Query 025249
Match_columns 255
No_of_seqs 361 out of 2210
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 03:59:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025249.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025249hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03134 glycine-rich RNA-bind 99.6 1.6E-15 3.4E-20 125.6 11.2 66 1-66 54-119 (144)
2 KOG0107 Alternative splicing f 99.4 1.8E-13 3.9E-18 115.7 7.3 90 1-111 30-119 (195)
3 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.4 5.5E-13 1.2E-17 123.1 7.6 63 1-63 289-351 (352)
4 KOG0109 RNA-binding protein LA 99.4 4.5E-13 9.8E-18 120.9 6.2 86 1-115 98-183 (346)
5 KOG4207 Predicted splicing fac 99.4 4.9E-13 1.1E-17 115.8 4.6 62 1-62 33-94 (256)
6 TIGR01659 sex-lethal sex-letha 99.3 4.6E-12 1E-16 118.8 10.4 64 1-64 213-278 (346)
7 KOG0113 U1 small nuclear ribon 99.3 2E-12 4.2E-17 117.0 7.4 71 1-71 121-191 (335)
8 KOG0125 Ataxin 2-binding prote 99.3 1.1E-12 2.3E-17 120.0 5.1 60 1-62 116-175 (376)
9 PF13893 RRM_5: RNA recognitio 99.3 3.8E-12 8.3E-17 88.1 6.6 53 1-58 4-56 (56)
10 TIGR01659 sex-lethal sex-letha 99.3 1.8E-12 4E-17 121.5 6.2 62 1-62 127-188 (346)
11 KOG0122 Translation initiation 99.3 2.9E-12 6.2E-17 113.3 6.7 61 1-61 209-269 (270)
12 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.3 3.8E-12 8.2E-17 117.6 6.9 63 1-63 23-85 (352)
13 smart00361 RRM_1 RNA recogniti 99.3 6.1E-12 1.3E-16 91.4 6.4 54 3-56 14-70 (70)
14 KOG0149 Predicted RNA-binding 99.2 1.3E-11 2.9E-16 108.5 3.6 58 2-60 33-90 (247)
15 KOG0148 Apoptosis-promoting RN 99.2 3.6E-11 7.9E-16 107.8 5.8 61 2-62 83-143 (321)
16 KOG0117 Heterogeneous nuclear 99.2 4.4E-11 9.5E-16 113.2 6.2 59 1-59 103-162 (506)
17 smart00360 RRM RNA recognition 99.1 1.1E-10 2.4E-15 80.7 5.7 56 1-56 16-71 (71)
18 PF00076 RRM_1: RNA recognitio 99.1 9E-11 2E-15 82.9 5.3 53 1-54 18-70 (70)
19 KOG0111 Cyclophilin-type pepti 99.1 3.8E-11 8.3E-16 105.0 4.0 63 2-64 31-93 (298)
20 TIGR01645 half-pint poly-U bin 99.1 1.3E-10 2.9E-15 115.6 7.9 64 1-64 224-287 (612)
21 KOG0126 Predicted RNA-binding 99.1 2.9E-11 6.3E-16 103.0 1.8 59 1-59 55-113 (219)
22 KOG0145 RNA-binding protein EL 99.1 1.2E-10 2.5E-15 104.2 5.5 64 1-64 61-124 (360)
23 KOG0145 RNA-binding protein EL 99.1 2.7E-10 5.9E-15 101.9 7.2 62 1-62 298-359 (360)
24 TIGR01622 SF-CC1 splicing fact 99.1 3.1E-10 6.6E-15 108.7 7.4 61 1-61 206-266 (457)
25 TIGR01642 U2AF_lg U2 snRNP aux 99.0 4E-10 8.6E-15 109.3 7.3 61 1-61 315-375 (509)
26 TIGR01645 half-pint poly-U bin 99.0 2.7E-10 5.9E-15 113.4 6.1 59 1-59 127-185 (612)
27 TIGR01628 PABP-1234 polyadenyl 99.0 3.7E-10 7.9E-15 111.4 6.9 62 1-63 305-366 (562)
28 KOG0130 RNA-binding protein RB 99.0 1.7E-10 3.7E-15 94.3 3.6 63 1-63 92-154 (170)
29 KOG0146 RNA-binding protein ET 99.0 2.3E-10 4.9E-15 102.7 2.9 64 1-64 305-368 (371)
30 PF14259 RRM_6: RNA recognitio 99.0 1.6E-09 3.4E-14 77.5 6.3 53 1-54 18-70 (70)
31 TIGR01628 PABP-1234 polyadenyl 99.0 8.6E-10 1.9E-14 108.7 6.6 60 1-60 20-79 (562)
32 smart00362 RRM_2 RNA recogniti 98.9 1.6E-09 3.6E-14 75.1 5.8 54 1-56 19-72 (72)
33 TIGR01622 SF-CC1 splicing fact 98.9 1.1E-09 2.5E-14 104.8 6.6 60 1-61 109-168 (457)
34 KOG0415 Predicted peptidyl pro 98.9 7.2E-10 1.6E-14 102.7 4.3 63 1-63 259-321 (479)
35 KOG0147 Transcriptional coacti 98.9 1.4E-09 3E-14 105.2 6.1 63 1-63 298-360 (549)
36 TIGR01648 hnRNP-R-Q heterogene 98.9 1.5E-09 3.2E-14 107.8 5.2 57 1-58 78-135 (578)
37 PLN03213 repressor of silencin 98.9 1.7E-09 3.7E-14 103.8 5.4 56 1-60 30-87 (759)
38 COG0724 RNA-binding proteins ( 98.9 2.7E-09 5.9E-14 91.2 6.1 60 1-60 135-194 (306)
39 KOG0144 RNA-binding protein CU 98.9 1.3E-09 2.8E-14 103.0 4.4 64 1-64 54-120 (510)
40 KOG0127 Nucleolar protein fibr 98.9 1.9E-09 4.2E-14 104.3 5.2 64 1-65 137-200 (678)
41 KOG0144 RNA-binding protein CU 98.9 1.4E-09 3.1E-14 102.7 4.0 65 1-66 144-211 (510)
42 KOG0105 Alternative splicing f 98.9 5.4E-09 1.2E-13 89.6 6.8 59 1-62 26-84 (241)
43 PLN03120 nucleic acid binding 98.8 4.6E-09 1E-13 94.5 6.2 56 1-60 24-79 (260)
44 KOG0108 mRNA cleavage and poly 98.8 2.8E-09 6.1E-14 102.5 4.9 64 1-64 38-101 (435)
45 KOG0117 Heterogeneous nuclear 98.8 3.2E-09 6.9E-14 100.7 4.6 58 1-66 279-336 (506)
46 TIGR01642 U2AF_lg U2 snRNP aux 98.8 6.2E-09 1.3E-13 100.9 6.6 60 1-60 439-501 (509)
47 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.8 6.4E-09 1.4E-13 101.3 6.7 56 1-61 296-351 (481)
48 cd00590 RRM RRM (RNA recogniti 98.8 1.5E-08 3.2E-13 70.6 6.4 56 1-57 19-74 (74)
49 TIGR01648 hnRNP-R-Q heterogene 98.8 8.7E-09 1.9E-13 102.4 6.5 56 1-64 253-310 (578)
50 KOG0131 Splicing factor 3b, su 98.8 4.5E-09 9.7E-14 89.7 3.6 62 1-62 29-90 (203)
51 KOG0109 RNA-binding protein LA 98.8 3.9E-09 8.4E-14 95.7 3.3 55 1-63 22-76 (346)
52 KOG0121 Nuclear cap-binding pr 98.8 9.4E-09 2E-13 83.4 5.2 62 1-62 56-117 (153)
53 KOG0124 Polypyrimidine tract-b 98.8 6.2E-09 1.3E-13 96.9 4.5 57 2-58 134-190 (544)
54 KOG0148 Apoptosis-promoting RN 98.7 1.6E-08 3.4E-13 91.0 6.3 57 1-63 184-240 (321)
55 KOG4208 Nucleolar RNA-binding 98.7 1.4E-08 3.1E-13 88.0 5.7 60 2-61 70-130 (214)
56 PLN03121 nucleic acid binding 98.6 4.4E-08 9.6E-13 87.2 6.0 55 1-59 25-79 (243)
57 KOG0123 Polyadenylate-binding 98.6 3.3E-08 7.2E-13 93.6 5.4 62 1-65 96-157 (369)
58 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.6 6.4E-08 1.4E-12 94.3 6.7 58 1-62 116-175 (481)
59 KOG0131 Splicing factor 3b, su 98.6 3.3E-08 7.3E-13 84.4 4.0 65 1-65 116-181 (203)
60 KOG4661 Hsp27-ERE-TATA-binding 98.6 5E-08 1.1E-12 95.1 4.7 60 1-60 425-484 (940)
61 KOG4205 RNA-binding protein mu 98.5 9.7E-08 2.1E-12 88.4 3.2 64 2-66 118-181 (311)
62 KOG0127 Nucleolar protein fibr 98.4 2.8E-07 6E-12 89.6 4.8 65 1-65 25-89 (678)
63 KOG4212 RNA-binding protein hn 98.4 4.5E-07 9.7E-12 86.3 5.8 57 3-60 67-123 (608)
64 KOG4206 Spliceosomal protein s 98.4 2.9E-07 6.2E-12 80.8 4.1 61 1-64 33-93 (221)
65 KOG0146 RNA-binding protein ET 98.3 7.2E-07 1.6E-11 80.5 5.0 63 1-64 39-104 (371)
66 KOG0114 Predicted RNA-binding 98.3 1.3E-06 2.8E-11 68.8 5.7 58 1-61 38-95 (124)
67 KOG4205 RNA-binding protein mu 98.3 3.6E-07 7.8E-12 84.6 2.8 63 2-65 27-89 (311)
68 KOG0124 Polypyrimidine tract-b 98.3 5.3E-07 1.1E-11 84.2 3.8 60 1-60 230-289 (544)
69 KOG0123 Polyadenylate-binding 98.3 1.3E-06 2.9E-11 82.7 6.3 59 1-62 18-76 (369)
70 KOG1995 Conserved Zn-finger pr 98.2 3.7E-05 8.1E-10 71.6 14.7 54 10-63 103-156 (351)
71 KOG0110 RNA-binding protein (R 98.0 7.9E-06 1.7E-10 81.6 6.3 59 1-59 535-596 (725)
72 KOG0132 RNA polymerase II C-te 98.0 5.5E-06 1.2E-10 83.4 5.1 59 1-65 441-499 (894)
73 KOG4209 Splicing factor RNPS1, 98.0 6.7E-06 1.5E-10 73.3 5.0 59 2-61 122-180 (231)
74 KOG0226 RNA-binding proteins [ 98.0 1.6E-06 3.6E-11 77.5 1.0 61 2-62 211-271 (290)
75 KOG0116 RasGAP SH3 binding pro 98.0 2.1E-05 4.5E-10 75.7 8.6 63 1-64 308-370 (419)
76 KOG0110 RNA-binding protein (R 98.0 2.7E-06 5.9E-11 84.8 2.4 61 1-61 633-693 (725)
77 KOG0533 RRM motif-containing p 97.7 3.8E-05 8.2E-10 68.9 4.9 61 1-62 103-163 (243)
78 KOG0147 Transcriptional coacti 97.7 2.3E-05 4.9E-10 76.4 3.0 60 1-61 199-258 (549)
79 KOG2314 Translation initiation 97.7 4E-05 8.7E-10 75.1 4.2 57 1-58 84-141 (698)
80 KOG0153 Predicted RNA-binding 97.7 6.5E-05 1.4E-09 69.9 5.2 55 2-62 249-304 (377)
81 KOG0106 Alternative splicing f 97.6 3.1E-05 6.8E-10 68.3 2.5 55 1-63 21-75 (216)
82 KOG1457 RNA binding protein (c 97.4 0.00047 1E-08 61.1 7.0 66 1-66 54-123 (284)
83 KOG4454 RNA binding protein (R 97.3 0.00011 2.5E-09 64.7 2.3 57 1-59 29-85 (267)
84 KOG0120 Splicing factor U2AF, 97.2 0.00013 2.8E-09 71.5 1.9 62 1-62 309-370 (500)
85 PF04059 RRM_2: RNA recognitio 97.2 0.001 2.2E-08 51.7 6.3 56 6-61 28-87 (97)
86 KOG1456 Heterogeneous nuclear 97.2 0.0008 1.7E-08 63.5 6.2 57 1-62 308-364 (494)
87 KOG1190 Polypyrimidine tract-b 97.1 0.00074 1.6E-08 64.3 5.6 54 1-59 318-371 (492)
88 KOG1548 Transcription elongati 97.1 0.0005 1.1E-08 64.1 4.3 61 1-62 154-222 (382)
89 PF08952 DUF1866: Domain of un 97.0 0.0014 3.1E-08 54.5 5.4 50 2-60 57-106 (146)
90 KOG0120 Splicing factor U2AF, 97.0 0.0017 3.6E-08 63.8 6.4 58 2-59 430-490 (500)
91 KOG0106 Alternative splicing f 96.9 0.00032 6.9E-09 61.9 1.3 46 2-55 120-165 (216)
92 COG5175 MOT2 Transcriptional r 96.9 0.0015 3.2E-08 61.1 5.2 59 1-59 140-201 (480)
93 KOG1548 Transcription elongati 96.9 0.0023 5E-08 59.8 6.5 55 3-61 298-352 (382)
94 PF11608 Limkain-b1: Limkain b 96.6 0.0037 8.1E-08 47.5 4.9 37 24-60 40-76 (90)
95 KOG4660 Protein Mei2, essentia 96.6 0.00047 1E-08 67.6 -0.0 49 1-54 95-143 (549)
96 KOG4211 Splicing factor hnRNP- 96.6 0.0027 5.9E-08 61.6 5.0 53 7-62 35-87 (510)
97 KOG2202 U2 snRNP splicing fact 96.6 0.00059 1.3E-08 61.3 -0.0 56 3-59 91-146 (260)
98 KOG1456 Heterogeneous nuclear 96.3 0.0096 2.1E-07 56.4 6.2 55 3-62 144-200 (494)
99 KOG0151 Predicted splicing reg 96.2 0.0048 1E-07 62.4 4.3 59 2-60 195-256 (877)
100 KOG4210 Nuclear localization s 96.1 0.004 8.6E-08 57.3 3.0 63 2-65 206-268 (285)
101 KOG1996 mRNA splicing factor [ 95.8 0.015 3.2E-07 53.5 4.9 57 2-58 307-364 (378)
102 PF05172 Nup35_RRM: Nup53/35/4 95.7 0.019 4.1E-07 44.9 4.7 57 2-59 26-90 (100)
103 PF14605 Nup35_RRM_2: Nup53/35 95.6 0.0099 2.1E-07 41.0 2.4 33 2-40 21-53 (53)
104 PF00098 zf-CCHC: Zinc knuckle 95.3 0.012 2.6E-07 31.9 1.6 17 94-110 2-18 (18)
105 PF03880 DbpA: DbpA RNA bindin 95.2 0.04 8.8E-07 40.3 4.6 43 7-58 32-74 (74)
106 KOG2068 MOT2 transcription fac 94.7 0.016 3.5E-07 54.0 1.8 61 2-62 101-164 (327)
107 KOG1855 Predicted RNA-binding 94.4 0.014 3.1E-07 56.0 0.6 47 1-47 251-310 (484)
108 PF08777 RRM_3: RNA binding mo 94.2 0.056 1.2E-06 42.5 3.6 52 1-58 21-77 (105)
109 KOG4849 mRNA cleavage factor I 92.6 0.077 1.7E-06 50.0 2.3 49 7-55 108-156 (498)
110 KOG1190 Polypyrimidine tract-b 92.5 0.1 2.3E-06 50.0 3.1 50 1-54 170-219 (492)
111 KOG4211 Splicing factor hnRNP- 92.4 0.16 3.5E-06 49.6 4.3 47 11-59 134-180 (510)
112 KOG4660 Protein Mei2, essentia 91.6 0.35 7.6E-06 47.9 5.6 56 5-60 413-472 (549)
113 KOG4212 RNA-binding protein hn 91.4 0.33 7.2E-06 47.1 5.1 56 2-58 236-291 (608)
114 KOG0128 RNA-binding protein SA 91.3 0.077 1.7E-06 54.8 0.8 62 1-63 756-817 (881)
115 PRK11634 ATP-dependent RNA hel 91.2 1.8 3.9E-05 44.0 10.6 45 8-61 519-563 (629)
116 PF04847 Calcipressin: Calcipr 90.7 0.33 7.2E-06 42.0 4.1 56 1-62 15-72 (184)
117 PF15023 DUF4523: Protein of u 90.6 0.56 1.2E-05 39.2 5.1 52 2-61 111-162 (166)
118 KOG4574 RNA-binding protein (c 90.2 0.11 2.4E-06 53.7 0.8 59 1-65 318-378 (1007)
119 KOG2135 Proteins containing th 89.7 0.14 3.1E-06 49.8 1.1 54 2-62 394-447 (526)
120 KOG4285 Mitotic phosphoprotein 89.1 0.46 1E-05 44.1 3.9 55 1-62 216-271 (350)
121 KOG1365 RNA-binding protein Fu 88.6 0.39 8.4E-06 46.0 3.1 48 11-59 313-360 (508)
122 KOG0129 Predicted RNA-binding 88.3 0.51 1.1E-05 46.5 3.8 42 1-42 390-432 (520)
123 PF11767 SET_assoc: Histone ly 86.9 0.9 2E-05 32.9 3.5 29 27-55 37-65 (66)
124 PF07576 BRAP2: BRCA1-associat 86.5 1.8 3.9E-05 34.4 5.3 42 7-50 40-81 (110)
125 KOG2416 Acinus (induces apopto 85.5 0.31 6.8E-06 48.8 0.6 38 23-60 481-521 (718)
126 PF08675 RNA_bind: RNA binding 83.2 2 4.4E-05 32.7 4.0 36 1-44 28-63 (87)
127 PF13696 zf-CCHC_2: Zinc knuck 82.2 0.54 1.2E-05 29.3 0.5 19 93-111 9-27 (32)
128 PF14787 zf-CCHC_5: GAG-polypr 81.9 0.86 1.9E-05 29.1 1.3 19 93-111 3-21 (36)
129 KOG0128 RNA-binding protein SA 81.9 0.29 6.3E-06 50.7 -1.3 47 2-48 688-734 (881)
130 KOG0112 Large RNA-binding prot 80.4 1.1 2.4E-05 46.9 2.2 56 1-62 475-532 (975)
131 KOG4206 Spliceosomal protein s 80.0 2.4 5.2E-05 37.7 4.0 37 23-59 183-220 (221)
132 KOG0105 Alternative splicing f 79.3 3.3 7.3E-05 36.2 4.5 39 4-49 138-176 (241)
133 KOG4210 Nuclear localization s 78.8 1.5 3.2E-05 40.4 2.4 62 1-62 108-169 (285)
134 PF13917 zf-CCHC_3: Zinc knuck 77.3 1.2 2.7E-05 29.4 1.0 19 92-110 4-22 (42)
135 KOG4676 Splicing factor, argin 76.9 2 4.3E-05 41.3 2.7 55 1-56 27-84 (479)
136 PF02714 DUF221: Domain of unk 74.1 3.9 8.4E-05 37.5 3.8 35 26-62 1-35 (325)
137 KOG3152 TBP-binding protein, a 73.8 1.1 2.3E-05 40.8 0.0 52 1-52 94-157 (278)
138 KOG4307 RNA binding protein RB 69.8 2.3 5E-05 43.7 1.4 55 2-57 455-510 (944)
139 KOG0112 Large RNA-binding prot 69.7 1.2 2.5E-05 46.7 -0.7 58 1-59 392-449 (975)
140 KOG2193 IGF-II mRNA-binding pr 68.8 2.9 6.2E-05 40.7 1.7 42 23-64 37-79 (584)
141 smart00343 ZnF_C2HC zinc finge 67.9 3 6.5E-05 24.0 1.1 17 94-110 1-17 (26)
142 PF07530 PRE_C2HC: Associated 66.7 6 0.00013 28.6 2.7 52 7-61 14-65 (68)
143 PF10309 DUF2414: Protein of u 63.0 14 0.00031 26.4 4.0 30 7-43 33-62 (62)
144 KOG1365 RNA-binding protein Fu 61.4 4 8.6E-05 39.3 1.1 45 9-55 193-237 (508)
145 KOG4019 Calcineurin-mediated s 60.8 4.2 9.2E-05 35.2 1.1 41 22-62 50-91 (193)
146 PF07292 NID: Nmi/IFP 35 domai 59.8 11 0.00023 28.9 3.0 31 26-56 1-32 (88)
147 KOG0115 RNA-binding protein p5 59.6 5.1 0.00011 36.5 1.4 57 2-59 52-112 (275)
148 KOG2591 c-Mpl binding protein, 58.6 7.5 0.00016 39.1 2.5 28 26-53 215-244 (684)
149 KOG0804 Cytoplasmic Zn-finger 56.5 15 0.00033 36.0 4.2 42 7-50 101-142 (493)
150 PF04026 SpoVG: SpoVG; InterP 55.7 14 0.00031 27.8 3.1 26 7-32 2-27 (84)
151 PF03108 DBD_Tnp_Mut: MuDR fam 52.6 19 0.00042 25.2 3.2 30 28-59 8-37 (67)
152 KOG2253 U1 snRNP complex, subu 50.5 4.7 0.0001 41.0 -0.3 46 3-57 62-107 (668)
153 PRK13259 regulatory protein Sp 49.9 20 0.00044 27.7 3.2 27 7-33 2-28 (94)
154 COG5082 AIR1 Arginine methyltr 48.7 9.2 0.0002 33.3 1.2 15 94-108 99-113 (190)
155 PF03439 Spt5-NGN: Early trans 44.1 34 0.00074 25.4 3.6 24 22-45 43-66 (84)
156 KOG0129 Predicted RNA-binding 43.2 61 0.0013 32.4 6.0 42 2-44 280-327 (520)
157 PF08206 OB_RNB: Ribonuclease 42.7 9.6 0.00021 26.3 0.4 37 22-59 7-44 (58)
158 PTZ00368 universal minicircle 41.8 15 0.00033 29.9 1.5 18 93-110 130-147 (148)
159 KOG2193 IGF-II mRNA-binding pr 39.0 1.8 3.9E-05 42.0 -5.0 55 1-59 100-155 (584)
160 KOG4307 RNA binding protein RB 38.4 38 0.00082 35.2 3.9 34 23-57 40-73 (944)
161 COG2088 SpoVG Uncharacterized 37.8 36 0.00078 26.1 2.8 28 7-34 2-29 (95)
162 PF10567 Nab6_mRNP_bdg: RNA-re 37.7 66 0.0014 30.0 5.0 57 2-58 36-105 (309)
163 cd06405 PB1_Mekk2_3 The PB1 do 36.4 98 0.0021 23.1 4.8 45 4-57 32-76 (79)
164 PF11823 DUF3343: Protein of u 36.2 51 0.0011 23.6 3.4 25 25-49 3-27 (73)
165 smart00596 PRE_C2HC PRE_C2HC d 35.7 35 0.00076 24.9 2.4 52 7-61 14-65 (69)
166 COG5082 AIR1 Arginine methyltr 34.6 22 0.00047 31.0 1.4 18 92-109 60-77 (190)
167 PLN03134 glycine-rich RNA-bind 32.7 96 0.0021 25.3 4.9 18 34-53 84-101 (144)
168 COG5222 Uncharacterized conser 31.7 19 0.00041 33.7 0.6 21 92-112 176-196 (427)
169 PF14392 zf-CCHC_4: Zinc knuck 31.2 20 0.00044 23.9 0.5 16 94-109 33-48 (49)
170 PF09902 DUF2129: Uncharacteri 31.1 73 0.0016 23.3 3.4 21 25-46 32-52 (71)
171 KOG4400 E3 ubiquitin ligase in 31.1 24 0.00053 31.6 1.2 19 93-111 144-162 (261)
172 TIGR00110 ilvD dihydroxy-acid 29.6 95 0.0021 31.3 5.1 39 21-62 381-419 (535)
173 COG5507 Uncharacterized conser 29.3 52 0.0011 25.9 2.5 21 23-43 66-86 (117)
174 PRK08559 nusG transcription an 27.6 77 0.0017 26.2 3.5 33 8-45 36-68 (153)
175 PF01782 RimM: RimM N-terminal 27.1 1.1E+02 0.0023 22.2 3.9 30 23-58 54-83 (84)
176 PRK02886 hypothetical protein; 27.0 89 0.0019 23.9 3.4 21 25-46 36-56 (87)
177 COG0129 IlvD Dihydroxyacid deh 26.1 1.2E+02 0.0026 30.9 5.0 53 6-62 399-451 (575)
178 COG1098 VacB Predicted RNA bin 26.0 1.4E+02 0.0031 24.4 4.6 49 4-57 4-60 (129)
179 KOG2318 Uncharacterized conser 25.3 81 0.0018 32.1 3.7 31 25-55 270-300 (650)
180 PRK00911 dihydroxy-acid dehydr 25.2 1.3E+02 0.0028 30.5 5.1 38 22-62 397-434 (552)
181 PRK15463 cold shock-like prote 25.1 92 0.002 22.4 3.1 40 22-61 15-59 (70)
182 COG0858 RbfA Ribosome-binding 25.1 1.1E+02 0.0024 24.5 3.8 34 7-44 35-70 (118)
183 PF14657 Integrase_AP2: AP2-li 24.3 1.2E+02 0.0026 19.7 3.3 30 15-44 9-38 (46)
184 PRK02302 hypothetical protein; 24.3 1.1E+02 0.0023 23.5 3.4 21 25-46 38-58 (89)
185 PF11491 DUF3213: Protein of u 23.9 44 0.00095 25.4 1.2 33 25-57 37-73 (88)
186 PTZ00368 universal minicircle 23.5 48 0.001 27.0 1.5 18 94-111 2-19 (148)
187 PRK12448 dihydroxy-acid dehydr 23.0 1.4E+02 0.003 30.7 4.9 38 22-62 447-484 (615)
188 KOG3262 H/ACA small nucleolar 22.6 1.2E+02 0.0025 26.6 3.7 13 26-38 81-93 (215)
189 TIGR00082 rbfA ribosome-bindin 21.7 1.4E+02 0.0031 23.5 3.9 35 6-44 33-68 (114)
190 PF02033 RBFA: Ribosome-bindin 21.4 1.6E+02 0.0034 22.4 4.0 35 7-45 30-65 (104)
191 PF03467 Smg4_UPF3: Smg-4/UPF3 21.1 66 0.0014 27.4 1.9 36 24-59 56-96 (176)
192 PRK11230 glycolate oxidase sub 21.0 1.9E+02 0.0041 28.6 5.4 40 4-44 216-255 (499)
193 PLN02805 D-lactate dehydrogena 20.9 1.9E+02 0.0042 29.2 5.5 40 4-44 293-332 (555)
194 PF11181 YflT: Heat induced st 20.8 1E+02 0.0023 23.5 2.9 28 28-55 4-31 (103)
195 COG1278 CspC Cold shock protei 20.6 35 0.00076 24.8 0.1 39 22-61 12-56 (67)
196 cd04489 ExoVII_LU_OBF ExoVII_L 20.2 33 0.00071 24.2 -0.1 22 6-34 6-27 (78)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.64 E-value=1.6e-15 Score=125.65 Aligned_cols=66 Identities=35% Similarity=0.604 Sum_probs=61.8
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGEV 66 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~~ 66 (255)
||++||+|++|+|++|++|+++++||||+|+++++|++||++||+++|++++|+|+++++++....
T Consensus 54 ~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~~~~~~~ 119 (144)
T PLN03134 54 AFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPANDRPSAPR 119 (144)
T ss_pred HHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCcCCCCCC
Confidence 689999999999999999999999999999999999999999999999999999999987765543
No 2
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.45 E-value=1.8e-13 Score=115.69 Aligned_cols=90 Identities=27% Similarity=0.574 Sum_probs=71.5
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCCCCCCCCCCCCCCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGEVSDHGYRGGGYSSGG 80 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~~~~~g~~GGG~~~gg 80 (255)
+|.+||+|.+|+|.++ +.|||||||+++.+|+.||..|++++|.+..|.|++++.+...... + +.
T Consensus 30 ~F~~yG~lrsvWvArn-----PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~r~~r~------g----g~ 94 (195)
T KOG0107|consen 30 AFSKYGPLRSVWVARN-----PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRPRGSRR------G----GS 94 (195)
T ss_pred HHHhcCcceeEEEeec-----CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCcccccc------C----CC
Confidence 5899999999999986 6799999999999999999999999999999999999865543220 0 00
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 025249 81 RGSYGADRPGGQDDCFKCGRPGHWARDCPSA 111 (255)
Q Consensus 81 rGg~ggGg~~g~~~~~~~g~~Gh~~~~cp~~ 111 (255)
+ .. .+...|+.|+..|||.+.|-..
T Consensus 95 ~-~~-----~g~~~~~r~G~rg~~~r~~~~s 119 (195)
T KOG0107|consen 95 R-PP-----RGRGFCYRCGERGHIGRNCKDS 119 (195)
T ss_pred C-Cc-----ccccccccCCCccccccccccc
Confidence 1 01 1112299999999999999774
No 3
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.40 E-value=5.5e-13 Score=123.12 Aligned_cols=63 Identities=21% Similarity=0.368 Sum_probs=60.4
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 63 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~ 63 (255)
||++||+|++|+|++|+.|+++||||||+|.+.++|.+||++||+.+|+++.|+|+++..+..
T Consensus 289 ~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~~~~ 351 (352)
T TIGR01661 289 LFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTNKAY 351 (352)
T ss_pred HHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccCCCC
Confidence 689999999999999999999999999999999999999999999999999999999988754
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=99.39 E-value=4.5e-13 Score=120.87 Aligned_cols=86 Identities=23% Similarity=0.586 Sum_probs=76.2
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCCCCCCCCCCCCCCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGEVSDHGYRGGGYSSGG 80 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~~~~~g~~GGG~~~gg 80 (255)
+|++||+|++|+|++| |+||.|+-.++|..||+.||+.+|.|+++.|+++..+-....
T Consensus 98 ~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlrtap-------------- 155 (346)
T KOG0109|consen 98 KFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLRTAP-------------- 155 (346)
T ss_pred hhcccCCceeeeeecc--------eeEEEEeeccchHHHHhcccccccccceeeeeeeccccccCC--------------
Confidence 5999999999999998 999999999999999999999999999999999987765533
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 025249 81 RGSYGADRPGGQDDCFKCGRPGHWARDCPSAVGGR 115 (255)
Q Consensus 81 rGg~ggGg~~g~~~~~~~g~~Gh~~~~cp~~~gg~ 115 (255)
+.+.+.+|+.|++.|||+.+||.-..++
T Consensus 156 -------gmgDq~~cyrcGkeghwskEcP~~~~~r 183 (346)
T KOG0109|consen 156 -------GMGDQSGCYRCGKEGHWSKECPVDRTGR 183 (346)
T ss_pred -------CCCCHHHheeccccccccccCCccCCCc
Confidence 1234678999999999999999887655
No 5
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.36 E-value=4.9e-13 Score=115.78 Aligned_cols=62 Identities=26% Similarity=0.431 Sum_probs=59.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
|||+||.|.+|.|++|+.|.+++|||||-|.+..+|+.||++|++.+|+++.|.|++|+-..
T Consensus 33 vFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~arygr 94 (256)
T KOG4207|consen 33 VFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARYGR 94 (256)
T ss_pred HHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhcCC
Confidence 69999999999999999999999999999999999999999999999999999999997543
No 6
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.34 E-value=4.6e-12 Score=118.78 Aligned_cols=64 Identities=17% Similarity=0.285 Sum_probs=58.5
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCC--eEEEEEecccCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGD--RVISVNKAQPKMGG 64 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~G--r~I~V~~A~~k~~~ 64 (255)
||++||+|++|+|++|+.|+++|+||||+|+++++|++||++||+++|.+ ++|+|.+|+.+...
T Consensus 213 ~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~~~~ 278 (346)
T TIGR01659 213 IFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEHGKA 278 (346)
T ss_pred HHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCccccc
Confidence 68999999999999999999999999999999999999999999998876 68999999865443
No 7
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.34 E-value=2e-12 Score=117.03 Aligned_cols=71 Identities=17% Similarity=0.318 Sum_probs=65.7
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCCCCCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGEVSDHGY 71 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~~~~~g~ 71 (255)
.|++||+|+.|.||.|+.|+++||||||+|+++.+|++|.+..++++|+++.|.|++...+..+.+....-
T Consensus 121 eF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvERgRTvkgW~PRRL 191 (335)
T KOG0113|consen 121 EFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVERGRTVKGWLPRRL 191 (335)
T ss_pred HHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEecccccccccccccc
Confidence 38999999999999999999999999999999999999999999999999999999999888877755444
No 8
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.33 E-value=1.1e-12 Score=120.02 Aligned_cols=60 Identities=30% Similarity=0.519 Sum_probs=55.4
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
||++||+|++|+||.+ +. -+|||+||||++.++|++|-++||+.+|.|++|+|+.|.++-
T Consensus 116 MF~kfG~VldVEIIfN-ER-GSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATarV 175 (376)
T KOG0125|consen 116 MFEKFGKVLDVEIIFN-ER-GSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATARV 175 (376)
T ss_pred HHHhhCceeeEEEEec-cC-CCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchhh
Confidence 7999999999999997 33 389999999999999999999999999999999999998653
No 9
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=99.33 E-value=3.8e-12 Score=88.08 Aligned_cols=53 Identities=28% Similarity=0.569 Sum_probs=48.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEec
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 58 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A 58 (255)
||++||+|++|.++.++ +++|||+|.+.++|++|++.||+..|.+++|+|++|
T Consensus 4 ~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 4 LFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred HhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 58999999999998764 579999999999999999999999999999999986
No 10
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.32 E-value=1.8e-12 Score=121.47 Aligned_cols=62 Identities=19% Similarity=0.400 Sum_probs=58.9
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
||++||+|++|+|++|+.|++++|||||+|+++++|++||++||+++|.+++|+|+++++..
T Consensus 127 lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~ 188 (346)
T TIGR01659 127 LFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGG 188 (346)
T ss_pred HHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccc
Confidence 68999999999999999999999999999999999999999999999999999999987643
No 11
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.32 E-value=2.9e-12 Score=113.26 Aligned_cols=61 Identities=18% Similarity=0.471 Sum_probs=59.5
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
||.+||.|..|.|++|++|+.+||||||+|.+.++|++||+.||++-+++..|.|++++|+
T Consensus 209 Lf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP~ 269 (270)
T KOG0122|consen 209 LFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKPS 269 (270)
T ss_pred HhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCCC
Confidence 7899999999999999999999999999999999999999999999999999999999986
No 12
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.30 E-value=3.8e-12 Score=117.55 Aligned_cols=63 Identities=19% Similarity=0.481 Sum_probs=60.0
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 63 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~ 63 (255)
||++||+|++|+||+|+.|++++|||||+|.++++|++||+.||++.|.+++|+|++++++..
T Consensus 23 ~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~ 85 (352)
T TIGR01661 23 LFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSD 85 (352)
T ss_pred HHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeeccccc
Confidence 699999999999999999999999999999999999999999999999999999999987653
No 13
>smart00361 RRM_1 RNA recognition motif.
Probab=99.29 E-value=6.1e-12 Score=91.39 Aligned_cols=54 Identities=20% Similarity=0.421 Sum_probs=49.6
Q ss_pred CCCccceEEE-EeecCCC--CCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEE
Q 025249 3 QCLTHNNDLK-IMLERDS--GRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 56 (255)
Q Consensus 3 ekFG~I~~V~-Iv~Dk~T--g~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~ 56 (255)
++||+|++|. |+.++.| +.++||+||+|.++++|++||+.||+..|.+++|+|.
T Consensus 14 ~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 14 EYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred HhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence 3999999995 8888777 9999999999999999999999999999999999873
No 14
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.18 E-value=1.3e-11 Score=108.54 Aligned_cols=58 Identities=21% Similarity=0.404 Sum_probs=54.0
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
||+||+|+++.||.||.|+++|||+||||.+.|+|++|++..| -.|+|++..|++|.-
T Consensus 33 FeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~-piIdGR~aNcnlA~l 90 (247)
T KOG0149|consen 33 FEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN-PIIDGRKANCNLASL 90 (247)
T ss_pred HHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC-Ccccccccccchhhh
Confidence 8999999999999999999999999999999999999998665 679999999998853
No 15
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.16 E-value=3.6e-11 Score=107.76 Aligned_cols=61 Identities=26% Similarity=0.570 Sum_probs=59.0
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
|.+||+|.+++||+|..|+++|||+||.|.+.++|++||++||++=|..+.|..++|..|+
T Consensus 83 F~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp 143 (321)
T KOG0148|consen 83 FAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKP 143 (321)
T ss_pred hccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCc
Confidence 7899999999999999999999999999999999999999999999999999999998776
No 16
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.15 E-value=4.4e-11 Score=113.18 Aligned_cols=59 Identities=22% Similarity=0.502 Sum_probs=55.5
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeC-CeEEEEEecc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG-DRVISVNKAQ 59 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~-Gr~I~V~~A~ 59 (255)
|||+.|+|.+|+||+|+.++.+||||||+|.++++|++||+.||+++|. |+.|.|+++.
T Consensus 103 lfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Sv 162 (506)
T KOG0117|consen 103 LFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSV 162 (506)
T ss_pred HHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEee
Confidence 7999999999999999999999999999999999999999999999996 7888887765
No 17
>smart00360 RRM RNA recognition motif.
Probab=99.13 E-value=1.1e-10 Score=80.67 Aligned_cols=56 Identities=18% Similarity=0.571 Sum_probs=52.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEE
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 56 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~ 56 (255)
+|++||+|+.|.|+.++.+++++++|||+|.+.++|++||+.|++..|.+++|.|+
T Consensus 16 ~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 16 LFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred HHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 47899999999999998889999999999999999999999999999999998874
No 18
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=99.12 E-value=9e-11 Score=82.95 Aligned_cols=53 Identities=21% Similarity=0.547 Sum_probs=49.9
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEE
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVIS 54 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~ 54 (255)
+|++||+|+.|+|+.+ .++++++||||+|+++++|++||++||+++|.+++|+
T Consensus 18 ~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 18 FFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp HHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred HHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 5889999999999998 7888999999999999999999999999999999884
No 19
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.12 E-value=3.8e-11 Score=105.04 Aligned_cols=63 Identities=30% Similarity=0.450 Sum_probs=59.5
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCC
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGG 64 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~ 64 (255)
|=.||.|+.|+|+.|-+++++++|+||+|+..|+|.+||..||..+|.+++|.|++|+|..-+
T Consensus 31 FIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~kik 93 (298)
T KOG0111|consen 31 FIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPEKIK 93 (298)
T ss_pred cccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCcccc
Confidence 567999999999999999999999999999999999999999999999999999999986544
No 20
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.11 E-value=1.3e-10 Score=115.58 Aligned_cols=64 Identities=17% Similarity=0.317 Sum_probs=60.5
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGG 64 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~ 64 (255)
||++||+|++|+|++|+.|+++||||||+|++.++|++||++||+.+|.|+.|+|.+|.+++..
T Consensus 224 lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~pP~~ 287 (612)
T TIGR01645 224 VFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPPDA 287 (612)
T ss_pred HHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCCccc
Confidence 6999999999999999999999999999999999999999999999999999999999876544
No 21
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.09 E-value=2.9e-11 Score=103.04 Aligned_cols=59 Identities=22% Similarity=0.477 Sum_probs=56.4
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
+|++||+|+.|.||+|+.|+++|||||+.|++..+..-||..||++.|.+++|.|+...
T Consensus 55 VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~ 113 (219)
T KOG0126|consen 55 VFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS 113 (219)
T ss_pred EeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence 59999999999999999999999999999999999999999999999999999998764
No 22
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.09 E-value=1.2e-10 Score=104.22 Aligned_cols=64 Identities=20% Similarity=0.481 Sum_probs=61.1
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGG 64 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~ 64 (255)
||...|+|++|+||+||.|+++.||+||.|.++++|++||..||+..|..++|+|++|.|....
T Consensus 61 LF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs~~ 124 (360)
T KOG0145|consen 61 LFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSSDS 124 (360)
T ss_pred HhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCChhh
Confidence 6888999999999999999999999999999999999999999999999999999999987654
No 23
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.07 E-value=2.7e-10 Score=101.87 Aligned_cols=62 Identities=24% Similarity=0.431 Sum_probs=59.0
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
||..||.|+.|+|++|..|+++|||+||++.+-++|..||..||+..|.++.|.|++...+.
T Consensus 298 lFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtnk~ 359 (360)
T KOG0145|consen 298 LFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTNKA 359 (360)
T ss_pred HhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecCCC
Confidence 79999999999999999999999999999999999999999999999999999999987653
No 24
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.06 E-value=3.1e-10 Score=108.74 Aligned_cols=61 Identities=30% Similarity=0.548 Sum_probs=58.1
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
||++||+|+.|.|++++.|+++++||||+|.+.++|++||++||+++|.+++|.|.+|+..
T Consensus 206 ~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~~ 266 (457)
T TIGR01622 206 IFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDS 266 (457)
T ss_pred HHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccCC
Confidence 6899999999999999999999999999999999999999999999999999999998743
No 25
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.03 E-value=4e-10 Score=109.26 Aligned_cols=61 Identities=21% Similarity=0.455 Sum_probs=58.2
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
||++||.|+.|.|++++.|++++|||||+|.++++|++||++||+++|.+++|.|.+|...
T Consensus 315 ~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~ 375 (509)
T TIGR01642 315 LLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVG 375 (509)
T ss_pred HHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccC
Confidence 6899999999999999999999999999999999999999999999999999999999754
No 26
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.03 E-value=2.7e-10 Score=113.42 Aligned_cols=59 Identities=22% Similarity=0.447 Sum_probs=56.4
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
||++||+|++|+|++|+.|++++|||||+|+++++|++||++||+++|.++.|+|....
T Consensus 127 lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~ 185 (612)
T TIGR01645 127 AFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS 185 (612)
T ss_pred HHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccc
Confidence 68999999999999999999999999999999999999999999999999999998654
No 27
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.03 E-value=3.7e-10 Score=111.37 Aligned_cols=62 Identities=32% Similarity=0.567 Sum_probs=58.7
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 63 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~ 63 (255)
||++||+|++|+|+.| .+++++|||||+|.+.++|++||++||++.|.+++|.|.+|+.+..
T Consensus 305 ~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~k~~ 366 (562)
T TIGR01628 305 LFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQRKEQ 366 (562)
T ss_pred HHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccCcHH
Confidence 5899999999999999 8899999999999999999999999999999999999999987653
No 28
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.03 E-value=1.7e-10 Score=94.28 Aligned_cols=63 Identities=19% Similarity=0.309 Sum_probs=59.2
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 63 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~ 63 (255)
+|..||+|+.|.|-.|+.|+-.||||+|+|++.++|++||.+||+.+|.+++|+|+|+..+.+
T Consensus 92 ~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~gp 154 (170)
T KOG0130|consen 92 KFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVKGP 154 (170)
T ss_pred HHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEecCC
Confidence 478999999999999999999999999999999999999999999999999999999976544
No 29
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.98 E-value=2.3e-10 Score=102.72 Aligned_cols=64 Identities=23% Similarity=0.468 Sum_probs=60.8
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGG 64 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~ 64 (255)
||-.||.|++.+|..|+.|+++|+|+||.|+++.++++||.+||+.+|.-++|+|.+..||...
T Consensus 305 mF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRPkdan 368 (371)
T KOG0146|consen 305 MFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRPKDAN 368 (371)
T ss_pred HhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCccccC
Confidence 5788999999999999999999999999999999999999999999999999999999988654
No 30
>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=98.97 E-value=1.6e-09 Score=77.53 Aligned_cols=53 Identities=19% Similarity=0.520 Sum_probs=49.5
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEE
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVIS 54 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~ 54 (255)
+|+.|+.|+.|.++.++. ++++++|||+|.++++|++||+.+++++|++++|+
T Consensus 18 ~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 18 FFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp HCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred HHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 488999999999999977 89999999999999999999999999999999875
No 31
>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=98.96 E-value=8.6e-10 Score=108.74 Aligned_cols=60 Identities=13% Similarity=0.323 Sum_probs=57.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
||++||+|++|+|++|+.|++++|||||+|.++++|++||+.||.+.|.++.|+|.+++.
T Consensus 20 ~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~ 79 (562)
T TIGR01628 20 LFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQR 79 (562)
T ss_pred HHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccc
Confidence 589999999999999999999999999999999999999999999999999999998864
No 32
>smart00362 RRM_2 RNA recognition motif.
Probab=98.95 E-value=1.6e-09 Score=75.12 Aligned_cols=54 Identities=22% Similarity=0.525 Sum_probs=49.4
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEE
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 56 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~ 56 (255)
+|++||+|..|.|+.++ +.++++|||+|.+.++|++||+.|++.+|.+++|+|+
T Consensus 19 ~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 19 LFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred HHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 47899999999999886 6788999999999999999999999999999998874
No 33
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=98.95 E-value=1.1e-09 Score=104.80 Aligned_cols=60 Identities=20% Similarity=0.379 Sum_probs=56.2
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
||++||+|++|+||+|+.|++++|||||+|.++++|++||+ ||++.|.+++|.|..++..
T Consensus 109 ~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~~~~~ 168 (457)
T TIGR01622 109 FFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQSSQAE 168 (457)
T ss_pred HHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEeecchh
Confidence 58999999999999999999999999999999999999997 9999999999999887643
No 34
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=7.2e-10 Score=102.67 Aligned_cols=63 Identities=17% Similarity=0.299 Sum_probs=59.7
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 63 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~ 63 (255)
||+.||+|++|.||+|+.|+.+.-||||+|++++++++|.-+|++..|+.+.|.|++++.-..
T Consensus 259 IFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQSVsk 321 (479)
T KOG0415|consen 259 IFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQSVSK 321 (479)
T ss_pred HHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhhhhh
Confidence 799999999999999999999999999999999999999999999999999999999986443
No 35
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.92 E-value=1.4e-09 Score=105.16 Aligned_cols=63 Identities=22% Similarity=0.563 Sum_probs=58.7
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 63 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~ 63 (255)
|||.||+|+.|.+++|.+|+++|||+||+|.+.++|.+|+++||+.+|.|+.|+|...+-+..
T Consensus 298 ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~~ 360 (549)
T KOG0147|consen 298 IFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERVD 360 (549)
T ss_pred hccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeecc
Confidence 799999999999999999999999999999999999999999999999999999987764443
No 36
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.89 E-value=1.5e-09 Score=107.78 Aligned_cols=57 Identities=21% Similarity=0.476 Sum_probs=50.9
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeC-CeEEEEEec
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG-DRVISVNKA 58 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~-Gr~I~V~~A 58 (255)
||++||+|++|+||+| .|++++|||||+|.++++|++||+.||+.+|. ++.|.|.++
T Consensus 78 ~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 78 LFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred HHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence 6899999999999999 89999999999999999999999999998885 666655433
No 37
>PLN03213 repressor of silencing 3; Provisional
Probab=98.89 E-value=1.7e-09 Score=103.78 Aligned_cols=56 Identities=14% Similarity=0.366 Sum_probs=51.9
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCH--HHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADR--RAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~--e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
+|++||+|.+|.|| ++|+ ||||||+|.+. +++++||+.||+.+|+|+.|+|+.|++
T Consensus 30 vFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP 87 (759)
T PLN03213 30 IFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE 87 (759)
T ss_pred HHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence 58999999999999 5677 89999999987 789999999999999999999999985
No 38
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.89 E-value=2.7e-09 Score=91.16 Aligned_cols=60 Identities=28% Similarity=0.655 Sum_probs=57.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
+|++||+|..|.|+.|+.|+++++||||+|.++++|..||+.|++..|.++.|.|.++.+
T Consensus 135 ~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~ 194 (306)
T COG0724 135 LFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP 194 (306)
T ss_pred HHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence 589999999999999999999999999999999999999999999999999999999653
No 39
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.89 E-value=1.3e-09 Score=103.04 Aligned_cols=64 Identities=17% Similarity=0.398 Sum_probs=56.9
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCee-C--CeEEEEEecccCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF-G--DRVISVNKAQPKMGG 64 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i-~--Gr~I~V~~A~~k~~~ 64 (255)
|||+||.|.+|.|++||.|+.++|||||+|.+.++|.+||.+||++.. - ...|.|++|....++
T Consensus 54 lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er 120 (510)
T KOG0144|consen 54 LFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERER 120 (510)
T ss_pred HHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhc
Confidence 699999999999999999999999999999999999999999997543 3 478999999865544
No 40
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.87 E-value=1.9e-09 Score=104.31 Aligned_cols=64 Identities=19% Similarity=0.321 Sum_probs=58.5
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGE 65 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~ 65 (255)
||++||+|++|.|++.+.+..+ |||||+|....+|.+||+.||+.+|++++|.|+||.++....
T Consensus 137 vFs~~G~V~Ei~IP~k~dgklc-GFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye 200 (678)
T KOG0127|consen 137 VFSNFGKVVEIVIPRKKDGKLC-GFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYE 200 (678)
T ss_pred HHhhcceEEEEEcccCCCCCcc-ceEEEEEeeHHHHHHHHHhccCceecCceeEEeeeccccccc
Confidence 6899999999999987766666 999999999999999999999999999999999999887553
No 41
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.87 E-value=1.4e-09 Score=102.70 Aligned_cols=65 Identities=18% Similarity=0.334 Sum_probs=57.8
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCee-C--CeEEEEEecccCCCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF-G--DRVISVNKAQPKMGGEV 66 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i-~--Gr~I~V~~A~~k~~~~~ 66 (255)
||++||.|++|.|++| ..+.+||||||+|++.|.|..||++||+... . ..+|.|+||.+++++..
T Consensus 144 iFs~fG~Ied~~ilrd-~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkdk~~ 211 (510)
T KOG0144|consen 144 IFSRFGHIEDCYILRD-PDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKDKDG 211 (510)
T ss_pred HHHhhCccchhhheec-ccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCCchH
Confidence 7999999999999999 6789999999999999999999999998543 3 47899999999887653
No 42
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.86 E-value=5.4e-09 Score=89.58 Aligned_cols=59 Identities=17% Similarity=0.286 Sum_probs=51.9
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
||.|||.|++|.|..- -.+..||||+|+++.+|+.||..-++..+++..|.|+++..-.
T Consensus 26 lFyKyg~i~~ieLK~r---~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr 84 (241)
T KOG0105|consen 26 LFYKYGRIREIELKNR---PGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGR 84 (241)
T ss_pred HHhhhcceEEEEeccC---CCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCC
Confidence 7999999999988553 2356799999999999999999999999999999999998544
No 43
>PLN03120 nucleic acid binding protein; Provisional
Probab=98.84 E-value=4.6e-09 Score=94.55 Aligned_cols=56 Identities=13% Similarity=0.287 Sum_probs=51.6
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
||+.||+|++|.|+.|++ +++||||+|+++++|+.||. ||+.+|.++.|.|..+..
T Consensus 24 fFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~ 79 (260)
T PLN03120 24 FFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAED 79 (260)
T ss_pred HHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccC
Confidence 689999999999999865 46899999999999999996 999999999999999874
No 44
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.84 E-value=2.8e-09 Score=102.45 Aligned_cols=64 Identities=28% Similarity=0.628 Sum_probs=60.4
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGG 64 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~ 64 (255)
||++.|.|.+++++.|++|+++|||+||+|.++++|+.||+.||+.++.+++|+|+++...+..
T Consensus 38 ~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~~~~ 101 (435)
T KOG0108|consen 38 IFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNRKNA 101 (435)
T ss_pred HHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccccchh
Confidence 5788999999999999999999999999999999999999999999999999999999866554
No 45
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.82 E-value=3.2e-09 Score=100.71 Aligned_cols=58 Identities=21% Similarity=0.352 Sum_probs=53.8
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGEV 66 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~~ 66 (255)
||++||+|++|+.++| ||||+|.+.++|.+||++||+++|+|..|+|.+|+|..+...
T Consensus 279 ~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~k~k~ 336 (506)
T KOG0117|consen 279 LFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVDKKKK 336 (506)
T ss_pred HHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceEEEEecCChhhhcc
Confidence 6899999999999988 999999999999999999999999999999999998665543
No 46
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.81 E-value=6.2e-09 Score=100.95 Aligned_cols=60 Identities=27% Similarity=0.305 Sum_probs=53.6
Q ss_pred CCCCCccceEEEEeecC---CCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 1 MQQCLTHNNDLKIMLER---DSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk---~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
+|++||+|++|+|+++. .+...+|++||+|+++++|++||++||+.+|++++|.|.+...
T Consensus 439 ~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~v~~~~~~~ 501 (509)
T TIGR01642 439 EFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVVVAAFYGE 501 (509)
T ss_pred HHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEeCH
Confidence 48899999999999753 4456789999999999999999999999999999999998764
No 47
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.81 E-value=6.4e-09 Score=101.29 Aligned_cols=56 Identities=14% Similarity=0.190 Sum_probs=52.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
||++||+|++|+|+++ +++||||+|.++++|++||+.||+.+|.+++|+|++++.+
T Consensus 296 lF~~yG~V~~vki~~~-----~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~ 351 (481)
T TIGR01649 296 LFCVYGNVERVKFMKN-----KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQ 351 (481)
T ss_pred HHHhcCCeEEEEEEeC-----CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccc
Confidence 6999999999999997 3689999999999999999999999999999999998754
No 48
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=98.80 E-value=1.5e-08 Score=70.60 Aligned_cols=56 Identities=21% Similarity=0.585 Sum_probs=50.8
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEe
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 57 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~ 57 (255)
+|+.|++|..+.|+.++.+ .++++|||+|.+.++|+.|++.|++..|++++|.|.+
T Consensus 19 ~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 19 LFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred HHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 4778899999999998766 7789999999999999999999999999999999864
No 49
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.78 E-value=8.7e-09 Score=102.37 Aligned_cols=56 Identities=21% Similarity=0.363 Sum_probs=51.5
Q ss_pred CCCCC--ccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCC
Q 025249 1 MQQCL--THNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGG 64 (255)
Q Consensus 1 lfekF--G~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~ 64 (255)
||++| |+|++|+++++ ||||+|++.++|++||++||+++|++++|+|++|+|+...
T Consensus 253 ~F~~f~~G~I~rV~~~rg--------fAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~~~ 310 (578)
T TIGR01648 253 SFSEFKPGKVERVKKIRD--------YAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVDKK 310 (578)
T ss_pred HHHhcCCCceEEEEeecC--------eEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCCcc
Confidence 58999 99999998764 9999999999999999999999999999999999986544
No 50
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.77 E-value=4.5e-09 Score=89.68 Aligned_cols=62 Identities=24% Similarity=0.307 Sum_probs=56.8
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
||-+.|+|+.|+|++|+.|.+++|||||+|.++|+|+=||+.||...|.+++|+|+.|...+
T Consensus 29 L~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas~~~ 90 (203)
T KOG0131|consen 29 LFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKASAHQ 90 (203)
T ss_pred HHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEeccccc
Confidence 35567999999999999999999999999999999999999999999999999999998433
No 51
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.77 E-value=3.9e-09 Score=95.68 Aligned_cols=55 Identities=25% Similarity=0.434 Sum_probs=52.2
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 63 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~ 63 (255)
|||+||+|++|.||++ |+||+.+++..++.||.+||+.+|++..|+|+.++.|..
T Consensus 22 lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKsk 76 (346)
T KOG0109|consen 22 LFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKSK 76 (346)
T ss_pred HHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEeccccCC
Confidence 7999999999999998 999999999999999999999999999999999988743
No 52
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=98.77 E-value=9.4e-09 Score=83.40 Aligned_cols=62 Identities=24% Similarity=0.376 Sum_probs=58.0
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
||++.|+|..|.|-.|+.|..+.|||||+|.+.++|+.||+-++++.|+.++|.|++...-.
T Consensus 56 LFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~GF~ 117 (153)
T KOG0121|consen 56 LFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAGFV 117 (153)
T ss_pred HHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccccch
Confidence 68999999999999999999999999999999999999999999999999999999876543
No 53
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.77 E-value=6.2e-09 Score=96.92 Aligned_cols=57 Identities=23% Similarity=0.466 Sum_probs=54.6
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEec
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 58 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A 58 (255)
|..||+|++|.+-+|+.|+++|+||||+|+-+|.|+-|++.||+.+|.+++|+|..-
T Consensus 134 F~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrP 190 (544)
T KOG0124|consen 134 FDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 190 (544)
T ss_pred ccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCC
Confidence 788999999999999999999999999999999999999999999999999999743
No 54
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.75 E-value=1.6e-08 Score=90.98 Aligned_cols=57 Identities=14% Similarity=0.363 Sum_probs=52.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 63 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~ 63 (255)
+|+.||.|.+|+|.++ +|||||.|+++|+|..||.+||+++|.++.|+|.+-+....
T Consensus 184 ~Fs~fG~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~~~ 240 (321)
T KOG0148|consen 184 TFSPFGPIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEGDD 240 (321)
T ss_pred hcccCCcceEEEEecc------cceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccCCC
Confidence 4899999999999997 58999999999999999999999999999999998875443
No 55
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.74 E-value=1.4e-08 Score=88.03 Aligned_cols=60 Identities=10% Similarity=0.311 Sum_probs=54.2
Q ss_pred CCCC-ccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 2 QQCL-THNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 2 fekF-G~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
|.+| |.|+.+++-+++.||.+|+||||+|++++.|+.|-+.||+..|.++.|+|.+-.|.
T Consensus 70 ~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe 130 (214)
T KOG4208|consen 70 FRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE 130 (214)
T ss_pred hhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence 4555 88888888899999999999999999999999999999999999999999887654
No 56
>PLN03121 nucleic acid binding protein; Provisional
Probab=98.64 E-value=4.4e-08 Score=87.23 Aligned_cols=55 Identities=13% Similarity=0.245 Sum_probs=49.7
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
||+.||+|++|+|+.|.++ ++||||+|+++++|+.||. ||+.+|.++.|.|..+.
T Consensus 25 fFS~~G~I~~V~I~~D~et---~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 25 FFSHCGAIEHVEIIRSGEY---ACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRWG 79 (243)
T ss_pred HHHhcCCeEEEEEecCCCc---ceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeCc
Confidence 6999999999999998544 4799999999999999996 99999999999998765
No 57
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.64 E-value=3.3e-08 Score=93.58 Aligned_cols=62 Identities=18% Similarity=0.330 Sum_probs=56.4
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGE 65 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~ 65 (255)
+|+.||+|++|+|++|.+ + +||| ||+|+++++|++||+.||+..+.+++|.|..+..+.+..
T Consensus 96 ~f~~~g~ilS~kv~~~~~-g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~ 157 (369)
T KOG0123|consen 96 TFSEFGNILSCKVATDEN-G-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEERE 157 (369)
T ss_pred HHHhhcCeeEEEEEEcCC-C-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhc
Confidence 589999999999999944 4 9999 999999999999999999999999999999988776654
No 58
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.61 E-value=6.4e-08 Score=94.29 Aligned_cols=58 Identities=7% Similarity=0.125 Sum_probs=50.6
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCC--eEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGD--RVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~G--r~I~V~~A~~k~ 62 (255)
||++||+|++|+|++++. +++|||+|+++++|++||++||+++|.+ .+|+|++|+++.
T Consensus 116 ~F~~~G~V~~v~i~~~~~----~~~afVef~~~~~A~~A~~~Lng~~i~~~~~~l~v~~sk~~~ 175 (481)
T TIGR01649 116 IFNPYGKVLRIVTFTKNN----VFQALVEFESVNSAQHAKAALNGADIYNGCCTLKIEYAKPTR 175 (481)
T ss_pred HHhccCCEEEEEEEecCC----ceEEEEEECCHHHHHHHHHHhcCCcccCCceEEEEEEecCCC
Confidence 689999999999988643 3689999999999999999999999975 488999988644
No 59
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.61 E-value=3.3e-08 Score=84.39 Aligned_cols=65 Identities=37% Similarity=0.483 Sum_probs=59.6
Q ss_pred CCCCCccceEE-EEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCC
Q 025249 1 MQQCLTHNNDL-KIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGE 65 (255)
Q Consensus 1 lfekFG~I~~V-~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~ 65 (255)
+|++||.|... +||+|..|+++++|+||.|.+.|.+.+||+.||++.|.+++|+|++|..+..+.
T Consensus 116 tFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~~~kg 181 (203)
T KOG0131|consen 116 TFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFKKDTKG 181 (203)
T ss_pred HHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEecCCCc
Confidence 48999999875 899999999999999999999999999999999999999999999998765443
No 60
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.57 E-value=5e-08 Score=95.10 Aligned_cols=60 Identities=25% Similarity=0.364 Sum_probs=57.0
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
||+|||+|+-++||++..|--.++|+|||+.+.++|.+||+.||-++|.++.|.|+.|+.
T Consensus 425 lFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKN 484 (940)
T KOG4661|consen 425 LFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKN 484 (940)
T ss_pred HHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeeccc
Confidence 799999999999999988877889999999999999999999999999999999999874
No 61
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.46 E-value=9.7e-08 Score=88.39 Aligned_cols=64 Identities=27% Similarity=0.501 Sum_probs=59.8
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCCC
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGEV 66 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~~ 66 (255)
|++|++|..|.||+|+++.++++|+||+|++++++++++. +.-++|+++.|+|..|.|+.....
T Consensus 118 fe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~pk~~~~~ 181 (311)
T KOG4205|consen 118 FEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAIPKEVMQS 181 (311)
T ss_pred hhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeeccchhhccc
Confidence 8999999999999999999999999999999999999987 577899999999999999987764
No 62
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.40 E-value=2.8e-07 Score=89.63 Aligned_cols=65 Identities=23% Similarity=0.448 Sum_probs=60.7
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGE 65 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~ 65 (255)
+|+.+|+|..|.|++++.+..++||+||+|.-+|+++.||++++...|.++.|.|++|+++....
T Consensus 25 ~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r~e 89 (678)
T KOG0127|consen 25 FFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRARSE 89 (678)
T ss_pred hhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccccccch
Confidence 58999999999999999999999999999999999999999999999999999999998765443
No 63
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.39 E-value=4.5e-07 Score=86.30 Aligned_cols=57 Identities=16% Similarity=0.420 Sum_probs=53.4
Q ss_pred CCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 3 QCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 3 ekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
|+.|+|+-|.|+.| +++|++|+|.|||+++|.+++|+++||-++|++++|+|+....
T Consensus 67 ekvGev~yveLl~D-~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d 123 (608)
T KOG4212|consen 67 EKVGEVEYVELLFD-ESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD 123 (608)
T ss_pred HhcCceEeeeeecc-cCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence 67899999999999 8899999999999999999999999999999999999986654
No 64
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.38 E-value=2.9e-07 Score=80.82 Aligned_cols=61 Identities=16% Similarity=0.290 Sum_probs=55.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGG 64 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~ 64 (255)
||++||+|++|.+.+ |.+.+|-|||+|.+.+.|.+|+.+|++..+.++.+.|++|+.+..-
T Consensus 33 LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdi 93 (221)
T KOG4206|consen 33 LFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDI 93 (221)
T ss_pred HHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccch
Confidence 799999999997765 5678999999999999999999999999999999999999876543
No 65
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.31 E-value=7.2e-07 Score=80.46 Aligned_cols=63 Identities=16% Similarity=0.307 Sum_probs=54.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeC---CeEEEEEecccCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG---DRVISVNKAQPKMGG 64 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~---Gr~I~V~~A~~k~~~ 64 (255)
||+.||+|++|.|++- ..+.+||+|||.|.+..+|+.||..||+.... ...|.|++|...+++
T Consensus 39 lf~pfG~~~e~tvlrg-~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ADTdkER 104 (371)
T KOG0146|consen 39 LFQPFGNIEECTVLRG-PDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFADTDKER 104 (371)
T ss_pred HhcccCCcceeEEecC-CCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEeccchHHH
Confidence 6899999999999987 56889999999999999999999999986543 367889999876554
No 66
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.31 E-value=1.3e-06 Score=68.77 Aligned_cols=58 Identities=21% Similarity=0.317 Sum_probs=52.6
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
||-+||+|..|+|-.+++| +|-|||+|++..+|++|++.|++..+.++.|.|-+-++.
T Consensus 38 lFGkyg~IrQIRiG~~k~T---rGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~ 95 (124)
T KOG0114|consen 38 LFGKYGTIRQIRIGNTKET---RGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPE 95 (124)
T ss_pred HhhcccceEEEEecCccCc---CceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHH
Confidence 6899999999999887665 689999999999999999999999999999999887653
No 67
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.29 E-value=3.6e-07 Score=84.63 Aligned_cols=63 Identities=22% Similarity=0.448 Sum_probs=56.4
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCC
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGE 65 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~ 65 (255)
|++||+|++|.||+|+.|+++++|+||+|++.+.+.++|.+ .-++|++++|++..|.++....
T Consensus 27 f~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~-~~h~~dgr~ve~k~av~r~~~~ 89 (311)
T KOG4205|consen 27 FSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNA-RTHKLDGRSVEPKRAVSREDQT 89 (311)
T ss_pred hcccCceeeEEEeccCCCCCcccccceecCCCcchheeecc-cccccCCccccceeccCccccc
Confidence 68999999999999999999999999999999999988874 4578999999999999877544
No 68
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.29 E-value=5.3e-07 Score=84.23 Aligned_cols=60 Identities=18% Similarity=0.351 Sum_probs=56.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
+||.||+|++|+|.+++.+..+|||+||+|.+.++..+||..||-..|.++-|.|-.+..
T Consensus 230 VFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vT 289 (544)
T KOG0124|consen 230 VFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVT 289 (544)
T ss_pred HHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecccccC
Confidence 589999999999999999999999999999999999999999999999999999977754
No 69
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.27 E-value=1.3e-06 Score=82.72 Aligned_cols=59 Identities=8% Similarity=0.148 Sum_probs=55.1
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
+|+.+++|++|+|.+|. | +-|||||.|.++++|++||++||-..|++++|.|.+++...
T Consensus 18 ~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~ 76 (369)
T KOG0123|consen 18 KFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP 76 (369)
T ss_pred HhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC
Confidence 58899999999999998 7 99999999999999999999999999999999999987543
No 70
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.24 E-value=3.7e-05 Score=71.65 Aligned_cols=54 Identities=30% Similarity=0.569 Sum_probs=50.6
Q ss_pred EEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCC
Q 025249 10 DLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 63 (255)
Q Consensus 10 ~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~ 63 (255)
+|+|.+|++|+++|+-|.|+|++...|++||+.++++.|.+.+|+|.+|+.+..
T Consensus 103 ki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~~r~~ 156 (351)
T KOG1995|consen 103 KIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAERRTG 156 (351)
T ss_pred chhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhhhccC
Confidence 478899999999999999999999999999999999999999999999987764
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.03 E-value=7.9e-06 Score=81.60 Aligned_cols=59 Identities=15% Similarity=0.357 Sum_probs=51.5
Q ss_pred CCCCCccceEEEEeecCCCC---CCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 1 MQQCLTHNNDLKIMLERDSG---RPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg---~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
+|++.|.|.+|.|.+-+..- .+.||+||+|.++++|++|++.|+++.|+++.|.|+++.
T Consensus 535 ~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 535 LFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE 596 (725)
T ss_pred HHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence 47788999999887754321 356999999999999999999999999999999999998
No 72
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.03 E-value=5.5e-06 Score=83.43 Aligned_cols=59 Identities=19% Similarity=0.329 Sum_probs=53.7
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGE 65 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~ 65 (255)
|||.||+|++|.|+. ++++|||++...++|++||++|+...|..+.|+|.||..+..+.
T Consensus 441 ~feefGeiqSi~li~------~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~ks 499 (894)
T KOG0132|consen 441 LFEEFGEIQSIILIP------PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGPKS 499 (894)
T ss_pred HHHhcccceeEeecc------CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCcch
Confidence 699999999999987 46899999999999999999999999999999999998766544
No 73
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.02 E-value=6.7e-06 Score=73.34 Aligned_cols=59 Identities=17% Similarity=0.409 Sum_probs=55.6
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
|+.+|.|..|.|++|+.++.+|+|+||+|.+.+.+++||+ ||+.+|.++.|+|.....+
T Consensus 122 f~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r~~ 180 (231)
T KOG4209|consen 122 FESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKRTN 180 (231)
T ss_pred eeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeeeee
Confidence 7788999999999999999999999999999999999999 9999999999999888765
No 74
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.01 E-value=1.6e-06 Score=77.52 Aligned_cols=61 Identities=26% Similarity=0.537 Sum_probs=55.4
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
|.+|=.....+|++|+.|+++|||+||.|.+.+++..|+.+||++-+..+.|++..+..+.
T Consensus 211 f~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~wke 271 (290)
T KOG0226|consen 211 FKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSEWKE 271 (290)
T ss_pred HHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhhHHh
Confidence 6677777788999999999999999999999999999999999999999999887776654
No 75
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.01 E-value=2.1e-05 Score=75.65 Aligned_cols=63 Identities=22% Similarity=0.431 Sum_probs=51.1
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGG 64 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~ 64 (255)
+|++||.|+++.|..-.-.++..+||||+|++.++++.||++ +-.+|.+++|.|+..++....
T Consensus 308 ~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek~~~~~g 370 (419)
T KOG0116|consen 308 VFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEKRPGFRG 370 (419)
T ss_pred HHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEeccccccc
Confidence 489999999988876433344558999999999999999985 578899999999987764433
No 76
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.00 E-value=2.7e-06 Score=84.82 Aligned_cols=61 Identities=16% Similarity=0.352 Sum_probs=56.4
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
||..||.|.+|.|++-.....++|||||+|.++.+|.+|+++|..+.|.|+.|.++||...
T Consensus 633 LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d 693 (725)
T KOG0110|consen 633 LFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKSD 693 (725)
T ss_pred HHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhccc
Confidence 7999999999999987666778999999999999999999999999999999999999754
No 77
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=97.74 E-value=3.8e-05 Score=68.94 Aligned_cols=61 Identities=11% Similarity=0.273 Sum_probs=55.6
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
||++|++++.|.|..| +++.+.|.|-|+|+..++|++||+.+|+..|+++.|+|.+..+..
T Consensus 103 LF~~~~~~~r~~vhy~-~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~~ 163 (243)
T KOG0533|consen 103 LFAEFGELKRVAVHYD-RAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSPS 163 (243)
T ss_pred HHHHhccceEEeeccC-CCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCcc
Confidence 6899999999999888 788999999999999999999999999999999999998876544
No 78
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.69 E-value=2.3e-05 Score=76.42 Aligned_cols=60 Identities=18% Similarity=0.402 Sum_probs=55.6
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
||+.+|+|..|.||.|+.+..+||.|||+|.+++.+..||. |.|+.+.+..|.|...+..
T Consensus 199 fFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~pv~vq~sEae 258 (549)
T KOG0147|consen 199 FFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPVIVQLSEAE 258 (549)
T ss_pred HHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCceeEecccHHH
Confidence 58999999999999999999999999999999999999995 9999999999999877643
No 79
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.67 E-value=4e-05 Score=75.11 Aligned_cols=57 Identities=16% Similarity=0.372 Sum_probs=50.5
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeC-CeEEEEEec
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG-DRVISVNKA 58 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~-Gr~I~V~~A 58 (255)
||+++|+|+.+.++.+.+++ ++||.|++|.+..+|+.||+.||++.|+ .+++.|..-
T Consensus 84 vfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~~f 141 (698)
T KOG2314|consen 84 VFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVRLF 141 (698)
T ss_pred HHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccceEEeehh
Confidence 68999999999999986666 9999999999999999999999999987 677777543
No 80
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.65 E-value=6.5e-05 Score=69.89 Aligned_cols=55 Identities=16% Similarity=0.308 Sum_probs=47.5
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHH-hcCCeeCCeEEEEEecccCC
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIRE-MHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~-lnG~~i~Gr~I~V~~A~~k~ 62 (255)
|.+||+|..|.|+.. +++|||+|.+.++|+.|.++ +|-..|++++|+|.|..+++
T Consensus 249 FyqyGeirsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~~~ 304 (377)
T KOG0153|consen 249 FYQYGEIRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRPKQ 304 (377)
T ss_pred HhhcCCeeeEEeecc------cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCCcc
Confidence 789999999999875 45999999999999998654 67778899999999999833
No 81
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.62 E-value=3.1e-05 Score=68.27 Aligned_cols=55 Identities=27% Similarity=0.495 Sum_probs=48.7
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 63 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~ 63 (255)
||.+|++|.+|.|+. +|+||+|+++.+|+.||..||+++|.+.+|.|++|..+..
T Consensus 21 ~f~~yg~~~d~~mk~--------gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~ 75 (216)
T KOG0106|consen 21 FFKGYGKIPDADMKN--------GFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRR 75 (216)
T ss_pred HHhhccccccceeec--------ccceeccCchhhhhcccchhcCceecceeeeeeccccccc
Confidence 688999999998765 6999999999999999999999999998888888886543
No 82
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.41 E-value=0.00047 Score=61.12 Aligned_cols=66 Identities=9% Similarity=0.161 Sum_probs=47.7
Q ss_pred CCCCCccceEEEEe-ecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeC---CeEEEEEecccCCCCCC
Q 025249 1 MQQCLTHNNDLKIM-LERDSGRPRGFGFITYADRRAMDDAIREMHGREFG---DRVISVNKAQPKMGGEV 66 (255)
Q Consensus 1 lfekFG~I~~V~Iv-~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~---Gr~I~V~~A~~k~~~~~ 66 (255)
||..|--.+.+.|. +++...-++-+|||+|.+.++|++|+++||+..|+ +.+|.|++|+......+
T Consensus 54 LFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElAKSNtK~kr 123 (284)
T KOG1457|consen 54 LFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELAKSNTKRKR 123 (284)
T ss_pred HhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeehhcCccccc
Confidence 34445333434332 34444556789999999999999999999999998 67888888886555433
No 83
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.33 E-value=0.00011 Score=64.73 Aligned_cols=57 Identities=9% Similarity=0.101 Sum_probs=47.8
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
||-+-|+|++|.|+.++.. +.| ||||.|+++..+.-||+.||+..|.+..|+|.+-.
T Consensus 29 lfiqaGPV~kv~ip~~~d~-~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~ 85 (267)
T KOG4454|consen 29 LFIQAGPVYKVGIPSGQDQ-EQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRC 85 (267)
T ss_pred HhhccCceEEEeCCCCccC-CCc-eeeeecccccchhhhhhhcccchhccchhhccccc
Confidence 3445599999999988554 455 99999999999999999999999999888887654
No 84
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.25 E-value=0.00013 Score=71.47 Aligned_cols=62 Identities=23% Similarity=0.498 Sum_probs=56.7
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
|.+.|+.|....+++|..|+.+|+|||.+|.+......||+.||+++|.+++|.|..|.+..
T Consensus 309 ll~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~ 370 (500)
T KOG0120|consen 309 LLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGA 370 (500)
T ss_pred HHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccc
Confidence 34678999999999999999999999999999999999999999999999999999887543
No 85
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=97.22 E-value=0.001 Score=51.75 Aligned_cols=56 Identities=11% Similarity=0.275 Sum_probs=48.4
Q ss_pred ccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeC----CeEEEEEecccC
Q 025249 6 THNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG----DRVISVNKAQPK 61 (255)
Q Consensus 6 G~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~----Gr~I~V~~A~~k 61 (255)
++..-+.|+.|..|..+.|||||.|.+++.|.+-.+.+|++.+. .+.++|.+|+-+
T Consensus 28 g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~yAriQ 87 (97)
T PF04059_consen 28 GKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEISYARIQ 87 (97)
T ss_pred CcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEehhHhh
Confidence 45566789999999999999999999999999999999999886 577888888643
No 86
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.17 E-value=0.0008 Score=63.48 Aligned_cols=57 Identities=12% Similarity=0.195 Sum_probs=50.8
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
||=.||+|++|++|+.| .+-|.|++.+..+++.||..||+..|.+.+|.|.++++.-
T Consensus 308 l~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~~ 364 (494)
T KOG1456|consen 308 LFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQNF 364 (494)
T ss_pred hhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccccc
Confidence 56679999999999974 3789999999999999999999999999999999887543
No 87
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.13 E-value=0.00074 Score=64.27 Aligned_cols=54 Identities=13% Similarity=0.258 Sum_probs=50.0
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
||..||+|.+|+|+.+|. --|+|.+.+...|+-|++.|+++.|.+++|.|.+++
T Consensus 318 lFgvYGdVqRVkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 318 LFGVYGDVQRVKILYNKK-----DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred HHhhhcceEEEEeeecCC-----cceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 688999999999999854 369999999999999999999999999999999886
No 88
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.12 E-value=0.0005 Score=64.10 Aligned_cols=61 Identities=18% Similarity=0.291 Sum_probs=53.7
Q ss_pred CCCCCccceE--------EEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNND--------LKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~--------V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
||+++|-|.+ |+|..+. .++.||=|+|+|...|+++-||+.|+..+|.+++|.|+.|+-..
T Consensus 154 ~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkfq~ 222 (382)
T KOG1548|consen 154 VMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKFQM 222 (382)
T ss_pred HHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhhhh
Confidence 4778887764 7888884 49999999999999999999999999999999999999998544
No 89
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=96.98 E-value=0.0014 Score=54.47 Aligned_cols=50 Identities=12% Similarity=0.210 Sum_probs=41.6
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
|++||+|+-|+++-+ --+|||.+-+.|.+|++ |++++|.++.|+|....|
T Consensus 57 ~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtp 106 (146)
T PF08952_consen 57 FAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTP 106 (146)
T ss_dssp HHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE---
T ss_pred HHhCCceEEEEEeCC--------eEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCc
Confidence 678999999988876 46899999999999998 999999999999988765
No 90
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=96.95 E-value=0.0017 Score=63.77 Aligned_cols=58 Identities=19% Similarity=0.269 Sum_probs=47.8
Q ss_pred CCCCccceEEEEeecCCC---CCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 2 QQCLTHNNDLKIMLERDS---GRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~T---g~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
+.+|+.|.+|+|+.+-.+ .-.-|--||+|.+.++++.|+++|+|.+|.+++|.+.+-.
T Consensus 430 c~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyd 490 (500)
T KOG0120|consen 430 CAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYD 490 (500)
T ss_pred hcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecC
Confidence 468999999999887221 2234567999999999999999999999999999887654
No 91
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=96.95 E-value=0.00032 Score=61.93 Aligned_cols=46 Identities=17% Similarity=0.365 Sum_probs=40.0
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEE
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 55 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V 55 (255)
|.+||+|+.+.++. .++||+|+++++|..||+.|++.+|.++.|+|
T Consensus 120 ~~~~g~~~~~~~~~--------~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 120 FRPAGEVTYVDARR--------NFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred hcccCCCchhhhhc--------cccceeehhhhhhhhcchhccchhhcCceeee
Confidence 67788886555533 49999999999999999999999999999999
No 92
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.90 E-value=0.0015 Score=61.07 Aligned_cols=59 Identities=15% Similarity=0.246 Sum_probs=45.8
Q ss_pred CCCCCccceEEEEeecCCC-CCCCcEE--EEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 1 MQQCLTHNNDLKIMLERDS-GRPRGFG--FITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~T-g~srGfa--FVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
+|-+||+|.+|.|-+...+ ...-+.+ ||||.+.|+|..||+++++..++|+.|++.+-.
T Consensus 140 yFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~lkatYGT 201 (480)
T COG5175 140 YFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVLKATYGT 201 (480)
T ss_pred hhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceEeeecCc
Confidence 4889999999877553211 1112223 999999999999999999999999999987765
No 93
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.90 E-value=0.0023 Score=59.78 Aligned_cols=55 Identities=18% Similarity=0.335 Sum_probs=47.3
Q ss_pred CCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 3 QCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 3 ekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
++||.|.+|.|.-. .+.|.+.|+|.+.++|+.||+.|+|.-|++++|..++...+
T Consensus 298 ~K~G~v~~vvv~d~----hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~DG~ 352 (382)
T KOG1548|consen 298 EKFGQVRKVVVYDR----HPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIWDGK 352 (382)
T ss_pred HHhCCcceEEEecc----CCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEeCCc
Confidence 68999999977532 36799999999999999999999999999999988776543
No 94
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=96.64 E-value=0.0037 Score=47.52 Aligned_cols=37 Identities=19% Similarity=0.330 Sum_probs=29.0
Q ss_pred cEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 24 GFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 24 GfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
+.|+|.|.+++.|+.|++.|++..+.+.+|.|+++..
T Consensus 40 ~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~ 76 (90)
T PF11608_consen 40 GTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPK 76 (90)
T ss_dssp T-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--
T ss_pred CEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCC
Confidence 5899999999999999999999999999999998854
No 95
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=96.64 E-value=0.00047 Score=67.57 Aligned_cols=49 Identities=18% Similarity=0.374 Sum_probs=43.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEE
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVIS 54 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~ 54 (255)
||++||+|.+|+.-. ..++..||+|-|..+|++|+++||..+|.++.|+
T Consensus 95 ~f~~yGeir~ir~t~-----~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 95 IFGAYGEIREIRETP-----NKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred HHHhhcchhhhhccc-----ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 689999999965544 3668999999999999999999999999999887
No 96
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.63 E-value=0.0027 Score=61.59 Aligned_cols=53 Identities=23% Similarity=0.466 Sum_probs=43.2
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
+|+.+. ..++|+++.|-|||+|+++|++++||+ +|-..|..+-|+|-.+.+..
T Consensus 35 ~I~~~~--~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~~~e 87 (510)
T KOG4211|consen 35 GIENLE--IPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAGGAE 87 (510)
T ss_pred ceeEEE--EeccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccCCcc
Confidence 466644 445789999999999999999999998 67788889999998775433
No 97
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=96.55 E-value=0.00059 Score=61.31 Aligned_cols=56 Identities=11% Similarity=0.215 Sum_probs=47.8
Q ss_pred CCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 3 QCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 3 ekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
.|||+|++++|..+ ..-..+|-++|.|..+++|++|++.||+.-|.+++|.+++..
T Consensus 91 ~kygEiee~~Vc~N-l~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~p 146 (260)
T KOG2202|consen 91 DKYGEIEELNVCDN-LGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSP 146 (260)
T ss_pred HHhhhhhhhhhhcc-cchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecC
Confidence 48999999977665 334567889999999999999999999999999999877654
No 98
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=96.27 E-value=0.0096 Score=56.37 Aligned_cols=55 Identities=11% Similarity=0.175 Sum_probs=45.5
Q ss_pred CCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCC--eEEEEEecccCC
Q 025249 3 QCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGD--RVISVNKAQPKM 62 (255)
Q Consensus 3 ekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~G--r~I~V~~A~~k~ 62 (255)
...|+|..|.|++. ++ --|.|||++.+.|++|.++||+..|.- .+|+|++|+|..
T Consensus 144 np~GkVlRIvIfkk--ng---VQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~r 200 (494)
T KOG1456|consen 144 NPQGKVLRIVIFKK--NG---VQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTR 200 (494)
T ss_pred CCCCceEEEEEEec--cc---eeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcce
Confidence 35689999988874 33 369999999999999999999998874 578899998754
No 99
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=96.24 E-value=0.0048 Score=62.35 Aligned_cols=59 Identities=20% Similarity=0.347 Sum_probs=50.9
Q ss_pred CCCCccceEEEEeecCC---CCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEeccc
Q 025249 2 QQCLTHNNDLKIMLERD---SGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 60 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~---Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~ 60 (255)
|-.||+|..|+||+.+. ..+.+-++||.|.+..+|++|++.|+++.|....|++-|+++
T Consensus 195 fGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWgk~ 256 (877)
T KOG0151|consen 195 FGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWGKA 256 (877)
T ss_pred hcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeeccccc
Confidence 56789999999998653 345667999999999999999999999999999999888853
No 100
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=96.14 E-value=0.004 Score=57.29 Aligned_cols=63 Identities=14% Similarity=0.412 Sum_probs=56.2
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCCCC
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMGGE 65 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~~~ 65 (255)
|..++.|+.|+++.++.|+.+++||+|+|.+...++.||.. +...|.+++|.|....+.....
T Consensus 206 ~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 268 (285)
T KOG4210|consen 206 FVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPRPKSD 268 (285)
T ss_pred ccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCCcccc
Confidence 56778999999999999999999999999999999999886 7889999999999998876553
No 101
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=95.76 E-value=0.015 Score=53.55 Aligned_cols=57 Identities=18% Similarity=0.192 Sum_probs=45.2
Q ss_pred CCCCccceEEEEeecCCCCCCC-cEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEec
Q 025249 2 QQCLTHNNDLKIMLERDSGRPR-GFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 58 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~sr-GfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A 58 (255)
.+|||+|..|.|..++.--... ---||+|+..++|.+|+..||+.-|.|+.+...+-
T Consensus 307 ceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fy 364 (378)
T KOG1996|consen 307 CEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFY 364 (378)
T ss_pred HHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheec
Confidence 4789999999887764322221 23699999999999999999999999999876654
No 102
>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=95.71 E-value=0.019 Score=44.90 Aligned_cols=57 Identities=12% Similarity=0.131 Sum_probs=38.2
Q ss_pred CCCCccceEEEEe-ecCC------CCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCe-EEEEEecc
Q 025249 2 QQCLTHNNDLKIM-LERD------SGRPRGFGFITYADRRAMDDAIREMHGREFGDR-VISVNKAQ 59 (255)
Q Consensus 2 fekFG~I~~V~Iv-~Dk~------Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr-~I~V~~A~ 59 (255)
|++||+|++..-+ ++.. .-...-+-.|+|+++.+|++||+ .|+..|.+. .|-|.+++
T Consensus 26 F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~mvGV~~~~ 90 (100)
T PF05172_consen 26 FSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLMVGVKPCD 90 (100)
T ss_dssp HHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEEEEEEE-H
T ss_pred HHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEEEEEEEcH
Confidence 8899999987511 1100 00123488999999999999998 699999885 44576664
No 103
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=95.57 E-value=0.0099 Score=41.01 Aligned_cols=33 Identities=12% Similarity=0.285 Sum_probs=27.7
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHH
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAI 40 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI 40 (255)
|++||+|+++.+... .-+.+|+|.+..+|++||
T Consensus 21 F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 21 FASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred HHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 678999999888722 239999999999999985
No 104
>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=95.29 E-value=0.012 Score=31.90 Aligned_cols=17 Identities=71% Similarity=1.716 Sum_probs=15.6
Q ss_pred CCCCCCCCCCCCCCCCC
Q 025249 94 DCFKCGRPGHWARDCPS 110 (255)
Q Consensus 94 ~~~~~g~~Gh~~~~cp~ 110 (255)
.||+|+..||++.+||.
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 59999999999999984
No 105
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=95.15 E-value=0.04 Score=40.28 Aligned_cols=43 Identities=14% Similarity=0.442 Sum_probs=26.2
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEec
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 58 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A 58 (255)
.|-.|+|..+ |+||+-... .|+.+|++|++..+.+++|.|+.|
T Consensus 32 ~IG~I~I~~~--------~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 32 DIGRIDIFDN--------FSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp GEEEEEE-SS---------EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred hEEEEEEeee--------EEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence 4556777665 999998775 778899999999999999999876
No 106
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=94.74 E-value=0.016 Score=54.00 Aligned_cols=61 Identities=16% Similarity=0.150 Sum_probs=47.9
Q ss_pred CCCCccceEEEEeecCCCCC---CCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 2 QQCLTHNNDLKIMLERDSGR---PRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~---srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
|.+||+|.+|.+-.+..+-. .-.-++|||+.+|+|..||...++..++++.|++.+...+-
T Consensus 101 fgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka~~gttky 164 (327)
T KOG2068|consen 101 FGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKASLGTTKY 164 (327)
T ss_pred ccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHHhhCCCcc
Confidence 67899999998888763111 11237999999999999999999999999988777776554
No 107
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=94.37 E-value=0.014 Score=55.97 Aligned_cols=47 Identities=9% Similarity=0.135 Sum_probs=37.8
Q ss_pred CCCCCccceEEEEeec---CCCC--C--------CCcEEEEEeCCHHHHHHHHHHhcCCe
Q 025249 1 MQQCLTHNNDLKIMLE---RDSG--R--------PRGFGFITYADRRAMDDAIREMHGRE 47 (255)
Q Consensus 1 lfekFG~I~~V~Iv~D---k~Tg--~--------srGfaFVtF~~~e~a~~AI~~lnG~~ 47 (255)
||.++|.|..|+|+.. +++. . .+-+|||+|+..+.|.+|.+.||...
T Consensus 251 iFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~e~ 310 (484)
T KOG1855|consen 251 IFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNPEQ 310 (484)
T ss_pred HhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhchhh
Confidence 7999999999999887 3332 2 25689999999999999999886543
No 108
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=94.19 E-value=0.056 Score=42.47 Aligned_cols=52 Identities=6% Similarity=0.138 Sum_probs=30.0
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCC-----eeCCeEEEEEec
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGR-----EFGDRVISVNKA 58 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~-----~i~Gr~I~V~~A 58 (255)
+|++|++|.-|.+...- -.|+|-|.++++|++||+++.-. +|.+..+++.+.
T Consensus 21 ~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vL 77 (105)
T PF08777_consen 21 AFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVL 77 (105)
T ss_dssp HT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE--
T ss_pred HHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEEC
Confidence 47889999888886642 27999999999999998876533 556666666553
No 109
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=92.60 E-value=0.077 Score=50.03 Aligned_cols=49 Identities=14% Similarity=0.370 Sum_probs=42.5
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEE
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 55 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V 55 (255)
.|.++++..++.++++||||+|...+..++++.++.|-.++|.++.-.|
T Consensus 108 ~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V 156 (498)
T KOG4849|consen 108 QFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTV 156 (498)
T ss_pred HHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCee
Confidence 4567788888899999999999999999999999999999999875444
No 110
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=92.50 E-value=0.1 Score=50.01 Aligned_cols=50 Identities=10% Similarity=0.159 Sum_probs=38.4
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEE
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVIS 54 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~ 54 (255)
||++||.|.+|.-.. |..+ =-|+|.|.+.+.|+.|..+|+++.|..-.|.
T Consensus 170 vFS~fG~VlKIiTF~-Knn~---FQALvQy~d~~sAq~AK~aLdGqnIyngcCt 219 (492)
T KOG1190|consen 170 VFSKFGFVLKIITFT-KNNG---FQALVQYTDAVSAQAAKLALDGQNIYNGCCT 219 (492)
T ss_pred HHhhcceeEEEEEEe-cccc---hhhhhhccchhhHHHHHHhccCCcccCceeE
Confidence 699999999874433 2222 2489999999999999999999998764443
No 111
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=92.42 E-value=0.16 Score=49.59 Aligned_cols=47 Identities=23% Similarity=0.533 Sum_probs=37.4
Q ss_pred EEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 11 LKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 11 V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
|.|+.+ ..+++-|-|||.|++.+.|++||+ -|.+.|..+-|+|-.+.
T Consensus 134 i~l~~d-~rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF~Ss 180 (510)
T KOG4211|consen 134 ILLPMD-QRGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVFRSS 180 (510)
T ss_pred eeeecc-CCCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEeehhH
Confidence 344555 445688999999999999999998 46678888999987664
No 112
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=91.56 E-value=0.35 Score=47.90 Aligned_cols=56 Identities=14% Similarity=0.275 Sum_probs=44.2
Q ss_pred CccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeC----CeEEEEEeccc
Q 025249 5 LTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG----DRVISVNKAQP 60 (255)
Q Consensus 5 FG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~----Gr~I~V~~A~~ 60 (255)
.++-.-+.|+.|-.+....|||||.|.+++++..+.+++|++.+. .+.++|.+|.-
T Consensus 413 ~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArI 472 (549)
T KOG4660|consen 413 KGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARI 472 (549)
T ss_pred cCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhh
Confidence 344445777888777788999999999999999999999998776 35556777754
No 113
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=91.38 E-value=0.33 Score=47.12 Aligned_cols=56 Identities=18% Similarity=0.290 Sum_probs=46.4
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEec
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 58 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A 58 (255)
|.--|+|+.|.+-.||+- .++|||.|+|+++-+|.+||..|+...+..++..|...
T Consensus 236 fgmAGkv~~vdf~idKeG-~s~G~~vi~y~hpveavqaIsml~~~g~~~~~~~~Rl~ 291 (608)
T KOG4212|consen 236 FGMAGKVQSVDFSIDKEG-NSRGFAVIEYDHPVEAVQAISMLDRQGLFDRRMTVRLD 291 (608)
T ss_pred hccceeeeeeceeecccc-ccCCeeEEEecchHHHHHHHHhhccCCCccccceeecc
Confidence 344578999998888765 89999999999999999999999987777777666653
No 114
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=91.27 E-value=0.077 Score=54.80 Aligned_cols=62 Identities=11% Similarity=0.213 Sum_probs=53.6
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 63 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~~ 63 (255)
|++++++++++.+++. ..+++||.|||.|.++.++.+++..++...+.-..++|+++.|...
T Consensus 756 l~~~~gn~~~~~~vt~-r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp~~~ 817 (881)
T KOG0128|consen 756 LASKTGNVTSLRLVTV-RAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNPERD 817 (881)
T ss_pred hccccCCccccchhhh-hccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCCccc
Confidence 6789999999998876 5689999999999999999999988988888888888888776433
No 115
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=91.24 E-value=1.8 Score=44.04 Aligned_cols=45 Identities=4% Similarity=0.121 Sum_probs=34.4
Q ss_pred ceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 8 NNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 8 I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
|-.|+|..+ |.||+.... .+++.|+.|+...|.+++|.|+.+...
T Consensus 519 ig~i~i~~~--------~s~v~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 563 (629)
T PRK11634 519 IGNIKLFAS--------HSTIELPKG-MPGEVLQHFTRTRILNKPMNMQLLGDA 563 (629)
T ss_pred CCcEEEeCC--------ceEEEcChh-hHHHHHHHhccccccCCceEEEECCCC
Confidence 445666654 889987764 467788889999999999999988643
No 116
>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=90.73 E-value=0.33 Score=41.96 Aligned_cols=56 Identities=13% Similarity=0.140 Sum_probs=39.4
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhc--CCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMH--GREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~ln--G~~i~Gr~I~V~~A~~k~ 62 (255)
||++|..++.+.+++. -.=..|.|.+.++|.+|.+.|+ ...|.+..|+|-++++..
T Consensus 15 l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~ 72 (184)
T PF04847_consen 15 LFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTP 72 (184)
T ss_dssp HHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS
T ss_pred HHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccccc
Confidence 4677888888777663 2357899999999999999999 899999999999886543
No 117
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=90.57 E-value=0.56 Score=39.23 Aligned_cols=52 Identities=6% Similarity=0.031 Sum_probs=41.6
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
.+.||+|.+|.+.-- --|.|+|.+..+|-+||.+++. ..-+..+.+++-+.-
T Consensus 111 Ls~fGpI~SVT~cGr-------qsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsWqqrF 162 (166)
T PF15023_consen 111 LSVFGPIQSVTLCGR-------QSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSWQQRF 162 (166)
T ss_pred HHhcCCcceeeecCC-------ceEEEEehhhHHHHHHHHhhcC-CCCCceEEeeccccc
Confidence 367999999987542 2699999999999999999886 566777888876643
No 118
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=90.24 E-value=0.11 Score=53.70 Aligned_cols=59 Identities=10% Similarity=0.076 Sum_probs=49.9
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeC--CeEEEEEecccCCCCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG--DRVISVNKAQPKMGGE 65 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~--Gr~I~V~~A~~k~~~~ 65 (255)
|+++||+|.+++.+++-. .|.|+|...+.|..|+++|+++++. +-+.+|.+|++-+--+
T Consensus 318 l~s~yg~v~s~wtlr~~N------~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~~~e 378 (1007)
T KOG4574|consen 318 LCSDYGSVASAWTLRDLN------MALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLPMYE 378 (1007)
T ss_pred HHHhhcchhhheeccccc------chhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecccccccc
Confidence 578999999999988732 7999999999999999999998875 6788999998755443
No 119
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=89.69 E-value=0.14 Score=49.83 Aligned_cols=54 Identities=15% Similarity=0.231 Sum_probs=44.6
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
|.+||+|+.|.|-... --|.|||.+..+|-.|.. .++..|+++.|+|-|..+..
T Consensus 394 fA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnps~ 447 (526)
T KOG2135|consen 394 FAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNPSP 447 (526)
T ss_pred hhhcCccccccccCch------hhheeeeeccccccchhc-cccceecCceeEEEEecCCc
Confidence 7799999999886642 268999999999977755 68899999999999988743
No 120
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=89.14 E-value=0.46 Score=44.07 Aligned_cols=55 Identities=18% Similarity=0.192 Sum_probs=41.6
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeE-EEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRV-ISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~-I~V~~A~~k~ 62 (255)
+|+++|+|+++.... ++ -|-+|-|.+..+|++||. .|+++|++-. |-|+.+..|.
T Consensus 216 ~F~~cG~Vvkhv~~~---ng---NwMhirYssr~~A~KALs-kng~ii~g~vmiGVkpCtDks 271 (350)
T KOG4285|consen 216 LFSRCGEVVKHVTPS---NG---NWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKPCTDKS 271 (350)
T ss_pred HHHhhCeeeeeecCC---CC---ceEEEEecchhHHHHhhh-hcCeeeccceEEeeeecCCHH
Confidence 589999999875542 22 388999999999999998 6899998764 4566654443
No 121
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=88.63 E-value=0.39 Score=45.97 Aligned_cols=48 Identities=25% Similarity=0.427 Sum_probs=41.1
Q ss_pred EEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 11 LKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 11 V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
|.|+.+ ..+++.|-|||+|.++|.|.+|.++.|.+.++.+-|+|-.+.
T Consensus 313 VHmv~N-~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S 360 (508)
T KOG1365|consen 313 VHMVLN-GQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCS 360 (508)
T ss_pred eEEEEc-CCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeecc
Confidence 677776 568899999999999999999998898888888888886654
No 122
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=88.32 E-value=0.51 Score=46.45 Aligned_cols=42 Identities=19% Similarity=0.248 Sum_probs=38.1
Q ss_pred CCC-CCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHH
Q 025249 1 MQQ-CLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIRE 42 (255)
Q Consensus 1 lfe-kFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~ 42 (255)
||+ .||.|+-|-|-+|++-+-+||-+-|||.+..+-.+||++
T Consensus 390 imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 390 IMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred HHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 344 799999999999999999999999999999999999974
No 123
>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=86.87 E-value=0.9 Score=32.86 Aligned_cols=29 Identities=17% Similarity=0.384 Sum_probs=26.1
Q ss_pred EEEeCCHHHHHHHHHHhcCCeeCCeEEEE
Q 025249 27 FITYADRRAMDDAIREMHGREFGDRVISV 55 (255)
Q Consensus 27 FVtF~~~e~a~~AI~~lnG~~i~Gr~I~V 55 (255)
||+|.+.++|++|.++.|++.+...+|.+
T Consensus 37 YIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 37 YIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred EEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 89999999999999999999888877665
No 124
>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=86.50 E-value=1.8 Score=34.40 Aligned_cols=42 Identities=19% Similarity=0.433 Sum_probs=34.6
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCC
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGD 50 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~G 50 (255)
.|+.++|++|... .+=.+.|+|.+.++|++-.+++||+.++-
T Consensus 40 ~i~~~riird~~p--nrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 40 DIEHIRIIRDGTP--NRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred cEEEEEEeeCCCC--ceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 4667889987443 45589999999999999999999998874
No 125
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=85.45 E-value=0.31 Score=48.79 Aligned_cols=38 Identities=5% Similarity=0.253 Sum_probs=32.2
Q ss_pred CcEEEEEeCCHHHHHHHHHHhcCCeeC---CeEEEEEeccc
Q 025249 23 RGFGFITYADRRAMDDAIREMHGREFG---DRVISVNKAQP 60 (255)
Q Consensus 23 rGfaFVtF~~~e~a~~AI~~lnG~~i~---Gr~I~V~~A~~ 60 (255)
|-.|||+|.+.++|.+.+.+||+..|- .+.|.|.|+..
T Consensus 481 KShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~~~ 521 (718)
T KOG2416|consen 481 KSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFVRA 521 (718)
T ss_pred hcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeecch
Confidence 458999999999999999999998874 57788887753
No 126
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=83.22 E-value=2 Score=32.70 Aligned_cols=36 Identities=6% Similarity=0.084 Sum_probs=28.8
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMH 44 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~ln 44 (255)
||+.||.|.- ..|.| --|||...+.+.|..|+..+.
T Consensus 28 lFspfG~I~V-sWi~d-------TSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 28 LFSPFGQIYV-SWIND-------TSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp HCCCCCCEEE-EEECT-------TEEEEEECCCHHHHHHHHHHT
T ss_pred HhccCCcEEE-EEEcC-------CcEEEEeecHHHHHHHHHHhc
Confidence 6899999764 44444 279999999999999988776
No 127
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=82.16 E-value=0.54 Score=29.30 Aligned_cols=19 Identities=47% Similarity=1.399 Sum_probs=17.0
Q ss_pred CCCCCCCCCCCCCCCCCCC
Q 025249 93 DDCFKCGRPGHWARDCPSA 111 (255)
Q Consensus 93 ~~~~~~g~~Gh~~~~cp~~ 111 (255)
-.|+.|...|||..+||..
T Consensus 9 Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 9 YVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CEeecCCCCCccHhHCCCC
Confidence 4699999999999999974
No 128
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=81.89 E-value=0.86 Score=29.09 Aligned_cols=19 Identities=42% Similarity=1.017 Sum_probs=12.0
Q ss_pred CCCCCCCCCCCCCCCCCCC
Q 025249 93 DDCFKCGRPGHWARDCPSA 111 (255)
Q Consensus 93 ~~~~~~g~~Gh~~~~cp~~ 111 (255)
.-|++|++.-||+.+|-..
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 4699999999999999754
No 129
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=81.87 E-value=0.29 Score=50.69 Aligned_cols=47 Identities=13% Similarity=0.165 Sum_probs=37.5
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCee
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF 48 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i 48 (255)
|..++.|..|.|+-.+.+++.+|.|+|+|..++++.+||.....+.+
T Consensus 688 ~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~ 734 (881)
T KOG0128|consen 688 FSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFF 734 (881)
T ss_pred cCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhh
Confidence 56777787777775667889999999999999999999985544333
No 130
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=80.44 E-value=1.1 Score=46.94 Aligned_cols=56 Identities=20% Similarity=0.289 Sum_probs=46.0
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCC--eEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGD--RVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~G--r~I~V~~A~~k~ 62 (255)
+|..||.|..|.+-.- .-||+|.+++...++.|++.|-+..|.+ +.|.|++|.+..
T Consensus 475 ~fd~fGpir~Idy~hg------q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~~ 532 (975)
T KOG0112|consen 475 EFDRFGPIRIIDYRHG------QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPPG 532 (975)
T ss_pred HhhccCcceeeecccC------CcceeeecccCccchhhHHHHhcCcCCCCCcccccccccCCC
Confidence 4788999998777432 2399999999999999999999988874 778999987543
No 131
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=79.98 E-value=2.4 Score=37.67 Aligned_cols=37 Identities=16% Similarity=0.399 Sum_probs=31.8
Q ss_pred CcEEEEEeCCHHHHHHHHHHhcCCeeC-CeEEEEEecc
Q 025249 23 RGFGFITYADRRAMDDAIREMHGREFG-DRVISVNKAQ 59 (255)
Q Consensus 23 rGfaFVtF~~~e~a~~AI~~lnG~~i~-Gr~I~V~~A~ 59 (255)
++.|||+|.+...+..|.+.|++..|- ..+|.|.+|+
T Consensus 183 ~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a~ 220 (221)
T KOG4206|consen 183 SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFAK 220 (221)
T ss_pred CceeEEecchhhhhHHHhhhhccceeccCceEEecccC
Confidence 579999999999999999999988776 7778887765
No 132
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=79.33 E-value=3.3 Score=36.18 Aligned_cols=39 Identities=18% Similarity=0.338 Sum_probs=32.3
Q ss_pred CCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeC
Q 025249 4 CLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG 49 (255)
Q Consensus 4 kFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~ 49 (255)
+-|.|.-..|.+| +++.|+|...|+|+-||.+|+.+.+.
T Consensus 138 eaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 138 EAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred hhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhcccccc
Confidence 4467777777777 68999999999999999999877665
No 133
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=78.76 E-value=1.5 Score=40.41 Aligned_cols=62 Identities=11% Similarity=0.008 Sum_probs=46.7
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
++.+.|.+..+.+......-.+++++.|.|...+.+..||+....+.+....+...+++...
T Consensus 108 ~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~~~~ 169 (285)
T KOG4210|consen 108 FSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNTRRG 169 (285)
T ss_pred cchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccccccc
Confidence 35566777777777766778899999999999999999998555456667666666555443
No 134
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=77.25 E-value=1.2 Score=29.37 Aligned_cols=19 Identities=47% Similarity=1.361 Sum_probs=16.7
Q ss_pred CCCCCCCCCCCCCCCCCCC
Q 025249 92 QDDCFKCGRPGHWARDCPS 110 (255)
Q Consensus 92 ~~~~~~~g~~Gh~~~~cp~ 110 (255)
...|.+|+..|||..+|+.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 3469999999999999994
No 135
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=76.89 E-value=2 Score=41.33 Aligned_cols=55 Identities=16% Similarity=0.227 Sum_probs=38.1
Q ss_pred CCCCCccceEEEEeecCCC---CCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEE
Q 025249 1 MQQCLTHNNDLKIMLERDS---GRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 56 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~T---g~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~ 56 (255)
||--.|+|.++.|+-+... ....-.|||.|.+.+.+..|.. |-++.|-++.|.|-
T Consensus 27 lFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdraliv~ 84 (479)
T KOG4676|consen 27 LFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALIVR 84 (479)
T ss_pred HHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEEEE
Confidence 5677789999888764321 2334589999999999998876 44455555555444
No 136
>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=74.08 E-value=3.9 Score=37.48 Aligned_cols=35 Identities=14% Similarity=0.257 Sum_probs=25.9
Q ss_pred EEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 26 GFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 26 aFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
|||||+++++|+.|++.+..+. ...+.|+.|-...
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APeP~ 35 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPEPD 35 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCCcc
Confidence 7999999999999998666433 3556777775443
No 137
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=73.81 E-value=1.1 Score=40.81 Aligned_cols=52 Identities=13% Similarity=0.236 Sum_probs=40.9
Q ss_pred CCCCCccceEEEEeecCCC--------CCCCc----EEEEEeCCHHHHHHHHHHhcCCeeCCeE
Q 025249 1 MQQCLTHNNDLKIMLERDS--------GRPRG----FGFITYADRRAMDDAIREMHGREFGDRV 52 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~T--------g~srG----faFVtF~~~e~a~~AI~~lnG~~i~Gr~ 52 (255)
||++||+|-.|.|.....+ +.++. -+.|+|.+...|..+.+.||+..|.+++
T Consensus 94 il~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Iggkk 157 (278)
T KOG3152|consen 94 ILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIGGKK 157 (278)
T ss_pred HHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccCCCC
Confidence 5789999999998776554 22221 3569999999999998999999998864
No 138
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=69.80 E-value=2.3 Score=43.65 Aligned_cols=55 Identities=16% Similarity=0.102 Sum_probs=37.4
Q ss_pred CCCCccceE-EEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEe
Q 025249 2 QQCLTHNND-LKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 57 (255)
Q Consensus 2 fekFG~I~~-V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~ 57 (255)
|++--.|++ |.|.. --|++....|||+|.+++++.+|+...+-+-+..+.|.|.-
T Consensus 455 f~~~~~Ved~I~lt~-~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~s 510 (944)
T KOG4307|consen 455 FMGAAAVEDFIELTR-LPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDS 510 (944)
T ss_pred hhhhhhhhheeEecc-CCcccccchhhheeccccccchhhhcccccccCceEEEeec
Confidence 344445565 43333 35677888999999998888888765565666677777753
No 139
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=69.72 E-value=1.2 Score=46.73 Aligned_cols=58 Identities=12% Similarity=0.130 Sum_probs=44.3
Q ss_pred CCCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 1 MQQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 1 lfekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
+|.++|+|++|.|-+.+....+ -|+||.|.+.+.+.+|+.+|.+..|..-.|++-+.+
T Consensus 392 af~e~gkve~VDiKtP~~~~es-a~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~ 449 (975)
T KOG0112|consen 392 AFDESGKVEEVDIKTPHIKTES-AYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQ 449 (975)
T ss_pred hhhhhccccccccccCCCCccc-chhhhhhhccccCcccchhhcCCccccCcccccccc
Confidence 4889999999998776432223 499999999999999988898887776555555553
No 140
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=68.78 E-value=2.9 Score=40.70 Aligned_cols=42 Identities=24% Similarity=0.495 Sum_probs=36.1
Q ss_pred CcEEEEEeCCHHHHHHHHHHhcCC-eeCCeEEEEEecccCCCC
Q 025249 23 RGFGFITYADRRAMDDAIREMHGR-EFGDRVISVNKAQPKMGG 64 (255)
Q Consensus 23 rGfaFVtF~~~e~a~~AI~~lnG~-~i~Gr~I~V~~A~~k~~~ 64 (255)
.+|+||.+.+..++.+||+.|+++ ++.|+.++|....+++-.
T Consensus 37 ~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkqr 79 (584)
T KOG2193|consen 37 SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQR 79 (584)
T ss_pred cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHHHH
Confidence 379999999999999999999984 678999999988776543
No 141
>smart00343 ZnF_C2HC zinc finger.
Probab=67.90 E-value=3 Score=24.05 Aligned_cols=17 Identities=59% Similarity=1.566 Sum_probs=15.0
Q ss_pred CCCCCCCCCCCCCCCCC
Q 025249 94 DCFKCGRPGHWARDCPS 110 (255)
Q Consensus 94 ~~~~~g~~Gh~~~~cp~ 110 (255)
.|+.|+..+|++.+||.
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 38899999999999984
No 142
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=66.74 E-value=6 Score=28.62 Aligned_cols=52 Identities=10% Similarity=0.244 Sum_probs=37.8
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
+|..|.-|..+.+..+.-.-||+++...+..++ ++=+.|.+..|+|+....+
T Consensus 14 ~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~i---~~Ik~l~~~~V~vE~~~k~ 65 (68)
T PF07530_consen 14 PVRNIHNMHSRNTKKPLNMFFVELEPKPNNKEI---YKIKTLCGQRVKVERPRKR 65 (68)
T ss_pred ceEEEEccccCCCCCCceEEEEeeccCccccce---eehHhhCCeEEEEecCCCC
Confidence 577888888877777777889998887664444 3334678888888876654
No 143
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=63.01 E-value=14 Score=26.37 Aligned_cols=30 Identities=7% Similarity=0.093 Sum_probs=24.4
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHh
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREM 43 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~l 43 (255)
....|..|-|. -|-|.|.+++.|.+||.+|
T Consensus 33 ~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 33 GPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred CCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 45678888873 5789999999999999865
No 144
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=61.35 E-value=4 Score=39.31 Aligned_cols=45 Identities=29% Similarity=0.547 Sum_probs=31.4
Q ss_pred eEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEE
Q 025249 9 NDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 55 (255)
Q Consensus 9 ~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V 55 (255)
+.|-.|+ +..++.-|-|||.|..+++|++||.+ |-..|.-+-|+|
T Consensus 193 egvLFV~-rpdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIEl 237 (508)
T KOG1365|consen 193 EGVLFVT-RPDGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIEL 237 (508)
T ss_pred cceEEEE-CCCCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHHH
Confidence 3343333 34678889999999999999999974 444555454544
No 145
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=60.85 E-value=4.2 Score=35.21 Aligned_cols=41 Identities=22% Similarity=0.259 Sum_probs=34.1
Q ss_pred CCcEEEEEeCCHHHHHHHHHHhcCCeeCCe-EEEEEecccCC
Q 025249 22 PRGFGFITYADRRAMDDAIREMHGREFGDR-VISVNKAQPKM 62 (255)
Q Consensus 22 srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr-~I~V~~A~~k~ 62 (255)
+..+--|.|.+++.|.+|..+++...|.++ .|+.-+|++..
T Consensus 50 sfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ~~~ 91 (193)
T KOG4019|consen 50 SFRRVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQPGH 91 (193)
T ss_pred hhceeEEeccChhHHHHHHHHhhhcccCCCceEEEEEccCCC
Confidence 345667899999999999999999999998 78887887644
No 146
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=59.81 E-value=11 Score=28.86 Aligned_cols=31 Identities=16% Similarity=0.360 Sum_probs=20.9
Q ss_pred EEEEeCCHHHHHHHHHH-hcCCeeCCeEEEEE
Q 025249 26 GFITYADRRAMDDAIRE-MHGREFGDRVISVN 56 (255)
Q Consensus 26 aFVtF~~~e~a~~AI~~-lnG~~i~Gr~I~V~ 56 (255)
|+|||++++.|++.|+. -+-..|+...+.|.
T Consensus 1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~ 32 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVK 32 (88)
T ss_pred CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEE
Confidence 68999999999998763 22334455555443
No 147
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=59.61 E-value=5.1 Score=36.50 Aligned_cols=57 Identities=18% Similarity=0.292 Sum_probs=42.0
Q ss_pred CCCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCC----eeCCeEEEEEecc
Q 025249 2 QQCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGR----EFGDRVISVNKAQ 59 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~----~i~Gr~I~V~~A~ 59 (255)
|+.|++|+...|+.| ..+++-+-.+|.|..+-.+.+|+..++-. ++.++.+.|...+
T Consensus 52 f~~fg~~e~av~~vD-~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP~e 112 (275)
T KOG0115|consen 52 FRRFGPIERAVAKVD-DRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEPME 112 (275)
T ss_pred hhhcCccchheeeec-ccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCChhh
Confidence 788999999888877 55667778899999999999988766432 3334555555444
No 148
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=58.63 E-value=7.5 Score=39.05 Aligned_cols=28 Identities=18% Similarity=0.375 Sum_probs=19.7
Q ss_pred EEEEeCCHHHHHHHHHHhcC--CeeCCeEE
Q 025249 26 GFITYADRRAMDDAIREMHG--REFGDRVI 53 (255)
Q Consensus 26 aFVtF~~~e~a~~AI~~lnG--~~i~Gr~I 53 (255)
+||||++.++|++|.+.|.. ++|.++.|
T Consensus 215 WyITfesd~DAQqAykylreevk~fqgKpI 244 (684)
T KOG2591|consen 215 WYITFESDTDAQQAYKYLREEVKTFQGKPI 244 (684)
T ss_pred eEEEeecchhHHHHHHHHHHHHHhhcCcch
Confidence 59999999999999765532 34445444
No 149
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=56.46 E-value=15 Score=35.97 Aligned_cols=42 Identities=21% Similarity=0.430 Sum_probs=35.2
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCC
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGD 50 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~G 50 (255)
.|..|+||+|...++ =..+|+|.+.++|..-.+++||+.|+-
T Consensus 101 ~I~~irivRd~~pnr--ymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 101 QISDIRIVRDGMPNR--YMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred hhheeEEeecCCCce--EEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 588899999755443 378999999999999999999998874
No 150
>PF04026 SpoVG: SpoVG; InterPro: IPR007170 This is a stage V sporulation protein G. It is essential for sporulation and specific to stage V sporulation in Bacillus megaterium and Bacillus subtilis []. In B. subtilis, expression decreases after 30-60 minutes of cold shock [].; GO: 0030435 sporulation resulting in formation of a cellular spore; PDB: 2IA9_F 2I9X_B 2I9Z_A.
Probab=55.73 E-value=14 Score=27.84 Aligned_cols=26 Identities=23% Similarity=0.448 Sum_probs=21.6
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCC
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYAD 32 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~ 32 (255)
+|++|+|-.-...++.++||-|+|.+
T Consensus 2 ~itdVri~~~~~~~~lka~asV~~dd 27 (84)
T PF04026_consen 2 KITDVRIRKIEPEGKLKAFASVTFDD 27 (84)
T ss_dssp -EEEEEEEETTSSSSEEEEEEEEETT
T ss_pred ccEEEEEEEecCCCCEEEEEEEEECC
Confidence 57888887766668999999999988
No 151
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=52.56 E-value=19 Score=25.21 Aligned_cols=30 Identities=20% Similarity=0.303 Sum_probs=21.8
Q ss_pred EEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 28 ITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 28 VtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
.+|.+.++++.||..+. ......+.|..+.
T Consensus 8 ~~F~~~~e~k~av~~ya--i~~~~~~~v~ksd 37 (67)
T PF03108_consen 8 QTFPSKEEFKEAVREYA--IKNGFEFKVKKSD 37 (67)
T ss_pred CEECCHHHHHHHHHHHH--HhcCcEEEEeccC
Confidence 47999999999998765 3445566665554
No 152
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=50.49 E-value=4.7 Score=41.02 Aligned_cols=46 Identities=17% Similarity=0.082 Sum_probs=36.3
Q ss_pred CCCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEe
Q 025249 3 QCLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 57 (255)
Q Consensus 3 ekFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~ 57 (255)
.+.|.|.++++++ |+|++|..+.....|+..|+-..++++.+.|+.
T Consensus 62 ~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~ 107 (668)
T KOG2253|consen 62 AKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELNIDDQKLIENV 107 (668)
T ss_pred hhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccCCCcchhhccc
Confidence 3456666555544 999999999999999998888888888877665
No 153
>PRK13259 regulatory protein SpoVG; Reviewed
Probab=49.88 E-value=20 Score=27.74 Aligned_cols=27 Identities=19% Similarity=0.327 Sum_probs=21.7
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCCH
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYADR 33 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~~ 33 (255)
+|++|+|-.-...++.|+||-|+|++.
T Consensus 2 ~ITdVri~~~~~~g~lka~asit~dd~ 28 (94)
T PRK13259 2 EVTDVRLRKVNTEGRMKAIVSITFDNE 28 (94)
T ss_pred eEEEEEEEEeCCCCcEEEEEEEEECCE
Confidence 578888866545688999999999983
No 154
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=48.66 E-value=9.2 Score=33.30 Aligned_cols=15 Identities=53% Similarity=1.562 Sum_probs=7.7
Q ss_pred CCCCCCCCCCCCCCC
Q 025249 94 DCFKCGRPGHWARDC 108 (255)
Q Consensus 94 ~~~~~g~~Gh~~~~c 108 (255)
.|+.|+..||++++|
T Consensus 99 ~C~~Cg~~GH~~~dC 113 (190)
T COG5082 99 KCYNCGETGHLSRDC 113 (190)
T ss_pred ccccccccCcccccc
Confidence 345555555555555
No 155
>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=44.12 E-value=34 Score=25.39 Aligned_cols=24 Identities=17% Similarity=0.416 Sum_probs=21.0
Q ss_pred CCcEEEEEeCCHHHHHHHHHHhcC
Q 025249 22 PRGFGFITYADRRAMDDAIREMHG 45 (255)
Q Consensus 22 srGfaFVtF~~~e~a~~AI~~lnG 45 (255)
.|||-|||=.+++++.+||+.+..
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi~~ 66 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGIRH 66 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-TT
T ss_pred CceEEEEEeCCHHHHHHHHhcccc
Confidence 789999999999999999987764
No 156
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=43.23 E-value=61 Score=32.36 Aligned_cols=42 Identities=12% Similarity=0.260 Sum_probs=27.2
Q ss_pred CCCCccceEEEEe-ecCC--CCCCCc---EEEEEeCCHHHHHHHHHHhc
Q 025249 2 QQCLTHNNDLKIM-LERD--SGRPRG---FGFITYADRRAMDDAIREMH 44 (255)
Q Consensus 2 fekFG~I~~V~Iv-~Dk~--Tg~srG---faFVtF~~~e~a~~AI~~ln 44 (255)
|..||.|.- ..+ +... --.+|| |+|+.|+++.++.+.|.++.
T Consensus 280 F~~FGs~~V-dWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~ 327 (520)
T KOG0129|consen 280 FGQFGSVKV-DWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS 327 (520)
T ss_pred cccccceEe-ecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHh
Confidence 667777552 222 1111 123577 99999999999888776654
No 157
>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=42.73 E-value=9.6 Score=26.34 Aligned_cols=37 Identities=24% Similarity=0.463 Sum_probs=19.3
Q ss_pred CCcEEEEEeCC-HHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 22 PRGFGFITYAD-RRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 22 srGfaFVtF~~-~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
++|||||+.++ .+++--+-+.|++ -+++-+|.|.+..
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 57999999997 2222222233443 3455566776665
No 158
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=41.84 E-value=15 Score=29.94 Aligned_cols=18 Identities=50% Similarity=1.472 Sum_probs=12.8
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 025249 93 DDCFKCGRPGHWARDCPS 110 (255)
Q Consensus 93 ~~~~~~g~~Gh~~~~cp~ 110 (255)
..|+.|+..+||+.+||.
T Consensus 130 ~~C~~Cg~~gH~~~dCp~ 147 (148)
T PTZ00368 130 KTCYNCGQTGHLSRDCPD 147 (148)
T ss_pred CccccCCCcCcccccCCC
Confidence 467777777777777764
No 159
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=39.04 E-value=1.8 Score=42.03 Aligned_cols=55 Identities=11% Similarity=0.218 Sum_probs=42.9
Q ss_pred CCCCCccceEEEE-eecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecc
Q 025249 1 MQQCLTHNNDLKI-MLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 59 (255)
Q Consensus 1 lfekFG~I~~V~I-v~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~ 59 (255)
|+.+|++|+.|.+ ++|.+|- .--|+|...+.+..||.+||+.+|....++|.+--
T Consensus 100 Ll~qyg~ve~~eqvnt~~eta----vvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiP 155 (584)
T KOG2193|consen 100 LLAQYGTVENCEQVNTDSETA----VVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIP 155 (584)
T ss_pred HHhccCCHhHhhhhccchHHH----HHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCc
Confidence 4567899998855 4454442 33478999999999999999999999999987753
No 160
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=38.44 E-value=38 Score=35.24 Aligned_cols=34 Identities=12% Similarity=0.124 Sum_probs=25.8
Q ss_pred CcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEe
Q 025249 23 RGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 57 (255)
Q Consensus 23 rGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~ 57 (255)
.|-|||.|.+.|+|..||.+ +..+|.+-+|.+-+
T Consensus 40 ~GeaFI~FsTDeDARlaM~k-dr~~i~g~~VrLlL 73 (944)
T KOG4307|consen 40 EGEAFIGFSTDEDARLAMTK-DRLMIHGAEVRLLL 73 (944)
T ss_pred ccceEEEecccchhhhhhhh-cccceecceEEEEe
Confidence 47899999999999999874 55677776555433
No 161
>COG2088 SpoVG Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]
Probab=37.82 E-value=36 Score=26.14 Aligned_cols=28 Identities=18% Similarity=0.259 Sum_probs=23.8
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCCHH
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYADRR 34 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e 34 (255)
+|++|+|-+-...++.|-++-|||+++-
T Consensus 2 ~iTdVRirkv~~dgrmkA~vsvT~D~ef 29 (95)
T COG2088 2 EITDVRIRKVDTDGRMKAYVSVTLDNEF 29 (95)
T ss_pred cceeEEEEEecCCCcEEEEEEEEecceE
Confidence 5889999887677999999999999853
No 162
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=37.70 E-value=66 Score=30.00 Aligned_cols=57 Identities=4% Similarity=0.116 Sum_probs=0.0
Q ss_pred CCCCccceEEEEeecC-------CCCCCCcEEEEEeCCHHHHHH----HHHHhcC--CeeCCeEEEEEec
Q 025249 2 QQCLTHNNDLKIMLER-------DSGRPRGFGFITYADRRAMDD----AIREMHG--REFGDRVISVNKA 58 (255)
Q Consensus 2 fekFG~I~~V~Iv~Dk-------~Tg~srGfaFVtF~~~e~a~~----AI~~lnG--~~i~Gr~I~V~~A 58 (255)
|.+|++|++|.|+.+. +..+..-...+.|-+.+.|.. .++.|.. +.|.-..|+|++.
T Consensus 36 fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~~L~S~~L~lsFV 105 (309)
T PF10567_consen 36 FVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKTKLKSESLTLSFV 105 (309)
T ss_pred hhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHHhcCCcceeEEEE
No 163
>cd06405 PB1_Mekk2_3 The PB1 domain is present in the two mitogen-activated protein kinase kinases MEKK2 and MEKK3 which are two members of the signaling kinase cascade involved in angiogenesis and early cardiovascular development. The PB1 domain of MEKK2 (and/or MEKK3) interacts with the PB1 domain of another member of the kinase cascade Map2k5. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, f
Probab=36.42 E-value=98 Score=23.12 Aligned_cols=45 Identities=13% Similarity=0.108 Sum_probs=30.3
Q ss_pred CCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEe
Q 025249 4 CLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 57 (255)
Q Consensus 4 kFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~ 57 (255)
.||.-.++..+.+ --.|-..+.+++++||+.++. ....+.|.|-.
T Consensus 32 afGq~mdl~ytn~--------eL~iPl~~Q~DLDkAie~ld~-s~~~ksLRilL 76 (79)
T cd06405 32 AFGQPMDLHYTNN--------ELLIPLKNQEDLDRAIELLDR-SPHMKSLRILL 76 (79)
T ss_pred HhCCeeeEEEecc--------cEEEeccCHHHHHHHHHHHcc-CccccceeEeE
Confidence 4666666655554 257888999999999998775 34445555543
No 164
>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=36.24 E-value=51 Score=23.55 Aligned_cols=25 Identities=12% Similarity=0.178 Sum_probs=20.0
Q ss_pred EEEEEeCCHHHHHHHHHHhcCCeeC
Q 025249 25 FGFITYADRRAMDDAIREMHGREFG 49 (255)
Q Consensus 25 faFVtF~~~e~a~~AI~~lnG~~i~ 49 (255)
+.+|+|.+..+|.+|-+.|....|.
T Consensus 3 ~~~i~F~st~~a~~~ek~lk~~gi~ 27 (73)
T PF11823_consen 3 YYLITFPSTHDAMKAEKLLKKNGIP 27 (73)
T ss_pred eEEEEECCHHHHHHHHHHHHHCCCc
Confidence 6799999999999987777655443
No 165
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=35.72 E-value=35 Score=24.94 Aligned_cols=52 Identities=13% Similarity=0.235 Sum_probs=38.4
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccC
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 61 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k 61 (255)
+|..|..|..+.+..+.-.-||+.....+.... |+=+.|.+++|+|+....+
T Consensus 14 ~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~I---l~ik~Lg~~~V~VEr~~k~ 65 (69)
T smart00596 14 PVLFIHNMLNRDTKNPQNMFEVELVPAANGKEI---LNIKTLGGQRVTVERPHKR 65 (69)
T ss_pred ceeEEEcccccCCCCcceeEEEEeeecCCCcce---EeehhhCCeeEEEecCccc
Confidence 577788888888777777888988887655552 4445788999888876544
No 166
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=34.59 E-value=22 Score=31.00 Aligned_cols=18 Identities=56% Similarity=1.385 Sum_probs=16.1
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 025249 92 QDDCFKCGRPGHWARDCP 109 (255)
Q Consensus 92 ~~~~~~~g~~Gh~~~~cp 109 (255)
.-.||+|+..||..++||
T Consensus 60 ~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 60 NPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccchhcccCcccccCC
Confidence 347999999999999999
No 167
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=32.74 E-value=96 Score=25.29 Aligned_cols=18 Identities=11% Similarity=0.193 Sum_probs=8.8
Q ss_pred HHHHHHHHHhcCCeeCCeEE
Q 025249 34 RAMDDAIREMHGREFGDRVI 53 (255)
Q Consensus 34 e~a~~AI~~lnG~~i~Gr~I 53 (255)
++.+.|.++|+ +|++..|
T Consensus 84 ~~~e~A~~Al~--~lng~~i 101 (144)
T PLN03134 84 NDEGAATAAIS--EMDGKEL 101 (144)
T ss_pred CCHHHHHHHHH--HcCCCEE
Confidence 44555555554 3445444
No 168
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=31.66 E-value=19 Score=33.69 Aligned_cols=21 Identities=38% Similarity=1.270 Sum_probs=18.3
Q ss_pred CCCCCCCCCCCCCCCCCCCCC
Q 025249 92 QDDCFKCGRPGHWARDCPSAV 112 (255)
Q Consensus 92 ~~~~~~~g~~Gh~~~~cp~~~ 112 (255)
.--||.||..+||-..||...
T Consensus 176 gY~CyRCGqkgHwIqnCpTN~ 196 (427)
T COG5222 176 GYVCYRCGQKGHWIQNCPTNQ 196 (427)
T ss_pred ceeEEecCCCCchhhcCCCCC
Confidence 446999999999999999774
No 169
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=31.21 E-value=20 Score=23.89 Aligned_cols=16 Identities=56% Similarity=1.420 Sum_probs=15.0
Q ss_pred CCCCCCCCCCCCCCCC
Q 025249 94 DCFKCGRPGHWARDCP 109 (255)
Q Consensus 94 ~~~~~g~~Gh~~~~cp 109 (255)
-|+.|+.-||...+||
T Consensus 33 ~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 33 FCFHCGRIGHSDKECP 48 (49)
T ss_pred hhcCCCCcCcCHhHcC
Confidence 5999999999999997
No 170
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=31.08 E-value=73 Score=23.33 Aligned_cols=21 Identities=10% Similarity=0.415 Sum_probs=16.5
Q ss_pred EEEEEeCCHHHHHHHHHHhcCC
Q 025249 25 FGFITYADRRAMDDAIREMHGR 46 (255)
Q Consensus 25 faFVtF~~~e~a~~AI~~lnG~ 46 (255)
|+ |.|.+.+++++.+++|...
T Consensus 32 Yv-vlYvn~~~~e~~~~kl~~l 52 (71)
T PF09902_consen 32 YV-VLYVNEEDVEEIIEKLKKL 52 (71)
T ss_pred EE-EEEECHHHHHHHHHHHhcC
Confidence 55 6688899999999888743
No 171
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=31.07 E-value=24 Score=31.60 Aligned_cols=19 Identities=42% Similarity=1.235 Sum_probs=17.1
Q ss_pred CCCCCCCCCCCCCCCCCCC
Q 025249 93 DDCFKCGRPGHWARDCPSA 111 (255)
Q Consensus 93 ~~~~~~g~~Gh~~~~cp~~ 111 (255)
-.||.|+..|||+.+||..
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred CccCCCCcCCcchhhCCCC
Confidence 4599999999999999965
No 172
>TIGR00110 ilvD dihydroxy-acid dehydratase. This model generates scores of up to 150 bits vs. 6-phosphogluconate dehydratase, a homologous enzyme.
Probab=29.64 E-value=95 Score=31.30 Aligned_cols=39 Identities=18% Similarity=0.204 Sum_probs=29.1
Q ss_pred CCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 21 RPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 21 ~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
+++|-| ++|+++++|.+||.. +..-.+-.|.|.+.=||.
T Consensus 381 ~~~G~A-~VF~see~a~~ai~~--g~i~~gdVvViRyeGPkG 419 (535)
T TIGR00110 381 KFEGPA-KVFESEEEALEAILG--GKIKEGDVVVIRYEGPKG 419 (535)
T ss_pred EEEEeE-EEECCHHHHHHHHhc--CCCCCCeEEEEeCCCCCC
Confidence 356666 679999999999974 445567777787777763
No 173
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=29.31 E-value=52 Score=25.93 Aligned_cols=21 Identities=29% Similarity=0.472 Sum_probs=17.5
Q ss_pred CcEEEEEeCCHHHHHHHHHHh
Q 025249 23 RGFGFITYADRRAMDDAIREM 43 (255)
Q Consensus 23 rGfaFVtF~~~e~a~~AI~~l 43 (255)
--|..|+|.+.+...+|+++|
T Consensus 66 VvFsW~~Y~skq~rDA~~~km 86 (117)
T COG5507 66 VVFSWIEYPSKQVRDAANAKM 86 (117)
T ss_pred EEEEEEEcCchhHHHHHHHHh
Confidence 358999999999999887654
No 174
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=27.63 E-value=77 Score=26.19 Aligned_cols=33 Identities=18% Similarity=0.282 Sum_probs=25.8
Q ss_pred ceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcC
Q 025249 8 NNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHG 45 (255)
Q Consensus 8 I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG 45 (255)
|.+|.++.. .+||-||+....+++..+|..+.+
T Consensus 36 i~~i~vp~~-----fpGYVfVe~~~~~~~~~~i~~v~~ 68 (153)
T PRK08559 36 IYAILAPPE-----LKGYVLVEAESKGAVEEAIRGIPH 68 (153)
T ss_pred EEEEEccCC-----CCcEEEEEEEChHHHHHHHhcCCC
Confidence 556665553 689999999988998999887764
No 175
>PF01782 RimM: RimM N-terminal domain; InterPro: IPR002676 The RimM protein is essential for efficient processing of 16S rRNA []. The RimM protein was shown to have affinity for free ribosomal 30S subunits but not for 30S subunits in the 70S ribosomes [].; GO: 0006364 rRNA processing; PDB: 2QGG_A 3A1P_C 2DOG_A 2DYI_A 3H9N_A 2F1L_A.
Probab=27.10 E-value=1.1e+02 Score=22.21 Aligned_cols=30 Identities=7% Similarity=0.026 Sum_probs=19.4
Q ss_pred CcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEec
Q 025249 23 RGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 58 (255)
Q Consensus 23 rGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A 58 (255)
+...+|.|+..++.++|.+ |. +..|.|..+
T Consensus 54 ~~~~i~~~~gi~~r~~Ae~-l~-----g~~l~v~r~ 83 (84)
T PF01782_consen 54 GKSLIVKFEGIDDREAAEA-LR-----GCELYVPRD 83 (84)
T ss_dssp TTEEEEEETT--SHHHHHT-TT-----T-EEEEEGC
T ss_pred CCEEEEEEcCCCCHHHHHh-hC-----CCEEEEECC
Confidence 4588999999999988865 54 445666543
No 176
>PRK02886 hypothetical protein; Provisional
Probab=26.99 E-value=89 Score=23.87 Aligned_cols=21 Identities=14% Similarity=0.507 Sum_probs=16.3
Q ss_pred EEEEEeCCHHHHHHHHHHhcCC
Q 025249 25 FGFITYADRRAMDDAIREMHGR 46 (255)
Q Consensus 25 faFVtF~~~e~a~~AI~~lnG~ 46 (255)
|+ |.|.+.+++++.+++|...
T Consensus 36 Yv-vlYvn~~~~e~~~~kl~~l 56 (87)
T PRK02886 36 YA-VLYCDMEQVEDIMNKLSSL 56 (87)
T ss_pred EE-EEEECHHHHHHHHHHHhcC
Confidence 55 6688889999998888743
No 177
>COG0129 IlvD Dihydroxyacid dehydratase/phosphogluconate dehydratase [Amino acid transport and metabolism / Carbohydrate transport and metabolism]
Probab=26.14 E-value=1.2e+02 Score=30.91 Aligned_cols=53 Identities=13% Similarity=0.040 Sum_probs=33.4
Q ss_pred ccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 6 THNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 6 G~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
|.|+++..+.+ +--+.+|=| ++|++++++.+||+ ++..-.+..|.|.+.=||.
T Consensus 399 gaViK~sav~~-~~~~~eGpA-~VFds~e~~~~ai~--~g~l~~g~VvVIRyeGPkG 451 (575)
T COG0129 399 GAVIKTSAVDP-EIRVFEGPA-RVFDSQEDAIKAIL--DGELKAGDVVVIRYEGPKG 451 (575)
T ss_pred CceEEeeccCc-hhceEEeee-EEECCHHHHHHHHh--cCCCCCCeEEEEeccCCCC
Confidence 34444444332 222344555 78999999999986 4444456677777777765
No 178
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=26.03 E-value=1.4e+02 Score=24.38 Aligned_cols=49 Identities=12% Similarity=0.047 Sum_probs=27.4
Q ss_pred CCccceEEEEeecCCCCCCCcEEEEEeCC--------HHHHHHHHHHhcCCeeCCeEEEEEe
Q 025249 4 CLTHNNDLKIMLERDSGRPRGFGFITYAD--------RRAMDDAIREMHGREFGDRVISVNK 57 (255)
Q Consensus 4 kFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~--------~e~a~~AI~~lnG~~i~Gr~I~V~~ 57 (255)
+.|.|++.+|..- ..==|||+|+. .|.|..-|+.+|.+.--+..|.|++
T Consensus 4 kvG~~l~GkItgI-----~~yGAFV~l~~g~tGLVHISEIa~~fVkdI~d~L~vG~eV~vKV 60 (129)
T COG1098 4 KVGSKLKGKITGI-----TPYGAFVELEGGKTGLVHISEIADGFVKDIHDHLKVGQEVKVKV 60 (129)
T ss_pred cccceEEEEEEee-----EecceEEEecCCCcceEEehHhhhhhHHhHHHHhcCCCEEEEEE
Confidence 3466666555332 22237999988 3455556666665444455555544
No 179
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.35 E-value=81 Score=32.10 Aligned_cols=31 Identities=13% Similarity=0.248 Sum_probs=26.5
Q ss_pred EEEEEeCCHHHHHHHHHHhcCCeeCCeEEEE
Q 025249 25 FGFITYADRRAMDDAIREMHGREFGDRVISV 55 (255)
Q Consensus 25 faFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V 55 (255)
||.|+|.+.+.|.+..+.++|++|...-..|
T Consensus 270 yAVvecDsi~tA~~vYe~CDG~EfEsS~~~~ 300 (650)
T KOG2318|consen 270 YAVVECDSIETAKAVYEECDGIEFESSANKL 300 (650)
T ss_pred EEEEEecCchHHHHHHHhcCcceecccccee
Confidence 8999999999999999999999987544333
No 180
>PRK00911 dihydroxy-acid dehydratase; Provisional
Probab=25.18 E-value=1.3e+02 Score=30.49 Aligned_cols=38 Identities=18% Similarity=0.203 Sum_probs=28.2
Q ss_pred CCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 22 PRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 22 srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
++|=| ++|+++|+|.+||.. ++.-.+-.|.|.+.=|+.
T Consensus 397 ~~GpA-~VF~see~a~~ai~~--g~I~~gdVvViRyeGPkG 434 (552)
T PRK00911 397 FTGPA-RVFDSEEEAMEAILA--GKIKAGDVVVIRYEGPKG 434 (552)
T ss_pred eeeeE-EEECCHHHHHHHHhc--CCCCCCeEEEEeCCCCCC
Confidence 55555 789999999999974 445557777777777764
No 181
>PRK15463 cold shock-like protein CspF; Provisional
Probab=25.08 E-value=92 Score=22.42 Aligned_cols=40 Identities=15% Similarity=0.125 Sum_probs=22.0
Q ss_pred CCcEEEEEeCCH-HHHH---HHHHHh-cCCeeCCeEEEEEecccC
Q 025249 22 PRGFGFITYADR-RAMD---DAIREM-HGREFGDRVISVNKAQPK 61 (255)
Q Consensus 22 srGfaFVtF~~~-e~a~---~AI~~l-nG~~i~Gr~I~V~~A~~k 61 (255)
.|||+||+=++- +++- +||+.. ......+..|+.++.+.+
T Consensus 15 ~kGfGFI~~~~g~~DvFvH~sal~~~g~~~l~~G~~V~f~v~~~~ 59 (70)
T PRK15463 15 KSGKGLITPSDGRKDVQVHISALNLRDAEELTTGLRVEFCRINGL 59 (70)
T ss_pred CCceEEEecCCCCccEEEEehhhhhcCCCCCCCCCEEEEEEEECC
Confidence 579999987663 2322 344322 112334677777766544
No 182
>COG0858 RbfA Ribosome-binding factor A [Translation, ribosomal structure and biogenesis]
Probab=25.05 E-value=1.1e+02 Score=24.45 Aligned_cols=34 Identities=6% Similarity=0.168 Sum_probs=19.4
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeCC--HHHHHHHHHHhc
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYAD--RRAMDDAIREMH 44 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~~--~e~a~~AI~~ln 44 (255)
.|++|+|-.|. +.-.+||++-. .++.+++++.|+
T Consensus 35 ~Vt~V~vS~Dl----~~A~Vyvt~l~~~~~~~~~~~~~L~ 70 (118)
T COG0858 35 TVTDVEVSKDL----SHAKVYVTVLGDEESSKAEILAALN 70 (118)
T ss_pred EEEEEEEcCCC----ceEEEEEEecCCchhhHHHHHHHHH
Confidence 37788887763 34466777633 334444455554
No 183
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=24.34 E-value=1.2e+02 Score=19.71 Aligned_cols=30 Identities=7% Similarity=0.299 Sum_probs=20.2
Q ss_pred ecCCCCCCCcEEEEEeCCHHHHHHHHHHhc
Q 025249 15 LERDSGRPRGFGFITYADRRAMDDAIREMH 44 (255)
Q Consensus 15 ~Dk~Tg~srGfaFVtF~~~e~a~~AI~~ln 44 (255)
.+..|++.+=..---|.+..+|++++.+|.
T Consensus 9 ~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~ 38 (46)
T PF14657_consen 9 YDDETGKRKQKTKRGFKTKKEAEKALAKIE 38 (46)
T ss_pred EECCCCCEEEEEcCCCCcHHHHHHHHHHHH
Confidence 566677765333333899999998876653
No 184
>PRK02302 hypothetical protein; Provisional
Probab=24.32 E-value=1.1e+02 Score=23.52 Aligned_cols=21 Identities=10% Similarity=0.419 Sum_probs=16.2
Q ss_pred EEEEEeCCHHHHHHHHHHhcCC
Q 025249 25 FGFITYADRRAMDDAIREMHGR 46 (255)
Q Consensus 25 faFVtF~~~e~a~~AI~~lnG~ 46 (255)
|+ |.|.+.+++++.+++|...
T Consensus 38 Yv-vlYvn~~~~e~~~~kl~~l 58 (89)
T PRK02302 38 YL-VLYVNKEDVEQKLEELSKL 58 (89)
T ss_pred EE-EEEECHHHHHHHHHHHhcC
Confidence 55 6688889999998888743
No 185
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=23.89 E-value=44 Score=25.42 Aligned_cols=33 Identities=12% Similarity=0.414 Sum_probs=14.0
Q ss_pred EEEEEeCCH----HHHHHHHHHhcCCeeCCeEEEEEe
Q 025249 25 FGFITYADR----RAMDDAIREMHGREFGDRVISVNK 57 (255)
Q Consensus 25 faFVtF~~~----e~a~~AI~~lnG~~i~Gr~I~V~~ 57 (255)
-|||.|+.. +++.++++.+....+.-+.|+|+.
T Consensus 37 ~g~VifDe~kl~~e~lL~~le~~kpEVi~ek~lTveE 73 (88)
T PF11491_consen 37 NGFVIFDESKLSKEELLEMLEEFKPEVIEEKELTVEE 73 (88)
T ss_dssp --EEE--B-S-SHHHH---HHHTTT-SS-------SS
T ss_pred ceEEEECcccCCHHHHHHHHHhcChhheeeccccHHH
Confidence 689999865 788888999998888888887754
No 186
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=23.51 E-value=48 Score=26.99 Aligned_cols=18 Identities=44% Similarity=1.317 Sum_probs=16.1
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 025249 94 DCFKCGRPGHWARDCPSA 111 (255)
Q Consensus 94 ~~~~~g~~Gh~~~~cp~~ 111 (255)
.||+|+..||++++||..
T Consensus 2 ~C~~C~~~GH~~~~c~~~ 19 (148)
T PTZ00368 2 VCYRCGGVGHQSRECPNS 19 (148)
T ss_pred cCCCCCCCCcCcccCcCC
Confidence 589999999999999975
No 187
>PRK12448 dihydroxy-acid dehydratase; Provisional
Probab=22.97 E-value=1.4e+02 Score=30.71 Aligned_cols=38 Identities=18% Similarity=0.207 Sum_probs=28.1
Q ss_pred CCcEEEEEeCCHHHHHHHHHHhcCCeeCCeEEEEEecccCC
Q 025249 22 PRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 62 (255)
Q Consensus 22 srGfaFVtF~~~e~a~~AI~~lnG~~i~Gr~I~V~~A~~k~ 62 (255)
++|=| ++|+++++|.+||.. ++.-.+-.|.|.+.=|+.
T Consensus 447 ~~GpA-~VFdsee~a~~ai~~--g~I~~gdVvVIRyeGPkG 484 (615)
T PRK12448 447 FTGPA-RVFESQDDAVEAILG--GKVKAGDVVVIRYEGPKG 484 (615)
T ss_pred EEEeE-EEECCHHHHHHHHhc--CCCCCCeEEEEeCCCCCC
Confidence 34544 779999999999974 555567777777777765
No 188
>KOG3262 consensus H/ACA small nucleolar RNP component GAR1 [Translation, ribosomal structure and biogenesis]
Probab=22.55 E-value=1.2e+02 Score=26.63 Aligned_cols=13 Identities=8% Similarity=0.181 Sum_probs=6.0
Q ss_pred EEEEeCCHHHHHH
Q 025249 26 GFITYADRRAMDD 38 (255)
Q Consensus 26 aFVtF~~~e~a~~ 38 (255)
|=|.+++++.+-+
T Consensus 81 APIylenk~qIGK 93 (215)
T KOG3262|consen 81 APIYLENKEQIGK 93 (215)
T ss_pred Cceeecchhhhcc
Confidence 3355555544433
No 189
>TIGR00082 rbfA ribosome-binding factor A. Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Essential for efficient processing of 16S rRNA. May interact with the 5'terminal helix region of 16S rRNA. Mutants lacking rbfA have a cold-sensitive phenotype.
Probab=21.67 E-value=1.4e+02 Score=23.48 Aligned_cols=35 Identities=11% Similarity=0.256 Sum_probs=19.4
Q ss_pred ccceEEEEeecCCCCCCCcEEEEEeC-CHHHHHHHHHHhc
Q 025249 6 THNNDLKIMLERDSGRPRGFGFITYA-DRRAMDDAIREMH 44 (255)
Q Consensus 6 G~I~~V~Iv~Dk~Tg~srGfaFVtF~-~~e~a~~AI~~ln 44 (255)
=+|++|.|-.|. +-.-.||++. ++++.+++|++|+
T Consensus 33 vtVt~V~lS~Dl----~~AkVyvs~~~~~~~~~~~l~~L~ 68 (114)
T TIGR00082 33 LTVTKVEVSKDL----QHAKVFVDCYGDEEAIDRVVKALN 68 (114)
T ss_pred EEEeEEEECCCC----CEEEEEEEECCChhhHHHHHHHHH
Confidence 356777776663 2234566665 4444455555555
No 190
>PF02033 RBFA: Ribosome-binding factor A; InterPro: IPR000238 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosome-binding factor A [] (gene rbfA) is a bacterial protein that associates with free 30S ribosomal subunits. It does not associate with 30S subunits that are part of 70S ribosomes or polysomes. It is essential for efficient processing of 16S rRNA. Ribosome-binding factor A is a protein of from 13 to 15 Kd which is found in most bacteria. A putative chloroplastic form seems to exist in plants.; GO: 0006364 rRNA processing; PDB: 2R1C_A 2DYJ_B 2KZF_A 2E7G_A 1JOS_A 1KKG_A 1PA4_A.
Probab=21.44 E-value=1.6e+02 Score=22.38 Aligned_cols=35 Identities=3% Similarity=0.178 Sum_probs=20.9
Q ss_pred cceEEEEeecCCCCCCCcEEEEEeC-CHHHHHHHHHHhcC
Q 025249 7 HNNDLKIMLERDSGRPRGFGFITYA-DRRAMDDAIREMHG 45 (255)
Q Consensus 7 ~I~~V~Iv~Dk~Tg~srGfaFVtF~-~~e~a~~AI~~lnG 45 (255)
+|+.|+|-.|. +....||++. +.++.++++++|+.
T Consensus 30 tIt~V~ls~Dl----~~a~Vy~~~~~~~~~~~~~~~~L~~ 65 (104)
T PF02033_consen 30 TITRVELSPDL----SHAKVYVSILGDEEEQEEVLEALNK 65 (104)
T ss_dssp EEEEEEECTTS----SEEEEEEEESSSHHHHHHHHHHHHH
T ss_pred EEEEEEECCCC----CEEEEEEEEecCchhHHHHHHHHHH
Confidence 56677776652 3334566664 66666666666653
No 191
>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=21.14 E-value=66 Score=27.38 Aligned_cols=36 Identities=17% Similarity=0.222 Sum_probs=26.9
Q ss_pred cEEEEEeCCHHHHHHHHHHhcCCeeCC-----eEEEEEecc
Q 025249 24 GFGFITYADRRAMDDAIREMHGREFGD-----RVISVNKAQ 59 (255)
Q Consensus 24 GfaFVtF~~~e~a~~AI~~lnG~~i~G-----r~I~V~~A~ 59 (255)
--|+|.|.+.+++..-++.++++.|-+ ....|++|-
T Consensus 56 SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg~~~~~~VE~Ap 96 (176)
T PF03467_consen 56 SRAYINFKNPEDLLEFRDRFDGHVFVDSKGNEYPAVVEFAP 96 (176)
T ss_dssp EEEEEEESSCHHHHHHHHHCTTEEEE-TTS-EEEEEEEE-S
T ss_pred eEEEEEeCCHHHHHHHHHhcCCcEEECCCCCCcceeEEEcc
Confidence 468999999999999999999977753 234566664
No 192
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=21.05 E-value=1.9e+02 Score=28.62 Aligned_cols=40 Identities=8% Similarity=0.047 Sum_probs=30.1
Q ss_pred CCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhc
Q 025249 4 CLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMH 44 (255)
Q Consensus 4 kFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~ln 44 (255)
.+|-|+++.|...+... ..-..++.|.+.+++.+|+.+|.
T Consensus 216 tlGIIt~atlkl~p~p~-~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 216 MLGVVTEVTVKLLPKPP-VARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred ccEEEEEEEEEEEcCCc-ceEEEEEECCCHHHHHHHHHHHH
Confidence 57889998776654432 33467889999999999987764
No 193
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=20.93 E-value=1.9e+02 Score=29.15 Aligned_cols=40 Identities=8% Similarity=0.097 Sum_probs=29.1
Q ss_pred CCccceEEEEeecCCCCCCCcEEEEEeCCHHHHHHHHHHhc
Q 025249 4 CLTHNNDLKIMLERDSGRPRGFGFITYADRRAMDDAIREMH 44 (255)
Q Consensus 4 kFG~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e~a~~AI~~ln 44 (255)
.||-|++|+|-..+.. ..+-.+++.|.+.++|.+|+.++.
T Consensus 293 tLGIIT~~tlrl~p~P-~~~~~~~~~f~~~~~a~~av~~i~ 332 (555)
T PLN02805 293 TLGVITEVTLRLQKIP-QHSVVAMCNFPTIKDAADVAIATM 332 (555)
T ss_pred ceEEEEEEEEEeecCC-cceEEEEEEcCCHHHHHHHHHHHH
Confidence 5788999887654332 234478899999999988876654
No 194
>PF11181 YflT: Heat induced stress protein YflT
Probab=20.76 E-value=1e+02 Score=23.49 Aligned_cols=28 Identities=21% Similarity=0.326 Sum_probs=21.3
Q ss_pred EEeCCHHHHHHHHHHhcCCeeCCeEEEE
Q 025249 28 ITYADRRAMDDAIREMHGREFGDRVISV 55 (255)
Q Consensus 28 VtF~~~e~a~~AI~~lnG~~i~Gr~I~V 55 (255)
-+|.+.++|..||++|...=+.-..|.|
T Consensus 4 gv~~~~~E~~~~I~~L~~~Gy~~ddI~V 31 (103)
T PF11181_consen 4 GVYDNEEEALSAIEELKAQGYSEDDIYV 31 (103)
T ss_pred EEECCHHHHHHHHHHHHHcCCCcccEEE
Confidence 3689999999999998765555555655
No 195
>COG1278 CspC Cold shock proteins [Transcription]
Probab=20.61 E-value=35 Score=24.78 Aligned_cols=39 Identities=31% Similarity=0.480 Sum_probs=23.4
Q ss_pred CCcEEEEEeCCH-HHHH---HHHHHhcC-Ce-eCCeEEEEEecccC
Q 025249 22 PRGFGFITYADR-RAMD---DAIREMHG-RE-FGDRVISVNKAQPK 61 (255)
Q Consensus 22 srGfaFVtF~~~-e~a~---~AI~~lnG-~~-i~Gr~I~V~~A~~k 61 (255)
.|||+||+=++- +++- .||+ +++ ++ ..+++|..++.+.+
T Consensus 12 ~KGfGFI~p~~G~~DvFVH~Sai~-~~g~~~L~eGQ~V~f~~~~g~ 56 (67)
T COG1278 12 TKGFGFITPEDGGKDVFVHISAIQ-RAGFRTLREGQKVEFEVEQGR 56 (67)
T ss_pred CCcceEcCCCCCCcCEEEEeeeec-cCCCcccCCCCEEEEEEecCC
Confidence 679999987775 3432 2443 222 23 34788777776654
No 196
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=20.23 E-value=33 Score=24.24 Aligned_cols=22 Identities=23% Similarity=0.306 Sum_probs=14.3
Q ss_pred ccceEEEEeecCCCCCCCcEEEEEeCCHH
Q 025249 6 THNNDLKIMLERDSGRPRGFGFITYADRR 34 (255)
Q Consensus 6 G~I~~V~Iv~Dk~Tg~srGfaFVtF~~~e 34 (255)
|.|+++++ | .+|+||+++++..
T Consensus 6 g~v~~i~~-----t--k~g~~~~~L~D~~ 27 (78)
T cd04489 6 GEISNLKR-----P--SSGHLYFTLKDED 27 (78)
T ss_pred EEEecCEE-----C--CCcEEEEEEEeCC
Confidence 45566555 2 2359999988865
Done!