Query 024424
Match_columns 268
No_of_seqs 292 out of 1711
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 04:29:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024424.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024424hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0107 Alternative splicing f 99.8 1.2E-18 2.7E-23 146.2 12.0 73 2-78 46-118 (195)
2 KOG4207 Predicted splicing fac 99.3 5.8E-11 1.3E-15 102.6 13.9 40 2-41 54-93 (256)
3 KOG0109 RNA-binding protein LA 99.1 8.6E-11 1.9E-15 106.0 4.6 70 1-79 110-179 (346)
4 KOG0109 RNA-binding protein LA 98.9 2.3E-09 5E-14 96.8 4.6 41 1-41 34-74 (346)
5 PLN03134 glycine-rich RNA-bind 98.5 4.3E-07 9.2E-12 75.4 7.3 42 2-43 75-116 (144)
6 PF13893 RRM_5: RNA recognitio 98.3 1E-06 2.2E-11 60.8 5.2 35 4-38 22-56 (56)
7 smart00361 RRM_1 RNA recogniti 98.3 6.9E-07 1.5E-11 64.7 4.4 34 2-35 36-69 (70)
8 KOG0105 Alternative splicing f 98.3 1.2E-06 2.5E-11 75.1 5.9 38 4-41 46-83 (241)
9 KOG0113 U1 small nuclear ribon 98.1 2.9E-05 6.2E-10 70.8 11.4 40 2-41 142-181 (335)
10 KOG0111 Cyclophilin-type pepti 98.1 2E-06 4.3E-11 75.4 2.9 40 3-42 52-91 (298)
11 KOG0125 Ataxin 2-binding prote 97.9 7.3E-06 1.6E-10 75.5 3.7 39 2-40 135-173 (376)
12 KOG0106 Alternative splicing f 97.9 5.4E-06 1.2E-10 73.0 2.6 42 1-42 33-74 (216)
13 PF00076 RRM_1: RNA recognitio 97.9 1.4E-05 3E-10 56.3 3.5 33 2-34 38-70 (70)
14 TIGR01659 sex-lethal sex-letha 97.8 2.2E-05 4.9E-10 74.0 4.6 39 2-40 148-186 (346)
15 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.8 2.5E-05 5.4E-10 72.6 4.4 38 3-40 45-82 (352)
16 COG5082 AIR1 Arginine methyltr 97.7 1.6E-05 3.6E-10 68.3 2.4 40 60-99 60-114 (190)
17 KOG0130 RNA-binding protein RB 97.7 2.5E-05 5.4E-10 63.9 2.9 39 2-40 113-151 (170)
18 smart00360 RRM RNA recognition 97.7 5.5E-05 1.2E-09 52.0 4.3 34 3-36 38-71 (71)
19 TIGR01648 hnRNP-R-Q heterogene 97.7 4.4E-05 9.6E-10 76.4 5.3 41 2-42 268-308 (578)
20 KOG0148 Apoptosis-promoting RN 97.6 5.4E-05 1.2E-09 68.3 3.8 41 2-42 103-143 (321)
21 TIGR01645 half-pint poly-U bin 97.6 8.7E-05 1.9E-09 74.6 5.6 41 2-42 245-285 (612)
22 smart00362 RRM_2 RNA recogniti 97.6 0.00011 2.3E-09 50.8 4.3 34 3-36 39-72 (72)
23 KOG0121 Nuclear cap-binding pr 97.6 9.5E-05 2.1E-09 60.0 4.2 38 4-41 79-116 (153)
24 KOG0127 Nucleolar protein fibr 97.5 8.7E-05 1.9E-09 72.5 4.5 39 4-42 159-197 (678)
25 PF00098 zf-CCHC: Zinc knuckle 97.5 6.3E-05 1.4E-09 40.6 1.8 17 62-78 2-18 (18)
26 PTZ00368 universal minicircle 97.5 9.8E-05 2.1E-09 61.2 3.5 41 60-100 27-70 (148)
27 TIGR01642 U2AF_lg U2 snRNP aux 97.5 0.00014 3.1E-09 71.1 5.2 40 2-41 336-375 (509)
28 TIGR01622 SF-CC1 splicing fact 97.5 0.00013 2.8E-09 70.4 4.9 37 3-39 228-264 (457)
29 PTZ00368 universal minicircle 97.5 8.5E-05 1.8E-09 61.6 3.0 40 61-100 78-121 (148)
30 cd00590 RRM RRM (RNA recogniti 97.4 0.00025 5.5E-09 49.1 4.9 35 3-37 40-74 (74)
31 TIGR01659 sex-lethal sex-letha 97.4 0.00045 9.7E-09 65.3 7.9 39 3-41 235-275 (346)
32 PF14259 RRM_6: RNA recognitio 97.4 0.00015 3.3E-09 51.5 3.5 32 3-34 39-70 (70)
33 TIGR01649 hnRNP-L_PTB hnRNP-L/ 97.4 0.00022 4.8E-09 69.9 5.4 39 2-40 312-350 (481)
34 KOG0107 Alternative splicing f 97.3 0.00054 1.2E-08 58.4 6.5 18 83-100 101-118 (195)
35 TIGR01628 PABP-1234 polyadenyl 97.3 0.00027 5.8E-09 70.3 5.3 40 2-41 325-364 (562)
36 PLN03213 repressor of silencin 97.3 0.00024 5.3E-09 68.8 4.5 37 3-39 48-86 (759)
37 KOG0131 Splicing factor 3b, su 97.3 0.00016 3.6E-09 61.8 2.9 38 2-39 50-87 (203)
38 KOG0108 mRNA cleavage and poly 97.3 0.00028 6E-09 68.4 4.3 41 2-42 59-99 (435)
39 KOG0110 RNA-binding protein (R 97.3 0.00033 7.2E-09 70.2 4.9 40 1-40 558-597 (725)
40 PLN03120 nucleic acid binding 97.2 0.00046 1E-08 62.4 5.1 38 2-40 42-79 (260)
41 COG0724 RNA-binding proteins ( 97.2 0.00046 1E-08 59.4 4.9 38 2-39 156-193 (306)
42 KOG4208 Nucleolar RNA-binding 97.2 0.00033 7.1E-09 61.0 3.6 38 2-39 91-128 (214)
43 TIGR01645 half-pint poly-U bin 97.2 0.00035 7.5E-09 70.4 4.3 38 2-39 148-185 (612)
44 COG5082 AIR1 Arginine methyltr 97.2 0.00024 5.2E-09 61.2 2.5 41 61-101 98-139 (190)
45 KOG0117 Heterogeneous nuclear 97.1 0.00061 1.3E-08 65.3 4.5 39 3-41 293-331 (506)
46 TIGR01628 PABP-1234 polyadenyl 97.1 0.00066 1.4E-08 67.6 4.8 37 3-39 42-78 (562)
47 KOG4400 E3 ubiquitin ligase in 97.0 0.00043 9.4E-09 62.7 2.6 41 61-102 144-184 (261)
48 KOG0147 Transcriptional coacti 96.9 0.0008 1.7E-08 65.8 4.1 38 2-39 319-356 (549)
49 KOG0117 Heterogeneous nuclear 96.9 0.001 2.2E-08 63.8 4.6 39 2-40 124-163 (506)
50 TIGR01642 U2AF_lg U2 snRNP aux 96.9 0.00075 1.6E-08 66.0 3.8 36 3-39 223-258 (509)
51 TIGR01622 SF-CC1 splicing fact 96.9 0.0012 2.5E-08 63.8 4.9 38 2-40 130-167 (457)
52 KOG0114 Predicted RNA-binding 96.9 0.0013 2.9E-08 51.6 4.2 37 3-39 57-93 (124)
53 KOG0145 RNA-binding protein EL 96.8 0.0011 2.3E-08 59.8 3.8 39 3-41 83-121 (360)
54 KOG0148 Apoptosis-promoting RN 96.8 0.0015 3.2E-08 59.3 4.6 39 3-41 200-238 (321)
55 TIGR01649 hnRNP-L_PTB hnRNP-L/ 96.8 0.0014 3.1E-08 64.3 4.9 37 4-40 135-173 (481)
56 KOG0415 Predicted peptidyl pro 96.8 0.00085 1.8E-08 62.8 3.0 39 4-42 282-320 (479)
57 TIGR01661 ELAV_HUD_SF ELAV/HuD 96.8 0.0019 4.2E-08 60.0 5.0 39 2-40 130-170 (352)
58 KOG0124 Polypyrimidine tract-b 96.6 0.0017 3.6E-08 61.1 3.2 37 3-39 155-191 (544)
59 KOG0106 Alternative splicing f 96.5 0.003 6.4E-08 55.8 4.4 34 2-35 132-165 (216)
60 PF00098 zf-CCHC: Zinc knuckle 96.5 0.0016 3.5E-08 35.1 1.7 17 84-100 2-18 (18)
61 TIGR01648 hnRNP-R-Q heterogene 96.5 0.0022 4.8E-08 64.4 3.9 37 2-38 98-135 (578)
62 KOG0126 Predicted RNA-binding 96.5 0.00065 1.4E-08 58.3 -0.3 39 2-40 76-114 (219)
63 KOG0119 Splicing factor 1/bran 96.4 0.0029 6.4E-08 61.4 3.9 96 4-101 205-304 (554)
64 PLN03121 nucleic acid binding 96.2 0.0065 1.4E-07 54.4 4.7 36 3-39 44-79 (243)
65 KOG0123 Polyadenylate-binding 96.2 0.0053 1.2E-07 58.5 4.3 40 3-42 37-76 (369)
66 KOG0110 RNA-binding protein (R 96.0 0.0058 1.3E-07 61.5 3.9 38 3-40 9-46 (725)
67 KOG0123 Polyadenylate-binding 96.0 0.008 1.7E-07 57.3 4.3 37 3-40 116-152 (369)
68 PF13696 zf-CCHC_2: Zinc knuck 95.9 0.0045 9.7E-08 38.3 1.5 23 57-79 5-27 (32)
69 KOG0127 Nucleolar protein fibr 95.7 0.0078 1.7E-07 59.2 2.9 42 2-43 46-87 (678)
70 KOG4212 RNA-binding protein hn 95.3 0.019 4.2E-07 55.2 4.0 39 2-40 85-123 (608)
71 KOG1457 RNA binding protein (c 95.2 0.026 5.7E-07 50.0 4.5 39 4-42 78-119 (284)
72 KOG4209 Splicing factor RNPS1, 95.1 0.031 6.6E-07 50.0 4.6 39 2-41 142-180 (231)
73 PF11608 Limkain-b1: Limkain b 95.1 0.039 8.5E-07 41.8 4.4 37 3-39 39-75 (90)
74 KOG4400 E3 ubiquitin ligase in 94.8 0.021 4.5E-07 51.7 2.8 19 83-101 144-162 (261)
75 KOG0124 Polypyrimidine tract-b 94.7 0.023 5.1E-07 53.6 2.8 40 3-42 252-291 (544)
76 KOG0149 Predicted RNA-binding 94.7 0.023 4.9E-07 50.6 2.5 37 2-39 53-89 (247)
77 KOG0144 RNA-binding protein CU 94.6 0.051 1.1E-06 52.3 4.8 42 1-42 163-207 (510)
78 KOG4661 Hsp27-ERE-TATA-binding 94.6 0.034 7.4E-07 55.2 3.7 40 3-42 447-486 (940)
79 KOG0145 RNA-binding protein EL 94.4 0.052 1.1E-06 49.2 4.2 41 1-41 167-209 (360)
80 KOG4207 Predicted splicing fac 94.4 0.43 9.3E-06 42.1 9.7 26 6-31 61-88 (256)
81 KOG0226 RNA-binding proteins [ 94.3 0.03 6.5E-07 50.5 2.5 36 3-38 232-267 (290)
82 KOG1548 Transcription elongati 94.1 0.082 1.8E-06 49.5 4.9 40 2-41 313-352 (382)
83 KOG4206 Spliceosomal protein s 93.9 0.057 1.2E-06 47.7 3.5 40 3-42 52-91 (221)
84 PF13917 zf-CCHC_3: Zinc knuck 93.9 0.031 6.7E-07 36.8 1.4 18 61-78 5-22 (42)
85 KOG0131 Splicing factor 3b, su 93.9 0.069 1.5E-06 46.0 3.8 40 2-41 138-177 (203)
86 KOG0147 Transcriptional coacti 93.5 0.075 1.6E-06 52.4 3.7 36 4-39 491-526 (549)
87 KOG2202 U2 snRNP splicing fact 93.4 0.053 1.1E-06 48.9 2.3 37 3-39 110-146 (260)
88 PF14787 zf-CCHC_5: GAG-polypr 93.0 0.053 1.1E-06 34.3 1.3 19 61-79 3-21 (36)
89 PF03880 DbpA: DbpA RNA bindin 92.8 0.13 2.8E-06 37.6 3.3 36 2-38 39-74 (74)
90 KOG0116 RasGAP SH3 binding pro 92.5 0.28 6.1E-06 47.6 6.1 39 4-43 331-369 (419)
91 smart00343 ZnF_C2HC zinc finge 92.2 0.072 1.6E-06 30.9 1.1 16 62-77 1-16 (26)
92 PF04059 RRM_2: RNA recognitio 91.7 0.27 5.8E-06 38.2 4.0 37 3-39 45-85 (97)
93 COG5222 Uncharacterized conser 90.6 0.12 2.5E-06 47.8 1.2 25 55-79 171-195 (427)
94 KOG4660 Protein Mei2, essentia 90.0 0.16 3.5E-06 50.2 1.6 33 2-34 111-143 (549)
95 KOG2314 Translation initiation 89.6 0.29 6.2E-06 48.7 3.1 35 3-37 105-140 (698)
96 KOG1995 Conserved Zn-finger pr 89.6 0.23 4.9E-06 46.7 2.3 41 2-42 115-155 (351)
97 KOG0132 RNA polymerase II C-te 89.5 0.42 9.1E-06 49.2 4.2 40 2-41 456-495 (894)
98 KOG0153 Predicted RNA-binding 88.6 0.48 1E-05 44.6 3.6 38 3-40 264-302 (377)
99 KOG0105 Alternative splicing f 88.0 0.63 1.4E-05 40.4 3.7 28 2-29 149-176 (241)
100 PF13696 zf-CCHC_2: Zinc knuck 87.9 0.31 6.8E-06 30.1 1.3 20 82-101 8-27 (32)
101 PF13917 zf-CCHC_3: Zinc knuck 86.8 0.34 7.3E-06 31.9 1.1 19 82-100 4-22 (42)
102 KOG4454 RNA binding protein (R 86.4 0.42 9.1E-06 42.5 1.8 37 5-41 51-87 (267)
103 KOG0120 Splicing factor U2AF, 86.0 0.41 8.8E-06 47.4 1.7 40 2-41 330-369 (500)
104 KOG0533 RRM motif-containing p 85.7 1.1 2.4E-05 40.4 4.2 38 3-40 124-161 (243)
105 KOG1456 Heterogeneous nuclear 84.8 1 2.3E-05 42.9 3.7 35 6-40 162-198 (494)
106 COG5175 MOT2 Transcriptional r 84.1 1.2 2.5E-05 42.1 3.7 34 6-39 168-201 (480)
107 PF14392 zf-CCHC_4: Zinc knuck 83.7 0.42 9.2E-06 32.1 0.5 17 61-77 32-48 (49)
108 PF08952 DUF1866: Domain of un 83.5 1.7 3.6E-05 36.3 4.0 33 6-39 73-105 (146)
109 KOG0144 RNA-binding protein CU 83.1 0.65 1.4E-05 44.9 1.6 40 2-41 75-117 (510)
110 PF15288 zf-CCHC_6: Zinc knuck 80.9 1.2 2.7E-05 28.9 1.8 20 61-80 2-23 (40)
111 PF11767 SET_assoc: Histone ly 80.1 2.2 4.9E-05 30.7 3.2 30 7-36 37-66 (66)
112 KOG1456 Heterogeneous nuclear 78.8 3.1 6.7E-05 39.8 4.5 39 2-40 324-362 (494)
113 KOG1190 Polypyrimidine tract-b 77.5 3.3 7.2E-05 40.0 4.3 38 2-39 334-371 (492)
114 KOG1548 Transcription elongati 76.4 2.6 5.7E-05 39.8 3.3 39 3-41 183-221 (382)
115 PF14787 zf-CCHC_5: GAG-polypr 74.5 1.7 3.8E-05 27.5 1.1 19 83-101 3-21 (36)
116 KOG0146 RNA-binding protein ET 74.3 4.2 9.1E-05 37.3 3.9 39 2-40 59-100 (371)
117 KOG3116 Predicted C3H1-type Zn 74.2 0.79 1.7E-05 38.2 -0.6 19 61-79 28-46 (177)
118 KOG4211 Splicing factor hnRNP- 72.6 3.5 7.6E-05 40.5 3.2 37 2-39 48-84 (510)
119 KOG2193 IGF-II mRNA-binding pr 69.6 2.9 6.4E-05 40.5 2.0 40 1-40 35-75 (584)
120 PF04847 Calcipressin: Calcipr 68.9 5.6 0.00012 34.4 3.4 35 6-40 34-70 (184)
121 KOG4205 RNA-binding protein mu 68.6 2.6 5.7E-05 39.4 1.4 39 2-41 138-176 (311)
122 PF14392 zf-CCHC_4: Zinc knuck 67.5 2.3 5.1E-05 28.5 0.6 20 80-99 29-48 (49)
123 PF05172 Nup35_RRM: Nup53/35/4 67.4 11 0.00023 29.4 4.4 35 3-38 54-89 (100)
124 PF08777 RRM_3: RNA binding mo 66.8 5 0.00011 31.3 2.5 35 5-39 39-78 (105)
125 KOG2068 MOT2 transcription fac 66.8 1.8 3.9E-05 40.6 -0.1 34 6-39 128-161 (327)
126 KOG4211 Splicing factor hnRNP- 64.9 5.1 0.00011 39.5 2.5 34 3-37 145-178 (510)
127 KOG4205 RNA-binding protein mu 60.4 3.6 7.8E-05 38.5 0.7 39 2-41 47-85 (311)
128 PF09180 ProRS-C_1: Prolyl-tRN 60.2 7.3 0.00016 28.0 2.1 29 2-30 10-38 (68)
129 COG5222 Uncharacterized conser 59.1 3.9 8.5E-05 38.0 0.7 22 81-102 175-196 (427)
130 PRK11634 ATP-dependent RNA hel 51.7 32 0.00069 35.2 5.9 37 3-40 526-562 (629)
131 KOG4212 RNA-binding protein hn 51.5 27 0.00058 34.3 4.9 39 2-40 255-293 (608)
132 KOG3794 CBF1-interacting corep 51.2 9 0.00019 36.8 1.7 19 60-78 124-144 (453)
133 KOG4660 Protein Mei2, essentia 50.6 16 0.00035 36.5 3.4 24 3-26 431-454 (549)
134 PF08206 OB_RNB: Ribonuclease 49.0 6.7 0.00015 27.1 0.4 37 2-39 7-44 (58)
135 KOG1365 RNA-binding protein Fu 48.7 7.1 0.00015 37.5 0.6 36 3-38 324-359 (508)
136 KOG2318 Uncharacterized conser 48.5 22 0.00047 35.9 3.9 33 4-36 269-301 (650)
137 PF14605 Nup35_RRM_2: Nup53/35 48.5 18 0.00039 24.5 2.5 18 3-20 36-53 (53)
138 PF03439 Spt5-NGN: Early trans 48.4 21 0.00045 26.6 3.0 27 3-29 44-70 (84)
139 KOG4307 RNA binding protein RB 47.5 16 0.00034 37.8 2.8 35 3-38 40-74 (944)
140 PF12353 eIF3g: Eukaryotic tra 45.2 26 0.00056 28.4 3.3 51 28-79 72-124 (128)
141 KOG4210 Nuclear localization s 40.9 19 0.0004 33.3 2.1 41 2-43 226-266 (285)
142 KOG0120 Splicing factor U2AF, 40.6 17 0.00038 36.1 1.9 35 2-37 222-256 (500)
143 KOG4676 Splicing factor, argin 40.2 29 0.00063 33.6 3.2 33 5-38 54-86 (479)
144 COG5179 TAF1 Transcription ini 40.1 16 0.00036 37.3 1.6 26 53-78 930-957 (968)
145 KOG4019 Calcineurin-mediated s 40.0 41 0.00089 29.2 3.8 38 4-41 52-90 (193)
146 PF07576 BRAP2: BRCA1-associat 38.8 40 0.00086 26.6 3.4 25 6-30 57-81 (110)
147 KOG2044 5'-3' exonuclease HKE1 35.8 13 0.00029 38.8 0.3 21 59-79 259-279 (931)
148 KOG0314 Predicted E3 ubiquitin 35.6 44 0.00095 32.9 3.7 40 61-100 134-176 (448)
149 KOG1365 RNA-binding protein Fu 34.5 34 0.00074 33.1 2.7 20 3-22 206-225 (508)
150 KOG0119 Splicing factor 1/bran 34.5 22 0.00048 35.2 1.6 21 60-80 285-305 (554)
151 PF02714 DUF221: Domain of unk 34.3 43 0.00094 30.7 3.4 32 6-39 1-32 (325)
152 KOG2673 Uncharacterized conser 29.4 28 0.00061 34.2 1.3 20 61-80 129-148 (485)
153 KOG3116 Predicted C3H1-type Zn 29.0 14 0.0003 31.0 -0.7 21 82-102 27-47 (177)
154 PF11823 DUF3343: Protein of u 28.1 62 0.0014 23.1 2.7 27 4-30 2-28 (73)
155 KOG2591 c-Mpl binding protein, 27.5 29 0.00063 35.0 1.0 27 7-33 216-244 (684)
156 KOG0314 Predicted E3 ubiquitin 27.4 38 0.00083 33.3 1.9 23 56-78 154-176 (448)
157 PF10309 DUF2414: Protein of u 27.2 72 0.0016 22.7 2.8 18 6-23 45-62 (62)
158 PRK08559 nusG transcription an 26.7 61 0.0013 26.8 2.7 24 3-26 46-69 (153)
159 KOG2416 Acinus (induces apopto 24.6 85 0.0018 32.1 3.7 36 4-39 482-520 (718)
160 KOG3070 Predicted RNA-binding 23.7 67 0.0015 28.8 2.6 39 63-101 176-218 (235)
161 KOG2560 RNA splicing factor - 23.0 19 0.00042 35.3 -1.0 24 81-104 111-134 (529)
162 PRK14714 DNA polymerase II lar 22.8 99 0.0021 34.4 4.0 12 61-72 668-679 (1337)
163 TIGR00405 L26e_arch ribosomal 22.2 82 0.0018 25.5 2.7 24 3-26 38-61 (145)
164 COG5638 Uncharacterized conser 21.5 1E+02 0.0022 30.2 3.4 30 4-33 259-288 (622)
165 KOG3152 TBP-binding protein, a 20.9 24 0.00052 32.2 -0.8 27 6-32 131-157 (278)
166 KOG4285 Mitotic phosphoprotein 20.7 1.1E+02 0.0023 28.8 3.3 29 4-33 233-261 (350)
167 KOG1818 Membrane trafficking a 20.5 44 0.00096 34.3 0.8 28 61-88 182-217 (634)
168 PF03467 Smg4_UPF3: Smg-4/UPF3 20.1 1.2E+02 0.0026 25.8 3.3 35 5-39 57-96 (176)
No 1
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.79 E-value=1.2e-18 Score=146.17 Aligned_cols=73 Identities=53% Similarity=0.996 Sum_probs=53.6
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCCcccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGPRGPGGSREYLGRGPPPGSGRCFNCGIDGHWARDCKA 78 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~r~~g~~r~~~~r~~~~~~~rC~~CG~~GH~ardC~~ 78 (268)
+.|||||||+++.||++||..|||.+|+|.+|+||+..+.+++...+.. . ++.+...||+||..|||++.|..
T Consensus 46 PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~r~~r~gg~---~-~~~g~~~~~r~G~rg~~~r~~~~ 118 (195)
T KOG0107|consen 46 PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRPRGSRRGGS---R-PPRGRGFCYRCGERGHIGRNCKD 118 (195)
T ss_pred CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCccccccCCC---C-CcccccccccCCCcccccccccc
Confidence 5699999999999999999999999999999999999987763322111 1 22222336666666666655544
No 2
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.30 E-value=5.8e-11 Score=102.59 Aligned_cols=40 Identities=48% Similarity=0.766 Sum_probs=37.5
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
.+|||||-|.+..||++||+.|||.+|+|+.|+|++|+-.
T Consensus 54 sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~aryg 93 (256)
T KOG4207|consen 54 SRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARYG 93 (256)
T ss_pred ccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhcC
Confidence 4799999999999999999999999999999999999743
No 3
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.08 E-value=8.6e-11 Score=105.97 Aligned_cols=70 Identities=30% Similarity=0.729 Sum_probs=57.7
Q ss_pred CCCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCCcccCC
Q 024424 1 MKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGPRGPGGSREYLGRGPPPGSGRCFNCGIDGHWARDCKAG 79 (268)
Q Consensus 1 lkrGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~r~~g~~r~~~~r~~~~~~~rC~~CG~~GH~ardC~~~ 79 (268)
|-|+|+||.|+..+||..||.+|||++|.|+.|.|++...+-+...++. ..-.||.||+.|||...|+..
T Consensus 110 ivkdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlrtapgmg---------Dq~~cyrcGkeghwskEcP~~ 179 (346)
T KOG0109|consen 110 IVKDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLRTAPGMG---------DQSGCYRCGKEGHWSKECPVD 179 (346)
T ss_pred eecceeEEEEeeccchHHHHhcccccccccceeeeeeeccccccCCCCC---------CHHHheeccccccccccCCcc
Confidence 4589999999999999999999999999999999999886544222221 235799999999999999865
No 4
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.85 E-value=2.3e-09 Score=96.83 Aligned_cols=41 Identities=29% Similarity=0.512 Sum_probs=38.3
Q ss_pred CCCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 1 MKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 1 lkrGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
|-|+||||.+++...|++||.+|+|..|+|..|.||.++.+
T Consensus 34 IvKNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 34 IVKNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred eecccceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 45789999999999999999999999999999999998865
No 5
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=98.48 E-value=4.3e-07 Score=75.36 Aligned_cols=42 Identities=33% Similarity=0.589 Sum_probs=38.5
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGPR 43 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~r 43 (268)
.+|||||+|.+.++|+.||+.|+|.+|+|+.|+|+++...+.
T Consensus 75 ~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~~~~ 116 (144)
T PLN03134 75 SRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPANDRPS 116 (144)
T ss_pred cceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCcCCC
Confidence 379999999999999999999999999999999999976543
No 6
>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=98.34 E-value=1e-06 Score=60.76 Aligned_cols=35 Identities=46% Similarity=0.727 Sum_probs=33.9
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEec
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 38 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a 38 (268)
++|||+|.+.++|+.|+..|+|..|.|..|.|+++
T Consensus 22 ~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 22 GFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp TEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred CEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 89999999999999999999999999999999985
No 7
>smart00361 RRM_1 RNA recognition motif.
Probab=98.33 E-value=6.9e-07 Score=64.72 Aligned_cols=34 Identities=35% Similarity=0.541 Sum_probs=32.1
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEE
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIV 35 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrV 35 (268)
.+|||||+|.+.++|.+||..|||..|+|+.|.+
T Consensus 36 ~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 36 KRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 4799999999999999999999999999999876
No 8
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.30 E-value=1.2e-06 Score=75.09 Aligned_cols=38 Identities=66% Similarity=1.110 Sum_probs=36.5
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
.||||+|+++.||++||..-||..++|-.|+|||+.+.
T Consensus 46 pfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprgg 83 (241)
T KOG0105|consen 46 PFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGG 83 (241)
T ss_pred CeeEEEecCccchhhhhhcccccccCcceEEEEeccCC
Confidence 59999999999999999999999999999999999875
No 9
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.13 E-value=2.9e-05 Score=70.84 Aligned_cols=40 Identities=35% Similarity=0.709 Sum_probs=37.6
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
.+|||||+|+++.||+.|+++.+|.+|+|+.|.|.+..+.
T Consensus 142 skGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvERgR 181 (335)
T KOG0113|consen 142 SKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVERGR 181 (335)
T ss_pred ccceEEEEeccHHHHHHHHHhccCceecCcEEEEEecccc
Confidence 4799999999999999999999999999999999998764
No 10
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.08 E-value=2e-06 Score=75.44 Aligned_cols=40 Identities=35% Similarity=0.528 Sum_probs=37.6
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
+|||||+|+..+||..||++||+.+|.|+.|+|.+|+...
T Consensus 52 RgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~k 91 (298)
T KOG0111|consen 52 RGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPEK 91 (298)
T ss_pred cceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCcc
Confidence 6999999999999999999999999999999999998543
No 11
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=97.93 E-value=7.3e-06 Score=75.51 Aligned_cols=39 Identities=41% Similarity=0.662 Sum_probs=36.9
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
.||||||+|++.+||++|-.+|+|+.|.|++|.|..+..
T Consensus 135 SKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATa 173 (376)
T KOG0125|consen 135 SKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATA 173 (376)
T ss_pred CCccceEEecChhhHHHHHHHhhcceeeceEEEEeccch
Confidence 489999999999999999999999999999999998874
No 12
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.92 E-value=5.4e-06 Score=72.98 Aligned_cols=42 Identities=57% Similarity=0.964 Sum_probs=39.1
Q ss_pred CCCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 1 MKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 1 lkrGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
|++|||||+|++..||++||..||+.+|+|.++.|+++.+..
T Consensus 33 mk~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~ 74 (216)
T KOG0106|consen 33 MKNGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKR 74 (216)
T ss_pred eecccceeccCchhhhhcccchhcCceecceeeeeecccccc
Confidence 689999999999999999999999999999999999998643
No 13
>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=97.87 E-value=1.4e-05 Score=56.33 Aligned_cols=33 Identities=39% Similarity=0.743 Sum_probs=30.5
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceE
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRII 34 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~Ir 34 (268)
.++||||+|.+.++|+.||+.|+|..|+|..|+
T Consensus 38 ~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 38 SKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred ccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 368999999999999999999999999998874
No 14
>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=97.80 E-value=2.2e-05 Score=74.02 Aligned_cols=39 Identities=36% Similarity=0.554 Sum_probs=36.4
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
.+|||||+|.+.++|+.||..|+|.+|.++.|+|.++..
T Consensus 148 srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p 186 (346)
T TIGR01659 148 SFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARP 186 (346)
T ss_pred cCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccc
Confidence 369999999999999999999999999999999999864
No 15
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.76 E-value=2.5e-05 Score=72.61 Aligned_cols=38 Identities=37% Similarity=0.607 Sum_probs=36.2
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
+|||||+|.+.+||+.||+.|+|..|.|+.|.|+++..
T Consensus 45 ~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~ 82 (352)
T TIGR01661 45 LGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARP 82 (352)
T ss_pred ceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecc
Confidence 58999999999999999999999999999999999864
No 16
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=97.73 E-value=1.6e-05 Score=68.32 Aligned_cols=40 Identities=53% Similarity=1.256 Sum_probs=34.2
Q ss_pred CCccccCCCCCCCCCccc---------CC------CCCCccccCCCCCccccccC
Q 024424 60 SGRCFNCGIDGHWARDCK---------AG------DWKNKCYRCGERGHIERNCQ 99 (268)
Q Consensus 60 ~~rC~~CG~~GH~ardC~---------~~------~~~~~cyrcg~~GH~~r~c~ 99 (268)
.-.||+||+.||+.+||+ -+ .+...||.||+.||+..+|.
T Consensus 60 ~~~C~nCg~~GH~~~DCP~~iC~~C~~~~H~s~~C~~~~~C~~Cg~~GH~~~dC~ 114 (190)
T COG5082 60 NPVCFNCGQNGHLRRDCPHSICYNCSWDGHRSNHCPKPKKCYNCGETGHLSRDCN 114 (190)
T ss_pred ccccchhcccCcccccCChhHhhhcCCCCcccccCCcccccccccccCccccccC
Confidence 458999999999999999 11 25579999999999999995
No 17
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=97.71 E-value=2.5e-05 Score=63.90 Aligned_cols=39 Identities=26% Similarity=0.460 Sum_probs=36.5
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
-+|||+|+|++.++|+.||+.|||.+|.|..|.|.|+--
T Consensus 113 ~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv 151 (170)
T KOG0130|consen 113 VKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFV 151 (170)
T ss_pred ccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEe
Confidence 479999999999999999999999999999999999853
No 18
>smart00360 RRM RNA recognition motif.
Probab=97.71 E-value=5.5e-05 Score=52.02 Aligned_cols=34 Identities=44% Similarity=0.782 Sum_probs=31.5
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEE
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 36 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe 36 (268)
+|||||+|.+.++|+.|+..|++..|.|..|.|+
T Consensus 38 ~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 38 KGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 5899999999999999999999999999988773
No 19
>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=97.70 E-value=4.4e-05 Score=76.36 Aligned_cols=41 Identities=44% Similarity=0.646 Sum_probs=38.0
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
.++||||+|++.++|++||+.|||.+|+|+.|.|.|++...
T Consensus 268 ~rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~ 308 (578)
T TIGR01648 268 IRDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVD 308 (578)
T ss_pred ecCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCC
Confidence 46899999999999999999999999999999999997643
No 20
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=97.61 E-value=5.4e-05 Score=68.33 Aligned_cols=41 Identities=27% Similarity=0.511 Sum_probs=38.8
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
.||||||.|...+||+.||..|+|.+|.++.|+-.|+..++
T Consensus 103 sKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp 143 (321)
T KOG0148|consen 103 SKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKP 143 (321)
T ss_pred ccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCc
Confidence 47999999999999999999999999999999999998766
No 21
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=97.59 E-value=8.7e-05 Score=74.60 Aligned_cols=41 Identities=22% Similarity=0.386 Sum_probs=38.2
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
.+|||||+|++.++|..||..|||++|+|+.|+|.++...+
T Consensus 245 sKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~pP 285 (612)
T TIGR01645 245 HKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPP 285 (612)
T ss_pred cCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCCc
Confidence 47999999999999999999999999999999999998654
No 22
>smart00362 RRM_2 RNA recognition motif.
Probab=97.57 E-value=0.00011 Score=50.78 Aligned_cols=34 Identities=44% Similarity=0.706 Sum_probs=31.4
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEE
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 36 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe 36 (268)
.|+|||+|.+.++|+.||..|+|..|.|..|.|.
T Consensus 39 ~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 39 KGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 5899999999999999999999999999888763
No 23
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=97.55 E-value=9.5e-05 Score=60.03 Aligned_cols=38 Identities=32% Similarity=0.544 Sum_probs=36.0
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
||+||+|...+||+.||..++|+.|+.+.|+|.|..+-
T Consensus 79 GFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~GF 116 (153)
T KOG0121|consen 79 GFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAGF 116 (153)
T ss_pred ceEEEEEecchhHHHHHHHhccCcccccceeeeccccc
Confidence 89999999999999999999999999999999998653
No 24
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=97.54 E-value=8.7e-05 Score=72.49 Aligned_cols=39 Identities=36% Similarity=0.647 Sum_probs=37.3
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
|||||+|.+..+|..||..|+|.+|+|+.|.|.||....
T Consensus 159 GFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd 197 (678)
T KOG0127|consen 159 GFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKD 197 (678)
T ss_pred ceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccc
Confidence 999999999999999999999999999999999998654
No 25
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=97.51 E-value=6.3e-05 Score=40.61 Aligned_cols=17 Identities=65% Similarity=1.425 Sum_probs=13.4
Q ss_pred ccccCCCCCCCCCcccC
Q 024424 62 RCFNCGIDGHWARDCKA 78 (268)
Q Consensus 62 rC~~CG~~GH~ardC~~ 78 (268)
.||+||+.||++.+|+.
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 58888888888888863
No 26
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=97.48 E-value=9.8e-05 Score=61.24 Aligned_cols=41 Identities=37% Similarity=1.082 Sum_probs=30.2
Q ss_pred CCccccCCCCCCCCCcccCCC---CCCccccCCCCCccccccCC
Q 024424 60 SGRCFNCGIDGHWARDCKAGD---WKNKCYRCGERGHIERNCQN 100 (268)
Q Consensus 60 ~~rC~~CG~~GH~ardC~~~~---~~~~cyrcg~~GH~~r~c~~ 100 (268)
...||+|+..||++.+|+... ....||.|+..||++.+|+.
T Consensus 27 ~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~C~~Cg~~GH~~~~Cp~ 70 (148)
T PTZ00368 27 ARPCYKCGEPGHLSRECPSAPGGRGERSCYNCGKTGHLSRECPE 70 (148)
T ss_pred CccCccCCCCCcCcccCcCCCCCCCCcccCCCCCcCcCcccCCC
Confidence 457888888888888887643 23568888888888888865
No 27
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=97.47 E-value=0.00014 Score=71.09 Aligned_cols=40 Identities=35% Similarity=0.570 Sum_probs=37.1
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
.+|||||+|.+.++|+.||..|+|..|.|..|.|.++...
T Consensus 336 ~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~ 375 (509)
T TIGR01642 336 SKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVG 375 (509)
T ss_pred cCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccC
Confidence 4799999999999999999999999999999999998643
No 28
>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=97.47 E-value=0.00013 Score=70.42 Aligned_cols=37 Identities=32% Similarity=0.652 Sum_probs=35.6
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
+|||||+|.+.++|+.||..|+|.+|.|+.|.|.++.
T Consensus 228 ~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 228 KGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ 264 (457)
T ss_pred ceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence 6899999999999999999999999999999999976
No 29
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=97.46 E-value=8.5e-05 Score=61.59 Aligned_cols=40 Identities=45% Similarity=1.158 Sum_probs=27.0
Q ss_pred CccccCCCCCCCCCcccCCC----CCCccccCCCCCccccccCC
Q 024424 61 GRCFNCGIDGHWARDCKAGD----WKNKCYRCGERGHIERNCQN 100 (268)
Q Consensus 61 ~rC~~CG~~GH~ardC~~~~----~~~~cyrcg~~GH~~r~c~~ 100 (268)
..||+|+..||++.+|+... ....||.|+..||++.+|+.
T Consensus 78 ~~C~~Cg~~GH~~~~C~~~~~~~~~~~~C~~Cg~~gH~~~~C~~ 121 (148)
T PTZ00368 78 RSCYNCGQTGHISRECPNRAKGGAARRACYNCGGEGHISRDCPN 121 (148)
T ss_pred cccCcCCCCCcccccCCCcccccccchhhcccCcCCcchhcCCC
Confidence 46777777777777776532 23467777777777777776
No 30
>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=97.45 E-value=0.00025 Score=49.12 Aligned_cols=35 Identities=49% Similarity=0.843 Sum_probs=32.7
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEe
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEF 37 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~ 37 (268)
.|+|||+|.+.++|..|+..|++..|+|..|.|.+
T Consensus 40 ~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 40 KGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred ceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 68999999999999999999999999999998864
No 31
>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=97.44 E-value=0.00045 Score=65.26 Aligned_cols=39 Identities=31% Similarity=0.443 Sum_probs=34.6
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecC--cceEEEeccCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDG--SRIIVEFARGG 41 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~G--r~IrVe~a~~~ 41 (268)
+|||||+|++.++|++||+.|++..|++ ..|.|.++...
T Consensus 235 kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~ 275 (346)
T TIGR01659 235 RGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEH 275 (346)
T ss_pred ceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCcc
Confidence 5899999999999999999999999977 57888887653
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=97.42 E-value=0.00015 Score=51.55 Aligned_cols=32 Identities=50% Similarity=0.808 Sum_probs=29.8
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceE
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRII 34 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~Ir 34 (268)
+|+|||+|.+.++|+.||..++|.+|+|+.|.
T Consensus 39 ~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 39 RGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 58999999999999999999999999998874
No 33
>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=97.39 E-value=0.00022 Score=69.92 Aligned_cols=39 Identities=31% Similarity=0.384 Sum_probs=36.6
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
++|||||+|.+.++|+.||..|+|..|.|+.|.|.+++.
T Consensus 312 ~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~ 350 (481)
T TIGR01649 312 KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQ 350 (481)
T ss_pred CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccc
Confidence 469999999999999999999999999999999999864
No 34
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=97.35 E-value=0.00054 Score=58.36 Aligned_cols=18 Identities=72% Similarity=1.608 Sum_probs=16.2
Q ss_pred CccccCCCCCccccccCC
Q 024424 83 NKCYRCGERGHIERNCQN 100 (268)
Q Consensus 83 ~~cyrcg~~GH~~r~c~~ 100 (268)
..||.||+.||+.+.|.+
T Consensus 101 ~~~~r~G~rg~~~r~~~~ 118 (195)
T KOG0107|consen 101 GFCYRCGERGHIGRNCKD 118 (195)
T ss_pred cccccCCCcccccccccc
Confidence 349999999999999997
No 35
>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=97.33 E-value=0.00027 Score=70.33 Aligned_cols=40 Identities=35% Similarity=0.619 Sum_probs=37.2
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
.+|||||+|.+.++|+.||..|+|..|.|+.|.|.++...
T Consensus 325 ~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~k 364 (562)
T TIGR01628 325 SRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQRK 364 (562)
T ss_pred cCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccCc
Confidence 4699999999999999999999999999999999998753
No 36
>PLN03213 repressor of silencing 3; Provisional
Probab=97.32 E-value=0.00024 Score=68.82 Aligned_cols=37 Identities=30% Similarity=0.471 Sum_probs=34.6
Q ss_pred CCeEEEEeCCH--HHHHHHHHhhCCCeecCcceEEEecc
Q 024424 3 RDFAFVEFSDP--RDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 3 rGfgFVeF~~~--~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
+|||||+|... .++.+||..|||.+++|+.|+|+.|+
T Consensus 48 RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAK 86 (759)
T PLN03213 48 RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAK 86 (759)
T ss_pred CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeecc
Confidence 69999999987 67999999999999999999999876
No 37
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=97.30 E-value=0.00016 Score=61.83 Aligned_cols=38 Identities=34% Similarity=0.373 Sum_probs=35.9
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
-+|||||||.+.+||+.||.-|++..|.|+.|+|..+.
T Consensus 50 ~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas 87 (203)
T KOG0131|consen 50 HQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS 87 (203)
T ss_pred ccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence 47999999999999999999999999999999998886
No 38
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=97.26 E-value=0.00028 Score=68.41 Aligned_cols=41 Identities=32% Similarity=0.618 Sum_probs=38.1
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
.+||||++|.+.++|+.||..|+|.+|.|+.|+|.|+....
T Consensus 59 ~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~~ 99 (435)
T KOG0108|consen 59 PKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNRK 99 (435)
T ss_pred cCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccccc
Confidence 47999999999999999999999999999999999987543
No 39
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.26 E-value=0.00033 Score=70.22 Aligned_cols=40 Identities=30% Similarity=0.600 Sum_probs=37.1
Q ss_pred CCCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 1 MKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 1 lkrGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
|..|||||+|.+.++|..||..|+|+.|+|..|.|.++..
T Consensus 558 lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~ 597 (725)
T KOG0110|consen 558 LSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISEN 597 (725)
T ss_pred cccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccC
Confidence 3469999999999999999999999999999999999873
No 40
>PLN03120 nucleic acid binding protein; Provisional
Probab=97.22 E-value=0.00046 Score=62.43 Aligned_cols=38 Identities=26% Similarity=0.485 Sum_probs=35.0
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
.+|||||+|.+.++|+.|| .|+|..|.|+.|.|.++..
T Consensus 42 ~~GfAFVtF~d~eaAe~Al-lLnG~~l~gr~V~Vt~a~~ 79 (260)
T PLN03120 42 RSQIAYVTFKDPQGAETAL-LLSGATIVDQSVTITPAED 79 (260)
T ss_pred CCCEEEEEeCcHHHHHHHH-HhcCCeeCCceEEEEeccC
Confidence 3689999999999999999 5999999999999999864
No 41
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=97.22 E-value=0.00046 Score=59.40 Aligned_cols=38 Identities=39% Similarity=0.662 Sum_probs=36.1
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
.+|||||+|.+.++|..||..|+|..|.|+.|.|.++.
T Consensus 156 ~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 156 SRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred cCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 47999999999999999999999999999999999975
No 42
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=97.20 E-value=0.00033 Score=61.00 Aligned_cols=38 Identities=21% Similarity=0.218 Sum_probs=34.5
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
.+|||||||++.+.|+-|.+.||++.|.+..|.|-+-.
T Consensus 91 SKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmp 128 (214)
T KOG4208|consen 91 SKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMP 128 (214)
T ss_pred cCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeC
Confidence 37999999999999999999999999999988887754
No 43
>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=97.19 E-value=0.00035 Score=70.36 Aligned_cols=38 Identities=34% Similarity=0.489 Sum_probs=35.5
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
.+|||||+|.+.++|+.||..|||..|.|+.|.|.+..
T Consensus 148 skGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~ 185 (612)
T TIGR01645 148 HKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS 185 (612)
T ss_pred cCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccc
Confidence 47999999999999999999999999999999998654
No 44
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=97.17 E-value=0.00024 Score=61.23 Aligned_cols=41 Identities=34% Similarity=0.972 Sum_probs=37.6
Q ss_pred CccccCCCCCCCCCcc-cCCCCCCccccCCCCCccccccCCC
Q 024424 61 GRCFNCGIDGHWARDC-KAGDWKNKCYRCGERGHIERNCQNS 101 (268)
Q Consensus 61 ~rC~~CG~~GH~ardC-~~~~~~~~cyrcg~~GH~~r~c~~s 101 (268)
.+||+||..||++.|| +....+..|+.|...+|+..+|+.-
T Consensus 98 ~~C~~Cg~~GH~~~dC~P~~~~~~~C~~C~s~~H~s~~Cp~~ 139 (190)
T COG5082 98 KKCYNCGETGHLSRDCNPSKDQQKSCFDCNSTRHSSEDCPSI 139 (190)
T ss_pred cccccccccCccccccCcccccCcceeccCCCccccccCccc
Confidence 6899999999999999 6777778999999999999999973
No 45
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=97.08 E-value=0.00061 Score=65.30 Aligned_cols=39 Identities=44% Similarity=0.660 Sum_probs=37.0
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
+.||||.|.+.+||.+|++.|+|++|+|..|.|.+|+..
T Consensus 293 rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~ 331 (506)
T KOG0117|consen 293 RDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPV 331 (506)
T ss_pred cceeEEeecchHHHHHHHHHhcCceecCceEEEEecCCh
Confidence 579999999999999999999999999999999999864
No 46
>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=97.05 E-value=0.00066 Score=67.57 Aligned_cols=37 Identities=24% Similarity=0.525 Sum_probs=35.2
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
+|||||+|.+.+||+.||+.|++..|.|+.|+|.|+.
T Consensus 42 ~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~ 78 (562)
T TIGR01628 42 LGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQ 78 (562)
T ss_pred ceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccc
Confidence 5899999999999999999999999999999999875
No 47
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=96.99 E-value=0.00043 Score=62.66 Aligned_cols=41 Identities=37% Similarity=1.027 Sum_probs=34.8
Q ss_pred CccccCCCCCCCCCcccCCCCCCccccCCCCCccccccCCCC
Q 024424 61 GRCFNCGIDGHWARDCKAGDWKNKCYRCGERGHIERNCQNSP 102 (268)
Q Consensus 61 ~rC~~CG~~GH~ardC~~~~~~~~cyrcg~~GH~~r~c~~s~ 102 (268)
..||+||..|||..+|+.. ....||.|+..+|+..+|+...
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~~-~~~~c~~c~~~~h~~~~C~~~~ 184 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPEN-KGGTCFRCGKVGHGSRDCPSKQ 184 (261)
T ss_pred CccCCCCcCCcchhhCCCC-CCCccccCCCcceecccCCccc
Confidence 4599999999999999976 5678999999999999998744
No 48
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=96.94 E-value=0.0008 Score=65.83 Aligned_cols=38 Identities=32% Similarity=0.514 Sum_probs=35.4
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
-+|||||+|.+.++|.+|+..|||++|.|+.|+|....
T Consensus 319 skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~ 356 (549)
T KOG0147|consen 319 SKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVT 356 (549)
T ss_pred ccCcceEEEecHHHHHHHHHHhccceecCceEEEEEee
Confidence 47999999999999999999999999999999988754
No 49
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=96.93 E-value=0.001 Score=63.82 Aligned_cols=39 Identities=28% Similarity=0.441 Sum_probs=34.8
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCee-cCcceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDV-DGSRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l-~Gr~IrVe~a~~ 40 (268)
-+|||||+|.+.++|+.||+.||+.+| .|+.|.|.....
T Consensus 124 nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Sva 163 (506)
T KOG0117|consen 124 NRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVA 163 (506)
T ss_pred CcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeee
Confidence 479999999999999999999999999 588888887553
No 50
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=96.92 E-value=0.00075 Score=66.01 Aligned_cols=36 Identities=22% Similarity=0.301 Sum_probs=32.5
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
+|||||+|.+.++|..|| .|+|..|.|..|.|....
T Consensus 223 kg~afVeF~~~e~A~~Al-~l~g~~~~g~~l~v~r~~ 258 (509)
T TIGR01642 223 KNFAFLEFRTVEEATFAM-ALDSIIYSNVFLKIRRPH 258 (509)
T ss_pred CCEEEEEeCCHHHHhhhh-cCCCeEeeCceeEecCcc
Confidence 689999999999999999 699999999999886543
No 51
>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=96.90 E-value=0.0012 Score=63.84 Aligned_cols=38 Identities=32% Similarity=0.418 Sum_probs=34.4
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
.+|||||+|.+.++|++||. |+|..|.|..|.|.+...
T Consensus 130 skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~~~~ 167 (457)
T TIGR01622 130 SKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQSSQA 167 (457)
T ss_pred cceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEeecch
Confidence 37999999999999999995 999999999999988653
No 52
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.89 E-value=0.0013 Score=51.61 Aligned_cols=37 Identities=35% Similarity=0.472 Sum_probs=34.6
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
+|-|||.|++..||.+|+++|.|..+++..+.|.+..
T Consensus 57 rGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq 93 (124)
T KOG0114|consen 57 RGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQ 93 (124)
T ss_pred CceEEEEehHhhhHHHHHHHhcccccCCceEEEEecC
Confidence 5899999999999999999999999999999988765
No 53
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=96.85 E-value=0.0011 Score=59.85 Aligned_cols=39 Identities=33% Similarity=0.605 Sum_probs=36.7
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
-|||||.|-+++||++||..|+|..|.-+.|+|.+++..
T Consensus 83 LGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPS 121 (360)
T KOG0145|consen 83 LGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPS 121 (360)
T ss_pred cccceeeecChHHHHHHHhhhcceeeccceEEEEeccCC
Confidence 489999999999999999999999999999999999854
No 54
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=96.84 E-value=0.0015 Score=59.26 Aligned_cols=39 Identities=23% Similarity=0.505 Sum_probs=36.7
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
+||+||-|++.|.|..||..|||++|.|..|++.|-+..
T Consensus 200 qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~ 238 (321)
T KOG0148|consen 200 QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEG 238 (321)
T ss_pred cceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccC
Confidence 699999999999999999999999999999999998754
No 55
>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=96.83 E-value=0.0014 Score=64.27 Aligned_cols=37 Identities=32% Similarity=0.486 Sum_probs=33.3
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecC--cceEEEeccC
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDG--SRIIVEFARG 40 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~G--r~IrVe~a~~ 40 (268)
++|||+|++.++|+.||..|||.+|.+ ..|+|+|++.
T Consensus 135 ~~afVef~~~~~A~~A~~~Lng~~i~~~~~~l~v~~sk~ 173 (481)
T TIGR01649 135 FQALVEFESVNSAQHAKAALNGADIYNGCCTLKIEYAKP 173 (481)
T ss_pred eEEEEEECCHHHHHHHHHHhcCCcccCCceEEEEEEecC
Confidence 689999999999999999999999975 4789999874
No 56
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00085 Score=62.76 Aligned_cols=39 Identities=26% Similarity=0.586 Sum_probs=36.3
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
.||||||++.+.+++|+.+||+..|+.++|.|.|.+...
T Consensus 282 qyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQSVs 320 (479)
T KOG0415|consen 282 QYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQSVS 320 (479)
T ss_pred heeeeeecchhhHHHHHhhhcceeeccceEEeehhhhhh
Confidence 489999999999999999999999999999999987653
No 57
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=96.76 E-value=0.0019 Score=59.97 Aligned_cols=39 Identities=33% Similarity=0.570 Sum_probs=33.8
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecC--cceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDG--SRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~G--r~IrVe~a~~ 40 (268)
.+|||||+|++.++|+.||..|+|..+.| ..|.|.++..
T Consensus 130 ~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~ 170 (352)
T TIGR01661 130 SKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANN 170 (352)
T ss_pred cCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCC
Confidence 36899999999999999999999999987 4577777753
No 58
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=96.58 E-value=0.0017 Score=61.06 Aligned_cols=37 Identities=35% Similarity=0.496 Sum_probs=34.4
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
+||+||||+-++.|.-|++.|||..|.|+.|+|..-.
T Consensus 155 KgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPs 191 (544)
T KOG0124|consen 155 KGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS 191 (544)
T ss_pred cceEEEEEeCcHHHHHHHHHhccccccCccccccCCC
Confidence 6999999999999999999999999999999997543
No 59
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=96.55 E-value=0.003 Score=55.83 Aligned_cols=34 Identities=50% Similarity=0.850 Sum_probs=32.4
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEE
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIV 35 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrV 35 (268)
..+|+||+|.+.+||..||..|+|.+|.+..|.|
T Consensus 132 ~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 132 RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred hccccceeehhhhhhhhcchhccchhhcCceeee
Confidence 4689999999999999999999999999999998
No 60
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=96.54 E-value=0.0016 Score=35.08 Aligned_cols=17 Identities=59% Similarity=1.497 Sum_probs=15.7
Q ss_pred ccccCCCCCccccccCC
Q 024424 84 KCYRCGERGHIERNCQN 100 (268)
Q Consensus 84 ~cyrcg~~GH~~r~c~~ 100 (268)
.||.|++.||++.+|+.
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 69999999999999974
No 61
>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=96.53 E-value=0.0022 Score=64.37 Aligned_cols=37 Identities=30% Similarity=0.468 Sum_probs=31.3
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeec-CcceEEEec
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVD-GSRIIVEFA 38 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~-Gr~IrVe~a 38 (268)
.+|||||+|.+.++|+.||+.|++.+|. |+.|.|.++
T Consensus 98 sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 98 NRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred ccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence 4799999999999999999999999885 666655543
No 62
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.47 E-value=0.00065 Score=58.31 Aligned_cols=39 Identities=31% Similarity=0.429 Sum_probs=36.2
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
.+||||+.|++.....-||++|+|+.|.|+.|+|.+...
T Consensus 76 SKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~~ 114 (219)
T KOG0126|consen 76 SKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVSN 114 (219)
T ss_pred ccceEEEEecCccceEEEEeccCCceecceeEEeeeccc
Confidence 379999999999999999999999999999999998754
No 63
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=96.44 E-value=0.0029 Score=61.42 Aligned_cols=96 Identities=21% Similarity=0.320 Sum_probs=58.3
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC-CCCC-CCCCCCCCCCCCCCCCccccCCCCCCCCCcccCC--
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG-PRGP-GGSREYLGRGPPPGSGRCFNCGIDGHWARDCKAG-- 79 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~-~r~~-g~~r~~~~r~~~~~~~rC~~CG~~GH~ardC~~~-- 79 (268)
.+++|+-++.+..++||..+....... |.|-..... .+.. ..--...+...-.....|-+||..||-+.+|+..
T Consensus 205 LH~~Isadt~eki~~Ai~vienli~~a--v~~~e~~n~l~~~Qlrela~lNgt~r~~d~~~c~~cg~~~H~q~~cp~r~~ 282 (554)
T KOG0119|consen 205 LHCLISADTQEKIKKAIAVIENLIQSA--VSVPEGQNDLKRLQLRELARLNGTLRDDDNRACRNCGSTGHKQYDCPGRIP 282 (554)
T ss_pred eeEEEecchHHHHHHHHHHHHHHHHhh--ccCccccccccHHHHHHHHHhCCCCCccccccccccCCCccccccCCcccc
Confidence 368899888888888887665443321 111111000 0000 0000000011122235899999999999999965
Q ss_pred CCCCccccCCCCCccccccCCC
Q 024424 80 DWKNKCYRCGERGHIERNCQNS 101 (268)
Q Consensus 80 ~~~~~cyrcg~~GH~~r~c~~s 101 (268)
.+...|+.|+-.||+..+|...
T Consensus 283 ~~~n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 283 NTTNVCKICGPLGHISIDCKVN 304 (554)
T ss_pred cccccccccCCcccccccCCCc
Confidence 4566999999999999999875
No 64
>PLN03121 nucleic acid binding protein; Provisional
Probab=96.23 E-value=0.0065 Score=54.43 Aligned_cols=36 Identities=22% Similarity=0.260 Sum_probs=32.9
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
.+||||+|.+.++|+.|| .|+|..|.+..|.|..+.
T Consensus 44 ~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 44 ACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWG 79 (243)
T ss_pred ceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCc
Confidence 479999999999999999 799999999999988764
No 65
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=96.20 E-value=0.0053 Score=58.53 Aligned_cols=40 Identities=28% Similarity=0.503 Sum_probs=36.8
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
-|||||.|.++.||+.||+.|+...|.|+.|+|-|....+
T Consensus 37 lgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~ 76 (369)
T KOG0123|consen 37 LGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP 76 (369)
T ss_pred cceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC
Confidence 3899999999999999999999999999999999987543
No 66
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.04 E-value=0.0058 Score=61.54 Aligned_cols=38 Identities=34% Similarity=0.556 Sum_probs=36.1
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
++||||.|.+.++|++||.++|++-|+-.+|.|+++..
T Consensus 9 R~F~FiGf~~eeeA~~Ai~~fn~s~i~ts~i~Ve~~~~ 46 (725)
T KOG0110|consen 9 RRFGFIGFKSEEEAQKAIKYFNKSFINTSRITVEFCKS 46 (725)
T ss_pred eeeeEeeeccHHHHHHHHHHhhccccccceEEEEehhh
Confidence 57999999999999999999999999999999999874
No 67
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=95.97 E-value=0.008 Score=57.33 Aligned_cols=37 Identities=30% Similarity=0.505 Sum_probs=34.2
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
+|| ||+|++++.|..||+.|||..+.+..|.|.....
T Consensus 116 kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~ 152 (369)
T KOG0123|consen 116 KGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFER 152 (369)
T ss_pred eee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccc
Confidence 689 9999999999999999999999999999977653
No 68
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=95.90 E-value=0.0045 Score=38.26 Aligned_cols=23 Identities=43% Similarity=1.165 Sum_probs=18.4
Q ss_pred CCCCCccccCCCCCCCCCcccCC
Q 024424 57 PPGSGRCFNCGIDGHWARDCKAG 79 (268)
Q Consensus 57 ~~~~~rC~~CG~~GH~ardC~~~ 79 (268)
++..-.|+.|++.|||..||+..
T Consensus 5 pP~~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 5 PPPGYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCCCCEeecCCCCCccHhHCCCC
Confidence 34456899999999999999874
No 69
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=95.67 E-value=0.0078 Score=59.24 Aligned_cols=42 Identities=29% Similarity=0.401 Sum_probs=38.7
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGPR 43 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~r 43 (268)
.+|||||+|.=.+|++.||..+.+..|.|+.|.|.++..+.+
T Consensus 46 ~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r 87 (678)
T KOG0127|consen 46 KRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRAR 87 (678)
T ss_pred ccCccceeeehHhHHHHHHHHhhcCcccceeccccccccccc
Confidence 579999999999999999999999999999999999986543
No 70
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=95.27 E-value=0.019 Score=55.23 Aligned_cols=39 Identities=33% Similarity=0.524 Sum_probs=36.0
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
.+|-|+|||.+++.+++|+++|+-++++|+.|.|.+...
T Consensus 85 ~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d 123 (608)
T KOG4212|consen 85 ARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD 123 (608)
T ss_pred cCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence 368899999999999999999999999999999988764
No 71
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=95.23 E-value=0.026 Score=50.04 Aligned_cols=39 Identities=33% Similarity=0.454 Sum_probs=35.2
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeec---CcceEEEeccCCC
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVD---GSRIIVEFARGGP 42 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~---Gr~IrVe~a~~~~ 42 (268)
-||||+|.+..+|+.|+..|+|..|+ +..|+||+++...
T Consensus 78 pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElAKSNt 119 (284)
T KOG1457|consen 78 PVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELAKSNT 119 (284)
T ss_pred ceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeehhcCc
Confidence 48999999999999999999999995 7789999998654
No 72
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=95.10 E-value=0.031 Score=50.04 Aligned_cols=39 Identities=33% Similarity=0.556 Sum_probs=36.0
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
.+||+||+|.+.+.++.||. |||.+|.|..|.|.+.+..
T Consensus 142 ~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r~~ 180 (231)
T KOG4209|consen 142 PKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKRTN 180 (231)
T ss_pred cceeEEEecccHhhhHHHhh-cCCcccccccceeeeeeee
Confidence 37899999999999999998 9999999999999988754
No 73
>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=95.09 E-value=0.039 Score=41.83 Aligned_cols=37 Identities=30% Similarity=0.467 Sum_probs=29.6
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
.+-|+|-|.+++.|+.|++.|+|..+-|.+|.|.|..
T Consensus 39 ~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~ 75 (90)
T PF11608_consen 39 GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSP 75 (90)
T ss_dssp TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS-
T ss_pred CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcC
Confidence 4779999999999999999999999999999999985
No 74
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=94.81 E-value=0.021 Score=51.71 Aligned_cols=19 Identities=53% Similarity=1.349 Sum_probs=16.5
Q ss_pred CccccCCCCCccccccCCC
Q 024424 83 NKCYRCGERGHIERNCQNS 101 (268)
Q Consensus 83 ~~cyrcg~~GH~~r~c~~s 101 (268)
..||.||+.||+..+|++.
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred CccCCCCcCCcchhhCCCC
Confidence 4699999999999999964
No 75
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=94.68 E-value=0.023 Score=53.57 Aligned_cols=40 Identities=23% Similarity=0.390 Sum_probs=36.6
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
+|||||||.+......||..||-+.|.|..|+|..+...+
T Consensus 252 kGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vTPP 291 (544)
T KOG0124|consen 252 KGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPP 291 (544)
T ss_pred cceeeEEeccccchHHHhhhcchhhcccceEecccccCCC
Confidence 7999999999999999999999999999999998876543
No 76
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=94.66 E-value=0.023 Score=50.62 Aligned_cols=37 Identities=27% Similarity=0.421 Sum_probs=30.9
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
.+|||||+|.|.+.|..|+...+ =.|+|++..+.+|.
T Consensus 53 skGyGfVTf~d~~aa~rAc~dp~-piIdGR~aNcnlA~ 89 (247)
T KOG0149|consen 53 SKGYGFVTFRDAEAATRACKDPN-PIIDGRKANCNLAS 89 (247)
T ss_pred ccceeeEEeecHHHHHHHhcCCC-Ccccccccccchhh
Confidence 47999999999999999997654 56888888777765
No 77
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=94.59 E-value=0.051 Score=52.29 Aligned_cols=42 Identities=36% Similarity=0.528 Sum_probs=35.6
Q ss_pred CCCCeEEEEeCCHHHHHHHHHhhCCC-eecC--cceEEEeccCCC
Q 024424 1 MKRDFAFVEFSDPRDADDARYSLNGR-DVDG--SRIIVEFARGGP 42 (268)
Q Consensus 1 lkrGfgFVeF~~~~dA~~Ai~~ldG~-~l~G--r~IrVe~a~~~~ 42 (268)
+-+|+|||.|.+.+-|..||+.|+|+ .|.| ..|.|.||....
T Consensus 163 ~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqk 207 (510)
T KOG0144|consen 163 LSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQK 207 (510)
T ss_pred cccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCC
Confidence 45899999999999999999999997 4555 689999997543
No 78
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=94.56 E-value=0.034 Score=55.16 Aligned_cols=40 Identities=30% Similarity=0.448 Sum_probs=36.9
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
+-||||+|.+..+|.+||.+|+-++|.|+.|.|+.++.-+
T Consensus 447 RCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKNEp 486 (940)
T KOG4661|consen 447 RCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKNEP 486 (940)
T ss_pred ceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecccCc
Confidence 4699999999999999999999999999999999987544
No 79
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=94.40 E-value=0.052 Score=49.21 Aligned_cols=41 Identities=32% Similarity=0.568 Sum_probs=35.8
Q ss_pred CCCCeEEEEeCCHHHHHHHHHhhCCCeecC--cceEEEeccCC
Q 024424 1 MKRDFAFVEFSDPRDADDARYSLNGRDVDG--SRIIVEFARGG 41 (268)
Q Consensus 1 lkrGfgFVeF~~~~dA~~Ai~~ldG~~l~G--r~IrVe~a~~~ 41 (268)
|.+|.|||-|+...+|+.||..|+|..-.| ..|.|.|+...
T Consensus 167 ~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannP 209 (360)
T KOG0145|consen 167 LSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNP 209 (360)
T ss_pred eecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCc
Confidence 458999999999999999999999998766 57999998643
No 80
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=94.39 E-value=0.43 Score=42.07 Aligned_cols=26 Identities=35% Similarity=0.433 Sum_probs=21.9
Q ss_pred EEEEeCCHHHHHHHHHh--hCCCeecCc
Q 024424 6 AFVEFSDPRDADDARYS--LNGRDVDGS 31 (268)
Q Consensus 6 gFVeF~~~~dA~~Ai~~--ldG~~l~Gr 31 (268)
-|-+-.+++||++||++ |||.+|.-+
T Consensus 61 rf~~k~daedA~damDG~~ldgRelrVq 88 (256)
T KOG4207|consen 61 RFHDKRDAEDALDAMDGAVLDGRELRVQ 88 (256)
T ss_pred EeeecchHHHHHHhhcceeeccceeeeh
Confidence 47778899999999998 999998543
No 81
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=94.29 E-value=0.03 Score=50.48 Aligned_cols=36 Identities=31% Similarity=0.498 Sum_probs=32.2
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEec
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 38 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a 38 (268)
+|||||.|.+..|+..|+..|||..+.-+.|.+.-.
T Consensus 232 kgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS 267 (290)
T KOG0226|consen 232 KGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKS 267 (290)
T ss_pred ccceeeeecCHHHHHHHHHhhcccccccchhHhhhh
Confidence 799999999999999999999999999888776443
No 82
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=94.07 E-value=0.082 Score=49.54 Aligned_cols=40 Identities=23% Similarity=0.391 Sum_probs=36.3
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
..|.+.|.|.+.++|+.||..|+|..|+|+.|..++..+.
T Consensus 313 PdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~DG~ 352 (382)
T KOG1548|consen 313 PDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIWDGK 352 (382)
T ss_pred CCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEeCCc
Confidence 3588999999999999999999999999999999887654
No 83
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=93.94 E-value=0.057 Score=47.72 Aligned_cols=40 Identities=28% Similarity=0.432 Sum_probs=37.0
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
+|=|||.|.+.+.|-.|+..|+|+-|.|+.|+|++|+...
T Consensus 52 RGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~s 91 (221)
T KOG4206|consen 52 RGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDS 91 (221)
T ss_pred cCceEEEecChhHHHHHHHHhcCCcccCchhheecccCcc
Confidence 5789999999999999999999999999999999998643
No 84
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=93.94 E-value=0.031 Score=36.77 Aligned_cols=18 Identities=44% Similarity=1.234 Sum_probs=13.8
Q ss_pred CccccCCCCCCCCCcccC
Q 024424 61 GRCFNCGIDGHWARDCKA 78 (268)
Q Consensus 61 ~rC~~CG~~GH~ardC~~ 78 (268)
..|.+|+..|||..+|+.
T Consensus 5 ~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 5 VRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CcCcccCCCCcchhhCCC
Confidence 568888888888887773
No 85
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=93.92 E-value=0.069 Score=45.99 Aligned_cols=40 Identities=25% Similarity=0.387 Sum_probs=36.8
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
.+|||||.|++-+.+..||..|+|..|+.+.|+|.++...
T Consensus 138 ~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~ 177 (203)
T KOG0131|consen 138 PKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFKK 177 (203)
T ss_pred CCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEec
Confidence 4689999999999999999999999999999999998743
No 86
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=93.48 E-value=0.075 Score=52.38 Aligned_cols=36 Identities=22% Similarity=0.318 Sum_probs=34.3
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
|+.||-|+++++|..|+..|+|++|.|+.|.+.+..
T Consensus 491 g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~ 526 (549)
T KOG0147|consen 491 GCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLP 526 (549)
T ss_pred ceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEee
Confidence 899999999999999999999999999999998875
No 87
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=93.40 E-value=0.053 Score=48.86 Aligned_cols=37 Identities=30% Similarity=0.375 Sum_probs=34.1
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
.|-+||.|...++|+.|+..|+|.+|.|+.|..++..
T Consensus 110 ~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~p 146 (260)
T KOG2202|consen 110 VGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSP 146 (260)
T ss_pred hhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecC
Confidence 3568999999999999999999999999999999874
No 88
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=93.04 E-value=0.053 Score=34.29 Aligned_cols=19 Identities=42% Similarity=1.097 Sum_probs=11.7
Q ss_pred CccccCCCCCCCCCcccCC
Q 024424 61 GRCFNCGIDGHWARDCKAG 79 (268)
Q Consensus 61 ~rC~~CG~~GH~ardC~~~ 79 (268)
..|++|++..||+.+|..-
T Consensus 3 ~~CprC~kg~Hwa~~C~sk 21 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSK 21 (36)
T ss_dssp -C-TTTSSSCS-TTT---T
T ss_pred ccCcccCCCcchhhhhhhh
Confidence 5799999999999999864
No 89
>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=92.79 E-value=0.13 Score=37.59 Aligned_cols=36 Identities=33% Similarity=0.555 Sum_probs=22.2
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEec
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 38 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a 38 (268)
...|.||+.... .|+.+|..|++..++|+.|.|+.|
T Consensus 39 ~~~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 39 FDNFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp -SS-EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred eeeEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence 457899998665 699999999999999999999875
No 90
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=92.51 E-value=0.28 Score=47.58 Aligned_cols=39 Identities=31% Similarity=0.438 Sum_probs=33.5
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCCC
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGPR 43 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~r 43 (268)
.||||+|++...++.||.+- -..|.+++|.||+.+....
T Consensus 331 ~fgFV~f~~~~~~~~~i~As-p~~ig~~kl~Veek~~~~~ 369 (419)
T KOG0116|consen 331 CFGFVEFENAAAVQNAIEAS-PLEIGGRKLNVEEKRPGFR 369 (419)
T ss_pred ceEEEEEeecchhhhhhhcC-ccccCCeeEEEEecccccc
Confidence 79999999999999999776 6788999999999876433
No 91
>smart00343 ZnF_C2HC zinc finger.
Probab=92.21 E-value=0.072 Score=30.94 Aligned_cols=16 Identities=63% Similarity=1.566 Sum_probs=13.3
Q ss_pred ccccCCCCCCCCCccc
Q 024424 62 RCFNCGIDGHWARDCK 77 (268)
Q Consensus 62 rC~~CG~~GH~ardC~ 77 (268)
.||+||..||++.+|+
T Consensus 1 ~C~~CG~~GH~~~~C~ 16 (26)
T smart00343 1 KCYNCGKEGHIARDCP 16 (26)
T ss_pred CCccCCCCCcchhhCC
Confidence 4888888888888886
No 92
>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=91.67 E-value=0.27 Score=38.19 Aligned_cols=37 Identities=27% Similarity=0.440 Sum_probs=29.5
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeec----CcceEEEecc
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVD----GSRIIVEFAR 39 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~----Gr~IrVe~a~ 39 (268)
.|||||.|.++++|..-.+.++|.... .+...|.+|+
T Consensus 45 ~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~yAr 85 (97)
T PF04059_consen 45 LGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEISYAR 85 (97)
T ss_pred eEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEehhH
Confidence 599999999999999999999998764 3344555554
No 93
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.63 E-value=0.12 Score=47.76 Aligned_cols=25 Identities=40% Similarity=1.194 Sum_probs=19.8
Q ss_pred CCCCCCCccccCCCCCCCCCcccCC
Q 024424 55 GPPPGSGRCFNCGIDGHWARDCKAG 79 (268)
Q Consensus 55 ~~~~~~~rC~~CG~~GH~ardC~~~ 79 (268)
++++-.-.||+||+.|||..+|+-.
T Consensus 171 kppPpgY~CyRCGqkgHwIqnCpTN 195 (427)
T COG5222 171 KPPPPGYVCYRCGQKGHWIQNCPTN 195 (427)
T ss_pred CCCCCceeEEecCCCCchhhcCCCC
Confidence 3455556899999999999999854
No 94
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=89.97 E-value=0.16 Score=50.20 Aligned_cols=33 Identities=52% Similarity=0.756 Sum_probs=31.2
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceE
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRII 34 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~Ir 34 (268)
++|..||+|.|..+|+.||+.|++.+|.|+.|.
T Consensus 111 ~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 111 KRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 578899999999999999999999999999987
No 95
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=89.60 E-value=0.29 Score=48.72 Aligned_cols=35 Identities=37% Similarity=0.647 Sum_probs=29.3
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecC-cceEEEe
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDG-SRIIVEF 37 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~G-r~IrVe~ 37 (268)
+||.|+||++..+|+.||..|||..|+- ..+.|..
T Consensus 105 kG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~~ 140 (698)
T KOG2314|consen 105 KGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVRL 140 (698)
T ss_pred eeEEEEEecChhhHHHHHHhcccceecccceEEeeh
Confidence 6999999999999999999999998864 3444443
No 96
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=89.59 E-value=0.23 Score=46.74 Aligned_cols=41 Identities=29% Similarity=0.354 Sum_probs=36.8
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 42 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~ 42 (268)
.||.|.|.|++...|+.||..|++..|.+..|+|.+|....
T Consensus 115 ~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~~r~ 155 (351)
T KOG1995|consen 115 PKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAERRT 155 (351)
T ss_pred cCCceeeeecChhhhhhhhhhhccccccCCCchhhhhhhcc
Confidence 47899999999999999999999999999999998876443
No 97
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=89.52 E-value=0.42 Score=49.18 Aligned_cols=40 Identities=28% Similarity=0.404 Sum_probs=36.7
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
.+|-|||.+....||++||.+|....|.++.|+|.|+.+.
T Consensus 456 ~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~ 495 (894)
T KOG0132|consen 456 PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGK 495 (894)
T ss_pred CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccC
Confidence 3578999999999999999999999999999999998764
No 98
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=88.62 E-value=0.48 Score=44.59 Aligned_cols=38 Identities=26% Similarity=0.464 Sum_probs=33.1
Q ss_pred CCeEEEEeCCHHHHHHHHHh-hCCCeecCcceEEEeccC
Q 024424 3 RDFAFVEFSDPRDADDARYS-LNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~-ldG~~l~Gr~IrVe~a~~ 40 (268)
++-|||+|.+.+.|+.|..+ ++-..|+|.+|.|.|..+
T Consensus 264 ~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 264 KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 56799999999999998877 566678999999999876
No 99
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=88.02 E-value=0.63 Score=40.42 Aligned_cols=28 Identities=18% Similarity=0.254 Sum_probs=25.4
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeec
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVD 29 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~ 29 (268)
+-|+|+|+|..++||+.||.+|+.+.|.
T Consensus 149 rDg~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 149 RDGVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred cccceeeeeeehhhHHHHHHhhcccccc
Confidence 4689999999999999999999998774
No 100
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=87.87 E-value=0.31 Score=30.12 Aligned_cols=20 Identities=35% Similarity=0.946 Sum_probs=18.1
Q ss_pred CCccccCCCCCccccccCCC
Q 024424 82 KNKCYRCGERGHIERNCQNS 101 (268)
Q Consensus 82 ~~~cyrcg~~GH~~r~c~~s 101 (268)
...|+.|+..||+..+|+..
T Consensus 8 ~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 8 GYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCEeecCCCCCccHhHCCCC
Confidence 47899999999999999974
No 101
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=86.80 E-value=0.34 Score=31.87 Aligned_cols=19 Identities=37% Similarity=1.106 Sum_probs=17.3
Q ss_pred CCccccCCCCCccccccCC
Q 024424 82 KNKCYRCGERGHIERNCQN 100 (268)
Q Consensus 82 ~~~cyrcg~~GH~~r~c~~ 100 (268)
...|.+|+..||+.++|+.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4689999999999999995
No 102
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=86.35 E-value=0.42 Score=42.48 Aligned_cols=37 Identities=24% Similarity=0.313 Sum_probs=33.5
Q ss_pred eEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 5 FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 5 fgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
||||+|.++.....|+.-|||..|.+..|.|.+-.+.
T Consensus 51 Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~ 87 (267)
T KOG4454|consen 51 FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGN 87 (267)
T ss_pred eeeeecccccchhhhhhhcccchhccchhhcccccCC
Confidence 9999999999999999999999999999888876543
No 103
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=85.98 E-value=0.41 Score=47.37 Aligned_cols=40 Identities=35% Similarity=0.594 Sum_probs=37.0
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
-+||+|.+|-+.-....||.+|||..|.+..|+|..|...
T Consensus 330 skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g 369 (500)
T KOG0120|consen 330 SKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVG 369 (500)
T ss_pred ccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhcc
Confidence 5799999999999999999999999999999999988643
No 104
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=85.69 E-value=1.1 Score=40.38 Aligned_cols=38 Identities=29% Similarity=0.344 Sum_probs=34.3
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
.|-|-|.|...+||+.||..|+|..|+|..|.++....
T Consensus 124 ~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~ 161 (243)
T KOG0533|consen 124 LGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISS 161 (243)
T ss_pred CccceeeecchHhHHHHHHHhcCcccCCceeeeEEecC
Confidence 47789999999999999999999999999999887653
No 105
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=84.81 E-value=1 Score=42.88 Aligned_cols=35 Identities=34% Similarity=0.542 Sum_probs=31.0
Q ss_pred EEEEeCCHHHHHHHHHhhCCCeecC--cceEEEeccC
Q 024424 6 AFVEFSDPRDADDARYSLNGRDVDG--SRIIVEFARG 40 (268)
Q Consensus 6 gFVeF~~~~dA~~Ai~~ldG~~l~G--r~IrVe~a~~ 40 (268)
|+|||++.+-|+.|...|||..|.- -.|+||+|+.
T Consensus 162 AmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP 198 (494)
T KOG1456|consen 162 AMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKP 198 (494)
T ss_pred eEEeechhHHHHHHHhhcccccccccceeEEEEecCc
Confidence 8999999999999999999998853 4789999874
No 106
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=84.12 E-value=1.2 Score=42.06 Aligned_cols=34 Identities=18% Similarity=0.406 Sum_probs=30.9
Q ss_pred EEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 6 AFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 6 gFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
.||+|...+||+.||..+||..++|+.|+..+..
T Consensus 168 vYITy~~kedAarcIa~vDgs~~DGr~lkatYGT 201 (480)
T COG5175 168 VYITYSTKEDAARCIAEVDGSLLDGRVLKATYGT 201 (480)
T ss_pred EEEEecchHHHHHHHHHhccccccCceEeeecCc
Confidence 3999999999999999999999999999877654
No 107
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=83.71 E-value=0.42 Score=32.13 Aligned_cols=17 Identities=41% Similarity=1.032 Sum_probs=15.4
Q ss_pred CccccCCCCCCCCCccc
Q 024424 61 GRCFNCGIDGHWARDCK 77 (268)
Q Consensus 61 ~rC~~CG~~GH~ardC~ 77 (268)
..||+||..||...+|+
T Consensus 32 ~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 32 RFCFHCGRIGHSDKECP 48 (49)
T ss_pred hhhcCCCCcCcCHhHcC
Confidence 46999999999999986
No 108
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=83.53 E-value=1.7 Score=36.28 Aligned_cols=33 Identities=30% Similarity=0.479 Sum_probs=28.2
Q ss_pred EEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 6 AFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 6 gFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
-+|+|.+...|..|+ .|+|.+|+|..|.|....
T Consensus 73 mwVTF~dg~sALaal-s~dg~~v~g~~l~i~LKt 105 (146)
T PF08952_consen 73 MWVTFRDGQSALAAL-SLDGIQVNGRTLKIRLKT 105 (146)
T ss_dssp EEEEESSCHHHHHHH-HGCCSEETTEEEEEEE--
T ss_pred EEEEECccHHHHHHH-ccCCcEECCEEEEEEeCC
Confidence 479999999999998 699999999999998754
No 109
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=83.05 E-value=0.65 Score=44.93 Aligned_cols=40 Identities=25% Similarity=0.533 Sum_probs=32.1
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCC-eecC--cceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGR-DVDG--SRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~-~l~G--r~IrVe~a~~~ 41 (268)
.+|++||.|...+||..||..|++. .|-| ..|.|.++.+.
T Consensus 75 s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E 117 (510)
T KOG0144|consen 75 SKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGE 117 (510)
T ss_pred ccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchh
Confidence 4799999999999999999999885 4544 46777777643
No 110
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=80.91 E-value=1.2 Score=28.90 Aligned_cols=20 Identities=35% Similarity=0.629 Sum_probs=15.4
Q ss_pred CccccCCCCCCCCC--cccCCC
Q 024424 61 GRCFNCGIDGHWAR--DCKAGD 80 (268)
Q Consensus 61 ~rC~~CG~~GH~ar--dC~~~~ 80 (268)
.+|.+||..||... .|+...
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~~ 23 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMYC 23 (40)
T ss_pred ccccccccccccccCccCCCCC
Confidence 57999999999875 476543
No 111
>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=80.08 E-value=2.2 Score=30.69 Aligned_cols=30 Identities=20% Similarity=0.346 Sum_probs=26.6
Q ss_pred EEEeCCHHHHHHHHHhhCCCeecCcceEEE
Q 024424 7 FVEFSDPRDADDARYSLNGRDVDGSRIIVE 36 (268)
Q Consensus 7 FVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe 36 (268)
||.|.+..+|+.+....+|+.|-...|.++
T Consensus 37 YIvF~~~~Ea~rC~~~~~~~~~f~y~m~M~ 66 (66)
T PF11767_consen 37 YIVFNDSKEAERCFRAEDGTLFFTYRMQME 66 (66)
T ss_pred EEEECChHHHHHHHHhcCCCEEEEEEEEeC
Confidence 799999999999999999999887776653
No 112
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=78.81 E-value=3.1 Score=39.78 Aligned_cols=39 Identities=26% Similarity=0.278 Sum_probs=35.5
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
|-|-|+||+.++...+.||.+|++..|-|.+|.|.+.+.
T Consensus 324 k~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ 362 (494)
T KOG1456|consen 324 KPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQ 362 (494)
T ss_pred ccceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccc
Confidence 568899999999999999999999999999999888763
No 113
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=77.49 E-value=3.3 Score=39.98 Aligned_cols=38 Identities=29% Similarity=0.471 Sum_probs=34.9
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
|+.-|+|.|.|...|+-|+.+|+|..|.|+.|+|.+.+
T Consensus 334 kkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 334 KKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred CCcceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 34569999999999999999999999999999999876
No 114
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=76.37 E-value=2.6 Score=39.77 Aligned_cols=39 Identities=18% Similarity=0.175 Sum_probs=35.9
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
+|=|+++|--.+..+-||..||+..|.|..|+|+.|+-.
T Consensus 183 KGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkfq 221 (382)
T KOG1548|consen 183 KGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKFQ 221 (382)
T ss_pred cCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhhh
Confidence 678999999999999999999999999999999998743
No 115
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=74.51 E-value=1.7 Score=27.49 Aligned_cols=19 Identities=32% Similarity=0.761 Sum_probs=12.1
Q ss_pred CccccCCCCCccccccCCC
Q 024424 83 NKCYRCGERGHIERNCQNS 101 (268)
Q Consensus 83 ~~cyrcg~~GH~~r~c~~s 101 (268)
..|++|++..||+.+|...
T Consensus 3 ~~CprC~kg~Hwa~~C~sk 21 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSK 21 (36)
T ss_dssp -C-TTTSSSCS-TTT---T
T ss_pred ccCcccCCCcchhhhhhhh
Confidence 5799999999999999864
No 116
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=74.31 E-value=4.2 Score=37.31 Aligned_cols=39 Identities=36% Similarity=0.599 Sum_probs=32.2
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCe-ecC--cceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRD-VDG--SRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~-l~G--r~IrVe~a~~ 40 (268)
.||-+||.|....||+.||..|+|.. +-| .-|.|.|+..
T Consensus 59 sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ADT 100 (371)
T KOG0146|consen 59 SKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFADT 100 (371)
T ss_pred CCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEeccc
Confidence 47899999999999999999999964 444 4578888764
No 117
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=74.16 E-value=0.79 Score=38.24 Aligned_cols=19 Identities=42% Similarity=1.076 Sum_probs=17.0
Q ss_pred CccccCCCCCCCCCcccCC
Q 024424 61 GRCFNCGIDGHWARDCKAG 79 (268)
Q Consensus 61 ~rC~~CG~~GH~ardC~~~ 79 (268)
.+|-.|.+.|||.+.|++-
T Consensus 28 ~rCQKClq~GHWtYECk~k 46 (177)
T KOG3116|consen 28 ARCQKCLQAGHWTYECKNK 46 (177)
T ss_pred hhHHHHHhhccceeeecCc
Confidence 5899999999999999864
No 118
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=72.55 E-value=3.5 Score=40.54 Aligned_cols=37 Identities=24% Similarity=0.211 Sum_probs=28.1
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
..|.|||||++.+|++.||+ +|-..|..+-|.|-.+.
T Consensus 48 ~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~ 84 (510)
T KOG4211|consen 48 PSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAG 84 (510)
T ss_pred cCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccC
Confidence 35899999999999999995 45556666666666553
No 119
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=69.61 E-value=2.9 Score=40.53 Aligned_cols=40 Identities=33% Similarity=0.504 Sum_probs=35.4
Q ss_pred CCCCeEEEEeCCHHHHHHHHHhhCCC-eecCcceEEEeccC
Q 024424 1 MKRDFAFVEFSDPRDADDARYSLNGR-DVDGSRIIVEFARG 40 (268)
Q Consensus 1 lkrGfgFVeF~~~~dA~~Ai~~ldG~-~l~Gr~IrVe~a~~ 40 (268)
|+.||+||++.+..-|.+||+.|+|. ++.|.++.|+....
T Consensus 35 ~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~ 75 (584)
T KOG2193|consen 35 VKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVP 75 (584)
T ss_pred eecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhh
Confidence 57899999999999999999999996 78899998887653
No 120
>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=68.86 E-value=5.6 Score=34.37 Aligned_cols=35 Identities=34% Similarity=0.518 Sum_probs=27.5
Q ss_pred EEEEeCCHHHHHHHHHhhC--CCeecCcceEEEeccC
Q 024424 6 AFVEFSDPRDADDARYSLN--GRDVDGSRIIVEFARG 40 (268)
Q Consensus 6 gFVeF~~~~dA~~Ai~~ld--G~~l~Gr~IrVe~a~~ 40 (268)
.+|.|.+.++|..|...|+ ++.|.|..|+|.|+..
T Consensus 34 i~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~ 70 (184)
T PF04847_consen 34 IRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQP 70 (184)
T ss_dssp EEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----
T ss_pred EEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccc
Confidence 5799999999999999999 9999999999999853
No 121
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=68.65 E-value=2.6 Score=39.38 Aligned_cols=39 Identities=26% Similarity=0.368 Sum_probs=30.2
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
.+|||||+|.+.+.++.++ .+.-.+|+|+.|.|..|..+
T Consensus 138 ~rgFgfv~~~~e~sVdkv~-~~~f~~~~gk~vevkrA~pk 176 (311)
T KOG4205|consen 138 PRGFGFVTFDSEDSVDKVT-LQKFHDFNGKKVEVKRAIPK 176 (311)
T ss_pred cccceeeEeccccccceec-ccceeeecCceeeEeeccch
Confidence 5799999998887666665 45677899988888877643
No 122
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=67.48 E-value=2.3 Score=28.47 Aligned_cols=20 Identities=30% Similarity=0.951 Sum_probs=18.0
Q ss_pred CCCCccccCCCCCccccccC
Q 024424 80 DWKNKCYRCGERGHIERNCQ 99 (268)
Q Consensus 80 ~~~~~cyrcg~~GH~~r~c~ 99 (268)
.+...|+.||..||...+|+
T Consensus 29 ~lp~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 29 RLPRFCFHCGRIGHSDKECP 48 (49)
T ss_pred CcChhhcCCCCcCcCHhHcC
Confidence 36789999999999999996
No 123
>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=67.43 E-value=11 Score=29.41 Aligned_cols=35 Identities=23% Similarity=0.405 Sum_probs=27.3
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceE-EEec
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRII-VEFA 38 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~Ir-Ve~a 38 (268)
.++..|.|++..+|++|| ..||..|.|..|. |.+.
T Consensus 54 ~NWi~I~Y~~~~~A~rAL-~~NG~i~~g~~mvGV~~~ 89 (100)
T PF05172_consen 54 GNWIHITYDNPLSAQRAL-QKNGTIFSGSLMVGVKPC 89 (100)
T ss_dssp TTEEEEEESSHHHHHHHH-TTTTEEETTCEEEEEEE-
T ss_pred CCEEEEECCCHHHHHHHH-HhCCeEEcCcEEEEEEEc
Confidence 357889999999999999 5789999886554 4433
No 124
>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=66.79 E-value=5 Score=31.35 Aligned_cols=35 Identities=23% Similarity=0.400 Sum_probs=21.7
Q ss_pred eEEEEeCCHHHHHHHHHhhCC-----CeecCcceEEEecc
Q 024424 5 FAFVEFSDPRDADDARYSLNG-----RDVDGSRIIVEFAR 39 (268)
Q Consensus 5 fgFVeF~~~~dA~~Ai~~ldG-----~~l~Gr~IrVe~a~ 39 (268)
.|||-|.++++|+.||.++.- ..|.+..+.++...
T Consensus 39 ~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vLe 78 (105)
T PF08777_consen 39 EGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVLE 78 (105)
T ss_dssp EEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE---
T ss_pred EEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEECC
Confidence 699999999999999987543 36677777766543
No 125
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=66.77 E-value=1.8 Score=40.56 Aligned_cols=34 Identities=18% Similarity=0.382 Sum_probs=30.2
Q ss_pred EEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 6 AFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 6 gFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
++|+|+..+||+.||+.++|+.++|+.|+..+..
T Consensus 128 ~yITy~~~eda~rci~~v~g~~~dg~~lka~~gt 161 (327)
T KOG2068|consen 128 VYITYEEEEDADRCIDDVDGFVDDGRALKASLGT 161 (327)
T ss_pred ccccccchHhhhhHHHHhhhHHhhhhhhHHhhCC
Confidence 6899999999999999999999999987666554
No 126
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=64.88 E-value=5.1 Score=39.47 Aligned_cols=34 Identities=24% Similarity=0.163 Sum_probs=24.6
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEe
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEF 37 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~ 37 (268)
-|.|||.|++.++|++||.+ +...|..+-|.|-.
T Consensus 145 tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~ 178 (510)
T KOG4211|consen 145 TGEAFVQFESQESAEIALGR-HRENIGHRYIEVFR 178 (510)
T ss_pred ccceEEEecCHHHHHHHHHH-HHHhhccceEEeeh
Confidence 47899999999999999965 33455555555543
No 127
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=60.36 E-value=3.6 Score=38.46 Aligned_cols=39 Identities=26% Similarity=0.432 Sum_probs=27.3
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 41 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~ 41 (268)
++||+||+|++.+....+| ...-..|+|+.|-+..+...
T Consensus 47 srgFgfv~f~~~~~v~~vl-~~~~h~~dgr~ve~k~av~r 85 (311)
T KOG4205|consen 47 SRGFGFVTFATPEGVDAVL-NARTHKLDGRSVEPKRAVSR 85 (311)
T ss_pred cccccceecCCCcchheee-cccccccCCccccceeccCc
Confidence 4699999999887665555 33445677877777666543
No 128
>PF09180 ProRS-C_1: Prolyl-tRNA synthetase, C-terminal; InterPro: IPR016061 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Prolyl tRNA synthetase (6.1.1.15 from EC) exists in two forms, which are loosely related. The first form is present in the majority of eubacteria species. The second one, present in some eubacteria, is essentially present in archaea and eukaryota. Prolyl-tRNA synthetase belongs to class IIa. This domain is found at the C-terminal in archaeal and eukaryotic enzymes, as well as in certain bacterial ones.; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1NJ6_A 1NJ2_A 1NJ5_A 1NJ1_A 1H4T_C 1H4S_A 1HC7_C 1H4Q_B 3IAL_B.
Probab=60.20 E-value=7.3 Score=27.99 Aligned_cols=29 Identities=14% Similarity=0.303 Sum_probs=22.5
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDG 30 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~G 30 (268)
..||+.|-|-..++++.+|+.+-|..+.+
T Consensus 10 ~gg~v~~pwcg~~ece~~ike~t~at~rc 38 (68)
T PF09180_consen 10 KGGFVLVPWCGDEECEEKIKEETGATIRC 38 (68)
T ss_dssp TSSEEEEEES-SHHHHHHHHHHHS-EEEE
T ss_pred CCCEEEEEccCCHHHHHHHHHhcCCcEeE
Confidence 35799999999999999999887766554
No 129
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=59.14 E-value=3.9 Score=37.98 Aligned_cols=22 Identities=41% Similarity=0.957 Sum_probs=18.8
Q ss_pred CCCccccCCCCCccccccCCCC
Q 024424 81 WKNKCYRCGERGHIERNCQNSP 102 (268)
Q Consensus 81 ~~~~cyrcg~~GH~~r~c~~s~ 102 (268)
....||+||..|||..+|+-..
T Consensus 175 pgY~CyRCGqkgHwIqnCpTN~ 196 (427)
T COG5222 175 PGYVCYRCGQKGHWIQNCPTNQ 196 (427)
T ss_pred CceeEEecCCCCchhhcCCCCC
Confidence 3479999999999999998643
No 130
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=51.66 E-value=32 Score=35.23 Aligned_cols=37 Identities=3% Similarity=0.051 Sum_probs=30.7
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
..|.||+.... .|...|..|.+..|+|+.|.|+.+..
T Consensus 526 ~~~s~v~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 562 (629)
T PRK11634 526 ASHSTIELPKG-MPGEVLQHFTRTRILNKPMNMQLLGD 562 (629)
T ss_pred CCceEEEcChh-hHHHHHHHhccccccCCceEEEECCC
Confidence 46889998654 48888999999999999999998753
No 131
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=51.54 E-value=27 Score=34.30 Aligned_cols=39 Identities=28% Similarity=0.418 Sum_probs=31.8
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 40 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~ 40 (268)
.+||++|+|.++.+|.+||..|++.-+-.+.++|.....
T Consensus 255 s~G~~vi~y~hpveavqaIsml~~~g~~~~~~~~Rl~~~ 293 (608)
T KOG4212|consen 255 SRGFAVIEYDHPVEAVQAISMLDRQGLFDRRMTVRLDRI 293 (608)
T ss_pred cCCeeEEEecchHHHHHHHHhhccCCCccccceeecccc
Confidence 468999999999999999999998766666666666443
No 132
>KOG3794 consensus CBF1-interacting corepressor CIR and related proteins [Transcription]
Probab=51.18 E-value=9 Score=36.84 Aligned_cols=19 Identities=32% Similarity=0.739 Sum_probs=15.6
Q ss_pred CCccccCCCCCCCCC--cccC
Q 024424 60 SGRCFNCGIDGHWAR--DCKA 78 (268)
Q Consensus 60 ~~rC~~CG~~GH~ar--dC~~ 78 (268)
.++|..|+..||+.. +|+.
T Consensus 124 NVrC~kChkwGH~n~DreCpl 144 (453)
T KOG3794|consen 124 NVRCLKCHKWGHINTDRECPL 144 (453)
T ss_pred eeeEEeecccccccCCccCcc
Confidence 478999999999864 6884
No 133
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=50.65 E-value=16 Score=36.47 Aligned_cols=24 Identities=21% Similarity=0.459 Sum_probs=22.5
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGR 26 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~ 26 (268)
-|||||.|.+++++..++++++|+
T Consensus 431 vGYAFINm~sp~ai~~F~kAFnGk 454 (549)
T KOG4660|consen 431 VGYAFINMTSPEAIIRFYKAFNGK 454 (549)
T ss_pred cceeEEeecCHHHHHHHHHHHcCC
Confidence 489999999999999999999996
No 134
>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=49.00 E-value=6.7 Score=27.09 Aligned_cols=37 Identities=30% Similarity=0.472 Sum_probs=18.5
Q ss_pred CCCeEEEEeCC-HHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 2 KRDFAFVEFSD-PRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 2 krGfgFVeF~~-~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
++|||||..++ .+|.--.-..|++ -|+|-.+.|....
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 58999999998 3332222233432 3344555565554
No 135
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=48.69 E-value=7.1 Score=37.54 Aligned_cols=36 Identities=17% Similarity=0.109 Sum_probs=30.4
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEec
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 38 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a 38 (268)
-|.|||+|.++++|..|..+.+.+.++.+.|.|--+
T Consensus 324 SGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~ 359 (508)
T KOG1365|consen 324 SGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPC 359 (508)
T ss_pred ChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeec
Confidence 478999999999999999988888887877777554
No 136
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.46 E-value=22 Score=35.95 Aligned_cols=33 Identities=18% Similarity=0.206 Sum_probs=27.5
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCcceEEE
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 36 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe 36 (268)
=||+|+|.+...|...+...||++|.-.-+.|.
T Consensus 269 YyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~D 301 (650)
T KOG2318|consen 269 YYAVVECDSIETAKAVYEECDGIEFESSANKLD 301 (650)
T ss_pred EEEEEEecCchHHHHHHHhcCcceeccccceee
Confidence 379999999999999999999999975544433
No 137
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=48.45 E-value=18 Score=24.53 Aligned_cols=18 Identities=17% Similarity=0.575 Sum_probs=16.2
Q ss_pred CCeEEEEeCCHHHHHHHH
Q 024424 3 RDFAFVEFSDPRDADDAR 20 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai 20 (268)
..+.||.|.+..+|+.||
T Consensus 36 ~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 36 TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred CcEEEEEECCHHHHHhhC
Confidence 568999999999999986
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=48.45 E-value=21 Score=26.57 Aligned_cols=27 Identities=15% Similarity=0.235 Sum_probs=22.2
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeec
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVD 29 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~ 29 (268)
+||-|||=....++.+||.++-+....
T Consensus 44 kGyIyVEA~~~~~V~~ai~gi~~i~~~ 70 (84)
T PF03439_consen 44 KGYIYVEAERESDVKEAIRGIRHIRGS 70 (84)
T ss_dssp TSEEEEEESSHHHHHHHHTT-TTEEEE
T ss_pred ceEEEEEeCCHHHHHHHHhcccceeec
Confidence 799999999999999999888765443
No 139
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=47.52 E-value=16 Score=37.83 Aligned_cols=35 Identities=23% Similarity=0.260 Sum_probs=28.5
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEec
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 38 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a 38 (268)
-|.|||.|.+-|||.-|+- .|+.+|.|..|+|.+.
T Consensus 40 ~GeaFI~FsTDeDARlaM~-kdr~~i~g~~VrLlLS 74 (944)
T KOG4307|consen 40 EGEAFIGFSTDEDARLAMT-KDRLMIHGAEVRLLLS 74 (944)
T ss_pred ccceEEEecccchhhhhhh-hcccceecceEEEEec
Confidence 3789999999999999985 4677888877777654
No 140
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=45.23 E-value=26 Score=28.43 Aligned_cols=51 Identities=20% Similarity=0.368 Sum_probs=27.9
Q ss_pred ecCcceEEEeccCCCCCCCCCCC--CCCCCCCCCCCccccCCCCCCCCCcccCC
Q 024424 28 VDGSRIIVEFARGGPRGPGGSRE--YLGRGPPPGSGRCFNCGIDGHWARDCKAG 79 (268)
Q Consensus 28 l~Gr~IrVe~a~~~~r~~g~~r~--~~~r~~~~~~~rC~~CG~~GH~ardC~~~ 79 (268)
+-|..|.+++............. ............|..|+ ..||...||.-
T Consensus 72 ~~~EeI~l~~~~~~~~~~~~~~~~~~~~~~~~~~~v~CR~Ck-GdH~T~~CPyK 124 (128)
T PF12353_consen 72 QVGEEIFLELSRNWESEEEEEEEEEAKKKKKGKSKVKCRICK-GDHWTSKCPYK 124 (128)
T ss_pred cccceEEEEecCCccccccccccchhhhcccCCceEEeCCCC-CCcccccCCcc
Confidence 44667777776543221111000 02223334456899996 77999998853
No 141
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=40.94 E-value=19 Score=33.25 Aligned_cols=41 Identities=24% Similarity=0.409 Sum_probs=34.7
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEeccCCCC
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGPR 43 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~~~~r 43 (268)
-+|||||+|....++..||.. +...|.|..|.|++....+.
T Consensus 226 ~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 266 (285)
T KOG4210|consen 226 SKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPRPK 266 (285)
T ss_pred hhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCCcc
Confidence 368999999999999999877 78888899999998876543
No 142
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=40.63 E-value=17 Score=36.14 Aligned_cols=35 Identities=29% Similarity=0.564 Sum_probs=28.9
Q ss_pred CCCeEEEEeCCHHHHHHHHHhhCCCeecCcceEEEe
Q 024424 2 KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEF 37 (268)
Q Consensus 2 krGfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~ 37 (268)
-++|+||+|...++|..|+ .+++..|.|..+.+..
T Consensus 222 ~~nfa~ie~~s~~~at~~~-~~~~~~f~g~~~~~~r 256 (500)
T KOG0120|consen 222 EKNFAFIEFRSISEATEAM-ALDGIIFEGRPLKIRR 256 (500)
T ss_pred cccceeEEecCCCchhhhh-cccchhhCCCCceecc
Confidence 3679999999999999997 6888888888766543
No 143
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=40.17 E-value=29 Score=33.58 Aligned_cols=33 Identities=21% Similarity=0.242 Sum_probs=25.6
Q ss_pred eEEEEeCCHHHHHHHHHhhCCCeecCcceEEEec
Q 024424 5 FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 38 (268)
Q Consensus 5 fgFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a 38 (268)
.+||-|.|..-+..|. +|.++.|-+..|.|..+
T Consensus 54 tcyVkf~d~~sv~vaQ-hLtntvfvdraliv~p~ 86 (479)
T KOG4676|consen 54 TCYVKFLDSQSVTVAQ-HLTNTVFVDRALIVRPY 86 (479)
T ss_pred eEEEeccCCcceeHHh-hhccceeeeeeEEEEec
Confidence 6899999988766664 78888888887777643
No 144
>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=40.07 E-value=16 Score=37.27 Aligned_cols=26 Identities=35% Similarity=0.767 Sum_probs=19.7
Q ss_pred CCCCCCCCCccccCCCCCCCCCc--ccC
Q 024424 53 GRGPPPGSGRCFNCGIDGHWARD--CKA 78 (268)
Q Consensus 53 ~r~~~~~~~rC~~CG~~GH~ard--C~~ 78 (268)
+.|...+..+|.+||+.||+..+ ||.
T Consensus 930 G~GRK~Ttr~C~nCGQvGHmkTNK~CP~ 957 (968)
T COG5179 930 GKGRKNTTRTCGNCGQVGHMKTNKACPK 957 (968)
T ss_pred CCCCCCcceecccccccccccccccCcc
Confidence 34456677899999999998754 654
No 145
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=39.99 E-value=41 Score=29.17 Aligned_cols=38 Identities=32% Similarity=0.534 Sum_probs=33.1
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCc-ceEEEeccCC
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGS-RIIVEFARGG 41 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr-~IrVe~a~~~ 41 (268)
++.-|.|.++..|++|..++..+.|.|. .+.+.|+...
T Consensus 52 rrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ~~ 90 (193)
T KOG4019|consen 52 RRVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQPG 90 (193)
T ss_pred ceeEEeccChhHHHHHHHHhhhcccCCCceEEEEEccCC
Confidence 3566899999999999999999999998 8888888754
No 146
>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=38.77 E-value=40 Score=26.64 Aligned_cols=25 Identities=24% Similarity=0.519 Sum_probs=22.6
Q ss_pred EEEEeCCHHHHHHHHHhhCCCeecC
Q 024424 6 AFVEFSDPRDADDARYSLNGRDVDG 30 (268)
Q Consensus 6 gFVeF~~~~dA~~Ai~~ldG~~l~G 30 (268)
++|.|.+.++|+.-...+||+.|+-
T Consensus 57 VLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 57 VLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred EEEEECCHHHHHHHHHHhCCCccCC
Confidence 6789999999999999999998764
No 147
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=35.78 E-value=13 Score=38.80 Aligned_cols=21 Identities=48% Similarity=1.029 Sum_probs=17.7
Q ss_pred CCCccccCCCCCCCCCcccCC
Q 024424 59 GSGRCFNCGIDGHWARDCKAG 79 (268)
Q Consensus 59 ~~~rC~~CG~~GH~ardC~~~ 79 (268)
....||.||+.||.+.+|...
T Consensus 259 ~~~~C~~cgq~gh~~~dc~g~ 279 (931)
T KOG2044|consen 259 KPRRCFLCGQTGHEAKDCEGK 279 (931)
T ss_pred CcccchhhcccCCcHhhcCCc
Confidence 345799999999999999854
No 148
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.64 E-value=44 Score=32.90 Aligned_cols=40 Identities=25% Similarity=0.654 Sum_probs=30.5
Q ss_pred CccccCCCCCCCCCcccCC---CCCCccccCCCCCccccccCC
Q 024424 61 GRCFNCGIDGHWARDCKAG---DWKNKCYRCGERGHIERNCQN 100 (268)
Q Consensus 61 ~rC~~CG~~GH~ardC~~~---~~~~~cyrcg~~GH~~r~c~~ 100 (268)
-.|..|-..+||...|... .....|++|+..|||...|+-
T Consensus 134 ~~~~~~~~~~~~iq~~~~~g~Pppsy~c~rc~~~g~wikacpt 176 (448)
T KOG0314|consen 134 YVCHRCNSPGHFIQHCSTNGSPPPSYKCVKCPTPGPWIKACPT 176 (448)
T ss_pred ceeeecccCccccccccccCCCCCCcceecCCCCCccceeccc
Confidence 3566777777777766533 345899999999999999986
No 149
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=34.47 E-value=34 Score=33.05 Aligned_cols=20 Identities=35% Similarity=0.205 Sum_probs=18.1
Q ss_pred CCeEEEEeCCHHHHHHHHHh
Q 024424 3 RDFAFVEFSDPRDADDARYS 22 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ 22 (268)
-|-|||.|.++++|+.||.+
T Consensus 206 TGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 206 TGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred ccceEEEecCHHHHHHHHHH
Confidence 47899999999999999976
No 150
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=34.46 E-value=22 Score=35.24 Aligned_cols=21 Identities=43% Similarity=0.808 Sum_probs=18.4
Q ss_pred CCccccCCCCCCCCCcccCCC
Q 024424 60 SGRCFNCGIDGHWARDCKAGD 80 (268)
Q Consensus 60 ~~rC~~CG~~GH~ardC~~~~ 80 (268)
..+|+.||..||+..||+..+
T Consensus 285 ~n~c~~cg~~gH~~~dc~~~~ 305 (554)
T KOG0119|consen 285 TNVCKICGPLGHISIDCKVND 305 (554)
T ss_pred cccccccCCcccccccCCCcc
Confidence 349999999999999999763
No 151
>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=34.25 E-value=43 Score=30.65 Aligned_cols=32 Identities=28% Similarity=0.208 Sum_probs=24.1
Q ss_pred EEEEeCCHHHHHHHHHhhCCCeecCcceEEEecc
Q 024424 6 AFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 39 (268)
Q Consensus 6 gFVeF~~~~dA~~Ai~~ldG~~l~Gr~IrVe~a~ 39 (268)
|||+|.+..+|+.|++.+..... ..+.|+.|-
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~--~~~~v~~AP 32 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRP--NSWRVSPAP 32 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCC--CCceEeeCC
Confidence 79999999999999987655443 345666664
No 152
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=29.43 E-value=28 Score=34.18 Aligned_cols=20 Identities=45% Similarity=0.810 Sum_probs=17.1
Q ss_pred CccccCCCCCCCCCcccCCC
Q 024424 61 GRCFNCGIDGHWARDCKAGD 80 (268)
Q Consensus 61 ~rC~~CG~~GH~ardC~~~~ 80 (268)
..|||||..-|-.+||+.+-
T Consensus 129 ~~CFNC~g~~hsLrdC~rp~ 148 (485)
T KOG2673|consen 129 DPCFNCGGTPHSLRDCPRPF 148 (485)
T ss_pred ccccccCCCCCccccCCCcc
Confidence 44999999999999999754
No 153
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=28.98 E-value=14 Score=30.99 Aligned_cols=21 Identities=29% Similarity=0.778 Sum_probs=18.1
Q ss_pred CCccccCCCCCccccccCCCC
Q 024424 82 KNKCYRCGERGHIERNCQNSP 102 (268)
Q Consensus 82 ~~~cyrcg~~GH~~r~c~~s~ 102 (268)
-..|-.|-..|||.++|.+..
T Consensus 27 ~~rCQKClq~GHWtYECk~kR 47 (177)
T KOG3116|consen 27 SARCQKCLQAGHWTYECKNKR 47 (177)
T ss_pred chhHHHHHhhccceeeecCce
Confidence 358999999999999999844
No 154
>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=28.12 E-value=62 Score=23.09 Aligned_cols=27 Identities=19% Similarity=0.290 Sum_probs=21.9
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecC
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDG 30 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~G 30 (268)
.+.+|.|.+..+|..|-..|....|..
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi~~ 28 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGIPV 28 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCCcE
Confidence 578999999999999988777665543
No 155
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=27.49 E-value=29 Score=35.01 Aligned_cols=27 Identities=26% Similarity=0.463 Sum_probs=19.7
Q ss_pred EEEeCCHHHHHHHHHhhCC--CeecCcce
Q 024424 7 FVEFSDPRDADDARYSLNG--RDVDGSRI 33 (268)
Q Consensus 7 FVeF~~~~dA~~Ai~~ldG--~~l~Gr~I 33 (268)
||+|++..||+.|+..|.- ++|.|+.|
T Consensus 216 yITfesd~DAQqAykylreevk~fqgKpI 244 (684)
T KOG2591|consen 216 YITFESDTDAQQAYKYLREEVKTFQGKPI 244 (684)
T ss_pred EEEeecchhHHHHHHHHHHHHHhhcCcch
Confidence 8999999999999877543 24445443
No 156
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.44 E-value=38 Score=33.27 Aligned_cols=23 Identities=35% Similarity=0.995 Sum_probs=19.5
Q ss_pred CCCCCCccccCCCCCCCCCcccC
Q 024424 56 PPPGSGRCFNCGIDGHWARDCKA 78 (268)
Q Consensus 56 ~~~~~~rC~~CG~~GH~ardC~~ 78 (268)
.+.-...|+.|+..|||...|+.
T Consensus 154 ~Pppsy~c~rc~~~g~wikacpt 176 (448)
T KOG0314|consen 154 SPPPSYKCVKCPTPGPWIKACPT 176 (448)
T ss_pred CCCCCcceecCCCCCccceeccc
Confidence 35556799999999999999984
No 157
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=27.16 E-value=72 Score=22.65 Aligned_cols=18 Identities=33% Similarity=0.309 Sum_probs=15.5
Q ss_pred EEEEeCCHHHHHHHHHhh
Q 024424 6 AFVEFSDPRDADDARYSL 23 (268)
Q Consensus 6 gFVeF~~~~dA~~Ai~~l 23 (268)
+-|.|.+...|..||.+|
T Consensus 45 cNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 45 CNVVFKDEETAARALVAL 62 (62)
T ss_pred EEEEECCHHHHHHHHHcC
Confidence 568899999999999765
No 158
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=26.73 E-value=61 Score=26.84 Aligned_cols=24 Identities=13% Similarity=0.225 Sum_probs=21.0
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGR 26 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~ 26 (268)
.||.||+....+++..+|.++.+.
T Consensus 46 pGYVfVe~~~~~~~~~~i~~v~~v 69 (153)
T PRK08559 46 KGYVLVEAESKGAVEEAIRGIPHV 69 (153)
T ss_pred CcEEEEEEEChHHHHHHHhcCCCE
Confidence 699999999889999999888764
No 159
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=24.57 E-value=85 Score=32.07 Aligned_cols=36 Identities=22% Similarity=0.453 Sum_probs=30.4
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCee---cCcceEEEecc
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDV---DGSRIIVEFAR 39 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l---~Gr~IrVe~a~ 39 (268)
-.+||.|.+.++|...+..|+|... +.+.|.|.|+.
T Consensus 482 ShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~~ 520 (718)
T KOG2416|consen 482 SHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFVR 520 (718)
T ss_pred cceeEecccHHHHHHHHHHHhccccCCCCCceeEeeecc
Confidence 4689999999999999999999753 66778888865
No 160
>KOG3070 consensus Predicted RNA-binding protein containing PIN domain and invovled in translation or RNA processing [Translation, ribosomal structure and biogenesis]
Probab=23.67 E-value=67 Score=28.85 Aligned_cols=39 Identities=36% Similarity=0.744 Sum_probs=31.1
Q ss_pred cccCCCCCCCC----CcccCCCCCCccccCCCCCccccccCCC
Q 024424 63 CFNCGIDGHWA----RDCKAGDWKNKCYRCGERGHIERNCQNS 101 (268)
Q Consensus 63 C~~CG~~GH~a----rdC~~~~~~~~cyrcg~~GH~~r~c~~s 101 (268)
|+.|+..++.. ..|........||.|+..+|.+..|...
T Consensus 176 ~~~~g~~~~~~~~~~r~~~g~r~~~~~~~~~~~g~~~~~~~e~ 218 (235)
T KOG3070|consen 176 GRACGGAGAAQRPPVRKCGGYRPASLCYTCGEPGHVADGCEES 218 (235)
T ss_pred cccccccccccCCCCcccccCCCcccccccCcccccccccccc
Confidence 47888888644 2377777778899999999999999874
No 161
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=23.02 E-value=19 Score=35.33 Aligned_cols=24 Identities=33% Similarity=0.800 Sum_probs=19.2
Q ss_pred CCCccccCCCCCccccccCCCCCC
Q 024424 81 WKNKCYRCGERGHIERNCQNSPKK 104 (268)
Q Consensus 81 ~~~~cyrcg~~GH~~r~c~~s~~~ 104 (268)
.+..|-+||..+|..++|-..|++
T Consensus 111 RKGACeNCGAmtHk~KDCmERPRK 134 (529)
T KOG2560|consen 111 RKGACENCGAMTHKVKDCMERPRK 134 (529)
T ss_pred hhhhhhhhhhhhcchHHHhhcchh
Confidence 346888999999999999876655
No 162
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=22.84 E-value=99 Score=34.39 Aligned_cols=12 Identities=33% Similarity=0.692 Sum_probs=6.3
Q ss_pred CccccCCCCCCC
Q 024424 61 GRCFNCGIDGHW 72 (268)
Q Consensus 61 ~rC~~CG~~GH~ 72 (268)
.+|-+||....+
T Consensus 668 rkCPkCG~~t~~ 679 (1337)
T PRK14714 668 RRCPSCGTETYE 679 (1337)
T ss_pred EECCCCCCcccc
Confidence 346666655443
No 163
>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=22.18 E-value=82 Score=25.52 Aligned_cols=24 Identities=13% Similarity=0.169 Sum_probs=20.6
Q ss_pred CCeEEEEeCCHHHHHHHHHhhCCC
Q 024424 3 RDFAFVEFSDPRDADDARYSLNGR 26 (268)
Q Consensus 3 rGfgFVeF~~~~dA~~Ai~~ldG~ 26 (268)
.||-||++....+...+|..+.|.
T Consensus 38 pGYvFV~~~~~~~~~~~i~~~~gv 61 (145)
T TIGR00405 38 KGYILVEAETKIDMRNPIIGVPHV 61 (145)
T ss_pred CcEEEEEEECcHHHHHHHhCCCCE
Confidence 589999999888888889888774
No 164
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=21.51 E-value=1e+02 Score=30.19 Aligned_cols=30 Identities=20% Similarity=0.256 Sum_probs=25.8
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCcce
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGSRI 33 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~I 33 (268)
-||+|++.+.+.++..+...||.++.....
T Consensus 259 YyAvvec~d~~tsK~iY~~CDG~Eye~san 288 (622)
T COG5638 259 YYAVVECEDIETSKNIYSACDGVEYENSAN 288 (622)
T ss_pred EEEEEEeccchhhHHHHhccCccccccccc
Confidence 379999999999999999999998865543
No 165
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=20.88 E-value=24 Score=32.18 Aligned_cols=27 Identities=30% Similarity=0.425 Sum_probs=24.6
Q ss_pred EEEEeCCHHHHHHHHHhhCCCeecCcc
Q 024424 6 AFVEFSDPRDADDARYSLNGRDVDGSR 32 (268)
Q Consensus 6 gFVeF~~~~dA~~Ai~~ldG~~l~Gr~ 32 (268)
|.|||.....|+.....|||+.|.|..
T Consensus 131 GWvEF~~KrvAK~iAe~Lnn~~Iggkk 157 (278)
T KOG3152|consen 131 GWVEFISKRVAKRIAELLNNTPIGGKK 157 (278)
T ss_pred HHHHHHHHHHHHHHHHHhCCCccCCCC
Confidence 679999999999999999999998864
No 166
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=20.71 E-value=1.1e+02 Score=28.79 Aligned_cols=29 Identities=24% Similarity=0.431 Sum_probs=24.3
Q ss_pred CeEEEEeCCHHHHHHHHHhhCCCeecCcce
Q 024424 4 DFAFVEFSDPRDADDARYSLNGRDVDGSRI 33 (268)
Q Consensus 4 GfgFVeF~~~~dA~~Ai~~ldG~~l~Gr~I 33 (268)
+|-+|-|.+..+|++||. .+|+.|+|..|
T Consensus 233 NwMhirYssr~~A~KALs-kng~ii~g~vm 261 (350)
T KOG4285|consen 233 NWMHIRYSSRTHAQKALS-KNGTIIDGDVM 261 (350)
T ss_pred ceEEEEecchhHHHHhhh-hcCeeeccceE
Confidence 577899999999999994 68888888654
No 167
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.53 E-value=44 Score=34.26 Aligned_cols=28 Identities=21% Similarity=0.434 Sum_probs=17.9
Q ss_pred CccccCCCC---CCCCCcccCCCCC-----CccccC
Q 024424 61 GRCFNCGID---GHWARDCKAGDWK-----NKCYRC 88 (268)
Q Consensus 61 ~rC~~CG~~---GH~ardC~~~~~~-----~~cyrc 88 (268)
.-|++||.. .+....|+.+.+. .+|-.|
T Consensus 182 HHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C 217 (634)
T KOG1818|consen 182 HHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSC 217 (634)
T ss_pred ccccccchhhccCccccccCcccccccccceehhhh
Confidence 569999973 4566677765433 455555
No 168
>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=20.11 E-value=1.2e+02 Score=25.79 Aligned_cols=35 Identities=31% Similarity=0.497 Sum_probs=26.7
Q ss_pred eEEEEeCCHHHHHHHHHhhCCCeecCc-----ceEEEecc
Q 024424 5 FAFVEFSDPRDADDARYSLNGRDVDGS-----RIIVEFAR 39 (268)
Q Consensus 5 fgFVeF~~~~dA~~Ai~~ldG~~l~Gr-----~IrVe~a~ 39 (268)
-|||.|.+.+++..-++.++|..|... ...|++|-
T Consensus 57 RaYi~F~~~~~~~~F~~~~~g~~F~D~kg~~~~~~VE~Ap 96 (176)
T PF03467_consen 57 RAYINFKNPEDLLEFRDRFDGHVFVDSKGNEYPAVVEFAP 96 (176)
T ss_dssp EEEEEESSCHHHHHHHHHCTTEEEE-TTS-EEEEEEEE-S
T ss_pred EEEEEeCCHHHHHHHHHhcCCcEEECCCCCCcceeEEEcc
Confidence 389999999999999999999877433 34567764
Done!