Query 034058
Match_columns 105
No_of_seqs 113 out of 1243
Neff 10.1
Searched_HMMs 46136
Date Fri Mar 29 09:18:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034058.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034058hhsearch_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 3.6E-21 7.9E-26 114.7 11.1 82 23-104 31-112 (144)
2 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 1.6E-19 3.4E-24 120.8 11.3 79 26-104 269-347 (352)
3 PF00076 RRM_1: RNA recognitio 99.8 2.3E-19 5.1E-24 94.4 9.3 70 29-99 1-70 (70)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 4.3E-19 9.4E-24 118.7 10.6 79 25-103 2-80 (352)
5 TIGR01659 sex-lethal sex-letha 99.8 7.2E-19 1.6E-23 117.5 10.5 82 22-103 103-184 (346)
6 TIGR01659 sex-lethal sex-letha 99.8 1.1E-18 2.3E-23 116.7 10.0 101 3-103 168-272 (346)
7 KOG0107 Alternative splicing f 99.8 5.4E-19 1.2E-23 106.0 7.3 77 24-105 8-84 (195)
8 TIGR01645 half-pint poly-U bin 99.8 2.9E-18 6.3E-23 120.6 10.7 79 25-103 203-281 (612)
9 KOG0122 Translation initiation 99.8 3.3E-18 7.1E-23 107.3 9.3 82 23-104 186-267 (270)
10 TIGR01648 hnRNP-R-Q heterogene 99.8 6.9E-18 1.5E-22 118.4 11.1 100 1-102 34-134 (578)
11 KOG0126 Predicted RNA-binding 99.8 5.2E-20 1.1E-24 111.1 -1.1 100 2-101 11-110 (219)
12 PF14259 RRM_6: RNA recognitio 99.8 2.3E-17 5E-22 87.1 9.2 70 29-99 1-70 (70)
13 KOG0125 Ataxin 2-binding prote 99.8 8.4E-18 1.8E-22 109.2 8.9 79 24-104 94-172 (376)
14 KOG0121 Nuclear cap-binding pr 99.7 5.9E-18 1.3E-22 97.1 6.8 82 24-105 34-115 (153)
15 KOG0149 Predicted RNA-binding 99.7 8E-18 1.7E-22 105.0 7.5 78 25-103 11-88 (247)
16 TIGR01645 half-pint poly-U bin 99.7 2.7E-17 5.9E-22 115.8 10.5 79 24-102 105-183 (612)
17 KOG4207 Predicted splicing fac 99.7 1.1E-17 2.4E-22 102.9 6.9 84 21-104 8-91 (256)
18 PLN03120 nucleic acid binding 99.7 1.2E-16 2.7E-21 102.0 9.5 75 26-104 4-78 (260)
19 TIGR01628 PABP-1234 polyadenyl 99.7 1.7E-16 3.7E-21 111.9 10.4 76 28-103 2-77 (562)
20 TIGR01642 U2AF_lg U2 snRNP aux 99.7 2.7E-16 5.9E-21 109.6 11.2 79 25-103 294-372 (509)
21 KOG0113 U1 small nuclear ribon 99.7 2.1E-16 4.5E-21 101.7 9.5 82 24-105 99-180 (335)
22 KOG0145 RNA-binding protein EL 99.7 2.4E-17 5.2E-22 104.7 4.9 103 1-103 100-206 (360)
23 TIGR01622 SF-CC1 splicing fact 99.7 3.7E-16 8E-21 107.8 10.5 78 26-103 186-263 (457)
24 smart00362 RRM_2 RNA recogniti 99.7 7.7E-16 1.7E-20 80.5 9.3 72 28-101 1-72 (72)
25 KOG0117 Heterogeneous nuclear 99.7 2.4E-16 5.1E-21 105.9 8.9 101 2-103 60-161 (506)
26 PLN03213 repressor of silencin 99.7 4.2E-16 9E-21 106.4 9.3 77 24-104 8-86 (759)
27 KOG0131 Splicing factor 3b, su 99.7 9.1E-17 2E-21 97.0 5.1 82 22-103 5-86 (203)
28 KOG0111 Cyclophilin-type pepti 99.7 3.6E-17 7.7E-22 101.7 3.4 81 24-104 8-88 (298)
29 TIGR01622 SF-CC1 splicing fact 99.7 1.8E-15 3.8E-20 104.4 10.8 78 25-103 88-165 (457)
30 TIGR01628 PABP-1234 polyadenyl 99.7 1.3E-15 2.8E-20 107.6 10.2 79 25-104 284-362 (562)
31 smart00360 RRM RNA recognition 99.7 2E-15 4.3E-20 78.6 8.5 71 31-101 1-71 (71)
32 KOG0105 Alternative splicing f 99.7 3.1E-16 6.7E-21 95.3 5.9 78 25-105 5-82 (241)
33 PLN03121 nucleic acid binding 99.7 2.1E-15 4.5E-20 95.3 9.8 74 25-102 4-77 (243)
34 KOG0148 Apoptosis-promoting RN 99.6 7.4E-16 1.6E-20 98.1 7.4 78 24-101 60-137 (321)
35 KOG0130 RNA-binding protein RB 99.6 1E-15 2.3E-20 88.7 5.9 80 22-101 68-147 (170)
36 COG0724 RNA-binding proteins ( 99.6 5.3E-15 1.1E-19 94.6 9.8 78 26-103 115-192 (306)
37 cd00590 RRM RRM (RNA recogniti 99.6 2.2E-14 4.7E-19 75.3 9.7 73 28-101 1-73 (74)
38 KOG0114 Predicted RNA-binding 99.6 5.8E-15 1.3E-19 82.0 7.6 76 24-102 16-91 (124)
39 KOG0108 mRNA cleavage and poly 99.6 5.5E-15 1.2E-19 100.8 7.8 78 27-104 19-96 (435)
40 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 1.8E-14 3.9E-19 100.3 10.2 76 24-104 273-349 (481)
41 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 3.5E-14 7.6E-19 98.8 9.6 73 26-104 2-76 (481)
42 KOG0148 Apoptosis-promoting RN 99.5 5.4E-14 1.2E-18 89.8 8.7 71 24-100 162-232 (321)
43 TIGR01648 hnRNP-R-Q heterogene 99.5 6E-14 1.3E-18 98.8 9.5 72 25-104 232-305 (578)
44 KOG0146 RNA-binding protein ET 99.5 1.6E-14 3.4E-19 92.3 5.4 83 22-104 281-363 (371)
45 KOG0145 RNA-binding protein EL 99.5 6.8E-14 1.5E-18 89.1 8.0 81 24-104 39-119 (360)
46 smart00361 RRM_1 RNA recogniti 99.5 1.7E-13 3.6E-18 72.4 8.0 61 40-100 2-69 (70)
47 KOG0124 Polypyrimidine tract-b 99.5 4.1E-14 8.8E-19 93.8 6.7 101 1-101 172-285 (544)
48 KOG0124 Polypyrimidine tract-b 99.5 1.7E-14 3.6E-19 95.6 4.1 77 26-102 113-189 (544)
49 KOG0117 Heterogeneous nuclear 99.5 1.1E-13 2.4E-18 93.3 8.1 72 25-104 258-329 (506)
50 KOG0109 RNA-binding protein LA 99.5 3.9E-14 8.6E-19 91.2 5.4 70 27-104 3-72 (346)
51 KOG0109 RNA-binding protein LA 99.5 3.4E-14 7.4E-19 91.4 5.0 95 2-104 54-148 (346)
52 KOG0131 Splicing factor 3b, su 99.5 1.5E-14 3.2E-19 87.6 2.9 100 4-103 71-174 (203)
53 KOG0147 Transcriptional coacti 99.5 4.2E-14 9.1E-19 97.1 5.4 76 27-102 279-354 (549)
54 KOG0127 Nucleolar protein fibr 99.5 9.8E-14 2.1E-18 95.6 6.8 79 26-104 5-83 (678)
55 KOG0415 Predicted peptidyl pro 99.5 1.2E-13 2.5E-18 91.2 6.7 80 24-103 237-316 (479)
56 KOG0144 RNA-binding protein CU 99.5 3E-13 6.5E-18 91.0 7.5 74 24-97 32-106 (510)
57 KOG0144 RNA-binding protein CU 99.4 9.2E-14 2E-18 93.4 4.4 77 25-102 123-202 (510)
58 PF13893 RRM_5: RNA recognitio 99.4 6.8E-13 1.5E-17 67.1 6.2 56 43-103 1-56 (56)
59 KOG4212 RNA-binding protein hn 99.4 6.2E-13 1.3E-17 89.9 7.5 77 25-102 43-120 (608)
60 KOG4208 Nucleolar RNA-binding 99.4 9.3E-13 2E-17 81.1 7.4 80 22-101 45-125 (214)
61 KOG0123 Polyadenylate-binding 99.4 9.9E-13 2.1E-17 88.8 7.9 94 3-102 56-149 (369)
62 KOG0127 Nucleolar protein fibr 99.4 1E-12 2.2E-17 90.7 7.5 77 26-103 117-193 (678)
63 TIGR01642 U2AF_lg U2 snRNP aux 99.4 6.9E-12 1.5E-16 87.7 9.7 71 24-101 173-255 (509)
64 KOG0123 Polyadenylate-binding 99.3 2.5E-11 5.5E-16 82.0 7.5 71 27-103 2-72 (369)
65 KOG4661 Hsp27-ERE-TATA-binding 99.2 3.3E-11 7.1E-16 84.1 7.4 81 24-104 403-483 (940)
66 KOG4206 Spliceosomal protein s 99.2 6.4E-11 1.4E-15 74.0 7.6 77 25-104 8-88 (221)
67 KOG0110 RNA-binding protein (R 99.2 1.2E-11 2.7E-16 87.3 4.7 78 26-103 613-690 (725)
68 KOG0533 RRM motif-containing p 99.2 6.5E-11 1.4E-15 75.6 7.3 78 24-102 81-158 (243)
69 KOG0146 RNA-binding protein ET 99.2 3.2E-11 6.9E-16 77.4 5.6 69 23-92 16-84 (371)
70 KOG4212 RNA-binding protein hn 99.2 5.6E-11 1.2E-15 80.6 6.2 74 24-102 534-607 (608)
71 KOG0153 Predicted RNA-binding 99.2 1.8E-10 3.8E-15 76.0 7.7 75 22-102 224-299 (377)
72 KOG0110 RNA-binding protein (R 99.2 1.5E-10 3.3E-15 82.0 7.4 78 27-104 516-596 (725)
73 KOG1548 Transcription elongati 99.2 2.2E-10 4.7E-15 75.5 7.6 79 24-103 132-218 (382)
74 KOG0132 RNA polymerase II C-te 99.1 2E-10 4.3E-15 82.2 6.8 72 25-102 420-491 (894)
75 KOG1457 RNA binding protein (c 99.1 1.1E-09 2.4E-14 68.8 8.5 82 23-104 31-116 (284)
76 KOG4205 RNA-binding protein mu 99.1 1.3E-10 2.8E-15 76.7 4.6 61 25-85 5-65 (311)
77 KOG0226 RNA-binding proteins [ 99.1 1.5E-10 3.1E-15 73.7 4.2 80 24-103 188-267 (290)
78 KOG0106 Alternative splicing f 99.0 2.5E-10 5.5E-15 71.6 3.9 69 28-104 3-71 (216)
79 KOG4660 Protein Mei2, essentia 99.0 3E-10 6.6E-15 78.6 4.3 72 23-99 72-143 (549)
80 KOG0116 RasGAP SH3 binding pro 99.0 1.7E-09 3.7E-14 73.9 7.4 77 25-102 287-363 (419)
81 KOG4209 Splicing factor RNPS1, 99.0 7.3E-10 1.6E-14 70.7 5.1 80 23-103 98-177 (231)
82 KOG4205 RNA-binding protein mu 99.0 1.4E-09 2.9E-14 72.0 6.4 60 26-85 97-156 (311)
83 PF04059 RRM_2: RNA recognitio 99.0 1.2E-08 2.7E-13 56.8 8.4 68 27-94 2-71 (97)
84 KOG4454 RNA binding protein (R 99.0 4.1E-10 8.8E-15 70.4 2.4 79 23-103 6-84 (267)
85 KOG4211 Splicing factor hnRNP- 98.8 2.2E-08 4.7E-13 68.8 7.8 78 22-103 6-83 (510)
86 KOG0120 Splicing factor U2AF, 98.7 1.5E-08 3.2E-13 70.5 4.3 81 23-103 286-366 (500)
87 KOG0151 Predicted splicing reg 98.7 7.9E-08 1.7E-12 68.8 6.8 76 25-100 173-251 (877)
88 KOG1190 Polypyrimidine tract-b 98.6 3.3E-07 7.2E-12 62.1 8.0 74 26-104 297-371 (492)
89 KOG1457 RNA binding protein (c 98.6 1E-07 2.2E-12 60.1 4.3 65 26-94 210-274 (284)
90 KOG4211 Splicing factor hnRNP- 98.5 4E-07 8.6E-12 62.8 6.7 76 25-102 102-178 (510)
91 KOG0147 Transcriptional coacti 98.5 4.9E-08 1.1E-12 67.8 1.8 79 24-103 177-255 (549)
92 KOG1995 Conserved Zn-finger pr 98.5 2.8E-07 6E-12 61.3 5.0 81 23-103 63-151 (351)
93 KOG0105 Alternative splicing f 98.5 1.9E-06 4.2E-11 53.0 8.0 66 23-95 112-177 (241)
94 KOG3152 TBP-binding protein, a 98.5 1E-07 2.2E-12 60.9 2.4 74 25-98 73-158 (278)
95 PF11608 Limkain-b1: Limkain b 98.4 1.8E-06 4E-11 46.6 6.6 67 27-103 3-74 (90)
96 PF08777 RRM_3: RNA binding mo 98.4 1.2E-06 2.6E-11 49.7 5.6 58 27-90 2-59 (105)
97 KOG2314 Translation initiation 98.3 3.6E-06 7.7E-11 59.3 7.8 80 20-100 52-138 (698)
98 KOG4849 mRNA cleavage factor I 98.3 8.8E-07 1.9E-11 59.2 4.1 77 25-101 79-157 (498)
99 KOG4206 Spliceosomal protein s 98.2 1.3E-05 2.8E-10 50.5 7.7 77 23-104 143-220 (221)
100 KOG4307 RNA binding protein RB 98.2 8.6E-06 1.9E-10 58.7 6.8 75 27-102 868-943 (944)
101 KOG1365 RNA-binding protein Fu 98.2 4.1E-06 8.9E-11 56.7 4.9 80 23-103 277-359 (508)
102 COG5175 MOT2 Transcriptional r 98.1 9.2E-06 2E-10 54.3 6.0 77 26-102 114-199 (480)
103 KOG0106 Alternative splicing f 98.0 3.7E-06 7.9E-11 53.1 2.5 71 24-102 97-167 (216)
104 KOG4210 Nuclear localization s 98.0 5.8E-06 1.3E-10 54.5 2.6 77 25-102 183-260 (285)
105 PF14605 Nup35_RRM_2: Nup53/35 97.9 4.7E-05 1E-09 37.9 5.0 52 27-85 2-53 (53)
106 KOG0129 Predicted RNA-binding 97.9 6.9E-05 1.5E-09 52.4 6.6 65 23-88 256-326 (520)
107 KOG1548 Transcription elongati 97.9 8.9E-05 1.9E-09 49.6 6.9 76 24-103 263-349 (382)
108 KOG0129 Predicted RNA-binding 97.9 8.2E-05 1.8E-09 52.0 6.8 64 23-86 367-431 (520)
109 KOG1456 Heterogeneous nuclear 97.8 0.00024 5.3E-09 48.2 8.5 76 24-104 285-361 (494)
110 KOG0112 Large RNA-binding prot 97.6 0.00011 2.4E-09 54.4 4.8 72 22-99 451-522 (975)
111 KOG1365 RNA-binding protein Fu 97.6 0.00083 1.8E-08 45.9 8.4 61 26-87 161-225 (508)
112 KOG1190 Polypyrimidine tract-b 97.6 0.00022 4.8E-09 48.8 5.6 75 25-104 413-489 (492)
113 PF08675 RNA_bind: RNA binding 97.5 0.00052 1.1E-08 37.1 5.6 57 24-89 7-63 (87)
114 PF08952 DUF1866: Domain of un 97.5 0.0006 1.3E-08 40.7 5.8 71 24-103 25-104 (146)
115 PF05172 Nup35_RRM: Nup53/35/4 97.5 0.00092 2E-08 37.6 6.3 71 25-97 5-82 (100)
116 KOG0120 Splicing factor U2AF, 97.4 0.00063 1.4E-08 48.0 6.4 59 43-101 426-487 (500)
117 PF10309 DUF2414: Protein of u 97.4 0.0026 5.5E-08 32.6 6.9 55 26-88 5-62 (62)
118 KOG0115 RNA-binding protein p5 97.4 0.00026 5.6E-09 45.7 3.6 62 27-89 32-93 (275)
119 KOG2193 IGF-II mRNA-binding pr 97.4 0.00027 5.9E-09 48.7 3.7 70 27-102 2-72 (584)
120 KOG1855 Predicted RNA-binding 97.3 0.00031 6.7E-09 48.3 3.9 68 24-91 229-309 (484)
121 KOG4676 Splicing factor, argin 97.2 0.0013 2.8E-08 45.0 5.3 76 26-102 7-85 (479)
122 KOG0128 RNA-binding protein SA 97.1 0.00019 4.2E-09 52.8 1.2 74 26-100 736-809 (881)
123 KOG2416 Acinus (induces apopto 97.1 0.00047 1E-08 49.3 3.0 75 22-102 440-518 (718)
124 KOG2202 U2 snRNP splicing fact 97.1 0.00022 4.7E-09 46.0 1.1 61 42-103 84-145 (260)
125 KOG1456 Heterogeneous nuclear 97.0 0.0094 2E-07 40.8 8.0 73 27-104 121-197 (494)
126 PF03467 Smg4_UPF3: Smg-4/UPF3 96.9 0.0021 4.5E-08 39.7 4.3 73 25-97 6-84 (176)
127 KOG1996 mRNA splicing factor [ 96.8 0.0071 1.5E-07 40.1 6.4 61 41-101 301-362 (378)
128 KOG4307 RNA binding protein RB 96.7 0.0018 3.9E-08 47.4 3.0 77 24-101 432-509 (944)
129 KOG0128 RNA-binding protein SA 96.6 8.5E-05 1.8E-09 54.6 -4.1 64 27-90 668-731 (881)
130 KOG2068 MOT2 transcription fac 96.3 0.0022 4.7E-08 42.9 1.4 77 26-102 77-159 (327)
131 PF07576 BRAP2: BRCA1-associat 96.2 0.1 2.2E-06 29.9 8.5 66 27-94 13-80 (110)
132 KOG0112 Large RNA-binding prot 96.1 0.00096 2.1E-08 49.7 -0.8 75 24-99 370-444 (975)
133 KOG2591 c-Mpl binding protein, 96.0 0.023 5.1E-07 40.7 5.4 70 25-101 174-247 (684)
134 PF15023 DUF4523: Protein of u 95.6 0.072 1.6E-06 31.9 5.7 68 17-91 77-148 (166)
135 PF03880 DbpA: DbpA RNA bindin 95.6 0.062 1.3E-06 28.4 5.1 67 28-103 2-74 (74)
136 PF04847 Calcipressin: Calcipr 95.5 0.054 1.2E-06 33.8 5.3 59 39-103 8-68 (184)
137 KOG4660 Protein Mei2, essentia 95.5 0.025 5.5E-07 40.3 4.2 66 28-93 390-456 (549)
138 KOG0804 Cytoplasmic Zn-finger 95.4 0.12 2.6E-06 36.3 7.0 68 24-94 72-141 (493)
139 KOG2253 U1 snRNP complex, subu 94.5 0.031 6.8E-07 40.7 2.3 71 23-102 37-107 (668)
140 KOG2135 Proteins containing th 93.0 0.048 1E-06 38.4 1.1 67 28-101 374-441 (526)
141 KOG4574 RNA-binding protein (c 92.9 0.066 1.4E-06 40.3 1.7 67 32-104 304-372 (1007)
142 KOG4285 Mitotic phosphoprotein 92.6 1.1 2.4E-05 30.2 6.9 64 26-97 197-260 (350)
143 KOG4483 Uncharacterized conser 92.1 1.5 3.2E-05 30.8 7.2 68 22-97 387-455 (528)
144 KOG2193 IGF-II mRNA-binding pr 91.9 0.0032 6.8E-08 43.7 -5.5 74 24-101 78-152 (584)
145 PF11767 SET_assoc: Histone ly 91.6 1.1 2.4E-05 23.2 7.1 54 38-100 12-65 (66)
146 KOG4210 Nuclear localization s 91.0 0.17 3.6E-06 33.8 1.9 73 25-97 87-159 (285)
147 KOG2318 Uncharacterized conser 86.6 9.8 0.00021 28.1 8.1 77 23-99 171-299 (650)
148 PF10567 Nab6_mRNP_bdg: RNA-re 78.5 11 0.00024 25.5 5.6 62 23-84 12-80 (309)
149 KOG4676 Splicing factor, argin 76.7 0.43 9.3E-06 33.2 -1.3 62 26-92 151-212 (479)
150 KOG4410 5-formyltetrahydrofola 76.7 14 0.00031 25.0 5.7 47 26-78 330-377 (396)
151 PF15513 DUF4651: Domain of un 74.9 9.6 0.00021 19.5 4.0 18 41-58 9-26 (62)
152 PF07292 NID: Nmi/IFP 35 domai 70.6 15 0.00033 20.1 4.1 23 24-46 50-72 (88)
153 PRK11901 hypothetical protein; 66.8 27 0.00058 24.0 5.4 61 26-91 245-307 (327)
154 KOG1295 Nonsense-mediated deca 62.7 16 0.00036 25.5 3.9 68 27-94 8-78 (376)
155 smart00596 PRE_C2HC PRE_C2HC d 59.7 14 0.0003 19.4 2.5 38 41-78 2-40 (69)
156 COG0724 RNA-binding proteins ( 58.5 24 0.00052 22.1 4.0 39 24-62 223-261 (306)
157 PF02714 DUF221: Domain of unk 56.5 16 0.00034 24.5 3.0 23 71-93 1-23 (325)
158 KOG4454 RNA binding protein (R 50.0 2.7 5.8E-05 27.3 -1.3 65 26-91 80-148 (267)
159 KOG4008 rRNA processing protei 48.3 21 0.00046 23.5 2.4 33 24-56 38-70 (261)
160 PF09707 Cas_Cas2CT1978: CRISP 47.0 48 0.001 18.1 3.9 47 26-75 25-71 (86)
161 PF03468 XS: XS domain; Inter 45.7 59 0.0013 18.7 5.7 44 39-85 30-74 (116)
162 KOG2295 C2H2 Zn-finger protein 45.4 2.5 5.5E-05 30.9 -2.1 70 26-95 231-300 (648)
163 KOG4019 Calcineurin-mediated s 45.3 12 0.00027 23.5 1.1 66 28-99 12-83 (193)
164 PF03439 Spt5-NGN: Early trans 45.3 49 0.0011 17.7 3.7 29 67-95 43-71 (84)
165 COG0445 GidA Flavin-dependent 45.1 97 0.0021 23.4 5.5 39 22-60 297-335 (621)
166 KOG4365 Uncharacterized conser 43.5 3.1 6.6E-05 29.7 -1.9 49 28-76 5-53 (572)
167 PRK10905 cell division protein 41.0 1.1E+02 0.0025 21.1 5.1 63 25-91 246-309 (328)
168 PF14893 PNMA: PNMA 41.0 26 0.00055 24.2 2.1 26 23-48 15-40 (331)
169 KOG2891 Surface glycoprotein [ 40.7 36 0.00079 23.1 2.7 34 26-59 149-194 (445)
170 PF11823 DUF3343: Protein of u 40.4 52 0.0011 17.0 2.9 25 70-94 3-27 (73)
171 PHA01632 hypothetical protein 38.7 48 0.001 16.6 2.3 21 29-49 19-39 (64)
172 PF07530 PRE_C2HC: Associated 37.8 62 0.0013 16.7 3.3 40 41-80 2-42 (68)
173 PF05189 RTC_insert: RNA 3'-te 35.5 81 0.0018 17.4 3.5 48 27-74 11-63 (103)
174 cd00027 BRCT Breast Cancer Sup 35.1 56 0.0012 15.5 3.2 25 28-52 3-27 (72)
175 COG5507 Uncharacterized conser 33.6 75 0.0016 18.0 2.8 21 68-88 66-86 (117)
176 COG0030 KsgA Dimethyladenosine 33.6 79 0.0017 21.1 3.5 33 27-59 96-128 (259)
177 PF05573 NosL: NosL; InterPro 32.8 1E+02 0.0022 18.4 3.7 27 68-94 114-140 (149)
178 PF15407 Spo7_2_N: Sporulation 32.6 7.9 0.00017 20.1 -1.0 26 17-42 18-43 (67)
179 PF12829 Mhr1: Transcriptional 32.4 84 0.0018 17.4 2.9 53 33-89 19-72 (91)
180 PRK14548 50S ribosomal protein 32.0 91 0.002 16.9 5.7 53 33-88 27-81 (84)
181 PF11411 DNA_ligase_IV: DNA li 31.6 48 0.001 15.0 1.6 16 36-51 19-34 (36)
182 COG4314 NosL Predicted lipopro 29.2 1.4E+02 0.0031 18.4 3.7 22 73-94 131-152 (176)
183 COG5584 Predicted small secret 27.5 90 0.0019 17.6 2.5 30 33-62 29-58 (103)
184 TIGR03636 L23_arch archaeal ri 27.0 1.1E+02 0.0024 16.3 5.7 57 29-88 16-74 (77)
185 TIGR01873 cas_CT1978 CRISPR-as 26.6 76 0.0016 17.4 2.1 48 26-76 25-73 (87)
186 PF15063 TC1: Thyroid cancer p 25.4 53 0.0012 17.6 1.3 27 27-53 26-52 (79)
187 KOG2187 tRNA uracil-5-methyltr 24.4 41 0.0009 24.8 1.1 35 68-102 63-97 (534)
188 PF10905 DUF2695: Protein of u 24.3 1.1E+02 0.0023 15.2 2.4 23 38-60 30-52 (53)
189 COG5193 LHP1 La protein, small 22.9 42 0.00092 23.9 0.9 61 25-85 173-243 (438)
190 PRK11558 putative ssRNA endonu 21.5 1.7E+02 0.0036 16.5 3.7 48 26-76 27-74 (97)
191 KOG0156 Cytochrome P450 CYP2 s 21.4 2.5E+02 0.0055 20.5 4.5 59 30-98 36-97 (489)
192 PTZ00338 dimethyladenosine tra 21.1 1.6E+02 0.0035 19.8 3.3 22 28-49 103-124 (294)
193 PF09702 Cas_Csa5: CRISPR-asso 20.7 1.8E+02 0.0039 16.6 2.9 23 23-48 61-83 (105)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.87 E-value=3.6e-21 Score=114.68 Aligned_cols=82 Identities=46% Similarity=0.719 Sum_probs=77.4
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
....++|||+|||+.+++++|+++|.+||.|.++.++.+..++.+++||||+|.+.++|+.|++.|++..+.|+.++|..
T Consensus 31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~ 110 (144)
T PLN03134 31 RLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNP 110 (144)
T ss_pred cCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence 34677999999999999999999999999999999999998999999999999999999999999999999999999987
Q ss_pred CC
Q 034058 103 ST 104 (105)
Q Consensus 103 ~~ 104 (105)
++
T Consensus 111 a~ 112 (144)
T PLN03134 111 AN 112 (144)
T ss_pred CC
Confidence 54
No 2
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.82 E-value=1.6e-19 Score=120.77 Aligned_cols=79 Identities=35% Similarity=0.470 Sum_probs=75.3
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccCC
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLST 104 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~~ 104 (105)
+..|||+|||+.+++++|+++|++||.|.++.++.+..++.++|||||+|.+.++|..|+..|||..+.|+.|+|.+.+
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~ 347 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKT 347 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcc
Confidence 4479999999999999999999999999999999999899999999999999999999999999999999999998754
No 3
>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=99.82 E-value=2.3e-19 Score=94.42 Aligned_cols=70 Identities=39% Similarity=0.658 Sum_probs=66.4
Q ss_pred EEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeee
Q 034058 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDT 99 (105)
Q Consensus 29 l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~ 99 (105)
|||+|||+++++++|+++|++||.+..+.+..+ .++..+++|||+|.+.++|+.|++.|+|..+.|+.++
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 799999999999999999999999999999887 4788999999999999999999999999999998875
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.81 E-value=4.3e-19 Score=118.66 Aligned_cols=79 Identities=30% Similarity=0.495 Sum_probs=75.1
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
+..+|||+|||..+++++|+++|+.||+|..+.++.+..+|+++|||||+|.+.++|..|+..|+|..+.|+.++|..+
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a 80 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYA 80 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEee
Confidence 3678999999999999999999999999999999999889999999999999999999999999999999999999764
No 5
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.80 E-value=7.2e-19 Score=117.51 Aligned_cols=82 Identities=33% Similarity=0.460 Sum_probs=77.1
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 22 ~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
+....++|||+|||+++++++|+++|+.||+|..++++.+..++++++||||+|.+.++|+.|++.|+|..+.++.++|.
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~ 182 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS 182 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence 34567899999999999999999999999999999999998899999999999999999999999999999999999987
Q ss_pred cC
Q 034058 102 LS 103 (105)
Q Consensus 102 ~~ 103 (105)
.+
T Consensus 183 ~a 184 (346)
T TIGR01659 183 YA 184 (346)
T ss_pred cc
Confidence 65
No 6
>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=99.79 E-value=1.1e-18 Score=116.67 Aligned_cols=101 Identities=25% Similarity=0.414 Sum_probs=83.0
Q ss_pred cCCCceeccccccccc--cccCCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHH
Q 034058 3 WLNGSVRFSHSVRFTR--LLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80 (105)
Q Consensus 3 ~~~~~~~~~~~~~~~~--~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~ 80 (105)
.+++..+..+.+.... +.......++|||+|||+.+++++|+++|++||.|..+.++.+..++++++||||+|.+.++
T Consensus 168 ~LnG~~l~gr~i~V~~a~p~~~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~ 247 (346)
T TIGR01659 168 NLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREE 247 (346)
T ss_pred HcCCCccCCceeeeecccccccccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHH
Confidence 4566666665554322 22233456789999999999999999999999999999999998899999999999999999
Q ss_pred HHHHHHHcCCceeee--eeeeeccC
Q 034058 81 AGEAIKEMDGLVCRT--SKDTDMLS 103 (105)
Q Consensus 81 a~~a~~~l~g~~~~~--~~~~v~~~ 103 (105)
|++|++.||+..+.+ +.++|.++
T Consensus 248 A~~Ai~~lng~~~~g~~~~l~V~~a 272 (346)
T TIGR01659 248 AQEAISALNNVIPEGGSQPLTVRLA 272 (346)
T ss_pred HHHHHHHhCCCccCCCceeEEEEEC
Confidence 999999999998876 56777654
No 7
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.79 E-value=5.4e-19 Score=106.00 Aligned_cols=77 Identities=31% Similarity=0.463 Sum_probs=71.8
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
...++|||+||+..+++.+|...|..||++..+++..++ .|||||+|++..+|+.|+..|+|..|-|.+++|+++
T Consensus 8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S 82 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELS 82 (195)
T ss_pred CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCceEEEEee
Confidence 347899999999999999999999999999999988754 589999999999999999999999999999999998
Q ss_pred CC
Q 034058 104 TG 105 (105)
Q Consensus 104 ~~ 105 (105)
+|
T Consensus 83 ~G 84 (195)
T KOG0107|consen 83 TG 84 (195)
T ss_pred cC
Confidence 75
No 8
>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=99.78 E-value=2.9e-18 Score=120.64 Aligned_cols=79 Identities=20% Similarity=0.325 Sum_probs=74.8
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
..++|||+|||+.+++++|+++|+.||.|..+.+..+..+++++|||||+|.+.++|..|+..|||..++|+.++|..+
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kA 281 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKC 281 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEec
Confidence 3478999999999999999999999999999999999888899999999999999999999999999999999998754
No 9
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.77 E-value=3.3e-18 Score=107.27 Aligned_cols=82 Identities=28% Similarity=0.380 Sum_probs=78.0
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
..+..+|-|.||+.++++.+|+++|.+||.+.++.+.++++||.++|||||.|.+.++|.+||..|||+-++...++|+.
T Consensus 186 R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEw 265 (270)
T KOG0122|consen 186 RDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEW 265 (270)
T ss_pred CCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEe
Confidence 34667899999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CC
Q 034058 103 ST 104 (105)
Q Consensus 103 ~~ 104 (105)
++
T Consensus 266 sk 267 (270)
T KOG0122|consen 266 SK 267 (270)
T ss_pred cC
Confidence 65
No 10
>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=99.77 E-value=6.9e-18 Score=118.38 Aligned_cols=100 Identities=25% Similarity=0.379 Sum_probs=85.2
Q ss_pred CCcCCCceeccccccccccccCCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHH
Q 034058 1 MQWLNGSVRFSHSVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAA 80 (105)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~ 80 (105)
|..+|+.+.+..+++.|... .+...++|||+|||+++++++|.++|++||.|..++++.+ .+|.++|||||+|.+.++
T Consensus 34 ~~~~~g~r~~g~Pp~~~~~~-~p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~ 111 (578)
T TIGR01648 34 LVQENGQRKYGGPPPGWSGV-QPGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEE 111 (578)
T ss_pred ccccCCcccCCCCCCcccCC-CCCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHH
Confidence 35677888888777765433 2446789999999999999999999999999999999999 589999999999999999
Q ss_pred HHHHHHHcCCceee-eeeeeecc
Q 034058 81 AGEAIKEMDGLVCR-TSKDTDML 102 (105)
Q Consensus 81 a~~a~~~l~g~~~~-~~~~~v~~ 102 (105)
|+.|++.||+..+. ++.+.|..
T Consensus 112 A~~Ai~~lng~~i~~Gr~l~V~~ 134 (578)
T TIGR01648 112 AKEAVKLLNNYEIRPGRLLGVCI 134 (578)
T ss_pred HHHHHHHcCCCeecCCccccccc
Confidence 99999999999885 66655543
No 11
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.75 E-value=5.2e-20 Score=111.07 Aligned_cols=100 Identities=23% Similarity=0.353 Sum_probs=87.6
Q ss_pred CcCCCceeccccccccccccCCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHH
Q 034058 2 QWLNGSVRFSHSVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81 (105)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a 81 (105)
+.+|..+++...........+-..+..|||+|||...|+.+|..+|++||.+..+-++++..||+++||||+-|++..+.
T Consensus 11 ~~lne~Elq~g~~~~~SWH~~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRST 90 (219)
T KOG0126|consen 11 QKLNERELQLGIADKKSWHQEYKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRST 90 (219)
T ss_pred HHhhHHhhccccccccchhhhcccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccce
Confidence 44565666665554444445566788999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHcCCceeeeeeeeec
Q 034058 82 GEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 82 ~~a~~~l~g~~~~~~~~~v~ 101 (105)
..|+..|||..|.|+.|+|.
T Consensus 91 ILAVDN~NGiki~gRtirVD 110 (219)
T KOG0126|consen 91 ILAVDNLNGIKILGRTIRVD 110 (219)
T ss_pred EEEEeccCCceecceeEEee
Confidence 99999999999999999985
No 12
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.75 E-value=2.3e-17 Score=87.07 Aligned_cols=70 Identities=33% Similarity=0.544 Sum_probs=64.1
Q ss_pred EEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeee
Q 034058 29 LFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDT 99 (105)
Q Consensus 29 l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~ 99 (105)
|||+|||+++++++|.++|+.+|.|..+.+..++. +..+++|||+|.+.++|..|++.++|..+.|+.++
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 79999999999999999999999999999999875 88999999999999999999999999999998874
No 13
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.75 E-value=8.4e-18 Score=109.20 Aligned_cols=79 Identities=24% Similarity=0.466 Sum_probs=72.8
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
...++|+|+|+|+...+.||+..|.+||.|.+++++.+. ..++|||||+|++..+|++|-++|||..+.|++|.|..+
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~A 171 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNA 171 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEecc
Confidence 345799999999999999999999999999999999886 337899999999999999999999999999999999875
Q ss_pred C
Q 034058 104 T 104 (105)
Q Consensus 104 ~ 104 (105)
+
T Consensus 172 T 172 (376)
T KOG0125|consen 172 T 172 (376)
T ss_pred c
Confidence 4
No 14
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.75 E-value=5.9e-18 Score=97.06 Aligned_cols=82 Identities=22% Similarity=0.368 Sum_probs=76.0
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
..+++|||+||+..++|++|.++|+++|+|.++-+-.++.+-.+-|||||+|.+.++|+.|++.++|..++.+.|++..+
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence 46789999999999999999999999999999999999877778899999999999999999999999999999998765
Q ss_pred CC
Q 034058 104 TG 105 (105)
Q Consensus 104 ~~ 105 (105)
.|
T Consensus 114 ~G 115 (153)
T KOG0121|consen 114 AG 115 (153)
T ss_pred cc
Confidence 43
No 15
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.74 E-value=8e-18 Score=105.02 Aligned_cols=78 Identities=41% Similarity=0.672 Sum_probs=70.6
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
.-++|||+||+|.+..++|++.|++||+|....++.|+.+|+++|||||+|.+.++|.+|++. ..-.|+|++..+.++
T Consensus 11 ~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNcnlA 88 (247)
T KOG0149|consen 11 TFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANCNLA 88 (247)
T ss_pred eEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccccccchh
Confidence 456899999999999999999999999999999999999999999999999999999999944 556788888777654
No 16
>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=99.74 E-value=2.7e-17 Score=115.81 Aligned_cols=79 Identities=23% Similarity=0.454 Sum_probs=74.9
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
...++|||+|||+.+++++|+++|.+||.|.++.++.++.+|+++|||||+|.+.++|+.|++.|||..+.|+.++|..
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~r 183 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 183 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecc
Confidence 3457999999999999999999999999999999999998999999999999999999999999999999999998864
No 17
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.73 E-value=1.1e-17 Score=102.93 Aligned_cols=84 Identities=31% Similarity=0.468 Sum_probs=79.0
Q ss_pred cCCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeee
Q 034058 21 SDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTD 100 (105)
Q Consensus 21 ~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v 100 (105)
++-+.-..|.|.||...++.++|..+|++||.|-++.|+.+..|..++|||||.|....+|+.|++.|+|..++|+.++|
T Consensus 8 Pdv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrV 87 (256)
T KOG4207|consen 8 PDVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRV 87 (256)
T ss_pred CCcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeee
Confidence 34455678999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCC
Q 034058 101 MLST 104 (105)
Q Consensus 101 ~~~~ 104 (105)
++++
T Consensus 88 q~ar 91 (256)
T KOG4207|consen 88 QMAR 91 (256)
T ss_pred hhhh
Confidence 9875
No 18
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.71 E-value=1.2e-16 Score=102.03 Aligned_cols=75 Identities=17% Similarity=0.217 Sum_probs=68.6
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccCC
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLST 104 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~~ 104 (105)
.++|||+|||+.+++++|+++|+.||.|.++.++.+.. .+|||||+|.+.++|+.|+ .|+|..+.|+.++|..+.
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~Al-lLnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETAL-LLSGATIVDQSVTITPAE 78 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHH-HhcCCeeCCceEEEEecc
Confidence 56899999999999999999999999999999988753 4589999999999999999 599999999999998653
No 19
>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=99.70 E-value=1.7e-16 Score=111.93 Aligned_cols=76 Identities=34% Similarity=0.472 Sum_probs=73.0
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 28 ~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
+|||+|||+++++++|.++|++||.|..+++.++..+++++|||||+|.+.++|++|+..+++..+.|+.++++.+
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s 77 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWS 77 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecc
Confidence 6999999999999999999999999999999999988999999999999999999999999999999999999764
No 20
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.70 E-value=2.7e-16 Score=109.63 Aligned_cols=79 Identities=24% Similarity=0.425 Sum_probs=74.7
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
..++|||+|||..+++++|+++|..||.|..+.++.+..+|.++|||||+|.+.+.|..|+..|+|..+.|+.+.|..+
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 4578999999999999999999999999999999998889999999999999999999999999999999999998765
No 21
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.70 E-value=2.1e-16 Score=101.65 Aligned_cols=82 Identities=30% Similarity=0.580 Sum_probs=77.7
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
.+-.+|||+-|+..+++..|+..|+.||+|+.+.++.+..||+++|||||+|+...+...|.+.-+|..|+|+++.|.+.
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE 178 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE 178 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence 45689999999999999999999999999999999999999999999999999999999999999999999999999875
Q ss_pred CC
Q 034058 104 TG 105 (105)
Q Consensus 104 ~~ 105 (105)
.|
T Consensus 179 Rg 180 (335)
T KOG0113|consen 179 RG 180 (335)
T ss_pred cc
Confidence 43
No 22
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.70 E-value=2.4e-17 Score=104.66 Aligned_cols=103 Identities=30% Similarity=0.498 Sum_probs=90.6
Q ss_pred CCcCCCceecccccc--ccccccCCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCH
Q 034058 1 MQWLNGSVRFSHSVR--FTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASE 78 (105)
Q Consensus 1 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~ 78 (105)
|..+||.+++.+++. +.++..+...+..|||++||..++..+|+.+|++||.|...++..|..+|.++|.+||.|+++
T Consensus 100 intlNGLrLQ~KTIKVSyARPSs~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr 179 (360)
T KOG0145|consen 100 INTLNGLRLQNKTIKVSYARPSSDSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKR 179 (360)
T ss_pred HhhhcceeeccceEEEEeccCChhhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecch
Confidence 357899999999865 567788888899999999999999999999999999998888888888999999999999999
Q ss_pred HHHHHHHHHcCCceeeeee--eeeccC
Q 034058 79 AAAGEAIKEMDGLVCRTSK--DTDMLS 103 (105)
Q Consensus 79 ~~a~~a~~~l~g~~~~~~~--~~v~~~ 103 (105)
.+|+.||..|||....|.. |.|.++
T Consensus 180 ~EAe~AIk~lNG~~P~g~tepItVKFa 206 (360)
T KOG0145|consen 180 IEAEEAIKGLNGQKPSGCTEPITVKFA 206 (360)
T ss_pred hHHHHHHHhccCCCCCCCCCCeEEEec
Confidence 9999999999999877653 555543
No 23
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.69 E-value=3.7e-16 Score=107.79 Aligned_cols=78 Identities=29% Similarity=0.524 Sum_probs=74.5
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
..+|||+|||..+++++|+++|..||.|..+.+..+..+|.++|||||+|.+.++|..|+..|+|..+.|+.++|.++
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a 263 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYA 263 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEc
Confidence 578999999999999999999999999999999999888899999999999999999999999999999999999874
No 24
>smart00362 RRM_2 RNA recognition motif.
Probab=99.69 E-value=7.7e-16 Score=80.49 Aligned_cols=72 Identities=36% Similarity=0.542 Sum_probs=66.0
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 28 ~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
+|||+|||..+++++|+++|.+||++..+.+..+. +.++++|||+|.+.+.|+.|+..++|..+.|+.+.|.
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 48999999999999999999999999999888765 6678999999999999999999999999999988763
No 25
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.69 E-value=2.4e-16 Score=105.93 Aligned_cols=101 Identities=27% Similarity=0.373 Sum_probs=87.3
Q ss_pred CcCCCceeccccccccccccCCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHH
Q 034058 2 QWLNGSVRFSHSVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81 (105)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a 81 (105)
..-+|.+.+..+++.|.... ....+.|||+.||.++.|++|..+|.+.|+|..++++.++-+|.++|||||+|.+.+.|
T Consensus 60 ~ve~gqrk~ggPpP~weg~~-p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~A 138 (506)
T KOG0117|consen 60 VVENGQRKYGGPPPGWEGPP-PPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEA 138 (506)
T ss_pred EEeccccccCCCCCcccCCC-CCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHH
Confidence 34567777777777654443 36788999999999999999999999999999999999988999999999999999999
Q ss_pred HHHHHHcCCceee-eeeeeeccC
Q 034058 82 GEAIKEMDGLVCR-TSKDTDMLS 103 (105)
Q Consensus 82 ~~a~~~l~g~~~~-~~~~~v~~~ 103 (105)
+.|++.||+++|. |+.|.|-+|
T Consensus 139 q~Aik~lnn~Eir~GK~igvc~S 161 (506)
T KOG0117|consen 139 QEAIKELNNYEIRPGKLLGVCVS 161 (506)
T ss_pred HHHHHHhhCccccCCCEeEEEEe
Confidence 9999999999884 777777554
No 26
>PLN03213 repressor of silencing 3; Provisional
Probab=99.68 E-value=4.2e-16 Score=106.41 Aligned_cols=77 Identities=17% Similarity=0.344 Sum_probs=70.0
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCH--HHHHHHHHHcCCceeeeeeeeec
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASE--AAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~--~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
....+||||||++.+++++|...|..||.|.++.+++ .+| +|||||+|... .++.+||..|||..+.|+.|+|.
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpR--ETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVN 83 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVR--TKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLE 83 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEec--ccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEe
Confidence 3567999999999999999999999999999999984 466 89999999976 78999999999999999999998
Q ss_pred cCC
Q 034058 102 LST 104 (105)
Q Consensus 102 ~~~ 104 (105)
.++
T Consensus 84 KAK 86 (759)
T PLN03213 84 KAK 86 (759)
T ss_pred ecc
Confidence 764
No 27
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.67 E-value=9.1e-17 Score=97.04 Aligned_cols=82 Identities=28% Similarity=0.432 Sum_probs=77.4
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 22 ~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
+.+.+.+|||+||+..++++.|+++|-+.|+|..+.++.++.+..++||||++|.++++|+.|++.||...+-|+.|+|.
T Consensus 5 ~rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ 84 (203)
T KOG0131|consen 5 ERNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVN 84 (203)
T ss_pred ccCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEE
Confidence 45678899999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred cC
Q 034058 102 LS 103 (105)
Q Consensus 102 ~~ 103 (105)
.+
T Consensus 85 ka 86 (203)
T KOG0131|consen 85 KA 86 (203)
T ss_pred ec
Confidence 54
No 28
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.67 E-value=3.6e-17 Score=101.68 Aligned_cols=81 Identities=30% Similarity=0.486 Sum_probs=77.4
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
...++|||++|...+++..|...|-+||.|..+.++.+..+++++||+||+|...++|.+||..||+..+-|+.|+|-++
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~A 87 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLA 87 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeec
Confidence 45679999999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred C
Q 034058 104 T 104 (105)
Q Consensus 104 ~ 104 (105)
+
T Consensus 88 k 88 (298)
T KOG0111|consen 88 K 88 (298)
T ss_pred C
Confidence 4
No 29
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.66 E-value=1.8e-15 Score=104.45 Aligned_cols=78 Identities=22% Similarity=0.309 Sum_probs=73.1
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
..++|||+|||..+++++|+++|.+||.|..+.++.+..++.++|||||+|.+.++|.+|+ .|+|..+.|+.+.|..+
T Consensus 88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al-~l~g~~~~g~~i~v~~~ 165 (457)
T TIGR01622 88 DDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKAL-ALTGQMLLGRPIIVQSS 165 (457)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHH-HhCCCEECCeeeEEeec
Confidence 4679999999999999999999999999999999999889999999999999999999999 59999999999988754
No 30
>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=99.65 E-value=1.3e-15 Score=107.55 Aligned_cols=79 Identities=30% Similarity=0.500 Sum_probs=74.1
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccCC
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLST 104 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~~ 104 (105)
....|||+||++.+++++|+++|+.||.|..+.+..+. +|.++|||||.|.+.++|.+|+..|||..+.|+.+.|.++.
T Consensus 284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~-~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~ 362 (562)
T TIGR01628 284 QGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDE-KGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQ 362 (562)
T ss_pred CCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECC-CCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEecc
Confidence 45689999999999999999999999999999999984 89999999999999999999999999999999999998753
No 31
>smart00360 RRM RNA recognition motif.
Probab=99.65 E-value=2e-15 Score=78.64 Aligned_cols=71 Identities=31% Similarity=0.538 Sum_probs=65.7
Q ss_pred EcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 31 IGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 31 v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
|+|||..+++++|+++|.+||.+..+.+..++.++.++++|||+|.+.++|..|+..+++..+.|+.++|.
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 57899999999999999999999999998887778889999999999999999999999999999888763
No 32
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.65 E-value=3.1e-16 Score=95.26 Aligned_cols=78 Identities=23% Similarity=0.369 Sum_probs=70.7
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccCC
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLST 104 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~~ 104 (105)
.+++|||+|||.++.+.+++++|-+||.|..+.+...+ ...+||||+|++..+|+.||..-+|+.++|.+++|+++.
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfpr 81 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPR 81 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEEEecc
Confidence 46789999999999999999999999999999886443 245899999999999999999999999999999999976
Q ss_pred C
Q 034058 105 G 105 (105)
Q Consensus 105 ~ 105 (105)
+
T Consensus 82 g 82 (241)
T KOG0105|consen 82 G 82 (241)
T ss_pred C
Confidence 4
No 33
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.65 E-value=2.1e-15 Score=95.29 Aligned_cols=74 Identities=19% Similarity=0.157 Sum_probs=67.4
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
...+|||+||++.+++++|+++|+.||.|.++++..+.. ..++|||+|++.+.++.|+ .|+|..|.+..+.+..
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~e---t~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~ 77 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGE---YACTAYVTFKDAYALETAV-LLSGATIVDQRVCITR 77 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCC---cceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEe
Confidence 457999999999999999999999999999999998753 3479999999999999999 8999999999988764
No 34
>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=7.4e-16 Score=98.15 Aligned_cols=78 Identities=36% Similarity=0.593 Sum_probs=73.7
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
.....+||+.|.+.++.++|++.|.+||+|.++++++|..|++++||+||.|.++++|+.||..|||.-|++|.|+--
T Consensus 60 ~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTN 137 (321)
T KOG0148|consen 60 NQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTN 137 (321)
T ss_pred ccceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeecc
Confidence 345689999999999999999999999999999999999999999999999999999999999999999999998754
No 35
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.63 E-value=1e-15 Score=88.69 Aligned_cols=80 Identities=24% Similarity=0.373 Sum_probs=75.2
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 22 ~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
.+.....|||.++.+..+++++.+.|..||+|+.+.+..++.||..+||++|+|++...|++|+..+||..+-+..+.|.
T Consensus 68 rSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VD 147 (170)
T KOG0130|consen 68 RSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVD 147 (170)
T ss_pred cceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEE
Confidence 34466899999999999999999999999999999999999999999999999999999999999999999999888875
No 36
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.62 E-value=5.3e-15 Score=94.60 Aligned_cols=78 Identities=36% Similarity=0.616 Sum_probs=74.9
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
..+|||+|||..+++++|.++|..||.+..+.+..++.++..+|+|||.|.+.+++..|+..++|..+.|+.+.|..+
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~ 192 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKA 192 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecc
Confidence 589999999999999999999999999999999999889999999999999999999999999999999999999874
No 37
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=99.61 E-value=2.2e-14 Score=75.27 Aligned_cols=73 Identities=27% Similarity=0.510 Sum_probs=66.7
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 28 ~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
+|+|+|||+.+++++++++|+.+|.+..+.+..+.. +...++|||+|.+.++|..|+..+++..+.|+.+.|.
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~-~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~ 73 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKD-TKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE 73 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCC-CCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence 489999999999999999999999999999887763 3678999999999999999999999999999998875
No 38
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.61 E-value=5.8e-15 Score=82.01 Aligned_cols=76 Identities=20% Similarity=0.332 Sum_probs=68.8
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
.-.+.|||.|||..++.+++.++|.+||.|..+++-...+ .+|-|||.|++..+|..|+..|+|+.+.++.+.|.+
T Consensus 16 evnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~---TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vly 91 (124)
T KOG0114|consen 16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE---TRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLY 91 (124)
T ss_pred hhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccC---cCceEEEEehHhhhHHHHHHHhcccccCCceEEEEe
Confidence 3467899999999999999999999999999999876543 468899999999999999999999999999998865
No 39
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.59 E-value=5.5e-15 Score=100.83 Aligned_cols=78 Identities=27% Similarity=0.584 Sum_probs=75.6
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccCC
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLST 104 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~~ 104 (105)
+.+||+|+|.++++++|..+|+..|.|..++++.|+.+|+.+||||++|.+.+++..|++.|||.++.|++++|..+.
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~ 96 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYAS 96 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccc
Confidence 789999999999999999999999999999999999999999999999999999999999999999999999998753
No 40
>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=99.59 E-value=1.8e-14 Score=100.26 Aligned_cols=76 Identities=18% Similarity=0.218 Sum_probs=69.3
Q ss_pred CCCceEEEcCCCC-CCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 24 NSRTKLFIGGLSY-DTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 24 ~~~~~l~v~~l~~-~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
....+|||+|||+ .+++++|+++|+.||.|.++.+..+. +|+|||+|.+.++|..|+..|||..+.|+.++|.+
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~ 347 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCP 347 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEE
Confidence 3567999999998 69999999999999999999988763 48999999999999999999999999999999987
Q ss_pred CC
Q 034058 103 ST 104 (105)
Q Consensus 103 ~~ 104 (105)
++
T Consensus 348 s~ 349 (481)
T TIGR01649 348 SK 349 (481)
T ss_pred cc
Confidence 64
No 41
>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=99.56 E-value=3.5e-14 Score=98.82 Aligned_cols=73 Identities=19% Similarity=0.167 Sum_probs=65.9
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHH--cCCceeeeeeeeeccC
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE--MDGLVCRTSKDTDMLS 103 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~--l~g~~~~~~~~~v~~~ 103 (105)
++.|||+|||+.+++++|+++|++||.|..+.++.+ +++|||+|++.++|+.|+.. +++..+.|+.+.|.++
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s 75 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYS 75 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEec
Confidence 578999999999999999999999999999988754 37999999999999999986 4788999999999875
Q ss_pred C
Q 034058 104 T 104 (105)
Q Consensus 104 ~ 104 (105)
.
T Consensus 76 ~ 76 (481)
T TIGR01649 76 T 76 (481)
T ss_pred C
Confidence 3
No 42
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.55 E-value=5.4e-14 Score=89.77 Aligned_cols=71 Identities=28% Similarity=0.508 Sum_probs=66.1
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeee
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTD 100 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v 100 (105)
.+.++||++|++..+++++|++.|++||+|..+++..++ ||+||.|++++.|..||..+|+.++.|...+.
T Consensus 162 p~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q------GYaFVrF~tkEaAahAIv~mNntei~G~~VkC 232 (321)
T KOG0148|consen 162 PDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ------GYAFVRFETKEAAAHAIVQMNNTEIGGQLVRC 232 (321)
T ss_pred CCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc------ceEEEEecchhhHHHHHHHhcCceeCceEEEE
Confidence 466899999999999999999999999999999998775 89999999999999999999999999987765
No 43
>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=99.54 E-value=6e-14 Score=98.83 Aligned_cols=72 Identities=28% Similarity=0.453 Sum_probs=65.9
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcC--CCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQH--GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~--g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
...+|||+||+.++++++|+++|++| |.|.++.++ ++||||+|.+.++|.+|++.|||..+.|+.++|.+
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~ 303 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI--------RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTL 303 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee--------cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence 35789999999999999999999999 999998764 35899999999999999999999999999999987
Q ss_pred CC
Q 034058 103 ST 104 (105)
Q Consensus 103 ~~ 104 (105)
++
T Consensus 304 Ak 305 (578)
T TIGR01648 304 AK 305 (578)
T ss_pred cc
Confidence 64
No 44
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.53 E-value=1.6e-14 Score=92.31 Aligned_cols=83 Identities=31% Similarity=0.454 Sum_probs=78.1
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 22 ~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
+..+.+.|||=-||.+..+.+|...|..||.|...++..|+.|..++||+||.|++..++++||..|||+.|+.++++|.
T Consensus 281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQ 360 (371)
T KOG0146|consen 281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQ 360 (371)
T ss_pred cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhh
Confidence 45678999999999999999999999999999999988899899999999999999999999999999999999999999
Q ss_pred cCC
Q 034058 102 LST 104 (105)
Q Consensus 102 ~~~ 104 (105)
+.+
T Consensus 361 LKR 363 (371)
T KOG0146|consen 361 LKR 363 (371)
T ss_pred hcC
Confidence 854
No 45
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.53 E-value=6.8e-14 Score=89.14 Aligned_cols=81 Identities=32% Similarity=0.531 Sum_probs=75.8
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
.+.+.|.|.=||..+++++++.+|...|+|..|++++|+.+|.+.||+||.|-++.+|++|+..|||..+..+.|+|.++
T Consensus 39 ~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyA 118 (360)
T KOG0145|consen 39 ESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYA 118 (360)
T ss_pred cccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEec
Confidence 34567888889999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred C
Q 034058 104 T 104 (105)
Q Consensus 104 ~ 104 (105)
+
T Consensus 119 R 119 (360)
T KOG0145|consen 119 R 119 (360)
T ss_pred c
Confidence 4
No 46
>smart00361 RRM_1 RNA recognition motif.
Probab=99.52 E-value=1.7e-13 Score=72.43 Aligned_cols=61 Identities=20% Similarity=0.371 Sum_probs=54.3
Q ss_pred HHHHHHHHh----cCCCeEEEE-EEecCCC--CCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeee
Q 034058 40 ETVLKDAFG----QHGEIIEVK-VICDRVT--GQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTD 100 (105)
Q Consensus 40 ~~~l~~~f~----~~g~v~~~~-~~~~~~~--g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v 100 (105)
+++|+++|+ .||.+.++. ++.+..+ +.++|++||.|.+.++|..|+..|||..+.|+.+++
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 567888898 999999985 6666656 889999999999999999999999999999999876
No 47
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.52 E-value=4.1e-14 Score=93.80 Aligned_cols=101 Identities=19% Similarity=0.312 Sum_probs=87.2
Q ss_pred CCcCCCceeccccccccccccCC-------------CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCe
Q 034058 1 MQWLNGSVRFSHSVRFTRLLSDA-------------NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQS 67 (105)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~ 67 (105)
++++||..+.++.+....+..-+ ..-++|||..+.++.++.||+..|..||+|..|.+.+.+..+.+
T Consensus 172 lEqMNg~mlGGRNiKVgrPsNmpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~H 251 (544)
T KOG0124|consen 172 LEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGH 251 (544)
T ss_pred HHHhccccccCccccccCCCCCcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCc
Confidence 35788888888776654444322 23479999999999999999999999999999999999978889
Q ss_pred eeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 68 RGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 68 ~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
+||+|++|.+..+...|+..||=+.++|..++|-
T Consensus 252 kGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVG 285 (544)
T KOG0124|consen 252 KGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVG 285 (544)
T ss_pred cceeeEEeccccchHHHhhhcchhhcccceEecc
Confidence 9999999999999999999999999999999874
No 48
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=1.7e-14 Score=95.61 Aligned_cols=77 Identities=23% Similarity=0.475 Sum_probs=74.2
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
-+++||+.+.+...++.|+..|..||+|+.+.+.+|+.|++++||+||+|+-.+.|+.|++.|||.-++|+.++|-.
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr 189 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 189 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999864
No 49
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=1.1e-13 Score=93.30 Aligned_cols=72 Identities=32% Similarity=0.398 Sum_probs=66.5
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccCC
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLST 104 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~~ 104 (105)
....|||.||+.++|++.|+++|..||.|.++.-++| ||||.|.++++|.+|++.+||+.|+|..|.|.+++
T Consensus 258 ~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAK 329 (506)
T KOG0117|consen 258 KVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAK 329 (506)
T ss_pred heeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceEEEEecC
Confidence 3478999999999999999999999999999876644 89999999999999999999999999999998875
No 50
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.50 E-value=3.9e-14 Score=91.15 Aligned_cols=70 Identities=31% Similarity=0.550 Sum_probs=65.9
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccCC
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLST 104 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~~ 104 (105)
..+||+|||...++.+|+.+|++||+|..|.++.+ ||||..++...++.||+.|+|+.|.|..|+|+-++
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSk 72 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASK 72 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecc
Confidence 36999999999999999999999999999999875 69999999999999999999999999999999765
No 51
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.50 E-value=3.4e-14 Score=91.43 Aligned_cols=95 Identities=27% Similarity=0.392 Sum_probs=82.3
Q ss_pred CcCCCceeccccccccccccCCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHH
Q 034058 2 QWLNGSVRFSHSVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAA 81 (105)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a 81 (105)
+.|++..+..-.+........+...++++|+|+.+.++.+++++.|.+||++..|.++++ |+||.|+-.++|
T Consensus 54 rNLhgYtLhg~nInVeaSksKsk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda 125 (346)
T KOG0109|consen 54 RNLHGYTLHGVNINVEASKSKSKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDA 125 (346)
T ss_pred hhcccceecceEEEEEeccccCCCccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccch
Confidence 456666666666665555555667889999999999999999999999999999999764 799999999999
Q ss_pred HHHHHHcCCceeeeeeeeeccCC
Q 034058 82 GEAIKEMDGLVCRTSKDTDMLST 104 (105)
Q Consensus 82 ~~a~~~l~g~~~~~~~~~v~~~~ 104 (105)
..|++.|++..+.|++++|++++
T Consensus 126 ~~air~l~~~~~~gk~m~vq~st 148 (346)
T KOG0109|consen 126 VEAIRGLDNTEFQGKRMHVQLST 148 (346)
T ss_pred HHHHhcccccccccceeeeeeec
Confidence 99999999999999999999875
No 52
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.49 E-value=1.5e-14 Score=87.58 Aligned_cols=100 Identities=28% Similarity=0.467 Sum_probs=83.4
Q ss_pred CCCceeccccccccccc---cCCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEE-EEEEecCCCCCeeeEEEEEeCCHH
Q 034058 4 LNGSVRFSHSVRFTRLL---SDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIE-VKVICDRVTGQSRGYGFVKFASEA 79 (105)
Q Consensus 4 ~~~~~~~~~~~~~~~~~---~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~-~~~~~~~~~g~~~g~~fv~f~~~~ 79 (105)
+|...++.++++..+.. .....+..+||+||.+.+++..|.+.|+.||++.. .++.++..+|.+++|+|+.|.+.+
T Consensus 71 ln~VkLYgrpIrv~kas~~~~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfe 150 (203)
T KOG0131|consen 71 LNMVKLYGRPIRVNKASAHQKNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFE 150 (203)
T ss_pred HHHHHhcCceeEEEecccccccccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHH
Confidence 44556666666654444 22335578999999999999999999999998855 478888888999999999999999
Q ss_pred HHHHHHHHcCCceeeeeeeeeccC
Q 034058 80 AAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 80 ~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
.+.+|+.+++|..+.++++.|.++
T Consensus 151 asd~ai~s~ngq~l~nr~itv~ya 174 (203)
T KOG0131|consen 151 ASDAAIGSMNGQYLCNRPITVSYA 174 (203)
T ss_pred HHHHHHHHhccchhcCCceEEEEE
Confidence 999999999999999999999864
No 53
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.49 E-value=4.2e-14 Score=97.09 Aligned_cols=76 Identities=26% Similarity=0.568 Sum_probs=72.3
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
..|||+||.+++++++++.+|.+||.|..+.+..+.++|.++||+||+|.+.++|..|+..|||..+.|+.++|-.
T Consensus 279 ~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~ 354 (549)
T KOG0147|consen 279 RRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSV 354 (549)
T ss_pred hhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEE
Confidence 3499999999999999999999999999999999988999999999999999999999999999999999999754
No 54
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.49 E-value=9.8e-14 Score=95.61 Aligned_cols=79 Identities=23% Similarity=0.364 Sum_probs=75.2
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccCC
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLST 104 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~~ 104 (105)
..+|||++||++++.++|.++|+.+|+|..+.++.+..++..+||+||.|...++++.|+...++..+.|+.++|.+++
T Consensus 5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~ 83 (678)
T KOG0127|consen 5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAK 83 (678)
T ss_pred CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceeccccccc
Confidence 3799999999999999999999999999999999999888999999999999999999999999999999999998754
No 55
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.48 E-value=1.2e-13 Score=91.24 Aligned_cols=80 Identities=28% Similarity=0.409 Sum_probs=76.7
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
++.+.|||-.|.+-++.++|.-+|+.||.|..|.++++..||.+..||||+|++.++++.|.-+|++..|+.++|.|.++
T Consensus 237 PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFS 316 (479)
T KOG0415|consen 237 PPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFS 316 (479)
T ss_pred CCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehh
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999999875
No 56
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.46 E-value=3e-13 Score=90.98 Aligned_cols=74 Identities=32% Similarity=0.536 Sum_probs=67.1
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCc-eeeeee
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGL-VCRTSK 97 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~-~~~~~~ 97 (105)
.+.-++||+.+|..++|.+|+++|++||.|..|-+++|+.++.++|||||.|.+.++|.+|+..|++. .+.|..
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~ 106 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMH 106 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCC
Confidence 34568999999999999999999999999999999999999999999999999999999999999875 455544
No 57
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.45 E-value=9.2e-14 Score=93.40 Aligned_cols=77 Identities=31% Similarity=0.484 Sum_probs=68.0
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCce-eeeee--eeec
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLV-CRTSK--DTDM 101 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~-~~~~~--~~v~ 101 (105)
..++|||+.|+..++|.+++++|++||.|++|.+.++. .+.++||+||.|..++.|..||+.|||.. +.|+. +.|.
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVk 201 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVK 201 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEE
Confidence 36799999999999999999999999999999999997 78999999999999999999999999974 44443 4444
Q ss_pred c
Q 034058 102 L 102 (105)
Q Consensus 102 ~ 102 (105)
+
T Consensus 202 F 202 (510)
T KOG0144|consen 202 F 202 (510)
T ss_pred e
Confidence 3
No 58
>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=99.44 E-value=6.8e-13 Score=67.10 Aligned_cols=56 Identities=29% Similarity=0.485 Sum_probs=49.1
Q ss_pred HHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 43 LKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 43 l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
|.++|++||.|..+.+..+. .+++||+|.+.++|..|++.|||..+.|+.++|.+|
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 57899999999999886543 478999999999999999999999999999999764
No 59
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.43 E-value=6.2e-13 Score=89.89 Aligned_cols=77 Identities=22% Similarity=0.352 Sum_probs=71.8
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHh-cCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFG-QHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~-~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
..+.+||+|+|.++.+++|++++. +-|.|..|++..|. +|++++|+.|+|++++.+++|++.||.+.+.|+.+.|.=
T Consensus 43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKE 120 (608)
T KOG4212|consen 43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKE 120 (608)
T ss_pred ccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEec
Confidence 456799999999999999999996 68999999999997 899999999999999999999999999999999999864
No 60
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.43 E-value=9.3e-13 Score=81.14 Aligned_cols=80 Identities=23% Similarity=0.335 Sum_probs=72.2
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHHHhcC-CCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeee
Q 034058 22 DANSRTKLFIGGLSYDTNETVLKDAFGQH-GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTD 100 (105)
Q Consensus 22 ~~~~~~~l~v~~l~~~~~~~~l~~~f~~~-g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v 100 (105)
+.....-+|+..+|....+.++...|.+| |.+.+.++.++..||.++|||||+|++.+.|+-|.+.||++.+.++-+.+
T Consensus 45 ~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c 124 (214)
T KOG4208|consen 45 EQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLEC 124 (214)
T ss_pred ccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeee
Confidence 34456789999999999999999999887 78888899999999999999999999999999999999999999988776
Q ss_pred c
Q 034058 101 M 101 (105)
Q Consensus 101 ~ 101 (105)
.
T Consensus 125 ~ 125 (214)
T KOG4208|consen 125 H 125 (214)
T ss_pred E
Confidence 5
No 61
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.42 E-value=9.9e-13 Score=88.80 Aligned_cols=94 Identities=32% Similarity=0.478 Sum_probs=76.9
Q ss_pred cCCCceeccccccccccccCCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHH
Q 034058 3 WLNGSVRFSHSVRFTRLLSDANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAG 82 (105)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~ 82 (105)
.+|...+..+.++..+...++ ..+||.||+++++..+|.++|+.||.|..|++..+. +| ++|| ||.|++.+.|.
T Consensus 56 ~~n~~~~~~~~~rim~s~rd~---~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~ 129 (369)
T KOG0123|consen 56 TMNFDVLKGKPIRIMWSQRDP---SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAK 129 (369)
T ss_pred HcCCcccCCcEEEeehhccCC---ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHH
Confidence 345555555555544433332 239999999999999999999999999999999987 55 8899 99999999999
Q ss_pred HHHHHcCCceeeeeeeeecc
Q 034058 83 EAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 83 ~a~~~l~g~~~~~~~~~v~~ 102 (105)
.|+..+||..+.++.+-|-+
T Consensus 130 ~ai~~~ng~ll~~kki~vg~ 149 (369)
T KOG0123|consen 130 KAIEKLNGMLLNGKKIYVGL 149 (369)
T ss_pred HHHHHhcCcccCCCeeEEee
Confidence 99999999999999887643
No 62
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.41 E-value=1e-12 Score=90.71 Aligned_cols=77 Identities=21% Similarity=0.400 Sum_probs=71.2
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
..+|.|.|||+.+...+|+.+|+.||.|..+.++... .|+..|||||+|....+|..|+..+||..|.|+.+.|..+
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~-dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWA 193 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKK-DGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWA 193 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCC-CCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeee
Confidence 5689999999999999999999999999999999776 6777799999999999999999999999999999988643
No 63
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.37 E-value=6.9e-12 Score=87.68 Aligned_cols=71 Identities=17% Similarity=0.357 Sum_probs=58.8
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcC------------CCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCc
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQH------------GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGL 91 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~------------g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~ 91 (105)
...++|||+|||+.+++++|.++|..+ +.|..+.+ +..++||||+|.+.++|..|+ .|+|.
T Consensus 173 ~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~~~kg~afVeF~~~e~A~~Al-~l~g~ 245 (509)
T TIGR01642 173 RQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------NKEKNFAFLEFRTVEEATFAM-ALDSI 245 (509)
T ss_pred ccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------CCCCCEEEEEeCCHHHHhhhh-cCCCe
Confidence 456799999999999999999999875 23333333 234689999999999999999 69999
Q ss_pred eeeeeeeeec
Q 034058 92 VCRTSKDTDM 101 (105)
Q Consensus 92 ~~~~~~~~v~ 101 (105)
.+.|..+++.
T Consensus 246 ~~~g~~l~v~ 255 (509)
T TIGR01642 246 IYSNVFLKIR 255 (509)
T ss_pred EeeCceeEec
Confidence 9999998875
No 64
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.26 E-value=2.5e-11 Score=82.03 Aligned_cols=71 Identities=32% Similarity=0.481 Sum_probs=67.0
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
..|||+ +.+++..|.++|++.|++..+++.++. + +.|||||.|.+..+|++|+..+|...+.|+.+++|.+
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s 72 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWS 72 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehh
Confidence 368998 899999999999999999999999998 6 8999999999999999999999999999999999875
No 65
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.24 E-value=3.3e-11 Score=84.10 Aligned_cols=81 Identities=25% Similarity=0.370 Sum_probs=74.9
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
...+.+||++|...+...+|+.+|++||.|.-..++.+..+...+||+||++.+..+|.++|..|+-..+.|+-|.|+-+
T Consensus 403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEka 482 (940)
T KOG4661|consen 403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKA 482 (940)
T ss_pred ccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeec
Confidence 34578999999999999999999999999999999999888889999999999999999999999999999999998865
Q ss_pred C
Q 034058 104 T 104 (105)
Q Consensus 104 ~ 104 (105)
+
T Consensus 483 K 483 (940)
T KOG4661|consen 483 K 483 (940)
T ss_pred c
Confidence 4
No 66
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.23 E-value=6.4e-11 Score=73.98 Aligned_cols=77 Identities=25% Similarity=0.388 Sum_probs=68.4
Q ss_pred CCceEEEcCCCCCCCHHHHHH----HHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeee
Q 034058 25 SRTKLFIGGLSYDTNETVLKD----AFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTD 100 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~----~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v 100 (105)
+..+|||.||+..+..++|+. +|++||.+..+.... +.+.+|=|||.|.+.+.|-.|++.|+|+.+-|+.+++
T Consensus 8 pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mri 84 (221)
T KOG4206|consen 8 PNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRI 84 (221)
T ss_pred CCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhhe
Confidence 344999999999999998877 999999998886643 6778899999999999999999999999999999999
Q ss_pred ccCC
Q 034058 101 MLST 104 (105)
Q Consensus 101 ~~~~ 104 (105)
+++.
T Consensus 85 qyA~ 88 (221)
T KOG4206|consen 85 QYAK 88 (221)
T ss_pred eccc
Confidence 8764
No 67
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.23 E-value=1.2e-11 Score=87.28 Aligned_cols=78 Identities=18% Similarity=0.344 Sum_probs=72.0
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
.+.|.|.|+|+..+-.+++.+|..||++..++++.....+.++|||||+|-++.+|..|+..|.+..+-|+++..+-+
T Consensus 613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA 690 (725)
T KOG0110|consen 613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWA 690 (725)
T ss_pred cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehh
Confidence 578999999999999999999999999999999887556778999999999999999999999999999999987754
No 68
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.22 E-value=6.5e-11 Score=75.59 Aligned_cols=78 Identities=28% Similarity=0.397 Sum_probs=71.7
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
.....|+|.|||..+.+++|+++|..||.+..+.+.+++ +|.+.|.|-|.|....+|..|++.++|..++|+.+++.+
T Consensus 81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~ 158 (243)
T KOG0533|consen 81 TRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEI 158 (243)
T ss_pred CCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEE
Confidence 345789999999999999999999999988888888887 899999999999999999999999999999999988765
No 69
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.21 E-value=3.2e-11 Score=77.38 Aligned_cols=69 Identities=35% Similarity=0.538 Sum_probs=64.2
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCce
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLV 92 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~ 92 (105)
..++++|||+-|...-.|++++.+|..||.+..|.+.+.. .|.++||+||.|.+..+|+.||..|+|..
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 3468899999999999999999999999999999998887 78899999999999999999999999974
No 70
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.19 E-value=5.6e-11 Score=80.61 Aligned_cols=74 Identities=23% Similarity=0.365 Sum_probs=66.8
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
...++|+|.|||.++|++.|++-|..||.|.+..+. ++|++++ .|.|.++++|+.|++.|+|..++|+.|+|.+
T Consensus 534 rKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadim---e~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y 607 (608)
T KOG4212|consen 534 RKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIM---ENGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTY 607 (608)
T ss_pred ccccEEEEecCCccccHHHHHHHHHhccceehhhhh---ccCCccc--eEEecCHHHHHHHHHHhccCcccCceeeeee
Confidence 456789999999999999999999999999998883 3577765 8999999999999999999999999999976
No 71
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.17 E-value=1.8e-10 Score=75.96 Aligned_cols=75 Identities=29% Similarity=0.449 Sum_probs=64.1
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHH-HcCCceeeeeeeee
Q 034058 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK-EMDGLVCRTSKDTD 100 (105)
Q Consensus 22 ~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~-~l~g~~~~~~~~~v 100 (105)
+.....+|||++|...+++.+|+++|-+||++..+.+.... ++|||+|.+.+.|+.|.. .++-..|+|.++.+
T Consensus 224 eD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i 297 (377)
T KOG0153|consen 224 EDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVINGFRLKI 297 (377)
T ss_pred cccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHhhcceeeecceEEEE
Confidence 34566899999999999999999999999999999887654 589999999999999885 56666788988887
Q ss_pred cc
Q 034058 101 ML 102 (105)
Q Consensus 101 ~~ 102 (105)
.-
T Consensus 298 ~W 299 (377)
T KOG0153|consen 298 KW 299 (377)
T ss_pred Ee
Confidence 53
No 72
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.16 E-value=1.5e-10 Score=81.95 Aligned_cols=78 Identities=32% Similarity=0.506 Sum_probs=68.4
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCC---CCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVT---GQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~---g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
+++|+.||++..+.+++...|...|.|..+.+...+.. ..+.|||||+|.+.++|+.|++.|+|..++|+.+.+.++
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S 595 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKIS 595 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEec
Confidence 34999999999999999999999999999887765421 125599999999999999999999999999999999876
Q ss_pred C
Q 034058 104 T 104 (105)
Q Consensus 104 ~ 104 (105)
.
T Consensus 596 ~ 596 (725)
T KOG0110|consen 596 E 596 (725)
T ss_pred c
Confidence 4
No 73
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=99.16 E-value=2.2e-10 Score=75.53 Aligned_cols=79 Identities=22% Similarity=0.302 Sum_probs=70.4
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeE--------EEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeee
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEII--------EVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRT 95 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~--------~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~ 95 (105)
.....|||+|||.++|.+++.++|++||.|. .|.+..+. .|..+|-|++.|-..+++..|+..|++..+.|
T Consensus 132 ~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg 210 (382)
T KOG1548|consen 132 KVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDELRG 210 (382)
T ss_pred ccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcccccC
Confidence 3456799999999999999999999999663 36777776 69999999999999999999999999999999
Q ss_pred eeeeeccC
Q 034058 96 SKDTDMLS 103 (105)
Q Consensus 96 ~~~~v~~~ 103 (105)
+.++|+.+
T Consensus 211 ~~~rVerA 218 (382)
T KOG1548|consen 211 KKLRVERA 218 (382)
T ss_pred cEEEEehh
Confidence 99999865
No 74
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.13 E-value=2e-10 Score=82.16 Aligned_cols=72 Identities=22% Similarity=0.405 Sum_probs=65.5
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
-+++|||++|+.++++.+|..+|+.||+|.++.+... ++||||.+....+|++|+.+|+...+..+.+++.-
T Consensus 420 ~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~W 491 (894)
T KOG0132|consen 420 CSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAW 491 (894)
T ss_pred eeeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhcccccceeeEEee
Confidence 4589999999999999999999999999999987654 48999999999999999999999999999887753
No 75
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.10 E-value=1.1e-09 Score=68.76 Aligned_cols=82 Identities=17% Similarity=0.193 Sum_probs=65.0
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCC-CeeeEEEEEeCCHHHHHHHHHHcCCceee---eeee
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTG-QSRGYGFVKFASEAAAGEAIKEMDGLVCR---TSKD 98 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g-~~~g~~fv~f~~~~~a~~a~~~l~g~~~~---~~~~ 98 (105)
....++|||++||.++...+|..+|+.|-....+.+......+ ..+.+||++|.+..+|.+|+..|||..++ +..+
T Consensus 31 ~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stL 110 (284)
T KOG1457|consen 31 PGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTL 110 (284)
T ss_pred ccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCcee
Confidence 4457899999999999999999999998777666655433222 23478999999999999999999999886 4456
Q ss_pred eeccCC
Q 034058 99 TDMLST 104 (105)
Q Consensus 99 ~v~~~~ 104 (105)
+.++++
T Consensus 111 hiElAK 116 (284)
T KOG1457|consen 111 HIELAK 116 (284)
T ss_pred Eeeehh
Confidence 666654
No 76
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.10 E-value=1.3e-10 Score=76.73 Aligned_cols=61 Identities=44% Similarity=0.800 Sum_probs=58.1
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHH
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~ 85 (105)
+..++||++|++.++++.|+..|.+||.+..|.+.+++.++.+++|+||+|++.+...+++
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl 65 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVL 65 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheee
Confidence 6789999999999999999999999999999999999999999999999999988888887
No 77
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=99.08 E-value=1.5e-10 Score=73.67 Aligned_cols=80 Identities=34% Similarity=0.502 Sum_probs=73.4
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
..+.+||.+.|..+++.+.|...|.+|-......++++..+|+++||+||.|.+..++..|+..|+|..++.+.|+..-+
T Consensus 188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS 267 (290)
T KOG0226|consen 188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKS 267 (290)
T ss_pred cccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhh
Confidence 46789999999999999999999999987777888999999999999999999999999999999999999998876544
No 78
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.04 E-value=2.5e-10 Score=71.63 Aligned_cols=69 Identities=25% Similarity=0.466 Sum_probs=63.1
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccCC
Q 034058 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLST 104 (105)
Q Consensus 28 ~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~~ 104 (105)
.+||++||+.+.+.++..+|..||.+.++.+. .+|+||+|++..+|..|+..+++..+.+.++.|+.++
T Consensus 3 rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r 71 (216)
T KOG0106|consen 3 RVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHAR 71 (216)
T ss_pred ceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCceecceeeeeeccc
Confidence 68999999999999999999999999888764 2688999999999999999999999999998888765
No 79
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.03 E-value=3e-10 Score=78.58 Aligned_cols=72 Identities=24% Similarity=0.298 Sum_probs=64.1
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeee
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDT 99 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~ 99 (105)
....++|+|-|||..+++++|..+|+.||+|+.++.... .++..||+|.+..+|++|++.|++..+.|++++
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~-----~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPN-----KRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccc-----cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 456789999999999999999999999999988665333 457899999999999999999999999998876
No 80
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.01 E-value=1.7e-09 Score=73.94 Aligned_cols=77 Identities=26% Similarity=0.320 Sum_probs=63.0
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
...+|||.|||.+++..+|+++|..||.|....+......++..+||||+|.+...++.|+.+- -..++++++.|+-
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig~~kl~Vee 363 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-PLEIGGRKLNVEE 363 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-ccccCCeeEEEEe
Confidence 3456999999999999999999999999988876554334555599999999999999999654 5567788887764
No 81
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=99.00 E-value=7.3e-10 Score=70.70 Aligned_cols=80 Identities=24% Similarity=0.362 Sum_probs=73.2
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
......+||+|+...++..++...|..||.+..+.++.+.-++.+++|+||+|.+.+.++.++. |+|..+.++.+.|..
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~ 176 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTL 176 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeee
Confidence 3466789999999999999999999999999999999998777899999999999999999997 999999999998875
Q ss_pred C
Q 034058 103 S 103 (105)
Q Consensus 103 ~ 103 (105)
.
T Consensus 177 ~ 177 (231)
T KOG4209|consen 177 K 177 (231)
T ss_pred e
Confidence 3
No 82
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.00 E-value=1.4e-09 Score=71.99 Aligned_cols=60 Identities=40% Similarity=0.749 Sum_probs=57.1
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHH
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~ 85 (105)
...+||++||..+++.++++.|.+||.|..+.++.+..+...++|+||.|.+.+++..++
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~ 156 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVT 156 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceec
Confidence 558999999999999999999999999999999999999999999999999999999987
No 83
>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=98.96 E-value=1.2e-08 Score=56.81 Aligned_cols=68 Identities=22% Similarity=0.255 Sum_probs=61.5
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhc--CCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceee
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQ--HGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCR 94 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~--~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~ 94 (105)
++|.|.|+|...+.++|.+++.. .|....+.++.|..++...|||||.|.+...+....+.++|..+.
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~ 71 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWP 71 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccc
Confidence 58999999999999999988854 467788889999988999999999999999999999999999876
No 84
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.95 E-value=4.1e-10 Score=70.41 Aligned_cols=79 Identities=18% Similarity=0.278 Sum_probs=70.4
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
...+++|||+|+...++++-|.++|-+-|+|.++.++..+ .+..+ |+||.|+++.+...|++-+||..+.+..+++.+
T Consensus 6 ae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~ 83 (267)
T KOG4454|consen 6 AEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTL 83 (267)
T ss_pred cchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhhccc
Confidence 3457899999999999999999999999999999887765 55565 999999999999999999999999999888775
Q ss_pred C
Q 034058 103 S 103 (105)
Q Consensus 103 ~ 103 (105)
-
T Consensus 84 r 84 (267)
T KOG4454|consen 84 R 84 (267)
T ss_pred c
Confidence 3
No 85
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.84 E-value=2.2e-08 Score=68.81 Aligned_cols=78 Identities=21% Similarity=0.348 Sum_probs=62.4
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 22 ~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
+......|-+.+|||++|+++|.+||+.++ |..+.+ .+.+|+..|-|||+|.+.++++.|+ +.+-..+..+.|.|.
T Consensus 6 e~~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~--~r~~Gr~sGeA~Ve~~seedv~~Al-kkdR~~mg~RYIEVf 81 (510)
T KOG4211|consen 6 EGSTAFEVRLRGLPWSATEKEILDFFSNCG-IENLEI--PRRNGRPSGEAYVEFTSEEDVEKAL-KKDRESMGHRYIEVF 81 (510)
T ss_pred CCCcceEEEecCCCccccHHHHHHHHhcCc-eeEEEE--eccCCCcCcceEEEeechHHHHHHH-HhhHHHhCCceEEEE
Confidence 344566788899999999999999999985 566444 4457999999999999999999999 446666677777776
Q ss_pred cC
Q 034058 102 LS 103 (105)
Q Consensus 102 ~~ 103 (105)
.+
T Consensus 82 ~~ 83 (510)
T KOG4211|consen 82 TA 83 (510)
T ss_pred cc
Confidence 54
No 86
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.73 E-value=1.5e-08 Score=70.50 Aligned_cols=81 Identities=23% Similarity=0.477 Sum_probs=75.1
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
......+||++||...++.++.+++..||++....++.+..+|.+++|+|.+|.+......|+..|||..+.++.+.|..
T Consensus 286 ~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~ 365 (500)
T KOG0120|consen 286 PDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQR 365 (500)
T ss_pred ccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeeh
Confidence 34567899999999999999999999999999999999988899999999999999999999999999999999998875
Q ss_pred C
Q 034058 103 S 103 (105)
Q Consensus 103 ~ 103 (105)
+
T Consensus 366 A 366 (500)
T KOG0120|consen 366 A 366 (500)
T ss_pred h
Confidence 4
No 87
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.68 E-value=7.9e-08 Score=68.78 Aligned_cols=76 Identities=30% Similarity=0.538 Sum_probs=64.9
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecC---CCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeee
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDR---VTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTD 100 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~---~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v 100 (105)
..+.+|++||++.++++.|...|..||++..+++...+ +....+-|+||.|-+..++++|+..|+|..+.+..++.
T Consensus 173 ~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~ 251 (877)
T KOG0151|consen 173 QTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKL 251 (877)
T ss_pred cccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeee
Confidence 45789999999999999999999999999888876543 22334568999999999999999999999988877664
No 88
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.62 E-value=3.3e-07 Score=62.11 Aligned_cols=74 Identities=20% Similarity=0.309 Sum_probs=65.8
Q ss_pred CceEEEcCCCC-CCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccCC
Q 034058 26 RTKLFIGGLSY-DTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLST 104 (105)
Q Consensus 26 ~~~l~v~~l~~-~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~~ 104 (105)
...|.|+||.. .+|.+.|..+|.-||.|.++.+..++. --|+|.+.+...|+.|+..|+|..+-|+.++|.+++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 46788888865 589999999999999999999988763 358999999999999999999999999999999876
No 89
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.57 E-value=1e-07 Score=60.06 Aligned_cols=65 Identities=22% Similarity=0.308 Sum_probs=54.1
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceee
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCR 94 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~ 94 (105)
..+|||.||.+++++++|+.+|+.|.....+++... +| .+.+|++|++.+.|..|+..|+|..+.
T Consensus 210 cstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~--~g--~~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR--GG--MPVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred hhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC--CC--cceEeecHHHHHHHHHHHHHhhcceec
Confidence 358999999999999999999999976666555322 23 367999999999999999999998764
No 90
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.53 E-value=4e-07 Score=62.80 Aligned_cols=76 Identities=17% Similarity=0.216 Sum_probs=59.8
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEE-EEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIE-VKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~-~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
....|-+.+||+.|++++|.+||+..-.+.. +.++.++ .+++.+-|||.|++.+.|+.|+.. |-..|..+.|.|..
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~ 178 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVFR 178 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEeeh
Confidence 5678999999999999999999998765544 4566665 677889999999999999999954 33445555565543
No 91
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.50 E-value=4.9e-08 Score=67.83 Aligned_cols=79 Identities=24% Similarity=0.336 Sum_probs=72.7
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
...+++|+--++...++.+|.++|+.+|.|..+.++.++.++.++|.+||+|.+..++..|+ .|.|..+.|..+.|+.+
T Consensus 177 Rd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq~s 255 (549)
T KOG0147|consen 177 RDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQLS 255 (549)
T ss_pred HhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCcccCceeEeccc
Confidence 35578888888888999999999999999999999999999999999999999999999999 99999999999988764
No 92
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.49 E-value=2.8e-07 Score=61.34 Aligned_cols=81 Identities=25% Similarity=0.266 Sum_probs=71.2
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeE--------EEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceee
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEII--------EVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCR 94 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~--------~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~ 94 (105)
.....++||.+||..++++++.++|.++|.|. .+.+.++.+|++.++-|.|.|.+...|++|+..+++..+.
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~ 142 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC 142 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence 34556899999999999999999999999763 2566778889999999999999999999999999999999
Q ss_pred eeeeeeccC
Q 034058 95 TSKDTDMLS 103 (105)
Q Consensus 95 ~~~~~v~~~ 103 (105)
+..++|.++
T Consensus 143 gn~ikvs~a 151 (351)
T KOG1995|consen 143 GNTIKVSLA 151 (351)
T ss_pred CCCchhhhh
Confidence 988887764
No 93
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.48 E-value=1.9e-06 Score=53.02 Aligned_cols=66 Identities=23% Similarity=0.355 Sum_probs=58.3
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeee
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRT 95 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~ 95 (105)
.-+..+|.|++||++.++++|++....-|.++...+.++ +++.|+|...++.+.|+..|+...+..
T Consensus 112 rrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~s 177 (241)
T KOG0105|consen 112 RRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFRS 177 (241)
T ss_pred cccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhccccccC
Confidence 346789999999999999999999999999999988776 378999999999999999998876543
No 94
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=98.47 E-value=1e-07 Score=60.93 Aligned_cols=74 Identities=16% Similarity=0.234 Sum_probs=62.2
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCC--------CCe----eeEEEEEeCCHHHHHHHHHHcCCce
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVT--------GQS----RGYGFVKFASEAAAGEAIKEMDGLV 92 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~--------g~~----~g~~fv~f~~~~~a~~a~~~l~g~~ 92 (105)
....||++++|+.+...-|+++|+.||.|-++.+-....+ |.. ..-|.|+|.+...|..+...||+..
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 4578999999999999999999999999999988655433 222 2237899999999999999999999
Q ss_pred eeeeee
Q 034058 93 CRTSKD 98 (105)
Q Consensus 93 ~~~~~~ 98 (105)
|+|+.-
T Consensus 153 Iggkk~ 158 (278)
T KOG3152|consen 153 IGGKKK 158 (278)
T ss_pred cCCCCC
Confidence 998864
No 95
>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=98.45 E-value=1.8e-06 Score=46.60 Aligned_cols=67 Identities=21% Similarity=0.346 Sum_probs=45.2
Q ss_pred ceEEEcCCCCCCCHHHHH----HHHhcCC-CeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 27 TKLFIGGLSYDTNETVLK----DAFGQHG-EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~----~~f~~~g-~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
..|||.|||.+.....++ .++.-|| .|..+ + .+.|++.|.+.+.|.+|.+.|+|..+-|.+|.|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v-------~---~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~ 72 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV-------S---GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE-------e---CCEEEEEeCCHHHHHHHHHhhcccccccceEEEE
Confidence 468999999998887654 4455665 45443 1 1469999999999999999999999999999987
Q ss_pred cC
Q 034058 102 LS 103 (105)
Q Consensus 102 ~~ 103 (105)
..
T Consensus 73 ~~ 74 (90)
T PF11608_consen 73 FS 74 (90)
T ss_dssp SS
T ss_pred Ec
Confidence 65
No 96
>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=98.40 E-value=1.2e-06 Score=49.65 Aligned_cols=58 Identities=29% Similarity=0.434 Sum_probs=37.3
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCC
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDG 90 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g 90 (105)
..|.+.+++..++.++|++.|+.||.|..+.+.... ..|+|.|.+.+.|+.|+..+..
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~~~ 59 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKLKE 59 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHH
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHHHh
Confidence 468888999999999999999999999998886533 3589999999999999876543
No 97
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=98.34 E-value=3.6e-06 Score=59.29 Aligned_cols=80 Identities=23% Similarity=0.339 Sum_probs=63.0
Q ss_pred ccCCCCCceEEEcCCCCCCCH------HHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCcee
Q 034058 20 LSDANSRTKLFIGGLSYDTNE------TVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVC 93 (105)
Q Consensus 20 ~~~~~~~~~l~v~~l~~~~~~------~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~ 93 (105)
..++..+..|.|.|+|---.. ..|.++|+++|++....++.+.. |+.+||.|++|.+..+|+.|++.|||+.+
T Consensus 52 ~~~eg~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~-ggtkG~lf~E~~~~~~A~~aVK~l~G~~l 130 (698)
T KOG2314|consen 52 VTAEGFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE-GGTKGYLFVEYASMRDAKKAVKSLNGKRL 130 (698)
T ss_pred CccCCcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc-CCeeeEEEEEecChhhHHHHHHhccccee
Confidence 334456778999999864322 24677899999999999998874 45999999999999999999999999988
Q ss_pred e-eeeeee
Q 034058 94 R-TSKDTD 100 (105)
Q Consensus 94 ~-~~~~~v 100 (105)
+ ++...|
T Consensus 131 dknHtf~v 138 (698)
T KOG2314|consen 131 DKNHTFFV 138 (698)
T ss_pred cccceEEe
Confidence 5 444443
No 98
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.31 E-value=8.8e-07 Score=59.21 Aligned_cols=77 Identities=22% Similarity=0.389 Sum_probs=66.9
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCC--CeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHG--EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g--~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
....+||+||-|++|.++|.+.+...| ++.++++..++.+|.++|||++...+....+..++.|.-+.|.|..-.|.
T Consensus 79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~ 157 (498)
T KOG4849|consen 79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVL 157 (498)
T ss_pred ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeee
Confidence 445799999999999999998887766 66777888888899999999999999999999999999988888776654
No 99
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.23 E-value=1.3e-05 Score=50.53 Aligned_cols=77 Identities=23% Similarity=0.389 Sum_probs=65.3
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceee-eeeeeec
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCR-TSKDTDM 101 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~-~~~~~v~ 101 (105)
..+...+++.|+|...+.+.+..+|.+|.....++++... .+.+||+|.+...+..|...+.|..+. ...+++.
T Consensus 143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~ 217 (221)
T KOG4206|consen 143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQIT 217 (221)
T ss_pred CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceeccCceEEec
Confidence 4567799999999999999999999999988998887654 367999999999999999999999886 6666666
Q ss_pred cCC
Q 034058 102 LST 104 (105)
Q Consensus 102 ~~~ 104 (105)
.++
T Consensus 218 ~a~ 220 (221)
T KOG4206|consen 218 FAK 220 (221)
T ss_pred ccC
Confidence 554
No 100
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.17 E-value=8.6e-06 Score=58.75 Aligned_cols=75 Identities=17% Similarity=0.211 Sum_probs=64.1
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCe-EEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEI-IEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v-~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
+.|-+.|+|+.++-+|+.+||..|-.. .++.+.++. .|+..|-|.|.|++.++|.+|...|++..|.++.+.+.+
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd-~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRND-DGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeecC-CCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 478889999999999999999999755 444444443 789999999999999999999999999999998887654
No 101
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=98.17 E-value=4.1e-06 Score=56.66 Aligned_cols=80 Identities=16% Similarity=0.276 Sum_probs=66.8
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCC-CeEE--EEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeee
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHG-EIIE--VKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDT 99 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g-~v~~--~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~ 99 (105)
..+...|.+++||...+.++|..+|..|. .+.. +.++.+. .|.+.|-|||+|.+.+.|.+|..+.+....+.+.+.
T Consensus 277 ~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiE 355 (508)
T KOG1365|consen 277 TRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIE 355 (508)
T ss_pred CCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEE
Confidence 34466799999999999999999999886 3444 6777775 788899999999999999999999888887888888
Q ss_pred eccC
Q 034058 100 DMLS 103 (105)
Q Consensus 100 v~~~ 103 (105)
|...
T Consensus 356 vfp~ 359 (508)
T KOG1365|consen 356 VFPC 359 (508)
T ss_pred Eeec
Confidence 7653
No 102
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.14 E-value=9.2e-06 Score=54.26 Aligned_cols=77 Identities=17% Similarity=0.303 Sum_probs=59.0
Q ss_pred CceEEEcCCCCCCCHHH----H--HHHHhcCCCeEEEEEEecCCC--CCeeeE-EEEEeCCHHHHHHHHHHcCCceeeee
Q 034058 26 RTKLFIGGLSYDTNETV----L--KDAFGQHGEIIEVKVICDRVT--GQSRGY-GFVKFASEAAAGEAIKEMDGLVCRTS 96 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~----l--~~~f~~~g~v~~~~~~~~~~~--g~~~g~-~fv~f~~~~~a~~a~~~l~g~~~~~~ 96 (105)
.+-+||-+||+.+..++ | .++|.+||.|..+.+.+...+ .....+ .||+|.+.++|.++|...+|..++|+
T Consensus 114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr 193 (480)
T COG5175 114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGR 193 (480)
T ss_pred cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCc
Confidence 36789999998876655 3 468999999999877543211 111112 39999999999999999999999999
Q ss_pred eeeecc
Q 034058 97 KDTDML 102 (105)
Q Consensus 97 ~~~v~~ 102 (105)
-++..+
T Consensus 194 ~lkatY 199 (480)
T COG5175 194 VLKATY 199 (480)
T ss_pred eEeeec
Confidence 998764
No 103
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.03 E-value=3.7e-06 Score=53.13 Aligned_cols=71 Identities=25% Similarity=0.388 Sum_probs=61.1
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
...+.+.+.+++..+.+++|.+.|..+|++..... ..+++||.|...+++..|+..|+|..+.++.+.++.
T Consensus 97 ~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~ 167 (216)
T KOG0106|consen 97 RTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEK 167 (216)
T ss_pred cccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccchhhcCceeeecc
Confidence 45678899999999999999999999999833322 235799999999999999999999999999998754
No 104
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.97 E-value=5.8e-06 Score=54.53 Aligned_cols=77 Identities=22% Similarity=0.385 Sum_probs=66.5
Q ss_pred CCceEE-EcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 25 SRTKLF-IGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 25 ~~~~l~-v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
...++| +++++..+++++|+..|..+|.+..++++.+..++...|++++.|.+......++.. +...+.+..+.+.-
T Consensus 183 ~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 260 (285)
T KOG4210|consen 183 PSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEE 260 (285)
T ss_pred ccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCccccccc
Confidence 344555 999999999999999999999999999999999999999999999999999998866 77777777666543
No 105
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.93 E-value=4.7e-05 Score=37.88 Aligned_cols=52 Identities=27% Similarity=0.454 Sum_probs=40.5
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHH
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~ 85 (105)
+.|-|.|.++...+.. ...|..||+|.+..+... ..+.++.|.+..+|+.|+
T Consensus 2 ~wI~V~Gf~~~~~~~v-l~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEEV-LEHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHHHH-HHHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 4677888887766554 558889999999887522 247899999999999884
No 106
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.87 E-value=6.9e-05 Score=52.35 Aligned_cols=65 Identities=26% Similarity=0.499 Sum_probs=48.5
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecC---CCCCeee---EEEEEeCCHHHHHHHHHHc
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDR---VTGQSRG---YGFVKFASEAAAGEAIKEM 88 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~---~~g~~~g---~~fv~f~~~~~a~~a~~~l 88 (105)
....+.||||+||++++|++|...|..||.+. +.++... ....++| |.|+.|+++.+...-+..+
T Consensus 256 ~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129|consen 256 PRYSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred cccccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence 34668999999999999999999999999753 3444211 1112455 9999999999888866543
No 107
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.87 E-value=8.9e-05 Score=49.63 Aligned_cols=76 Identities=18% Similarity=0.274 Sum_probs=57.7
Q ss_pred CCCceEEEcCCC----CCCC-------HHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCce
Q 034058 24 NSRTKLFIGGLS----YDTN-------ETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLV 92 (105)
Q Consensus 24 ~~~~~l~v~~l~----~~~~-------~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~ 92 (105)
...++|.+.|+= ...+ .++|.+--.+||+|..+.+.-.. +.|.+-|.|.+.+.|..+|+.|+|..
T Consensus 263 r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~h----PdGvvtV~f~n~eeA~~ciq~m~GR~ 338 (382)
T KOG1548|consen 263 RADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRH----PDGVVTVSFRNNEEADQCIQTMDGRW 338 (382)
T ss_pred cCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccC----CCceeEEEeCChHHHHHHHHHhcCee
Confidence 355788888762 1122 23445556789999998775433 34778899999999999999999999
Q ss_pred eeeeeeeeccC
Q 034058 93 CRTSKDTDMLS 103 (105)
Q Consensus 93 ~~~~~~~v~~~ 103 (105)
++|+.+...+.
T Consensus 339 fdgRql~A~i~ 349 (382)
T KOG1548|consen 339 FDGRQLTASIW 349 (382)
T ss_pred ecceEEEEEEe
Confidence 99999998764
No 108
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.86 E-value=8.2e-05 Score=51.98 Aligned_cols=64 Identities=25% Similarity=0.345 Sum_probs=57.8
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHh-cCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHH
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFG-QHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIK 86 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~-~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~ 86 (105)
-++.++||||+||.-++.++|..+|. -||.|..+-+-.|++-..++|-|=|+|.+..+-.+||.
T Consensus 367 lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs 431 (520)
T KOG0129|consen 367 IDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS 431 (520)
T ss_pred cCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence 35678999999999999999999998 69999999998887777888999999999999999984
No 109
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.83 E-value=0.00024 Score=48.22 Aligned_cols=76 Identities=18% Similarity=0.212 Sum_probs=65.9
Q ss_pred CCCceEEEcCCCCC-CCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 24 NSRTKLFIGGLSYD-TNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 24 ~~~~~l~v~~l~~~-~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
.++..+.|-+|... ++.+.|..+|-.||.|.++.+.+.. .|-|.|++.+....++|+..||+..+-|.++.+-+
T Consensus 285 ~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~ 359 (494)
T KOG1456|consen 285 APGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCV 359 (494)
T ss_pred CCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceEEEee
Confidence 45678888899765 6778899999999999999988765 25699999999999999999999999999999877
Q ss_pred CC
Q 034058 103 ST 104 (105)
Q Consensus 103 ~~ 104 (105)
++
T Consensus 360 Sk 361 (494)
T KOG1456|consen 360 SK 361 (494)
T ss_pred cc
Confidence 65
No 110
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.62 E-value=0.00011 Score=54.42 Aligned_cols=72 Identities=22% Similarity=0.320 Sum_probs=61.5
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeee
Q 034058 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDT 99 (105)
Q Consensus 22 ~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~ 99 (105)
.....+.+++++|++++....|...|..||.+..+.+-.. ..|+++.|++...+++|++.|.|..+++...+
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg------q~yayi~yes~~~aq~a~~~~rgap~G~P~~r 522 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG------QPYAYIQYESPPAAQAATHDMRGAPLGGPPRR 522 (975)
T ss_pred ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecccC------CcceeeecccCccchhhHHHHhcCcCCCCCcc
Confidence 3456789999999999999999999999999998876432 36999999999999999999999999765433
No 111
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.61 E-value=0.00083 Score=45.88 Aligned_cols=61 Identities=26% Similarity=0.409 Sum_probs=49.7
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhc-C---CCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHH
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQ-H---GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKE 87 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~-~---g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~ 87 (105)
.-.|..++||.++++.++.++|.+ + |....+.++... +|+..|-||+.|...++|+.|+.+
T Consensus 161 qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 161 QVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred ceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHHH
Confidence 446777899999999999999963 1 244566666655 788999999999999999999965
No 112
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.59 E-value=0.00022 Score=48.83 Aligned_cols=75 Identities=16% Similarity=0.180 Sum_probs=60.0
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCe-EEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeee-eeeeecc
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEI-IEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRT-SKDTDML 102 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v-~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~-~~~~v~~ 102 (105)
+..++-++|+|+++++++++..|..-|-. +...+. ++.+.++++.+.+.+.|..|+..++...++. ..++|.+
T Consensus 413 psatlHlsnip~svsee~lk~~f~~~g~~vkafkff-----~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSF 487 (492)
T KOG1190|consen 413 PSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFF-----QKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSF 487 (492)
T ss_pred chhheeeccCCcccchhHHHHhhhcCCceEEeeeec-----CCCcceeecccCChhHhhhhccccccccCCCCceEEEEe
Confidence 45688899999999999999999987754 333332 3345789999999999999999999888864 4788887
Q ss_pred CC
Q 034058 103 ST 104 (105)
Q Consensus 103 ~~ 104 (105)
++
T Consensus 488 Sk 489 (492)
T KOG1190|consen 488 SK 489 (492)
T ss_pred ec
Confidence 65
No 113
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=97.55 E-value=0.00052 Score=37.12 Aligned_cols=57 Identities=14% Similarity=0.222 Sum_probs=41.0
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMD 89 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~ 89 (105)
..++..+++ .|..+...||.++|+.||.|.-- ++.+. -|||...+.+.+..++..+.
T Consensus 7 ~RdHVFhlt-FPkeWK~~DI~qlFspfG~I~Vs-Wi~dT-------SAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 7 SRDHVFHLT-FPKEWKTSDIYQLFSPFGQIYVS-WINDT-------SAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp SGCCEEEEE---TT--HHHHHHHCCCCCCEEEE-EECTT-------EEEEEECCCHHHHHHHHHHT
T ss_pred CcceEEEEe-CchHhhhhhHHHHhccCCcEEEE-EEcCC-------cEEEEeecHHHHHHHHHHhc
Confidence 345556665 99999999999999999987544 44332 49999999999999887765
No 114
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.48 E-value=0.0006 Score=40.68 Aligned_cols=71 Identities=21% Similarity=0.266 Sum_probs=50.1
Q ss_pred CCCceEEEcCCC----C-CCCHH----HHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceee
Q 034058 24 NSRTKLFIGGLS----Y-DTNET----VLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCR 94 (105)
Q Consensus 24 ~~~~~l~v~~l~----~-~~~~~----~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~ 94 (105)
+++.+|.|.=+. . ....+ +|.+.|..||.+.-++++.+. -+|+|.+-.+|.+|+ .++|..+.
T Consensus 25 PpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~~--------mwVTF~dg~sALaal-s~dg~~v~ 95 (146)
T PF08952_consen 25 PPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGDT--------MWVTFRDGQSALAAL-SLDGIQVN 95 (146)
T ss_dssp -TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETTC--------EEEEESSCHHHHHHH-HGCCSEET
T ss_pred CCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCCe--------EEEEECccHHHHHHH-ccCCcEEC
Confidence 455667775444 1 12222 566778899988777776442 689999999999999 89999999
Q ss_pred eeeeeeccC
Q 034058 95 TSKDTDMLS 103 (105)
Q Consensus 95 ~~~~~v~~~ 103 (105)
|+.+++.+.
T Consensus 96 g~~l~i~LK 104 (146)
T PF08952_consen 96 GRTLKIRLK 104 (146)
T ss_dssp TEEEEEEE-
T ss_pred CEEEEEEeC
Confidence 999998864
No 115
>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=97.48 E-value=0.00092 Score=37.56 Aligned_cols=71 Identities=17% Similarity=0.218 Sum_probs=44.6
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEE-EEecC------CCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeee
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVK-VICDR------VTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSK 97 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~-~~~~~------~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~ 97 (105)
..+.|.|=|.|+. ....+...|++||.|.+.. +..+. .......+-.|.|.++.+|.+|+ .-||..+.|..
T Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL-~~NG~i~~g~~ 82 (100)
T PF05172_consen 5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRAL-QKNGTIFSGSL 82 (100)
T ss_dssp GCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHH-TTTTEEETTCE
T ss_pred CCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHH-HhCCeEEcCcE
Confidence 3456777789987 4566778999999986653 10000 00112247889999999999999 66888877644
No 116
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.44 E-value=0.00063 Score=48.01 Aligned_cols=59 Identities=17% Similarity=0.246 Sum_probs=47.0
Q ss_pred HHHHHhcCCCeEEEEEEecCCCC---CeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 43 LKDAFGQHGEIIEVKVICDRVTG---QSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 43 l~~~f~~~g~v~~~~~~~~~~~g---~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
++.-+++||.|..|.++++...+ -..|--||+|.+.++++.|.+.|+|..+.++.+...
T Consensus 426 vr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvts 487 (500)
T KOG0120|consen 426 VRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVAS 487 (500)
T ss_pred HHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEE
Confidence 44556789999999988773222 234567999999999999999999999999987654
No 117
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.42 E-value=0.0026 Score=32.61 Aligned_cols=55 Identities=20% Similarity=0.254 Sum_probs=44.2
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcC---CCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHc
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQH---GEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~---g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l 88 (105)
...|+|.|+. +.+.++++.+|..| ....+++++-|. -|-|.|.+.+.|.+|+..|
T Consensus 5 peavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 4579999986 57788899999887 245788888775 3789999999999999764
No 118
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=97.37 E-value=0.00026 Score=45.70 Aligned_cols=62 Identities=24% Similarity=0.400 Sum_probs=55.1
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcC
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMD 89 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~ 89 (105)
..|||.||+..+..+.+..-|+.||++....+..|. .+++.+-++|.|.+...+..|...++
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~~ 93 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRCR 93 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHHhc
Confidence 689999999999999999999999999877666665 67888889999999999999998774
No 119
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.35 E-value=0.00027 Score=48.71 Aligned_cols=70 Identities=24% Similarity=0.351 Sum_probs=53.6
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCc-eeeeeeeeecc
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGL-VCRTSKDTDML 102 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~-~~~~~~~~v~~ 102 (105)
..+|++||.+..+..+|..+|....--..-.+... .||+|+.+.+..-|..|++.++|. .+.|++..+.-
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k------~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~ 72 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK------SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEH 72 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeee------cceeeccCCchhhhhhhHHhhchhhhhcCceeeccc
Confidence 36899999999999999999876421112222222 279999999999999999999987 57788877654
No 120
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.34 E-value=0.00031 Score=48.33 Aligned_cols=68 Identities=18% Similarity=0.245 Sum_probs=54.8
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEec---CCC--CCe--------eeEEEEEeCCHHHHHHHHHHcCC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICD---RVT--GQS--------RGYGFVKFASEAAAGEAIKEMDG 90 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~---~~~--g~~--------~g~~fv~f~~~~~a~~a~~~l~g 90 (105)
-..++|.+-|||.+..-+-|.++|..+|.|+.+++... +.+ +.. +-+|+|+|+..+.|.+|.+.++.
T Consensus 229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~ 308 (484)
T KOG1855|consen 229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP 308 (484)
T ss_pred cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence 36788999999999988999999999999999987654 211 221 45789999999999999987754
Q ss_pred c
Q 034058 91 L 91 (105)
Q Consensus 91 ~ 91 (105)
.
T Consensus 309 e 309 (484)
T KOG1855|consen 309 E 309 (484)
T ss_pred h
Confidence 3
No 121
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.16 E-value=0.0013 Score=45.05 Aligned_cols=76 Identities=14% Similarity=0.125 Sum_probs=60.3
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCC---CCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVT---GQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~---g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
...|-|.||.++++.++++.+|.-.|.|..+.+..+... ......|||.|.+...+..|. .|-++.+-++.+.|.+
T Consensus 7 ~~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfvdraliv~p 85 (479)
T KOG4676|consen 7 LGVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFVDRALIVRP 85 (479)
T ss_pred CceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceeeeeeEEEEe
Confidence 448899999999999999999999999998877653211 123457999999998888776 8888888888777654
No 122
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.12 E-value=0.00019 Score=52.83 Aligned_cols=74 Identities=19% Similarity=0.346 Sum_probs=62.0
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeee
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTD 100 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v 100 (105)
...++|+|.|+..|.+.++.++..+|.+....++..+ .|+++|-+++.|.+..++..+..+.+..-+.-..+.+
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v 809 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEV 809 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhhhhhhcCccc
Confidence 3579999999999999999999999999998887776 8999999999999999999988766655444444433
No 123
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=97.12 E-value=0.00047 Score=49.27 Aligned_cols=75 Identities=15% Similarity=0.148 Sum_probs=58.2
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHHHhc-CCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceee---eee
Q 034058 22 DANSRTKLFIGGLSYDTNETVLKDAFGQ-HGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCR---TSK 97 (105)
Q Consensus 22 ~~~~~~~l~v~~l~~~~~~~~l~~~f~~-~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~---~~~ 97 (105)
....++.|||.||-.-+|..+|+.++.. +|.|...+|-. -+.+|||.|.+.++|-+....|||..+. .+.
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDk------IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~ 513 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDK------IKSHCYVSYSSVEEAAATREALHNVQWPPSNPKH 513 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHHHHHH------hhcceeEecccHHHHHHHHHHHhccccCCCCCce
Confidence 3456789999999999999999999985 55565553322 3467999999999999999999998763 455
Q ss_pred eeecc
Q 034058 98 DTDML 102 (105)
Q Consensus 98 ~~v~~ 102 (105)
|.+.+
T Consensus 514 L~adf 518 (718)
T KOG2416|consen 514 LIADF 518 (718)
T ss_pred eEeee
Confidence 55544
No 124
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.09 E-value=0.00022 Score=46.00 Aligned_cols=61 Identities=25% Similarity=0.239 Sum_probs=46.5
Q ss_pred HHHHHHh-cCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeeccC
Q 034058 42 VLKDAFG-QHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDMLS 103 (105)
Q Consensus 42 ~l~~~f~-~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~~ 103 (105)
++...+. +||.+..+.+-.+. ..-..|-.||.|...++|++|++.||+..+.|+++..+++
T Consensus 84 d~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~ 145 (260)
T KOG2202|consen 84 DVFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS 145 (260)
T ss_pred HHHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence 4444454 88988777554332 2224566899999999999999999999999999988764
No 125
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=96.97 E-value=0.0094 Score=40.82 Aligned_cols=73 Identities=18% Similarity=0.218 Sum_probs=54.4
Q ss_pred ceEEEcCCC--CCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceee--eeeeeecc
Q 034058 27 TKLFIGGLS--YDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCR--TSKDTDML 102 (105)
Q Consensus 27 ~~l~v~~l~--~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~--~~~~~v~~ 102 (105)
..|.+.=|. ..+|.+.|..+--..|+|.++.+... +|. -|.|+|++.+.|++|.+.|||..|- =+.+++++
T Consensus 121 ~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk--ngV---QAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIey 195 (494)
T KOG1456|consen 121 KVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK--NGV---QAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEY 195 (494)
T ss_pred eEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec--cce---eeEEeechhHHHHHHHhhcccccccccceeEEEEe
Confidence 344444443 34788889999999999999987654 443 3899999999999999999998773 33466665
Q ss_pred CC
Q 034058 103 ST 104 (105)
Q Consensus 103 ~~ 104 (105)
++
T Consensus 196 Ak 197 (494)
T KOG1456|consen 196 AK 197 (494)
T ss_pred cC
Confidence 43
No 126
>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=96.91 E-value=0.0021 Score=39.73 Aligned_cols=73 Identities=16% Similarity=0.133 Sum_probs=45.5
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhc-CCCe---EEEEEEecCCCCC--eeeEEEEEeCCHHHHHHHHHHcCCceeeeee
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQ-HGEI---IEVKVICDRVTGQ--SRGYGFVKFASEAAAGEAIKEMDGLVCRTSK 97 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~-~g~v---~~~~~~~~~~~g~--~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~ 97 (105)
....|-|++||++.+++++.+.+.. ++.- ..........+.. ...-|||.|.+.+++......++|..+...+
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 4568999999999999998886665 5544 2222112211111 2345899999999999999999998775443
No 127
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=96.84 E-value=0.0071 Score=40.13 Aligned_cols=61 Identities=15% Similarity=0.132 Sum_probs=47.0
Q ss_pred HHHHHHHhcCCCeEEEEEEecCCCCCeee-EEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 41 TVLKDAFGQHGEIIEVKVICDRVTGQSRG-YGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 41 ~~l~~~f~~~g~v~~~~~~~~~~~g~~~g-~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
++.++-..+||.|..|.+...+....... --||+|...++|.+|+-.|||..++|+....-
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~ 362 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSAC 362 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeehe
Confidence 35667788999999887766553222222 36999999999999999999999999987643
No 128
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.66 E-value=0.0018 Score=47.36 Aligned_cols=77 Identities=14% Similarity=-0.001 Sum_probs=60.3
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEE-EEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIE-VKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~-~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
.-...|||..||..+++..+.++|.....|.+ +.+.+.. +++.++.|||.|...+.+..|..--+...++.+.|+|.
T Consensus 432 ~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~ 509 (944)
T KOG4307|consen 432 GAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVD 509 (944)
T ss_pred CccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCceEEEee
Confidence 34578999999999999999999987666655 7777666 78888999999999888777775444555666667765
No 129
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.56 E-value=8.5e-05 Score=54.62 Aligned_cols=64 Identities=28% Similarity=0.448 Sum_probs=54.2
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCC
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDG 90 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g 90 (105)
.++|++||+..+.+.+|...|..+|.+..+++....+++..+|+||+.|.+.+.+.+|+....+
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~ 731 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDS 731 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhh
Confidence 5789999999999999999999999887776654555788999999999999999999854433
No 130
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.27 E-value=0.0022 Score=42.94 Aligned_cols=77 Identities=21% Similarity=0.338 Sum_probs=57.0
Q ss_pred CceEEEcCCCCCCCHHHHH---HHHhcCCCeEEEEEEecCC--CC-CeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeee
Q 034058 26 RTKLFIGGLSYDTNETVLK---DAFGQHGEIIEVKVICDRV--TG-QSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDT 99 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~---~~f~~~g~v~~~~~~~~~~--~g-~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~ 99 (105)
.+.+|+-+|+.....+.+. +.|.+||.+..+....+.. .+ ...+-++|+|...++|..+|...+|...+|+.++
T Consensus 77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lk 156 (327)
T KOG2068|consen 77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALK 156 (327)
T ss_pred hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhH
Confidence 3578888998876665443 4688899998887766541 11 1223489999999999999999999999988765
Q ss_pred ecc
Q 034058 100 DML 102 (105)
Q Consensus 100 v~~ 102 (105)
..+
T Consensus 157 a~~ 159 (327)
T KOG2068|consen 157 ASL 159 (327)
T ss_pred Hhh
Confidence 543
No 131
>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=96.18 E-value=0.1 Score=29.86 Aligned_cols=66 Identities=18% Similarity=0.165 Sum_probs=45.4
Q ss_pred ceEEEcCCCCCCCH-HHHHHHHhcCC-CeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceee
Q 034058 27 TKLFIGGLSYDTNE-TVLKDAFGQHG-EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCR 94 (105)
Q Consensus 27 ~~l~v~~l~~~~~~-~~l~~~f~~~g-~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~ 94 (105)
..+.+-..|+..+. +.|..+...+- .+..+++.++. ...+-..++.|.+...|......+||+.+.
T Consensus 13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 44545445555554 55555545543 56777887764 224556899999999999999999998764
No 132
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.13 E-value=0.00096 Score=49.68 Aligned_cols=75 Identities=21% Similarity=0.361 Sum_probs=61.6
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeee
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDT 99 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~ 99 (105)
....+||++||+..+++.+++..|..+|.+..+.+-... -+....|+|+.|.+...+..|+..+.+..|....++
T Consensus 370 ~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r 444 (975)
T KOG0112|consen 370 RATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHR 444 (975)
T ss_pred hhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhcCCccccCccc
Confidence 355799999999999999999999999999998876553 233446899999999999999989988877654443
No 133
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=96.00 E-value=0.023 Score=40.75 Aligned_cols=70 Identities=16% Similarity=0.172 Sum_probs=54.1
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhc--CCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCC--ceeeeeeeee
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQ--HGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDG--LVCRTSKDTD 100 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~--~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g--~~~~~~~~~v 100 (105)
..+.+.++-+|.....++++.+|.. |-++..|++..+.+ =||+|++..+|+.|...|.. +.+.|+.|..
T Consensus 174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~n-------WyITfesd~DAQqAykylreevk~fqgKpImA 246 (684)
T KOG2591|consen 174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDN-------WYITFESDTDAQQAYKYLREEVKTFQGKPIMA 246 (684)
T ss_pred ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCc-------eEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence 3467778999999999999999975 77889998876642 48999999999999866553 3455555554
Q ss_pred c
Q 034058 101 M 101 (105)
Q Consensus 101 ~ 101 (105)
.
T Consensus 247 R 247 (684)
T KOG2591|consen 247 R 247 (684)
T ss_pred h
Confidence 4
No 134
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=95.64 E-value=0.072 Score=31.93 Aligned_cols=68 Identities=15% Similarity=0.186 Sum_probs=45.7
Q ss_pred cccccCCCCCceEEEcCCCCCCCH----HHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCc
Q 034058 17 TRLLSDANSRTKLFIGGLSYDTNE----TVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGL 91 (105)
Q Consensus 17 ~~~~~~~~~~~~l~v~~l~~~~~~----~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~ 91 (105)
+.......+-.+|.|.=|..++.. ..+...++.||+|..+-.. | +.-|.|.|.+..+|=.|+.+++..
T Consensus 77 wkk~~kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-----G--rqsavVvF~d~~SAC~Av~Af~s~ 148 (166)
T PF15023_consen 77 WKKNTKEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-----G--RQSAVVVFKDITSACKAVSAFQSR 148 (166)
T ss_pred hcccCCCCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-----C--CceEEEEehhhHHHHHHHHhhcCC
Confidence 333333445567777655555433 3455567889999887542 2 235899999999999999888764
No 135
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=95.63 E-value=0.062 Score=28.35 Aligned_cols=67 Identities=18% Similarity=0.289 Sum_probs=37.8
Q ss_pred eEEEc-CCCCCCCHHHHHHHHhcCC-----CeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 28 KLFIG-GLSYDTNETVLKDAFGQHG-----EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 28 ~l~v~-~l~~~~~~~~l~~~f~~~g-----~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
++||. |=-..++..+|..++...+ .|-.+.+.. .|+||+.. .+.+..++..|++..+.|++++++
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~--------~~S~vev~-~~~a~~v~~~l~~~~~~gk~v~ve 72 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------NFSFVEVP-EEVAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------S-EEEEE--TT-HHHHHHHHTT--SSS----EE
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEee--------eEEEEEEC-HHHHHHHHHHhcCCCCCCeeEEEE
Confidence 34552 3334578888888887654 455666533 36888877 457888999999999999999987
Q ss_pred cC
Q 034058 102 LS 103 (105)
Q Consensus 102 ~~ 103 (105)
.+
T Consensus 73 ~A 74 (74)
T PF03880_consen 73 RA 74 (74)
T ss_dssp E-
T ss_pred EC
Confidence 54
No 136
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=95.55 E-value=0.054 Score=33.79 Aligned_cols=59 Identities=15% Similarity=0.084 Sum_probs=43.1
Q ss_pred CHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcC--CceeeeeeeeeccC
Q 034058 39 NETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMD--GLVCRTSKDTDMLS 103 (105)
Q Consensus 39 ~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~--g~~~~~~~~~v~~~ 103 (105)
..+.|+++|..++.+......... +-..|.|.+.+.|.+|...|+ +..+.|..+++.++
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sF------rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~ 68 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSF------RRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFG 68 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTT------TEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE--
T ss_pred hHHHHHHHHHhcCCceEEEEcCCC------CEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEc
Confidence 346789999999988776655443 237899999999999999999 99999999888653
No 137
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=95.54 E-value=0.025 Score=40.35 Aligned_cols=66 Identities=20% Similarity=0.184 Sum_probs=46.2
Q ss_pred eEEEcCCCCCCCHHHHHHHH-hcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCcee
Q 034058 28 KLFIGGLSYDTNETVLKDAF-GQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVC 93 (105)
Q Consensus 28 ~l~v~~l~~~~~~~~l~~~f-~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~ 93 (105)
++.|.|+|...|-..|.+.- ...|...++.++.|..+-...|||||.|.+.+.+..+.+++||+.+
T Consensus 390 t~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W 456 (549)
T KOG4660|consen 390 TLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKW 456 (549)
T ss_pred hhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCch
Confidence 34444444443433333222 1256667778888887777889999999999999999999999864
No 138
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=95.43 E-value=0.12 Score=36.32 Aligned_cols=68 Identities=19% Similarity=0.218 Sum_probs=55.7
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcC-CCeEEEEEEecCCCCCeee-EEEEEeCCHHHHHHHHHHcCCceee
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQH-GEIIEVKVICDRVTGQSRG-YGFVKFASEAAAGEAIKEMDGLVCR 94 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~-g~v~~~~~~~~~~~g~~~g-~~fv~f~~~~~a~~a~~~l~g~~~~ 94 (105)
.++..|.|-.+|-.++-.|+..|...+ ..|.+++++++. .+.. ..+|.|.+..+|......+||..+.
T Consensus 72 ~~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~---~pnrymvLIkFr~q~da~~Fy~efNGk~Fn 141 (493)
T KOG0804|consen 72 SSSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDG---MPNRYMVLIKFRDQADADTFYEEFNGKQFN 141 (493)
T ss_pred CCCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecC---CCceEEEEEEeccchhHHHHHHHcCCCcCC
Confidence 347889999999999999999888765 467889988853 3333 4789999999999999999998764
No 139
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=94.46 E-value=0.031 Score=40.70 Aligned_cols=71 Identities=20% Similarity=0.293 Sum_probs=58.5
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
..+..++||+|+...+...-++.++..+|-|..+... -|||..|....-...|+..+.-..+++..+.+..
T Consensus 37 ~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~---------~fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~ 107 (668)
T KOG2253|consen 37 LPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD---------KFGFCEFLKHIGDLRASRLLTELNIDDQKLIENV 107 (668)
T ss_pred CCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh---------hhcccchhhHHHHHHHHHHhcccCCCcchhhccc
Confidence 3466789999999999999999999999988766432 2899999999999999999988888887765543
No 140
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=92.99 E-value=0.048 Score=38.44 Aligned_cols=67 Identities=25% Similarity=0.249 Sum_probs=47.8
Q ss_pred eEEEcCCCCCC-CHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 28 KLFIGGLSYDT-NETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 28 ~l~v~~l~~~~-~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
.+-+.-.|+.. +.++|...|.+||.+..|.+-... -.|.|+|.+..+|-.|. ..++..|+++-+++.
T Consensus 374 ~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~-~s~~avlnnr~iKl~ 441 (526)
T KOG2135|consen 374 PLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAY-ASHGAVLNNRFIKLF 441 (526)
T ss_pred hhhhhccCCCCchHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchh-ccccceecCceeEEE
Confidence 34444445543 557899999999999999875542 35899999999886666 556666666666654
No 141
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=92.87 E-value=0.066 Score=40.33 Aligned_cols=67 Identities=13% Similarity=0.149 Sum_probs=52.3
Q ss_pred cCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCcee--eeeeeeeccCC
Q 034058 32 GGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVC--RTSKDTDMLST 104 (105)
Q Consensus 32 ~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~--~~~~~~v~~~~ 104 (105)
.|.+-..+-..|..++.+||.+...+..++- -.+.|.|...+.|..|..+++|+++ .|...+|.+++
T Consensus 304 ~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak 372 (1007)
T KOG4574|consen 304 ENNAVNLTSSSLATLCSDYGSVASAWTLRDL------NMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAK 372 (1007)
T ss_pred hcccccchHHHHHHHHHhhcchhhheecccc------cchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecc
Confidence 3344455666788999999999998876654 3689999999999999999999975 36666776654
No 142
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=92.59 E-value=1.1 Score=30.21 Aligned_cols=64 Identities=16% Similarity=0.309 Sum_probs=44.6
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeee
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSK 97 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~ 97 (105)
+..|-|=++|+.-. ..+...|++||.|.+.... .+| -+-+|.|.+..+|++|+ .-||..|+|..
T Consensus 197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~---~ng---NwMhirYssr~~A~KAL-skng~ii~g~v 260 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTP---SNG---NWMHIRYSSRTHAQKAL-SKNGTIIDGDV 260 (350)
T ss_pred cceEEEeccCccch-hHHHHHHHhhCeeeeeecC---CCC---ceEEEEecchhHHHHhh-hhcCeeeccce
Confidence 45555657776533 4567789999988765443 133 37889999999999999 45666665543
No 143
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.09 E-value=1.5 Score=30.82 Aligned_cols=68 Identities=18% Similarity=0.141 Sum_probs=52.1
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHHHhcCC-CeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeee
Q 034058 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHG-EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSK 97 (105)
Q Consensus 22 ~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g-~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~ 97 (105)
+..-.+.|-|-++|.....++|...|..|+ .-.++.|+-+. ++|-.|.+...|..|+. |....+.-+.
T Consensus 387 e~dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt-~kh~~lKiRp 455 (528)
T KOG4483|consen 387 ESDLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALT-LKHDWLKIRP 455 (528)
T ss_pred cccccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhh-ccCceEEeee
Confidence 334557888889999999999999999987 44778887664 69999999999999994 3444444433
No 144
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=91.90 E-value=0.0032 Score=43.69 Aligned_cols=74 Identities=16% Similarity=0.179 Sum_probs=57.7
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEE-ecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeec
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVI-CDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDM 101 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~-~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~ 101 (105)
..++.+-|.|+|+...++.+..++..||.+..|..+ .+.++ ..--++|...+.+.-|+.+++|..+.+..+++-
T Consensus 78 qrsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~et----avvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~ 152 (584)
T KOG2193|consen 78 QRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSET----AVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVG 152 (584)
T ss_pred HHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHH----HHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcc
Confidence 345678899999999999999999999999888643 33322 122367888999999999999998877766654
No 145
>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=91.57 E-value=1.1 Score=23.20 Aligned_cols=54 Identities=19% Similarity=0.177 Sum_probs=41.0
Q ss_pred CCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeeeee
Q 034058 38 TNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTD 100 (105)
Q Consensus 38 ~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v 100 (105)
++-++++..+..|+ ..++ ..++ +| =||.|.+..+|+++....+|..+-+.++..
T Consensus 12 ~~v~d~K~~Lr~y~-~~~I--~~d~-tG-----fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 12 VTVEDFKKRLRKYR-WDRI--RDDR-TG-----FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred ccHHHHHHHHhcCC-cceE--EecC-CE-----EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 56788999999985 3333 3343 33 489999999999999999999888777543
No 146
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=90.99 E-value=0.17 Score=33.76 Aligned_cols=73 Identities=22% Similarity=0.203 Sum_probs=55.7
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeee
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSK 97 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~ 97 (105)
...+.|++++...+.+.+...++..+|......+.........++++++.|...+.+..++.....+.+.+..
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~ 159 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNK 159 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhcccccccc
Confidence 4568999999998888877788888887766666655556778899999999999999999544333444433
No 147
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.59 E-value=9.8 Score=28.15 Aligned_cols=77 Identities=23% Similarity=0.342 Sum_probs=56.0
Q ss_pred CCCCceEEEcCCCCC-CCHHHHHHHHhcC----CCeEEEEEEecC----------CCCC---------------------
Q 034058 23 ANSRTKLFIGGLSYD-TNETVLKDAFGQH----GEIIEVKVICDR----------VTGQ--------------------- 66 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~-~~~~~l~~~f~~~----g~v~~~~~~~~~----------~~g~--------------------- 66 (105)
....++|-|-||.|. +...+|.-+|..| |.|..+.+.... ..|.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 456789999999997 6778888887765 467777664321 1111
Q ss_pred ----------------eeeEEEEEeCCHHHHHHHHHHcCCceeeeeeee
Q 034058 67 ----------------SRGYGFVKFASEAAAGEAIKEMDGLVCRTSKDT 99 (105)
Q Consensus 67 ----------------~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~ 99 (105)
-.=||.|+|.+.+.|.+....++|..+......
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~ 299 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANK 299 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccce
Confidence 012689999999999999999999988755443
No 148
>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=78.52 E-value=11 Score=25.47 Aligned_cols=62 Identities=11% Similarity=0.121 Sum_probs=46.9
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecC-------CCCCeeeEEEEEeCCHHHHHHH
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDR-------VTGQSRGYGFVKFASEAAAGEA 84 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~-------~~g~~~g~~fv~f~~~~~a~~a 84 (105)
.-..+.|...|+..+++-..+...|.+||+|..+.+..+. ...+......+.|-+.+.+...
T Consensus 12 ~YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdF 80 (309)
T PF10567_consen 12 EYRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDF 80 (309)
T ss_pred cceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHH
Confidence 3356788889999999888888899999999999987654 1223345677888887776654
No 149
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=76.73 E-value=0.43 Score=33.22 Aligned_cols=62 Identities=13% Similarity=0.130 Sum_probs=47.6
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCce
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLV 92 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~ 92 (105)
.+++++.+|+..+...++.+.|..+|.+....+.-. ....+|-+.|....+..-|++ ++|..
T Consensus 151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask----~~s~~c~~sf~~qts~~halr-~~gre 212 (479)
T KOG4676|consen 151 RRTREVQSLISAAILPESGESFERKGEVSYAHTASK----SRSSSCSHSFRKQTSSKHALR-SHGRE 212 (479)
T ss_pred Hhhhhhhcchhhhcchhhhhhhhhcchhhhhhhhcc----CCCcchhhhHhhhhhHHHHHH-hcchh
Confidence 368999999999999999999999999877766432 233467799988888888874 44443
No 150
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=76.71 E-value=14 Score=25.02 Aligned_cols=47 Identities=19% Similarity=0.252 Sum_probs=34.4
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCe-EEEEEEecCCCCCeeeEEEEEeCCH
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEI-IEVKVICDRVTGQSRGYGFVKFASE 78 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v-~~~~~~~~~~~g~~~g~~fv~f~~~ 78 (105)
..-+|++||+.++.-.+|+..+++-+-+ .++.+. .+.+-||+.|.+.
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk------g~~~k~flh~~~~ 377 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK------GHFGKCFLHFGNR 377 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCceeEeee------cCCcceeEecCCc
Confidence 3569999999999999999988876532 333332 2456789999653
No 151
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=74.85 E-value=9.6 Score=19.52 Aligned_cols=18 Identities=33% Similarity=0.475 Sum_probs=14.9
Q ss_pred HHHHHHHhcCCCeEEEEE
Q 034058 41 TVLKDAFGQHGEIIEVKV 58 (105)
Q Consensus 41 ~~l~~~f~~~g~v~~~~~ 58 (105)
++|+++|+..|+|.-+.+
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 578999999999876655
No 152
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=70.58 E-value=15 Score=20.14 Aligned_cols=23 Identities=22% Similarity=0.400 Sum_probs=19.7
Q ss_pred CCCceEEEcCCCCCCCHHHHHHH
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDA 46 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~ 46 (105)
.+.++|.++|||....+++|++.
T Consensus 50 vs~rtVlvsgip~~l~ee~l~D~ 72 (88)
T PF07292_consen 50 VSKRTVLVSGIPDVLDEEELRDK 72 (88)
T ss_pred ccCCEEEEeCCCCCCChhhheee
Confidence 46788999999999999998854
No 153
>PRK11901 hypothetical protein; Reviewed
Probab=66.84 E-value=27 Score=24.03 Aligned_cols=61 Identities=18% Similarity=0.173 Sum_probs=39.0
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEE--EEEeCCHHHHHHHHHHcCCc
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYG--FVKFASEAAAGEAIKEMDGL 91 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~--fv~f~~~~~a~~a~~~l~g~ 91 (105)
..+|-+..+ ..++.|..+..+++ +..+++.....+|+. .|. +=.|.+.++|..|+..|...
T Consensus 245 ~YTLQL~Aa---s~~~~L~~f~~~~~-L~~~~VYqT~RnGkp-WYVVvyG~Y~Sr~eAk~Ai~sLPa~ 307 (327)
T PRK11901 245 HYTLQLSSA---SRSDTLNAYAKKQN-LSHYHVYETKRDGKP-WYVLVSGNYASSAEAKRAIATLPAE 307 (327)
T ss_pred CeEEEeecC---CCHHHHHHHHHHcC-cCceEEEEEEECCce-EEEEEecCcCCHHHHHHHHHhCCHH
Confidence 345555443 45777888887775 444555544445543 344 33789999999999888753
No 154
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=62.71 E-value=16 Score=25.50 Aligned_cols=68 Identities=13% Similarity=0.137 Sum_probs=45.7
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCC-eEEEEEEecCCCCC--eeeEEEEEeCCHHHHHHHHHHcCCceee
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGE-IIEVKVICDRVTGQ--SRGYGFVKFASEAAAGEAIKEMDGLVCR 94 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~-v~~~~~~~~~~~g~--~~g~~fv~f~~~~~a~~a~~~l~g~~~~ 94 (105)
..+.|..||+..++.++.+....+-. +....+.....+-. ..+.+||.|...++.......++|+.+-
T Consensus 8 ~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifl 78 (376)
T KOG1295|consen 8 VKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFL 78 (376)
T ss_pred eeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEe
Confidence 35778899999999988877766532 22222321110111 2456899999999999999999998653
No 155
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=59.71 E-value=14 Score=19.36 Aligned_cols=38 Identities=13% Similarity=0.225 Sum_probs=25.3
Q ss_pred HHHHHHHhcCC-CeEEEEEEecCCCCCeeeEEEEEeCCH
Q 034058 41 TVLKDAFGQHG-EIIEVKVICDRVTGQSRGYGFVKFASE 78 (105)
Q Consensus 41 ~~l~~~f~~~g-~v~~~~~~~~~~~g~~~g~~fv~f~~~ 78 (105)
.++.+-|...| ++..+.-+..+.+..+...-+|+....
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~ 40 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPA 40 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeec
Confidence 35677787777 778887777665555555666766543
No 156
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=58.51 E-value=24 Score=22.06 Aligned_cols=39 Identities=26% Similarity=0.510 Sum_probs=32.4
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecC
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDR 62 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~ 62 (105)
.....+++.+++...+...+...|..+|.+....+....
T Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 261 (306)
T COG0724 223 EKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSK 261 (306)
T ss_pred cccceeeccccccccchhHHHHhccccccceeeeccCCC
Confidence 355789999999999999999999999998666665544
No 157
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=56.55 E-value=16 Score=24.54 Aligned_cols=23 Identities=26% Similarity=0.247 Sum_probs=19.0
Q ss_pred EEEEeCCHHHHHHHHHHcCCcee
Q 034058 71 GFVKFASEAAAGEAIKEMDGLVC 93 (105)
Q Consensus 71 ~fv~f~~~~~a~~a~~~l~g~~~ 93 (105)
|||+|++..+|+.+++.+.....
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~ 23 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRP 23 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCC
Confidence 69999999999999986665543
No 158
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=50.03 E-value=2.7 Score=27.27 Aligned_cols=65 Identities=31% Similarity=0.505 Sum_probs=48.2
Q ss_pred CceEEEcC----CCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCc
Q 034058 26 RTKLFIGG----LSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGL 91 (105)
Q Consensus 26 ~~~l~v~~----l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~ 91 (105)
..+++.|+ |...++++.+...|+.-|++...++..+. .|..+-++++.+.-......++....+.
T Consensus 80 q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~qr~~~~P~~~~~y~~l 148 (267)
T KOG4454|consen 80 QRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTYQRLCAVPFALDLYQGL 148 (267)
T ss_pred hcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchhhhhhhcCcHHhhhhccc
Confidence 34555666 66778888888999999999888887776 5777788899887666666666555544
No 159
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=48.28 E-value=21 Score=23.45 Aligned_cols=33 Identities=27% Similarity=0.365 Sum_probs=27.2
Q ss_pred CCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEE
Q 034058 24 NSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEV 56 (105)
Q Consensus 24 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~ 56 (105)
.....+|+-|+|..++++.|..+.+++|-+...
T Consensus 38 ~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 38 NEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred ccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 345689999999999999999999998854443
No 160
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=47.05 E-value=48 Score=18.12 Aligned_cols=47 Identities=17% Similarity=0.351 Sum_probs=28.6
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEe
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKF 75 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f 75 (105)
..-+||++++..+.+.-...+....++-.-+ +.....+ ..||.|-..
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~-m~~~~~n--eqG~~~~t~ 71 (86)
T PF09707_consen 25 RPGVYVGNVSARVRERLWERVTEWIGDGSAV-MVWSDNN--EQGFDFRTL 71 (86)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHhhCCCccEE-EEEccCC--CCCEEEEEe
Confidence 3459999999888776655555544433333 3333222 568888766
No 161
>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT. SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.
Probab=45.68 E-value=59 Score=18.74 Aligned_cols=44 Identities=18% Similarity=0.326 Sum_probs=25.3
Q ss_pred CHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeC-CHHHHHHHH
Q 034058 39 NETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA-SEAAAGEAI 85 (105)
Q Consensus 39 ~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~-~~~~a~~a~ 85 (105)
+.+.|.+.|+.|.+++ +....+. ..+.++++|.|. +..-...|+
T Consensus 30 ~~~~l~~~l~~f~p~k-v~~l~~~--~gh~g~aiv~F~~~w~Gf~~A~ 74 (116)
T PF03468_consen 30 SNEELLDKLAEFNPLK-VKPLYGK--QGHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp -SHHHHHHHHH---SE-EEEEEET--TEEEEEEEEE--SSHHHHHHHH
T ss_pred CHHHHHHHHHhcCCce-eEECcCC--CCCcEEEEEEECCChHHHHHHH
Confidence 4578899999998775 3344444 357899999997 444444554
No 162
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=45.38 E-value=2.5 Score=30.87 Aligned_cols=70 Identities=10% Similarity=0.109 Sum_probs=47.9
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeee
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRT 95 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~ 95 (105)
.+.+++.|++++++-++|..+...+--+.+..+.....--....++.+.|.--.....|+..||+..+..
T Consensus 231 e~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s 300 (648)
T KOG2295|consen 231 ECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRS 300 (648)
T ss_pred HHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhccccc
Confidence 4678999999999999999888776544444333221111233457888887777788888888875543
No 163
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=45.33 E-value=12 Score=23.47 Aligned_cols=66 Identities=11% Similarity=0.100 Sum_probs=41.0
Q ss_pred eEEEcCCCCCCCH-----HHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeee-eee
Q 034058 28 KLFIGGLSYDTNE-----TVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTS-KDT 99 (105)
Q Consensus 28 ~l~v~~l~~~~~~-----~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~-~~~ 99 (105)
++.+-+++..+.. .....+|.++.+....++.+.. +.--|.|.+...|..|...+++..+.|+ .++
T Consensus 12 ~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrsf------rrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k 83 (193)
T KOG4019|consen 12 AIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRSF------RRVRINFSNPEAAADARIKLHSTSFNGKNELK 83 (193)
T ss_pred eeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHhh------ceeEEeccChhHHHHHHHHhhhcccCCCceEE
Confidence 3445555554322 2234566666554444443322 3345889999999999999999999888 443
No 164
>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=45.27 E-value=49 Score=17.70 Aligned_cols=29 Identities=24% Similarity=0.371 Sum_probs=23.6
Q ss_pred eeeEEEEEeCCHHHHHHHHHHcCCceeee
Q 034058 67 SRGYGFVKFASEAAAGEAIKEMDGLVCRT 95 (105)
Q Consensus 67 ~~g~~fv~f~~~~~a~~a~~~l~g~~~~~ 95 (105)
.+||-||+=.+..++..|++.+.+.....
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi~~i~~~~ 71 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGIRHIRGSR 71 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-TTEEEEC
T ss_pred CceEEEEEeCCHHHHHHHHhcccceeecc
Confidence 57899999999999999998888765443
No 165
>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]
Probab=45.07 E-value=97 Score=23.36 Aligned_cols=39 Identities=13% Similarity=0.206 Sum_probs=28.2
Q ss_pred CCCCCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEe
Q 034058 22 DANSRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVIC 60 (105)
Q Consensus 22 ~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~ 60 (105)
+.-....+|+.||+.+..++.=.++....-.+..+.+.+
T Consensus 297 EGl~~~evY~nGlSTSlP~dVQ~~~irsipGlEna~i~r 335 (621)
T COG0445 297 EGLDTDEVYPNGLSTSLPEDVQEQIIRSIPGLENAEILR 335 (621)
T ss_pred CCCCCceEecCcccccCCHHHHHHHHHhCcccccceeec
Confidence 344567899999998888776566666666677777654
No 166
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.52 E-value=3.1 Score=29.69 Aligned_cols=49 Identities=8% Similarity=-0.212 Sum_probs=35.1
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeC
Q 034058 28 KLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76 (105)
Q Consensus 28 ~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~ 76 (105)
+.++..+|...++.++.-.|..||.|......+.-..|...-.+|+...
T Consensus 5 ~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~ 53 (572)
T KOG4365|consen 5 KKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAK 53 (572)
T ss_pred hhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeee
Confidence 3456678888899999999999998887766554434444455676654
No 167
>PRK10905 cell division protein DamX; Validated
Probab=41.04 E-value=1.1e+02 Score=21.14 Aligned_cols=63 Identities=19% Similarity=0.038 Sum_probs=37.6
Q ss_pred CCceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCee-eEEEEEeCCHHHHHHHHHHcCCc
Q 034058 25 SRTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSR-GYGFVKFASEAAAGEAIKEMDGL 91 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~-g~~fv~f~~~~~a~~a~~~l~g~ 91 (105)
...+|-|+.+. ..+.++.+..+.|- ....+.....+|+.. -.-+=.|.+.++|++|+..|...
T Consensus 246 ~~YTLQL~A~S---s~~~l~~fakKlgL-~~y~vy~TtRnGkpWYVV~yG~YaSraeAk~AiakLPa~ 309 (328)
T PRK10905 246 SHYTLQLSSSS---NYDNLNGWAKKENL-KNYVVYETTRNGQPWYVLVSGVYASKEEAKRAVSTLPAD 309 (328)
T ss_pred CceEEEEEecC---CHHHHHHHHHHcCC-CceEEEEeccCCceEEEEEecCCCCHHHHHHHHHHCCHH
Confidence 33555555444 56777887777753 333333333355421 12334789999999999888643
No 168
>PF14893 PNMA: PNMA
Probab=40.99 E-value=26 Score=24.20 Aligned_cols=26 Identities=19% Similarity=0.423 Sum_probs=21.6
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHh
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFG 48 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~ 48 (105)
-+..+.+.|.|+|.++.++++++.+.
T Consensus 15 ~~~~r~lLv~giP~dc~~~ei~e~l~ 40 (331)
T PF14893_consen 15 VDPQRALLVLGIPEDCEEAEIEEALQ 40 (331)
T ss_pred cChhhhheeecCCCCCCHHHHHHHHH
Confidence 34567899999999999999887764
No 169
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=40.72 E-value=36 Score=23.07 Aligned_cols=34 Identities=26% Similarity=0.493 Sum_probs=26.0
Q ss_pred CceEEEcCCCCC------------CCHHHHHHHHhcCCCeEEEEEE
Q 034058 26 RTKLFIGGLSYD------------TNETVLKDAFGQHGEIIEVKVI 59 (105)
Q Consensus 26 ~~~l~v~~l~~~------------~~~~~l~~~f~~~g~v~~~~~~ 59 (105)
..+||+.++|.. .+++-|...|..||.|..+.++
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdip 194 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIP 194 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCc
Confidence 346788777742 4667799999999999888764
No 170
>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=40.40 E-value=52 Score=16.95 Aligned_cols=25 Identities=24% Similarity=0.154 Sum_probs=20.0
Q ss_pred EEEEEeCCHHHHHHHHHHcCCceee
Q 034058 70 YGFVKFASEAAAGEAIKEMDGLVCR 94 (105)
Q Consensus 70 ~~fv~f~~~~~a~~a~~~l~g~~~~ 94 (105)
+.++.|.+...|.++-+.|....+.
T Consensus 3 ~~~i~F~st~~a~~~ek~lk~~gi~ 27 (73)
T PF11823_consen 3 YYLITFPSTHDAMKAEKLLKKNGIP 27 (73)
T ss_pred eEEEEECCHHHHHHHHHHHHHCCCc
Confidence 5789999999999988777755443
No 171
>PHA01632 hypothetical protein
Probab=38.66 E-value=48 Score=16.60 Aligned_cols=21 Identities=14% Similarity=0.309 Sum_probs=16.0
Q ss_pred EEEcCCCCCCCHHHHHHHHhc
Q 034058 29 LFIGGLSYDTNETVLKDAFGQ 49 (105)
Q Consensus 29 l~v~~l~~~~~~~~l~~~f~~ 49 (105)
+.|..+|...++++|++.+.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 344688999999999887653
No 172
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=37.81 E-value=62 Score=16.72 Aligned_cols=40 Identities=15% Similarity=0.288 Sum_probs=25.9
Q ss_pred HHHHHHHhcCC-CeEEEEEEecCCCCCeeeEEEEEeCCHHH
Q 034058 41 TVLKDAFGQHG-EIIEVKVICDRVTGQSRGYGFVKFASEAA 80 (105)
Q Consensus 41 ~~l~~~f~~~g-~v~~~~~~~~~~~g~~~g~~fv~f~~~~~ 80 (105)
+++.+-|...| ++..+.-+....+......-||+.+...+
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~ 42 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPN 42 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCcc
Confidence 35666676666 67777666665456666777888775544
No 173
>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=35.50 E-value=81 Score=17.42 Aligned_cols=48 Identities=17% Similarity=0.216 Sum_probs=26.2
Q ss_pred ceEEEcCCCCCCCHHHHH---HHHhcCCCeEEEEE--EecCCCCCeeeEEEEE
Q 034058 27 TKLFIGGLSYDTNETVLK---DAFGQHGEIIEVKV--ICDRVTGQSRGYGFVK 74 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~---~~f~~~g~v~~~~~--~~~~~~g~~~g~~fv~ 74 (105)
...|+.+||..+.+.++. ..+..+.+-..+.. ......+...|++.+.
T Consensus 11 g~a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l 63 (103)
T PF05189_consen 11 GIAFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISL 63 (103)
T ss_dssp EEEEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEE
T ss_pred EEEEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEE
Confidence 356889999998887754 44555553333332 1223344555665543
No 174
>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=35.09 E-value=56 Score=15.47 Aligned_cols=25 Identities=20% Similarity=0.223 Sum_probs=20.3
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCC
Q 034058 28 KLFIGGLSYDTNETVLKDAFGQHGE 52 (105)
Q Consensus 28 ~l~v~~l~~~~~~~~l~~~f~~~g~ 52 (105)
.+++.+..+.....+|.+++..+|.
T Consensus 3 ~~~i~g~~~~~~~~~l~~~i~~~Gg 27 (72)
T cd00027 3 TFVITGDLPSEERDELKELIEKLGG 27 (72)
T ss_pred EEEEEecCCCcCHHHHHHHHHHcCC
Confidence 5677777667888999999999886
No 175
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=33.65 E-value=75 Score=18.00 Aligned_cols=21 Identities=14% Similarity=0.335 Sum_probs=16.8
Q ss_pred eeEEEEEeCCHHHHHHHHHHc
Q 034058 68 RGYGFVKFASEAAAGEAIKEM 88 (105)
Q Consensus 68 ~g~~fv~f~~~~~a~~a~~~l 88 (105)
--|+.++|.+.....++..++
T Consensus 66 VvFsW~~Y~skq~rDA~~~km 86 (117)
T COG5507 66 VVFSWIEYPSKQVRDAANAKM 86 (117)
T ss_pred EEEEEEEcCchhHHHHHHHHh
Confidence 457889999999998887643
No 176
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=33.63 E-value=79 Score=21.07 Aligned_cols=33 Identities=12% Similarity=0.231 Sum_probs=23.9
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEE
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVI 59 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~ 59 (105)
....|+|||.+++..-+.+++...-.+....++
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M 128 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFIIQDMVLM 128 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCccceEEEE
Confidence 456789999999999998888765444344443
No 177
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=32.76 E-value=1e+02 Score=18.39 Aligned_cols=27 Identities=33% Similarity=0.364 Sum_probs=19.2
Q ss_pred eeEEEEEeCCHHHHHHHHHHcCCceee
Q 034058 68 RGYGFVKFASEAAAGEAIKEMDGLVCR 94 (105)
Q Consensus 68 ~g~~fv~f~~~~~a~~a~~~l~g~~~~ 94 (105)
-|..++-|.+.++|++..+...|..+.
T Consensus 114 Mg~~~~aF~~~~~A~~F~~~~GG~v~~ 140 (149)
T PF05573_consen 114 MGPDLIAFASKEDAEAFAKEHGGKVLT 140 (149)
T ss_dssp TS--EEEES-HHHHHHHHHHTEEEEEE
T ss_pred CCCcccccCCHHHHHHHHHHcCCEEee
Confidence 357899999999999999887665543
No 178
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=32.58 E-value=7.9 Score=20.12 Aligned_cols=26 Identities=8% Similarity=0.001 Sum_probs=17.5
Q ss_pred cccccCCCCCceEEEcCCCCCCCHHH
Q 034058 17 TRLLSDANSRTKLFIGGLSYDTNETV 42 (105)
Q Consensus 17 ~~~~~~~~~~~~l~v~~l~~~~~~~~ 42 (105)
..+..-...++.+|||++|..+-.+.
T Consensus 18 ~Sp~~Ls~tSr~vflG~IP~~W~~~~ 43 (67)
T PF15407_consen 18 ASPEELSLTSRRVFLGPIPEIWLQDH 43 (67)
T ss_pred CCHHHHHHcCceEEECCCChHHHHcC
Confidence 33333445778999999998765443
No 179
>PF12829 Mhr1: Transcriptional regulation of mitochondrial recombination; InterPro: IPR024629 These proteins are involved in regulation of RNA polymerase II-dependent transcription. They are also involved in regulation of mitochondrial DNA recombination, maintenance, repair, and generation of homoplasmic cells [, , , ].
Probab=32.37 E-value=84 Score=17.43 Aligned_cols=53 Identities=13% Similarity=0.101 Sum_probs=32.2
Q ss_pred CCCCCCCHHHHHHHHhcCCCe-EEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcC
Q 034058 33 GLSYDTNETVLKDAFGQHGEI-IEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMD 89 (105)
Q Consensus 33 ~l~~~~~~~~l~~~f~~~g~v-~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~ 89 (105)
.+.+..+...+...|..-|.- ....+..| .=+++|-|.|.+.+.+..|.+.|.
T Consensus 19 S~~p~l~~~~i~~Q~~~~gkk~~pp~lRkD----~W~pm~vv~f~~~~~g~~~yq~Lr 72 (91)
T PF12829_consen 19 SQTPNLDNNQILKQFPFPGKKNKPPSLRKD----YWRPMCVVNFPNYEVGVSAYQKLR 72 (91)
T ss_pred ecCcccChhHHHHhccCCCcccCCchhccc----cceEeEEEECCChHHHHHHHHHHH
Confidence 345566766666666554421 11122222 235789999999999988876654
No 180
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=31.98 E-value=91 Score=16.93 Aligned_cols=53 Identities=19% Similarity=0.258 Sum_probs=36.6
Q ss_pred CCCCCCCHHHHHHHHhc-CC-CeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHc
Q 034058 33 GLSYDTNETVLKDAFGQ-HG-EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88 (105)
Q Consensus 33 ~l~~~~~~~~l~~~f~~-~g-~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l 88 (105)
-.+...+..++++.++. || .|..+.....+ .+ ..=|||.+....+|......+
T Consensus 27 ~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~-~~--~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 27 IVDRRATKPDIKRAVEELFDVKVEKVNTLITP-KG--EKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred EECCCCCHHHHHHHHHHHhCCceEEEEeEEcC-CC--cEEEEEEeCCCCcHHHHHHhh
Confidence 45888999999888876 66 56666544433 22 234899999888888766543
No 181
>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=31.64 E-value=48 Score=15.00 Aligned_cols=16 Identities=38% Similarity=0.542 Sum_probs=9.9
Q ss_pred CCCCHHHHHHHHhcCC
Q 034058 36 YDTNETVLKDAFGQHG 51 (105)
Q Consensus 36 ~~~~~~~l~~~f~~~g 51 (105)
..+++++|++.|.+.+
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 3578899999998754
No 182
>COG4314 NosL Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]
Probab=29.20 E-value=1.4e+02 Score=18.44 Aligned_cols=22 Identities=32% Similarity=0.351 Sum_probs=16.6
Q ss_pred EEeCCHHHHHHHHHHcCCceee
Q 034058 73 VKFASEAAAGEAIKEMDGLVCR 94 (105)
Q Consensus 73 v~f~~~~~a~~a~~~l~g~~~~ 94 (105)
+-|.+++.|++....--|+.+.
T Consensus 131 ~pF~~e~aA~~faa~~GGrvl~ 152 (176)
T COG4314 131 SPFSDEEAAERFAADNGGRVLR 152 (176)
T ss_pred ccccCHHHHHHHHHhcCCeEEe
Confidence 3489999999988776666554
No 183
>COG5584 Predicted small secreted protein [Function unknown]
Probab=27.46 E-value=90 Score=17.58 Aligned_cols=30 Identities=23% Similarity=0.305 Sum_probs=22.1
Q ss_pred CCCCCCCHHHHHHHHhcCCCeEEEEEEecC
Q 034058 33 GLSYDTNETVLKDAFGQHGEIIEVKVICDR 62 (105)
Q Consensus 33 ~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~ 62 (105)
|+++...-.-+++.|.+++++.-..+...+
T Consensus 29 ~is~e~alk~vk~afk~~mnI~GSwI~~~p 58 (103)
T COG5584 29 NISRENALKVVKEAFKQFMNIKGSWIVYEP 58 (103)
T ss_pred ccChhHHHHHHHHHhcccCCcceeEEEEec
Confidence 455555666778899999999877776654
No 184
>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=26.98 E-value=1.1e+02 Score=16.29 Aligned_cols=57 Identities=18% Similarity=0.180 Sum_probs=37.6
Q ss_pred EEEcCCCCCCCHHHHHHHHhc-CC-CeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHc
Q 034058 29 LFIGGLSYDTNETVLKDAFGQ-HG-EIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEM 88 (105)
Q Consensus 29 l~v~~l~~~~~~~~l~~~f~~-~g-~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l 88 (105)
-|+-.++...+..+++..++. |+ .+..+....-+ . ...=|||.+....+|......+
T Consensus 16 ~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~-~--~~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 16 KLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITP-R--GEKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC-C--CceEEEEEECCCCcHHHHHHhh
Confidence 344456889999999988876 66 55666544333 1 2234899998888877765443
No 185
>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=26.65 E-value=76 Score=17.43 Aligned_cols=48 Identities=15% Similarity=0.324 Sum_probs=25.7
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhc-CCCeEEEEEEecCCCCCeeeEEEEEeC
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQ-HGEIIEVKVICDRVTGQSRGYGFVKFA 76 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~-~g~v~~~~~~~~~~~g~~~g~~fv~f~ 76 (105)
..-+||++++..+.+.-...+-+. .++- .+-+.... ....||.|-++-
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~~G-~avm~~~~--~~e~G~~~~t~G 73 (87)
T TIGR01873 25 RAGVYVGGVSASVRERIWDYLAQHCPPKG-SLVITWSS--NTCPGFEFFTLG 73 (87)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCCCc-cEEEEEeC--CCCCCcEEEecC
Confidence 345999988887776544444444 2322 22223222 224467777654
No 186
>PF15063 TC1: Thyroid cancer protein 1
Probab=25.42 E-value=53 Score=17.58 Aligned_cols=27 Identities=19% Similarity=0.190 Sum_probs=21.4
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhcCCCe
Q 034058 27 TKLFIGGLSYDTNETVLKDAFGQHGEI 53 (105)
Q Consensus 27 ~~l~v~~l~~~~~~~~l~~~f~~~g~v 53 (105)
++--+.|+=.+++..+|+.+|..-|+.
T Consensus 26 RKkasaNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 26 RKKASANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred hhhhhhhhhhccCHHHHHHHHHHccch
Confidence 344456777889999999999999864
No 187
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=24.43 E-value=41 Score=24.76 Aligned_cols=35 Identities=31% Similarity=0.469 Sum_probs=30.7
Q ss_pred eeEEEEEeCCHHHHHHHHHHcCCceeeeeeeeecc
Q 034058 68 RGYGFVKFASEAAAGEAIKEMDGLVCRTSKDTDML 102 (105)
Q Consensus 68 ~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~~v~~ 102 (105)
..++++.|++...+.+|+..++|....+..+++..
T Consensus 63 ~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~ 97 (534)
T KOG2187|consen 63 PKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQL 97 (534)
T ss_pred CCceEEEEeccchhhhHHHHHhhhhhhcchhhhhh
Confidence 36899999999999999999999988888777665
No 188
>PF10905 DUF2695: Protein of unknown function (DUF2695); InterPro: IPR024248 This bacterial family of proteins has no known function.
Probab=24.33 E-value=1.1e+02 Score=15.17 Aligned_cols=23 Identities=9% Similarity=0.146 Sum_probs=17.7
Q ss_pred CCHHHHHHHHhcCCCeEEEEEEe
Q 034058 38 TNETVLKDAFGQHGEIIEVKVIC 60 (105)
Q Consensus 38 ~~~~~l~~~f~~~g~v~~~~~~~ 60 (105)
+..+++.+.|.+.|...+|++..
T Consensus 30 ~~~~~vl~~l~~nGg~CDCEVl~ 52 (53)
T PF10905_consen 30 LDWEDVLEWLRENGGYCDCEVLY 52 (53)
T ss_pred CCHHHHHHHHHHcCCCcceeeec
Confidence 34477888899999888887754
No 189
>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=22.90 E-value=42 Score=23.88 Aligned_cols=61 Identities=18% Similarity=0.202 Sum_probs=42.8
Q ss_pred CCceEEEcCCCCCCCH--------HHHHHHHhc--CCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHH
Q 034058 25 SRTKLFIGGLSYDTNE--------TVLKDAFGQ--HGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAI 85 (105)
Q Consensus 25 ~~~~l~v~~l~~~~~~--------~~l~~~f~~--~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~ 85 (105)
..+.+|+.+.+..-.. +++...|.. .++...+...++..+-..+|.-|++|.....+++..
T Consensus 173 ~qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~n 243 (438)
T COG5193 173 MQRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFN 243 (438)
T ss_pred HhhhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHh
Confidence 3456777777655333 377888887 556666666665545556777899999999998876
No 190
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=21.49 E-value=1.7e+02 Score=16.46 Aligned_cols=48 Identities=19% Similarity=0.319 Sum_probs=27.6
Q ss_pred CceEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeC
Q 034058 26 RTKLFIGGLSYDTNETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFA 76 (105)
Q Consensus 26 ~~~l~v~~l~~~~~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~ 76 (105)
..-+||++++..+.+.-...+-+.+++-. +.+.... ....||.|-.+-
T Consensus 27 ~~GVyVg~~S~rVRd~lW~~v~~~~~~G~-avmv~~~--~~eqG~~~~t~G 74 (97)
T PRK11558 27 RAGVYVGDVSRRIREMIWQQVTQLAEEGN-VVMAWAT--NTESGFEFQTFG 74 (97)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCCCc-EEEEEcC--CCCCCcEEEecC
Confidence 34599999888777665555555554422 2233322 223478887665
No 191
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=21.42 E-value=2.5e+02 Score=20.53 Aligned_cols=59 Identities=19% Similarity=0.188 Sum_probs=39.6
Q ss_pred EEcCCCCCC---CHHHHHHHHhcCCCeEEEEEEecCCCCCeeeEEEEEeCCHHHHHHHHHHcCCceeeeeee
Q 034058 30 FIGGLSYDT---NETVLKDAFGQHGEIIEVKVICDRVTGQSRGYGFVKFASEAAAGEAIKEMDGLVCRTSKD 98 (105)
Q Consensus 30 ~v~~l~~~~---~~~~l~~~f~~~g~v~~~~~~~~~~~g~~~g~~fv~f~~~~~a~~a~~~l~g~~~~~~~~ 98 (105)
.||||+.-. ....+.++-.+||++..+++-.. -.|...+.+.|+.++.. +|..+.++..
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~~---------~~Vviss~~~akE~l~~-~d~~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGSV---------PVVVISSYEAAKEVLVK-QDLEFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecCc---------eEEEECCHHHHHHHHHh-CCccccCCCC
Confidence 467765433 33455566668999987776322 35777889999999844 5677776664
No 192
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=21.05 E-value=1.6e+02 Score=19.85 Aligned_cols=22 Identities=5% Similarity=0.309 Sum_probs=18.2
Q ss_pred eEEEcCCCCCCCHHHHHHHHhc
Q 034058 28 KLFIGGLSYDTNETVLKDAFGQ 49 (105)
Q Consensus 28 ~l~v~~l~~~~~~~~l~~~f~~ 49 (105)
.+.|+|+|..++...+.+++..
T Consensus 103 d~VvaNlPY~Istpil~~ll~~ 124 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAH 124 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhc
Confidence 3678999999999888888754
No 193
>PF09702 Cas_Csa5: CRISPR-associated protein (Cas_Csa5); InterPro: IPR010157 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor family of Cas protein found in various species of Sulfolobus and Pyrococcus (all archaeal). It is found with two different CRISPR loci in Sulfolobus solfataricus.
Probab=20.70 E-value=1.8e+02 Score=16.60 Aligned_cols=23 Identities=13% Similarity=0.271 Sum_probs=15.1
Q ss_pred CCCCceEEEcCCCCCCCHHHHHHHHh
Q 034058 23 ANSRTKLFIGGLSYDTNETVLKDAFG 48 (105)
Q Consensus 23 ~~~~~~l~v~~l~~~~~~~~l~~~f~ 48 (105)
....+.+++++||. .+++..|+.
T Consensus 61 ekeg~~i~~g~lPt---~~eVe~Fl~ 83 (105)
T PF09702_consen 61 EKEGNYIIVGYLPT---DEEVEDFLD 83 (105)
T ss_pred cCCCCEEecCCCCC---hHHHHHHHH
Confidence 34557889999984 555555543
Done!