Query 032211
Match_columns 145
No_of_seqs 192 out of 1929
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 11:05:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032211.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032211hhsearch_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 99.5 9.8E-14 2.1E-18 99.6 9.6 65 1-68 54-118 (144)
2 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 9.2E-14 2E-18 111.5 7.1 62 1-65 289-350 (352)
3 PF13893 RRM_5: RNA recognitio 99.4 1.4E-12 3.1E-17 78.7 6.5 53 1-61 4-56 (56)
4 KOG0148 Apoptosis-promoting RN 99.4 4.4E-13 9.6E-18 103.6 5.2 65 1-68 82-146 (321)
5 KOG0122 Translation initiation 99.4 1.3E-12 2.8E-17 99.7 6.4 61 1-64 209-269 (270)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.4 1.3E-12 2.8E-17 104.9 6.7 63 1-66 23-85 (352)
7 KOG0125 Ataxin 2-binding prote 99.4 7.3E-13 1.6E-17 104.7 4.8 59 1-64 116-174 (376)
8 smart00361 RRM_1 RNA recogniti 99.3 3E-12 6.5E-17 80.9 6.2 52 4-58 15-69 (70)
9 KOG4207 Predicted splicing fac 99.3 7.2E-13 1.6E-17 99.2 2.6 63 1-66 33-95 (256)
10 TIGR01659 sex-lethal sex-letha 99.3 6.1E-12 1.3E-16 101.9 6.0 61 1-64 127-187 (346)
11 KOG4661 Hsp27-ERE-TATA-binding 99.3 6.2E-12 1.3E-16 105.7 5.1 138 1-143 425-568 (940)
12 KOG0126 Predicted RNA-binding 99.2 2E-12 4.4E-17 95.0 1.6 62 1-65 55-116 (219)
13 TIGR01645 half-pint poly-U bin 99.2 2.3E-11 4.9E-16 104.4 7.4 64 1-67 224-287 (612)
14 KOG0111 Cyclophilin-type pepti 99.2 7.3E-12 1.6E-16 94.7 3.3 65 2-69 31-95 (298)
15 TIGR01645 half-pint poly-U bin 99.2 2.7E-11 5.8E-16 104.0 6.0 59 1-62 127-185 (612)
16 KOG0145 RNA-binding protein EL 99.2 3.5E-11 7.5E-16 93.0 5.4 65 1-68 61-125 (360)
17 KOG0113 U1 small nuclear ribon 99.2 6E-11 1.3E-15 92.9 6.6 61 2-65 122-182 (335)
18 TIGR01659 sex-lethal sex-letha 99.2 1.5E-10 3.3E-15 93.8 8.5 65 1-68 213-279 (346)
19 PF00076 RRM_1: RNA recognitio 99.2 7E-11 1.5E-15 73.2 5.1 53 1-57 18-70 (70)
20 TIGR01628 PABP-1234 polyadenyl 99.1 8.8E-11 1.9E-15 100.2 6.8 63 1-67 305-367 (562)
21 smart00360 RRM RNA recognition 99.1 1.8E-10 4E-15 70.1 5.6 56 1-59 16-71 (71)
22 KOG0149 Predicted RNA-binding 99.1 6.6E-11 1.4E-15 90.0 4.1 58 2-63 33-90 (247)
23 TIGR01622 SF-CC1 splicing fact 99.1 2.6E-10 5.7E-15 94.7 7.9 61 1-64 206-266 (457)
24 KOG0117 Heterogeneous nuclear 99.1 1.6E-10 3.5E-15 94.6 6.2 60 1-63 103-163 (506)
25 KOG0124 Polypyrimidine tract-b 99.1 8.8E-11 1.9E-15 94.5 4.4 57 1-60 133-189 (544)
26 TIGR01628 PABP-1234 polyadenyl 99.1 2.3E-10 5E-15 97.6 6.5 62 1-65 20-81 (562)
27 KOG4208 Nucleolar RNA-binding 99.1 2.8E-10 6.1E-15 85.0 5.8 60 2-64 70-130 (214)
28 KOG0144 RNA-binding protein CU 99.1 1.1E-10 2.5E-15 95.2 4.1 65 1-69 144-211 (510)
29 KOG0145 RNA-binding protein EL 99.1 5E-10 1.1E-14 86.7 7.0 61 1-64 298-358 (360)
30 TIGR01642 U2AF_lg U2 snRNP aux 99.0 4.1E-10 8.9E-15 94.6 6.8 62 1-65 315-376 (509)
31 KOG0108 mRNA cleavage and poly 99.0 2.9E-10 6.2E-15 94.3 5.1 66 1-69 38-103 (435)
32 PF14259 RRM_6: RNA recognitio 99.0 1.8E-09 3.9E-14 67.4 6.7 53 1-57 18-70 (70)
33 KOG0130 RNA-binding protein RB 99.0 4.1E-10 8.9E-15 79.5 3.9 65 1-68 92-156 (170)
34 KOG0148 Apoptosis-promoting RN 99.0 9.6E-10 2.1E-14 85.3 6.3 59 1-68 184-242 (321)
35 KOG0107 Alternative splicing f 99.0 4.2E-10 9.1E-15 82.3 4.0 59 1-67 30-88 (195)
36 TIGR01642 U2AF_lg U2 snRNP aux 99.0 8.8E-10 1.9E-14 92.6 6.5 65 1-65 439-503 (509)
37 TIGR01622 SF-CC1 splicing fact 99.0 2E-09 4.4E-14 89.4 8.6 61 1-65 109-169 (457)
38 KOG0121 Nuclear cap-binding pr 99.0 5.5E-10 1.2E-14 78.1 4.2 65 1-68 56-120 (153)
39 KOG0127 Nucleolar protein fibr 99.0 7.1E-10 1.5E-14 92.9 5.5 64 1-68 137-200 (678)
40 PLN03120 nucleic acid binding 99.0 1.4E-09 3.1E-14 84.4 6.2 58 1-65 24-81 (260)
41 smart00362 RRM_2 RNA recogniti 99.0 2.1E-09 4.6E-14 65.6 5.7 54 1-59 19-72 (72)
42 KOG0146 RNA-binding protein ET 98.9 5.2E-10 1.1E-14 86.9 2.6 62 1-65 305-366 (371)
43 COG0724 RNA-binding proteins ( 98.9 2.8E-09 6E-14 80.2 6.0 60 1-63 135-194 (306)
44 KOG4206 Spliceosomal protein s 98.9 1.4E-09 3.1E-14 82.2 4.2 62 1-68 33-94 (221)
45 PLN03213 repressor of silencin 98.9 2.1E-09 4.5E-14 89.5 5.3 62 1-69 30-93 (759)
46 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.9 3.7E-09 8E-14 89.0 6.5 57 1-65 296-352 (481)
47 TIGR01648 hnRNP-R-Q heterogene 98.9 2.3E-09 4.9E-14 91.9 5.2 58 1-62 78-136 (578)
48 KOG0144 RNA-binding protein CU 98.9 2.1E-09 4.6E-14 87.9 4.5 64 1-67 54-120 (510)
49 KOG0131 Splicing factor 3b, su 98.9 1.3E-09 2.9E-14 80.2 3.0 59 1-62 29-87 (203)
50 KOG0147 Transcriptional coacti 98.9 4.3E-09 9.4E-14 88.0 5.8 64 1-67 298-361 (549)
51 KOG0415 Predicted peptidyl pro 98.8 3E-09 6.6E-14 85.3 4.0 63 1-66 259-321 (479)
52 KOG0114 Predicted RNA-binding 98.8 1.4E-08 3E-13 68.8 5.9 60 1-66 38-97 (124)
53 TIGR01648 hnRNP-R-Q heterogene 98.8 1E-08 2.2E-13 87.9 6.2 56 1-67 253-310 (578)
54 cd00590 RRM RRM (RNA recogniti 98.7 3.9E-08 8.4E-13 60.2 6.3 56 1-60 19-74 (74)
55 KOG0105 Alternative splicing f 98.7 2.5E-08 5.4E-13 73.9 5.8 59 1-65 26-84 (241)
56 KOG0117 Heterogeneous nuclear 98.7 1.6E-08 3.4E-13 83.1 4.8 58 1-69 279-336 (506)
57 PLN03121 nucleic acid binding 98.7 3.2E-08 6.9E-13 76.1 6.0 56 1-63 25-80 (243)
58 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.7 3.5E-08 7.5E-13 83.2 6.3 56 1-65 22-79 (481)
59 KOG0110 RNA-binding protein (R 98.7 1.3E-08 2.8E-13 87.4 2.7 65 1-68 633-697 (725)
60 KOG0109 RNA-binding protein LA 98.6 1.9E-08 4.2E-13 78.8 3.1 54 1-65 22-75 (346)
61 KOG0131 Splicing factor 3b, su 98.6 2.4E-08 5.1E-13 73.6 3.0 65 1-68 116-181 (203)
62 KOG0123 Polyadenylate-binding 98.6 7.8E-08 1.7E-12 78.7 5.6 62 1-68 96-157 (369)
63 KOG0123 Polyadenylate-binding 98.6 9.4E-08 2E-12 78.2 5.8 61 1-67 18-78 (369)
64 KOG0109 RNA-binding protein LA 98.5 7.8E-08 1.7E-12 75.5 4.2 54 1-65 98-151 (346)
65 KOG0110 RNA-binding protein (R 98.5 1.8E-07 4E-12 80.4 6.4 62 1-63 535-597 (725)
66 KOG0146 RNA-binding protein ET 98.5 1.8E-07 4E-12 72.9 5.8 66 1-70 39-107 (371)
67 KOG0127 Nucleolar protein fibr 98.5 1.1E-07 2.5E-12 79.9 4.4 65 1-68 25-89 (678)
68 KOG0226 RNA-binding proteins [ 98.4 7.8E-08 1.7E-12 74.2 0.9 61 2-65 211-271 (290)
69 KOG0124 Polypyrimidine tract-b 98.3 5E-07 1.1E-11 73.1 3.4 64 1-67 230-293 (544)
70 KOG0151 Predicted splicing reg 98.2 2E-06 4.3E-11 74.4 5.0 68 2-69 195-262 (877)
71 KOG4205 RNA-binding protein mu 98.1 1.5E-06 3.1E-11 69.7 2.2 63 2-68 27-89 (311)
72 KOG4212 RNA-binding protein hn 98.1 5.8E-06 1.3E-10 68.3 5.6 57 4-64 68-124 (608)
73 KOG0132 RNA polymerase II C-te 98.1 3.8E-06 8.3E-11 73.2 4.8 59 1-68 441-499 (894)
74 KOG0153 Predicted RNA-binding 98.1 6E-06 1.3E-10 66.3 5.0 53 2-63 249-302 (377)
75 KOG4205 RNA-binding protein mu 98.0 5.7E-06 1.2E-10 66.3 3.6 64 2-69 118-181 (311)
76 KOG2314 Translation initiation 97.9 1.2E-05 2.5E-10 68.3 4.0 58 1-62 84-142 (698)
77 KOG4209 Splicing factor RNPS1, 97.9 2.2E-05 4.7E-10 60.6 4.7 59 2-64 122-180 (231)
78 KOG0147 Transcriptional coacti 97.7 4.5E-05 9.7E-10 64.4 3.8 98 1-104 199-300 (549)
79 KOG1548 Transcription elongati 97.6 0.00015 3.2E-09 58.4 6.2 55 3-64 298-352 (382)
80 KOG0106 Alternative splicing f 97.6 2.2E-05 4.7E-10 59.8 1.2 53 1-64 21-73 (216)
81 KOG0120 Splicing factor U2AF, 97.6 0.00019 4.1E-09 60.7 6.7 66 2-67 430-495 (500)
82 KOG0533 RRM motif-containing p 97.6 0.0001 2.2E-09 57.2 4.6 63 1-67 103-165 (243)
83 COG5175 MOT2 Transcriptional r 97.6 0.00019 4.2E-09 57.8 5.9 62 1-64 140-203 (480)
84 KOG1190 Polypyrimidine tract-b 97.5 0.00023 5E-09 58.5 5.5 58 1-66 318-375 (492)
85 KOG4212 RNA-binding protein hn 97.5 0.00011 2.5E-09 60.9 3.7 52 2-61 557-608 (608)
86 KOG4660 Protein Mei2, essentia 97.2 9.6E-05 2.1E-09 62.5 0.0 49 1-57 95-143 (549)
87 PF04059 RRM_2: RNA recognitio 97.2 0.0011 2.5E-08 44.5 5.1 53 13-65 32-88 (97)
88 KOG0116 RasGAP SH3 binding pro 97.1 0.00095 2.1E-08 55.6 5.5 63 1-67 308-370 (419)
89 KOG1457 RNA binding protein (c 97.0 0.0043 9.4E-08 47.6 7.6 44 25-68 76-122 (284)
90 KOG0120 Splicing factor U2AF, 96.9 0.00043 9.4E-09 58.6 1.4 63 3-68 311-373 (500)
91 PF11608 Limkain-b1: Limkain b 96.9 0.0028 6.1E-08 41.5 4.8 40 25-64 38-77 (90)
92 KOG1996 mRNA splicing factor [ 96.7 0.0037 8.1E-08 49.7 5.2 60 3-64 308-367 (378)
93 PF08952 DUF1866: Domain of un 96.7 0.0044 9.4E-08 44.5 5.2 55 2-68 57-111 (146)
94 KOG2202 U2 snRNP splicing fact 96.7 0.00061 1.3E-08 52.9 0.8 61 4-68 92-152 (260)
95 KOG4454 RNA binding protein (R 96.4 0.0025 5.4E-08 48.7 2.5 59 1-64 29-87 (267)
96 KOG1548 Transcription elongati 96.4 0.0053 1.1E-07 49.7 4.3 60 1-64 154-221 (382)
97 KOG4210 Nuclear localization s 96.3 0.0026 5.6E-08 50.6 2.2 63 2-68 206-268 (285)
98 PF05172 Nup35_RRM: Nup53/35/4 96.2 0.011 2.4E-07 39.9 4.5 58 2-62 26-90 (100)
99 KOG1456 Heterogeneous nuclear 96.1 0.031 6.6E-07 46.0 7.3 58 3-68 144-203 (494)
100 KOG0106 Alternative splicing f 95.9 0.0034 7.3E-08 48.0 1.2 52 2-64 120-171 (216)
101 KOG2068 MOT2 transcription fac 95.8 0.0055 1.2E-07 49.3 1.9 64 2-68 101-167 (327)
102 KOG1456 Heterogeneous nuclear 95.5 0.04 8.7E-07 45.3 5.9 59 1-67 308-366 (494)
103 PF14605 Nup35_RRM_2: Nup53/35 95.3 0.018 3.8E-07 34.3 2.5 33 2-43 21-53 (53)
104 KOG1855 Predicted RNA-binding 94.8 0.013 2.8E-07 48.7 1.3 59 1-60 251-320 (484)
105 KOG1995 Conserved Zn-finger pr 94.8 0.019 4.1E-07 46.6 2.2 49 18-66 108-156 (351)
106 PF08777 RRM_3: RNA binding mo 94.3 0.078 1.7E-06 36.0 4.0 53 1-62 21-78 (105)
107 KOG4206 Spliceosomal protein s 94.2 0.084 1.8E-06 40.4 4.3 54 1-62 166-220 (221)
108 KOG4211 Splicing factor hnRNP- 93.7 0.13 2.8E-06 43.5 4.9 57 2-65 31-87 (510)
109 PF15023 DUF4523: Protein of u 93.6 0.15 3.2E-06 36.7 4.5 51 2-63 111-161 (166)
110 PF04847 Calcipressin: Calcipr 92.4 0.16 3.4E-06 38.0 3.3 57 1-66 15-73 (184)
111 KOG2135 Proteins containing th 92.3 0.062 1.3E-06 45.3 1.1 57 2-68 394-450 (526)
112 KOG4285 Mitotic phosphoprotein 92.1 0.18 3.9E-06 40.4 3.4 58 1-68 216-274 (350)
113 KOG0128 RNA-binding protein SA 91.6 0.039 8.4E-07 49.3 -0.8 64 1-68 756-819 (881)
114 KOG4307 RNA binding protein RB 91.0 0.33 7.2E-06 43.0 4.2 56 1-60 887-943 (944)
115 KOG1190 Polypyrimidine tract-b 91.0 0.24 5.2E-06 41.2 3.2 53 1-61 170-225 (492)
116 PF03880 DbpA: DbpA RNA bindin 90.1 0.93 2E-05 28.5 4.8 35 26-61 40-74 (74)
117 KOG0112 Large RNA-binding prot 90.0 0.2 4.2E-06 45.3 2.0 59 1-68 475-535 (975)
118 PF11767 SET_assoc: Histone ly 87.2 1 2.2E-05 28.0 3.4 29 30-58 37-65 (66)
119 KOG4211 Splicing factor hnRNP- 84.9 1.5 3.3E-05 37.2 4.3 46 22-68 141-186 (510)
120 KOG4676 Splicing factor, argin 84.5 1.7 3.8E-05 36.1 4.3 59 1-60 27-85 (479)
121 KOG4849 mRNA cleavage factor I 83.6 0.93 2E-05 37.2 2.4 49 8-59 109-157 (498)
122 KOG4660 Protein Mei2, essentia 83.6 2 4.4E-05 37.0 4.6 49 18-66 423-475 (549)
123 KOG1457 RNA binding protein (c 83.2 1.2 2.6E-05 34.5 2.8 27 26-52 248-274 (284)
124 PF08675 RNA_bind: RNA binding 80.6 4 8.8E-05 26.7 4.2 36 1-47 28-63 (87)
125 KOG0128 RNA-binding protein SA 80.5 0.31 6.8E-06 43.8 -1.3 48 2-52 688-735 (881)
126 KOG2416 Acinus (induces apopto 79.6 2.6 5.7E-05 36.9 3.9 43 25-67 480-525 (718)
127 KOG4574 RNA-binding protein (c 77.1 1.1 2.3E-05 40.6 0.9 59 1-68 318-378 (1007)
128 KOG2193 IGF-II mRNA-binding pr 74.5 2 4.2E-05 36.3 1.7 43 26-68 37-80 (584)
129 PF07576 BRAP2: BRCA1-associat 64.6 28 0.0006 23.8 5.5 42 7-53 40-81 (110)
130 KOG1365 RNA-binding protein Fu 62.6 6.7 0.00015 32.8 2.5 46 21-66 319-364 (508)
131 KOG4210 Nuclear localization s 60.7 6.5 0.00014 31.3 2.1 61 2-65 109-169 (285)
132 PF02714 DUF221: Domain of unk 60.6 12 0.00025 29.7 3.6 36 29-66 1-36 (325)
133 KOG3152 TBP-binding protein, a 58.9 2.4 5.1E-05 33.4 -0.7 52 1-55 94-157 (278)
134 KOG4307 RNA binding protein RB 51.2 6.7 0.00015 35.2 0.8 43 19-62 470-512 (944)
135 KOG1365 RNA-binding protein Fu 48.9 35 0.00077 28.6 4.5 37 21-58 201-237 (508)
136 KOG4019 Calcineurin-mediated s 45.8 35 0.00075 25.6 3.7 43 25-67 50-93 (193)
137 PF10309 DUF2414: Protein of u 42.8 30 0.00066 21.1 2.5 19 28-46 44-62 (62)
138 PF03439 Spt5-NGN: Early trans 36.8 66 0.0014 20.5 3.6 26 25-50 43-68 (84)
139 KOG0115 RNA-binding protein p5 36.2 28 0.0006 27.5 2.0 55 2-60 52-110 (275)
140 PF08206 OB_RNB: Ribonuclease 29.5 38 0.00083 20.0 1.5 37 25-62 7-44 (58)
141 PF11823 DUF3343: Protein of u 27.5 1E+02 0.0022 18.9 3.3 26 27-52 2-27 (73)
142 PRK08559 nusG transcription an 27.1 66 0.0014 22.9 2.6 25 25-49 45-69 (153)
143 TIGR00405 L26e_arch ribosomal 26.8 62 0.0014 22.6 2.4 25 25-49 37-61 (145)
144 KOG2591 c-Mpl binding protein, 26.1 33 0.00071 30.1 1.0 17 30-46 216-232 (684)
145 PF03467 Smg4_UPF3: Smg-4/UPF3 25.8 1E+02 0.0022 22.6 3.5 41 26-66 55-100 (176)
146 PRK15464 cold shock-like prote 25.7 36 0.00078 21.2 0.9 11 25-35 15-25 (70)
147 KOG0105 Alternative splicing f 25.3 2.2E+02 0.0047 21.7 5.1 27 26-52 150-176 (241)
148 PRK15463 cold shock-like prote 24.6 40 0.00087 20.9 1.0 11 25-35 15-25 (70)
149 PRK09937 stationary phase/star 24.5 42 0.0009 21.1 1.0 11 25-35 12-22 (74)
150 PRK09507 cspE cold shock prote 23.6 41 0.0009 20.7 0.9 11 25-35 14-24 (69)
151 PRK14998 cold shock-like prote 23.3 45 0.00097 20.9 1.0 11 25-35 12-22 (73)
152 PRK10943 cold shock-like prote 22.8 43 0.00093 20.6 0.8 11 25-35 14-24 (69)
153 TIGR02381 cspD cold shock doma 22.1 50 0.0011 20.2 1.0 11 25-35 12-22 (68)
154 PRK09890 cold shock protein Cs 21.6 48 0.001 20.5 0.9 11 25-35 15-25 (70)
155 KOG2187 tRNA uracil-5-methyltr 21.5 55 0.0012 28.5 1.4 44 25-68 62-105 (534)
156 smart00596 PRE_C2HC PRE_C2HC d 21.2 70 0.0015 20.1 1.5 55 3-63 9-64 (69)
157 PRK10354 RNA chaperone/anti-te 21.1 50 0.0011 20.3 0.9 11 25-35 15-25 (70)
158 smart00738 NGN In Spt5p, this 21.1 1.9E+02 0.0041 18.5 3.8 23 27-49 60-82 (106)
159 TIGR00110 ilvD dihydroxy-acid 20.8 2.9E+02 0.0064 24.2 5.7 38 25-65 382-419 (535)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.52 E-value=9.8e-14 Score=99.62 Aligned_cols=65 Identities=25% Similarity=0.484 Sum_probs=59.5
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
+|++||.|.++.|+. |+.+++++|||||+|.+.++|+.||+.||+..|.|+.|.|+++.++....
T Consensus 54 ~F~~~G~I~~v~i~~---d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~~~~~~ 118 (144)
T PLN03134 54 AFAHFGDVVDAKVIV---DRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPANDRPSAP 118 (144)
T ss_pred HHhcCCCeEEEEEEe---cCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCcCCCCC
Confidence 589999999999986 78899999999999999999999999999999999999999998765443
No 2
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.47 E-value=9.2e-14 Score=111.51 Aligned_cols=62 Identities=21% Similarity=0.419 Sum_probs=58.5
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
+|++||.|.+++|+. |+.||.+||||||+|.+.++|..||..|||..|+||.|.|.|+.++.
T Consensus 289 ~F~~fG~v~~v~i~~---d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~~~ 350 (352)
T TIGR01661 289 LFGPFGAVQNVKIIR---DLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTNKA 350 (352)
T ss_pred HHHhCCCeEEEEEeE---cCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccCCC
Confidence 599999999999996 78899999999999999999999999999999999999999988764
No 3
>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=99.39 E-value=1.4e-12 Score=78.71 Aligned_cols=53 Identities=42% Similarity=0.750 Sum_probs=47.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLA 61 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a 61 (145)
+|++||.|.++.+.. .. +++|||+|.+.++|..|+..|||..+.|++|.|.||
T Consensus 4 ~f~~fG~V~~i~~~~-----~~---~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 4 LFSKFGEVKKIKIFK-----KK---RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHTTTS-EEEEEEET-----TS---TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred HhCCcccEEEEEEEe-----CC---CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 489999999998873 11 699999999999999999999999999999999986
No 4
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.39 E-value=4.4e-13 Score=103.64 Aligned_cols=65 Identities=26% Similarity=0.533 Sum_probs=60.6
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
.|.+||.|.+++|+ ||..|+++|||+||.|.+.++|++||..|||..|++|.|+-.||..++...
T Consensus 82 aF~pFGevS~akvi---rD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~ 146 (321)
T KOG0148|consen 82 AFAPFGEVSDAKVI---RDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPSEM 146 (321)
T ss_pred HhccccccccceEe---ecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCcccc
Confidence 38999999999999 489999999999999999999999999999999999999999999887433
No 5
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.36 E-value=1.3e-12 Score=99.72 Aligned_cols=61 Identities=23% Similarity=0.441 Sum_probs=57.9
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
||-+||.|..+.|.. |+.||.+||||||+|.+.++|.+||..|||+-++.-.|.|+|++|.
T Consensus 209 Lf~~fg~i~rvylar---dK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP~ 269 (270)
T KOG0122|consen 209 LFRPFGPITRVYLAR---DKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKPS 269 (270)
T ss_pred HhhccCccceeEEEE---ccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCCC
Confidence 688999999998884 8999999999999999999999999999999999999999999985
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.36 E-value=1.3e-12 Score=104.90 Aligned_cols=63 Identities=22% Similarity=0.363 Sum_probs=58.7
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccch
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYL 66 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~ 66 (145)
+|++||+|.+|+|+. |+.+|+++|||||+|.+.++|..||..|||..|.|+.|.|+|+.+...
T Consensus 23 ~F~~~G~i~~v~i~~---d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~ 85 (352)
T TIGR01661 23 LFTSIGEIESCKLVR---DKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSD 85 (352)
T ss_pred HHHccCCEEEEEEEE---cCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeeccccc
Confidence 599999999999996 788999999999999999999999999999999999999999987653
No 7
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.36 E-value=7.3e-13 Score=104.67 Aligned_cols=59 Identities=27% Similarity=0.631 Sum_probs=54.4
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
+|++||+|.+|.||++-| .|||||||+|++.+||++|-.+|||..+.||.|.|..|..+
T Consensus 116 MF~kfG~VldVEIIfNER-----GSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATar 174 (376)
T KOG0125|consen 116 MFEKFGKVLDVEIIFNER-----GSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATAR 174 (376)
T ss_pred HHHhhCceeeEEEEeccC-----CCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchh
Confidence 599999999999998522 38999999999999999999999999999999999999887
No 8
>smart00361 RRM_1 RNA recognition motif.
Probab=99.34 E-value=3e-12 Score=80.92 Aligned_cols=52 Identities=21% Similarity=0.332 Sum_probs=46.2
Q ss_pred CCcceeEEE-EeeccCCCCC--CCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEE
Q 032211 4 PYGKIVSED-FLWHTRGPKR--GVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVV 58 (145)
Q Consensus 4 ~~G~I~~~~-i~~~~rd~~t--g~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V 58 (145)
+||.|.++. |+. ++.+ +.++||+||+|.+.++|..|+..|||..+.|+.|.+
T Consensus 15 ~fG~v~~v~~v~~---~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 15 YFGEVGKINKIYI---DNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred hcCCeeEEEEEEe---CCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 899999985 554 4444 899999999999999999999999999999999876
No 9
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.32 E-value=7.2e-13 Score=99.16 Aligned_cols=63 Identities=30% Similarity=0.459 Sum_probs=58.2
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccch
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYL 66 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~ 66 (145)
+|++||.|-+|-|. ||+.|+.++|||||.|....+|+.|+.+|+|..|+|+.|.|++|.....
T Consensus 33 vFekYG~vgDVyIP---rdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~arygr~ 95 (256)
T KOG4207|consen 33 VFEKYGRVGDVYIP---RDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARYGRP 95 (256)
T ss_pred HHHHhCcccceecc---cccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhcCCC
Confidence 59999999998776 5899999999999999999999999999999999999999998877654
No 10
>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=99.27 E-value=6.1e-12 Score=101.93 Aligned_cols=61 Identities=21% Similarity=0.403 Sum_probs=57.4
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
+|+.||.|++|+|+. |+.+++++|||||+|.+.++|.+||..||+..|.+++|.|.++.+.
T Consensus 127 lF~~~G~V~~v~i~~---d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~ 187 (346)
T TIGR01659 127 LFRTIGPINTCRIMR---DYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPG 187 (346)
T ss_pred HHHhcCCEEEEEEEe---cCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeeccccc
Confidence 589999999999985 7889999999999999999999999999999999999999998764
No 11
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.25 E-value=6.2e-12 Score=105.66 Aligned_cols=138 Identities=25% Similarity=0.319 Sum_probs=92.2
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhhhhhcCccccCCC
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLEDAAQNSSKAVGEA 80 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~~~~~~~~~~~~~ 80 (145)
||++||+|+-.+|+.+.|.|. -++|+||++.+.++|.+||..||.+.|.|+.|.|+.++..+... ..+.......
T Consensus 425 lFSKyGKVvGAKVVTNaRsPG---aRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKNEp~Gk--k~Sd~~~~~~ 499 (940)
T KOG4661|consen 425 LFSKYGKVVGAKVVTNARSPG---ARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKNEPGGK--KNSDEGKGKA 499 (940)
T ss_pred HHHHhcceeceeeeecCCCCC---cceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecccCcccc--cccccccccC
Confidence 699999999999998766664 58999999999999999999999999999999999998876544 2222211111
Q ss_pred CCCCCCCCC------CCCCCHHHHHHHHHHHHhhhhhccCchhhhhhcCCCCCCCCcccccCccccccc
Q 032211 81 NKTGFVGGT------SGQMNRSAKIAAIKNKLKALEEESSSAKKQKQADNSSCNGSLNCLSGKDGLNNL 143 (145)
Q Consensus 81 ~~~~~~~~~------~~~~~~~~~i~a~e~kl~~~~~~~~~~~k~k~~~~~~~~~~~~~~~~~~~~~~~ 143 (145)
..-.++... ........++..-+.+.+........++.|+.+++.....++..+|+++|++++
T Consensus 500 kkek~s~~dr~~s~kkt~~kk~~k~~~kdd~Kkgdd~~~ekskdqD~~kpGpsnRsR~tksgsRG~ert 568 (940)
T KOG4661|consen 500 KKEKGSKKDRDDSGKKTGSKKGSKSNSKDDKKKGDDNGDEKSKDQDLKKPGPSNRSRSTKSGSRGKERT 568 (940)
T ss_pred cccccccccccccccccccccccccccccccccCCCCCcccccCccccCCCccccccccccCCCcccee
Confidence 110000000 001111122221111122222233345678889999999999999999999854
No 12
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.25 E-value=2e-12 Score=95.03 Aligned_cols=62 Identities=34% Similarity=0.589 Sum_probs=56.7
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
+|++||.|++|.++ ||..||+|+||||..|++....-.|+..|||..|.||.|+|......+
T Consensus 55 VFSqyGe~vdinLi---RDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~~Yk 116 (219)
T KOG0126|consen 55 VFSQYGEIVDINLI---RDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVSNYK 116 (219)
T ss_pred EeeccCceEEEEEE---ecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeeccccc
Confidence 59999999999999 589999999999999999999999999999999999999998654443
No 13
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.23 E-value=2.3e-11 Score=104.43 Aligned_cols=64 Identities=23% Similarity=0.283 Sum_probs=58.8
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLE 67 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~ 67 (145)
+|+.||.|.+++|+. |+.+|++||||||+|.+.++|..||..||++.|+|+.|.|.++.+.+..
T Consensus 224 lFs~FG~I~svrl~~---D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~pP~~ 287 (612)
T TIGR01645 224 VFEAFGEIVKCQLAR---APTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPPDA 287 (612)
T ss_pred HHhhcCCeeEEEEEe---cCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCCccc
Confidence 599999999999985 7888999999999999999999999999999999999999998875433
No 14
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=7.3e-12 Score=94.70 Aligned_cols=65 Identities=28% Similarity=0.485 Sum_probs=60.8
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhhh
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLEDA 69 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~~ 69 (145)
|=+||.|.+|.++. |-.++++|||+||+|...|+|..||..||+.+|.||.|.|.+|.|......
T Consensus 31 FIPFGDI~dIqiPl---DyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~kikeg 95 (298)
T KOG0111|consen 31 FIPFGDIKDIQIPL---DYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPEKIKEG 95 (298)
T ss_pred cccccchhhccccc---chhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCccccCC
Confidence 77999999999886 788999999999999999999999999999999999999999999877764
No 15
>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=99.19 E-value=2.7e-11 Score=104.01 Aligned_cols=59 Identities=42% Similarity=0.781 Sum_probs=55.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLAS 62 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~ 62 (145)
+|++||.|.+|+|++ |+.+|+++|||||+|.+.++|.+||..|||..|.|+.|.|.+..
T Consensus 127 lF~~fG~I~sV~I~~---D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~ 185 (612)
T TIGR01645 127 AFDPFGPIKSINMSW---DPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS 185 (612)
T ss_pred HHHccCCEEEEEEee---cCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccc
Confidence 589999999999986 78899999999999999999999999999999999999998644
No 16
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.18 E-value=3.5e-11 Score=93.04 Aligned_cols=65 Identities=22% Similarity=0.344 Sum_probs=60.9
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
||+..|.|++++++ ||+.+|.+-||+||.|.+++||++||..|||..+..+.|+|.||+|....-
T Consensus 61 LF~SiGeiEScKLv---RDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs~~I 125 (360)
T KOG0145|consen 61 LFGSIGEIESCKLV---RDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSSDSI 125 (360)
T ss_pred Hhhcccceeeeeee---eccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCChhhh
Confidence 69999999999999 589999999999999999999999999999999999999999999976543
No 17
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.17 E-value=6e-11 Score=92.89 Aligned_cols=61 Identities=28% Similarity=0.486 Sum_probs=56.9
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
|+.||+|..|+|+. |..||+++|||||+|+...+...|.+..+|..|+|+.|.|.+-....
T Consensus 122 F~~YG~IkrirlV~---d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvERgRT 182 (335)
T KOG0113|consen 122 FEKYGPIKRIRLVR---DKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVERGRT 182 (335)
T ss_pred HHhcCcceeEEEee---ecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEeccccc
Confidence 89999999999996 79999999999999999999999999999999999999999866553
No 18
>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=99.15 E-value=1.5e-10 Score=93.83 Aligned_cols=65 Identities=37% Similarity=0.657 Sum_probs=58.3
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCC--eeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACG--RPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~g--r~l~V~~a~~~~~~~ 68 (145)
+|++||.|+.++|+. |..+|+++|||||+|.+.++|++||+.||+..|.+ ++|.|.++.......
T Consensus 213 ~F~~fG~V~~v~i~~---d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~~~~~ 279 (346)
T TIGR01659 213 IFGKYGQIVQKNILR---DKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEHGKAK 279 (346)
T ss_pred HHHhcCCEEEEEEee---cCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCcccccc
Confidence 589999999999985 78899999999999999999999999999999876 789999998765544
No 19
>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=99.15 E-value=7e-11 Score=73.19 Aligned_cols=53 Identities=34% Similarity=0.667 Sum_probs=48.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeE
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLV 57 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~ 57 (145)
+|++||.|..+.++. + .++.++|||||+|.+.++|..|+..|||..+.|+.|+
T Consensus 18 ~f~~~g~i~~~~~~~---~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 18 FFSQFGKIESIKVMR---N-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp HHHTTSTEEEEEEEE---E-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred HHHHhhhcccccccc---c-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 488999999999986 2 5788999999999999999999999999999999874
No 20
>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=99.14 E-value=8.8e-11 Score=100.15 Aligned_cols=63 Identities=43% Similarity=0.716 Sum_probs=58.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLE 67 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~ 67 (145)
+|++||.|.+++|+. | .+|.++|||||+|.+.++|.+|+..|||..|.|++|.|.+|..+...
T Consensus 305 ~F~~~G~i~~~~i~~---d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~k~~~ 367 (562)
T TIGR01628 305 LFSECGEITSAKVML---D-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQRKEQR 367 (562)
T ss_pred HHHhcCCeEEEEEEE---C-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccCcHHH
Confidence 589999999999996 4 58999999999999999999999999999999999999999987544
No 21
>smart00360 RRM RNA recognition motif.
Probab=99.11 E-value=1.8e-10 Score=70.10 Aligned_cols=56 Identities=39% Similarity=0.719 Sum_probs=50.0
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEE
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVR 59 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~ 59 (145)
+|++||.|..+.+.. ++.++.++|||||+|.+.++|..|+..+++..+.|+.|.|+
T Consensus 16 ~f~~~g~v~~~~i~~---~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 16 LFSKFGKIESVRLVR---DKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred HHHhhCCEeEEEEEe---CCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 478999999998885 45578899999999999999999999999999999998773
No 22
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.11 E-value=6.6e-11 Score=89.97 Aligned_cols=58 Identities=26% Similarity=0.425 Sum_probs=52.2
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccc
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASE 63 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~ 63 (145)
|++||.|+++.|+. |+.||+|||||||+|.+.+.|.+|++..| -.|+||+-.|.+|.-
T Consensus 33 FeqfGeI~eavvit---d~~t~rskGyGfVTf~d~~aa~rAc~dp~-piIdGR~aNcnlA~l 90 (247)
T KOG0149|consen 33 FEQFGEIVEAVVIT---DKNTGRSKGYGFVTFRDAEAATRACKDPN-PIIDGRKANCNLASL 90 (247)
T ss_pred HHHhCceEEEEEEe---ccCCccccceeeEEeecHHHHHHHhcCCC-Ccccccccccchhhh
Confidence 89999999999996 89999999999999999999999996554 578999999998765
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=99.10 E-value=2.6e-10 Score=94.70 Aligned_cols=61 Identities=38% Similarity=0.671 Sum_probs=56.6
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
+|++||.|..|.++. |+.+|+++|||||+|.+.++|..|+..|||..|.|+.|.|.|+...
T Consensus 206 ~f~~~G~i~~v~~~~---d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~~ 266 (457)
T TIGR01622 206 IFEPFGDIEDVQLHR---DPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDS 266 (457)
T ss_pred HHHhcCCeEEEEEEE---cCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccCC
Confidence 589999999999985 7788999999999999999999999999999999999999998743
No 24
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.10 E-value=1.6e-10 Score=94.59 Aligned_cols=60 Identities=32% Similarity=0.482 Sum_probs=54.6
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCee-CCeeeEEEEccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLA-CGRPLVVRLASE 63 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i-~gr~l~V~~a~~ 63 (145)
||++.|+|-++++|. |+.+|.+||||||+|.+.++|+.||+.||+++| .|+.|.|+.+..
T Consensus 103 lfEkiG~I~elRLMm---D~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Sva 163 (506)
T KOG0117|consen 103 LFEKIGKIYELRLMM---DPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVA 163 (506)
T ss_pred HHHhccceeeEEEee---cccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeee
Confidence 689999999999997 899999999999999999999999999999998 478888876543
No 25
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.09 E-value=8.8e-11 Score=94.46 Aligned_cols=57 Identities=42% Similarity=0.793 Sum_probs=53.5
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEE
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRL 60 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~ 60 (145)
.|.+||+|.+|.+-| |+.|++++||+||+|+-+|.|..|++.|||..++||.|+|..
T Consensus 133 AF~PFGPIKSInMSW---Dp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr 189 (544)
T KOG0124|consen 133 AFDPFGPIKSINMSW---DPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 189 (544)
T ss_pred hccCCCCcceeeccc---ccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence 388999999998875 899999999999999999999999999999999999999974
No 26
>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=99.07 E-value=2.3e-10 Score=97.58 Aligned_cols=62 Identities=18% Similarity=0.399 Sum_probs=57.3
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
+|++||.|.+|+|+. |..|++++|||||+|.+.++|.+||..+|+..|.|+.|.|.|+...+
T Consensus 20 ~F~~~G~v~~v~v~~---d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~ 81 (562)
T TIGR01628 20 LFKPFGPVLSVRVCR---DSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDP 81 (562)
T ss_pred HHHhcCCEEEEEEEe---cCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccccc
Confidence 589999999999985 78899999999999999999999999999999999999999986544
No 27
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.06 E-value=2.8e-10 Score=85.03 Aligned_cols=60 Identities=27% Similarity=0.509 Sum_probs=53.6
Q ss_pred CCCC-cceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 2 FSPY-GKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 2 Fs~~-G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
|.+| |.+..+++- |+..||.|+|||||+|++.+.|..|-+.||++.|.++.|.|.+-.|.
T Consensus 70 ~~q~~g~v~r~rls---RnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe 130 (214)
T KOG4208|consen 70 FRQFGGTVTRFRLS---RNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE 130 (214)
T ss_pred hhhcCCeeEEEEee---cccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence 5666 677766664 68899999999999999999999999999999999999999998887
No 28
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.06 E-value=1.1e-10 Score=95.17 Aligned_cols=65 Identities=38% Similarity=0.615 Sum_probs=57.9
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCe-eCC--eeeEEEEccccchhhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRL-ACG--RPLVVRLASEKYLEDA 69 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~-i~g--r~l~V~~a~~~~~~~~ 69 (145)
+|++||.|.++.|+. |+ .|.+|||+||.|.+.+-|..||+.|||.. +.| .+|.|+||.+++++..
T Consensus 144 iFs~fG~Ied~~ilr---d~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkdk~~ 211 (510)
T KOG0144|consen 144 IFSRFGHIEDCYILR---DP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKDKDG 211 (510)
T ss_pred HHHhhCccchhhhee---cc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCCchH
Confidence 599999999999995 55 68899999999999999999999999976 444 8999999999988765
No 29
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.05 E-value=5e-10 Score=86.69 Aligned_cols=61 Identities=25% Similarity=0.484 Sum_probs=56.9
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
||++||.|..++|+ ||..|.+.|||+||++.+-++|.-||..|||+.+.+|.|.|.|-..+
T Consensus 298 lFgpFGAv~nVKvi---rD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtnk 358 (360)
T KOG0145|consen 298 LFGPFGAVTNVKVI---RDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTNK 358 (360)
T ss_pred HhCcccceeeEEEE---ecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecCC
Confidence 69999999999999 48999999999999999999999999999999999999999986543
No 30
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.04 E-value=4.1e-10 Score=94.62 Aligned_cols=62 Identities=19% Similarity=0.375 Sum_probs=57.2
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
+|+.||.|..+.|+. |+.+|.++|||||+|.+.++|..||..|||..|+|+.|.|.++....
T Consensus 315 ~f~~~G~i~~~~~~~---~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~~ 376 (509)
T TIGR01642 315 LLESFGDLKAFNLIK---DIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGA 376 (509)
T ss_pred HHHhcCCeeEEEEEe---cCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccCC
Confidence 589999999999985 67899999999999999999999999999999999999999987543
No 31
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.03 E-value=2.9e-10 Score=94.31 Aligned_cols=66 Identities=30% Similarity=0.524 Sum_probs=61.5
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLEDA 69 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~~ 69 (145)
+|+..|.|.++++++ |+.||+++||||++|.+.++|..|++.|||..+.||+|+|.|+........
T Consensus 38 ~~~~~g~v~s~~~v~---D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~~~~~~ 103 (435)
T KOG0108|consen 38 IFSGVGPVLSFRLVY---DRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNRKNAER 103 (435)
T ss_pred HHhccCccceeeecc---cccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccccchhHH
Confidence 488999999999997 799999999999999999999999999999999999999999988876553
No 32
>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=99.00 E-value=1.8e-09 Score=67.41 Aligned_cols=53 Identities=38% Similarity=0.644 Sum_probs=47.7
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeE
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLV 57 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~ 57 (145)
+|+.||.|..+.++. ++. |.++|+|||+|.+.++|..|+..+++..|.|+.|.
T Consensus 18 ~f~~~g~v~~v~~~~---~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 18 FFSRFGPVEKVRLIK---NKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp HCTTSSBEEEEEEEE---STT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred HHHhcCCcceEEEEe---eec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 488999999999986 444 78999999999999999999999999999999874
No 33
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.99 E-value=4.1e-10 Score=79.46 Aligned_cols=65 Identities=28% Similarity=0.417 Sum_probs=59.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
.|..||+|..+.+-. |..||-.+||++|+|++.++|+.||..+||..|.|..|.|.|+.-+.+..
T Consensus 92 ~F~dyGeiKNihLNL---DRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~gp~~ 156 (170)
T KOG0130|consen 92 KFADYGEIKNIHLNL---DRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVKGPER 156 (170)
T ss_pred HHhhcccccceeecc---ccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEecCCcc
Confidence 489999999988875 78899999999999999999999999999999999999999988776544
No 34
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.99 E-value=9.6e-10 Score=85.32 Aligned_cols=59 Identities=27% Similarity=0.357 Sum_probs=54.0
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
.|++||+|.+|||.. -+||+||.|.+.|.|.+||..||+..|.|+.++|.|.+......
T Consensus 184 ~Fs~fG~I~EVRvFk---------~qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~~~~~ 242 (321)
T KOG0148|consen 184 TFSPFGPIQEVRVFK---------DQGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEGDDGI 242 (321)
T ss_pred hcccCCcceEEEEec---------ccceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccCCCCC
Confidence 499999999999985 47999999999999999999999999999999999988776554
No 35
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=98.99 E-value=4.2e-10 Score=82.35 Aligned_cols=59 Identities=31% Similarity=0.494 Sum_probs=51.9
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLE 67 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~ 67 (145)
+|..||+|.+|-|-. .+.|||||+|+++.+|+.|+..|||..|+|..|.|+++...+..
T Consensus 30 ~F~~yG~lrsvWvAr--------nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~r~ 88 (195)
T KOG0107|consen 30 AFSKYGPLRSVWVAR--------NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRPRG 88 (195)
T ss_pred HHHhcCcceeEEEee--------cCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCccc
Confidence 489999999876653 26899999999999999999999999999999999998877653
No 36
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.99 E-value=8.8e-10 Score=92.63 Aligned_cols=65 Identities=26% Similarity=0.320 Sum_probs=55.8
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
+|++||.|.+|.|+....+..++..+||+||+|.+.++|..||..|||..|.|+.|.|.|.....
T Consensus 439 ~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~v~~~~~~~~~ 503 (509)
T TIGR01642 439 EFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVVVAAFYGEDC 503 (509)
T ss_pred HHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEeCHHH
Confidence 38899999999998632344556778999999999999999999999999999999999976643
No 37
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=98.98 E-value=2e-09 Score=89.38 Aligned_cols=61 Identities=23% Similarity=0.431 Sum_probs=55.5
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
+|++||.|.+|+|+. |+.+|+++|||||+|.+.++|.+|| .|+|..|.|++|.|.++....
T Consensus 109 ~F~~~G~v~~v~i~~---d~~~~~skg~afVeF~~~e~A~~Al-~l~g~~~~g~~i~v~~~~~~~ 169 (457)
T TIGR01622 109 FFSKVGKVRDVQCIK---DRNSRRSKGVAYVEFYDVESVIKAL-ALTGQMLLGRPIIVQSSQAEK 169 (457)
T ss_pred HHHhcCCeeEEEEee---cCCCCCcceEEEEEECCHHHHHHHH-HhCCCEECCeeeEEeecchhh
Confidence 589999999999996 7889999999999999999999999 599999999999999876543
No 38
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=98.98 E-value=5.5e-10 Score=78.09 Aligned_cols=65 Identities=23% Similarity=0.326 Sum_probs=56.8
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
||+++|.|..|.+-. |..+-.+.|||||+|.+.++|..|++.++|+.++.++|.|.|...-...+
T Consensus 56 LFs~cG~irriiMGL---dr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~GF~eGR 120 (153)
T KOG0121|consen 56 LFSKCGDIRRIIMGL---DRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAGFVEGR 120 (153)
T ss_pred HHHhccchheeEecc---ccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccccchhhh
Confidence 699999998875544 77888899999999999999999999999999999999999876654444
No 39
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.98 E-value=7.1e-10 Score=92.87 Aligned_cols=64 Identities=34% Similarity=0.510 Sum_probs=57.2
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
+|+.||.|.+|.|+. ...|+.+|||||.|....+|..||+.|||..|+||+|.|.||.++....
T Consensus 137 vFs~~G~V~Ei~IP~----k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye 200 (678)
T KOG0127|consen 137 VFSNFGKVVEIVIPR----KKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYE 200 (678)
T ss_pred HHhhcceEEEEEccc----CCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeeccccccc
Confidence 599999999999874 3456677999999999999999999999999999999999999986555
No 40
>PLN03120 nucleic acid binding protein; Provisional
Probab=98.96 E-value=1.4e-09 Score=84.44 Aligned_cols=58 Identities=16% Similarity=0.198 Sum_probs=51.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
+|+.||.|.+|.|+. |. .++|||||+|.++++|..|| .|||..|.|+.|.|.++..-.
T Consensus 24 fFS~~G~I~~V~I~~---d~---~~~GfAFVtF~d~eaAe~Al-lLnG~~l~gr~V~Vt~a~~~~ 81 (260)
T PLN03120 24 FFSFSGDIEYVEMQS---EN---ERSQIAYVTFKDPQGAETAL-LLSGATIVDQSVTITPAEDYQ 81 (260)
T ss_pred HHHhcCCeEEEEEee---cC---CCCCEEEEEeCcHHHHHHHH-HhcCCeeCCceEEEEeccCCC
Confidence 599999999999985 33 25799999999999999999 599999999999999987543
No 41
>smart00362 RRM_2 RNA recognition motif.
Probab=98.95 E-value=2.1e-09 Score=65.59 Aligned_cols=54 Identities=39% Similarity=0.665 Sum_probs=47.8
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEE
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVR 59 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~ 59 (145)
+|.+||.|..+.+.. ++ +.++|+|||+|.+.++|..|+..+++..+.|+.|.|+
T Consensus 19 ~~~~~g~v~~~~~~~---~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 19 LFSKFGPIESVKIPK---DT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred HHHhcCCEEEEEEec---CC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 478999999998885 33 6789999999999999999999999999999998873
No 42
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.92 E-value=5.2e-10 Score=86.87 Aligned_cols=62 Identities=27% Similarity=0.423 Sum_probs=57.8
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
+|-+||.|++.+|.. |..|..||+|+||.|.++..+..||..|||+.|+-++|+|.+-+|+.
T Consensus 305 mF~PFGhivSaKVFv---DRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRPkd 366 (371)
T KOG0146|consen 305 MFLPFGHIVSAKVFV---DRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRPKD 366 (371)
T ss_pred Hhccccceeeeeeee---hhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCccc
Confidence 588999999999987 78899999999999999999999999999999999999999877764
No 43
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.90 E-value=2.8e-09 Score=80.16 Aligned_cols=60 Identities=33% Similarity=0.623 Sum_probs=55.7
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASE 63 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~ 63 (145)
+|.+||.|..+.+.. |+.+|.++|||||+|.+.++|..|+..++|..|.|++|.|.++.+
T Consensus 135 ~F~~~g~~~~~~~~~---d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~ 194 (306)
T COG0724 135 LFKKFGPVKRVRLVR---DRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP 194 (306)
T ss_pred HHHhcCceeEEEeee---ccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence 488999999999986 678999999999999999999999999999999999999999764
No 44
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.90 E-value=1.4e-09 Score=82.22 Aligned_cols=62 Identities=27% Similarity=0.393 Sum_probs=57.3
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
||++||+|.+|... .+.+.||-|||.|.+.+.|..|++.|+|+.|.|+++.|.||+.+.+.-
T Consensus 33 LFsqfG~ildI~a~------kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii 94 (221)
T KOG4206|consen 33 LFSQFGKILDISAF------KTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDII 94 (221)
T ss_pred HHHhhCCeEEEEec------CCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchh
Confidence 69999999998776 477899999999999999999999999999999999999999987665
No 45
>PLN03213 repressor of silencing 3; Provisional
Probab=98.89 E-value=2.1e-09 Score=89.47 Aligned_cols=62 Identities=29% Similarity=0.520 Sum_probs=54.9
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccH--HHHHHHHHHhcCCeeCCeeeEEEEccccchhhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTK--EEAKLAKEKMHGRLACGRPLVVRLASEKYLEDA 69 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~--e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~~ 69 (145)
+|+.||.|.++.|+. .+| ||||||+|... .++.+||..|||..+.|+.|+|..|++....+-
T Consensus 30 vFSeFGsVkdVEIpR-----ETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP~YLeRL 93 (759)
T PLN03213 30 IFSPMGTVDAVEFVR-----TKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKEHYLARL 93 (759)
T ss_pred HHHhcCCeeEEEEec-----ccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccHHHHHHH
Confidence 499999999999983 466 99999999987 789999999999999999999999999865543
No 46
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.88 E-value=3.7e-09 Score=89.02 Aligned_cols=57 Identities=26% Similarity=0.434 Sum_probs=51.8
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
||+.||.|.+|+|+. + .+|||||+|.+.++|..||..|||..|.|+.|.|.+++...
T Consensus 296 lF~~yG~V~~vki~~---~-----~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~~ 352 (481)
T TIGR01649 296 LFCVYGNVERVKFMK---N-----KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQN 352 (481)
T ss_pred HHHhcCCeEEEEEEe---C-----CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccccc
Confidence 699999999999985 2 37999999999999999999999999999999999987653
No 47
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.88 E-value=2.3e-09 Score=91.91 Aligned_cols=58 Identities=31% Similarity=0.428 Sum_probs=51.9
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeC-CeeeEEEEcc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLAC-GRPLVVRLAS 62 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~-gr~l~V~~a~ 62 (145)
+|++||.|.+++|+. | .+|++||||||+|.+.++|++||+.||+..|. |+.|.|.++.
T Consensus 78 ~F~~~G~I~~vrl~~---D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~ 136 (578)
T TIGR01648 78 LFEKAGPIYELRLMM---D-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISV 136 (578)
T ss_pred HHHhhCCEEEEEEEE---C-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccccc
Confidence 589999999999996 6 68999999999999999999999999999985 7887777654
No 48
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.87 E-value=2.1e-09 Score=87.87 Aligned_cols=64 Identities=25% Similarity=0.491 Sum_probs=56.7
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCe-eCC--eeeEEEEccccchh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRL-ACG--RPLVVRLASEKYLE 67 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~-i~g--r~l~V~~a~~~~~~ 67 (145)
+|++||.|.+|.|+. |+.||.++|||||.|.+.++|.+|+.+||... |-| ++|.|++|.....+
T Consensus 54 lFe~yg~V~einl~k---Dk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er 120 (510)
T KOG0144|consen 54 LFEKYGNVYEINLIK---DKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERER 120 (510)
T ss_pred HHHHhCceeEEEeec---ccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhc
Confidence 599999999999995 89999999999999999999999999998765 444 89999999887655
No 49
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.87 E-value=1.3e-09 Score=80.19 Aligned_cols=59 Identities=27% Similarity=0.412 Sum_probs=54.3
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLAS 62 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~ 62 (145)
||-+.|+|+++.++ +|..+..++|||||+|.+.|+|+-||+.||...|+|++|+|..+.
T Consensus 29 L~iqagpVv~i~iP---kDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas 87 (203)
T KOG0131|consen 29 LFIQAGPVVNLHIP---KDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS 87 (203)
T ss_pred HHHhcCceeeeecc---hhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence 46678999998886 589999999999999999999999999999999999999999887
No 50
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.85 E-value=4.3e-09 Score=88.01 Aligned_cols=64 Identities=31% Similarity=0.572 Sum_probs=57.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLE 67 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~ 67 (145)
+|++||+|..|.++. |..||+++|||||+|.+.++|.+|+..|||..|.|+.|+|.....+-..
T Consensus 298 ifepfg~Ie~v~l~~---d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~~~ 361 (549)
T KOG0147|consen 298 IFEPFGKIENVQLTK---DSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERVDT 361 (549)
T ss_pred hccCcccceeeeecc---ccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeeccc
Confidence 599999999998885 7789999999999999999999999999999999999999876554433
No 51
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=3e-09 Score=85.33 Aligned_cols=63 Identities=35% Similarity=0.472 Sum_probs=58.8
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccch
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYL 66 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~ 66 (145)
+|+.||+|.++.|+ ||..||.+-.|+||+|++.+.++.|...|++..|+.++|.|.|+..-..
T Consensus 259 IFSrFG~i~sceVI---RD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQSVsk 321 (479)
T KOG0415|consen 259 IFSRFGKIVSCEVI---RDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQSVSK 321 (479)
T ss_pred HHhhcccceeeeEE---ecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhhhhh
Confidence 69999999999999 4899999999999999999999999999999999999999999876544
No 52
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.80 E-value=1.4e-08 Score=68.78 Aligned_cols=60 Identities=28% Similarity=0.283 Sum_probs=52.9
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccch
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYL 66 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~ 66 (145)
||++||.|..|+|-. +...+|-|||.|++..+|.+|+..|+|+.++++.+.|-+-.+...
T Consensus 38 lFGkyg~IrQIRiG~------~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~~~ 97 (124)
T KOG0114|consen 38 LFGKYGTIRQIRIGN------TKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPEDA 97 (124)
T ss_pred HhhcccceEEEEecC------ccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHHHH
Confidence 699999999999963 344689999999999999999999999999999999998766543
No 53
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.79 E-value=1e-08 Score=87.90 Aligned_cols=56 Identities=27% Similarity=0.470 Sum_probs=50.5
Q ss_pred CCCCC--cceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchh
Q 032211 1 MFSPY--GKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLE 67 (145)
Q Consensus 1 lFs~~--G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~ 67 (145)
+|++| |.|.+|+++ ++||||+|.+.++|.+||+.|||..|.|+.|.|.|+.+....
T Consensus 253 ~F~~f~~G~I~rV~~~-----------rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~~~ 310 (578)
T TIGR01648 253 SFSEFKPGKVERVKKI-----------RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVDKK 310 (578)
T ss_pred HHHhcCCCceEEEEee-----------cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCCcc
Confidence 48999 999998775 579999999999999999999999999999999999886443
No 54
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=98.74 E-value=3.9e-08 Score=60.18 Aligned_cols=56 Identities=36% Similarity=0.663 Sum_probs=48.4
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEE
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRL 60 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~ 60 (145)
+|..||.|..+.+.. ++.+ .++|+|||+|.+.++|..|+..+++..+.|+.+.|.+
T Consensus 19 ~~~~~g~i~~~~~~~---~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 19 LFSKFGKVESVRIVR---DKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred HHHhcCCEEEEEEee---CCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 367889999998885 3333 6789999999999999999999999999999998864
No 55
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.73 E-value=2.5e-08 Score=73.95 Aligned_cols=59 Identities=27% Similarity=0.321 Sum_probs=51.8
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
||.+||.|.+|.+-. .-...+||||+|+++.+|+.||..-||+.++|..|.|+|+....
T Consensus 26 lFyKyg~i~~ieLK~------r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr 84 (241)
T KOG0105|consen 26 LFYKYGRIREIELKN------RPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGR 84 (241)
T ss_pred HHhhhcceEEEEecc------CCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCC
Confidence 699999999988753 12246899999999999999999999999999999999988765
No 56
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.71 E-value=1.6e-08 Score=83.12 Aligned_cols=58 Identities=26% Similarity=0.464 Sum_probs=52.2
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLEDA 69 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~~ 69 (145)
+|++||.|..|+.+ |-||||+|.+.++|.+|++.|||+.|+|..|.|.+|+|....+.
T Consensus 279 ~F~~~G~veRVkk~-----------rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~k~k~ 336 (506)
T KOG0117|consen 279 LFNEFGKVERVKKP-----------RDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVDKKKK 336 (506)
T ss_pred HHHhccceEEeecc-----------cceeEEeecchHHHHHHHHHhcCceecCceEEEEecCChhhhcc
Confidence 58999999988775 45999999999999999999999999999999999999866553
No 57
>PLN03121 nucleic acid binding protein; Provisional
Probab=98.70 E-value=3.2e-08 Score=76.11 Aligned_cols=56 Identities=14% Similarity=0.214 Sum_probs=49.3
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASE 63 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~ 63 (145)
+|+.||+|.+|.|+. | +..+|||||+|.+++.++.|+ .|||..|.+++|.|..+..
T Consensus 25 fFS~~G~I~~V~I~~---D---~et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~~ 80 (243)
T PLN03121 25 FFSHCGAIEHVEIIR---S---GEYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWGQ 80 (243)
T ss_pred HHHhcCCeEEEEEec---C---CCcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCcc
Confidence 599999999999985 3 345689999999999999999 8999999999999987553
No 58
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.69 E-value=3.5e-08 Score=83.16 Aligned_cols=56 Identities=18% Similarity=0.244 Sum_probs=49.6
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHh--cCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKM--HGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~l--ng~~i~gr~l~V~~a~~~~ 65 (145)
+|++||.|.++.++. ++|||||+|.+.++|..||..+ |+..|.|++|.|.|+..+.
T Consensus 22 ~f~~fG~V~~v~i~~---------~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~ 79 (481)
T TIGR01649 22 ALIPFGPVSYVMMLP---------GKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQE 79 (481)
T ss_pred HHHhcCCeeEEEEEC---------CCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCcc
Confidence 589999999999883 4789999999999999999864 7899999999999987653
No 59
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.65 E-value=1.3e-08 Score=87.38 Aligned_cols=65 Identities=28% Similarity=0.455 Sum_probs=57.2
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
||..||.|.+++|+. -...+-+||||||+|.++.+|.+|+.+|.++.|+||.|+++||.......
T Consensus 633 LF~aFGqlksvRlPK---K~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d~~~e 697 (725)
T KOG0110|consen 633 LFTAFGQLKSVRLPK---KIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKSDNTME 697 (725)
T ss_pred HHhcccceeeeccch---hhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhccchHHH
Confidence 699999999999985 12345679999999999999999999999999999999999999876543
No 60
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.64 E-value=1.9e-08 Score=78.84 Aligned_cols=54 Identities=26% Similarity=0.490 Sum_probs=50.9
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
||++||+|.+++|+ |.||||+.++...|..||..|||+.|.|..|.|+-++.+.
T Consensus 22 lFe~ygkVlECDIv-----------KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKs 75 (346)
T KOG0109|consen 22 LFEQYGKVLECDIV-----------KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKS 75 (346)
T ss_pred HHHhhCceEeeeee-----------cccceEEeecccccHHHHhhcccceecceEEEEEeccccC
Confidence 69999999999998 5899999999999999999999999999999999988873
No 61
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.62 E-value=2.4e-08 Score=73.65 Aligned_cols=65 Identities=35% Similarity=0.711 Sum_probs=57.0
Q ss_pred CCCCCcceeEE-EEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSE-DFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~-~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
+|+.||.|... .|+ ||+.||.++||+||.|.+.+.+..|+..|||..+..+++.|.++..+....
T Consensus 116 tFsafG~l~~~P~i~---rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~~~kg 181 (203)
T KOG0131|consen 116 TFSAFGVLISPPKIM---RDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFKKDTKG 181 (203)
T ss_pred HHHhccccccCCccc---ccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEecCCCc
Confidence 48999998764 445 589999999999999999999999999999999999999999988765443
No 62
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.59 E-value=7.8e-08 Score=78.71 Aligned_cols=62 Identities=32% Similarity=0.553 Sum_probs=54.9
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
+|+.||.|++|++.. |. .| ++|| ||+|++.++|.+||..+||..+.++.|.|.....+..+.
T Consensus 96 ~f~~~g~ilS~kv~~---~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~ 157 (369)
T KOG0123|consen 96 TFSEFGNILSCKVAT---DE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEERE 157 (369)
T ss_pred HHHhhcCeeEEEEEE---cC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhc
Confidence 489999999999996 33 44 9999 999999999999999999999999999998887776544
No 63
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.58 E-value=9.4e-08 Score=78.24 Aligned_cols=61 Identities=20% Similarity=0.352 Sum_probs=55.6
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLE 67 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~ 67 (145)
+|+++|+|+++++.. |. | +-|||||.|.++++|.+||.+||...|.|++|.|-|+...+..
T Consensus 18 ~f~~~~~v~s~rvc~---d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~~~ 78 (369)
T KOG0123|consen 18 KFSPAGPVLSIRVCR---DA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDPSL 78 (369)
T ss_pred HhcccCCceeEEEee---cC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCCce
Confidence 599999999999995 66 5 9999999999999999999999999999999999998876543
No 64
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.54 E-value=7.8e-08 Score=75.48 Aligned_cols=54 Identities=22% Similarity=0.488 Sum_probs=50.4
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
.|.+||+|++++|+ ++|+||.|.-.++|..||+.||++.|.|++|+|.++..+-
T Consensus 98 ~fe~ygpviecdiv-----------kdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrl 151 (346)
T KOG0109|consen 98 KFEKYGPVIECDIV-----------KDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRL 151 (346)
T ss_pred hhcccCCceeeeee-----------cceeEEEEeeccchHHHHhcccccccccceeeeeeecccc
Confidence 48999999999998 6899999999999999999999999999999999987763
No 65
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.53 E-value=1.8e-07 Score=80.39 Aligned_cols=62 Identities=24% Similarity=0.503 Sum_probs=53.1
Q ss_pred CCCCCcceeEEEEeeccCCCCC-CCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKR-GVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASE 63 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~t-g~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~ 63 (145)
+|.++|.|.++.|..+ +|+.. -.|.|||||+|.+.++|..|++.|+|+.|+|+.|.|+++..
T Consensus 535 ~F~k~G~VlS~~I~kk-kd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~ 597 (725)
T KOG0110|consen 535 LFSKQGTVLSIEISKK-KDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISEN 597 (725)
T ss_pred HHHhcCeEEEEEEecc-ccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccC
Confidence 3788999999988864 33322 24679999999999999999999999999999999999983
No 66
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.53 E-value=1.8e-07 Score=72.88 Aligned_cols=66 Identities=32% Similarity=0.574 Sum_probs=57.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCee-C--CeeeEEEEccccchhhhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLA-C--GRPLVVRLASEKYLEDAA 70 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i-~--gr~l~V~~a~~~~~~~~~ 70 (145)
+|..||.|.++.++. .+ .|.+|||+||-|.+..+|..||..|||..- - ...|+|+|+..++.+..+
T Consensus 39 lf~pfG~~~e~tvlr---g~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ADTdkER~lR 107 (371)
T KOG0146|consen 39 LFQPFGNIEECTVLR---GP-DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFADTDKERTLR 107 (371)
T ss_pred HhcccCCcceeEEec---CC-CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEeccchHHHHHH
Confidence 689999999999984 44 688999999999999999999999998774 3 378999999998777643
No 67
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.51 E-value=1.1e-07 Score=79.87 Aligned_cols=65 Identities=23% Similarity=0.293 Sum_probs=59.5
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
+|+.+|+|..+.++. ++.++.+|||+||+|.-.+|+++|+...++..|.|+.|.|.+|..+....
T Consensus 25 ~FS~vGPik~~~vVt---~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r~e 89 (678)
T KOG0127|consen 25 FFSYVGPIKHAVVVT---NKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRARSE 89 (678)
T ss_pred hhhcccCcceeEEec---CCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccccccch
Confidence 599999999999986 68888999999999999999999999999999999999999998876554
No 68
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.40 E-value=7.8e-08 Score=74.20 Aligned_cols=61 Identities=20% Similarity=0.451 Sum_probs=51.2
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
|.+|-.....+++ ||..||+++||+||.|.++.++..|+++|||..++.|+|.++-+.++.
T Consensus 211 f~Kfpsf~~akvi---RdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~wke 271 (290)
T KOG0226|consen 211 FKKFPSFQKAKVI---RDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSEWKE 271 (290)
T ss_pred HHhccchhhcccc---ccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhhHHh
Confidence 4455555556666 588999999999999999999999999999999999999988766654
No 69
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.30 E-value=5e-07 Score=73.09 Aligned_cols=64 Identities=25% Similarity=0.316 Sum_probs=57.0
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLE 67 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~ 67 (145)
+|+.||+|..|.+- |++.++.+|||||++|.+...-..||..||-+.++|.-|+|-.+...+..
T Consensus 230 VFEAFG~I~~C~LA---r~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vTPP~a 293 (544)
T KOG0124|consen 230 VFEAFGEIVKCQLA---RAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPPDA 293 (544)
T ss_pred HHHhhcceeeEEee---ccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecccccCCCch
Confidence 48899999999998 58888999999999999999999999999999999999999876665443
No 70
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.20 E-value=2e-06 Score=74.39 Aligned_cols=68 Identities=13% Similarity=0.361 Sum_probs=60.1
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhhh
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLEDA 69 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~~ 69 (145)
|+.||+|.+++|+|...+....+.+-|+||.|.+..+|++|++.|+|..+.++.+++-|++.-+....
T Consensus 195 fGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWgk~V~ip~~ 262 (877)
T KOG0151|consen 195 FGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWGKAVPIPNI 262 (877)
T ss_pred hcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeeccccccccCCc
Confidence 88999999999999655555667789999999999999999999999999999999999977665553
No 71
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.11 E-value=1.5e-06 Score=69.65 Aligned_cols=63 Identities=22% Similarity=0.392 Sum_probs=55.3
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
|++||.|.++.++. |+.++++|||+||+|.+.+....+| ...-+.|+|+.|.++.|.++....
T Consensus 27 f~~~Gev~d~~vm~---d~~t~rsrgFgfv~f~~~~~v~~vl-~~~~h~~dgr~ve~k~av~r~~~~ 89 (311)
T KOG4205|consen 27 FSQFGEVTDCVVMR---DPSTGRSRGFGFVTFATPEGVDAVL-NARTHKLDGRSVEPKRAVSREDQT 89 (311)
T ss_pred hcccCceeeEEEec---cCCCCCcccccceecCCCcchheee-cccccccCCccccceeccCccccc
Confidence 78999999999995 8999999999999999988888877 455678999999999999986555
No 72
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.10 E-value=5.8e-06 Score=68.33 Aligned_cols=57 Identities=28% Similarity=0.465 Sum_probs=51.3
Q ss_pred CCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 4 PYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 4 ~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
+.|.|..|.++++ .+|++|||+.|+|.++|.+++|++.||.+.+.||+|+|+-....
T Consensus 68 kvGev~yveLl~D----~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d~ 124 (608)
T KOG4212|consen 68 KVGEVEYVELLFD----ESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHDE 124 (608)
T ss_pred hcCceEeeeeecc----cCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCch
Confidence 5789999999873 58999999999999999999999999999999999999965553
No 73
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.10 E-value=3.8e-06 Score=73.20 Aligned_cols=59 Identities=25% Similarity=0.397 Sum_probs=54.2
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
+|+.||.|.+|.++. +||||||.+....+|.+|+..|+.+.+.++.|+|.||.....+.
T Consensus 441 ~feefGeiqSi~li~---------~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~ks 499 (894)
T KOG0132|consen 441 LFEEFGEIQSIILIP---------PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGPKS 499 (894)
T ss_pred HHHhcccceeEeecc---------CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCcch
Confidence 589999999998874 69999999999999999999999999999999999999886655
No 74
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.07 E-value=6e-06 Score=66.26 Aligned_cols=53 Identities=32% Similarity=0.478 Sum_probs=47.0
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHH-hcCCeeCCeeeEEEEccc
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEK-MHGRLACGRPLVVRLASE 63 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~-lng~~i~gr~l~V~~a~~ 63 (145)
|.+||.|.+++++. .++||||+|.+.+.|+.|... +|-..|.|++|.|.|+.+
T Consensus 249 FyqyGeirsi~~~~---------~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 249 FYQYGEIRSIRILP---------RKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred HhhcCCeeeEEeec---------ccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 88999999999984 368999999999999998754 677778999999999998
No 75
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.99 E-value=5.7e-06 Score=66.27 Aligned_cols=64 Identities=19% Similarity=0.379 Sum_probs=57.3
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhhh
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLEDA 69 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~~ 69 (145)
|.+||.|..+.+++ |..+.+++||+||+|.+.+.+.+++ ....+.|.++.+.|+.|.|+.....
T Consensus 118 fe~~g~v~~~~~~~---d~~~~~~rgFgfv~~~~e~sVdkv~-~~~f~~~~gk~vevkrA~pk~~~~~ 181 (311)
T KOG4205|consen 118 FEQFGKVADVVIMY---DKTTSRPRGFGFVTFDSEDSVDKVT-LQKFHDFNGKKVEVKRAIPKEVMQS 181 (311)
T ss_pred hhccceeEeeEEee---cccccccccceeeEeccccccceec-ccceeeecCceeeEeeccchhhccc
Confidence 88999999998887 7889999999999999999988887 6678899999999999999977663
No 76
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.90 E-value=1.2e-05 Score=68.25 Aligned_cols=58 Identities=31% Similarity=0.536 Sum_probs=49.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeC-CeeeEEEEcc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLAC-GRPLVVRLAS 62 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~-gr~l~V~~a~ 62 (145)
+|+++|+|+.+.++. |+.+| .+||.|++|.+..+|+.|++.|||+.|+ .+.+.|..-.
T Consensus 84 vfsk~gk~vn~~~P~---~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~~f~ 142 (698)
T KOG2314|consen 84 VFSKAGKIVNMYYPI---DEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVRLFK 142 (698)
T ss_pred HHHhhccccceeecc---CccCC-eeeEEEEEecChhhHHHHHHhcccceecccceEEeehhh
Confidence 589999999877664 66555 8999999999999999999999999996 5788877543
No 77
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.86 E-value=2.2e-05 Score=60.56 Aligned_cols=59 Identities=29% Similarity=0.424 Sum_probs=53.2
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
|+.||.|..+.|+. |..+|.++||+||+|.+.+.+..++. |||..|.|+.+.|.+....
T Consensus 122 f~~Cg~i~~~ti~~---d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r~~ 180 (231)
T KOG4209|consen 122 FESCGGINRVTVPK---DKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKRTN 180 (231)
T ss_pred eeccCCccceeeec---cccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeeeee
Confidence 78899998888886 67888899999999999999999997 9999999999999976665
No 78
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.66 E-value=4.5e-05 Score=64.36 Aligned_cols=98 Identities=19% Similarity=0.282 Sum_probs=70.0
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhhhhhcCccccCC-
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLEDAAQNSSKAVGE- 79 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~~~~~~~~~~~~- 79 (145)
+|+.+|+|.+|+||. |..+++++|.+||+|.+.+....|| .|.|..+.|.+|.|.......... +........
T Consensus 199 fFs~~gkVrdVriI~---Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq~sEaeknr~--a~~s~a~~~k 272 (549)
T KOG0147|consen 199 FFSIVGKVRDVRIIG---DRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQLSEAEKNRA--ANASPALQGK 272 (549)
T ss_pred HHHhhcCcceeEeec---cccchhhcceeEEEEecccchhhHh-hhcCCcccCceeEecccHHHHHHH--Hhcccccccc
Confidence 589999999999996 7889999999999999999999998 999999999999999766554442 222222221
Q ss_pred --CCCCC-CCCCCCCCCCHHHHHHHHHH
Q 032211 80 --ANKTG-FVGGTSGQMNRSAKIAAIKN 104 (145)
Q Consensus 80 --~~~~~-~~~~~~~~~~~~~~i~a~e~ 104 (145)
..|.. +..+.-....++.++..|.+
T Consensus 273 ~~~~p~~rl~vgnLHfNite~~lr~ife 300 (549)
T KOG0147|consen 273 GFTGPMRRLYVGNLHFNITEDMLRGIFE 300 (549)
T ss_pred ccccchhhhhhcccccCchHHHHhhhcc
Confidence 11222 23444444556666655543
No 79
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.63 E-value=0.00015 Score=58.43 Aligned_cols=55 Identities=24% Similarity=0.354 Sum_probs=47.7
Q ss_pred CCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 3 SPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 3 s~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
++||.|.+|.|.. ..+.|.+-|.|.+.++|..||+.|+|..|+||.|...+...+
T Consensus 298 ~K~G~v~~vvv~d-------~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~DG~ 352 (382)
T KOG1548|consen 298 EKFGQVRKVVVYD-------RHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIWDGK 352 (382)
T ss_pred HHhCCcceEEEec-------cCCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEeCCc
Confidence 4799999987762 236899999999999999999999999999999998876554
No 80
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.61 E-value=2.2e-05 Score=59.83 Aligned_cols=53 Identities=38% Similarity=0.679 Sum_probs=47.8
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
||..||.|.++.+. .||+||+|.+..+|..||..+|+..|.|-.+.|+++...
T Consensus 21 ~f~~yg~~~d~~mk-----------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~ 73 (216)
T KOG0106|consen 21 FFKGYGKIPDADMK-----------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred HHhhccccccceee-----------cccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 58899999988775 489999999999999999999999999988999998864
No 81
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.60 E-value=0.00019 Score=60.73 Aligned_cols=66 Identities=20% Similarity=0.293 Sum_probs=52.0
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchh
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLE 67 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~ 67 (145)
+++||.|.+|.|...--+..-.-.-|..||+|.+.+++++|+.+|+|..|.+|.++..|-......
T Consensus 430 c~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYydeDkY~ 495 (500)
T KOG0120|consen 430 CAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDEDKYH 495 (500)
T ss_pred hcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCHHHhh
Confidence 578999999888752112222334678999999999999999999999999999999887665443
No 82
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=97.59 E-value=0.0001 Score=57.17 Aligned_cols=63 Identities=21% Similarity=0.402 Sum_probs=54.4
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLE 67 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~ 67 (145)
||..||.+..+-+-+ |+ .|.+.|.|-|.|...++|..||+.+||..++|++|.+....+....
T Consensus 103 LF~~~~~~~r~~vhy---~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~~~~ 165 (243)
T KOG0533|consen 103 LFAEFGELKRVAVHY---DR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSPSQS 165 (243)
T ss_pred HHHHhccceEEeecc---CC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCcccc
Confidence 588999888887776 33 7889999999999999999999999999999999999876665443
No 83
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.55 E-value=0.00019 Score=57.83 Aligned_cols=62 Identities=29% Similarity=0.347 Sum_probs=47.3
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCcc--EEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRG--FAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG--~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
.|++||+|..|.|-. +-+...---+ -.||+|.+.++|.+||.+.+|..++||.|+..+...+
T Consensus 140 yFGQyGkI~KIvvNk--kt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~lkatYGTTK 203 (480)
T COG5175 140 YFGQYGKIKKIVVNK--KTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVLKATYGTTK 203 (480)
T ss_pred hhhhccceeEEEecc--cccccccccccceEEEEecchHHHHHHHHHhccccccCceEeeecCchH
Confidence 499999998876643 1111111122 2499999999999999999999999999999987765
No 84
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.47 E-value=0.00023 Score=58.51 Aligned_cols=58 Identities=28% Similarity=0.500 Sum_probs=51.3
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccch
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYL 66 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~ 66 (145)
||+-||.|..|+|+++ .+--|.|.|.+...|..|+..|+|+.++|+.|+|.+++-...
T Consensus 318 lFgvYGdVqRVkil~n--------kkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~v 375 (492)
T KOG1190|consen 318 LFGVYGDVQRVKILYN--------KKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNV 375 (492)
T ss_pred HHhhhcceEEEEeeec--------CCcceeeeecchhHHHHHHHHhhcceecCceEEEeeccCccc
Confidence 6999999999999973 235799999999999999999999999999999999876543
No 85
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.47 E-value=0.00011 Score=60.88 Aligned_cols=52 Identities=25% Similarity=0.415 Sum_probs=46.5
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEc
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLA 61 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a 61 (145)
|-.||.|..+.|+. .|+++| .|.|.++++|++|+..|||..++||.|.|.++
T Consensus 557 fre~G~v~yadime------~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~ 608 (608)
T KOG4212|consen 557 FREIGHVLYADIME------NGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTYF 608 (608)
T ss_pred HHhccceehhhhhc------cCCccc--eEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence 66789999888873 677888 89999999999999999999999999999874
No 86
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.16 E-value=9.6e-05 Score=62.49 Aligned_cols=49 Identities=24% Similarity=0.435 Sum_probs=43.3
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeE
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLV 57 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~ 57 (145)
+|+.||.|.+|+. |-..+|.+||+|.+..+|+.|+++||+..|.|+.|.
T Consensus 95 ~f~~yGeir~ir~--------t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 95 IFGAYGEIREIRE--------TPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred HHHhhcchhhhhc--------ccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 5899999998644 334689999999999999999999999999999888
No 87
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=97.15 E-value=0.0011 Score=44.46 Aligned_cols=53 Identities=15% Similarity=0.209 Sum_probs=43.3
Q ss_pred EeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeC----CeeeEEEEccccc
Q 032211 13 FLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLAC----GRPLVVRLASEKY 65 (145)
Q Consensus 13 i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~----gr~l~V~~a~~~~ 65 (145)
.++-|-|..++-+.|||||.|.+++.|..-.+.++|+.+. .+.+.|.+|+-..
T Consensus 32 F~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~yAriQG 88 (97)
T PF04059_consen 32 FFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEISYARIQG 88 (97)
T ss_pred EEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEehhHhhC
Confidence 3444457888899999999999999999999999999985 4677888887654
No 88
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=97.12 E-value=0.00095 Score=55.60 Aligned_cols=63 Identities=24% Similarity=0.337 Sum_probs=49.2
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLE 67 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~ 67 (145)
+|..||.|....|.. |.+ .++..+||||+|.+.+.++.||.+ +-..|+++.+.|+.-.+....
T Consensus 308 ~Fk~FG~Ik~~~I~v--r~~-~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek~~~~~g 370 (419)
T KOG0116|consen 308 VFKQFGPIKEGGIQV--RSP-GGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEKRPGFRG 370 (419)
T ss_pred HHhhcccccccceEE--ecc-CCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEeccccccc
Confidence 488999999988875 233 244449999999999999999965 477789999999976554333
No 89
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.00 E-value=0.0043 Score=47.63 Aligned_cols=44 Identities=20% Similarity=0.237 Sum_probs=38.6
Q ss_pred CccEEEEEEccHHHHHHHHHHhcCCeeC---CeeeEEEEccccchhh
Q 032211 25 PRGFAFIEYSTKEEAKLAKEKMHGRLAC---GRPLVVRLASEKYLED 68 (145)
Q Consensus 25 skG~~FV~f~~~e~A~~Ai~~lng~~i~---gr~l~V~~a~~~~~~~ 68 (145)
.+-+|||+|.+..+|..|+..|||..|+ +..|++++|+......
T Consensus 76 ~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElAKSNtK~k 122 (284)
T KOG1457|consen 76 CKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELAKSNTKRK 122 (284)
T ss_pred ccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeehhcCcccc
Confidence 3479999999999999999999999996 7899999998865544
No 90
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=96.87 E-value=0.00043 Score=58.59 Aligned_cols=63 Identities=22% Similarity=0.307 Sum_probs=55.6
Q ss_pred CCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 3 SPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 3 s~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
..||.+....++. |..+|.++||+|.+|.++-....|+..|||..+++..|+|..|.......
T Consensus 311 ~~fg~lk~f~lv~---d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~~~ 373 (500)
T KOG0120|consen 311 DSFGPLKAFRLVK---DSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGASNA 373 (500)
T ss_pred Hhcccchhheeec---ccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccchhc
Confidence 4688888888875 67789999999999999999999999999999999999999988875444
No 91
>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=96.85 E-value=0.0028 Score=41.49 Aligned_cols=40 Identities=23% Similarity=0.423 Sum_probs=30.1
Q ss_pred CccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 25 PRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 25 skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
+.+-|+|.|.+.+.|.+|.+.|+|..+.|+.|.|.|....
T Consensus 38 ~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~~ 77 (90)
T PF11608_consen 38 SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPKN 77 (90)
T ss_dssp -TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--S
T ss_pred eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCCc
Confidence 3588999999999999999999999999999999987444
No 92
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=96.68 E-value=0.0037 Score=49.67 Aligned_cols=60 Identities=22% Similarity=0.247 Sum_probs=47.1
Q ss_pred CCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 3 SPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 3 s~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
++||+|..|-|..++.-|..- .--.||+|...+.|-+|+--|||..|+||.+...|-.-.
T Consensus 308 eKyg~V~~viifeip~~p~de--avRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~e 367 (378)
T KOG1996|consen 308 EKYGKVGNVIIFEIPSQPEDE--AVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNLE 367 (378)
T ss_pred HhhcceeeEEEEecCCCccch--hheeeeeeccHHHHHHHHHhcCCceecceeeeheeccHH
Confidence 589999998887654333211 235799999999999999999999999999988775443
No 93
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=96.68 E-value=0.0044 Score=44.53 Aligned_cols=55 Identities=25% Similarity=0.483 Sum_probs=41.1
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
|..||.++=+|++. +.-.|+|.+-..|-+|+ .++|..+.|+.|.|++-.|.+...
T Consensus 57 ~~~~GevvLvRfv~-----------~~mwVTF~dg~sALaal-s~dg~~v~g~~l~i~LKtpdW~~~ 111 (146)
T PF08952_consen 57 FAQYGEVVLVRFVG-----------DTMWVTFRDGQSALAAL-SLDGIQVNGRTLKIRLKTPDWLKG 111 (146)
T ss_dssp HHCCS-ECEEEEET-----------TCEEEEESSCHHHHHHH-HGCCSEETTEEEEEEE--------
T ss_pred HHhCCceEEEEEeC-----------CeEEEEECccHHHHHHH-ccCCcEECCEEEEEEeCCccHHHH
Confidence 67899998888872 46799999999999998 899999999999999988887755
No 94
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=96.68 E-value=0.00061 Score=52.87 Aligned_cols=61 Identities=21% Similarity=0.352 Sum_probs=50.4
Q ss_pred CCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 4 PYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 4 ~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
+||.|.++.|.. ...-.-+|-++|.|...++|++|+..||+..|.|++|.+++..-.....
T Consensus 92 kygEiee~~Vc~----Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~re 152 (260)
T KOG2202|consen 92 KYGEIEELNVCD----NLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFRE 152 (260)
T ss_pred Hhhhhhhhhhhc----ccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchhh
Confidence 799999987763 2233468999999999999999999999999999999999876554443
No 95
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=96.39 E-value=0.0025 Score=48.74 Aligned_cols=59 Identities=14% Similarity=0.158 Sum_probs=48.9
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
||=+-|+|..+.|.. -..++.+ |+||.|.++-...-|++-+||..+.++.+.|.+-...
T Consensus 29 lfiqaGPV~kv~ip~----~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~ 87 (267)
T KOG4454|consen 29 LFIQAGPVYKVGIPS----GQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGN 87 (267)
T ss_pred HhhccCceEEEeCCC----CccCCCc-eeeeecccccchhhhhhhcccchhccchhhcccccCC
Confidence 355679999888763 3355667 9999999999999999999999999999999876554
No 96
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.36 E-value=0.0053 Score=49.67 Aligned_cols=60 Identities=25% Similarity=0.299 Sum_probs=49.0
Q ss_pred CCCCCcceeE--------EEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 1 MFSPYGKIVS--------EDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 1 lFs~~G~I~~--------~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
+|++||-|.. |++- ++. .|..+|=|.++|...+.+..|++.|++..|.|+.|.|+.|+=.
T Consensus 154 ~~sKcGiI~~d~~t~epk~KlY---rd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkfq 221 (382)
T KOG1548|consen 154 VMSKCGIIMRDPQTGEPKVKLY---RDN-QGKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKFQ 221 (382)
T ss_pred HHHhcceEeccCCCCCeeEEEE---ecC-CCCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhhh
Confidence 4778887743 3443 233 4888999999999999999999999999999999999987654
No 97
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=96.29 E-value=0.0026 Score=50.60 Aligned_cols=63 Identities=29% Similarity=0.452 Sum_probs=55.1
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
|..+|.|..+++.. ++.++..+||+||.|.....+..++.. ....+.++++.+.+..+.+...
T Consensus 206 ~~~~~~i~~~r~~~---~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 268 (285)
T KOG4210|consen 206 FVSSGEITSVRLPT---DEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPRPKSD 268 (285)
T ss_pred ccCcCcceeeccCC---CCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCCcccc
Confidence 67788999988875 678999999999999999999999866 7888999999999988876654
No 98
>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=96.16 E-value=0.011 Score=39.91 Aligned_cols=58 Identities=21% Similarity=0.288 Sum_probs=38.7
Q ss_pred CCCCcceeEEEEeeccCCCC------CCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeee-EEEEcc
Q 032211 2 FSPYGKIVSEDFLWHTRGPK------RGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPL-VVRLAS 62 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~------tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l-~V~~a~ 62 (145)
|++||.|.+..-+. ++.. .-....+..|+|.++.+|.+|| .-||..|.|..| -|.+..
T Consensus 26 F~~~G~Ile~~~~~--~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL-~~NG~i~~g~~mvGV~~~~ 90 (100)
T PF05172_consen 26 FSSFGTILEHFEVL--RSSSGINPYPIPSGGNWIHITYDNPLSAQRAL-QKNGTIFSGSLMVGVKPCD 90 (100)
T ss_dssp HHCCS-EECEEGGG------------E-CCTTEEEEEESSHHHHHHHH-TTTTEEETTCEEEEEEE-H
T ss_pred HHhcceEEEeeccc--ccccccccccCCCCCCEEEEECCCHHHHHHHH-HhCCeEEcCcEEEEEEEcH
Confidence 88999998764110 0000 0113578999999999999999 679999988644 577764
No 99
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=96.06 E-value=0.031 Score=45.97 Aligned_cols=58 Identities=26% Similarity=0.319 Sum_probs=48.0
Q ss_pred CCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCC--eeeEEEEccccchhh
Q 032211 3 SPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACG--RPLVVRLASEKYLED 68 (145)
Q Consensus 3 s~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~g--r~l~V~~a~~~~~~~ 68 (145)
.+.|+|..|.|+. .+| -.|.|+|++.+.|++|-.+|||..|+. -.|+|+||+|....-
T Consensus 144 np~GkVlRIvIfk-----kng---VQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~rlnV 203 (494)
T KOG1456|consen 144 NPQGKVLRIVIFK-----KNG---VQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTRLNV 203 (494)
T ss_pred CCCCceEEEEEEe-----ccc---eeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcceeee
Confidence 4679999988874 233 479999999999999999999999975 688999999986554
No 100
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=95.92 E-value=0.0034 Score=47.95 Aligned_cols=52 Identities=40% Similarity=0.632 Sum_probs=42.0
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcccc
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEK 64 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~ 64 (145)
|.+||.+....+ .++++||+|.+.+++..|+..+++..+.++.|.+......
T Consensus 120 ~~~~g~~~~~~~-----------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~~~~d 171 (216)
T KOG0106|consen 120 FRPAGEVTYVDA-----------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEKNSRD 171 (216)
T ss_pred hcccCCCchhhh-----------hccccceeehhhhhhhhcchhccchhhcCceeeecccCcc
Confidence 677787743222 4799999999999999999999999999999999544433
No 101
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=95.78 E-value=0.0055 Score=49.26 Aligned_cols=64 Identities=27% Similarity=0.339 Sum_probs=49.3
Q ss_pred CCCCcceeEEEEeeccCCCC--CC-CCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 2 FSPYGKIVSEDFLWHTRGPK--RG-VPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~--tg-~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
|.+||.|.+|.+.. ++. .+ ..-.-++|+|...++|..||...+|..++|+.++..+..++.-..
T Consensus 101 fgqygki~ki~~~~---~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka~~gttkycs~ 167 (327)
T KOG2068|consen 101 FGQYGKINKIVKNK---DPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKASLGTTKYCSF 167 (327)
T ss_pred ccccccceEEeecC---CcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHHhhCCCcchhH
Confidence 88999999987764 331 11 112237999999999999999999999999998888877765443
No 102
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=95.48 E-value=0.04 Score=45.29 Aligned_cols=59 Identities=19% Similarity=0.327 Sum_probs=50.8
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLE 67 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~ 67 (145)
||-.||.|..|++|.. -.|-|.|++.+....++|+..||+..+-|..|.|.+++.....
T Consensus 308 l~ClYGNV~rvkFmkT--------k~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~~v~ 366 (494)
T KOG1456|consen 308 LFCLYGNVERVKFMKT--------KPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQNFVS 366 (494)
T ss_pred hhhhcCceeeEEEeec--------ccceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccccccc
Confidence 5778999999999951 2578999999999999999999999999999999987765443
No 103
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=95.30 E-value=0.018 Score=34.28 Aligned_cols=33 Identities=21% Similarity=0.507 Sum_probs=27.3
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHH
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAK 43 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai 43 (145)
|..||.|..+.+. ....+.+|.|.+..+|++|+
T Consensus 21 F~~fGeI~~~~~~---------~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 21 FASFGEIVDIYVP---------ESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred HHhcCCEEEEEcC---------CCCcEEEEEECCHHHHHhhC
Confidence 7789999987663 13678999999999999885
No 104
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=94.81 E-value=0.013 Score=48.68 Aligned_cols=59 Identities=29% Similarity=0.393 Sum_probs=41.6
Q ss_pred CCCCCcceeEEEEeec---cCCCCCCCC--------ccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEE
Q 032211 1 MFSPYGKIVSEDFLWH---TRGPKRGVP--------RGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRL 60 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~---~rd~~tg~s--------kG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~ 60 (145)
||+.+|.|..|+|+.. +-|- .|.+ +-||||+|...+.|.+|.+.+|...-+..-|.|++
T Consensus 251 iFg~~G~IksIRIckPgaip~d~-r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~e~~wr~glkvkL 320 (484)
T KOG1855|consen 251 IFGTVGSIKSIRICKPGAIPEDV-RGFPKKYFELQTKECALVEYEEVEAARKARELLNPEQNWRMGLKVKL 320 (484)
T ss_pred HhhcccceeeeeecCCCCCCccc-ccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhchhhhhhhcchhhh
Confidence 6999999999999853 1111 1222 56899999999999999987765554444444443
No 105
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=94.81 E-value=0.019 Score=46.56 Aligned_cols=49 Identities=31% Similarity=0.445 Sum_probs=45.3
Q ss_pred CCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccch
Q 032211 18 RGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYL 66 (145)
Q Consensus 18 rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~ 66 (145)
+|+.|+.+||-|.|+|.++..|+.||..+++..|.+..|+|.+|.....
T Consensus 108 ~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~~r~~ 156 (351)
T KOG1995|consen 108 TDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAERRTG 156 (351)
T ss_pred ccccccCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhhhccC
Confidence 6889999999999999999999999999999999999999998877653
No 106
>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=94.28 E-value=0.078 Score=35.96 Aligned_cols=53 Identities=25% Similarity=0.432 Sum_probs=29.3
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCC-----eeCCeeeEEEEcc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGR-----LACGRPLVVRLAS 62 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~-----~i~gr~l~V~~a~ 62 (145)
+|++||.|.-|.+.. | ---|||.|.+++.|..|+..+.-. .|.+..+.++.-.
T Consensus 21 ~f~~~g~V~yVD~~~-------G--~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vLe 78 (105)
T PF08777_consen 21 AFSQFGEVAYVDFSR-------G--DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVLE 78 (105)
T ss_dssp HT-SS--EEEEE--T-------T---SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE---
T ss_pred HHHhcCCcceEEecC-------C--CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEECC
Confidence 488999988877752 2 247899999999999999876533 4556666655433
No 107
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=94.18 E-value=0.084 Score=40.38 Aligned_cols=54 Identities=19% Similarity=0.398 Sum_probs=45.4
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeC-CeeeEEEEcc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLAC-GRPLVVRLAS 62 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~-gr~l~V~~a~ 62 (145)
+|.+|.-..+++++. . -.+.+||+|.+...+..|...+.|..|. ...+.|.++.
T Consensus 166 lf~qf~g~keir~i~----~----~~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a~ 220 (221)
T KOG4206|consen 166 LFEQFPGFKEIRLIP----P----RSGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFAK 220 (221)
T ss_pred HHhhCcccceeEecc----C----CCceeEEecchhhhhHHHhhhhccceeccCceEEecccC
Confidence 477888888888873 1 3689999999999999999999999986 7888888764
No 108
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=93.69 E-value=0.13 Score=43.54 Aligned_cols=57 Identities=25% Similarity=0.328 Sum_probs=42.8
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
|+-++ |.++.+. ..+|++.|-|||+|.+.+++++|++ .|-..+..|-|.|--+.+..
T Consensus 31 f~~~~-I~~~~~~-----r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~~~e 87 (510)
T KOG4211|consen 31 FSNCG-IENLEIP-----RRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAGGAE 87 (510)
T ss_pred HhcCc-eeEEEEe-----ccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccCCcc
Confidence 44443 5665443 4579999999999999999999994 56667778888887775543
No 109
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=93.61 E-value=0.15 Score=36.73 Aligned_cols=51 Identities=20% Similarity=0.167 Sum_probs=41.1
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccc
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASE 63 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~ 63 (145)
++.||+|.+|.+. .+--|.|.|.+...|=+|+.++.. ..-|..+.+.|-..
T Consensus 111 Ls~fGpI~SVT~c----------GrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsWqqr 161 (166)
T PF15023_consen 111 LSVFGPIQSVTLC----------GRQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSWQQR 161 (166)
T ss_pred HHhcCCcceeeec----------CCceEEEEehhhHHHHHHHHhhcC-CCCCceEEeecccc
Confidence 3679999998765 356799999999999999999887 55677888887543
No 110
>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=92.39 E-value=0.16 Score=37.96 Aligned_cols=57 Identities=23% Similarity=0.255 Sum_probs=40.6
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhc--CCeeCCeeeEEEEccccch
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMH--GRLACGRPLVVRLASEKYL 66 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~ln--g~~i~gr~l~V~~a~~~~~ 66 (145)
+|..|+.+....++. +-+-..|.|.+.+.|..|...++ +..+.|..++|-|+.....
T Consensus 15 l~~~~~~~~~~~~L~---------sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~~ 73 (184)
T PF04847_consen 15 LFSTYDPPVQFSPLK---------SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTPI 73 (184)
T ss_dssp HHHTT-SS-EEEEET---------TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS-
T ss_pred HHHhcCCceEEEEcC---------CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccccc
Confidence 467888888877773 45678999999999999999999 9999999999999865544
No 111
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=92.28 E-value=0.062 Score=45.28 Aligned_cols=57 Identities=19% Similarity=0.271 Sum_probs=46.7
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
|.+||.|..|-|-+ +---|.|+|.+..+|-.|- ..++..|.+|.|+|.|-.+.+...
T Consensus 394 fA~fG~i~n~qv~~---------~~~~a~vTF~t~aeag~a~-~s~~avlnnr~iKl~whnps~~tn 450 (526)
T KOG2135|consen 394 FAQFGEIENIQVDY---------SSLHAVVTFKTRAEAGEAY-ASHGAVLNNRFIKLFWHNPSPVTN 450 (526)
T ss_pred hhhcCccccccccC---------chhhheeeeeccccccchh-ccccceecCceeEEEEecCCcccC
Confidence 88999999987753 2346899999999997775 679999999999999988865443
No 112
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=92.11 E-value=0.18 Score=40.43 Aligned_cols=58 Identities=22% Similarity=0.386 Sum_probs=44.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeee-EEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPL-VVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l-~V~~a~~~~~~~ 68 (145)
+|++||.|++. + ++..-.+-+|.|.+.-+|++|| ..||..|+|..| -|+....+....
T Consensus 216 ~F~~cG~Vvkh--v-------~~~ngNwMhirYssr~~A~KAL-skng~ii~g~vmiGVkpCtDksvi~ 274 (350)
T KOG4285|consen 216 LFSRCGEVVKH--V-------TPSNGNWMHIRYSSRTHAQKAL-SKNGTIIDGDVMIGVKPCTDKSVIN 274 (350)
T ss_pred HHHhhCeeeee--e-------cCCCCceEEEEecchhHHHHhh-hhcCeeeccceEEeeeecCCHHHhc
Confidence 48999999763 2 2234468999999999999999 679999998554 477766665554
No 113
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=91.59 E-value=0.039 Score=49.31 Aligned_cols=64 Identities=17% Similarity=0.189 Sum_probs=53.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
+|+++|.+.+.+++. ...|+++|.+||.|.+..++.+++..++...+.-+.+.|..+.|.....
T Consensus 756 l~~~~gn~~~~~~vt----~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp~~~K~ 819 (881)
T KOG0128|consen 756 LASKTGNVTSLRLVT----VRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNPERDKK 819 (881)
T ss_pred hccccCCccccchhh----hhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCCccccc
Confidence 578899999988774 4679999999999999999999998888888887888888877754443
No 114
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=91.01 E-value=0.33 Score=42.98 Aligned_cols=56 Identities=23% Similarity=0.408 Sum_probs=43.7
Q ss_pred CCCCCcceeE-EEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEE
Q 032211 1 MFSPYGKIVS-EDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRL 60 (145)
Q Consensus 1 lFs~~G~I~~-~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~ 60 (145)
+|.-|-.+-. |.+-+ -..|..-|-|.|.|++.++|..|...+++..|..|.+.+.+
T Consensus 887 FF~dY~~~p~sI~~r~----nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 887 FFNDYEPDPNSIRIRR----NDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred HhcccccCCCceeEee----cCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 3555554432 33333 35688999999999999999999999999999999988865
No 115
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=90.97 E-value=0.24 Score=41.24 Aligned_cols=53 Identities=21% Similarity=0.329 Sum_probs=39.6
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCcc-EEEEEEccHHHHHHHHHHhcCCeeCCe--eeEEEEc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRG-FAFIEYSTKEEAKLAKEKMHGRLACGR--PLVVRLA 61 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG-~~FV~f~~~e~A~~Ai~~lng~~i~gr--~l~V~~a 61 (145)
+|++||.|..|.-.. + +-| -|.|.|.+.+.|..|-..|+|..|+.- .|+|.|+
T Consensus 170 vFS~fG~VlKIiTF~----K----nn~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~S 225 (492)
T KOG1190|consen 170 VFSKFGFVLKIITFT----K----NNGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFS 225 (492)
T ss_pred HHhhcceeEEEEEEe----c----ccchhhhhhccchhhHHHHHHhccCCcccCceeEEEeehh
Confidence 599999998764432 2 334 489999999999999999999999763 3344443
No 116
>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=90.14 E-value=0.93 Score=28.45 Aligned_cols=35 Identities=26% Similarity=0.413 Sum_probs=21.5
Q ss_pred ccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEc
Q 032211 26 RGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLA 61 (145)
Q Consensus 26 kG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a 61 (145)
.-|.||+-... .|..++..|++..+.|+.+.|+.|
T Consensus 40 ~~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 40 DNFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp SS-EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred eeEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence 36889998774 788899999999999999999875
No 117
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=90.01 E-value=0.2 Score=45.33 Aligned_cols=59 Identities=31% Similarity=0.416 Sum_probs=49.7
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCC--eeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACG--RPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~g--r~l~V~~a~~~~~~~ 68 (145)
.|..||.|..|.+-. ..-|++|.|++...+..|+..|-|..|++ +.+.|.||.+.....
T Consensus 475 ~fd~fGpir~Idy~h---------gq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~~~~P 535 (975)
T KOG0112|consen 475 EFDRFGPIRIIDYRH---------GQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPPGATP 535 (975)
T ss_pred HhhccCcceeeeccc---------CCcceeeecccCccchhhHHHHhcCcCCCCCcccccccccCCCCCh
Confidence 488999998876632 35799999999999999999999999987 789999998875544
No 118
>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=87.15 E-value=1 Score=28.03 Aligned_cols=29 Identities=17% Similarity=0.249 Sum_probs=26.1
Q ss_pred EEEEccHHHHHHHHHHhcCCeeCCeeeEE
Q 032211 30 FIEYSTKEEAKLAKEKMHGRLACGRPLVV 58 (145)
Q Consensus 30 FV~f~~~e~A~~Ai~~lng~~i~gr~l~V 58 (145)
||.|.+..+|++|....||..+-+..|.+
T Consensus 37 YIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 37 YIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred EEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 89999999999999999999988877655
No 119
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=84.89 E-value=1.5 Score=37.25 Aligned_cols=46 Identities=28% Similarity=0.377 Sum_probs=36.1
Q ss_pred CCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 22 RGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 22 tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
.+++.|=|||.|++.+.|++|+. -|...|..|-|.|-.+.......
T Consensus 141 rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF~Ss~~e~~~ 186 (510)
T KOG4211|consen 141 RGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVFRSSRAEVKR 186 (510)
T ss_pred CCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEeehhHHHHHHh
Confidence 56688999999999999999984 46667788888887666554444
No 120
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=84.46 E-value=1.7 Score=36.13 Aligned_cols=59 Identities=19% Similarity=0.312 Sum_probs=43.6
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEE
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRL 60 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~ 60 (145)
||.-.|+|.+++++-+..|-.-....-.|||-|.+...+.-|. .|-.+.|-++.|.|..
T Consensus 27 lFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfvdraliv~p 85 (479)
T KOG4676|consen 27 LFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFVDRALIVRP 85 (479)
T ss_pred HHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceeeeeeEEEEe
Confidence 6888999999998854344333345678999999998888775 6777777776666653
No 121
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=83.57 E-value=0.93 Score=37.23 Aligned_cols=49 Identities=16% Similarity=0.291 Sum_probs=39.2
Q ss_pred eeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEE
Q 032211 8 IVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVR 59 (145)
Q Consensus 8 I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~ 59 (145)
|.+++++. +..+|.+|||++|...+....++-++.|-.+.|.|..-.|-
T Consensus 109 ~~dmKFFE---NR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~ 157 (498)
T KOG4849|consen 109 FADMKFFE---NRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVL 157 (498)
T ss_pred Hhhhhhhh---cccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeee
Confidence 44555665 56789999999999999999999999999999988654443
No 122
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=83.56 E-value=2 Score=36.96 Aligned_cols=49 Identities=16% Similarity=0.111 Sum_probs=38.9
Q ss_pred CCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeC---C-eeeEEEEccccch
Q 032211 18 RGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLAC---G-RPLVVRLASEKYL 66 (145)
Q Consensus 18 rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~---g-r~l~V~~a~~~~~ 66 (145)
-|-.+....|||||.|.+++.+....+++||+... + +...+.||.-...
T Consensus 423 iDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArIQGk 475 (549)
T KOG4660|consen 423 IDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARIQGK 475 (549)
T ss_pred cccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhhhch
Confidence 36666778999999999999999999999999853 3 4556777766654
No 123
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=83.20 E-value=1.2 Score=34.47 Aligned_cols=27 Identities=26% Similarity=0.388 Sum_probs=24.2
Q ss_pred ccEEEEEEccHHHHHHHHHHhcCCeeC
Q 032211 26 RGFAFIEYSTKEEAKLAKEKMHGRLAC 52 (145)
Q Consensus 26 kG~~FV~f~~~e~A~~Ai~~lng~~i~ 52 (145)
...+|++|++.+.|..|+..|.|..|.
T Consensus 248 ~~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 248 MPVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred cceEeecHHHHHHHHHHHHHhhcceec
Confidence 568999999999999999999998773
No 124
>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=80.64 E-value=4 Score=26.72 Aligned_cols=36 Identities=25% Similarity=0.623 Sum_probs=28.1
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhc
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMH 47 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~ln 47 (145)
||+.||.|. |.-+ | -.-|||.....+.|..++..++
T Consensus 28 lFspfG~I~-VsWi----~------dTSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 28 LFSPFGQIY-VSWI----N------DTSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp HCCCCCCEE-EEEE----C------TTEEEEEECCCHHHHHHHHHHT
T ss_pred HhccCCcEE-EEEE----c------CCcEEEEeecHHHHHHHHHHhc
Confidence 699999974 3333 2 3569999999999999988775
No 125
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=80.55 E-value=0.31 Score=43.77 Aligned_cols=48 Identities=25% Similarity=0.250 Sum_probs=36.6
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeC
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLAC 52 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~ 52 (145)
|+.||.+..+.+.. ...+++.||+|++.|..++++.+||...+++.++
T Consensus 688 ~~~~~~~e~vqi~~---h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 688 FSPSGTIEVVQIVI---HKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred cCccchhhhHHHHH---HhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 67788777766653 2567889999999999999999999655555444
No 126
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=79.59 E-value=2.6 Score=36.88 Aligned_cols=43 Identities=21% Similarity=0.366 Sum_probs=36.0
Q ss_pred CccEEEEEEccHHHHHHHHHHhcCCee---CCeeeEEEEccccchh
Q 032211 25 PRGFAFIEYSTKEEAKLAKEKMHGRLA---CGRPLVVRLASEKYLE 67 (145)
Q Consensus 25 skG~~FV~f~~~e~A~~Ai~~lng~~i---~gr~l~V~~a~~~~~~ 67 (145)
-+..|||.|.+.++|...+.+|||..+ ..+.|.+.|+......
T Consensus 480 IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~~~deld 525 (718)
T KOG2416|consen 480 IKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFVRADELD 525 (718)
T ss_pred hhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeecchhHHH
Confidence 478899999999999999999999886 3588888887766444
No 127
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=77.09 E-value=1.1 Score=40.64 Aligned_cols=59 Identities=27% Similarity=0.389 Sum_probs=48.5
Q ss_pred CCCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCee--CCeeeEEEEccccchhh
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLA--CGRPLVVRLASEKYLED 68 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i--~gr~l~V~~a~~~~~~~ 68 (145)
||+.||.|.++..+. | -..+.|+|.+.+.|-.|+.+++|..+ -|-+.+|.+|+.-+...
T Consensus 318 l~s~yg~v~s~wtlr---~------~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~~~e 378 (1007)
T KOG4574|consen 318 LCSDYGSVASAWTLR---D------LNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLPMYE 378 (1007)
T ss_pred HHHhhcchhhheecc---c------ccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecccccccc
Confidence 478999999987763 2 35789999999999999999999986 47788999988775544
No 128
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=74.52 E-value=2 Score=36.27 Aligned_cols=43 Identities=23% Similarity=0.370 Sum_probs=38.0
Q ss_pred ccEEEEEEccHHHHHHHHHHhcCCe-eCCeeeEEEEccccchhh
Q 032211 26 RGFAFIEYSTKEEAKLAKEKMHGRL-ACGRPLVVRLASEKYLED 68 (145)
Q Consensus 26 kG~~FV~f~~~e~A~~Ai~~lng~~-i~gr~l~V~~a~~~~~~~ 68 (145)
-||+||.+.+..+|.+|++.++|.. +.|.++.|....++..+.
T Consensus 37 ~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkqrs 80 (584)
T KOG2193|consen 37 SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQRS 80 (584)
T ss_pred cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHHHHh
Confidence 5999999999999999999999875 789999999988876554
No 129
>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=64.59 E-value=28 Score=23.76 Aligned_cols=42 Identities=17% Similarity=0.187 Sum_probs=32.8
Q ss_pred ceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCC
Q 032211 7 KIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACG 53 (145)
Q Consensus 7 ~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~g 53 (145)
.|..++|+. | ...++=.+.+.|.+.+.|..=...+||+.|..
T Consensus 40 ~i~~~riir---d--~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 40 DIEHIRIIR---D--GTPNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred cEEEEEEee---C--CCCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 456677774 2 22357788999999999999999999999853
No 130
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=62.58 E-value=6.7 Score=32.76 Aligned_cols=46 Identities=35% Similarity=0.407 Sum_probs=37.8
Q ss_pred CCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccch
Q 032211 21 KRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYL 66 (145)
Q Consensus 21 ~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~ 66 (145)
..|++-|-|||+|.+.++|..|...-+.+....|-|.|--+.....
T Consensus 319 ~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S~eel 364 (508)
T KOG1365|consen 319 GQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCSVEEL 364 (508)
T ss_pred CCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeeccHHHH
Confidence 4688999999999999999999888887777788888876655433
No 131
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=60.67 E-value=6.5 Score=31.30 Aligned_cols=61 Identities=15% Similarity=-0.015 Sum_probs=41.9
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
|..+|.+....+.. ......++||+.+.|...+.+..|+...-.+.+.++.+...+.....
T Consensus 109 ~~~~g~~~~~~~S~---~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~~~~ 169 (285)
T KOG4210|consen 109 SSEAGLRVDARSSS---LEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNTRRG 169 (285)
T ss_pred chhhcCcccchhhh---hccccccccceeeccccHHHHHHHHHhhhccccccccccCccccccc
Confidence 45667666655543 24456789999999999999999995544456666666555544443
No 132
>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=60.65 E-value=12 Score=29.72 Aligned_cols=36 Identities=19% Similarity=0.256 Sum_probs=25.8
Q ss_pred EEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccch
Q 032211 29 AFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYL 66 (145)
Q Consensus 29 ~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~ 66 (145)
|||+|.+..+|..|++.+.... .+.+.|..|.+..+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APeP~D 36 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPEPDD 36 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCCccc
Confidence 6999999999999998655443 34556666655433
No 133
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=58.89 E-value=2.4 Score=33.38 Aligned_cols=52 Identities=19% Similarity=0.230 Sum_probs=37.4
Q ss_pred CCCCCcceeEEEEeeccCCCCC--------CCCcc----EEEEEEccHHHHHHHHHHhcCCeeCCee
Q 032211 1 MFSPYGKIVSEDFLWHTRGPKR--------GVPRG----FAFIEYSTKEEAKLAKEKMHGRLACGRP 55 (145)
Q Consensus 1 lFs~~G~I~~~~i~~~~rd~~t--------g~skG----~~FV~f~~~e~A~~Ai~~lng~~i~gr~ 55 (145)
+|+.||.|=.|.+-. ...+ |.+.. -|.|+|.+...|..+...||+..|+|+.
T Consensus 94 il~~yGeVGRvylqp---E~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Iggkk 157 (278)
T KOG3152|consen 94 ILSQYGEVGRVYLQP---EDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIGGKK 157 (278)
T ss_pred HHHhccccceEEecc---hhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccCCCC
Confidence 467899887776643 1122 23333 2568999999999999999999999853
No 134
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=51.20 E-value=6.7 Score=35.15 Aligned_cols=43 Identities=16% Similarity=0.089 Sum_probs=34.0
Q ss_pred CCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEcc
Q 032211 19 GPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLAS 62 (145)
Q Consensus 19 d~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~ 62 (145)
.| +++-++.|||.|..++++..|...-+-+.+..|.|.|.-..
T Consensus 470 ~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si~ 512 (944)
T KOG4307|consen 470 LP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSIA 512 (944)
T ss_pred CC-cccccchhhheeccccccchhhhcccccccCceEEEeechh
Confidence 44 56778999999999999998886666667777888888433
No 135
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=48.86 E-value=35 Score=28.65 Aligned_cols=37 Identities=30% Similarity=0.451 Sum_probs=27.0
Q ss_pred CCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEE
Q 032211 21 KRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVV 58 (145)
Q Consensus 21 ~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V 58 (145)
-+|+.-|-|||.|..+++|+.|+.. |...|+-|-|.+
T Consensus 201 pdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIEl 237 (508)
T KOG1365|consen 201 PDGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIEL 237 (508)
T ss_pred CCCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHHH
Confidence 3688899999999999999999953 333444444433
No 136
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=45.78 E-value=35 Score=25.61 Aligned_cols=43 Identities=26% Similarity=0.197 Sum_probs=35.6
Q ss_pred CccEEEEEEccHHHHHHHHHHhcCCeeCCe-eeEEEEccccchh
Q 032211 25 PRGFAFIEYSTKEEAKLAKEKMHGRLACGR-PLVVRLASEKYLE 67 (145)
Q Consensus 25 skG~~FV~f~~~e~A~~Ai~~lng~~i~gr-~l~V~~a~~~~~~ 67 (145)
+.++.-|.|.+++.|..|...++++.|.|. .+..-++.+....
T Consensus 50 sfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ~~~~~ 93 (193)
T KOG4019|consen 50 SFRRVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQPGHPE 93 (193)
T ss_pred hhceeEEeccChhHHHHHHHHhhhcccCCCceEEEEEccCCCcc
Confidence 456777899999999999999999999988 7777787776433
No 137
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=42.79 E-value=30 Score=21.15 Aligned_cols=19 Identities=16% Similarity=0.113 Sum_probs=16.2
Q ss_pred EEEEEEccHHHHHHHHHHh
Q 032211 28 FAFIEYSTKEEAKLAKEKM 46 (145)
Q Consensus 28 ~~FV~f~~~e~A~~Ai~~l 46 (145)
-|-|.|.+.+.|.+||.+|
T Consensus 44 ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 44 SCNVVFKDEETAARALVAL 62 (62)
T ss_pred cEEEEECCHHHHHHHHHcC
Confidence 4779999999999998754
No 138
>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=36.76 E-value=66 Score=20.48 Aligned_cols=26 Identities=15% Similarity=0.286 Sum_probs=21.3
Q ss_pred CccEEEEEEccHHHHHHHHHHhcCCe
Q 032211 25 PRGFAFIEYSTKEEAKLAKEKMHGRL 50 (145)
Q Consensus 25 skG~~FV~f~~~e~A~~Ai~~lng~~ 50 (145)
-+||-||+=.+..+...|+..+.+..
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred CceEEEEEeCCHHHHHHHHhccccee
Confidence 68999999999999999997765433
No 139
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=36.19 E-value=28 Score=27.53 Aligned_cols=55 Identities=27% Similarity=0.424 Sum_probs=39.3
Q ss_pred CCCCcceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhc--C--CeeCCeeeEEEE
Q 032211 2 FSPYGKIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMH--G--RLACGRPLVVRL 60 (145)
Q Consensus 2 Fs~~G~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~ln--g--~~i~gr~l~V~~ 60 (145)
|+.||.|....++.+ ..+++-+=++|.|...-.|..|....+ | ....+++.-|..
T Consensus 52 f~~fg~~e~av~~vD----~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP 110 (275)
T KOG0115|consen 52 FRRFGPIERAVAKVD----DRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEP 110 (275)
T ss_pred hhhcCccchheeeec----ccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCCh
Confidence 788999988766653 356677889999999999999987663 2 223456655553
No 140
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=29.51 E-value=38 Score=19.95 Aligned_cols=37 Identities=24% Similarity=0.547 Sum_probs=18.1
Q ss_pred CccEEEEEEcc-HHHHHHHHHHhcCCeeCCeeeEEEEcc
Q 032211 25 PRGFAFIEYST-KEEAKLAKEKMHGRLACGRPLVVRLAS 62 (145)
Q Consensus 25 skG~~FV~f~~-~e~A~~Ai~~lng~~i~gr~l~V~~a~ 62 (145)
++|||||...+ .++.--.-..|++ -++|-.+.|....
T Consensus 7 ~~GfGFv~~~~~~~DifIp~~~l~~-A~~gD~V~v~i~~ 44 (58)
T PF08206_consen 7 PKGFGFVIPDDGGEDIFIPPRNLNG-AMDGDKVLVRITP 44 (58)
T ss_dssp SSS-EEEEECT-TEEEEE-HHHHTT-S-TT-EEEEEEEE
T ss_pred cCCCEEEEECCCCCCEEECHHHHCC-CCCCCEEEEEEec
Confidence 68999999987 1111112233443 2355556666554
No 141
>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=27.50 E-value=1e+02 Score=18.86 Aligned_cols=26 Identities=12% Similarity=0.179 Sum_probs=20.2
Q ss_pred cEEEEEEccHHHHHHHHHHhcCCeeC
Q 032211 27 GFAFIEYSTKEEAKLAKEKMHGRLAC 52 (145)
Q Consensus 27 G~~FV~f~~~e~A~~Ai~~lng~~i~ 52 (145)
.+.+|.|.+..+|-+|-+.+...-+.
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi~ 27 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGIP 27 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCCc
Confidence 46899999999999988777654443
No 142
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=27.14 E-value=66 Score=22.95 Aligned_cols=25 Identities=16% Similarity=0.254 Sum_probs=21.2
Q ss_pred CccEEEEEEccHHHHHHHHHHhcCC
Q 032211 25 PRGFAFIEYSTKEEAKLAKEKMHGR 49 (145)
Q Consensus 25 skG~~FV~f~~~e~A~~Ai~~lng~ 49 (145)
-+||.||+....+++..+++.+.+.
T Consensus 45 fpGYVfVe~~~~~~~~~~i~~v~~v 69 (153)
T PRK08559 45 LKGYVLVEAESKGAVEEAIRGIPHV 69 (153)
T ss_pred CCcEEEEEEEChHHHHHHHhcCCCE
Confidence 5899999999889999999777653
No 143
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=26.85 E-value=62 Score=22.61 Aligned_cols=25 Identities=16% Similarity=0.191 Sum_probs=20.2
Q ss_pred CccEEEEEEccHHHHHHHHHHhcCC
Q 032211 25 PRGFAFIEYSTKEEAKLAKEKMHGR 49 (145)
Q Consensus 25 skG~~FV~f~~~e~A~~Ai~~lng~ 49 (145)
-+||-||+.....+...++..+.|.
T Consensus 37 fpGYvFV~~~~~~~~~~~i~~~~gv 61 (145)
T TIGR00405 37 LKGYILVEAETKIDMRNPIIGVPHV 61 (145)
T ss_pred CCcEEEEEEECcHHHHHHHhCCCCE
Confidence 6899999999887778888766553
No 144
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=26.06 E-value=33 Score=30.12 Aligned_cols=17 Identities=18% Similarity=0.460 Sum_probs=15.2
Q ss_pred EEEEccHHHHHHHHHHh
Q 032211 30 FIEYSTKEEAKLAKEKM 46 (145)
Q Consensus 30 FV~f~~~e~A~~Ai~~l 46 (145)
||+|++..||+.|.+.|
T Consensus 216 yITfesd~DAQqAykyl 232 (684)
T KOG2591|consen 216 YITFESDTDAQQAYKYL 232 (684)
T ss_pred EEEeecchhHHHHHHHH
Confidence 89999999999998655
No 145
>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=25.80 E-value=1e+02 Score=22.58 Aligned_cols=41 Identities=20% Similarity=0.349 Sum_probs=28.5
Q ss_pred ccEEEEEEccHHHHHHHHHHhcCCeeCC-----eeeEEEEccccch
Q 032211 26 RGFAFIEYSTKEEAKLAKEKMHGRLACG-----RPLVVRLASEKYL 66 (145)
Q Consensus 26 kG~~FV~f~~~e~A~~Ai~~lng~~i~g-----r~l~V~~a~~~~~ 66 (145)
-.-|+|.|.+.++...-+..++|+.|.. .+-.|++|--...
T Consensus 55 ~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg~~~~~~VE~Apyqk~ 100 (176)
T PF03467_consen 55 YSRAYINFKNPEDLLEFRDRFDGHVFVDSKGNEYPAVVEFAPYQKV 100 (176)
T ss_dssp -EEEEEEESSCHHHHHHHHHCTTEEEE-TTS-EEEEEEEE-SS---
T ss_pred ceEEEEEeCCHHHHHHHHHhcCCcEEECCCCCCcceeEEEcchhcc
Confidence 3568999999999998889999988742 3446777766443
No 146
>PRK15464 cold shock-like protein CspH; Provisional
Probab=25.71 E-value=36 Score=21.19 Aligned_cols=11 Identities=36% Similarity=0.316 Sum_probs=8.9
Q ss_pred CccEEEEEEcc
Q 032211 25 PRGFAFIEYST 35 (145)
Q Consensus 25 skG~~FV~f~~ 35 (145)
.||||||+=.+
T Consensus 15 ~KGfGFI~~~~ 25 (70)
T PRK15464 15 KSGKGFIIPSD 25 (70)
T ss_pred CCCeEEEccCC
Confidence 48999998765
No 147
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=25.33 E-value=2.2e+02 Score=21.73 Aligned_cols=27 Identities=30% Similarity=0.417 Sum_probs=24.0
Q ss_pred ccEEEEEEccHHHHHHHHHHhcCCeeC
Q 032211 26 RGFAFIEYSTKEEAKLAKEKMHGRLAC 52 (145)
Q Consensus 26 kG~~FV~f~~~e~A~~Ai~~lng~~i~ 52 (145)
-|++.|+|...|+-+-|++.|+...+.
T Consensus 150 Dg~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 150 DGVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred ccceeeeeeehhhHHHHHHhhcccccc
Confidence 368999999999999999999887774
No 148
>PRK15463 cold shock-like protein CspF; Provisional
Probab=24.57 E-value=40 Score=20.89 Aligned_cols=11 Identities=27% Similarity=0.244 Sum_probs=8.9
Q ss_pred CccEEEEEEcc
Q 032211 25 PRGFAFIEYST 35 (145)
Q Consensus 25 skG~~FV~f~~ 35 (145)
.||||||+=.+
T Consensus 15 ~kGfGFI~~~~ 25 (70)
T PRK15463 15 KSGKGLITPSD 25 (70)
T ss_pred CCceEEEecCC
Confidence 48999998765
No 149
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=24.46 E-value=42 Score=21.11 Aligned_cols=11 Identities=36% Similarity=0.640 Sum_probs=8.6
Q ss_pred CccEEEEEEcc
Q 032211 25 PRGFAFIEYST 35 (145)
Q Consensus 25 skG~~FV~f~~ 35 (145)
.||||||+=.+
T Consensus 12 ~KGfGFI~~~~ 22 (74)
T PRK09937 12 AKGFGFICPEG 22 (74)
T ss_pred CCCeEEEeeCC
Confidence 48999997654
No 150
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=23.63 E-value=41 Score=20.69 Aligned_cols=11 Identities=36% Similarity=0.763 Sum_probs=8.9
Q ss_pred CccEEEEEEcc
Q 032211 25 PRGFAFIEYST 35 (145)
Q Consensus 25 skG~~FV~f~~ 35 (145)
.||||||+=.+
T Consensus 14 ~kGyGFI~~~~ 24 (69)
T PRK09507 14 SKGFGFITPED 24 (69)
T ss_pred CCCcEEEecCC
Confidence 48999998765
No 151
>PRK14998 cold shock-like protein CspD; Provisional
Probab=23.29 E-value=45 Score=20.87 Aligned_cols=11 Identities=36% Similarity=0.640 Sum_probs=8.9
Q ss_pred CccEEEEEEcc
Q 032211 25 PRGFAFIEYST 35 (145)
Q Consensus 25 skG~~FV~f~~ 35 (145)
.||||||.=.+
T Consensus 12 ~kGfGFI~~~~ 22 (73)
T PRK14998 12 AKGFGFICPEG 22 (73)
T ss_pred CCceEEEecCC
Confidence 48999997765
No 152
>PRK10943 cold shock-like protein CspC; Provisional
Probab=22.80 E-value=43 Score=20.61 Aligned_cols=11 Identities=36% Similarity=0.791 Sum_probs=8.9
Q ss_pred CccEEEEEEcc
Q 032211 25 PRGFAFIEYST 35 (145)
Q Consensus 25 skG~~FV~f~~ 35 (145)
.||||||+=.+
T Consensus 14 ~kGfGFI~~~~ 24 (69)
T PRK10943 14 SKGFGFITPAD 24 (69)
T ss_pred CCCcEEEecCC
Confidence 48999998765
No 153
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=22.11 E-value=50 Score=20.20 Aligned_cols=11 Identities=36% Similarity=0.640 Sum_probs=9.2
Q ss_pred CccEEEEEEcc
Q 032211 25 PRGFAFIEYST 35 (145)
Q Consensus 25 skG~~FV~f~~ 35 (145)
.+|||||.-.+
T Consensus 12 ~kGfGFI~~~~ 22 (68)
T TIGR02381 12 AKGFGFICPEG 22 (68)
T ss_pred CCCeEEEecCC
Confidence 48999998766
No 154
>PRK09890 cold shock protein CspG; Provisional
Probab=21.62 E-value=48 Score=20.46 Aligned_cols=11 Identities=36% Similarity=0.739 Sum_probs=9.0
Q ss_pred CccEEEEEEcc
Q 032211 25 PRGFAFIEYST 35 (145)
Q Consensus 25 skG~~FV~f~~ 35 (145)
.+|||||+=.+
T Consensus 15 ~kGfGFI~~~~ 25 (70)
T PRK09890 15 DKGFGFITPDD 25 (70)
T ss_pred CCCcEEEecCC
Confidence 48999998765
No 155
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=21.47 E-value=55 Score=28.48 Aligned_cols=44 Identities=23% Similarity=0.230 Sum_probs=36.9
Q ss_pred CccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccchhh
Q 032211 25 PRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKYLED 68 (145)
Q Consensus 25 skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~~~~ 68 (145)
...|++++|++...+.+|++.++|..+.+..+.+..+.......
T Consensus 62 ~~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~~~~~~~ 105 (534)
T KOG2187|consen 62 MPKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGATEVGSL 105 (534)
T ss_pred CCCceEEEEeccchhhhHHHHHhhhhhhcchhhhhhcccccccc
Confidence 45799999999999999999999999988888887766654443
No 156
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=21.17 E-value=70 Score=20.06 Aligned_cols=55 Identities=11% Similarity=0.121 Sum_probs=34.5
Q ss_pred CCCc-ceeEEEEeeccCCCCCCCCccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccc
Q 032211 3 SPYG-KIVSEDFLWHTRGPKRGVPRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASE 63 (145)
Q Consensus 3 s~~G-~I~~~~i~~~~rd~~tg~skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~ 63 (145)
..+| ++..+.-+. .+.++.+-..-||+.....+... .++=+.|+|+++.|+....
T Consensus 9 ~~~G~~v~~i~~m~---~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~k 64 (69)
T smart00596 9 KDIGFPVLFIHNML---NRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPHK 64 (69)
T ss_pred HHcCCceeEEEccc---ccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCcc
Confidence 3445 445554443 34455567788888887654444 3666778899988886443
No 157
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=21.11 E-value=50 Score=20.33 Aligned_cols=11 Identities=36% Similarity=0.739 Sum_probs=8.6
Q ss_pred CccEEEEEEcc
Q 032211 25 PRGFAFIEYST 35 (145)
Q Consensus 25 skG~~FV~f~~ 35 (145)
.+|||||.=.+
T Consensus 15 ~kGfGFI~~~~ 25 (70)
T PRK10354 15 DKGFGFITPDD 25 (70)
T ss_pred CCCcEEEecCC
Confidence 48999998654
No 158
>smart00738 NGN In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold. In Spt5p, this domain may confer affinity for Spt4p.Spt4p
Probab=21.08 E-value=1.9e+02 Score=18.53 Aligned_cols=23 Identities=26% Similarity=0.391 Sum_probs=17.8
Q ss_pred cEEEEEEccHHHHHHHHHHhcCC
Q 032211 27 GFAFIEYSTKEEAKLAKEKMHGR 49 (145)
Q Consensus 27 G~~FV~f~~~e~A~~Ai~~lng~ 49 (145)
||.||.+...++....|..+.|.
T Consensus 60 GYvFv~~~~~~~~~~~i~~~~~v 82 (106)
T smart00738 60 GYIFVEADLEDEVWTAIRGTPGV 82 (106)
T ss_pred CEEEEEEEeCCcHHHHHhcCCCc
Confidence 99999998766667777666653
No 159
>TIGR00110 ilvD dihydroxy-acid dehydratase. This model generates scores of up to 150 bits vs. 6-phosphogluconate dehydratase, a homologous enzyme.
Probab=20.78 E-value=2.9e+02 Score=24.20 Aligned_cols=38 Identities=29% Similarity=0.330 Sum_probs=31.0
Q ss_pred CccEEEEEEccHHHHHHHHHHhcCCeeCCeeeEEEEccccc
Q 032211 25 PRGFAFIEYSTKEEAKLAKEKMHGRLACGRPLVVRLASEKY 65 (145)
Q Consensus 25 skG~~FV~f~~~e~A~~Ai~~lng~~i~gr~l~V~~a~~~~ 65 (145)
.+|-| +.|++.++|..|| .+|..-.|-.|+|++.-|+.
T Consensus 382 ~~G~A-~VF~see~a~~ai--~~g~i~~gdVvViRyeGPkG 419 (535)
T TIGR00110 382 FEGPA-KVFESEEEALEAI--LGGKIKEGDVVVIRYEGPKG 419 (535)
T ss_pred EEEeE-EEECCHHHHHHHH--hcCCCCCCeEEEEeCCCCCC
Confidence 46766 7799999999998 45667778899999988874
Done!