 3.4 23 52-74 96-118 (253)
181 TIGR01873 cas_CT1978 CRISPR-as 20.8 2E+02 0.0043 17.1 3.6 47 52-101 27-74 (87)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.87 E-value=2.2e-21 Score=126.08 Aligned_cols=107 Identities=43% Similarity=0.690 Sum_probs=88.5
Q ss_pred HHHHHHHhhHHHhhcCCcccccCCCCCCCccccccCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCc
Q 043937 12 MAFFSKVGNILRQTAGKRISCESSISNPSIYQAIRCMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRS 91 (123)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~ 91 (123)
|+++.+++.+++|........+... ........+++|||+|||+++++++|+++|.+||.|..+.++.++.++++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~ 75 (144)
T PLN03134 1 MAFCNKLGGLLRQNISSNGNVPVTS-----MLGSLRLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRS 75 (144)
T ss_pred CchhhhhhhhhcccccCCCCCcccc-----ccccccCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCc
Confidence 6788889999888765443222111 11111235678999999999999999999999999999999999999999
Q ss_pred eeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 92 RGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 92 kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
+|||||+|.+.++|+.|+..||+..+.|++|.
T Consensus 76 kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~ 107 (144)
T PLN03134 76 RGFGFVNFNDEGAATAAISEMDGKELNGRHIR 107 (144)
T ss_pred ceEEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence 99999999999999999999999999998873
No 2
>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=99.78 E-value=2.2e-18 Score=98.33 Aligned_cols=69 Identities=26% Similarity=0.657 Sum_probs=65.9
Q ss_pred EEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 53 LFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 53 l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
|||+|||+++++++|+++|+.||.+..+.+..+ .++..+++|||+|.+.++|..|+..||+..+.|++|
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~i 69 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKI 69 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCc
Confidence 799999999999999999999999999999887 478999999999999999999999999999999886
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=2.4e-18 Score=125.61 Aligned_cols=74 Identities=31% Similarity=0.492 Sum_probs=70.8
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
+.+|||+|||+++++++|+++|++||.|.+++++.++.+|.++|||||+|.+.++|..|+..|||..+.|++|.
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~ 342 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQ 342 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEE
Confidence 44799999999999999999999999999999999998999999999999999999999999999999999873
No 4
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.77 E-value=1.6e-18 Score=126.83 Aligned_cols=111 Identities=28% Similarity=0.425 Sum_probs=97.0
Q ss_pred eehhHHHHHHHhhHHHhhcCCcccccCCCCCCCccccccCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCC
Q 043937 8 RVIIMAFFSKVGNILRQTAGKRISCESSISNPSIYQAIRCMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRE 87 (123)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~ 87 (123)
+.++.+++++++..+.+.++++-...+ |..+...+.+-++-||||.||.++.|++|..+|.+.|+|.+++|++++.
T Consensus 45 eaal~al~E~tgy~l~ve~gqrk~ggP----pP~weg~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~ 120 (506)
T KOG0117|consen 45 EAALKALLERTGYTLVVENGQRKYGGP----PPGWEGPPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPF 120 (506)
T ss_pred HHHHHHHHHhcCceEEEeccccccCCC----CCcccCCCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeeccc
Confidence 678889999999999999988754322 2235555557789999999999999999999999999999999999999
Q ss_pred CCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 88 TGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 88 ~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+|.++|||||+|++.+.|+.|++.||+++|...+.
T Consensus 121 sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~ 155 (506)
T KOG0117|consen 121 SGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKL 155 (506)
T ss_pred CCCCcceEEEEeecHHHHHHHHHHhhCccccCCCE
Confidence 99999999999999999999999999999876553
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=7.9e-18 Score=122.89 Aligned_cols=73 Identities=27% Similarity=0.534 Sum_probs=70.4
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.++|||+|||+++++++|+++|+.||+|.++++++++.+|+++|||||+|.+.++|..|+..||+..+.|++|
T Consensus 3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i 75 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTI 75 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeE
Confidence 5789999999999999999999999999999999998899999999999999999999999999999999876
No 6
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.75 E-value=1.7e-17 Score=127.41 Aligned_cols=109 Identities=27% Similarity=0.438 Sum_probs=92.1
Q ss_pred cceehhHHHHHHHhhHHHhhcCCcccccCCCCCCCccccccCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeec
Q 043937 6 GKRVIIMAFFSKVGNILRQTAGKRISCESSISNPSIYQAIRCMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILD 85 (123)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~ 85 (123)
..+.++.+++.+.+..+.+.++.+....+... ........+++|||+|||+++++++|+++|++||.|.+++++++
T Consensus 18 ~~~~a~~a~~~~~gy~~~~~~g~r~~g~Pp~~----~~~~~p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D 93 (578)
T TIGR01648 18 PDEAALKALLERTGYTLVQENGQRKYGGPPPG----WSGVQPGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD 93 (578)
T ss_pred ccHHHHHHHHHhhCccccccCCcccCCCCCCc----ccCCCCCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC
Confidence 46788899999999999999887754322211 12222345689999999999999999999999999999999999
Q ss_pred CCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCC
Q 043937 86 RETGRSRGFGFVTFSTVEEASSAIQALDGQVTFN 119 (123)
Q Consensus 86 ~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g 119 (123)
.+|+++|||||+|.+.++|..|++.||+..+.+
T Consensus 94 -~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~ 126 (578)
T TIGR01648 94 -FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRP 126 (578)
T ss_pred -CCCCccceEEEEeCCHHHHHHHHHHcCCCeecC
Confidence 689999999999999999999999999998863
No 7
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.74 E-value=1.3e-17 Score=121.81 Aligned_cols=77 Identities=31% Similarity=0.454 Sum_probs=72.7
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
....++|||+|||+++++++|+++|..||+|.+++++.+..+++++|||||+|.++++|..|+..||+..+.+++|.
T Consensus 104 ~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~ 180 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLK 180 (346)
T ss_pred CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceee
Confidence 34678999999999999999999999999999999999988999999999999999999999999999999998873
No 8
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.74 E-value=3.8e-17 Score=93.61 Aligned_cols=69 Identities=30% Similarity=0.642 Sum_probs=64.2
Q ss_pred EEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 53 LFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 53 l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
|||+|||+++++++|.++|+.||.|..+.+..++. |.++|+|||+|.+.++|..|+..+++..+.|++|
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l 69 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKL 69 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEc
Confidence 79999999999999999999999999999999986 8999999999999999999999999999999986
No 9
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.73 E-value=9.5e-18 Score=104.89 Aligned_cols=76 Identities=24% Similarity=0.406 Sum_probs=72.0
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
-.++++||||||++.++|++|-++|+.+|+|+.+.+-.++.+-.+.|||||+|.+.++|+.|++.++++.+..++|
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~i 108 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPI 108 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccce
Confidence 3578999999999999999999999999999999999998888899999999999999999999999999999886
No 10
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.72 E-value=1.9e-17 Score=112.80 Aligned_cols=70 Identities=37% Similarity=0.697 Sum_probs=64.1
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
++||||+|+|.+..++|+++|++||+|.+..++.|+.+|++|||+||+|.+.+.|++|++ -.+-.|+||+
T Consensus 13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~-dp~piIdGR~ 82 (247)
T KOG0149|consen 13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACK-DPNPIIDGRK 82 (247)
T ss_pred EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhc-CCCCcccccc
Confidence 679999999999999999999999999999999999999999999999999999999996 4445666664
No 11
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.71 E-value=1.8e-16 Score=115.95 Aligned_cols=72 Identities=33% Similarity=0.583 Sum_probs=68.1
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNA 120 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~ 120 (123)
..++|||+|||+++++++|+++|++||.|..++++.++.+|+++|||||+|.+.++|+.|+..||+..+.+.
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~ 263 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGG 263 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCC
Confidence 457899999999999999999999999999999999988999999999999999999999999999988764
No 12
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.70 E-value=1.7e-16 Score=122.31 Aligned_cols=119 Identities=13% Similarity=0.252 Sum_probs=89.9
Q ss_pred cccceehhHHHHHHHhhHHHhhc-----CCcccccCCCCCCCccc-----cccCCCCCeEEEcCCCCCCCHHHHHHHhhc
Q 043937 4 SVGKRVIIMAFFSKVGNILRQTA-----GKRISCESSISNPSIYQ-----AIRCMSSSKLFVGGISYNMDDNSLREAFAK 73 (123)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~-----~~~~~~~~~l~v~~L~~~~~~~~l~~~f~~ 73 (123)
++|.+++-..........+...+ |+.+.+......+.... .......++|||+|||+++++++|+++|+.
T Consensus 148 skGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~ 227 (612)
T TIGR01645 148 HKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEA 227 (612)
T ss_pred cCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccccccccccccccccccccccceEEeecCCCCCCHHHHHHHHhh
Confidence 45666666666555555555443 44444443222221111 011123478999999999999999999999
Q ss_pred CCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 74 YGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 74 ~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
||.|.++++.+++.+|+++|||||+|.+.++|..|+..||+..++|+.|
T Consensus 228 FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~L 276 (612)
T TIGR01645 228 FGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYL 276 (612)
T ss_pred cCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEE
Confidence 9999999999998889999999999999999999999999999999976
No 13
>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=99.69 E-value=1.2e-16 Score=123.12 Aligned_cols=75 Identities=27% Similarity=0.581 Sum_probs=71.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
..++|||+|||+++++++|+++|..||.|.++.++.++.+|+++|||||+|.+.++|..|+..|||..+.|++|.
T Consensus 106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~Ik 180 (612)
T TIGR01645 106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIK 180 (612)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceee
Confidence 457899999999999999999999999999999999999999999999999999999999999999999999873
No 14
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.66 E-value=4e-16 Score=110.71 Aligned_cols=73 Identities=33% Similarity=0.555 Sum_probs=67.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
...+|+|+|+|+...|.||+.+|.+||.|..|.|+.+- .-+|||+||+|.+.++|.+|...|||+.+.||+|.
T Consensus 95 ~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIE 167 (376)
T KOG0125|consen 95 TPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKIE 167 (376)
T ss_pred CCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEEE
Confidence 44789999999999999999999999999999999884 34799999999999999999999999999999973
No 15
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.65 E-value=9.6e-16 Score=106.96 Aligned_cols=70 Identities=20% Similarity=0.338 Sum_probs=64.4
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
..++|||+|||+.+++++|+++|+.||+|..+.++.+.. ++|||||+|.++++|..|+. |||..+.|++|
T Consensus 3 ~~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V 72 (260)
T PLN03120 3 QVRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSV 72 (260)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceE
Confidence 357899999999999999999999999999999988753 56899999999999999995 99999999986
No 16
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.65 E-value=5.4e-16 Score=106.26 Aligned_cols=70 Identities=33% Similarity=0.538 Sum_probs=66.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeC
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTF 118 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~ 118 (123)
+..+|-|.||+.++++.+|+++|.+||.|..+.|.+++.+|.++|||||.|.++++|.+||..|||.-+.
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd 257 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYD 257 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccc
Confidence 5678999999999999999999999999999999999999999999999999999999999999997654
No 17
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.65 E-value=1.4e-15 Score=105.66 Aligned_cols=112 Identities=23% Similarity=0.419 Sum_probs=87.6
Q ss_pred ccceehhHHHHH--HHhhHHHhhcC-----CcccccCCCCCCCcccc----------ccCCCCCeEEEcCCCCCCCHHHH
Q 043937 5 VGKRVIIMAFFS--KVGNILRQTAG-----KRISCESSISNPSIYQA----------IRCMSSSKLFVGGISYNMDDNSL 67 (123)
Q Consensus 5 ~~~~~~~~~~~~--~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~----------~~~~~~~~l~v~~L~~~~~~~~l 67 (123)
|.+++...++.+ ...+.+.+.+| |.++.+|+..+|..... ...++.++||+||++.-++|++|
T Consensus 102 KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~m 181 (321)
T KOG0148|consen 102 KSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLM 181 (321)
T ss_pred cccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHH
Confidence 334444444444 34445565554 66778887777743222 22457799999999999999999
Q ss_pred HHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 68 REAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 68 ~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
++.|+.||.|.+|++..+ +||+||.|.+.+.|..||-.||++++.|..+
T Consensus 182 r~~Fs~fG~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNntei~G~~V 230 (321)
T KOG0148|consen 182 RQTFSPFGPIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNNTEIGGQLV 230 (321)
T ss_pred HHhcccCCcceEEEEecc------cceEEEEecchhhHHHHHHHhcCceeCceEE
Confidence 999999999999999887 4799999999999999999999999998754
No 18
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.65 E-value=5.3e-16 Score=101.66 Aligned_cols=70 Identities=27% Similarity=0.513 Sum_probs=64.7
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
...++|||+||+..+++.+|+..|..||.+..|.+-+++ .|||||+|.+..+|+.|++.|+|+.|.|.+|
T Consensus 8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~ 77 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRI 77 (195)
T ss_pred CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCceE
Confidence 446889999999999999999999999999999998765 5899999999999999999999999999765
No 19
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.64 E-value=1.1e-15 Score=107.38 Aligned_cols=76 Identities=26% Similarity=0.549 Sum_probs=72.2
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
..-++|||+-|+++++|.+|+..|..||+|..+.|+.+.-+|+++|||||+|.++-+...|-+..+|.+|.|++|+
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~ 174 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRIL 174 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEE
Confidence 3457899999999999999999999999999999999999999999999999999999999999999999999873
No 20
>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=2.1e-15 Score=113.67 Aligned_cols=74 Identities=34% Similarity=0.679 Sum_probs=70.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
..++|||+|||+.+++++|+++|+.||.|..+.+..+..+|.++|||||+|.+.++|..|+..|||..+.|++|
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 258 (457)
T TIGR01622 185 NFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPI 258 (457)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEE
Confidence 36889999999999999999999999999999999998888999999999999999999999999999999886
No 21
>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=99.63 E-value=2.1e-15 Score=116.35 Aligned_cols=71 Identities=25% Similarity=0.452 Sum_probs=68.6
Q ss_pred eEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 52 KLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+|||+|||+++++++|.++|++||.|.++++.++..+++++|||||+|.+.++|.+|+..+|+..+.|++|
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i 72 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPI 72 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeE
Confidence 69999999999999999999999999999999999889999999999999999999999999999999876
No 22
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.63 E-value=2.6e-15 Score=103.45 Aligned_cols=70 Identities=19% Similarity=0.288 Sum_probs=64.4
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.+.+|||+||++.+++++|+++|+.||+|..+.+.++ +..+++|||+|.+++.++.|+ .|+|..|.|++|
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D---~et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I 73 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRS---GEYACTAYVTFKDAYALETAV-LLSGATIVDQRV 73 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecC---CCcceEEEEEECCHHHHHHHH-hcCCCeeCCceE
Confidence 4678999999999999999999999999999999988 345679999999999999999 599999999886
No 23
>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=99.62 E-value=3.6e-15 Score=115.09 Aligned_cols=73 Identities=37% Similarity=0.648 Sum_probs=69.5
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.+++|||+||++++++++|+++|+.||.|.++++..+ .+|.++|||||+|.+.++|.+|+..||+..+.|++|
T Consensus 284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l 356 (562)
T TIGR01628 284 QGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPL 356 (562)
T ss_pred CCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCcee
Confidence 4678999999999999999999999999999999998 479999999999999999999999999999999987
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=99.62 E-value=3.6e-15 Score=113.65 Aligned_cols=74 Identities=23% Similarity=0.498 Sum_probs=70.4
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
...+|||+|||+.+++++|+++|+.||.|..+.++.+..+|.++|||||+|.+.+.|..|+..|||..+.|++|
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l 367 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKL 367 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEE
Confidence 35789999999999999999999999999999999998899999999999999999999999999999999876
No 25
>smart00362 RRM_2 RNA recognition motif.
Probab=99.61 E-value=6.8e-15 Score=83.19 Aligned_cols=69 Identities=36% Similarity=0.665 Sum_probs=64.3
Q ss_pred eEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 52 KLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+|||+|||..+++++|+++|..||.+..+.+..+. +.++|+|||+|.+.+.|..|+..+++..+.|+++
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i 69 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPL 69 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEE
Confidence 48999999999999999999999999999888775 7788999999999999999999999999999876
No 26
>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=1e-14 Score=109.96 Aligned_cols=74 Identities=30% Similarity=0.481 Sum_probs=69.8
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
...++|||+|||..+++++|+++|+.||.|..+.++.++.+|.++|||||+|.+.++|..|+. |+|..+.|++|
T Consensus 87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i 160 (457)
T TIGR01622 87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPI 160 (457)
T ss_pred cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeee
Confidence 346789999999999999999999999999999999998899999999999999999999996 99999999876
No 27
>smart00360 RRM RNA recognition motif.
Probab=99.59 E-value=1.3e-14 Score=81.70 Aligned_cols=68 Identities=35% Similarity=0.708 Sum_probs=63.8
Q ss_pred EcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 55 VGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 55 v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
|+|||..+++++|+++|..||.+..+.+..++.++.++|+|||+|.+.++|..|+..+++..+.|+++
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~ 68 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPL 68 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEE
Confidence 57999999999999999999999999998887778999999999999999999999999999998876
No 28
>PLN03213 repressor of silencing 3; Provisional
Probab=99.58 E-value=1.1e-14 Score=108.64 Aligned_cols=72 Identities=21% Similarity=0.396 Sum_probs=65.7
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCH--HHHHHHHHHhCCceeCCcccC
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTV--EEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~--~~a~~a~~~l~~~~~~g~~~~ 123 (123)
..+.+||||||++.+++++|+..|+.||.|..+.|++. +| +|||||+|.+. .++..|+..|||.+..|+.|+
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRE--TG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LK 81 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRT--KG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLR 81 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecc--cC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeE
Confidence 45678999999999999999999999999999999944 67 89999999987 789999999999999999874
No 29
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.58 E-value=5.4e-15 Score=93.43 Aligned_cols=78 Identities=29% Similarity=0.579 Sum_probs=73.8
Q ss_pred ccCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 45 IRCMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 45 ~~~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.+..++..|||.++.+.++++++.+.|..||+|..+.+..++.+|..||||+|+|.+..+|+.|+..+||..+.|.+|
T Consensus 67 qrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v 144 (170)
T KOG0130|consen 67 QRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNV 144 (170)
T ss_pred ccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCce
Confidence 345678899999999999999999999999999999999999999999999999999999999999999999999876
No 30
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.57 E-value=2.1e-14 Score=99.66 Aligned_cols=74 Identities=42% Similarity=0.749 Sum_probs=70.9
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
.++|||+|||+++++++|.++|..||.+..+.+..++.+|.++|+|||+|.+.+++..|+..+++..+.|++|.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~ 188 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLR 188 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeE
Confidence 58999999999999999999999999999999999988899999999999999999999999999999999873
No 31
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.56 E-value=1.5e-14 Score=100.59 Aligned_cols=73 Identities=42% Similarity=0.732 Sum_probs=69.6
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
..-|||+-|...++-++|++.|.+||+|.+.++++|..++++|||+||.|.+.++|++||..|||.=|++|.|
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~I 134 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTI 134 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeecccee
Confidence 3459999999999999999999999999999999999999999999999999999999999999999998876
No 32
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.56 E-value=3.5e-16 Score=103.20 Aligned_cols=73 Identities=25% Similarity=0.622 Sum_probs=69.8
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+.-|||||||++.||.||--.|++||.+..+.+++|+.||+++||||+.|.+-.+.-.|+..|||.+|+||.|
T Consensus 35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRti 107 (219)
T KOG0126|consen 35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTI 107 (219)
T ss_pred ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeE
Confidence 4569999999999999999999999999999999999999999999999999999999999999999999976
No 33
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.54 E-value=1.5e-14 Score=97.30 Aligned_cols=73 Identities=37% Similarity=0.575 Sum_probs=70.4
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
...|-|.||.+.++.++|+.+|.+||.|-.|.|++++.++.++|||||.|....+|+.|+++|+|.+++|+.|
T Consensus 13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRel 85 (256)
T KOG4207|consen 13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGREL 85 (256)
T ss_pred ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeecccee
Confidence 4679999999999999999999999999999999999999999999999999999999999999999999986
No 34
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.53 E-value=2.3e-14 Score=106.88 Aligned_cols=73 Identities=37% Similarity=0.602 Sum_probs=71.1
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
+.|||||+|+++++++|.++|+..|.|..++++.|+.+|+++||+|++|.+.++++.|++.|||.++.|++|.
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~ 91 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLR 91 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEE
Confidence 7799999999999999999999999999999999999999999999999999999999999999999999874
No 35
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.52 E-value=6.7e-14 Score=84.75 Aligned_cols=70 Identities=23% Similarity=0.443 Sum_probs=63.7
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.+-|||.|||+++|.++.-++|++||.|+.+++-..+ ..+|-|||.|.+..+|..|++.|+|..+.++.|
T Consensus 18 nriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k---~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl 87 (124)
T KOG0114|consen 18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK---ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYL 87 (124)
T ss_pred heeEEEecCCccccHHHHHHHhhcccceEEEEecCcc---CcCceEEEEehHhhhHHHHHHHhcccccCCceE
Confidence 4569999999999999999999999999999996654 357899999999999999999999999988865
No 36
>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=99.52 E-value=2.3e-13 Score=77.16 Aligned_cols=70 Identities=37% Similarity=0.690 Sum_probs=64.5
Q ss_pred eEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 52 KLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+|+|+|||..+++++|+++|..+|.+..+.+..+.. +.++|+|||+|.+.++|..|+..+++..+.|+++
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~-~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~ 70 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKD-TKSKGFAFVEFEDEEDAEKALEALNGKELGGRPL 70 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCC-CCcceEEEEEECCHHHHHHHHHHhCCCeECCeEE
Confidence 489999999999999999999999999999987764 4778999999999999999999999999998876
No 37
>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=99.50 E-value=2.1e-13 Score=103.76 Aligned_cols=70 Identities=20% Similarity=0.360 Sum_probs=65.0
Q ss_pred CCCCeEEEcCCCC-CCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 48 MSSSKLFVGGISY-NMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 48 ~~~~~l~v~~L~~-~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
..+++|||+|||+ .+++++|+++|+.||.|..++++.++ +|+|||+|.+.++|..|+..|||..+.|++|
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l 343 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPL 343 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceE
Confidence 4678999999998 69999999999999999999998763 5899999999999999999999999999887
No 38
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.49 E-value=2.1e-13 Score=100.48 Aligned_cols=104 Identities=26% Similarity=0.470 Sum_probs=86.1
Q ss_pred ccceehhHHHHHHHhhHHHh-----hcCCcccccCCCCCCCccccccCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEE
Q 043937 5 VGKRVIIMAFFSKVGNILRQ-----TAGKRISCESSISNPSIYQAIRCMSSSKLFVGGISYNMDDNSLREAFAKYGYVNE 79 (123)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~ 79 (123)
.|.+++....-+.....+.. ..|+++++.|+...|.. |||.||+++++..+|.++|+.||.|.+
T Consensus 37 lgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~~~-----------~~i~nl~~~~~~~~~~d~f~~~g~ilS 105 (369)
T KOG0123|consen 37 LGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDPSL-----------VFIKNLDESIDNKSLYDTFSEFGNILS 105 (369)
T ss_pred cceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCCce-----------eeecCCCcccCcHHHHHHHHhhcCeeE
Confidence 34445444444444444433 36788888888877774 999999999999999999999999999
Q ss_pred EEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 80 ARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 80 ~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+++.++. .| ++|| ||+|.+++.|..|+..+||..+.|++|
T Consensus 106 ~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki 145 (369)
T KOG0123|consen 106 CKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKI 145 (369)
T ss_pred EEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCee
Confidence 9999997 46 8999 999999999999999999999999876
No 39
>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=99.47 E-value=3.3e-13 Score=103.96 Aligned_cols=89 Identities=19% Similarity=0.330 Sum_probs=69.6
Q ss_pred cCCcccccCCCCCCCccccccCCCCCeEEEcCCCCCCCHHHHHHHhhcC--CCeEEEEEeecCCCCCceeEEEEEeCCHH
Q 043937 26 AGKRISCESSISNPSIYQAIRCMSSSKLFVGGISYNMDDNSLREAFAKY--GYVNEARIILDRETGRSRGFGFVTFSTVE 103 (123)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~L~~~~~~~~l~~~f~~~--g~i~~~~~~~~~~~g~~kg~afv~f~~~~ 103 (123)
.++.+.+.+..+..... ........+|||+|||+++++++|+++|+.| |.|..+.++ ++||||+|.+.+
T Consensus 210 ~Gr~I~VdwA~p~~~~d-~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~--------rgfAFVeF~s~e 280 (578)
T TIGR01648 210 WGHVIAVDWAEPEEEVD-EDVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI--------RDYAFVHFEDRE 280 (578)
T ss_pred cCceEEEEeeccccccc-ccccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee--------cCeEEEEeCCHH
Confidence 35556666544322211 1112235789999999999999999999999 999999775 359999999999
Q ss_pred HHHHHHHHhCCceeCCcccC
Q 043937 104 EASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 104 ~a~~a~~~l~~~~~~g~~~~ 123 (123)
+|..|+..||+.++.|++|.
T Consensus 281 ~A~kAi~~lnG~~i~Gr~I~ 300 (578)
T TIGR01648 281 DAVKAMDELNGKELEGSEIE 300 (578)
T ss_pred HHHHHHHHhCCCEECCEEEE
Confidence 99999999999999999873
No 40
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.47 E-value=1.5e-13 Score=103.30 Aligned_cols=72 Identities=22% Similarity=0.464 Sum_probs=67.6
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
..+|.|.|||+.+.+.+|+.+|+.||.|.++.|++..+ |+-+|||||.|.+..+|..|+..+|+.+|+||+|
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d-gklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~V 188 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD-GKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPV 188 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC-CCccceEEEEEeeHHHHHHHHHhccCceecCcee
Confidence 57899999999999999999999999999999998876 5555999999999999999999999999999987
No 41
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.47 E-value=5.6e-14 Score=101.52 Aligned_cols=74 Identities=27% Similarity=0.597 Sum_probs=71.5
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
.|+||||.+.+.+.|+.|+..|..||+|.++.+.+|+.++++|||+||+|.-++.|..|++.|||..++||.|+
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiK 186 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIK 186 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCcccc
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999875
No 42
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.47 E-value=1.7e-13 Score=95.13 Aligned_cols=77 Identities=30% Similarity=0.499 Sum_probs=72.1
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
..+.++|.|.-||..+++++++.+|++.|+|+++++++|+-+|.+-||+||.|.++.+|++|+..|||-.+..+.|+
T Consensus 38 ~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIK 114 (360)
T KOG0145|consen 38 DESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIK 114 (360)
T ss_pred CcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEE
Confidence 34557899999999999999999999999999999999999999999999999999999999999999999887764
No 43
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.45 E-value=8.3e-14 Score=91.95 Aligned_cols=76 Identities=29% Similarity=0.436 Sum_probs=71.8
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
..+.+|||+||+..++++.|-++|-+.|+|..+.+++++-+...+||||++|.++++|.-|++.||.-++.|++|.
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIr 82 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIR 82 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeE
Confidence 3567899999999999999999999999999999999998889999999999999999999999999999999873
No 44
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.45 E-value=4.2e-13 Score=98.48 Aligned_cols=71 Identities=46% Similarity=0.666 Sum_probs=66.7
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeC
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTF 118 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~ 118 (123)
.+.-++||+.+|..++|.||+.+|++||.|.+|.+++|+.+|.++|||||.|.+.++|..|+.+||+.+..
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktl 102 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTL 102 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhccccc
Confidence 45677999999999999999999999999999999999999999999999999999999999999987654
No 45
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.43 E-value=2.7e-13 Score=99.73 Aligned_cols=87 Identities=22% Similarity=0.369 Sum_probs=70.0
Q ss_pred cCCcccccCCCCCCCccccccCCC-CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHH
Q 043937 26 AGKRISCESSISNPSIYQAIRCMS-SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEE 104 (123)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~ 104 (123)
++..+.++|. .|........++ ...|||.||+.++|++.|+++|+.||.|..|+.++| ||||.|.++++
T Consensus 236 wgn~~tVdWA--ep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~d 305 (506)
T KOG0117|consen 236 WGNAITVDWA--EPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAERED 305 (506)
T ss_pred cCCcceeecc--CcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHH
Confidence 4455555553 333333333343 456999999999999999999999999999987755 99999999999
Q ss_pred HHHHHHHhCCceeCCccc
Q 043937 105 ASSAIQALDGQVTFNASC 122 (123)
Q Consensus 105 a~~a~~~l~~~~~~g~~~ 122 (123)
|..|++.+|+++|.|..|
T Consensus 306 avkAm~~~ngkeldG~~i 323 (506)
T KOG0117|consen 306 AVKAMKETNGKELDGSPI 323 (506)
T ss_pred HHHHHHHhcCceecCceE
Confidence 999999999999999876
No 46
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=5.9e-14 Score=95.36 Aligned_cols=75 Identities=32% Similarity=0.632 Sum_probs=71.3
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
...++||||+|...+++.-|...|-+||+|..+.++.|..+++++||+||+|...++|.+|+..||+.++.||.|
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~Grti 82 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTI 82 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeE
Confidence 345779999999999999999999999999999999999999999999999999999999999999999999875
No 47
>smart00361 RRM_1 RNA recognition motif.
Probab=99.43 E-value=1e-12 Score=75.44 Aligned_cols=59 Identities=27% Similarity=0.460 Sum_probs=53.3
Q ss_pred HHHHHHHhh----cCCCeEEEE-EeecCCC--CCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 64 DNSLREAFA----KYGYVNEAR-IILDRET--GRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 64 ~~~l~~~f~----~~g~i~~~~-~~~~~~~--g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+++|+++|+ .||.|.++. +..++.+ |.++|++||+|.+.++|..|+..|||..+.|++|
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l 67 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTV 67 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence 578889998 999999995 7777666 8899999999999999999999999999999986
No 48
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.43 E-value=1.3e-13 Score=101.07 Aligned_cols=70 Identities=43% Similarity=0.680 Sum_probs=65.2
Q ss_pred cCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCce
Q 043937 46 RCMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQV 116 (123)
Q Consensus 46 ~~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~ 116 (123)
+..+.++|||+.|+..++|++++++|++||.|+++.+.++. .|.+||||||.|.+.+.|..|++.||++.
T Consensus 120 r~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~ 189 (510)
T KOG0144|consen 120 RIVEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQ 189 (510)
T ss_pred ccccchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccce
Confidence 33567889999999999999999999999999999999997 59999999999999999999999999974
No 49
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.41 E-value=2.2e-13 Score=102.22 Aligned_cols=73 Identities=34% Similarity=0.678 Sum_probs=69.8
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
.+||||||.+.+++.+|+..|.+||+|..+.+.++..+|.++||+||+|.+.++|..|+..|||.++-|+.|+
T Consensus 279 ~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ik 351 (549)
T KOG0147|consen 279 RRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIK 351 (549)
T ss_pred hhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEE
Confidence 4499999999999999999999999999999999988999999999999999999999999999999999874
No 50
>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=99.40 E-value=1.4e-12 Score=99.38 Aligned_cols=67 Identities=16% Similarity=0.197 Sum_probs=60.4
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHh--CCceeCCccc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQAL--DGQVTFNASC 122 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l--~~~~~~g~~~ 122 (123)
++.|||+|||+++++++|+++|++||.|..+.++.+ +++|||+|.+.++|..|+..+ ++..+.|++|
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l 70 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPA 70 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEE
Confidence 467999999999999999999999999999988754 579999999999999999864 7788999876
No 51
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.40 E-value=7.6e-13 Score=92.30 Aligned_cols=79 Identities=28% Similarity=0.429 Sum_probs=74.4
Q ss_pred ccCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 45 IRCMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 45 ~~~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
...+++|+|||=+||....+.+|-..|-.||.|.+.++..|+.+..+|+|+||.|.++.+++.||.+|||..|+=++|+
T Consensus 280 reGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLK 358 (371)
T KOG0146|consen 280 REGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLK 358 (371)
T ss_pred hcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhh
Confidence 3467899999999999999999999999999999999999999999999999999999999999999999999877764
No 52
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.38 E-value=6.8e-13 Score=88.10 Aligned_cols=72 Identities=24% Similarity=0.403 Sum_probs=63.0
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
..+++|||+|||.++.+.+|+++|.+||.|.++.|...+ .+..||||+|.+..+|+.|+..-+|..++|.+|
T Consensus 4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rL 75 (241)
T KOG0105|consen 4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRL 75 (241)
T ss_pred cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceE
Confidence 346889999999999999999999999999999885432 235699999999999999999999998888765
No 53
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.37 E-value=4.4e-12 Score=88.24 Aligned_cols=74 Identities=31% Similarity=0.491 Sum_probs=70.8
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.+.+|||=||.+++.|.-|=++|++||.|..|++++|.-+.++|||+||.+.+-++|..|+..|||..++++-|
T Consensus 277 ~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvL 350 (360)
T KOG0145|consen 277 GGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVL 350 (360)
T ss_pred CeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEE
Confidence 46899999999999999999999999999999999999889999999999999999999999999999999865
No 54
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.36 E-value=2e-12 Score=95.34 Aligned_cols=73 Identities=22% Similarity=0.418 Sum_probs=68.6
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhc-CCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAK-YGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~-~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
.+.+||.|+|+++.+++|+++|.. .|+|..|.+..|. +|+++|||.|+|.+++.+++|++.||.+.+.||+|+
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~ 117 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELV 117 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEE
Confidence 456999999999999999999986 8999999999997 799999999999999999999999999999999875
No 55
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.32 E-value=2.9e-12 Score=98.60 Aligned_cols=120 Identities=24% Similarity=0.385 Sum_probs=92.1
Q ss_pred cccceehhHHHHHHHhhHHHhh-----cCCcccccCCCCCCCcccccc---CCCCCeEEEcCCCCCCCHHHHHHHhhcCC
Q 043937 4 SVGKRVIIMAFFSKVGNILRQT-----AGKRISCESSISNPSIYQAIR---CMSSSKLFVGGISYNMDDNSLREAFAKYG 75 (123)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~---~~~~~~l~v~~L~~~~~~~~l~~~f~~~g 75 (123)
|+|.+++-|.........++.. .|+.+.+..+...|....... ...++.|+|.|+|+.++-.+++.+|..||
T Consensus 559 SmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFG 638 (725)
T KOG0110|consen 559 SMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKPASTVGKKKSKKKKGTKILVRNIPFEATKREVRKLFTAFG 638 (725)
T ss_pred ccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCccccccccccccccccceeeeeccchHHHHHHHHHHHhccc
Confidence 4565666666655555555443 456665555544444333322 23467899999999999999999999999
Q ss_pred CeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 76 YVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 76 ~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
.+..++++...+.+.++|||||+|-++.+|.+|+++|..+.+.||+|+
T Consensus 639 qlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLV 686 (725)
T KOG0110|consen 639 QLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLV 686 (725)
T ss_pred ceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhh
Confidence 999999987755677899999999999999999999999999999985
No 56
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.32 E-value=4.6e-12 Score=85.17 Aligned_cols=74 Identities=22% Similarity=0.403 Sum_probs=67.7
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcC-CCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKY-GYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~-g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
...-+|++.+|.-+.+.++..+|.++ |.+..+++-+++.||.++|||||+|.+++.|..|-+.||++-+.++.|
T Consensus 48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL 122 (214)
T KOG4208|consen 48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLL 122 (214)
T ss_pred CccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhhee
Confidence 34569999999999999999999997 788888998999999999999999999999999999999999888765
No 57
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.31 E-value=5.3e-12 Score=95.08 Aligned_cols=74 Identities=26% Similarity=0.455 Sum_probs=70.1
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
++.+|||++||++++.++|.++|+.+|+|..+.++.+..++.++||+||.|.-.+++++|+...+++.+.|+.|
T Consensus 4 ~g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l 77 (678)
T KOG0127|consen 4 SGATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRIL 77 (678)
T ss_pred CCceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceec
Confidence 34789999999999999999999999999999999999888999999999999999999999999999999876
No 58
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.30 E-value=1.3e-11 Score=94.29 Aligned_cols=69 Identities=30% Similarity=0.494 Sum_probs=56.8
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcC------------CCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCC
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKY------------GYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDG 114 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~------------g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~ 114 (123)
....++|||+|||+.+++++|+++|..+ +.|..+.+ +..+|||||+|.+.++|..|| .|||
T Consensus 172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~~~kg~afVeF~~~e~A~~Al-~l~g 244 (509)
T TIGR01642 172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------NKEKNFAFLEFRTVEEATFAM-ALDS 244 (509)
T ss_pred CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------CCCCCEEEEEeCCHHHHhhhh-cCCC
Confidence 3456889999999999999999999974 23333433 345789999999999999999 5999
Q ss_pred ceeCCccc
Q 043937 115 QVTFNASC 122 (123)
Q Consensus 115 ~~~~g~~~ 122 (123)
..+.|.+|
T Consensus 245 ~~~~g~~l 252 (509)
T TIGR01642 245 IIYSNVFL 252 (509)
T ss_pred eEeeCcee
Confidence 99999776
No 59
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.25 E-value=1.5e-11 Score=88.71 Aligned_cols=75 Identities=24% Similarity=0.391 Sum_probs=71.2
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
++...|||.-|++-+++++|.-+|+.||.|..+.++++..+|.+-.||||+|.+.+++++|.-.|++..|.+++|
T Consensus 237 PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRI 311 (479)
T KOG0415|consen 237 PPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRI 311 (479)
T ss_pred CCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceE
Confidence 345679999999999999999999999999999999999999999999999999999999999999999999987
No 60
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.24 E-value=1.7e-11 Score=85.67 Aligned_cols=69 Identities=33% Similarity=0.580 Sum_probs=64.4
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCce
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQV 116 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~ 116 (123)
..++++||||.|...-.|+|++.+|..||.+.++.+.+.. .|.+|||+||.|.+.-+|..||..|||+.
T Consensus 16 g~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSq 84 (371)
T KOG0146|consen 16 GGDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQ 84 (371)
T ss_pred CccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccc
Confidence 3477889999999999999999999999999999998887 59999999999999999999999999875
No 61
>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=99.23 E-value=5.7e-11 Score=65.09 Aligned_cols=51 Identities=37% Similarity=0.661 Sum_probs=45.2
Q ss_pred HHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 67 LREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 67 l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
|.++|++||+|..+.+..+. +++|||+|.+.++|..|+..||+..+.|++|
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l 51 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPL 51 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEE
Confidence 67899999999999886553 5799999999999999999999999999987
No 62
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.18 E-value=4.5e-11 Score=90.85 Aligned_cols=74 Identities=30% Similarity=0.477 Sum_probs=69.3
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.+++|||++|+..+...+|+++|++||+|.-.+++++..+.-.++|+||++.+..+|..||..||.++++|+-|
T Consensus 404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmI 477 (940)
T KOG4661|consen 404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMI 477 (940)
T ss_pred cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceee
Confidence 45789999999999999999999999999999999998778789999999999999999999999999999855
No 63
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.18 E-value=2.4e-11 Score=85.60 Aligned_cols=64 Identities=31% Similarity=0.566 Sum_probs=59.8
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.+|||||||..+++.+|+.+|++||+|.++.++.+ ||||...+...++.|++.||+..|+|.-|
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nI 66 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNI 66 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEE
Confidence 35999999999999999999999999999999866 89999999999999999999999998654
No 64
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.17 E-value=6.7e-11 Score=78.30 Aligned_cols=96 Identities=25% Similarity=0.539 Sum_probs=78.7
Q ss_pred HHhhcCCcccccCCCCCCCccccccCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEE-EEEeecCCCCCceeEEEEEeC
Q 043937 22 LRQTAGKRISCESSISNPSIYQAIRCMSSSKLFVGGISYNMDDNSLREAFAKYGYVNE-ARIILDRETGRSRGFGFVTFS 100 (123)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~-~~~~~~~~~g~~kg~afv~f~ 100 (123)
+....|++++..-...... .-..+.++||+||.+.+.+..|.+.|+.||.+.. ..+.++..+|.++||+|+.|.
T Consensus 73 ~VkLYgrpIrv~kas~~~~-----nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~ 147 (203)
T KOG0131|consen 73 MVKLYGRPIRVNKASAHQK-----NLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYA 147 (203)
T ss_pred HHHhcCceeEEEecccccc-----cccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEech
Confidence 4455778877665442211 1223478999999999999999999999998766 478888889999999999999
Q ss_pred CHHHHHHHHHHhCCceeCCccc
Q 043937 101 TVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 101 ~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+.+.+.+|+.+|||..+.++++
T Consensus 148 sfeasd~ai~s~ngq~l~nr~i 169 (203)
T KOG0131|consen 148 SFEASDAAIGSMNGQYLCNRPI 169 (203)
T ss_pred hHHHHHHHHHHhccchhcCCce
Confidence 9999999999999999998876
No 65
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.14 E-value=5.5e-11 Score=85.62 Aligned_cols=73 Identities=41% Similarity=0.701 Sum_probs=64.5
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+.+++||++|+++++++.|+++|.+||+|.++.+.+++.++.++||+||+|.+.+.+..++. .....+.|++|
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~v 77 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSV 77 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccc
Confidence 56889999999999999999999999999999999999999999999999999888888875 44455666554
No 66
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.13 E-value=1.1e-10 Score=86.33 Aligned_cols=72 Identities=22% Similarity=0.392 Sum_probs=64.9
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
..+.|+|+|.|||+++|++.|++-|..||.|.+..+. . .|+++| .|.|.++++|++|++.||+..+.|+.|+
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadim-e--~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~ 604 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIM-E--NGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIK 604 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhccceehhhhh-c--cCCccc--eEEecCHHHHHHHHHHhccCcccCceee
Confidence 3567889999999999999999999999999999883 3 477777 9999999999999999999999999774
No 67
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.11 E-value=1.7e-10 Score=83.75 Aligned_cols=74 Identities=12% Similarity=0.357 Sum_probs=68.1
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.-.+|||..+.++.+++||+..|..||+|..|.+-+.+-.+.+|||+|++|.+......|+..||-+.++|..|
T Consensus 209 ~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyL 282 (544)
T KOG0124|consen 209 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYL 282 (544)
T ss_pred hhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceE
Confidence 34679999999999999999999999999999999998777899999999999999999999999999888654
No 68
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.11 E-value=3.5e-10 Score=77.05 Aligned_cols=68 Identities=25% Similarity=0.503 Sum_probs=62.4
Q ss_pred eEEEcCCCCCCCHHHHHH----HhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 52 KLFVGGISYNMDDNSLRE----AFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~----~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+|||.||+..+..++|+. +|++||.|..+.... +.+.+|-|||.|.+.+.|..|+++|+|..+.|+++
T Consensus 11 TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~m 82 (221)
T KOG4206|consen 11 TLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPM 82 (221)
T ss_pred eEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchh
Confidence 899999999999999887 999999999986642 57789999999999999999999999999999886
No 69
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.08 E-value=4.3e-10 Score=78.40 Aligned_cols=73 Identities=29% Similarity=0.466 Sum_probs=67.9
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
.+.|+|+|||+.+.++||+++|..||.+..+.+..++ .|.+.|.|-|.|...++|..|++.+|+..+.|++|+
T Consensus 83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk 155 (243)
T KOG0533|consen 83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMK 155 (243)
T ss_pred cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceee
Confidence 3679999999999999999999999999999888887 699999999999999999999999999999998763
No 70
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.05 E-value=7e-10 Score=81.98 Aligned_cols=65 Identities=26% Similarity=0.416 Sum_probs=62.0
Q ss_pred eEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 52 KLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.|||| +++++..|.+.|+.+|++.++++.++. + +-|||||.|.++.+|++|+..||-..+.|+++
T Consensus 3 sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~ 67 (369)
T KOG0123|consen 3 SLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPI 67 (369)
T ss_pred ceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEE
Confidence 58999 999999999999999999999999997 5 99999999999999999999999999999986
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.04 E-value=6e-10 Score=86.13 Aligned_cols=72 Identities=33% Similarity=0.521 Sum_probs=63.7
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCC---CceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETG---RSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g---~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
++|||.||+++++.++++.+|...|.|.++.|...+..- .+.|||||+|.+.++|+.|++.|+|+.+.|+.|
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l 590 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKL 590 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceE
Confidence 449999999999999999999999999999887665311 245999999999999999999999999999876
No 72
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.04 E-value=7.2e-10 Score=79.70 Aligned_cols=69 Identities=29% Similarity=0.518 Sum_probs=60.0
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHH-HhCCceeCCccc
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQ-ALDGQVTFNASC 122 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~-~l~~~~~~g~~~ 122 (123)
..-.+|||++|...+++.+|+++|.+||+|+++.+... +++|||+|.++..|+.|.. .+|...|.|.+|
T Consensus 226 ~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl 295 (377)
T KOG0153|consen 226 TSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVINGFRL 295 (377)
T ss_pred cceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc------cccceeeehhhHHHHHHHHhhcceeeecceEE
Confidence 45578999999999999999999999999999998765 3599999999999998876 577777888776
No 73
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.03 E-value=2.5e-10 Score=80.49 Aligned_cols=67 Identities=39% Similarity=0.551 Sum_probs=62.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
.+++|+|+|+.+.++.++|+..|.+||.|.++.++++ |+||.|...++|..|++.||++++.|+++.
T Consensus 77 ~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~~~~gk~m~ 143 (346)
T KOG0109|consen 77 ASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMH 143 (346)
T ss_pred CccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhcccccccccceee
Confidence 4577999999999999999999999999999999855 999999999999999999999999999873
No 74
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=99.02 E-value=1e-09 Score=76.12 Aligned_cols=77 Identities=26% Similarity=0.539 Sum_probs=72.1
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
...+.+||.|-|.-+++++-|...|.+|-.....++++++.+|+++||+||-|.+..++..|++.|||+-++.++|+
T Consensus 187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpik 263 (290)
T KOG0226|consen 187 DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIK 263 (290)
T ss_pred ccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhH
Confidence 34678999999999999999999999999989999999999999999999999999999999999999999998874
No 75
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.98 E-value=1e-09 Score=76.39 Aligned_cols=77 Identities=22% Similarity=0.415 Sum_probs=71.1
Q ss_pred ccCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 45 IRCMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 45 ~~~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
....+...+||+|+.+.++.++++.+|+.||.+..+.+..+...|.++||+||+|.+.+.++.++. ||+..+.|+.+
T Consensus 96 ~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i 172 (231)
T KOG4209|consen 96 QKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAI 172 (231)
T ss_pred hhccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccc
Confidence 345677889999999999999999999999999999999999888999999999999999999998 99999999876
No 76
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.98 E-value=3.2e-09 Score=76.43 Aligned_cols=72 Identities=18% Similarity=0.371 Sum_probs=65.9
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEE--------EEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNE--------ARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~--------~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
.+.|||+|||.++|.+++.++|++||-|.. |+|.++.. |..||-|.+.|...+++..|+..|++..+.|++
T Consensus 134 Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~-G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~ 212 (382)
T KOG1548|consen 134 NTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQ-GKLKGDALCCYIKRESVELAIKILDEDELRGKK 212 (382)
T ss_pred CceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCC-CCccCceEEEeecccHHHHHHHHhCcccccCcE
Confidence 466999999999999999999999997754 78888874 999999999999999999999999999999987
Q ss_pred c
Q 043937 122 C 122 (123)
Q Consensus 122 ~ 122 (123)
|
T Consensus 213 ~ 213 (382)
T KOG1548|consen 213 L 213 (382)
T ss_pred E
Confidence 6
No 77
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.98 E-value=6.4e-10 Score=83.98 Aligned_cols=72 Identities=26% Similarity=0.394 Sum_probs=64.8
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
...+.+|+|-|||.++++++|...|+.||+|+.++.... .+|..||+|-+.-+|++|++.|++.++.|++|+
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~-----~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPN-----KRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccc-----cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 456789999999999999999999999999999766444 468999999999999999999999999998874
No 78
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.98 E-value=1e-09 Score=85.70 Aligned_cols=67 Identities=27% Similarity=0.491 Sum_probs=62.1
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+++||||+|+..++++||.++|+.||+|.++.+.-. +|||||.+.++.+|.+|+..|++..+.++.|
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~n~kv~~k~I 487 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSNVKVADKTI 487 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhcccccceee
Confidence 578999999999999999999999999999988655 5799999999999999999999999988776
No 79
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.87 E-value=4.3e-09 Score=75.92 Aligned_cols=72 Identities=28% Similarity=0.552 Sum_probs=63.2
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
....+||++||.++++++++++|.+||.|..+.++.+..+..++||+||.|.+++.+..++. ..-+.+.++.
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~ 167 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKK 167 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCce
Confidence 45689999999999999999999999999999999999999999999999999999998875 4555555544
No 80
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.83 E-value=7.1e-09 Score=77.43 Aligned_cols=72 Identities=24% Similarity=0.385 Sum_probs=59.1
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
...|||.|||+++++.+|+++|..||.|....+......++..+||||+|.+.+.++.|+.+ +-..++++++
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl 359 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKL 359 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeE
Confidence 35599999999999999999999999999988865543355559999999999999999974 4556666554
No 81
>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=98.77 E-value=1.2e-07 Score=57.55 Aligned_cols=69 Identities=17% Similarity=0.269 Sum_probs=62.0
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhc--CCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCC
Q 043937 51 SKLFVGGISYNMDDNSLREAFAK--YGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFN 119 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~--~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g 119 (123)
++|.+.|+|-..+.++|.+.+.. .|....+-++.|..++-+.|||||.|.+.+.+..-.+.++|.....
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~ 72 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPN 72 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCcccc
Confidence 67999999999999999988875 4788889999998889999999999999999999999999987653
No 82
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.76 E-value=1.1e-07 Score=65.13 Aligned_cols=73 Identities=18% Similarity=0.258 Sum_probs=59.1
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecC-CCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCc
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDR-ETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNA 120 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~-~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~ 120 (123)
...++|||++||.++..-+|..+|..|...+...+.... ...-++-+||+.|.+...|.+|+.+|||.+++..
T Consensus 32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE 105 (284)
T KOG1457|consen 32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPE 105 (284)
T ss_pred cccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccc
Confidence 446889999999999999999999998665555553332 2223568999999999999999999999988753
No 83
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.73 E-value=5.7e-09 Score=71.19 Aligned_cols=74 Identities=19% Similarity=0.207 Sum_probs=66.7
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
..+++|||+|+...++++-|.++|-.-|+|..+.|..+++ ++.| ||||+|.++.....|+..+||-.+.+.+++
T Consensus 7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d-~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q 80 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQD-QEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQ 80 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCcc-CCCc-eeeeecccccchhhhhhhcccchhccchhh
Confidence 3467899999999999999999999999999999987764 6677 999999999999999999999999888764
No 84
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.69 E-value=1.6e-08 Score=76.69 Aligned_cols=75 Identities=28% Similarity=0.561 Sum_probs=70.8
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
....+||++||...++.++.++...||++....++.+..+|.++||||.+|.+......|+..|||..+++++|+
T Consensus 288 ~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lv 362 (500)
T KOG0120|consen 288 SPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLV 362 (500)
T ss_pred ccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeE
Confidence 457899999999999999999999999999999999998899999999999999999999999999999998764
No 85
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.61 E-value=9e-08 Score=74.56 Aligned_cols=76 Identities=28% Similarity=0.540 Sum_probs=65.7
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecC---CCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDR---ETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~---~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.+.+++|||+||++.++++.|-.-|+.||++..++++.-+ .....+.|+||.|-+..++++|++.|+|..+-+.++
T Consensus 171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~ 249 (877)
T KOG0151|consen 171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEM 249 (877)
T ss_pred CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeee
Confidence 4567899999999999999999999999999999987643 123456799999999999999999999998877765
No 86
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.61 E-value=3.5e-08 Score=67.69 Aligned_cols=64 Identities=27% Similarity=0.618 Sum_probs=57.9
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
..|||++||+.+.+.+++.+|..||.+..+.+. .||+||+|.+..+|..|+.-+|+..+.+.++
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~ 65 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGKELCGERL 65 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCceecceee
Confidence 459999999999999999999999999998774 3588999999999999999999999988763
No 87
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.53 E-value=3.3e-07 Score=68.79 Aligned_cols=67 Identities=16% Similarity=0.336 Sum_probs=54.4
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNA 120 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~ 120 (123)
...|-+.+|||++|+++|.+||+.+ .|..+.+.+. +|++.|-|||+|.++++++.|++ .+...+..+
T Consensus 10 ~~~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r~--~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~R 76 (510)
T KOG4211|consen 10 AFEVRLRGLPWSATEKEILDFFSNC-GIENLEIPRR--NGRPSGEAYVEFTSEEDVEKALK-KDRESMGHR 76 (510)
T ss_pred ceEEEecCCCccccHHHHHHHHhcC-ceeEEEEecc--CCCcCcceEEEeechHHHHHHHH-hhHHHhCCc
Confidence 4457789999999999999999998 4566656554 79999999999999999999997 555444444
No 88
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.46 E-value=5.4e-08 Score=73.66 Aligned_cols=75 Identities=29% Similarity=0.420 Sum_probs=69.0
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+.+.+++|+.-|+-..++-+|.+||+.+|.|+.|.++.++.++.++|.+||+|.+.+.+..|+ .|.|..+.|-+|
T Consensus 176 ERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv 250 (549)
T KOG0147|consen 176 ERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPV 250 (549)
T ss_pred HHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCcccCcee
Confidence 345678888888888999999999999999999999999999999999999999999999999 599999999876
No 89
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.46 E-value=1.6e-07 Score=68.21 Aligned_cols=72 Identities=17% Similarity=0.366 Sum_probs=64.8
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCC--CeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYG--YVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g--~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
..++|||||-|++|++||-+.+.+.| .+.++++..++.+|++||||++...+....+..++.|..+.|+|..
T Consensus 80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~ 153 (498)
T KOG4849|consen 80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQS 153 (498)
T ss_pred eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCC
Confidence 35699999999999999999998765 7788888888889999999999999999999999999999999864
No 90
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.43 E-value=1e-06 Score=65.09 Aligned_cols=68 Identities=19% Similarity=0.388 Sum_probs=61.9
Q ss_pred CCeEEEcCCCCC-CCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 50 SSKLFVGGISYN-MDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 50 ~~~l~v~~L~~~-~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.+.|.|+||..+ +|.+.|..+|+-||+|.++++..++ +.-|+|.|.+..+|+.|+..|+|..+.|++|
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~l 365 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLEGHKLYGKKL 365 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC-----CcceeeeecchhHHHHHHHHhhcceecCceE
Confidence 466889999877 9999999999999999999998875 2579999999999999999999999999886
No 91
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.37 E-value=5.2e-07 Score=61.96 Aligned_cols=65 Identities=23% Similarity=0.439 Sum_probs=55.9
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeC
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTF 118 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~ 118 (123)
..+|||.||...++|++|+.+|+.|.....+++... .|. ..||++|.+.++|+.|+..|+|..+.
T Consensus 210 cstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~--~g~--~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR--GGM--PVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred hhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC--CCc--ceEeecHHHHHHHHHHHHHhhcceec
Confidence 467999999999999999999999998888877533 354 37999999999999999999998763
No 92
>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=98.32 E-value=2.7e-06 Score=52.48 Aligned_cols=59 Identities=25% Similarity=0.383 Sum_probs=38.6
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCc
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQ 115 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~ 115 (123)
+.|.+.+++..++.++|++.|+.||+|..|.+.... .-|+|.|.+.+.|+.|+..+...
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHHHhc
Confidence 568899999999999999999999999999886443 27899999999999999876544
No 93
>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=98.28 E-value=7.4e-06 Score=48.14 Aligned_cols=62 Identities=24% Similarity=0.355 Sum_probs=42.1
Q ss_pred CeEEEcCCCCCCCHHHHH----HHhhcCC-CeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 51 SKLFVGGISYNMDDNSLR----EAFAKYG-YVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~----~~f~~~g-~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+.|||.|||.+.....++ .++..+| +|.++. .+-|++.|.+.+.|.+|.+.|+|..+.|++|
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~----------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI 69 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS----------GGTAILRFPNQEFAERAQKRMEGEDVFGNKI 69 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe----------CCEEEEEeCCHHHHHHHHHhhcccccccceE
Confidence 359999999998887654 5555776 555541 2479999999999999999999999999887
No 94
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.22 E-value=2.2e-06 Score=62.24 Aligned_cols=75 Identities=23% Similarity=0.356 Sum_probs=67.2
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEE--------EEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNE--------ARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNA 120 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~--------~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~ 120 (123)
...+|||-+||..+++++|.++|.++|.|.. +.+.+++.++.+||-|.|.|.+...|+.|+..+++..+.+.
T Consensus 65 ~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn 144 (351)
T KOG1995|consen 65 DNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGN 144 (351)
T ss_pred ccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCC
Confidence 4467999999999999999999999987744 56778888999999999999999999999999999999987
Q ss_pred ccC
Q 043937 121 SCV 123 (123)
Q Consensus 121 ~~~ 123 (123)
.|+
T Consensus 145 ~ik 147 (351)
T KOG1995|consen 145 TIK 147 (351)
T ss_pred Cch
Confidence 663
No 95
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.21 E-value=7.5e-06 Score=54.93 Aligned_cols=64 Identities=25% Similarity=0.295 Sum_probs=57.7
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeC
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTF 118 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~ 118 (123)
.+..+|.|++||++.+++||+++...-|+|....+.++ |.+.|+|-..++.+-|++.|+..++.
T Consensus 113 rSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 113 RSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred ccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhcccccc
Confidence 45678999999999999999999999999999998877 37899999999999999999887653
No 96
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.17 E-value=8.4e-06 Score=59.18 Aligned_cols=86 Identities=23% Similarity=0.349 Sum_probs=63.7
Q ss_pred CCCCccccccCCCCCeEEEcCCCCCCCHHH----H--HHHhhcCCCeEEEEEeecCCCCC-cee--EEEEEeCCHHHHHH
Q 043937 37 SNPSIYQAIRCMSSSKLFVGGISYNMDDNS----L--REAFAKYGYVNEARIILDRETGR-SRG--FGFVTFSTVEEASS 107 (123)
Q Consensus 37 ~~~~~~~~~~~~~~~~l~v~~L~~~~~~~~----l--~~~f~~~g~i~~~~~~~~~~~g~-~kg--~afv~f~~~~~a~~ 107 (123)
++..-....+......+||-+||+.+..++ | .++|++||+|..+.+.+.-.+-. ..+ -.||+|.+.++|.+
T Consensus 101 ~nrkhlsniRVvQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAar 180 (480)
T COG5175 101 QNRKHLSNIRVVQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAAR 180 (480)
T ss_pred ccccccccceeeecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHH
Confidence 444444455555667799999999877765 3 48999999999987754421111 122 23999999999999
Q ss_pred HHHHhCCceeCCccc
Q 043937 108 AIQALDGQVTFNASC 122 (123)
Q Consensus 108 a~~~l~~~~~~g~~~ 122 (123)
||...+|+.++||-|
T Consensus 181 cIa~vDgs~~DGr~l 195 (480)
T COG5175 181 CIAEVDGSLLDGRVL 195 (480)
T ss_pred HHHHhccccccCceE
Confidence 999999999999865
No 97
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.11 E-value=2.3e-06 Score=61.48 Aligned_cols=71 Identities=25% Similarity=0.500 Sum_probs=63.2
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+..+|++|++.+++++|+.+|..+|.|..+++..+..+|.++|++++.|.+......++.. +...+.++++
T Consensus 186 ~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~ 256 (285)
T KOG4210|consen 186 TIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPL 256 (285)
T ss_pred cceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCccc
Confidence 3344999999999999999999999999999999999999999999999999999998875 6777777654
No 98
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.09 E-value=1.1e-05 Score=60.85 Aligned_cols=70 Identities=21% Similarity=0.340 Sum_probs=55.3
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEE-EEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNE-ARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNA 120 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~-~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~ 120 (123)
....|-+.+||+.++++||.+||+..--+.. +.++.++ .+++.|-|||.|.+.+.|+.|+. -|...|..|
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhR 172 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALG-RHRENIGHR 172 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHH-HHHHhhccc
Confidence 4567889999999999999999998644444 4456665 57899999999999999999996 455555444
No 99
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.09 E-value=2.2e-06 Score=58.90 Aligned_cols=68 Identities=28% Similarity=0.402 Sum_probs=59.3
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
....+.+.|.+++..+.+++|.++|.++|.+..... ..+++||+|...+++..|+..+++.++.++.|
T Consensus 96 ~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l 163 (216)
T KOG0106|consen 96 SRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRI 163 (216)
T ss_pred ccccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccchhhcCcee
Confidence 456788999999999999999999999999844433 24589999999999999999999999999876
No 100
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=98.01 E-value=7.6e-06 Score=57.18 Aligned_cols=73 Identities=21% Similarity=0.315 Sum_probs=61.0
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCC--------CCceeE----EEEEeCCHHHHHHHHHHhCCce
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRET--------GRSRGF----GFVTFSTVEEASSAIQALDGQV 116 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~--------g~~kg~----afv~f~~~~~a~~a~~~l~~~~ 116 (123)
....||++++|+.+...-|+++|+.||.|-.|.|.....+ |.++.. |-|+|.+...|..+...||++.
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~ 152 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP 152 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence 4567999999999999999999999999999988665444 322222 4578999999999999999999
Q ss_pred eCCcc
Q 043937 117 TFNAS 121 (123)
Q Consensus 117 ~~g~~ 121 (123)
|+|++
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 99986
No 101
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.98 E-value=2.5e-05 Score=57.55 Aligned_cols=109 Identities=16% Similarity=0.258 Sum_probs=74.1
Q ss_pred HHHHHHHhhHHHhhcCCcccccCCC--CCCCcc--cc---ccCCCCCeEEEcCCCCCCCHHHHHHHhhcCC-CeEE--EE
Q 043937 12 MAFFSKVGNILRQTAGKRISCESSI--SNPSIY--QA---IRCMSSSKLFVGGISYNMDDNSLREAFAKYG-YVNE--AR 81 (123)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~--~~---~~~~~~~~l~v~~L~~~~~~~~l~~~f~~~g-~i~~--~~ 81 (123)
.+++..+..-.+|...+.+...... ..|... +. ....+.-+|.+.+||+..+.++|-+||..|. .|+. |.
T Consensus 235 IElFRSTaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVH 314 (508)
T KOG1365|consen 235 IELFRSTAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVH 314 (508)
T ss_pred HHHHHHhHHHHHHHHHhhccccccCCCCCCCCCCCccccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeE
Confidence 3566666666666655555322211 122111 11 1123456789999999999999999999886 4555 67
Q ss_pred EeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 82 IILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 82 ~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
++.+. .|.+.|-|||+|.+.+.|..|....+++....|.
T Consensus 315 mv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RY 353 (508)
T KOG1365|consen 315 MVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRY 353 (508)
T ss_pred EEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccce
Confidence 77776 5999999999999999999998777776654443
No 102
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.94 E-value=6.8e-05 Score=51.50 Aligned_cols=67 Identities=30% Similarity=0.422 Sum_probs=58.9
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeC
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTF 118 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~ 118 (123)
.+....+++.|+|..++.+.+..+|.+|....+++++... ++.|||+|.+...+..|...+++..+-
T Consensus 143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it 209 (221)
T KOG4206|consen 143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKIT 209 (221)
T ss_pred CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceec
Confidence 3456779999999999999999999999999999887654 479999999999999999999988765
No 103
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.87 E-value=8.2e-05 Score=57.28 Aligned_cols=70 Identities=24% Similarity=0.389 Sum_probs=58.3
Q ss_pred CCCCeEEEcCCCCCCCH------HHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeC
Q 043937 48 MSSSKLFVGGISYNMDD------NSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTF 118 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~------~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~ 118 (123)
.-+..|.|.|+|---.. .-|..+|+++|++....++.+.. |.++||.|++|.+..+|..|++.|||+.++
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~-ggtkG~lf~E~~~~~~A~~aVK~l~G~~ld 131 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE-GGTKGYLFVEYASMRDAKKAVKSLNGKRLD 131 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc-CCeeeEEEEEecChhhHHHHHHhcccceec
Confidence 34578999999875333 23668899999999998887875 559999999999999999999999999875
No 104
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.78 E-value=0.0001 Score=39.79 Aligned_cols=51 Identities=16% Similarity=0.358 Sum_probs=40.5
Q ss_pred eEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHH
Q 043937 52 KLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAI 109 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~ 109 (123)
.|-|.+.+++..+.- ..+|..||+|....+... ..+.++.|.++.+|+.|+
T Consensus 3 wI~V~Gf~~~~~~~v-l~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 3 WISVSGFPPDLAEEV-LEHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred EEEEEeECchHHHHH-HHHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 477888888877554 558999999999887522 348999999999999885
No 105
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.75 E-value=9.8e-05 Score=58.15 Aligned_cols=71 Identities=28% Similarity=0.339 Sum_probs=60.6
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCe-EEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYV-NEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i-~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
+.|-+.|+|++++-+||-+||..|-.+ .++.+.++ +.|++.|-|.|.|++.++|.+|...|++.+|..+.+
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~n-d~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V 939 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRN-DDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVV 939 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeec-CCCCcccceeEeecCHHHHHhhhhccccCcccceeE
Confidence 367889999999999999999999644 33444444 469999999999999999999999999999998875
No 106
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.67 E-value=0.00015 Score=55.21 Aligned_cols=64 Identities=23% Similarity=0.493 Sum_probs=47.1
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCC--Ccee---EEEEEeCCHHHHHHHHHH
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETG--RSRG---FGFVTFSTVEEASSAIQA 111 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g--~~kg---~afv~f~~~~~a~~a~~~ 111 (123)
.-++.||||+||++++|+.|...|..||.+..-.-.+....+ -++| |+|+.|.++..+..-+.+
T Consensus 257 ~~S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~a 325 (520)
T KOG0129|consen 257 RYSRKVFVGGLPWDITEAQINASFGQFGSVKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSA 325 (520)
T ss_pred ccccceeecCCCccccHHHHHhhcccccceEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHH
Confidence 346789999999999999999999999986432221111111 2466 999999999888776554
No 107
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.57 E-value=0.00056 Score=50.55 Aligned_cols=70 Identities=19% Similarity=0.322 Sum_probs=62.5
Q ss_pred CCCCeEEEcCCCCC-CCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 48 MSSSKLFVGGISYN-MDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 48 ~~~~~l~v~~L~~~-~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.+++.+.|-+|... ++-+.|-++|.-||.|..+++++.+ .|-|.|++.+....++|+..||+..+.|.+|
T Consensus 285 ~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl 355 (494)
T KOG1456|consen 285 APGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKL 355 (494)
T ss_pred CCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceE
Confidence 46788999999987 7777899999999999999998776 3679999999999999999999999999876
No 108
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.51 E-value=0.00041 Score=52.85 Aligned_cols=63 Identities=29% Similarity=0.362 Sum_probs=57.5
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhc-CCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHH
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAK-YGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQA 111 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~-~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~ 111 (123)
..++||||+||.-++.++|..+|.. ||.|..+-|=.|+.-+.++|-|-|+|.+-..--+||.+
T Consensus 369 prrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 369 PRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred ccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 4578999999999999999999995 99999999988977789999999999999998888864
No 109
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.50 E-value=0.00019 Score=53.04 Aligned_cols=59 Identities=22% Similarity=0.332 Sum_probs=47.9
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcC----CCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHH
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKY----GYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQ 110 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~----g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~ 110 (123)
-.|.+.+||+++++.|+.+||..- |....+.++... .|+..|-|||.|..+++|..|++
T Consensus 162 vivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~ 224 (508)
T KOG1365|consen 162 VIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALR 224 (508)
T ss_pred eEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHH
Confidence 446678999999999999999742 344555555554 59999999999999999999996
No 110
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.46 E-value=0.00034 Score=53.61 Aligned_cols=59 Identities=27% Similarity=0.378 Sum_probs=47.7
Q ss_pred HHHHHHhhcCCCeEEEEEeecC---CCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 65 NSLREAFAKYGYVNEARIILDR---ETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 65 ~~l~~~f~~~g~i~~~~~~~~~---~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
|+++.-+++||.|..|.+++.. ...-..|.-||+|.+.++++.|...|+|.++.|+.++
T Consensus 424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVv 485 (500)
T KOG0120|consen 424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVV 485 (500)
T ss_pred HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEE
Confidence 3466667789999999988762 1223466779999999999999999999999998764
No 111
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.34 E-value=0.00076 Score=49.25 Aligned_cols=72 Identities=21% Similarity=0.285 Sum_probs=55.2
Q ss_pred CCCCCeEEEcCCCC----CCC-------HHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCc
Q 043937 47 CMSSSKLFVGGISY----NMD-------DNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQ 115 (123)
Q Consensus 47 ~~~~~~l~v~~L~~----~~~-------~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~ 115 (123)
....++|.+.|+-. ..+ .++|.+--.+||.|..|.+.-.+ +.|.+-|.|.+.+.|..||+.|+|.
T Consensus 262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~h----PdGvvtV~f~n~eeA~~ciq~m~GR 337 (382)
T KOG1548|consen 262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRH----PDGVVTVSFRNNEEADQCIQTMDGR 337 (382)
T ss_pred ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccC----CCceeEEEeCChHHHHHHHHHhcCe
Confidence 34567788887642 223 14455666789999999775333 4678999999999999999999999
Q ss_pred eeCCccc
Q 043937 116 VTFNASC 122 (123)
Q Consensus 116 ~~~g~~~ 122 (123)
-+.||.|
T Consensus 338 ~fdgRql 344 (382)
T KOG1548|consen 338 WFDGRQL 344 (382)
T ss_pred eecceEE
Confidence 9999976
No 112
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=97.33 E-value=0.0012 Score=40.28 Aligned_cols=70 Identities=16% Similarity=0.179 Sum_probs=46.0
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEe-ec------CCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARII-LD------RETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~-~~------~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
.+.|.|=+.|+..+ ..+-++|++||.|.+..-. ++ ........+-.|.|.++.+|.+||. -||..+.|.-
T Consensus 6 ~~wVtVFGfp~~~~-~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~ 82 (100)
T PF05172_consen 6 ETWVTVFGFPPSAS-NQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSL 82 (100)
T ss_dssp CCEEEEE---GGGH-HHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCE
T ss_pred CeEEEEEccCHHHH-HHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcE
Confidence 45577888888855 5566779999999877400 00 0011234589999999999999996 8998888753
No 113
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.28 E-value=0.0007 Score=54.68 Aligned_cols=68 Identities=15% Similarity=0.302 Sum_probs=59.0
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCc
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNA 120 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~ 120 (123)
....+.+++++|+.++....|...|..||.|+.+.+-. |. -|++|.|.+...++.|++.|.+..+++-
T Consensus 452 st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h----gq--~yayi~yes~~~aq~a~~~~rgap~G~P 519 (975)
T KOG0112|consen 452 STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH----GQ--PYAYIQYESPPAAQAATHDMRGAPLGGP 519 (975)
T ss_pred cccceeeccCCCCCCChHHHHHHHhhccCcceeeeccc----CC--cceeeecccCccchhhHHHHhcCcCCCC
Confidence 34567899999999999999999999999999987732 32 4999999999999999999999988763
No 114
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.01 E-value=0.00092 Score=50.18 Aligned_cols=66 Identities=21% Similarity=0.395 Sum_probs=49.3
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCc-eeCCccc
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQ-VTFNASC 122 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~-~~~g~~~ 122 (123)
..+|++||.+..+..+|+.+|+.----..-.+... .||+|+.+.+..++..|++.+++. ++.|+++
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k------~gyafvd~pdq~wa~kaie~~sgk~elqGkr~ 68 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK------SGYAFVDCPDQQWANKAIETLSGKVELQGKRQ 68 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeee------cceeeccCCchhhhhhhHHhhchhhhhcCcee
Confidence 35899999999999999999986411111111112 369999999999999999999987 5666554
No 115
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.01 E-value=0.0015 Score=48.96 Aligned_cols=69 Identities=20% Similarity=0.322 Sum_probs=55.3
Q ss_pred cCCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeec---CC--CCC--------ceeEEEEEeCCHHHHHHHHHHh
Q 043937 46 RCMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILD---RE--TGR--------SRGFGFVTFSTVEEASSAIQAL 112 (123)
Q Consensus 46 ~~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~---~~--~g~--------~kg~afv~f~~~~~a~~a~~~l 112 (123)
..+.+++|.+-|||.+-.-+-|.++|+.+|.|..+++..- +. .|. .+-+|+|+|..-+.|..|.+.|
T Consensus 227 eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~ 306 (484)
T KOG1855|consen 227 EELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELL 306 (484)
T ss_pred cccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhh
Confidence 3467889999999999777999999999999999988543 11 121 2568999999999999999877
Q ss_pred CC
Q 043937 113 DG 114 (123)
Q Consensus 113 ~~ 114 (123)
+.
T Consensus 307 ~~ 308 (484)
T KOG1855|consen 307 NP 308 (484)
T ss_pred ch
Confidence 54
No 116
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=97.00 E-value=0.002 Score=45.29 Aligned_cols=66 Identities=21% Similarity=0.336 Sum_probs=56.2
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCcee
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVT 117 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~ 117 (123)
..|||.||+..++.+.+...|+.||+|..-.+..|. .+++.+-++|+|.+...+..|++.++-.-+
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~ 97 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRCREGGF 97 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHHhccCcc
Confidence 679999999999999999999999999887666665 488888899999999999999987644333
No 117
>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=96.97 E-value=0.0018 Score=43.52 Aligned_cols=73 Identities=11% Similarity=0.162 Sum_probs=47.2
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhc-CCCe---EEEEEeecC-CCC-CceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAK-YGYV---NEARIILDR-ETG-RSRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~-~g~i---~~~~~~~~~-~~g-~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
...+|.|++||+.++++++.+.+.. +++- ..+...... ... -.-.-|||.|.+.+++......++|..+.+.+
T Consensus 6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~k 84 (176)
T PF03467_consen 6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSK 84 (176)
T ss_dssp ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TT
T ss_pred cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCC
Confidence 4567999999999999999887776 6655 333311221 111 13557899999999999999999998876653
No 118
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.93 E-value=0.00039 Score=55.75 Aligned_cols=63 Identities=22% Similarity=0.401 Sum_probs=56.4
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhC
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALD 113 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~ 113 (123)
...|+|+|+|+..|.+.++.++..+|.+..++++..+ .|+++|.+++.|.++.++..+...++
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d 798 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVD 798 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccch
Confidence 3579999999999999999999999999999988887 49999999999999999988775444
No 119
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=96.84 E-value=0.0033 Score=47.03 Aligned_cols=69 Identities=19% Similarity=0.268 Sum_probs=55.7
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEE-EEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNE-ARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~-~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
+.+.++..+|+|.++++++++..|..-|.... .++. ++.+-++++.+.+.++|-.|+-.++++.+++..
T Consensus 412 PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff-----~kd~kmal~q~~sveeA~~ali~~hnh~lgen~ 481 (492)
T KOG1190|consen 412 PPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFF-----QKDRKMALPQLESVEEAIQALIDLHNHYLGENH 481 (492)
T ss_pred CchhheeeccCCcccchhHHHHhhhcCCceEEeeeec-----CCCcceeecccCChhHhhhhccccccccCCCCc
Confidence 45668999999999999999999999775543 3432 333459999999999999999999998887653
No 120
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=96.69 E-value=0.021 Score=33.68 Aligned_cols=54 Identities=15% Similarity=0.299 Sum_probs=41.1
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhC
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALD 113 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~ 113 (123)
...+++ .|......||.++|+.||.|.-..+- + .-|||...+.+.+..++..+.
T Consensus 10 HVFhlt-FPkeWK~~DI~qlFspfG~I~VsWi~-d-------TSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 10 HVFHLT-FPKEWKTSDIYQLFSPFGQIYVSWIN-D-------TSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp CEEEEE---TT--HHHHHHHCCCCCCEEEEEEC-T-------TEEEEEECCCHHHHHHHHHHT
T ss_pred eEEEEe-CchHhhhhhHHHHhccCCcEEEEEEc-C-------CcEEEEeecHHHHHHHHHHhc
Confidence 446666 89999999999999999998766662 2 269999999999999998775
No 121
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=96.62 E-value=0.002 Score=47.84 Aligned_cols=69 Identities=17% Similarity=0.249 Sum_probs=56.3
Q ss_pred eEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCC---CCceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 52 KLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRET---GRSRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~---g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
.|-|.||.+.++.++++.+|+..|+|.++.|+.+... ....-.|||-|.+...+..|.. |.++++-|+=
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdra 80 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRA 80 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeee
Confidence 5889999999999999999999999999998764321 1234589999999999999874 8888776653
No 122
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.62 E-value=0.0001 Score=58.95 Aligned_cols=62 Identities=29% Similarity=0.491 Sum_probs=54.0
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHh
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQAL 112 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l 112 (123)
.++|++||+..+.+++|...|..+|.+..+.+.-....++.+|+||++|-.++.+.+|+...
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~ 729 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFR 729 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhh
Confidence 57899999999999999999999998877766545557889999999999999999999643
No 123
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.51 E-value=0.0017 Score=47.25 Aligned_cols=81 Identities=23% Similarity=0.407 Sum_probs=59.4
Q ss_pred cccccCCCCCeEEEcCCCCCCCHHH-HH--HHhhcCCCeEEEEEeecC--CCCC-ceeEEEEEeCCHHHHHHHHHHhCCc
Q 043937 42 YQAIRCMSSSKLFVGGISYNMDDNS-LR--EAFAKYGYVNEARIILDR--ETGR-SRGFGFVTFSTVEEASSAIQALDGQ 115 (123)
Q Consensus 42 ~~~~~~~~~~~l~v~~L~~~~~~~~-l~--~~f~~~g~i~~~~~~~~~--~~g~-~kg~afv~f~~~~~a~~a~~~l~~~ 115 (123)
....+......+||-+|+....+++ |+ +.|++||.|..+....+. .++. +..-++|+|...++|..||...+|.
T Consensus 69 ls~~rvVqknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~ 148 (327)
T KOG2068|consen 69 LSGVRVVQKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGF 148 (327)
T ss_pred cccchhhhhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhH
Confidence 3344444556689999998866554 43 678899999999887654 1121 1223799999999999999999999
Q ss_pred eeCCccc
Q 043937 116 VTFNASC 122 (123)
Q Consensus 116 ~~~g~~~ 122 (123)
.++|+.+
T Consensus 149 ~~dg~~l 155 (327)
T KOG2068|consen 149 VDDGRAL 155 (327)
T ss_pred Hhhhhhh
Confidence 9988764
No 124
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=96.44 E-value=0.0014 Score=46.10 Aligned_cols=56 Identities=20% Similarity=0.270 Sum_probs=44.2
Q ss_pred HHHHhh-cCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 67 LREAFA-KYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 67 l~~~f~-~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
+...|. +||+|.++.+-.+. .--..|-.||.|..+++|++|+..||+.-+.|++|.
T Consensus 85 ~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ 141 (260)
T KOG2202|consen 85 VFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIH 141 (260)
T ss_pred HHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcce
Confidence 334444 79999998765443 122478899999999999999999999999999873
No 125
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=96.23 E-value=0.028 Score=36.57 Aligned_cols=66 Identities=30% Similarity=0.355 Sum_probs=46.1
Q ss_pred CCCCeEEEcCCC----C--CCCH---HHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeC
Q 043937 48 MSSSKLFVGGIS----Y--NMDD---NSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTF 118 (123)
Q Consensus 48 ~~~~~l~v~~L~----~--~~~~---~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~ 118 (123)
+.+.+|.|+-+. . ...+ .+|-+.|..||.+.-++++.+ .-.|+|.+...|.+|+. ++|.++.
T Consensus 25 PpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals-~dg~~v~ 95 (146)
T PF08952_consen 25 PPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALS-LDGIQVN 95 (146)
T ss_dssp -TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHH-GCCSEET
T ss_pred CCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHc-cCCcEEC
Confidence 445566676444 1 2332 256677889999888877643 46899999999999995 9999999
Q ss_pred Cccc
Q 043937 119 NASC 122 (123)
Q Consensus 119 g~~~ 122 (123)
|+.|
T Consensus 96 g~~l 99 (146)
T PF08952_consen 96 GRTL 99 (146)
T ss_dssp TEEE
T ss_pred CEEE
Confidence 9875
No 126
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=96.00 E-value=0.19 Score=31.25 Aligned_cols=65 Identities=18% Similarity=0.142 Sum_probs=48.1
Q ss_pred eEEEcCCCCCCCHHHHHHHhhcC-CCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeC
Q 043937 52 KLFVGGISYNMDDNSLREAFAKY-GYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTF 118 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~~-g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~ 118 (123)
.+.+...|..++..+|..+...+ ..|..+++.++. .-++-.+++.|.+...|......+||+.+.
T Consensus 15 ~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 15 LCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred EEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 34445555666667777655555 467788888874 335778899999999999999999998764
No 127
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=95.94 E-value=0.0053 Score=47.90 Aligned_cols=65 Identities=26% Similarity=0.377 Sum_probs=52.5
Q ss_pred cCCCCCeEEEcCCCCCCCHHHHHHHhhc-CCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCce
Q 043937 46 RCMSSSKLFVGGISYNMDDNSLREAFAK-YGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQV 116 (123)
Q Consensus 46 ~~~~~~~l~v~~L~~~~~~~~l~~~f~~-~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~ 116 (123)
+...+..|||.||-.-+|.-+|+.+++. +|.|.+.++ | +-|..|||.|.+.++|.+...+|||-.
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~Wm--D----kIKShCyV~yss~eEA~atr~AlhnV~ 505 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWM--D----KIKSHCYVSYSSVEEAAATREALHNVQ 505 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHHHH--H----HhhcceeEecccHHHHHHHHHHHhccc
Confidence 3445677999999999999999999995 566655533 2 235689999999999999999999864
No 128
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=95.51 E-value=0.15 Score=28.32 Aligned_cols=53 Identities=25% Similarity=0.367 Sum_probs=38.9
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcC----CCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHh
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKY----GYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQAL 112 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~----g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l 112 (123)
..|+|.++.. ++.++++.+|..| +. ..+.-+-|. -|-|.|.+.+.|.+|+.+|
T Consensus 6 eavhirGvd~-lsT~dI~~y~~~y~~~~~~-~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVDE-LSTDDIKAYFSEYFDEEGP-FRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCCC-CCHHHHHHHHHHhcccCCC-ceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 3489999854 6678899999988 43 333333343 4789999999999999764
No 129
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=95.45 E-value=0.068 Score=38.66 Aligned_cols=57 Identities=26% Similarity=0.243 Sum_probs=44.4
Q ss_pred HHHHHhhcCCCeEEEEEeecCCCCCc-eeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 66 SLREAFAKYGYVNEARIILDRETGRS-RGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 66 ~l~~~f~~~g~i~~~~~~~~~~~g~~-kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
++++...+||.|-.|.+...+..... ..--||+|...++|..|+-.|||..++|+.+
T Consensus 302 e~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v 359 (378)
T KOG1996|consen 302 ETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVV 359 (378)
T ss_pred HHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceee
Confidence 45566778999999888766533333 2345999999999999999999999999864
No 130
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=95.22 E-value=0.0073 Score=49.08 Aligned_cols=72 Identities=22% Similarity=0.356 Sum_probs=59.2
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCC
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFN 119 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g 119 (123)
...+.+||+|||+..+++.+|+..|..+|.+.+|.+-+-+. +..--|+|+.|.+-+.+..|+..+.+..|..
T Consensus 369 ~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~-~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~ 440 (975)
T KOG0112|consen 369 FRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHI-KTESAYAFVSLLNTDMTPSAKFEESGPLIGN 440 (975)
T ss_pred hhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCC-CcccchhhhhhhccccCcccchhhcCCcccc
Confidence 34668899999999999999999999999999998865542 4445589999999999888887777665544
No 131
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=95.11 E-value=0.11 Score=38.85 Aligned_cols=58 Identities=26% Similarity=0.260 Sum_probs=48.3
Q ss_pred cCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeC
Q 043937 56 GGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTF 118 (123)
Q Consensus 56 ~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~ 118 (123)
-|--+.+|-+-|..+-...|+|.++.+... +| -.|.|+|.+.+.|++|..+|||..|-
T Consensus 128 lNp~YpItvDVly~Icnp~GkVlRIvIfkk--ng---VQAmVEFdsv~~AqrAk~alNGADIY 185 (494)
T KOG1456|consen 128 LNPQYPITVDVLYTICNPQGKVLRIVIFKK--NG---VQAMVEFDSVEVAQRAKAALNGADIY 185 (494)
T ss_pred ecCccccchhhhhhhcCCCCceEEEEEEec--cc---eeeEEeechhHHHHHHHhhccccccc
Confidence 455566888889999999999999988655 34 37999999999999999999998663
No 132
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=94.56 E-value=0.037 Score=44.26 Aligned_cols=61 Identities=16% Similarity=0.059 Sum_probs=48.5
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEE-EEEeecCCCCCceeEEEEEeCCHHHHHHHH
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNE-ARIILDRETGRSRGFGFVTFSTVEEASSAI 109 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~-~~~~~~~~~g~~kg~afv~f~~~~~a~~a~ 109 (123)
.-+..|||..||..+++.++-++|..-..|+. +.|...+ +++.++.|||.|.++..+..|.
T Consensus 432 ~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~ 493 (944)
T KOG4307|consen 432 GAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTAS 493 (944)
T ss_pred CccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhh
Confidence 34678999999999999999999998666655 5554443 6778899999999977666665
No 133
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=94.11 E-value=0.31 Score=31.77 Aligned_cols=62 Identities=19% Similarity=0.330 Sum_probs=44.5
Q ss_pred CCCCCeEEEcCCCCCCCH-HH---HHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCc
Q 043937 47 CMSSSKLFVGGISYNMDD-NS---LREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQ 115 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~-~~---l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~ 115 (123)
++...+|.|.=|...+.. +| +...++.||+|.++.+. | +.-|+|.|.+..+|=.|+.+++..
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-----G--rqsavVvF~d~~SAC~Av~Af~s~ 148 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-----G--RQSAVVVFKDITSACKAVSAFQSR 148 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-----C--CceEEEEehhhHHHHHHHHhhcCC
Confidence 445567888766555332 34 44556789999999774 2 236999999999999999887763
No 134
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=93.72 E-value=0.22 Score=33.70 Aligned_cols=54 Identities=22% Similarity=0.111 Sum_probs=41.0
Q ss_pred CHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhC--CceeCCccc
Q 043937 63 DDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALD--GQVTFNASC 122 (123)
Q Consensus 63 ~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~--~~~~~g~~~ 122 (123)
..+.|+++|..++.+........- +-..|.|.+.+.|..|...|+ +..+.|.++
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sF------rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l 63 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSF------RRIRVVFESPESAQRARQLLHWDGTSFNGKRL 63 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTT------TEEEEE-SSTTHHHHHHHTST--TSEETTEE-
T ss_pred hHHHHHHHHHhcCCceEEEEcCCC------CEEEEEeCCHHHHHHHHHHhcccccccCCCce
Confidence 347899999999988888666543 257999999999999999999 888888764
No 135
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=93.42 E-value=0.1 Score=41.39 Aligned_cols=67 Identities=24% Similarity=0.269 Sum_probs=56.4
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 47 CMSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.+..-+|||+|+...+..+-++.....+|-|-.+.... |||++|........|++.++...+.|.++
T Consensus 37 ~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl 103 (668)
T KOG2253|consen 37 LPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELNIDDQKL 103 (668)
T ss_pred CCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccCCCcchh
Confidence 34567799999999999999999999999987775421 89999999999999999888888877654
No 136
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=92.88 E-value=0.7 Score=25.98 Aligned_cols=53 Identities=28% Similarity=0.483 Sum_probs=40.8
Q ss_pred CCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCccc
Q 043937 61 NMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASC 122 (123)
Q Consensus 61 ~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~ 122 (123)
.++-++++..+.+|+- .++..++ +| =||.|.+..+|+++....+++.+.+.+|
T Consensus 11 ~~~v~d~K~~Lr~y~~---~~I~~d~-tG-----fYIvF~~~~Ea~rC~~~~~~~~~f~y~m 63 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW---DRIRDDR-TG-----FYIVFNDSKEAERCFRAEDGTLFFTYRM 63 (66)
T ss_pred CccHHHHHHHHhcCCc---ceEEecC-CE-----EEEEECChHHHHHHHHhcCCCEEEEEEE
Confidence 3667899999999853 2333443 22 4999999999999999999998877665
No 137
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=92.56 E-value=0.081 Score=38.25 Aligned_cols=70 Identities=26% Similarity=0.235 Sum_probs=56.1
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCc-eeCC
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQ-VTFN 119 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~-~~~g 119 (123)
..+++|++++.+.+.+++...++..+|......+........++|++++.|...+.+..++. +.+. .+.+
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~-~s~~~~~~~ 157 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALE-ESGSKVLDG 157 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHH-hhhcccccc
Confidence 46789999999999999888888888876666555555568889999999999999999996 5543 4443
No 138
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=92.47 E-value=0.29 Score=38.18 Aligned_cols=43 Identities=16% Similarity=0.284 Sum_probs=36.1
Q ss_pred CCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCce
Q 043937 74 YGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQV 116 (123)
Q Consensus 74 ~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~ 116 (123)
.|.-..+.++.|-....+.|||||.|.+.+.+..+.+++||+.
T Consensus 413 ~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~ 455 (549)
T KOG4660|consen 413 KGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKK 455 (549)
T ss_pred cCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCc
Confidence 4555667787787666789999999999999999999999974
No 139
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=91.37 E-value=1 Score=35.45 Aligned_cols=59 Identities=14% Similarity=0.131 Sum_probs=48.3
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhc--CCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCC
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAK--YGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDG 114 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~--~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~ 114 (123)
+.|.|.+.-+|..+..++++.+|.. +-++..+.+-.+. -=||+|.+..+|+.|-++|..
T Consensus 174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylre 234 (684)
T KOG2591|consen 174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLRE 234 (684)
T ss_pred ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHH
Confidence 4466788999999999999999986 7788888875553 249999999999999877643
No 140
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=90.76 E-value=1.2 Score=32.49 Aligned_cols=63 Identities=14% Similarity=0.151 Sum_probs=45.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
.=|-|=++|+... .-+-.+|.+||.|...... ....+=+|.|.+.-+|.+||. .||+.|.|.-
T Consensus 198 ~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~------~ngNwMhirYssr~~A~KALs-kng~ii~g~v 260 (350)
T KOG4285|consen 198 TWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTP------SNGNWMHIRYSSRTHAQKALS-KNGTIIDGDV 260 (350)
T ss_pred ceEEEeccCccch-hHHHHHHHhhCeeeeeecC------CCCceEEEEecchhHHHHhhh-hcCeeeccce
Confidence 3344556665543 4466789999998877543 223488999999999999995 7888887653
No 141
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=88.10 E-value=0.21 Score=38.36 Aligned_cols=66 Identities=26% Similarity=0.260 Sum_probs=47.8
Q ss_pred CeEEEcCCCCC-CCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 51 SKLFVGGISYN-MDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 51 ~~l~v~~L~~~-~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
+.|-+.-.|+. -+.++|..+|.+||.|..+.+-... -.|.|+|.+..+|-.|- ..++..|.++.|+
T Consensus 373 s~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~-~s~~avlnnr~iK 439 (526)
T KOG2135|consen 373 SPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAY-ASHGAVLNNRFIK 439 (526)
T ss_pred chhhhhccCCCCchHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchh-ccccceecCceeE
Confidence 33444444544 3457899999999999998774332 36899999998886665 3788888887664
No 142
>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=87.30 E-value=3.8 Score=23.25 Aligned_cols=55 Identities=18% Similarity=0.259 Sum_probs=32.8
Q ss_pred CCCCHHHHHHHhhcCC-----CeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcccC
Q 043937 60 YNMDDNSLREAFAKYG-----YVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNASCV 123 (123)
Q Consensus 60 ~~~~~~~l~~~f~~~g-----~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~~~ 123 (123)
..++..+|..++..-+ +|-.+.+..+ |+||+-.. +.+..++..|++..+.|+++.
T Consensus 11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~--------~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ 70 (74)
T PF03880_consen 11 DGLTPRDIVGAICNEAGIPGRDIGRIDIFDN--------FSFVEVPE-EVAEKVLEALNGKKIKGKKVR 70 (74)
T ss_dssp GT--HHHHHHHHHTCTTB-GGGEEEEEE-SS---------EEEEE-T-T-HHHHHHHHTT--SSS----
T ss_pred cCCCHHHHHHHHHhccCCCHHhEEEEEEeee--------EEEEEECH-HHHHHHHHHhcCCCCCCeeEE
Confidence 3478888888888754 3455666433 89999886 478888999999999999873
No 143
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=86.68 E-value=4.2 Score=31.34 Aligned_cols=68 Identities=21% Similarity=0.300 Sum_probs=55.9
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCC-CeEEEEEeecCCCCCc-eeEEEEEeCCHHHHHHHHHHhCCceeCC
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYG-YVNEARIILDRETGRS-RGFGFVTFSTVEEASSAIQALDGQVTFN 119 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g-~i~~~~~~~~~~~g~~-kg~afv~f~~~~~a~~a~~~l~~~~~~g 119 (123)
+++.|+|=.+|-.++-.||-.|...+- .|..++++++ |.+ +-..+|.|.+..+|...-..+||+.+..
T Consensus 73 ~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd---~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 73 SSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRD---GMPNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeec---CCCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 367899999999999999999888754 6788899886 333 4456999999999999999999987653
No 144
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=85.70 E-value=5.6 Score=29.01 Aligned_cols=47 Identities=15% Similarity=0.204 Sum_probs=34.0
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCH
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTV 102 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~ 102 (123)
+-||++|||.++.-.||+..+.+-+.+- ..+.... +.|-||+.|.+.
T Consensus 331 ~di~~~nl~rd~rv~dlk~~lr~~~~~p-m~iswkg----~~~k~flh~~~~ 377 (396)
T KOG4410|consen 331 TDIKLTNLSRDIRVKDLKSELRKRECTP-MSISWKG----HFGKCFLHFGNR 377 (396)
T ss_pred cceeeccCccccchHHHHHHHHhcCCCc-eeEeeec----CCcceeEecCCc
Confidence 5699999999999999999998866431 1222221 356799999764
No 145
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.06 E-value=8.3 Score=30.76 Aligned_cols=74 Identities=16% Similarity=0.237 Sum_probs=56.2
Q ss_pred CCCCCeEEEcCCCCC-CCHHHHHHHhhcC----CCeEEEEEeecCC----------CC----------------------
Q 043937 47 CMSSSKLFVGGISYN-MDDNSLREAFAKY----GYVNEARIILDRE----------TG---------------------- 89 (123)
Q Consensus 47 ~~~~~~l~v~~L~~~-~~~~~l~~~f~~~----g~i~~~~~~~~~~----------~g---------------------- 89 (123)
...+.+|.|-|+.|+ +..++|--+|.+| |.|.+|.|..... .|
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 346788999999998 8889999888875 5888888753210 01
Q ss_pred ---------------CceeEEEEEeCCHHHHHHHHHHhCCceeCCc
Q 043937 90 ---------------RSRGFGFVTFSTVEEASSAIQALDGQVTFNA 120 (123)
Q Consensus 90 ---------------~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~ 120 (123)
..--||.|+|.+...|...-..++|.++..+
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS 296 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESS 296 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccc
Confidence 1234789999999999999989999887643
No 146
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=79.64 E-value=1.2 Score=36.87 Aligned_cols=59 Identities=31% Similarity=0.407 Sum_probs=46.9
Q ss_pred EEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCcee
Q 043937 53 LFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVT 117 (123)
Q Consensus 53 l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~ 117 (123)
.++.|.+-..+-..|..++..||.+.+.+..++- ..+.|+|...+.|-.|+.+++|.++
T Consensus 301 ~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl~gkev 359 (1007)
T KOG4574|consen 301 QSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL------NMALVSFSSVESAILALDALQGKEV 359 (1007)
T ss_pred hhhhcccccchHHHHHHHHHhhcchhhheecccc------cchhhhhHHHHHHHHhhhhhcCCcc
Confidence 3344444455556789999999999998887664 3799999999999999999999865
No 147
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=75.23 E-value=5.5 Score=29.99 Aligned_cols=71 Identities=17% Similarity=0.244 Sum_probs=49.5
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCC-eEEEEEeecCCCCC--ceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGY-VNEARIILDRETGR--SRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~-i~~~~~~~~~~~g~--~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
..|.|.+||+..+++++.+....+-. +....+.....+-. -.+.+||.|....+.....+.++|..+.+.+
T Consensus 8 ~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifld~K 81 (376)
T KOG1295|consen 8 VKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFLDNK 81 (376)
T ss_pred eeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEecCC
Confidence 45888999999999999888887642 33333321111111 2467899999999988888889998877643
No 148
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=74.66 E-value=7.3 Score=26.40 Aligned_cols=63 Identities=17% Similarity=0.287 Sum_probs=43.4
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHH
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQ 110 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~ 110 (123)
.....+++.+++..++..++...|..+|.+....+.............++.+.....+.....
T Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 285 (306)
T COG0724 223 EKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNS 285 (306)
T ss_pred cccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhc
Confidence 456789999999999999999999999999777665554333344444444444444444443
No 149
>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=71.51 E-value=16 Score=22.81 Aligned_cols=45 Identities=16% Similarity=0.373 Sum_probs=26.1
Q ss_pred CHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCC-HHHHHHHHH
Q 043937 63 DDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFST-VEEASSAIQ 110 (123)
Q Consensus 63 ~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~-~~~a~~a~~ 110 (123)
+.+.|.+.|..|..++ ++...++ .-+.|+++|.|.+ -.-...|++
T Consensus 30 ~~~~l~~~l~~f~p~k-v~~l~~~--~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 30 SNEELLDKLAEFNPLK-VKPLYGK--QGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp -SHHHHHHHHH---SE-EEEEEET--TEEEEEEEEE--SSHHHHHHHHH
T ss_pred CHHHHHHHHHhcCCce-eEECcCC--CCCcEEEEEEECCChHHHHHHHH
Confidence 4478999999998875 4444453 3468999999974 444455553
No 150
>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=70.09 E-value=3.3 Score=24.66 Aligned_cols=29 Identities=28% Similarity=0.534 Sum_probs=23.2
Q ss_pred cccccCCCCCeEEEcCCCCCCCHHHHHHH
Q 043937 42 YQAIRCMSSSKLFVGGISYNMDDNSLREA 70 (123)
Q Consensus 42 ~~~~~~~~~~~l~v~~L~~~~~~~~l~~~ 70 (123)
.+-....+.++|-|+|+|....+++|++.
T Consensus 44 ~qv~~~vs~rtVlvsgip~~l~ee~l~D~ 72 (88)
T PF07292_consen 44 FQVFSGVSKRTVLVSGIPDVLDEEELRDK 72 (88)
T ss_pred EEEEEcccCCEEEEeCCCCCCChhhheee
Confidence 33344668889999999999999999854
No 151
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=69.34 E-value=1.2 Score=31.20 Aligned_cols=67 Identities=28% Similarity=0.487 Sum_probs=54.7
Q ss_pred CCeEEEcC----CCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCcee
Q 043937 50 SSKLFVGG----ISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVT 117 (123)
Q Consensus 50 ~~~l~v~~----L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~ 117 (123)
..+++-|+ |....+++.+...|+.-|.+.-+++.++.+ |.++.+++++++.......+++...+...
T Consensus 80 q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~d-~rnrn~~~~~~qr~~~~P~~~~~y~~l~~ 150 (267)
T KOG4454|consen 80 QRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDND-GRNRNFGFVTYQRLCAVPFALDLYQGLEL 150 (267)
T ss_pred hcccccCCCcchhhhhcchhhheeeecccCCCCCcccccccc-CCccCccchhhhhhhcCcHHhhhhcccCc
Confidence 35566777 777889999999999999999999988875 88899999999988888888876665543
No 152
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=66.10 E-value=19 Score=20.00 Aligned_cols=18 Identities=17% Similarity=0.396 Sum_probs=15.0
Q ss_pred HHHHHHhhcCCCeEEEEE
Q 043937 65 NSLREAFAKYGYVNEARI 82 (123)
Q Consensus 65 ~~l~~~f~~~g~i~~~~~ 82 (123)
++|+++|+..|+|.-+-+
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 579999999999877654
No 153
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=65.59 E-value=16 Score=24.87 Aligned_cols=56 Identities=18% Similarity=0.156 Sum_probs=35.7
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcC-CCeEEEEEeecCCCC--CceeEEEEEeCCHHHHHHHHH
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKY-GYVNEARIILDRETG--RSRGFGFVTFSTVEEASSAIQ 110 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~-g~i~~~~~~~~~~~g--~~kg~afv~f~~~~~a~~a~~ 110 (123)
..+++|.. .+++++.++...- |++..+..-+.. .+ ..+|--||+|.+.+++.+.+.
T Consensus 110 ~~r~v~~K-----~td~ql~~l~qw~~~k~~nv~mr~~~-~k~~~fkGsvkv~f~tk~qa~a~~~ 168 (205)
T KOG4213|consen 110 KERTVYKK-----ITDDQLDDLNQWASGKGHNVKMRRHG-NKAHPFKGSVKVTFQTKEQAFANDD 168 (205)
T ss_pred HHhhhhcc-----CCHHHHHHHHHHhcccceEeeccccC-CCCCCCCCceEEEeecHHHHHhhhh
Confidence 34556665 4555555443322 677777654433 23 357888999999999988765
No 154
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=65.28 E-value=1.1 Score=33.88 Aligned_cols=61 Identities=15% Similarity=0.070 Sum_probs=47.9
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCce
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQV 116 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~ 116 (123)
++++|.+|+..+-..++-+.|..+|++.....- .|...-+|-++|....+...|++ ++|.+
T Consensus 152 Rt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a----sk~~s~~c~~sf~~qts~~halr-~~gre 212 (479)
T KOG4676|consen 152 RTREVQSLISAAILPESGESFERKGEVSYAHTA----SKSRSSSCSHSFRKQTSSKHALR-SHGRE 212 (479)
T ss_pred hhhhhhcchhhhcchhhhhhhhhcchhhhhhhh----ccCCCcchhhhHhhhhhHHHHHH-hcchh
Confidence 569999999999999999999999998766542 34445577799998888888886 55544
No 155
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.91 E-value=2.1 Score=32.88 Aligned_cols=51 Identities=4% Similarity=-0.186 Sum_probs=40.8
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCC
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFST 101 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~ 101 (123)
.+.++..+|-..++.++.-.|..||.|..+.+.+.-..|..+..+|+.-.+
T Consensus 4 ~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~ 54 (572)
T KOG4365|consen 4 MKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK 54 (572)
T ss_pred hhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec
Confidence 445677788899999999999999999998876665566777888887654
No 156
>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=48.92 E-value=54 Score=19.41 Aligned_cols=46 Identities=20% Similarity=0.330 Sum_probs=31.8
Q ss_pred eEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeC
Q 043937 52 KLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFS 100 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~ 100 (123)
-||||+++..+.+.--+......++-.-+-+..+. . ..||.|-...
T Consensus 27 GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~~--n-eqG~~~~t~G 72 (86)
T PF09707_consen 27 GVYVGNVSARVRERLWERVTEWIGDGSAVMVWSDN--N-EQGFDFRTLG 72 (86)
T ss_pred CcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEccC--C-CCCEEEEEeC
Confidence 39999999998887666666656655555444332 2 5789988874
No 157
>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=48.54 E-value=48 Score=24.35 Aligned_cols=57 Identities=16% Similarity=0.304 Sum_probs=42.0
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCC-------CCCceeEEEEEeCCHHHH
Q 043937 49 SSSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRE-------TGRSRGFGFVTFSTVEEA 105 (123)
Q Consensus 49 ~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~-------~g~~kg~afv~f~~~~~a 105 (123)
.+++|...|+..+++-..+-..|-+||+|+++.++.+.. .-+......+-|-+.+.+
T Consensus 14 rTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~C 77 (309)
T PF10567_consen 14 RTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREIC 77 (309)
T ss_pred eeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHH
Confidence 356788999999998888888899999999999986641 112233456777776654
No 158
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=47.20 E-value=18 Score=25.68 Aligned_cols=34 Identities=18% Similarity=0.241 Sum_probs=27.8
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEE
Q 043937 48 MSSSKLFVGGISYNMDDNSLREAFAKYGYVNEAR 81 (123)
Q Consensus 48 ~~~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~ 81 (123)
....++|+-|+|..++++-|..+.+..|.+.++.
T Consensus 38 ~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~ 71 (261)
T KOG4008|consen 38 NEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQELL 71 (261)
T ss_pred ccccceeeecccccccHHHHHHHHHHhhhhhhee
Confidence 3456699999999999999999999888655543
No 159
>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=43.59 E-value=21 Score=17.56 Aligned_cols=17 Identities=24% Similarity=0.514 Sum_probs=10.3
Q ss_pred CCCCHHHHHHHhhcCCC
Q 043937 60 YNMDDNSLREAFAKYGY 76 (123)
Q Consensus 60 ~~~~~~~l~~~f~~~g~ 76 (123)
.++++++|++.|.+...
T Consensus 19 ~Dtd~~~Lk~vF~~i~~ 35 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIKK 35 (36)
T ss_dssp S---HHHHHHHHHCS--
T ss_pred ccCCHHHHHHHHHHhcc
Confidence 36788999999987643
No 160
>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=40.28 E-value=44 Score=19.35 Aligned_cols=26 Identities=15% Similarity=0.270 Sum_probs=21.5
Q ss_pred ceeEEEEEeCCHHHHHHHHHHhCCce
Q 043937 91 SRGFGFVTFSTVEEASSAIQALDGQV 116 (123)
Q Consensus 91 ~kg~afv~f~~~~~a~~a~~~l~~~~ 116 (123)
.+||-|||=.+..++..|++.+.+-.
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred CceEEEEEeCCHHHHHHHHhccccee
Confidence 58999999999999999998766543
No 161
>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=38.83 E-value=58 Score=16.71 Aligned_cols=27 Identities=19% Similarity=0.219 Sum_probs=21.7
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCe
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYV 77 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i 77 (123)
..+|+.+.......++|++++..+|.-
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 457887776678889999999998873
No 162
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=38.74 E-value=73 Score=19.32 Aligned_cols=47 Identities=19% Similarity=0.246 Sum_probs=29.1
Q ss_pred eEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCC
Q 043937 52 KLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFST 101 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~ 101 (123)
-||||+++..+.+.--+.+-+.+++-.-+-+..+ ..-.||.|-++.+
T Consensus 29 GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~---~~eqG~~~~t~G~ 75 (97)
T PRK11558 29 GVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWAT---NTESGFEFQTFGE 75 (97)
T ss_pred CcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcC---CCCCCcEEEecCC
Confidence 3999999888877654444444555444433333 2234888888765
No 163
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=37.71 E-value=5.1 Score=31.76 Aligned_cols=70 Identities=16% Similarity=0.025 Sum_probs=48.7
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCC
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFN 119 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g 119 (123)
.++|++.|+++.++-++|......+--+..+.+...-.-....-+..+.|..--...-|+.+||+..+..
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 4779999999999999999999887666666554332212234456778876566666777777765543
No 164
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=36.89 E-value=90 Score=18.33 Aligned_cols=55 Identities=9% Similarity=0.180 Sum_probs=38.4
Q ss_pred eEEEcCCCCCCCHHHHHHHhhc-CC-CeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHH
Q 043937 52 KLFVGGISYNMDDNSLREAFAK-YG-YVNEARIILDRETGRSRGFGFVTFSTVEEASSAI 109 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~-~g-~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~ 109 (123)
+-|+--.+..++..++++.++. || .|..+.....+ .+. -=|||.+...+.|....
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~-~~~--KKA~V~L~~g~~A~~va 78 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP-KGE--KKAYVKLAEEYDAEEIA 78 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC-CCc--EEEEEEeCCCCcHHHHH
Confidence 3555556789999999999988 65 67777665543 232 25899998877766543
No 165
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=36.80 E-value=56 Score=23.98 Aligned_cols=34 Identities=24% Similarity=0.549 Sum_probs=26.0
Q ss_pred CeEEEcCCCCC------------CCHHHHHHHhhcCCCeEEEEEee
Q 043937 51 SKLFVGGISYN------------MDDNSLREAFAKYGYVNEARIIL 84 (123)
Q Consensus 51 ~~l~v~~L~~~------------~~~~~l~~~f~~~g~i~~~~~~~ 84 (123)
-+||+.++|.. .++.-|+..|..||.|+.|.++.
T Consensus 150 dti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipi 195 (445)
T KOG2891|consen 150 DTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPI 195 (445)
T ss_pred CceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcc
Confidence 35777777742 45667999999999999998764
No 166
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=36.18 E-value=1.1e+02 Score=24.11 Aligned_cols=58 Identities=21% Similarity=0.167 Sum_probs=42.0
Q ss_pred EEcCCCCCC---CHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCcc
Q 043937 54 FVGGISYNM---DDNSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNAS 121 (123)
Q Consensus 54 ~v~~L~~~~---~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~~ 121 (123)
.||||+.-. ....++++-.+||+|-.+++-.. -.|.-.+.+.|..++. -|+..+.+|+
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~~---------~~Vviss~~~akE~l~-~~d~~fa~Rp 96 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGSV---------PVVVISSYEAAKEVLV-KQDLEFADRP 96 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecCc---------eEEEECCHHHHHHHHH-hCCccccCCC
Confidence 367777543 33566776678999998887322 3678888899999986 6777887776
No 167
>PHA01632 hypothetical protein
Probab=33.86 E-value=48 Score=18.00 Aligned_cols=21 Identities=14% Similarity=0.407 Sum_probs=16.9
Q ss_pred EEEcCCCCCCCHHHHHHHhhc
Q 043937 53 LFVGGISYNMDDNSLREAFAK 73 (123)
Q Consensus 53 l~v~~L~~~~~~~~l~~~f~~ 73 (123)
+.|..+|...++++|+..+.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 345799999999999987764
No 168
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=33.59 E-value=22 Score=27.24 Aligned_cols=60 Identities=22% Similarity=0.189 Sum_probs=46.0
Q ss_pred CCeEEEcCCCCCCCHH--------HHHHHhhc--CCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHH
Q 043937 50 SSKLFVGGISYNMDDN--------SLREAFAK--YGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAI 109 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~--------~l~~~f~~--~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~ 109 (123)
.+.+|+.+.+.....+ +++.+|.. .+....+...++...-..+|--|++|.....+++..
T Consensus 174 qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~n 243 (438)
T COG5193 174 QRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFN 243 (438)
T ss_pred hhhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHh
Confidence 3568888777765444 89999998 567777777666655667888899999999988876
No 169
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.57 E-value=2.4e+02 Score=21.96 Aligned_cols=54 Identities=20% Similarity=0.282 Sum_probs=40.5
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhhcCCC-eEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHH
Q 043937 50 SSKLFVGGISYNMDDNSLREAFAKYGY-VNEARIILDRETGRSRGFGFVTFSTVEEASSAIQ 110 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~~~g~-i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~ 110 (123)
.+.|=|-++|.....+||-..|..|+. .-.+.-+-+. .+|-.|.+...|..|+-
T Consensus 391 pHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt 445 (528)
T KOG4483|consen 391 PHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALT 445 (528)
T ss_pred cceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhh
Confidence 456888999999888999999999863 2223333232 68999999999888885
No 170
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=30.41 E-value=79 Score=17.65 Aligned_cols=33 Identities=21% Similarity=0.339 Sum_probs=22.3
Q ss_pred CHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEE
Q 043937 63 DDNSLREAFAKYGYVNEARIILDRETGRSRGFGFV 97 (123)
Q Consensus 63 ~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv 97 (123)
-+..|+.+|-+-..|.++.+.-.+.=+ +|-|||
T Consensus 31 ~e~eler~fl~~P~v~e~~l~EKKri~--~G~gyV 63 (64)
T PF13046_consen 31 VEVELERHFLPLPEVKEVALYEKKRIR--KGAGYV 63 (64)
T ss_pred HHHHhhhhccCCCCceEEEEEEEEeee--CCceeE
Confidence 345688888888899998887664323 444554
No 171
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=29.52 E-value=1.2e+02 Score=17.48 Aligned_cols=54 Identities=11% Similarity=0.193 Sum_probs=37.2
Q ss_pred eEEEcCCCCCCCHHHHHHHhhc-CC-CeEEEEEeecCCCCCceeEEEEEeCCHHHHHHH
Q 043937 52 KLFVGGISYNMDDNSLREAFAK-YG-YVNEARIILDRETGRSRGFGFVTFSTVEEASSA 108 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~-~g-~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a 108 (123)
+-|+-.++.+++..+++..++. |+ .|..+....-+ .+. --|||.+...+.|...
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~-~~~--KKA~VtL~~g~~a~~v 70 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITP-RGE--KKAYVKLAEEYAAEEI 70 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC-CCc--eEEEEEECCCCcHHHH
Confidence 3566667889999999999987 55 66676655443 222 2589999876666543
No 172
>PF05189 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC), insert domain; InterPro: IPR013796 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea. RNA 3'-terminal phosphate cyclase (6.5.1.4 from EC) [, ] catalyses the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate These enzymes might be responsible for production of the cyclic phosphate RNA ends that are known to be required by many RNA ligases in both prokaryotes and eukaryotes. RNA cyclase is a protein of from 36 to 42 kDa. The best conserved region is a glycine-rich stretch of residues located in the central part of the sequence and which is reminiscent of various ATP, GTP or AMP glycine-rich loops. The crystal structure of RNA 3'-terminal phosphate cyclase shows that each molecule consists of two domains. The larger domain contains three repeats of a folding unit comprising two parallel alpha helices and a four-stranded beta sheet; this fold was previously identified in translation initiation factor 3 (IF3). The large domain is similar to one of the two domains of 5-enolpyruvylshikimate-3-phosphate synthase and UDP-N-acetylglucosamine enolpyruvyl transferase. The smaller domain uses a similar secondary structure element with different topology, observed in many other proteins such as thioredoxin []. Although the active site of this enzyme could not be unambiguously assigned, it can be mapped to a region surrounding His309, an adenylate acceptor, in which a number of amino acids are highly conserved in the enzyme from different sources []. This entry contains the insert-domain of approximately 100 amino acids.; PDB: 3TV1_B 3KGD_D 1QMI_D 1QMH_B 3TUX_A 3TUT_A 3TW3_A 3PQV_A.
Probab=28.88 E-value=1.3e+02 Score=17.87 Aligned_cols=47 Identities=19% Similarity=0.269 Sum_probs=26.8
Q ss_pred EEEcCCCCCCCHHH---HHHHhhcCCCeEEEEE--eecCCCCCceeEEEEEe
Q 043937 53 LFVGGISYNMDDNS---LREAFAKYGYVNEARI--ILDRETGRSRGFGFVTF 99 (123)
Q Consensus 53 l~v~~L~~~~~~~~---l~~~f~~~g~i~~~~~--~~~~~~g~~kg~afv~f 99 (123)
.|+.+||.++.+.+ .+..+..+..-..+.. ......+.+.|++++.+
T Consensus 13 a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l~ 64 (103)
T PF05189_consen 13 AFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISLV 64 (103)
T ss_dssp EEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEEE
T ss_pred EEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEEE
Confidence 57899999988865 4455656654344433 12233456677775543
No 173
>PF15063 TC1: Thyroid cancer protein 1
Probab=26.58 E-value=52 Score=19.04 Aligned_cols=27 Identities=26% Similarity=0.223 Sum_probs=22.3
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCe
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYV 77 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i 77 (123)
++--+.|+-.+++..+|+.+|..-|+.
T Consensus 26 RKkasaNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 26 RKKASANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred hhhhhhhhhhccCHHHHHHHHHHccch
Confidence 344567888899999999999998874
No 174
>PRK11901 hypothetical protein; Reviewed
Probab=24.21 E-value=2.2e+02 Score=21.31 Aligned_cols=53 Identities=17% Similarity=0.291 Sum_probs=34.0
Q ss_pred CCCHHHHHHHhhcCCCeEEEEEeecCCCCCceeEEEE--EeCCHHHHHHHHHHhCCc
Q 043937 61 NMDDNSLREAFAKYGYVNEARIILDRETGRSRGFGFV--TFSTVEEASSAIQALDGQ 115 (123)
Q Consensus 61 ~~~~~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv--~f~~~~~a~~a~~~l~~~ 115 (123)
...++.|+.|....+ +..+.+......|+. +|..+ .|.+.++|..|+..|...
T Consensus 253 as~~~~L~~f~~~~~-L~~~~VYqT~RnGkp-WYVVvyG~Y~Sr~eAk~Ai~sLPa~ 307 (327)
T PRK11901 253 ASRSDTLNAYAKKQN-LSHYHVYETKRDGKP-WYVLVSGNYASSAEAKRAIATLPAE 307 (327)
T ss_pred CCCHHHHHHHHHHcC-cCceEEEEEEECCce-EEEEEecCcCCHHHHHHHHHhCCHH
Confidence 345777888877765 233444444334543 45533 789999999999887643
No 175
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=24.02 E-value=45 Score=22.75 Aligned_cols=62 Identities=13% Similarity=0.024 Sum_probs=39.9
Q ss_pred EEEcCCCCCCCH-----HHHHHHhhcCCCeEEEEEeecCCCCCceeEEEEEeCCHHHHHHHHHHhCCceeCCc
Q 043937 53 LFVGGISYNMDD-----NSLREAFAKYGYVNEARIILDRETGRSRGFGFVTFSTVEEASSAIQALDGQVTFNA 120 (123)
Q Consensus 53 l~v~~L~~~~~~-----~~l~~~f~~~g~i~~~~~~~~~~~g~~kg~afv~f~~~~~a~~a~~~l~~~~~~g~ 120 (123)
+.+.+++..+.. .....+|..|.+.....+.+. .+.--|.|.+...|..|...++.+.+.|+
T Consensus 13 ~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrs------frrvRi~f~~p~~a~~a~i~~~~~~f~~~ 79 (193)
T KOG4019|consen 13 IIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRS------FRRVRINFSNPEAAADARIKLHSTSFNGK 79 (193)
T ss_pred eeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHh------hceeEEeccChhHHHHHHHHhhhcccCCC
Confidence 555555554222 234556666655444444333 23567889999999999999999988876
No 176
>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=23.51 E-value=1e+02 Score=17.10 Aligned_cols=25 Identities=20% Similarity=0.244 Sum_probs=20.3
Q ss_pred EEEEEeCCHHHHHHHHHHhCCceeC
Q 043937 94 FGFVTFSTVEEASSAIQALDGQVTF 118 (123)
Q Consensus 94 ~afv~f~~~~~a~~a~~~l~~~~~~ 118 (123)
+.++.|.+..+|-+|-+.|....+.
T Consensus 3 ~~~i~F~st~~a~~~ek~lk~~gi~ 27 (73)
T PF11823_consen 3 YYLITFPSTHDAMKAEKLLKKNGIP 27 (73)
T ss_pred eEEEEECCHHHHHHHHHHHHHCCCc
Confidence 6799999999999988877766553
No 177
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=23.32 E-value=1.4e+02 Score=21.41 Aligned_cols=27 Identities=15% Similarity=0.191 Sum_probs=20.7
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhcCCCe
Q 043937 51 SKLFVGGISYNMDDNSLREAFAKYGYV 77 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~~g~i 77 (123)
....|+|||+.++-.-+..++...-.+
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~ 122 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFII 122 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCcc
Confidence 347799999999988888777764443
No 178
>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=23.09 E-value=84 Score=22.20 Aligned_cols=23 Identities=30% Similarity=0.570 Sum_probs=19.7
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhh
Q 043937 50 SSKLFVGGISYNMDDNSLREAFA 72 (123)
Q Consensus 50 ~~~l~v~~L~~~~~~~~l~~~f~ 72 (123)
...+.|+|||+.++..-|..++.
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~ 119 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLE 119 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHH
T ss_pred CceEEEEEecccchHHHHHHHhh
Confidence 45688999999999988888887
No 179
>PF14893 PNMA: PNMA
Probab=22.97 E-value=68 Score=23.93 Aligned_cols=23 Identities=26% Similarity=0.434 Sum_probs=19.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHhhc
Q 043937 51 SKLFVGGISYNMDDNSLREAFAK 73 (123)
Q Consensus 51 ~~l~v~~L~~~~~~~~l~~~f~~ 73 (123)
+.|.|.++|.++++.+|++.+..
T Consensus 19 r~lLv~giP~dc~~~ei~e~l~~ 41 (331)
T PF14893_consen 19 RALLVLGIPEDCEEAEIEEALQA 41 (331)
T ss_pred hhheeecCCCCCCHHHHHHHHHH
Confidence 55889999999999998877753
No 180
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=20.78 E-value=1.6e+02 Score=20.63 Aligned_cols=23 Identities=17% Similarity=0.249 Sum_probs=19.0
Q ss_pred eEEEcCCCCCCCHHHHHHHhhcC
Q 043937 52 KLFVGGISYNMDDNSLREAFAKY 74 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~~ 74 (123)
.+.|+|+|+.++..-+..++..+
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~ 118 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKP 118 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccC
Confidence 37799999999998888888533
No 181
>TIGR01873 cas_CT1978 CRISPR-associated endoribonuclease Cas2, E. coli subfamily. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents a minor branch of the Cas2 family of CRISPR-associated endonuclease, whereas most Cas2 proteins are modeled instead by TIGR01573. This form of Cas2 is characteristic for the Ecoli subtype of CRISPR/Cas locus.
Probab=20.78 E-value=2e+02 Score=17.06 Aligned_cols=47 Identities=17% Similarity=0.200 Sum_probs=26.4
Q ss_pred eEEEcCCCCCCCHHHHHHHhhc-CCCeEEEEEeecCCCCCceeEEEEEeCC
Q 043937 52 KLFVGGISYNMDDNSLREAFAK-YGYVNEARIILDRETGRSRGFGFVTFST 101 (123)
Q Consensus 52 ~l~v~~L~~~~~~~~l~~~f~~-~g~i~~~~~~~~~~~g~~kg~afv~f~~ 101 (123)
-||||+++..+.+.--+.+-+. .++-.-+-+..+ ....||.|-++.+
T Consensus 27 GVyVg~~s~rVRe~lW~~v~~~~~~~G~avm~~~~---~~e~G~~~~t~G~ 74 (87)
T TIGR01873 27 GVYVGGVSASVRERIWDYLAQHCPPKGSLVITWSS---NTCPGFEFFTLGE 74 (87)
T ss_pred CcEEcCCCHHHHHHHHHHHHHhCCCCccEEEEEeC---CCCCCcEEEecCC
Confidence 3999999888876543333333 333333333222 2345688887764
Done!