Query 030488
Match_columns 176
No_of_seqs 227 out of 1898
Neff 9.1
Searched_HMMs 46136
Date Fri Mar 29 14:28:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030488.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030488hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03134 glycine-rich RNA-bind 99.9 3.2E-22 7E-27 142.2 15.4 83 44-126 31-115 (144)
2 TIGR01659 sex-lethal sex-letha 99.9 6.5E-21 1.4E-25 153.0 16.5 116 5-125 156-275 (346)
3 KOG0121 Nuclear cap-binding pr 99.8 2.3E-19 5E-24 121.5 8.1 114 44-162 33-148 (153)
4 KOG0113 U1 small nuclear ribon 99.8 3.4E-18 7.3E-23 130.6 14.9 98 43-142 97-196 (335)
5 KOG0107 Alternative splicing f 99.8 5.1E-18 1.1E-22 120.7 12.1 77 46-126 9-86 (195)
6 TIGR01648 hnRNP-R-Q heterogene 99.8 7.7E-18 1.7E-22 142.2 15.4 73 46-125 232-307 (578)
7 PF00076 RRM_1: RNA recognitio 99.8 5.8E-18 1.3E-22 105.4 9.5 69 50-118 1-70 (70)
8 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 6.5E-18 1.4E-22 136.2 11.5 79 47-125 269-349 (352)
9 TIGR01659 sex-lethal sex-letha 99.8 6E-18 1.3E-22 135.9 11.1 82 42-123 102-185 (346)
10 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 1.2E-17 2.5E-22 134.8 11.1 78 47-124 3-82 (352)
11 KOG0149 Predicted RNA-binding 99.7 5.7E-18 1.2E-22 125.6 7.5 79 45-123 10-89 (247)
12 KOG0105 Alternative splicing f 99.7 1.7E-17 3.7E-22 119.2 9.6 79 45-125 4-83 (241)
13 KOG4207 Predicted splicing fac 99.7 3.7E-17 8.1E-22 119.2 10.7 81 45-125 11-93 (256)
14 TIGR01645 half-pint poly-U bin 99.7 6.1E-17 1.3E-21 137.1 12.1 80 46-125 203-284 (612)
15 PF14259 RRM_6: RNA recognitio 99.7 1.7E-16 3.6E-21 99.2 9.9 69 50-118 1-70 (70)
16 KOG0122 Translation initiation 99.7 7.3E-17 1.6E-21 120.3 9.4 83 43-125 185-269 (270)
17 PLN03120 nucleic acid binding 99.7 1.3E-16 2.8E-21 121.7 10.9 76 47-124 4-79 (260)
18 TIGR01648 hnRNP-R-Q heterogene 99.7 3E-16 6.4E-21 132.6 12.8 79 44-122 55-135 (578)
19 KOG0148 Apoptosis-promoting RN 99.7 1E-15 2.2E-20 115.8 13.5 116 5-125 111-238 (321)
20 KOG0130 RNA-binding protein RB 99.7 1.2E-16 2.6E-21 109.3 7.5 87 41-127 66-154 (170)
21 TIGR01645 half-pint poly-U bin 99.7 1.8E-16 4E-21 134.3 9.9 79 45-123 105-185 (612)
22 TIGR01628 PABP-1234 polyadenyl 99.7 3.5E-16 7.5E-21 133.6 11.2 81 44-124 282-363 (562)
23 TIGR01642 U2AF_lg U2 snRNP aux 99.7 1E-15 2.2E-20 129.1 11.8 79 46-124 294-374 (509)
24 KOG0117 Heterogeneous nuclear 99.6 1.4E-15 2.9E-20 121.9 10.5 77 43-126 255-332 (506)
25 TIGR01622 SF-CC1 splicing fact 99.6 1.4E-15 3E-20 126.8 11.0 78 47-124 186-265 (457)
26 KOG0117 Heterogeneous nuclear 99.6 3E-15 6.6E-20 119.9 12.2 81 44-124 80-163 (506)
27 PLN03121 nucleic acid binding 99.6 2.1E-15 4.6E-20 113.4 10.7 76 46-123 4-79 (243)
28 TIGR01622 SF-CC1 splicing fact 99.6 2.6E-15 5.6E-20 125.2 11.7 81 44-124 86-167 (457)
29 KOG0125 Ataxin 2-binding prote 99.6 2.5E-15 5.4E-20 116.3 9.3 79 45-124 94-173 (376)
30 smart00362 RRM_2 RNA recogniti 99.6 6.3E-15 1.4E-19 91.1 9.4 71 49-120 1-72 (72)
31 PLN03213 repressor of silencin 99.6 4.6E-15 1E-19 120.4 9.8 77 45-124 8-87 (759)
32 KOG0126 Predicted RNA-binding 99.6 1.9E-16 4E-21 113.4 0.7 79 44-122 32-112 (219)
33 TIGR01628 PABP-1234 polyadenyl 99.6 9E-15 2E-19 124.9 11.0 80 44-123 175-259 (562)
34 KOG0144 RNA-binding protein CU 99.6 3.8E-15 8.2E-20 118.9 7.4 121 5-127 83-208 (510)
35 KOG0116 RasGAP SH3 binding pro 99.6 3.6E-14 7.8E-19 115.6 12.8 85 47-131 288-373 (419)
36 KOG4209 Splicing factor RNPS1, 99.6 1.7E-14 3.7E-19 109.6 10.1 134 3-136 54-191 (231)
37 KOG0111 Cyclophilin-type pepti 99.6 2.9E-15 6.2E-20 110.4 5.2 83 44-126 7-91 (298)
38 smart00360 RRM RNA recognition 99.6 3E-14 6.5E-19 87.6 8.6 69 52-120 1-71 (71)
39 cd00590 RRM RRM (RNA recogniti 99.6 7.2E-14 1.6E-18 86.7 10.3 73 49-121 1-74 (74)
40 KOG0145 RNA-binding protein EL 99.5 3.4E-14 7.4E-19 107.2 9.1 84 43-126 37-122 (360)
41 KOG0415 Predicted peptidyl pro 99.5 2.9E-14 6.2E-19 111.6 9.0 83 43-125 235-319 (479)
42 COG0724 RNA-binding proteins ( 99.5 5.1E-14 1.1E-18 108.1 10.2 77 47-123 115-193 (306)
43 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 7.7E-14 1.7E-18 117.2 11.0 76 45-124 273-350 (481)
44 KOG0131 Splicing factor 3b, su 99.5 1.7E-14 3.6E-19 103.5 5.8 79 45-123 7-87 (203)
45 KOG4212 RNA-binding protein hn 99.5 1.8E-13 4E-18 109.7 11.8 81 44-124 41-123 (608)
46 KOG0114 Predicted RNA-binding 99.5 1.6E-13 3.4E-18 90.0 9.2 78 45-124 16-94 (124)
47 KOG0148 Apoptosis-promoting RN 99.5 5E-14 1.1E-18 106.7 7.9 78 46-123 61-140 (321)
48 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 1.1E-13 2.4E-18 116.2 10.4 73 47-124 2-77 (481)
49 KOG0108 mRNA cleavage and poly 99.5 7.6E-14 1.6E-18 114.3 8.2 78 48-125 19-98 (435)
50 KOG0144 RNA-binding protein CU 99.5 1E-13 2.2E-18 110.8 8.1 85 41-125 28-117 (510)
51 KOG0127 Nucleolar protein fibr 99.5 3.1E-13 6.6E-18 110.9 11.0 77 47-123 117-194 (678)
52 KOG0109 RNA-binding protein LA 99.5 8.2E-14 1.8E-18 106.5 6.0 71 48-125 3-74 (346)
53 KOG0127 Nucleolar protein fibr 99.5 3E-13 6.4E-18 111.0 8.9 80 45-124 290-377 (678)
54 KOG0123 Polyadenylate-binding 99.5 4.2E-13 9.2E-18 108.7 9.6 108 5-124 44-152 (369)
55 KOG0124 Polypyrimidine tract-b 99.4 1.7E-13 3.7E-18 107.8 4.2 78 45-122 111-190 (544)
56 KOG0146 RNA-binding protein ET 99.4 2.9E-13 6.2E-18 102.6 5.1 85 41-125 279-365 (371)
57 smart00361 RRM_1 RNA recogniti 99.4 2.6E-12 5.6E-17 80.3 8.3 60 61-120 2-70 (70)
58 KOG0109 RNA-binding protein LA 99.4 1.5E-13 3.2E-18 105.1 2.8 75 44-125 75-150 (346)
59 PF13893 RRM_5: RNA recognitio 99.4 2.7E-12 5.9E-17 76.6 7.7 55 64-122 1-56 (56)
60 TIGR01642 U2AF_lg U2 snRNP aux 99.4 2.2E-12 4.7E-17 108.9 10.0 76 43-123 171-258 (509)
61 KOG0147 Transcriptional coacti 99.3 1.3E-12 2.8E-17 107.3 6.0 76 47-122 278-355 (549)
62 KOG0145 RNA-binding protein EL 99.3 8.6E-12 1.9E-16 94.3 9.5 78 47-124 278-357 (360)
63 KOG0131 Splicing factor 3b, su 99.3 6.7E-12 1.4E-16 90.2 7.6 85 40-124 89-176 (203)
64 KOG4205 RNA-binding protein mu 99.3 7.3E-12 1.6E-16 98.7 8.1 80 46-125 96-176 (311)
65 KOG4208 Nucleolar RNA-binding 99.3 2.1E-11 4.6E-16 89.2 7.9 82 43-124 45-129 (214)
66 KOG0153 Predicted RNA-binding 99.3 2.6E-11 5.5E-16 94.9 8.1 78 42-124 223-302 (377)
67 KOG4205 RNA-binding protein mu 99.2 1.1E-11 2.4E-16 97.7 5.2 80 46-125 5-85 (311)
68 KOG0110 RNA-binding protein (R 99.2 1.4E-11 3.1E-16 103.8 5.9 120 5-125 567-693 (725)
69 KOG4206 Spliceosomal protein s 99.2 5.2E-11 1.1E-15 88.4 8.1 79 46-126 8-91 (221)
70 KOG4661 Hsp27-ERE-TATA-binding 99.2 5.3E-11 1.1E-15 98.6 8.9 79 47-125 405-485 (940)
71 KOG0110 RNA-binding protein (R 99.2 6.3E-11 1.4E-15 100.0 9.1 75 49-123 517-596 (725)
72 KOG0533 RRM motif-containing p 99.2 4.9E-10 1.1E-14 85.4 12.5 82 44-125 80-162 (243)
73 KOG0124 Polypyrimidine tract-b 99.2 8.4E-11 1.8E-15 92.8 8.4 118 8-125 165-290 (544)
74 KOG0132 RNA polymerase II C-te 99.2 5.5E-11 1.2E-15 101.2 7.4 73 47-124 421-494 (894)
75 KOG0146 RNA-binding protein ET 99.1 1.3E-10 2.8E-15 88.4 7.0 81 46-126 18-102 (371)
76 KOG1548 Transcription elongati 99.1 7.9E-10 1.7E-14 86.6 10.5 82 44-125 131-221 (382)
77 KOG0106 Alternative splicing f 99.1 1.4E-10 3.1E-15 86.6 5.6 71 48-125 2-73 (216)
78 KOG0123 Polyadenylate-binding 99.1 6.3E-10 1.4E-14 90.3 8.3 72 48-124 2-74 (369)
79 KOG4212 RNA-binding protein hn 99.0 1.1E-09 2.3E-14 88.4 7.0 75 44-122 533-608 (608)
80 KOG1457 RNA binding protein (c 99.0 9.3E-09 2E-13 76.5 11.2 83 44-126 31-119 (284)
81 KOG0151 Predicted splicing reg 99.0 7.9E-09 1.7E-13 87.6 10.9 82 43-124 170-256 (877)
82 KOG4211 Splicing factor hnRNP- 99.0 3.9E-08 8.4E-13 80.4 14.5 78 45-122 101-179 (510)
83 KOG4454 RNA binding protein (R 98.8 1.5E-09 3.3E-14 80.3 2.0 76 46-122 8-84 (267)
84 KOG0226 RNA-binding proteins [ 98.8 5.6E-09 1.2E-13 78.9 4.8 81 43-123 186-268 (290)
85 KOG4660 Protein Mei2, essentia 98.8 7E-09 1.5E-13 85.8 4.9 72 43-118 71-143 (549)
86 KOG1995 Conserved Zn-finger pr 98.8 5E-08 1.1E-12 77.1 9.1 83 43-125 62-154 (351)
87 KOG4211 Splicing factor hnRNP- 98.8 3.7E-08 8.1E-13 80.5 8.0 76 45-122 8-83 (510)
88 PF04059 RRM_2: RNA recognitio 98.7 2.2E-07 4.7E-12 61.3 9.4 76 48-123 2-85 (97)
89 KOG0147 Transcriptional coacti 98.5 6E-08 1.3E-12 80.2 2.6 83 41-123 173-256 (549)
90 KOG0120 Splicing factor U2AF, 98.5 1.3E-07 2.8E-12 78.7 3.8 80 45-124 287-368 (500)
91 KOG1190 Polypyrimidine tract-b 98.5 8.4E-07 1.8E-11 71.3 8.2 74 47-124 297-372 (492)
92 KOG4849 mRNA cleavage factor I 98.4 1.2E-06 2.5E-11 69.3 7.7 75 46-120 79-157 (498)
93 KOG0106 Alternative splicing f 98.4 1.6E-07 3.4E-12 70.4 2.6 72 44-122 96-168 (216)
94 KOG4210 Nuclear localization s 98.4 4.7E-07 1E-11 71.2 4.4 81 45-125 182-264 (285)
95 PF08777 RRM_3: RNA binding mo 98.3 2.1E-06 4.5E-11 57.7 5.4 69 48-121 2-76 (105)
96 KOG1457 RNA binding protein (c 98.2 1.4E-06 3.1E-11 65.0 4.3 63 47-112 210-273 (284)
97 KOG4206 Spliceosomal protein s 98.2 7E-06 1.5E-10 61.3 7.9 76 44-123 143-220 (221)
98 KOG1456 Heterogeneous nuclear 98.2 3E-05 6.5E-10 62.0 11.8 76 46-125 119-199 (494)
99 COG5175 MOT2 Transcriptional r 98.2 1.1E-05 2.4E-10 63.7 8.4 79 44-122 111-200 (480)
100 KOG4307 RNA binding protein RB 98.1 9.2E-06 2E-10 69.4 7.7 74 48-121 868-943 (944)
101 PF11608 Limkain-b1: Limkain b 98.1 1.5E-05 3.2E-10 50.8 6.5 67 48-123 3-75 (90)
102 KOG1365 RNA-binding protein Fu 98.1 2.1E-05 4.5E-10 63.1 8.2 79 45-123 278-360 (508)
103 KOG1456 Heterogeneous nuclear 98.0 4.1E-05 8.9E-10 61.3 9.2 77 44-124 284-362 (494)
104 KOG1190 Polypyrimidine tract-b 97.9 3.7E-05 8E-10 62.1 6.9 77 45-124 412-490 (492)
105 KOG0105 Alternative splicing f 97.9 0.0002 4.2E-09 52.3 9.9 62 46-113 114-176 (241)
106 PF14605 Nup35_RRM_2: Nup53/35 97.9 4.1E-05 8.9E-10 44.9 5.0 52 48-105 2-53 (53)
107 KOG1855 Predicted RNA-binding 97.8 4.2E-05 9.1E-10 62.1 6.0 68 41-108 225-306 (484)
108 KOG2314 Translation initiation 97.8 7.2E-05 1.6E-09 62.7 7.3 77 45-121 56-140 (698)
109 KOG0129 Predicted RNA-binding 97.8 8.9E-05 1.9E-09 61.5 7.2 63 44-107 256-326 (520)
110 PF05172 Nup35_RRM: Nup53/35/4 97.7 0.0002 4.4E-09 47.5 6.7 75 47-122 6-89 (100)
111 KOG1365 RNA-binding protein Fu 97.6 6.4E-05 1.4E-09 60.4 3.7 76 46-121 160-239 (508)
112 KOG3152 TBP-binding protein, a 97.5 0.0001 2.2E-09 56.2 4.0 71 46-116 73-157 (278)
113 PF08952 DUF1866: Domain of un 97.5 0.00042 9.1E-09 48.9 6.6 57 63-126 52-108 (146)
114 KOG0120 Splicing factor U2AF, 97.5 0.00033 7.1E-09 58.8 7.1 61 63-123 425-490 (500)
115 KOG0129 Predicted RNA-binding 97.4 0.00074 1.6E-08 56.2 8.0 65 42-106 365-431 (520)
116 KOG2202 U2 snRNP splicing fact 97.4 6.8E-05 1.5E-09 57.1 1.7 62 62-123 83-146 (260)
117 KOG4676 Splicing factor, argin 97.3 0.00036 7.7E-09 56.3 4.9 76 48-123 8-87 (479)
118 KOG0128 RNA-binding protein SA 97.3 0.00017 3.7E-09 63.0 3.1 78 47-124 736-814 (881)
119 KOG1548 Transcription elongati 97.3 0.0012 2.7E-08 52.4 7.5 77 44-123 262-350 (382)
120 PF10309 DUF2414: Protein of u 97.3 0.0024 5.1E-08 38.5 6.9 52 47-105 5-59 (62)
121 KOG0112 Large RNA-binding prot 97.2 0.00043 9.3E-09 61.0 4.5 77 43-124 451-530 (975)
122 KOG2416 Acinus (induces apopto 96.8 0.0014 3.1E-08 55.5 4.0 75 44-123 441-520 (718)
123 KOG0115 RNA-binding protein p5 96.7 0.0023 5.1E-08 48.9 4.0 75 48-122 32-111 (275)
124 KOG1996 mRNA splicing factor [ 96.7 0.0077 1.7E-07 47.1 6.8 61 62-122 301-364 (378)
125 KOG4307 RNA binding protein RB 96.7 0.0011 2.4E-08 57.1 2.5 77 45-121 432-510 (944)
126 KOG2068 MOT2 transcription fac 96.7 0.00082 1.8E-08 53.2 1.5 79 45-123 75-161 (327)
127 KOG0112 Large RNA-binding prot 96.6 0.00045 9.8E-09 60.8 -0.4 81 42-122 367-448 (975)
128 PF08675 RNA_bind: RNA binding 96.4 0.014 3E-07 37.3 5.6 54 47-108 9-63 (87)
129 KOG2193 IGF-II mRNA-binding pr 96.4 0.0041 9E-08 50.9 3.7 71 48-123 2-74 (584)
130 KOG0128 RNA-binding protein SA 96.3 0.00017 3.7E-09 63.1 -4.5 67 48-114 668-735 (881)
131 PRK11634 ATP-dependent RNA hel 96.2 0.078 1.7E-06 46.5 11.0 67 49-124 488-562 (629)
132 PF03467 Smg4_UPF3: Smg-4/UPF3 96.2 0.0097 2.1E-07 43.7 4.5 78 45-122 5-95 (176)
133 PF15023 DUF4523: Protein of u 95.6 0.084 1.8E-06 37.2 7.0 73 44-123 83-160 (166)
134 PF07576 BRAP2: BRCA1-associat 95.4 0.35 7.6E-06 32.7 9.4 67 47-114 13-81 (110)
135 KOG2135 Proteins containing th 95.3 0.01 2.2E-07 49.2 1.9 73 47-124 372-445 (526)
136 PF11767 SET_assoc: Histone ly 95.2 0.12 2.6E-06 31.6 6.1 54 58-119 11-65 (66)
137 KOG2591 c-Mpl binding protein, 95.1 0.058 1.2E-06 45.8 5.7 72 45-122 173-249 (684)
138 PF04847 Calcipressin: Calcipr 95.0 0.077 1.7E-06 39.2 5.7 60 60-124 8-70 (184)
139 KOG2253 U1 snRNP complex, subu 94.9 0.03 6.4E-07 48.3 3.7 72 42-121 35-107 (668)
140 PF03880 DbpA: DbpA RNA bindin 94.7 0.19 4.1E-06 31.3 6.1 58 57-122 11-74 (74)
141 KOG4285 Mitotic phosphoprotein 94.2 0.12 2.5E-06 40.8 5.1 66 50-121 200-266 (350)
142 KOG4574 RNA-binding protein (c 93.3 0.06 1.3E-06 47.8 2.4 71 50-125 301-374 (1007)
143 KOG4676 Splicing factor, argin 93.1 0.0075 1.6E-07 48.9 -3.0 71 47-120 151-221 (479)
144 KOG4210 Nuclear localization s 91.8 0.08 1.7E-06 41.9 1.3 77 46-122 87-165 (285)
145 KOG4410 5-formyltetrahydrofola 91.6 0.95 2.1E-05 35.6 6.8 47 47-98 330-377 (396)
146 KOG2318 Uncharacterized conser 90.6 1.5 3.1E-05 37.8 7.4 79 44-122 171-303 (650)
147 KOG0804 Cytoplasmic Zn-finger 90.3 1.7 3.6E-05 36.4 7.4 67 47-114 74-142 (493)
148 KOG4660 Protein Mei2, essentia 90.0 0.53 1.1E-05 40.1 4.4 76 48-123 389-471 (549)
149 KOG4483 Uncharacterized conser 87.1 6.5 0.00014 32.6 8.6 62 44-111 388-450 (528)
150 KOG4454 RNA binding protein (R 83.8 0.14 3E-06 38.7 -2.0 60 46-105 79-142 (267)
151 KOG4019 Calcineurin-mediated s 83.8 1.1 2.3E-05 33.0 2.5 74 48-126 11-91 (193)
152 KOG2193 IGF-II mRNA-binding pr 83.6 0.084 1.8E-06 43.5 -3.4 74 46-122 79-154 (584)
153 PF07530 PRE_C2HC: Associated 81.5 3.4 7.3E-05 25.3 3.8 61 62-124 2-64 (68)
154 PF10567 Nab6_mRNP_bdg: RNA-re 79.8 4.2 9E-05 32.2 4.7 80 43-122 11-105 (309)
155 PF15513 DUF4651: Domain of un 77.7 8 0.00017 23.2 4.5 20 62-81 9-28 (62)
156 PF03468 XS: XS domain; Inter 77.1 3.1 6.6E-05 28.4 3.0 48 59-108 29-77 (116)
157 smart00596 PRE_C2HC PRE_C2HC d 75.4 6.4 0.00014 24.2 3.7 60 62-123 2-63 (69)
158 KOG4213 RNA-binding protein La 67.2 8.5 0.00018 28.4 3.4 62 44-109 108-171 (205)
159 PF07292 NID: Nmi/IFP 35 domai 65.8 8.5 0.00019 24.9 2.9 32 91-122 1-34 (88)
160 KOG2891 Surface glycoprotein [ 64.7 8.7 0.00019 30.3 3.3 36 46-81 148-195 (445)
161 COG0724 RNA-binding proteins ( 63.6 14 0.00029 27.6 4.3 57 44-100 222-279 (306)
162 PF07292 NID: Nmi/IFP 35 domai 61.2 21 0.00046 23.0 4.1 26 43-68 48-73 (88)
163 KOG4365 Uncharacterized conser 60.3 1.9 4.2E-05 35.9 -1.0 75 49-124 5-81 (572)
164 KOG2295 C2H2 Zn-finger protein 59.8 1.1 2.4E-05 38.3 -2.5 72 46-117 230-303 (648)
165 KOG4008 rRNA processing protei 59.4 9.1 0.0002 29.4 2.5 33 44-76 37-69 (261)
166 KOG0156 Cytochrome P450 CYP2 s 57.5 24 0.00053 30.2 5.1 59 51-117 36-97 (489)
167 COG5193 LHP1 La protein, small 44.7 9.7 0.00021 31.5 0.7 60 46-105 173-243 (438)
168 PRK10590 ATP-dependent RNA hel 43.9 1.3E+02 0.0028 25.3 7.4 6 88-93 342-347 (456)
169 PF09707 Cas_Cas2CT1978: CRISP 43.5 61 0.0013 20.8 4.1 49 47-97 25-73 (86)
170 PF14077 WD40_alt: Alternative 43.1 29 0.00063 19.4 2.2 22 1-22 16-37 (48)
171 PF14893 PNMA: PNMA 43.1 26 0.00057 28.4 2.9 51 47-97 18-71 (331)
172 PF11411 DNA_ligase_IV: DNA li 42.5 20 0.00043 19.0 1.5 16 57-72 19-34 (36)
173 PHA01632 hypothetical protein 41.6 32 0.00069 20.2 2.3 21 50-70 19-39 (64)
174 COG0030 KsgA Dimethyladenosine 38.6 56 0.0012 25.6 4.0 33 47-79 95-127 (259)
175 KOG1295 Nonsense-mediated deca 38.2 39 0.00085 27.9 3.2 66 47-112 7-77 (376)
176 PF14026 DUF4242: Protein of u 37.2 1E+02 0.0022 19.1 6.1 62 50-111 3-70 (77)
177 PRK11558 putative ssRNA endonu 37.1 67 0.0015 21.2 3.6 50 47-98 27-76 (97)
178 PF02714 DUF221: Domain of unk 36.3 54 0.0012 26.0 3.8 32 91-124 1-33 (325)
179 PRK11230 glycolate oxidase sub 34.8 2.1E+02 0.0046 24.6 7.3 61 48-108 190-255 (499)
180 PF00398 RrnaAD: Ribosomal RNA 33.2 42 0.00091 26.0 2.6 24 46-69 96-119 (262)
181 PF15407 Spo7_2_N: Sporulation 32.3 16 0.00035 22.3 0.1 26 44-69 24-49 (67)
182 PF10281 Ish1: Putative stress 30.7 52 0.0011 17.3 2.0 17 58-74 3-19 (38)
183 TIGR03636 L23_arch archaeal ri 30.3 1.4E+02 0.0031 18.6 4.5 55 49-105 15-71 (77)
184 PF14111 DUF4283: Domain of un 28.7 27 0.00059 24.2 0.9 71 49-123 17-90 (153)
185 PF09702 Cas_Csa5: CRISPR-asso 27.9 81 0.0018 21.0 2.8 23 44-69 61-83 (105)
186 PF03439 Spt5-NGN: Early trans 27.7 1.3E+02 0.0027 19.0 3.7 35 73-111 33-68 (84)
187 PF00837 T4_deiodinase: Iodoth 27.3 84 0.0018 24.3 3.3 27 45-71 209-236 (237)
188 PF11532 HnRNP_M: Heterogeneou 26.0 26 0.00055 17.6 0.2 8 168-175 17-24 (30)
189 PF15063 TC1: Thyroid cancer p 25.9 48 0.001 20.8 1.4 28 47-74 25-52 (79)
190 PRK00274 ksgA 16S ribosomal RN 25.7 97 0.0021 24.1 3.5 23 48-70 106-128 (272)
191 cd00027 BRCT Breast Cancer Sup 25.7 1.3E+02 0.0028 16.8 3.4 27 48-74 2-28 (72)
192 TIGR00755 ksgA dimethyladenosi 25.0 95 0.0021 23.8 3.3 24 49-72 96-119 (253)
193 PRK14548 50S ribosomal protein 24.5 2E+02 0.0043 18.4 4.9 54 50-105 23-78 (84)
194 KOG1232 Proteins containing th 24.3 1.1E+02 0.0025 25.6 3.6 51 55-105 232-286 (511)
195 TIGR01873 cas_CT1978 CRISPR-as 24.1 65 0.0014 20.8 1.9 49 47-97 25-74 (87)
196 COG5638 Uncharacterized conser 24.1 99 0.0021 26.0 3.3 38 45-82 144-186 (622)
197 PF05189 RTC_insert: RNA 3'-te 23.4 1.7E+02 0.0036 19.0 3.9 47 49-95 12-64 (103)
198 PTZ00338 dimethyladenosine tra 22.2 1.1E+02 0.0023 24.4 3.2 22 49-70 103-124 (294)
199 TIGR00387 glcD glycolate oxida 22.0 3.8E+02 0.0083 22.2 6.6 50 58-107 143-197 (413)
200 smart00650 rADc Ribosomal RNA 21.3 1.5E+02 0.0033 20.9 3.6 23 48-70 78-100 (169)
201 PTZ00481 Membrane attack compl 21.3 99 0.0021 26.3 2.8 63 52-114 210-283 (524)
202 PLN02655 ent-kaurene oxidase 21.1 2.3E+02 0.0049 23.7 5.1 54 51-112 9-65 (466)
203 COG5584 Predicted small secret 21.0 2E+02 0.0044 18.9 3.7 30 54-83 29-58 (103)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.90 E-value=3.2e-22 Score=142.17 Aligned_cols=83 Identities=22% Similarity=0.505 Sum_probs=77.4
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
....++|||+|||+++|+++|+++|++||.|.+|.|+.++ +++++|||||+|.+.++|++|| .||++.|+|+.|+|++
T Consensus 31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~ 110 (144)
T PLN03134 31 RLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNP 110 (144)
T ss_pred cCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence 4457899999999999999999999999999999999998 7999999999999999999999 6999999999999999
Q ss_pred ccCCC
Q 030488 122 KRTNV 126 (176)
Q Consensus 122 a~~~~ 126 (176)
+....
T Consensus 111 a~~~~ 115 (144)
T PLN03134 111 ANDRP 115 (144)
T ss_pred CCcCC
Confidence 97543
No 2
>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=99.87 E-value=6.5e-21 Score=152.98 Aligned_cols=116 Identities=22% Similarity=0.367 Sum_probs=87.8
Q ss_pred HHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCcccccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-
Q 030488 5 LKEMEEEATALRQMHAKVGNEMASKQDPAAGGSSLANREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK- 83 (176)
Q Consensus 5 ~~e~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~- 83 (176)
|.+.+++..|+++++............. ...........+|||+|||+++|+++|+++|++||.|+.|.|+.++
T Consensus 156 F~~~e~A~~Ai~~LnG~~l~gr~i~V~~-----a~p~~~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~ 230 (346)
T TIGR01659 156 FGSEADSQRAIKNLNGITVRNKRLKVSY-----ARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKL 230 (346)
T ss_pred EccHHHHHHHHHHcCCCccCCceeeeec-----ccccccccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCC
Confidence 4555666666666654332111111110 0111123346789999999999999999999999999999999988
Q ss_pred CCCceeEEEEEecCHHHHHHHH-HhCCCeeCC--eeeEEEeccCC
Q 030488 84 FGQPKGYAYVEFLQSEAVQEAL-HLNESELHG--RQLKVTVKRTN 125 (176)
Q Consensus 84 ~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g--~~i~v~~a~~~ 125 (176)
++++++||||+|.+.++|++|| .||++.+.+ +.|+|.++...
T Consensus 231 tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~ 275 (346)
T TIGR01659 231 TGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEH 275 (346)
T ss_pred CCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCcc
Confidence 8999999999999999999999 799999876 68999988754
No 3
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.80 E-value=2.3e-19 Score=121.46 Aligned_cols=114 Identities=25% Similarity=0.463 Sum_probs=93.4
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
...+++||||||++.++|+.|.++|+++|+|..|.|-.|+ +...+|||||+|.+.++|+.|+ -++++.++.+.|.|.+
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~ 112 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDW 112 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeec
Confidence 4568999999999999999999999999999999999999 6788999999999999999999 5999999999999999
Q ss_pred ccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 030488 122 KRTNVPGMKQHRPRRPNPFMVYQSRGAIIPPFLYSPYGYGK 162 (176)
Q Consensus 122 a~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~g~g~ 162 (176)
...-..+++..|+.. |++-+.-++..+|...+||+.
T Consensus 113 D~GF~eGRQyGRG~s-----GGqVrde~r~d~D~~rggy~k 148 (153)
T KOG0121|consen 113 DAGFVEGRQYGRGKS-----GGQVRDEYRTDYDPGRGGYGK 148 (153)
T ss_pred cccchhhhhhcCCCC-----CCeechhhhhhcCcccCccch
Confidence 866555555555443 223344555566666666653
No 4
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.80 E-value=3.4e-18 Score=130.56 Aligned_cols=98 Identities=24% Similarity=0.502 Sum_probs=88.1
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
...+-++|||+.|+++++|.+|+..|+.||+|+.|.|+.|. ||+++|||||+|+++.++.+|. ..++..|+|+.|.|.
T Consensus 97 ~gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VD 176 (335)
T KOG0113|consen 97 IGDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVD 176 (335)
T ss_pred cCCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEE
Confidence 34567999999999999999999999999999999999998 9999999999999999999999 699999999999999
Q ss_pred eccCCCCCCCCCCCCCCCCCCC
Q 030488 121 VKRTNVPGMKQHRPRRPNPFMV 142 (176)
Q Consensus 121 ~a~~~~~~~~~~~~~~~~~~~g 142 (176)
+-+... .+.|.+++.+++-|
T Consensus 177 vERgRT--vkgW~PRRLGGGLG 196 (335)
T KOG0113|consen 177 VERGRT--VKGWLPRRLGGGLG 196 (335)
T ss_pred eccccc--ccccccccccCCcC
Confidence 987644 46888888765544
No 5
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.78 E-value=5.1e-18 Score=120.69 Aligned_cols=77 Identities=23% Similarity=0.503 Sum_probs=71.7
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
-.++||||||+..+++.||+..|..||+|..|.|-.++ .|||||+|++..+|+.|+ .|++..|+|..|+|+++..
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G 84 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTG 84 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC----CCceEEeccCcccHHHHHhhcCCccccCceEEEEeecC
Confidence 46899999999999999999999999999999988765 899999999999999999 7999999999999999976
Q ss_pred CC
Q 030488 125 NV 126 (176)
Q Consensus 125 ~~ 126 (176)
..
T Consensus 85 ~~ 86 (195)
T KOG0107|consen 85 RP 86 (195)
T ss_pred Cc
Confidence 44
No 6
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.78 E-value=7.7e-18 Score=142.18 Aligned_cols=73 Identities=30% Similarity=0.514 Sum_probs=68.1
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhC--CCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSC--GTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~--G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
..++|||+|||+++|+++|+++|++| |.|++|.++ ++||||+|.+.++|++|| .||+.+|+|+.|+|.++
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~-------rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~A 304 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI-------RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLA 304 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee-------cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence 45789999999999999999999999 999999886 569999999999999999 79999999999999999
Q ss_pred cCC
Q 030488 123 RTN 125 (176)
Q Consensus 123 ~~~ 125 (176)
++.
T Consensus 305 kp~ 307 (578)
T TIGR01648 305 KPV 307 (578)
T ss_pred cCC
Confidence 764
No 7
>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=99.76 E-value=5.8e-18 Score=105.39 Aligned_cols=69 Identities=33% Similarity=0.688 Sum_probs=66.1
Q ss_pred EEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeE
Q 030488 50 VFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLK 118 (176)
Q Consensus 50 i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~ 118 (176)
|||+|||+++|+++|+++|++||.|..+.+..+.++..+++|||+|.+.++|+.|+ .+++..+.|+.|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 79999999999999999999999999999998878899999999999999999999 6999999999885
No 8
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.76 E-value=6.5e-18 Score=136.22 Aligned_cols=79 Identities=29% Similarity=0.375 Sum_probs=74.8
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
..+|||+|||+++++++|+++|++||.|.+|+|+.|. ++.++|||||+|.+.++|.+|| .||+..|+|+.|+|.++..
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~ 348 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTN 348 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccC
Confidence 3479999999999999999999999999999999998 8999999999999999999999 7999999999999999865
Q ss_pred C
Q 030488 125 N 125 (176)
Q Consensus 125 ~ 125 (176)
.
T Consensus 349 ~ 349 (352)
T TIGR01661 349 K 349 (352)
T ss_pred C
Confidence 3
No 9
>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=99.76 E-value=6e-18 Score=135.88 Aligned_cols=82 Identities=27% Similarity=0.412 Sum_probs=76.6
Q ss_pred ccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEE
Q 030488 42 REEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKV 119 (176)
Q Consensus 42 ~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v 119 (176)
......++|||+|||+++|+++|+++|+.||.|++|+|+.|. +++++|||||+|.++++|++|| .|++..|.++.|+|
T Consensus 102 ~~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V 181 (346)
T TIGR01659 102 DTNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKV 181 (346)
T ss_pred CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeee
Confidence 345568999999999999999999999999999999999997 7999999999999999999999 79999999999999
Q ss_pred Eecc
Q 030488 120 TVKR 123 (176)
Q Consensus 120 ~~a~ 123 (176)
.+++
T Consensus 182 ~~a~ 185 (346)
T TIGR01659 182 SYAR 185 (346)
T ss_pred eccc
Confidence 8764
No 10
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.75 E-value=1.2e-17 Score=134.78 Aligned_cols=78 Identities=28% Similarity=0.522 Sum_probs=74.5
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
..+|||+|||..+|+++|+++|++||+|.+|+|++++ +|+++|||||+|.+.++|++|| .||+..|.|+.|+|+++++
T Consensus 3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~ 82 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARP 82 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecc
Confidence 5789999999999999999999999999999999998 7999999999999999999999 7999999999999998864
No 11
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.74 E-value=5.7e-18 Score=125.62 Aligned_cols=79 Identities=25% Similarity=0.481 Sum_probs=73.9
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEecc
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKR 123 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~ 123 (176)
..-++||||+|+|.++.++|+++|++||+|++..|+.|+ +++++||+||+|.+.++|.+|++-.+-.|+|++..|.+|.
T Consensus 10 T~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~ 89 (247)
T KOG0149|consen 10 TTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLAS 89 (247)
T ss_pred ceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhh
Confidence 345789999999999999999999999999999999999 8999999999999999999999777789999999999874
No 12
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.74 E-value=1.7e-17 Score=119.17 Aligned_cols=79 Identities=23% Similarity=0.479 Sum_probs=70.3
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEecc
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKR 123 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~ 123 (176)
...++|||+|||.++.+.+|+++|.+||.|..|.|... .....||||+|++..+|+.|| .-++..++|+.|+|++++
T Consensus 4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r--~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfpr 81 (241)
T KOG0105|consen 4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNR--PGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPR 81 (241)
T ss_pred cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccC--CCCCCeeEEEecCccchhhhhhcccccccCcceEEEEecc
Confidence 35689999999999999999999999999999988532 223679999999999999999 699999999999999997
Q ss_pred CC
Q 030488 124 TN 125 (176)
Q Consensus 124 ~~ 125 (176)
.-
T Consensus 82 gg 83 (241)
T KOG0105|consen 82 GG 83 (241)
T ss_pred CC
Confidence 53
No 13
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.73 E-value=3.7e-17 Score=119.20 Aligned_cols=81 Identities=30% Similarity=0.569 Sum_probs=76.5
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
.....|-|-||.+-|+.++|..+|++||.|-+|.|++|+ |..++|||||-|.+..+|+.|+ +|++.+|+|+.|.|.+|
T Consensus 11 ~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~a 90 (256)
T KOG4207|consen 11 EGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMA 90 (256)
T ss_pred ccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhh
Confidence 446789999999999999999999999999999999999 8999999999999999999999 79999999999999999
Q ss_pred cCC
Q 030488 123 RTN 125 (176)
Q Consensus 123 ~~~ 125 (176)
+-.
T Consensus 91 ryg 93 (256)
T KOG4207|consen 91 RYG 93 (256)
T ss_pred hcC
Confidence 743
No 14
>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=99.72 E-value=6.1e-17 Score=137.13 Aligned_cols=80 Identities=20% Similarity=0.361 Sum_probs=75.5
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEecc
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKR 123 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~ 123 (176)
..++|||+|||+++++++|+++|+.||.|.+|+|.+++ +++++|||||+|.+.++|.+|| .||+..|+|+.|+|.++.
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi 282 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 282 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecC
Confidence 45799999999999999999999999999999999998 6889999999999999999999 799999999999999987
Q ss_pred CC
Q 030488 124 TN 125 (176)
Q Consensus 124 ~~ 125 (176)
..
T Consensus 283 ~p 284 (612)
T TIGR01645 283 TP 284 (612)
T ss_pred CC
Confidence 53
No 15
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.71 E-value=1.7e-16 Score=99.18 Aligned_cols=69 Identities=38% Similarity=0.673 Sum_probs=63.2
Q ss_pred EEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeE
Q 030488 50 VFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLK 118 (176)
Q Consensus 50 i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~ 118 (176)
|||+|||+++++++|.++|+.||.|..+.+..++.+.++++|||+|.+.++|..|+ .+++..++|+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 79999999999999999999999999999999888899999999999999999999 5777999999875
No 16
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.70 E-value=7.3e-17 Score=120.29 Aligned_cols=83 Identities=27% Similarity=0.437 Sum_probs=78.0
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
.-.+..+|-|.||+.++++++|+++|.+||.|.+|.|.+|+ ||.++|||||.|.+.++|++|| .||++-++...|+|+
T Consensus 185 ~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvE 264 (270)
T KOG0122|consen 185 ERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVE 264 (270)
T ss_pred cCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEE
Confidence 33467889999999999999999999999999999999999 8999999999999999999999 799999999999999
Q ss_pred eccCC
Q 030488 121 VKRTN 125 (176)
Q Consensus 121 ~a~~~ 125 (176)
++++.
T Consensus 265 wskP~ 269 (270)
T KOG0122|consen 265 WSKPS 269 (270)
T ss_pred ecCCC
Confidence 99863
No 17
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.70 E-value=1.3e-16 Score=121.66 Aligned_cols=76 Identities=22% Similarity=0.393 Sum_probs=71.1
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEeccC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~~ 124 (176)
.++|||+|||+.+|+++|+++|+.||.|.+|.|+.++. .++||||+|.+.++|+.||.|++..|.|+.|.|..+..
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~--~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~~ 79 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE--RSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAED 79 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC--CCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEeccC
Confidence 57999999999999999999999999999999998763 46899999999999999999999999999999999864
No 18
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.69 E-value=3e-16 Score=132.64 Aligned_cols=79 Identities=32% Similarity=0.509 Sum_probs=71.3
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeC-CeeeEEEe
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELH-GRQLKVTV 121 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~-g~~i~v~~ 121 (176)
....++|||+|||+++++++|+++|++||.|.+|+|++|.+++++|||||+|.+.++|++|| .||+..|. ++.|.|..
T Consensus 55 p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~ 134 (578)
T TIGR01648 55 PGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCI 134 (578)
T ss_pred CCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccc
Confidence 34568999999999999999999999999999999999988999999999999999999999 69999885 67666654
Q ss_pred c
Q 030488 122 K 122 (176)
Q Consensus 122 a 122 (176)
+
T Consensus 135 S 135 (578)
T TIGR01648 135 S 135 (578)
T ss_pred c
Confidence 4
No 19
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.69 E-value=1e-15 Score=115.78 Aligned_cols=116 Identities=26% Similarity=0.484 Sum_probs=90.8
Q ss_pred HHHHHHHHHHHHHHHHhhccc---cccCCC--CCC-CCC--C---cccccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCC
Q 030488 5 LKEMEEEATALRQMHAKVGNE---MASKQD--PAA-GGS--S---LANREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGT 73 (176)
Q Consensus 5 ~~e~e~~~~~~~~~~~~~~~~---~~~~~~--~~~-~~~--~---~~~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~ 73 (176)
|-..++++.|+.+|..+.... ..+|.. |.. ... . .-.+...++++||||||+..+|+++|++.|+.||.
T Consensus 111 f~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~ 190 (321)
T KOG0148|consen 111 FPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGP 190 (321)
T ss_pred ccchHHHHHHHHHhCCeeeccceeeccccccCccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCc
Confidence 345678889999998864422 112221 110 000 0 01234566899999999999999999999999999
Q ss_pred eeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccCC
Q 030488 74 VNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRTN 125 (176)
Q Consensus 74 i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~~ 125 (176)
|.+|++.++ +||+||.|++.|+|..|| .+|+.+|.|+.++|.+-+..
T Consensus 191 I~EVRvFk~-----qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~ 238 (321)
T KOG0148|consen 191 IQEVRVFKD-----QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEG 238 (321)
T ss_pred ceEEEEecc-----cceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccC
Confidence 999999988 899999999999999999 89999999999999998764
No 20
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.68 E-value=1.2e-16 Score=109.35 Aligned_cols=87 Identities=29% Similarity=0.474 Sum_probs=80.0
Q ss_pred cccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeE
Q 030488 41 NREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLK 118 (176)
Q Consensus 41 ~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~ 118 (176)
++.......|||.++...+|+++|.+.|..||+|+++.|..|+ ||..+|||+|+|++.++|++|+ ++|+..|-|+.|.
T Consensus 66 PqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~ 145 (170)
T KOG0130|consen 66 PQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVS 145 (170)
T ss_pred CccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCcee
Confidence 3445667889999999999999999999999999999999998 9999999999999999999999 7999999999999
Q ss_pred EEeccCCCC
Q 030488 119 VTVKRTNVP 127 (176)
Q Consensus 119 v~~a~~~~~ 127 (176)
|.++....|
T Consensus 146 VDw~Fv~gp 154 (170)
T KOG0130|consen 146 VDWCFVKGP 154 (170)
T ss_pred EEEEEecCC
Confidence 999965443
No 21
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.68 E-value=1.8e-16 Score=134.25 Aligned_cols=79 Identities=29% Similarity=0.524 Sum_probs=74.3
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
...++|||+|||+++++++|+++|.+||.|.+|.|++|+ +++++|||||+|.+.++|+.|| .||+..|+|+.|+|...
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp 184 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 184 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence 356899999999999999999999999999999999997 8999999999999999999999 79999999999999865
Q ss_pred c
Q 030488 123 R 123 (176)
Q Consensus 123 ~ 123 (176)
.
T Consensus 185 ~ 185 (612)
T TIGR01645 185 S 185 (612)
T ss_pred c
Confidence 3
No 22
>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=99.67 E-value=3.5e-16 Score=133.56 Aligned_cols=81 Identities=23% Similarity=0.510 Sum_probs=76.3
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
.....+|||+||+.++|+++|+++|++||.|.+|+++.+.++.++|||||+|.+.++|.+|+ +||+..|+|+.|.|.++
T Consensus 282 ~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a 361 (562)
T TIGR01628 282 KAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALA 361 (562)
T ss_pred ccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEec
Confidence 34567899999999999999999999999999999999988999999999999999999999 79999999999999998
Q ss_pred cC
Q 030488 123 RT 124 (176)
Q Consensus 123 ~~ 124 (176)
..
T Consensus 362 ~~ 363 (562)
T TIGR01628 362 QR 363 (562)
T ss_pred cC
Confidence 64
No 23
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.66 E-value=1e-15 Score=129.09 Aligned_cols=79 Identities=20% Similarity=0.408 Sum_probs=74.7
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEecc
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKR 123 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~ 123 (176)
..++|||+|||+.+|+++|+++|+.||.|..+.|+.+. +|.++|||||+|.+.++|+.|| .|++..|.|+.|.|.++.
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~ 373 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRAC 373 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECc
Confidence 45799999999999999999999999999999999987 7999999999999999999999 799999999999999986
Q ss_pred C
Q 030488 124 T 124 (176)
Q Consensus 124 ~ 124 (176)
.
T Consensus 374 ~ 374 (509)
T TIGR01642 374 V 374 (509)
T ss_pred c
Confidence 4
No 24
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.64 E-value=1.4e-15 Score=121.87 Aligned_cols=77 Identities=30% Similarity=0.457 Sum_probs=70.5
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
.....+.|||.||+.+||++.|+++|++||.|++|+.++| ||||+|.+.++|.+|+ .+|+++|+|..|.|.+
T Consensus 255 ~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD-------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtL 327 (506)
T KOG0117|consen 255 TMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD-------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTL 327 (506)
T ss_pred hhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc-------eeEEeecchHHHHHHHHHhcCceecCceEEEEe
Confidence 3345688999999999999999999999999999988844 9999999999999999 7999999999999999
Q ss_pred ccCCC
Q 030488 122 KRTNV 126 (176)
Q Consensus 122 a~~~~ 126 (176)
|++..
T Consensus 328 AKP~~ 332 (506)
T KOG0117|consen 328 AKPVD 332 (506)
T ss_pred cCChh
Confidence 98753
No 25
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.64 E-value=1.4e-15 Score=126.79 Aligned_cols=78 Identities=32% Similarity=0.618 Sum_probs=74.2
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
..+|||+|||.++|+++|+++|++||.|..|.|+.+. +|+++|||||+|.+.++|..|+ .|++..|.|+.|.|.++..
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~ 265 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQD 265 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccC
Confidence 6899999999999999999999999999999999988 6799999999999999999999 7999999999999999753
No 26
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.64 E-value=3e-15 Score=119.89 Aligned_cols=81 Identities=31% Similarity=0.508 Sum_probs=75.5
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCee-CCeeeEEE
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESEL-HGRQLKVT 120 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~-~g~~i~v~ 120 (176)
....+.||||.||.++.|++|.-+|++.|+|-+++|++|+ +|.++|||||.|.+.++|+.|| .||+++| .|+.|.|+
T Consensus 80 p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc 159 (506)
T KOG0117|consen 80 PPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVC 159 (506)
T ss_pred CCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEE
Confidence 3568999999999999999999999999999999999997 8999999999999999999999 7999999 68999998
Q ss_pred eccC
Q 030488 121 VKRT 124 (176)
Q Consensus 121 ~a~~ 124 (176)
.+..
T Consensus 160 ~Sva 163 (506)
T KOG0117|consen 160 VSVA 163 (506)
T ss_pred Eeee
Confidence 7744
No 27
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.64 E-value=2.1e-15 Score=113.42 Aligned_cols=76 Identities=22% Similarity=0.319 Sum_probs=70.3
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEecc
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKR 123 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~ 123 (176)
...+|||+||++.+|+++|++||+.||.|.+|.|+++. ...+||||+|.++++++.|+.|++..|.++.|.|....
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~--et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG--EYACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWG 79 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC--CcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCc
Confidence 46799999999999999999999999999999999874 44689999999999999999999999999999998764
No 28
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.63 E-value=2.6e-15 Score=125.16 Aligned_cols=81 Identities=33% Similarity=0.488 Sum_probs=75.8
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEec
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVK 122 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a 122 (176)
+...++|||+|||..+++++|+++|++||.|..|.|+.++ +++++|||||+|.+.++|++||.|++..|.|+.|.|..+
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~~ 165 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQSS 165 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEeec
Confidence 4457899999999999999999999999999999999998 799999999999999999999999999999999999876
Q ss_pred cC
Q 030488 123 RT 124 (176)
Q Consensus 123 ~~ 124 (176)
..
T Consensus 166 ~~ 167 (457)
T TIGR01622 166 QA 167 (457)
T ss_pred ch
Confidence 53
No 29
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.62 E-value=2.5e-15 Score=116.31 Aligned_cols=79 Identities=19% Similarity=0.374 Sum_probs=72.5
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEecc
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKR 123 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~ 123 (176)
...++|+|+|||+...+-||+..|.+||+|.+|.|+.+. .-+|||+||+|++.++|++|- +||+..+.|++|.|..+.
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE-RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~AT 172 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE-RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNAT 172 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc-CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccc
Confidence 446899999999999999999999999999999999875 335999999999999999999 799999999999999874
Q ss_pred C
Q 030488 124 T 124 (176)
Q Consensus 124 ~ 124 (176)
.
T Consensus 173 a 173 (376)
T KOG0125|consen 173 A 173 (376)
T ss_pred h
Confidence 4
No 30
>smart00362 RRM_2 RNA recognition motif.
Probab=99.62 E-value=6.3e-15 Score=91.08 Aligned_cols=71 Identities=38% Similarity=0.700 Sum_probs=65.9
Q ss_pred EEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 49 SVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 49 ~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
+|||+|||.++++++|+++|.+||.|..+.+..+. +.++++|||+|.+.++|+.|+ .+++..+.|+.|.|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT-GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC-CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 58999999999999999999999999999998776 778899999999999999999 699999999998874
No 31
>PLN03213 repressor of silencing 3; Provisional
Probab=99.60 E-value=4.6e-15 Score=120.41 Aligned_cols=77 Identities=21% Similarity=0.396 Sum_probs=70.2
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCH--HHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQS--EAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~--~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
....+||||||++.+++++|..+|..||.|.+|.|++. +| +|||||+|.+. .++.+|| .||+..+.|+.|+|..
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRE-TG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNK 84 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRT-KG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEK 84 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecc-cC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEee
Confidence 44689999999999999999999999999999999932 56 99999999987 6799999 7999999999999999
Q ss_pred ccC
Q 030488 122 KRT 124 (176)
Q Consensus 122 a~~ 124 (176)
|++
T Consensus 85 AKP 87 (759)
T PLN03213 85 AKE 87 (759)
T ss_pred ccH
Confidence 875
No 32
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.59 E-value=1.9e-16 Score=113.45 Aligned_cols=79 Identities=24% Similarity=0.463 Sum_probs=74.2
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
=.++.-|||||||++.||.||--+|++||.|..|.|++|+ ||+++||||+.|++..+-.-|+ .||+..|.|+.|+|..
T Consensus 32 YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDH 111 (219)
T KOG0126|consen 32 YKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDH 111 (219)
T ss_pred cccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeee
Confidence 3457789999999999999999999999999999999999 8999999999999999988899 8999999999999986
Q ss_pred c
Q 030488 122 K 122 (176)
Q Consensus 122 a 122 (176)
.
T Consensus 112 v 112 (219)
T KOG0126|consen 112 V 112 (219)
T ss_pred c
Confidence 5
No 33
>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=99.59 E-value=9e-15 Score=124.89 Aligned_cols=80 Identities=23% Similarity=0.461 Sum_probs=74.2
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeC----CeeeE
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELH----GRQLK 118 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~----g~~i~ 118 (176)
....++|||+|||.++|+++|+++|+.||.|.++.+..+.+++++|||||+|.+.++|.+|+ .+++..|. |..|.
T Consensus 175 ~~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~ 254 (562)
T TIGR01628 175 LKKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLY 254 (562)
T ss_pred ccCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeE
Confidence 34467899999999999999999999999999999999989999999999999999999999 79999999 99999
Q ss_pred EEecc
Q 030488 119 VTVKR 123 (176)
Q Consensus 119 v~~a~ 123 (176)
|..+.
T Consensus 255 v~~a~ 259 (562)
T TIGR01628 255 VGRAQ 259 (562)
T ss_pred eeccc
Confidence 98764
No 34
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.58 E-value=3.8e-15 Score=118.93 Aligned_cols=121 Identities=25% Similarity=0.382 Sum_probs=92.4
Q ss_pred HHHHHHHHHHHHHHHHhhccccccCCCCCCCC-CCcccccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC
Q 030488 5 LKEMEEEATALRQMHAKVGNEMASKQDPAAGG-SSLANREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK 83 (176)
Q Consensus 5 ~~e~e~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~ 83 (176)
|...+++.+++.+++....- .....|...+ +..+.....+.++||||-|+..+||.+|+++|++||.|++|.|.++.
T Consensus 83 ~~trk~a~~a~~Alhn~ktl--pG~~~pvqvk~Ad~E~er~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~ 160 (510)
T KOG0144|consen 83 YYTRKEADEAINALHNQKTL--PGMHHPVQVKYADGERERIVEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP 160 (510)
T ss_pred eccHHHHHHHHHHhhccccc--CCCCcceeecccchhhhccccchhhhhhhccccccHHHHHHHHHhhCccchhhheecc
Confidence 44567777888887765432 2222222111 12222222457899999999999999999999999999999999999
Q ss_pred CCCceeEEEEEecCHHHHHHHH-HhCCC-eeCC--eeeEEEeccCCCC
Q 030488 84 FGQPKGYAYVEFLQSEAVQEAL-HLNES-ELHG--RQLKVTVKRTNVP 127 (176)
Q Consensus 84 ~g~~~g~afv~f~~~~~a~~a~-~l~~~-~~~g--~~i~v~~a~~~~~ 127 (176)
.+.++|||||.|.+.+.|..|| +||+. ++.| .+|.|++|.+.++
T Consensus 161 ~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkd 208 (510)
T KOG0144|consen 161 DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKD 208 (510)
T ss_pred cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCC
Confidence 9999999999999999999999 79985 4555 6899999987654
No 35
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.58 E-value=3.6e-14 Score=115.56 Aligned_cols=85 Identities=29% Similarity=0.477 Sum_probs=72.7
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEeccCC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKRTN 125 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~~~ 125 (176)
...|||.|||++++.++|+++|.+||.|+...|.... .++..+||||+|.+.++++.||..+...|++++|.|+..+..
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~~ 367 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRPG 367 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEecccc
Confidence 4569999999999999999999999999988776543 455559999999999999999976789999999999999876
Q ss_pred CCCCCC
Q 030488 126 VPGMKQ 131 (176)
Q Consensus 126 ~~~~~~ 131 (176)
..+...
T Consensus 368 ~~g~~~ 373 (419)
T KOG0116|consen 368 FRGNGN 373 (419)
T ss_pred cccccc
Confidence 655443
No 36
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=99.58 E-value=1.7e-14 Score=109.57 Aligned_cols=134 Identities=45% Similarity=0.648 Sum_probs=108.2
Q ss_pred hhHHHHHHHHHHHHHHHHhhccccccCCCCCC---CCCCcccccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEE
Q 030488 3 IRLKEMEEEATALRQMHAKVGNEMASKQDPAA---GGSSLANREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTI 79 (176)
Q Consensus 3 ~~~~e~e~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~ 79 (176)
.+..++|.+...++.|+......+........ ...........+...+||+|+.+.+|.++++..|+.||.|..+.|
T Consensus 54 ~~~~e~e~~i~~le~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti 133 (231)
T KOG4209|consen 54 NRSSEKEWEITKLERMCPATVKPLMDLSLKAAVVVKEKFPERQKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTV 133 (231)
T ss_pred cccccchhhhHHHHhhchhhhhhhhhcccccchhhhhcchhhhhccCCceEEEeccccccccchhhheeeccCCccceee
Confidence 34457788888999988877764333222211 112233456778899999999999999999999999999999999
Q ss_pred eeCC-CCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEeccCCCCCCCCCCCCC
Q 030488 80 RTDK-FGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKRTNVPGMKQHRPRR 136 (176)
Q Consensus 80 ~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~~~~~~~~~~~~~~ 136 (176)
+.++ .+.+++|+||+|.+.+.++.++.|++..|.++.|.|.+.+.+.++.....+.+
T Consensus 134 ~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~~r~~~pg~~~~~~~~ 191 (231)
T KOG4209|consen 134 PKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTLKRTNVPGMGRSSPPR 191 (231)
T ss_pred eccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeeeeeeecCCcCCCCCCc
Confidence 9999 47899999999999999999999999999999999999988877766555444
No 37
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.57 E-value=2.9e-15 Score=110.45 Aligned_cols=83 Identities=27% Similarity=0.527 Sum_probs=78.1
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
....++||||+|..++|+.-|...|-.||.|..|.++.|- +++++||+||+|...++|.+|| .||..+|.|+.|+|.+
T Consensus 7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~ 86 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNL 86 (298)
T ss_pred cccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEee
Confidence 4557899999999999999999999999999999999998 7999999999999999999999 7999999999999999
Q ss_pred ccCCC
Q 030488 122 KRTNV 126 (176)
Q Consensus 122 a~~~~ 126 (176)
|++.+
T Consensus 87 AkP~k 91 (298)
T KOG0111|consen 87 AKPEK 91 (298)
T ss_pred cCCcc
Confidence 98753
No 38
>smart00360 RRM RNA recognition motif.
Probab=99.56 E-value=3e-14 Score=87.64 Aligned_cols=69 Identities=43% Similarity=0.688 Sum_probs=64.3
Q ss_pred EcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 52 VGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 52 v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
|+|||..+++++|+++|++||.|..+.+..++ ++.++++|||+|.+.++|..|+ .+++..+.|+.|.|+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 67999999999999999999999999999887 5889999999999999999999 699999999998874
No 39
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=99.56 E-value=7.2e-14 Score=86.71 Aligned_cols=73 Identities=41% Similarity=0.647 Sum_probs=67.9
Q ss_pred EEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 49 SVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 49 ~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
+|+|+|||..+++++|+++|+.+|.|..+.+..+..+..+++|||+|.+.++|..|+ .+++..+.|+.|.|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 489999999999999999999999999999998876678999999999999999999 7999999999998863
No 40
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.54 E-value=3.4e-14 Score=107.20 Aligned_cols=84 Identities=24% Similarity=0.468 Sum_probs=78.3
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
.+.....|.|--||++.|+++|+.+|...|+|++|++++|+ +|.+.||+||.|.++++|++|| .||+..+..+.|+|+
T Consensus 37 t~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVS 116 (360)
T KOG0145|consen 37 TDESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVS 116 (360)
T ss_pred cCcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEE
Confidence 34556788899999999999999999999999999999999 8999999999999999999999 799999999999999
Q ss_pred eccCCC
Q 030488 121 VKRTNV 126 (176)
Q Consensus 121 ~a~~~~ 126 (176)
+|++..
T Consensus 117 yARPSs 122 (360)
T KOG0145|consen 117 YARPSS 122 (360)
T ss_pred eccCCh
Confidence 998643
No 41
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=2.9e-14 Score=111.60 Aligned_cols=83 Identities=19% Similarity=0.386 Sum_probs=77.6
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
...+.+.|||..|.+.+|.++|.-+|+.||.|.+|.+++|+ ||.+..||||+|.+.+++++|. +|++..|++++|+|.
T Consensus 235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVD 314 (479)
T KOG0415|consen 235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVD 314 (479)
T ss_pred cCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEee
Confidence 34556889999999999999999999999999999999998 8999999999999999999999 899999999999999
Q ss_pred eccCC
Q 030488 121 VKRTN 125 (176)
Q Consensus 121 ~a~~~ 125 (176)
++.+.
T Consensus 315 FSQSV 319 (479)
T KOG0415|consen 315 FSQSV 319 (479)
T ss_pred hhhhh
Confidence 88653
No 42
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.54 E-value=5.1e-14 Score=108.11 Aligned_cols=77 Identities=38% Similarity=0.734 Sum_probs=74.0
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEecc
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKR 123 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~ 123 (176)
..+|||+|||.++|+++|.++|..||.|..+.+..++ ++.++|||||+|.+.++|..|+ .+++..|.|+.|.|..+.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 6999999999999999999999999999999999997 8999999999999999999999 799999999999999964
No 43
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.53 E-value=7.7e-14 Score=117.16 Aligned_cols=76 Identities=26% Similarity=0.357 Sum_probs=70.4
Q ss_pred CCCCEEEEcCCCC-CCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 45 VDSRSVFVGNVDY-SCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 45 ~~~~~i~v~~lp~-~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
..+.+|||+|||+ .+|+++|+++|+.||.|.+|+|+.++ +|||||+|.+.++|+.|| .||+..|.|+.|+|.++
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s 348 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPS 348 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEc
Confidence 3568999999998 69999999999999999999998874 799999999999999999 79999999999999998
Q ss_pred cC
Q 030488 123 RT 124 (176)
Q Consensus 123 ~~ 124 (176)
+.
T Consensus 349 ~~ 350 (481)
T TIGR01649 349 KQ 350 (481)
T ss_pred cc
Confidence 64
No 44
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.52 E-value=1.7e-14 Score=103.47 Aligned_cols=79 Identities=28% Similarity=0.467 Sum_probs=74.6
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
....+|||+||+..++++.|.++|-+.|+|.++++++|+ +...+|||||+|.++++|+-|+ -||...|.|++|+|..+
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka 86 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA 86 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence 446899999999999999999999999999999999999 7889999999999999999999 59999999999999988
Q ss_pred c
Q 030488 123 R 123 (176)
Q Consensus 123 ~ 123 (176)
.
T Consensus 87 s 87 (203)
T KOG0131|consen 87 S 87 (203)
T ss_pred c
Confidence 6
No 45
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.52 E-value=1.8e-13 Score=109.71 Aligned_cols=81 Identities=35% Similarity=0.542 Sum_probs=75.0
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhh-hCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQ-SCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~-~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
....+.+||+|||+++.|.+|+++|. +-|+|+.|.|..|.+|+++|||.|+|+++|.+++|+ .||.+++.|++|.|+.
T Consensus 41 ~~r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKE 120 (608)
T KOG4212|consen 41 AARDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKE 120 (608)
T ss_pred ccccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEec
Confidence 34456799999999999999999997 578999999999999999999999999999999999 6999999999999998
Q ss_pred ccC
Q 030488 122 KRT 124 (176)
Q Consensus 122 a~~ 124 (176)
.+.
T Consensus 121 d~d 123 (608)
T KOG4212|consen 121 DHD 123 (608)
T ss_pred cCc
Confidence 764
No 46
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.51 E-value=1.6e-13 Score=89.98 Aligned_cols=78 Identities=24% Similarity=0.393 Sum_probs=69.8
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEecc
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKR 123 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~ 123 (176)
..++.|||.|||+++|.+++.++|.+||.|..|+|-..+ ..+|.|||.|++..+|.+|+ .|++..++++.|.|-+-.
T Consensus 16 evnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k--~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq 93 (124)
T KOG0114|consen 16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK--ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQ 93 (124)
T ss_pred hhheeEEEecCCccccHHHHHHHhhcccceEEEEecCcc--CcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecC
Confidence 457889999999999999999999999999999986443 34889999999999999999 799999999999998764
Q ss_pred C
Q 030488 124 T 124 (176)
Q Consensus 124 ~ 124 (176)
+
T Consensus 94 ~ 94 (124)
T KOG0114|consen 94 P 94 (124)
T ss_pred H
Confidence 3
No 47
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.51 E-value=5e-14 Score=106.70 Aligned_cols=78 Identities=26% Similarity=0.467 Sum_probs=74.3
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEecc
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKR 123 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~ 123 (176)
.-..|||+.|...++-++|++.|.+||+|.+++|++|. |+++|||+||.|.+.++|+.|| .||+..|.++.|+..+|.
T Consensus 61 ~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWAT 140 (321)
T KOG0148|consen 61 QHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWAT 140 (321)
T ss_pred cceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccc
Confidence 35679999999999999999999999999999999998 8999999999999999999999 799999999999999883
No 48
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.51 E-value=1.1e-13 Score=116.21 Aligned_cols=73 Identities=19% Similarity=0.218 Sum_probs=67.3
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-H--hCCCeeCCeeeEEEecc
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-H--LNESELHGRQLKVTVKR 123 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~--l~~~~~~g~~i~v~~a~ 123 (176)
+++|||+|||+++++++|+++|++||.|.+|.|+.+ ++||||+|.+.++|++|| . +++..|.|+.|.|.++.
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~-----k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~ 76 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG-----KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYST 76 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC-----CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecC
Confidence 578999999999999999999999999999999865 689999999999999999 4 47899999999999985
Q ss_pred C
Q 030488 124 T 124 (176)
Q Consensus 124 ~ 124 (176)
.
T Consensus 77 ~ 77 (481)
T TIGR01649 77 S 77 (481)
T ss_pred C
Confidence 3
No 49
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.49 E-value=7.6e-14 Score=114.27 Aligned_cols=78 Identities=35% Similarity=0.660 Sum_probs=75.1
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccCC
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRTN 125 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~~ 125 (176)
+.|||||||+++++++|..+|+..|.|.+++++.|+ +|+++||+|++|.+.++++.|+ .||+.++.|++|+|.++...
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 899999999999999999999999999999999999 7999999999999999999999 69999999999999998654
No 50
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.49 E-value=1e-13 Score=110.84 Aligned_cols=85 Identities=22% Similarity=0.487 Sum_probs=74.6
Q ss_pred cccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCC-eeCC--e
Q 030488 41 NREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNES-ELHG--R 115 (176)
Q Consensus 41 ~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~-~~~g--~ 115 (176)
+..+.+.-++||+.||..++|.||+++|++||.|.+|-|++|+ |+.++|||||.|.+.++|.+|+ +||+. +|-| .
T Consensus 28 d~~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~ 107 (510)
T KOG0144|consen 28 DNPDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHH 107 (510)
T ss_pred CCCCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCc
Confidence 3445667889999999999999999999999999999999999 8999999999999999999999 78775 5655 5
Q ss_pred eeEEEeccCC
Q 030488 116 QLKVTVKRTN 125 (176)
Q Consensus 116 ~i~v~~a~~~ 125 (176)
.|.|++|...
T Consensus 108 pvqvk~Ad~E 117 (510)
T KOG0144|consen 108 PVQVKYADGE 117 (510)
T ss_pred ceeecccchh
Confidence 7888888643
No 51
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.49 E-value=3.1e-13 Score=110.92 Aligned_cols=77 Identities=23% Similarity=0.497 Sum_probs=73.5
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEecc
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKR 123 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~ 123 (176)
..+|.|.||||.+...+|+.+|+.||.|..|.|++...|+-+|||||.|....+|..|| .+|+.+|+|++|-|.||-
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV 194 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAV 194 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeec
Confidence 67899999999999999999999999999999998888888899999999999999999 699999999999999984
No 52
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.47 E-value=8.2e-14 Score=106.48 Aligned_cols=71 Identities=27% Similarity=0.518 Sum_probs=66.7
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccCC
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRTN 125 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~~ 125 (176)
.+|||||||..+++.+|+.+|++||+|.+|.|+ |.|+||..++...++.|| .||+.+|+|..|+|+.++..
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv-------KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIV-------KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeee-------cccceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 469999999999999999999999999999999 669999999999999999 69999999999999987654
No 53
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.46 E-value=3e-13 Score=111.00 Aligned_cols=80 Identities=38% Similarity=0.574 Sum_probs=72.2
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-Hh-----CC-CeeCCee
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HL-----NE-SELHGRQ 116 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l-----~~-~~~~g~~ 116 (176)
....+|||.|||+++|+++|.++|++||+|..+.|+.++ |+.++|.|||.|.+..+++.|| .. .+ ..|+|+.
T Consensus 290 ~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~ 369 (678)
T KOG0127|consen 290 TEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRL 369 (678)
T ss_pred cccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccE
Confidence 346899999999999999999999999999999999999 8999999999999999999999 33 23 6789999
Q ss_pred eEEEeccC
Q 030488 117 LKVTVKRT 124 (176)
Q Consensus 117 i~v~~a~~ 124 (176)
|+|..+-+
T Consensus 370 Lkv~~Av~ 377 (678)
T KOG0127|consen 370 LKVTLAVT 377 (678)
T ss_pred Eeeeeccc
Confidence 99998844
No 54
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.45 E-value=4.2e-13 Score=108.66 Aligned_cols=108 Identities=25% Similarity=0.386 Sum_probs=84.8
Q ss_pred HHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCcccccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCC
Q 030488 5 LKEMEEEATALRQMHAKVGNEMASKQDPAAGGSSLANREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKF 84 (176)
Q Consensus 5 ~~e~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~ 84 (176)
|...+++.+|+.++............... ..+...|||.||+++++..+|.++|+.||.|.+|++.++.+
T Consensus 44 f~~~~da~~A~~~~n~~~~~~~~~rim~s----------~rd~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~ 113 (369)
T KOG0123|consen 44 FQQPADAERALDTMNFDVLKGKPIRIMWS----------QRDPSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN 113 (369)
T ss_pred cCCHHHHHHHHHHcCCcccCCcEEEeehh----------ccCCceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC
Confidence 45567777777777765442221111000 01111299999999999999999999999999999999998
Q ss_pred CCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 85 GQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 85 g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
| ++|| ||+|.++++|++|| .+|+..+.++.|.|.....
T Consensus 114 g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~ 152 (369)
T KOG0123|consen 114 G-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFER 152 (369)
T ss_pred C-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccc
Confidence 8 8999 99999999999999 7999999999999987643
No 55
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.41 E-value=1.7e-13 Score=107.77 Aligned_cols=78 Identities=29% Similarity=0.532 Sum_probs=73.6
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
.-.++||||.|.+++.|+.|+..|..||+|++|.+.+|. |++++|||||+|+-++.|+-|+ .||+..++|+.|+|...
T Consensus 111 aiMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrP 190 (544)
T KOG0124|consen 111 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 190 (544)
T ss_pred HHhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCC
Confidence 346899999999999999999999999999999999999 8999999999999999999999 69999999999999744
No 56
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.40 E-value=2.9e-13 Score=102.59 Aligned_cols=85 Identities=24% Similarity=0.377 Sum_probs=80.5
Q ss_pred cccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeE
Q 030488 41 NREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLK 118 (176)
Q Consensus 41 ~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~ 118 (176)
..+..+.++|||=.||.+..+.+|...|-.||.|.+.++..|+ |+.+|+|+||.|.+..++++|| +||++.|+-++|+
T Consensus 279 qreGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLK 358 (371)
T KOG0146|consen 279 QREGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLK 358 (371)
T ss_pred hhcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhh
Confidence 4567789999999999999999999999999999999999999 8999999999999999999999 8999999999999
Q ss_pred EEeccCC
Q 030488 119 VTVKRTN 125 (176)
Q Consensus 119 v~~a~~~ 125 (176)
|.+.++.
T Consensus 359 VQLKRPk 365 (371)
T KOG0146|consen 359 VQLKRPK 365 (371)
T ss_pred hhhcCcc
Confidence 9998864
No 57
>smart00361 RRM_1 RNA recognition motif.
Probab=99.40 E-value=2.6e-12 Score=80.34 Aligned_cols=60 Identities=28% Similarity=0.512 Sum_probs=53.3
Q ss_pred HHHHHHHhh----hCCCeeEEE-EeeCC-C--CCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 61 PEEVQQHFQ----SCGTVNRVT-IRTDK-F--GQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 61 ~~~l~~~f~----~~G~i~~~~-~~~~~-~--g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
+++|+++|+ +||.|.+|. ++.++ + +.++|||||+|.+.++|.+|+ .||+..+.|+.|++.
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence 578899998 999999985 66665 4 889999999999999999999 799999999999873
No 58
>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=1.5e-13 Score=105.14 Aligned_cols=75 Identities=31% Similarity=0.586 Sum_probs=69.4
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
.....+|+|+||.+.++..+|+..|++||+|.+|+|+ ++|+||.|.-.++|..|+ .|+++++.|++++|.++
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdiv-------kdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~s 147 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIV-------KDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLS 147 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcccCCceeeeee-------cceeEEEEeeccchHHHHhcccccccccceeeeeee
Confidence 3457889999999999999999999999999999999 669999999999999999 79999999999999998
Q ss_pred cCC
Q 030488 123 RTN 125 (176)
Q Consensus 123 ~~~ 125 (176)
.++
T Consensus 148 tsr 150 (346)
T KOG0109|consen 148 TSR 150 (346)
T ss_pred ccc
Confidence 543
No 59
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=99.39 E-value=2.7e-12 Score=76.63 Aligned_cols=55 Identities=36% Similarity=0.657 Sum_probs=49.5
Q ss_pred HHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 64 VQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 64 l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
|.++|++||.|.++.+..+. +++|||+|.+.++|+.|+ .||+..+.|+.|+|++|
T Consensus 1 L~~~f~~fG~V~~i~~~~~~----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 67899999999999997653 589999999999999999 69999999999999985
No 60
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.39 E-value=2.2e-12 Score=108.95 Aligned_cols=76 Identities=24% Similarity=0.352 Sum_probs=64.0
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhC------------CCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCC
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSC------------GTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNES 110 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~------------G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~ 110 (176)
.....++|||+|||+++|+++|+++|.++ +.|..+.+. +.++||||+|.+.++|+.||+|++.
T Consensus 171 ~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~-----~~kg~afVeF~~~e~A~~Al~l~g~ 245 (509)
T TIGR01642 171 ATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN-----KEKNFAFLEFRTVEEATFAMALDSI 245 (509)
T ss_pred CCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC-----CCCCEEEEEeCCHHHHhhhhcCCCe
Confidence 44567899999999999999999999975 234445443 3489999999999999999999999
Q ss_pred eeCCeeeEEEecc
Q 030488 111 ELHGRQLKVTVKR 123 (176)
Q Consensus 111 ~~~g~~i~v~~a~ 123 (176)
.|.|..|+|....
T Consensus 246 ~~~g~~l~v~r~~ 258 (509)
T TIGR01642 246 IYSNVFLKIRRPH 258 (509)
T ss_pred EeeCceeEecCcc
Confidence 9999999997553
No 61
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.35 E-value=1.3e-12 Score=107.30 Aligned_cols=76 Identities=33% Similarity=0.660 Sum_probs=71.9
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
...||||||.+++++++|+..|+.||.|+.|.+.+|. ||.++||+||+|.+.++|.+|+ .||+.+|.|+.|+|...
T Consensus 278 ~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v 355 (549)
T KOG0147|consen 278 MRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVV 355 (549)
T ss_pred hhhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEe
Confidence 3449999999999999999999999999999999998 9999999999999999999999 79999999999999865
No 62
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.34 E-value=8.6e-12 Score=94.33 Aligned_cols=78 Identities=26% Similarity=0.353 Sum_probs=73.9
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
...|||=||.++++|.-|.++|.+||.|..|++++|. |.+++||+||...+-++|..|| .||+..+.++.|.|.+...
T Consensus 278 g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtn 357 (360)
T KOG0145|consen 278 GWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTN 357 (360)
T ss_pred eeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecC
Confidence 6789999999999999999999999999999999999 5999999999999999999999 7999999999999998753
No 63
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.32 E-value=6.7e-12 Score=90.20 Aligned_cols=85 Identities=24% Similarity=0.398 Sum_probs=74.7
Q ss_pred ccccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeE-EEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCee
Q 030488 40 ANREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNR-VTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQ 116 (176)
Q Consensus 40 ~~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~-~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~ 116 (176)
.......+.+|||+||.+++++..|.+.|+.||.+.. ..++++. ||.+++|+||.|.+.+.+.+|+ .+|+..++.+.
T Consensus 89 ~~~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~ 168 (203)
T KOG0131|consen 89 HQKNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRP 168 (203)
T ss_pred ccccccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCc
Confidence 3334455689999999999999999999999999854 4677777 7999999999999999999999 79999999999
Q ss_pred eEEEeccC
Q 030488 117 LKVTVKRT 124 (176)
Q Consensus 117 i~v~~a~~ 124 (176)
|.|+++..
T Consensus 169 itv~ya~k 176 (203)
T KOG0131|consen 169 ITVSYAFK 176 (203)
T ss_pred eEEEEEEe
Confidence 99999864
No 64
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.31 E-value=7.3e-12 Score=98.72 Aligned_cols=80 Identities=24% Similarity=0.480 Sum_probs=74.3
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEeccC
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~~ 124 (176)
...+|||++||.++++++|+++|.+||.|..+.++.|. +.+.++|+||.|.+++++++++...-+.|+++.+.|..|.+
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkrA~p 175 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKRAIP 175 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecccceeeecCceeeEeeccc
Confidence 46799999999999999999999999999999999998 68999999999999999999998888999999999998865
Q ss_pred C
Q 030488 125 N 125 (176)
Q Consensus 125 ~ 125 (176)
.
T Consensus 176 k 176 (311)
T KOG4205|consen 176 K 176 (311)
T ss_pred h
Confidence 3
No 65
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.27 E-value=2.1e-11 Score=89.22 Aligned_cols=82 Identities=29% Similarity=0.409 Sum_probs=73.0
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhC-CCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEE
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSC-GTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKV 119 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~-G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v 119 (176)
.......++|..+|..+.+.++..+|.++ |.|..+++.+++ ||.++|||||+|++.+.|..|- .||++.|.++.|.|
T Consensus 45 ~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c 124 (214)
T KOG4208|consen 45 EQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLEC 124 (214)
T ss_pred ccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeee
Confidence 34456779999999999999999999998 778888997887 9999999999999999999999 79999999999999
Q ss_pred EeccC
Q 030488 120 TVKRT 124 (176)
Q Consensus 120 ~~a~~ 124 (176)
.+-.+
T Consensus 125 ~vmpp 129 (214)
T KOG4208|consen 125 HVMPP 129 (214)
T ss_pred EEeCc
Confidence 87643
No 66
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.25 E-value=2.6e-11 Score=94.89 Aligned_cols=78 Identities=24% Similarity=0.513 Sum_probs=70.9
Q ss_pred ccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-H-hCCCeeCCeeeEE
Q 030488 42 REEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-H-LNESELHGRQLKV 119 (176)
Q Consensus 42 ~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~-l~~~~~~g~~i~v 119 (176)
.++..-.+|||++|-..+++.+|+++|.+||+|.++.+... +++|||+|.+.++|+.|. + ++...|+|.+|+|
T Consensus 223 PeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~-----~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i 297 (377)
T KOG0153|consen 223 PEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR-----KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKI 297 (377)
T ss_pred CcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc-----cccceeeehhhHHHHHHHHhhcceeeecceEEEE
Confidence 34566789999999989999999999999999999998866 679999999999999999 5 8888899999999
Q ss_pred EeccC
Q 030488 120 TVKRT 124 (176)
Q Consensus 120 ~~a~~ 124 (176)
.|.++
T Consensus 298 ~Wg~~ 302 (377)
T KOG0153|consen 298 KWGRP 302 (377)
T ss_pred EeCCC
Confidence 99987
No 67
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.23 E-value=1.1e-11 Score=97.70 Aligned_cols=80 Identities=24% Similarity=0.516 Sum_probs=74.3
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEeccC
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~~ 124 (176)
+.++|||++|+|+++++.|+++|.+||.|.+|.+++|+ ++++++|+||+|.+.+...++|....+.|+|+.|.+..|.+
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~ 84 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVS 84 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccC
Confidence 67899999999999999999999999999999999999 79999999999999999999997788999999999988865
Q ss_pred C
Q 030488 125 N 125 (176)
Q Consensus 125 ~ 125 (176)
.
T Consensus 85 r 85 (311)
T KOG4205|consen 85 R 85 (311)
T ss_pred c
Confidence 4
No 68
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.23 E-value=1.4e-11 Score=103.83 Aligned_cols=120 Identities=21% Similarity=0.424 Sum_probs=90.9
Q ss_pred HHHHHHHHHHHHHHHHhhccc----cccCC-CCCCCCCCcccccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEE
Q 030488 5 LKEMEEEATALRQMHAKVGNE----MASKQ-DPAAGGSSLANREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTI 79 (176)
Q Consensus 5 ~~e~e~~~~~~~~~~~~~~~~----~~~~~-~~~~~~~~~~~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~ 79 (176)
|...+++.+|++.|+.+.... +.... .+..... ...........|+|.|||+..+..+|+++|..||.|.+|+|
T Consensus 567 F~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~~g-K~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRl 645 (725)
T KOG0110|consen 567 FAKPESAQAALKALQGTVLDGHKLELKISENKPASTVG-KKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRL 645 (725)
T ss_pred ecCHHHHHHHHHHhcCceecCceEEEEeccCccccccc-cccccccccceeeeeccchHHHHHHHHHHHhcccceeeecc
Confidence 567788899999988543211 11110 1111111 11111222578999999999999999999999999999999
Q ss_pred eeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccCC
Q 030488 80 RTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRTN 125 (176)
Q Consensus 80 ~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~~ 125 (176)
+... .+.++|||||+|.++.+|..|+ +|..+.|.|++|.++||...
T Consensus 646 PKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d 693 (725)
T KOG0110|consen 646 PKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKSD 693 (725)
T ss_pred chhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhccc
Confidence 8773 4678999999999999999999 79999999999999999753
No 69
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.22 E-value=5.2e-11 Score=88.36 Aligned_cols=79 Identities=19% Similarity=0.401 Sum_probs=71.3
Q ss_pred CCCEEEEcCCCCCCCHHHHHH----HhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQ----HFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~----~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
...+|||.||+..+..++|++ +|++||.|..|... ++.+.+|-|||.|.+.+.|..|+ +|+|..+-|+.++|.
T Consensus 8 pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~--kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriq 85 (221)
T KOG4206|consen 8 PNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAF--KTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQ 85 (221)
T ss_pred CCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEec--CCCCccCceEEEecChhHHHHHHHHhcCCcccCchhhee
Confidence 344999999999999999988 99999999888665 57788999999999999999999 799999999999999
Q ss_pred eccCCC
Q 030488 121 VKRTNV 126 (176)
Q Consensus 121 ~a~~~~ 126 (176)
+|++..
T Consensus 86 yA~s~s 91 (221)
T KOG4206|consen 86 YAKSDS 91 (221)
T ss_pred cccCcc
Confidence 997653
No 70
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.22 E-value=5.3e-11 Score=98.56 Aligned_cols=79 Identities=22% Similarity=0.444 Sum_probs=73.0
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
.++|||.+|...+...+|+.+|++||.|...+++++. +.-.++|+||++.+.++|.+|| .||.++|.|+.|.|+.++.
T Consensus 405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKN 484 (940)
T KOG4661|consen 405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKN 484 (940)
T ss_pred ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeeccc
Confidence 5789999999999999999999999999999999886 6566999999999999999999 7999999999999998865
Q ss_pred C
Q 030488 125 N 125 (176)
Q Consensus 125 ~ 125 (176)
.
T Consensus 485 E 485 (940)
T KOG4661|consen 485 E 485 (940)
T ss_pred C
Confidence 4
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.21 E-value=6.3e-11 Score=99.95 Aligned_cols=75 Identities=31% Similarity=0.541 Sum_probs=69.1
Q ss_pred EEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCC----CceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEecc
Q 030488 49 SVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFG----QPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKR 123 (176)
Q Consensus 49 ~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g----~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~ 123 (176)
+|||.||++++|.++|..+|...|.|.++.|...+.+ .+.|||||+|.+.++|+.|+ .|+++.|+|+.|.|+++.
T Consensus 517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE 596 (725)
T ss_pred hhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence 3999999999999999999999999999998876643 35699999999999999999 799999999999999997
No 72
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.20 E-value=4.9e-10 Score=85.36 Aligned_cols=82 Identities=27% Similarity=0.468 Sum_probs=75.7
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
+....+|+|.|||+.+++++|+++|..||.++.+.|..++.|.+.|.|-|.|...++|.+|+ .+++..++|..|++.+.
T Consensus 80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i 159 (243)
T KOG0533|consen 80 ETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEII 159 (243)
T ss_pred CCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEe
Confidence 44457899999999999999999999999999999999999999999999999999999999 79999999999999987
Q ss_pred cCC
Q 030488 123 RTN 125 (176)
Q Consensus 123 ~~~ 125 (176)
.++
T Consensus 160 ~~~ 162 (243)
T KOG0533|consen 160 SSP 162 (243)
T ss_pred cCc
Confidence 543
No 73
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.19 E-value=8.4e-11 Score=92.80 Aligned_cols=118 Identities=19% Similarity=0.296 Sum_probs=89.8
Q ss_pred HHHHHHHHHHHHHhhccccc-cCCCCCCCCCCcc-----cccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEee
Q 030488 8 MEEEATALRQMHAKVGNEMA-SKQDPAAGGSSLA-----NREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRT 81 (176)
Q Consensus 8 ~e~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~-----~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~ 81 (176)
.|.++.+++.|+........ ....|........ ..+...-.+|||..+.++.+++||+.+|+.||+|..|.+-+
T Consensus 165 PEaAqLAlEqMNg~mlGGRNiKVgrPsNmpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr 244 (544)
T KOG0124|consen 165 PEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLAR 244 (544)
T ss_pred cHHHHHHHHHhccccccCccccccCCCCCcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeec
Confidence 35666777787765432211 1112222222111 11233468899999999999999999999999999999999
Q ss_pred CCC-CCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccCC
Q 030488 82 DKF-GQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRTN 125 (176)
Q Consensus 82 ~~~-g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~~ 125 (176)
+.| +.++||+||+|.+..+...|| .||-+.++|+.|+|-.+-.+
T Consensus 245 ~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vTP 290 (544)
T KOG0124|consen 245 APTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTP 290 (544)
T ss_pred cCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecccccCC
Confidence 985 789999999999999999999 69999999999999877543
No 74
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.18 E-value=5.5e-11 Score=101.19 Aligned_cols=73 Identities=18% Similarity=0.470 Sum_probs=69.3
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
+++||||+|+.++++.+|..+|+.||.|.+|.++.+ ++||||......+|.+|+ +|++..+.++.|+|.|+..
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~-----R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g 494 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP-----RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVG 494 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccC-----CceeEEEEeehhHHHHHHHHHhcccccceeeEEeeecc
Confidence 689999999999999999999999999999999876 899999999999999999 8999999999999999853
No 75
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.14 E-value=1.3e-10 Score=88.38 Aligned_cols=81 Identities=30% Similarity=0.496 Sum_probs=73.0
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCC-eeCC--eeeEEEe
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNES-ELHG--RQLKVTV 121 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~-~~~g--~~i~v~~ 121 (176)
+.++||||.|...-.|+|++.+|..||.|++|.+.+...|.+||||||.|.+..+|+.|| .||+. ++-| ..|.|++
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ 97 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKF 97 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEe
Confidence 578999999999999999999999999999999999889999999999999999999999 79975 4444 6799999
Q ss_pred ccCCC
Q 030488 122 KRTNV 126 (176)
Q Consensus 122 a~~~~ 126 (176)
+...+
T Consensus 98 ADTdk 102 (371)
T KOG0146|consen 98 ADTDK 102 (371)
T ss_pred ccchH
Confidence 87643
No 76
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=99.12 E-value=7.9e-10 Score=86.64 Aligned_cols=82 Identities=28% Similarity=0.478 Sum_probs=74.7
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCee--------EEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCC
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVN--------RVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHG 114 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~--------~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g 114 (176)
...+..|||+|||.++|.+++.++|++||.|. .|+|.++..|+.+|-|.|.|...++++-|+ -|++..|.|
T Consensus 131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg 210 (382)
T KOG1548|consen 131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRG 210 (382)
T ss_pred cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccC
Confidence 44567899999999999999999999999875 488998889999999999999999999999 699999999
Q ss_pred eeeEEEeccCC
Q 030488 115 RQLKVTVKRTN 125 (176)
Q Consensus 115 ~~i~v~~a~~~ 125 (176)
+.|+|+.|+-.
T Consensus 211 ~~~rVerAkfq 221 (382)
T KOG1548|consen 211 KKLRVERAKFQ 221 (382)
T ss_pred cEEEEehhhhh
Confidence 99999998643
No 77
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.10 E-value=1.4e-10 Score=86.57 Aligned_cols=71 Identities=25% Similarity=0.586 Sum_probs=66.2
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccCC
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRTN 125 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~~ 125 (176)
..|||++||+.+.+.+|+.||..||.|..+.+. .+|+||+|.+..+|..|| .+|+..|.+..+.|++++..
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk-------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~ 73 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK-------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee-------cccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 469999999999999999999999999999886 789999999999999999 89999999999999998754
No 78
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.06 E-value=6.3e-10 Score=90.30 Aligned_cols=72 Identities=28% Similarity=0.482 Sum_probs=68.0
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
..|||| +++|+..|.++|+.+|+|.++++++|. + +.|||||.|.++++|++|| ++|...+.|+.|+|.++..
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t-slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~r 74 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T-SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQR 74 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecC-C-ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhcc
Confidence 468998 899999999999999999999999999 6 9999999999999999999 7999999999999999854
No 79
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.00 E-value=1.1e-09 Score=88.41 Aligned_cols=75 Identities=28% Similarity=0.427 Sum_probs=66.7
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
..+.++|||.|||+++||..|++-|..||.|..+.|+ ..|+++| .|.|.++++|+.|+ .|++..++|+.|+|.+.
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadim--e~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~ 608 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIM--ENGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTYF 608 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhccceehhhhh--ccCCccc--eEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence 3456889999999999999999999999999998884 3466676 89999999999999 69999999999999863
No 80
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.99 E-value=9.3e-09 Score=76.48 Aligned_cols=83 Identities=18% Similarity=0.278 Sum_probs=69.8
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-C-CCceeEEEEEecCHHHHHHHH-HhCCCeeC---Ceee
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-F-GQPKGYAYVEFLQSEAVQEAL-HLNESELH---GRQL 117 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~-g~~~g~afv~f~~~~~a~~a~-~l~~~~~~---g~~i 117 (176)
...-++|||.+||.++..-+|..+|..|-..+.+.|.... . .-.+-+||++|.+..+|.+|+ .||+..|+ +..|
T Consensus 31 ~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stL 110 (284)
T KOG1457|consen 31 PGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTL 110 (284)
T ss_pred ccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCcee
Confidence 3447999999999999999999999998777766664433 2 235689999999999999999 79999995 7899
Q ss_pred EEEeccCCC
Q 030488 118 KVTVKRTNV 126 (176)
Q Consensus 118 ~v~~a~~~~ 126 (176)
++++++++.
T Consensus 111 hiElAKSNt 119 (284)
T KOG1457|consen 111 HIELAKSNT 119 (284)
T ss_pred EeeehhcCc
Confidence 999998765
No 81
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.95 E-value=7.9e-09 Score=87.60 Aligned_cols=82 Identities=17% Similarity=0.310 Sum_probs=74.7
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCC----CCceeEEEEEecCHHHHHHHH-HhCCCeeCCeee
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKF----GQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQL 117 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~----g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i 117 (176)
.+...++|||+||++.++++.|...|..||+|..++|++.++ ...+.|+||.|.+..++++|+ .|++..+.+..+
T Consensus 170 gDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~ 249 (877)
T KOG0151|consen 170 GDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEM 249 (877)
T ss_pred CCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeee
Confidence 356688999999999999999999999999999999999873 456789999999999999999 799999999999
Q ss_pred EEEeccC
Q 030488 118 KVTVKRT 124 (176)
Q Consensus 118 ~v~~a~~ 124 (176)
++-+.+.
T Consensus 250 K~gWgk~ 256 (877)
T KOG0151|consen 250 KLGWGKA 256 (877)
T ss_pred eeccccc
Confidence 9999864
No 82
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.95 E-value=3.9e-08 Score=80.41 Aligned_cols=78 Identities=24% Similarity=0.423 Sum_probs=68.1
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeE-EEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEec
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNR-VTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVK 122 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~-~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a 122 (176)
.....|-+.+||+.||++||.+||+..-.|.. +.++.+..+++.|-|||+|++.+.|++||.-|...|.-+-|.|-.+
T Consensus 101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRS 179 (510)
T ss_pred CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehh
Confidence 45678999999999999999999998754544 6677777888999999999999999999987888999999999765
No 83
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.82 E-value=1.5e-09 Score=80.35 Aligned_cols=76 Identities=26% Similarity=0.323 Sum_probs=69.6
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
..++|||+|+-..++++.|.++|-+.|+|..|.|+.++.++.+ ||||.|.++-++.-|+ -+|+..+.+..|.|.+.
T Consensus 8 ~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r 84 (267)
T KOG4454|consen 8 MDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLR 84 (267)
T ss_pred hhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccchhccchhhcccc
Confidence 3589999999999999999999999999999999988888877 9999999999999999 48999999988888754
No 84
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.82 E-value=5.6e-09 Score=78.90 Aligned_cols=81 Identities=20% Similarity=0.404 Sum_probs=73.9
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
.+.+..+||.|.|..+++++.|-..|.+|-.....++++++ ||+++||+||.|.+..++..|+ +|++..++.+.|++.
T Consensus 186 w~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklR 265 (290)
T KOG0226|consen 186 WDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLR 265 (290)
T ss_pred CccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhh
Confidence 44567899999999999999999999999888888888887 9999999999999999999999 899999999999887
Q ss_pred ecc
Q 030488 121 VKR 123 (176)
Q Consensus 121 ~a~ 123 (176)
.+.
T Consensus 266 kS~ 268 (290)
T KOG0226|consen 266 KSE 268 (290)
T ss_pred hhh
Confidence 653
No 85
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.79 E-value=7e-09 Score=85.79 Aligned_cols=72 Identities=24% Similarity=0.487 Sum_probs=65.2
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeE
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLK 118 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~ 118 (176)
......+|+|-|||..|++++|...|+.||+|..|+.-..+ .+.+||+|-|..+|++|+ +|+..+|.|+.|+
T Consensus 71 ~~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~----~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 71 KDMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNK----RGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred ccCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccccc----CceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 35678999999999999999999999999999987665444 789999999999999999 7999999999888
No 86
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.77 E-value=5e-08 Score=77.05 Aligned_cols=83 Identities=27% Similarity=0.502 Sum_probs=74.0
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCee--------EEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCee
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVN--------RVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESEL 112 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~--------~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~ 112 (176)
......+|||-+||..+++++|.++|.++|.|. .|.|.+++ |++.|+-|.|.|.+...|++|| -+++..+
T Consensus 62 ~~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf 141 (351)
T KOG1995|consen 62 DKSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDF 141 (351)
T ss_pred cccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccc
Confidence 356678999999999999999999999999885 46677777 8999999999999999999999 5999999
Q ss_pred CCeeeEEEeccCC
Q 030488 113 HGRQLKVTVKRTN 125 (176)
Q Consensus 113 ~g~~i~v~~a~~~ 125 (176)
++..|+|.++...
T Consensus 142 ~gn~ikvs~a~~r 154 (351)
T KOG1995|consen 142 CGNTIKVSLAERR 154 (351)
T ss_pred cCCCchhhhhhhc
Confidence 9999999998643
No 87
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.75 E-value=3.7e-08 Score=80.52 Aligned_cols=76 Identities=28% Similarity=0.487 Sum_probs=66.3
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEec
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVK 122 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a 122 (176)
.....|-+.+|||++|++||.+||+.+ .|+++.+.+ .+|+..|-|||+|.+.+++++|++.+...+..+.|.|-.+
T Consensus 8 ~~~~~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r-~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 8 STAFEVRLRGLPWSATEKEILDFFSNC-GIENLEIPR-RNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTA 83 (510)
T ss_pred CcceEEEecCCCccccHHHHHHHHhcC-ceeEEEEec-cCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEcc
Confidence 445678899999999999999999998 677755542 2699999999999999999999999999999999999876
No 88
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=98.72 E-value=2.2e-07 Score=61.33 Aligned_cols=76 Identities=20% Similarity=0.254 Sum_probs=63.7
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhh--CCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeC----CeeeEE
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQS--CGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELH----GRQLKV 119 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~--~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~----g~~i~v 119 (176)
++|.|.|||...|.++|.+++.. .|....+.|+.|. ++-+.|||||.|.+.+.|.... .+++..+. .+...|
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i 81 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI 81 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence 68999999999999999988875 3566778888887 7889999999999999999988 69988774 456666
Q ss_pred Eecc
Q 030488 120 TVKR 123 (176)
Q Consensus 120 ~~a~ 123 (176)
.+|+
T Consensus 82 ~yAr 85 (97)
T PF04059_consen 82 SYAR 85 (97)
T ss_pred ehhH
Confidence 7665
No 89
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.50 E-value=6e-08 Score=80.24 Aligned_cols=83 Identities=31% Similarity=0.480 Sum_probs=76.5
Q ss_pred cccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEE
Q 030488 41 NREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKV 119 (176)
Q Consensus 41 ~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v 119 (176)
..++.+.+++|+-.|+..++.-+|.+||+.+|.|..|.++.|+ ++.++|.|||+|.+.+++..||.|.|..+-|.+|.|
T Consensus 173 ~~eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~v 252 (549)
T KOG0147|consen 173 SPEERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIV 252 (549)
T ss_pred CchHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhhhcCCcccCceeEe
Confidence 3455667899999999999999999999999999999999999 799999999999999999999999999999999999
Q ss_pred Eecc
Q 030488 120 TVKR 123 (176)
Q Consensus 120 ~~a~ 123 (176)
....
T Consensus 253 q~sE 256 (549)
T KOG0147|consen 253 QLSE 256 (549)
T ss_pred cccH
Confidence 8764
No 90
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.47 E-value=1.3e-07 Score=78.70 Aligned_cols=80 Identities=24% Similarity=0.436 Sum_probs=74.3
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
.....|||++||..+++.++++++..||++....++.+. +|.++||||.+|.+......|+ .||+..+.++.|.|..|
T Consensus 287 ~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A 366 (500)
T KOG0120|consen 287 DSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRA 366 (500)
T ss_pred cccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehh
Confidence 346789999999999999999999999999999999988 6999999999999999999999 69999999999999987
Q ss_pred cC
Q 030488 123 RT 124 (176)
Q Consensus 123 ~~ 124 (176)
-.
T Consensus 367 ~~ 368 (500)
T KOG0120|consen 367 IV 368 (500)
T ss_pred hc
Confidence 43
No 91
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.47 E-value=8.4e-07 Score=71.34 Aligned_cols=74 Identities=30% Similarity=0.473 Sum_probs=67.6
Q ss_pred CCEEEEcCCCCC-CCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 47 SRSVFVGNVDYS-CTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 47 ~~~i~v~~lp~~-~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
+..|.|.||.+. +|.+.|..+|..||.|.+|+|..++ +.-|.|++.+...|+-|+ .|+++.+.|+.|+|.+++-
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk----kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH 372 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK----KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKH 372 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC----CcceeeeecchhHHHHHHHHhhcceecCceEEEeeccC
Confidence 578899999765 9999999999999999999999876 567999999999999999 7999999999999999864
No 92
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.42 E-value=1.2e-06 Score=69.35 Aligned_cols=75 Identities=25% Similarity=0.424 Sum_probs=64.2
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCC--CeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCG--TVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G--~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
....+|||||-|++|++||.+.+...| .+.++++.-++ +|+++|||+|...+..+.++.+ -|...+|+|+.-.|.
T Consensus 79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~ 157 (498)
T KOG4849|consen 79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVL 157 (498)
T ss_pred ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeee
Confidence 356799999999999999999998877 46677777778 6999999999999999999999 588889999866664
No 93
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.41 E-value=1.6e-07 Score=70.40 Aligned_cols=72 Identities=28% Similarity=0.528 Sum_probs=63.3
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
....+.+.|.+++..+.+.+|.++|+.+|.+....+. .+++||+|.+.++|..|+ .|++..+.++.|.+...
T Consensus 96 ~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~-------~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~~ 168 (216)
T KOG0106|consen 96 SRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDAR-------RNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEKN 168 (216)
T ss_pred ccccceeeeccchhhhhHHHHhhhhcccCCCchhhhh-------ccccceeehhhhhhhhcchhccchhhcCceeeeccc
Confidence 4557889999999999999999999999998555442 679999999999999999 79999999999999544
No 94
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.36 E-value=4.7e-07 Score=71.23 Aligned_cols=81 Identities=32% Similarity=0.605 Sum_probs=71.0
Q ss_pred CCCCEEE-EcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEec
Q 030488 45 VDSRSVF-VGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVK 122 (176)
Q Consensus 45 ~~~~~i~-v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a 122 (176)
....++| |++|+..++.++|+.+|..+|.|..++++.+. ++..++|++|.|.+......++......+.++.+.+...
T Consensus 182 ~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 261 (285)
T KOG4210|consen 182 GPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALNDQTRSIGGRPLRLEED 261 (285)
T ss_pred CccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhcccCcccCcccccccC
Confidence 3455666 99999999999999999999999999999887 799999999999999999888833778889999999988
Q ss_pred cCC
Q 030488 123 RTN 125 (176)
Q Consensus 123 ~~~ 125 (176)
...
T Consensus 262 ~~~ 264 (285)
T KOG4210|consen 262 EPR 264 (285)
T ss_pred CCC
Confidence 654
No 95
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=98.27 E-value=2.1e-06 Score=57.73 Aligned_cols=69 Identities=23% Similarity=0.402 Sum_probs=42.9
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhC-----CCeeCCeeeEEEe
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLN-----ESELHGRQLKVTV 121 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~-----~~~~~g~~i~v~~ 121 (176)
..|+|.+++..++.++|++.|++||.|..|.+... ...|+|-|.+.++|+.|+ .+. ...|.+..+.++.
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G-----~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~v 76 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG-----DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEV 76 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE-
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC-----CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEE
Confidence 46889999999999999999999999999988754 347999999999999999 433 3456666666654
No 96
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.24 E-value=1.4e-06 Score=64.98 Aligned_cols=63 Identities=25% Similarity=0.461 Sum_probs=51.9
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCee
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESEL 112 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~ 112 (176)
..+|||.||..++||++|+.+|+.|-....++|. .+.| ...||++|++.+.|..|+ .|++..|
T Consensus 210 cstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~-~~~g--~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDELKQLLSRYPGFHILKIR-ARGG--MPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred hhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEe-cCCC--cceEeecHHHHHHHHHHHHHhhccee
Confidence 4679999999999999999999999766555553 2223 458999999999999999 6888776
No 97
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.23 E-value=7e-06 Score=61.31 Aligned_cols=76 Identities=17% Similarity=0.330 Sum_probs=67.0
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeC-CeeeEEEe
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELH-GRQLKVTV 121 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~-g~~i~v~~ 121 (176)
..+...+|+.|||.+++.+.|..+|.+|.....++++... .+.|||+|.+...+..|. .+.+..|. ...|.|.+
T Consensus 143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~ 218 (221)
T KOG4206|consen 143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITF 218 (221)
T ss_pred CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC----CceeEEecchhhhhHHHhhhhccceeccCceEEecc
Confidence 4567889999999999999999999999999999998765 789999999999999999 79998885 77888877
Q ss_pred cc
Q 030488 122 KR 123 (176)
Q Consensus 122 a~ 123 (176)
++
T Consensus 219 a~ 220 (221)
T KOG4206|consen 219 AK 220 (221)
T ss_pred cC
Confidence 64
No 98
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.23 E-value=3e-05 Score=62.01 Aligned_cols=76 Identities=24% Similarity=0.272 Sum_probs=61.3
Q ss_pred CCCEEEEcCC--CCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeC-C-eeeEEE
Q 030488 46 DSRSVFVGNV--DYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELH-G-RQLKVT 120 (176)
Q Consensus 46 ~~~~i~v~~l--p~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~-g-~~i~v~ 120 (176)
.++.|.+.=| -+.+|.+-|..+....|+|.+|.|.+. + ---|.|+|++.+.|++|. +||+..|. | ++|+|+
T Consensus 119 pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk-n---gVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIe 194 (494)
T KOG1456|consen 119 PNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK-N---GVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIE 194 (494)
T ss_pred CCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec-c---ceeeEEeechhHHHHHHHhhcccccccccceeEEEE
Confidence 3455555544 456999999999999999999988754 3 345999999999999999 79999883 4 699999
Q ss_pred eccCC
Q 030488 121 VKRTN 125 (176)
Q Consensus 121 ~a~~~ 125 (176)
+|++.
T Consensus 195 yAkP~ 199 (494)
T KOG1456|consen 195 YAKPT 199 (494)
T ss_pred ecCcc
Confidence 99874
No 99
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.18 E-value=1.1e-05 Score=63.65 Aligned_cols=79 Identities=20% Similarity=0.357 Sum_probs=62.4
Q ss_pred CCCCCEEEEcCCCCCCCHHH----H--HHHhhhCCCeeEEEEeeCC-C-C--CceeEEEEEecCHHHHHHHH-HhCCCee
Q 030488 44 EVDSRSVFVGNVDYSCTPEE----V--QQHFQSCGTVNRVTIRTDK-F-G--QPKGYAYVEFLQSEAVQEAL-HLNESEL 112 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~----l--~~~f~~~G~i~~~~~~~~~-~-g--~~~g~afv~f~~~~~a~~a~-~l~~~~~ 112 (176)
.....-+||-+||+.+..++ | .++|.+||.|..|.+.+.. + . .+---.||+|.+.++|..|| +.++..+
T Consensus 111 VvQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~ 190 (480)
T COG5175 111 VVQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLL 190 (480)
T ss_pred eeecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccc
Confidence 34467799999999877665 2 6899999999998886543 1 1 11122499999999999999 7999999
Q ss_pred CCeeeEEEec
Q 030488 113 HGRQLKVTVK 122 (176)
Q Consensus 113 ~g~~i~v~~a 122 (176)
+|+.|+..+-
T Consensus 191 DGr~lkatYG 200 (480)
T COG5175 191 DGRVLKATYG 200 (480)
T ss_pred cCceEeeecC
Confidence 9999999865
No 100
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.14 E-value=9.2e-06 Score=69.40 Aligned_cols=74 Identities=23% Similarity=0.409 Sum_probs=66.4
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCe-eEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTV-NRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i-~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
+.|-+.|+|++++.+||.+||..|-.+ .+|.+..+..|...|-|.|.|++.++|.+|. .|++..|..+.|.+.+
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 478899999999999999999999766 5677777778999999999999999999999 7999999999988864
No 101
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=98.12 E-value=1.5e-05 Score=50.76 Aligned_cols=67 Identities=22% Similarity=0.422 Sum_probs=45.9
Q ss_pred CEEEEcCCCCCCCHHHH----HHHhhhCC-CeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 48 RSVFVGNVDYSCTPEEV----QQHFQSCG-TVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l----~~~f~~~G-~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
..|+|.|||.+.+...| ++++.-+| .|.+| . .+.|+|.|.+.+.|+.|. .|++..+-|..|.|.+
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~-------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~ 73 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--S-------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSF 73 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-----------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEES
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--e-------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEE
Confidence 46899999999887765 55555676 55554 1 467999999999999999 7999999999999998
Q ss_pred cc
Q 030488 122 KR 123 (176)
Q Consensus 122 a~ 123 (176)
..
T Consensus 74 ~~ 75 (90)
T PF11608_consen 74 SP 75 (90)
T ss_dssp S-
T ss_pred cC
Confidence 74
No 102
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=98.08 E-value=2.1e-05 Score=63.13 Aligned_cols=79 Identities=18% Similarity=0.299 Sum_probs=68.7
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCC-ee--EEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGT-VN--RVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~-i~--~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
.....|-+.+||++.+.++|..||..|-. |. .|+++.+..|+..|-|||+|.+.++|.+|. +.+.+....+.|.|-
T Consensus 278 ~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvf 357 (508)
T KOG1365|consen 278 RSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVF 357 (508)
T ss_pred CCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEe
Confidence 34678999999999999999999998863 33 488999889999999999999999999999 788888888999997
Q ss_pred ecc
Q 030488 121 VKR 123 (176)
Q Consensus 121 ~a~ 123 (176)
.+.
T Consensus 358 p~S 360 (508)
T KOG1365|consen 358 PCS 360 (508)
T ss_pred ecc
Confidence 764
No 103
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.04 E-value=4.1e-05 Score=61.27 Aligned_cols=77 Identities=30% Similarity=0.367 Sum_probs=69.2
Q ss_pred CCCCCEEEEcCCCCC-CCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 44 EVDSRSVFVGNVDYS-CTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~-~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
..+...+.|-+|... ++-+.|..+|..||.|++|++++.+ .|.|.|+..+..+.++|+ .||+..+-|.+|.|..
T Consensus 284 ~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~ 359 (494)
T KOG1456|consen 284 GAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCV 359 (494)
T ss_pred CCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc----cceeEEEcCcHHHHHHHHHHhccCccccceEEEee
Confidence 456788999999886 6778899999999999999999887 677999999999999999 6999999999999998
Q ss_pred ccC
Q 030488 122 KRT 124 (176)
Q Consensus 122 a~~ 124 (176)
++.
T Consensus 360 SkQ 362 (494)
T KOG1456|consen 360 SKQ 362 (494)
T ss_pred ccc
Confidence 864
No 104
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.91 E-value=3.7e-05 Score=62.10 Aligned_cols=77 Identities=21% Similarity=0.282 Sum_probs=63.1
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCe-eeEEEec
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGR-QLKVTVK 122 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~-~i~v~~a 122 (176)
.+..+|++.|+|.++++++|+..|..-|...+.... .++.+.+|++.+.+.++|..|+ .++++.+... .|+|+++
T Consensus 412 PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkf---f~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFS 488 (492)
T KOG1190|consen 412 PPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKF---FQKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFS 488 (492)
T ss_pred CchhheeeccCCcccchhHHHHhhhcCCceEEeeee---cCCCcceeecccCChhHhhhhccccccccCCCCceEEEEee
Confidence 345689999999999999999999998876443221 2334779999999999999999 8999999764 8999998
Q ss_pred cC
Q 030488 123 RT 124 (176)
Q Consensus 123 ~~ 124 (176)
++
T Consensus 489 ks 490 (492)
T KOG1190|consen 489 KS 490 (492)
T ss_pred cc
Confidence 75
No 105
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=97.91 E-value=0.0002 Score=52.32 Aligned_cols=62 Identities=23% Similarity=0.419 Sum_probs=54.2
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeC
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELH 113 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~ 113 (176)
...+|.|++||.+.++++|+++..+.|.|-...+.+| +++.|+|...++++-|+ +|+...+.
T Consensus 114 Se~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD------g~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 114 SEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD------GVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred cceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc------cceeeeeeehhhHHHHHHhhcccccc
Confidence 4578999999999999999999999999977777664 57999999999999999 78877664
No 106
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.88 E-value=4.1e-05 Score=44.90 Aligned_cols=52 Identities=19% Similarity=0.364 Sum_probs=41.8
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL 105 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~ 105 (176)
+.|-|.+.+.+..+ ++..+|..||.|..+.+... ..+.+|.|.+..+|++||
T Consensus 2 ~wI~V~Gf~~~~~~-~vl~~F~~fGeI~~~~~~~~-----~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAE-EVLEHFASFGEIVDIYVPES-----TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHH-HHHHHHHhcCCEEEEEcCCC-----CcEEEEEECCHHHHHhhC
Confidence 45778888877664 45568899999999888622 568999999999999985
No 107
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.84 E-value=4.2e-05 Score=62.09 Aligned_cols=68 Identities=26% Similarity=0.391 Sum_probs=57.7
Q ss_pred cccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeC---C-C--C-C-------ceeEEEEEecCHHHHHHHHH
Q 030488 41 NREEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTD---K-F--G-Q-------PKGYAYVEFLQSEAVQEALH 106 (176)
Q Consensus 41 ~~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~---~-~--g-~-------~~g~afv~f~~~~~a~~a~~ 106 (176)
..++.+.++|.+-|||.+-.-+.|.++|..+|.|+.|+|+.. . + + . .+-+|+|+|...+.|.+|.+
T Consensus 225 ~~eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e 304 (484)
T KOG1855|consen 225 DEEELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARE 304 (484)
T ss_pred cccccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHH
Confidence 345578999999999999888999999999999999999887 2 1 1 1 26789999999999999996
Q ss_pred hC
Q 030488 107 LN 108 (176)
Q Consensus 107 l~ 108 (176)
+.
T Consensus 305 ~~ 306 (484)
T KOG1855|consen 305 LL 306 (484)
T ss_pred hh
Confidence 44
No 108
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.82 E-value=7.2e-05 Score=62.73 Aligned_cols=77 Identities=21% Similarity=0.295 Sum_probs=63.2
Q ss_pred CCCCEEEEcCCCCCC--CH----HHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeC-Cee
Q 030488 45 VDSRSVFVGNVDYSC--TP----EEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELH-GRQ 116 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~--t~----~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~-g~~ 116 (176)
.-...|+|-|+|.-- .. .-|..+|+++|+|..+.++.+..|..+||.|++|.+..+|+.|+ .|||+.|+ .++
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHt 135 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHT 135 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccce
Confidence 345789999999642 22 23578899999999999998887779999999999999999999 79999985 567
Q ss_pred eEEEe
Q 030488 117 LKVTV 121 (176)
Q Consensus 117 i~v~~ 121 (176)
+.|..
T Consensus 136 f~v~~ 140 (698)
T KOG2314|consen 136 FFVRL 140 (698)
T ss_pred EEeeh
Confidence 77754
No 109
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.78 E-value=8.9e-05 Score=61.51 Aligned_cols=63 Identities=30% Similarity=0.501 Sum_probs=49.3
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC--C--CCcee---EEEEEecCHHHHHHHH-Hh
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK--F--GQPKG---YAYVEFLQSEAVQEAL-HL 107 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~--~--g~~~g---~afv~f~~~~~a~~a~-~l 107 (176)
..-.++||||+||++++|+.|...|..||.+ .|.++... . -..+| |+|+.|+++.+++..| +.
T Consensus 256 ~~~S~KVFvGGlp~dise~~i~~~F~~FGs~-~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129|consen 256 PRYSRKVFVGGLPWDITEAQINASFGQFGSV-KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred cccccceeecCCCccccHHHHHhhcccccce-EeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence 3447889999999999999999999999987 33444211 1 23466 9999999999998888 53
No 110
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=97.70 E-value=0.0002 Score=47.54 Aligned_cols=75 Identities=20% Similarity=0.187 Sum_probs=50.7
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEE-EeeC-------CCCCceeEEEEEecCHHHHHHHHHhCCCeeCCe-ee
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVT-IRTD-------KFGQPKGYAYVEFLQSEAVQEALHLNESELHGR-QL 117 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~-~~~~-------~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~-~i 117 (176)
..-|-|=+.|+. ....|.++|++||.|.+.. +..+ ..........|.|.++.+|++||..|+..|.|. .+
T Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mv 84 (100)
T PF05172_consen 6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSLMV 84 (100)
T ss_dssp CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCEEE
T ss_pred CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcEEE
Confidence 455777799987 5577888999999997654 1111 111235688999999999999999999999886 44
Q ss_pred EEEec
Q 030488 118 KVTVK 122 (176)
Q Consensus 118 ~v~~a 122 (176)
-|.+.
T Consensus 85 GV~~~ 89 (100)
T PF05172_consen 85 GVKPC 89 (100)
T ss_dssp EEEE-
T ss_pred EEEEc
Confidence 46655
No 111
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.60 E-value=6.4e-05 Score=60.36 Aligned_cols=76 Identities=24% Similarity=0.305 Sum_probs=62.0
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhh---C-CCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEe
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQS---C-GTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTV 121 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~---~-G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~ 121 (176)
+.-.|-+.+||+++++.++.+||.. . |..+.|-+++..+|+..|-|||.|..+++|+.||.-|...|+-+.|.+-.
T Consensus 160 ~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFR 239 (508)
T KOG1365|consen 160 NQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFR 239 (508)
T ss_pred cceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 3456778899999999999999963 2 34567777776789999999999999999999997777777777766643
No 112
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.55 E-value=0.0001 Score=56.16 Aligned_cols=71 Identities=20% Similarity=0.403 Sum_probs=58.5
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-C--------CCce----eEEEEEecCHHHHHHHH-HhCCCe
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-F--------GQPK----GYAYVEFLQSEAVQEAL-HLNESE 111 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~--------g~~~----g~afv~f~~~~~a~~a~-~l~~~~ 111 (176)
....||+++||+..+...|+++|..||.|-.|.|-... + |.+. --+.|+|.+...|..+. .||+..
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~ 152 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP 152 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence 45789999999999999999999999999999886543 2 2222 23569999999999888 699999
Q ss_pred eCCee
Q 030488 112 LHGRQ 116 (176)
Q Consensus 112 ~~g~~ 116 (176)
|.|+.
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 99863
No 113
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.53 E-value=0.00042 Score=48.88 Aligned_cols=57 Identities=28% Similarity=0.427 Sum_probs=45.6
Q ss_pred HHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEeccCCC
Q 030488 63 EVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKRTNV 126 (176)
Q Consensus 63 ~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~~~~ 126 (176)
+|.+.|..||.+.=++++- +.-+|+|.+-++|.+|+.+++..++|+.|+|.+..+..
T Consensus 52 ~ll~~~~~~GevvLvRfv~-------~~mwVTF~dg~sALaals~dg~~v~g~~l~i~LKtpdW 108 (146)
T PF08952_consen 52 ELLQKFAQYGEVVLVRFVG-------DTMWVTFRDGQSALAALSLDGIQVNGRTLKIRLKTPDW 108 (146)
T ss_dssp HHHHHHHCCS-ECEEEEET-------TCEEEEESSCHHHHHHHHGCCSEETTEEEEEEE-----
T ss_pred HHHHHHHhCCceEEEEEeC-------CeEEEEECccHHHHHHHccCCcEECCEEEEEEeCCccH
Confidence 6778888999988888874 35799999999999999999999999999999886543
No 114
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.53 E-value=0.00033 Score=58.77 Aligned_cols=61 Identities=23% Similarity=0.316 Sum_probs=50.9
Q ss_pred HHHHHhhhCCCeeEEEEeeC-CC---CCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEecc
Q 030488 63 EVQQHFQSCGTVNRVTIRTD-KF---GQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKR 123 (176)
Q Consensus 63 ~l~~~f~~~G~i~~~~~~~~-~~---g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~ 123 (176)
+++.-+.+||.|..|.++++ .+ .-..|-.||+|.+.++++.|. +|+|.+|.++.|...+-.
T Consensus 425 dvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyd 490 (500)
T KOG0120|consen 425 DVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYD 490 (500)
T ss_pred HHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecC
Confidence 34555578999999999887 32 345778999999999999999 799999999999888754
No 115
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.44 E-value=0.00074 Score=56.19 Aligned_cols=65 Identities=32% Similarity=0.384 Sum_probs=58.6
Q ss_pred ccCCCCCEEEEcCCCCCCCHHHHHHHhh-hCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHH
Q 030488 42 REEVDSRSVFVGNVDYSCTPEEVQQHFQ-SCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALH 106 (176)
Q Consensus 42 ~~~~~~~~i~v~~lp~~~t~~~l~~~f~-~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~ 106 (176)
..-...++||||+||.-++.++|..+|. -||.|..+-|-+|. -+..+|-|=|+|.+..+..+||.
T Consensus 365 q~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs 431 (520)
T KOG0129|consen 365 QPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS 431 (520)
T ss_pred cccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence 3445689999999999999999999999 69999999999995 68899999999999999999993
No 116
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.42 E-value=6.8e-05 Score=57.12 Aligned_cols=62 Identities=23% Similarity=0.393 Sum_probs=49.7
Q ss_pred HHHHHHhh-hCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEecc
Q 030488 62 EEVQQHFQ-SCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKR 123 (176)
Q Consensus 62 ~~l~~~f~-~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~ 123 (176)
++|...|+ +||.|+++.+..+..-.-.|=++|.|...++|++|+ .||+..+.|++|..++.-
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~p 146 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSP 146 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecC
Confidence 34444445 899999987776553344677999999999999999 799999999999998763
No 117
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.34 E-value=0.00036 Score=56.28 Aligned_cols=76 Identities=25% Similarity=0.318 Sum_probs=65.4
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC---C-CCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEecc
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK---F-GQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKR 123 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~---~-g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~ 123 (176)
..|.|.||.+++|.++++.+|.-.|.|..+.|..+. + ....-.|||-|.+...+..|-.|.++.+-++.|.|...-
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~~ 87 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPYG 87 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEecC
Confidence 479999999999999999999999999999887633 1 345678999999999998888899999989888887653
No 118
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.31 E-value=0.00017 Score=63.02 Aligned_cols=78 Identities=21% Similarity=0.285 Sum_probs=70.8
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
...++|.|+|+..|.++|+.++.++|.+.++.+++.+.|+.+|-|+|.|.++.++..++ ..+...+....+.|..+.+
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp 814 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP 814 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence 57799999999999999999999999999999999999999999999999999999999 6888788777777777544
No 119
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.30 E-value=0.0012 Score=52.44 Aligned_cols=77 Identities=21% Similarity=0.408 Sum_probs=60.6
Q ss_pred CCCCCEEEEcCCC----CCCC-------HHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCe
Q 030488 44 EVDSRSVFVGNVD----YSCT-------PEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESE 111 (176)
Q Consensus 44 ~~~~~~i~v~~lp----~~~t-------~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~ 111 (176)
....++|.|.||= ...+ .++|.+-..+||.|.+|.|.-. .+.|.+-|.|.+.++|+.|| .|+|..
T Consensus 262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~---hPdGvvtV~f~n~eeA~~ciq~m~GR~ 338 (382)
T KOG1548|consen 262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDR---HPDGVVTVSFRNNEEADQCIQTMDGRW 338 (382)
T ss_pred ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEecc---CCCceeEEEeCChHHHHHHHHHhcCee
Confidence 3456788888882 1233 3456677789999999977532 23789999999999999999 699999
Q ss_pred eCCeeeEEEecc
Q 030488 112 LHGRQLKVTVKR 123 (176)
Q Consensus 112 ~~g~~i~v~~a~ 123 (176)
|+|+.|..++..
T Consensus 339 fdgRql~A~i~D 350 (382)
T KOG1548|consen 339 FDGRQLTASIWD 350 (382)
T ss_pred ecceEEEEEEeC
Confidence 999999988764
No 120
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.28 E-value=0.0024 Score=38.53 Aligned_cols=52 Identities=21% Similarity=0.307 Sum_probs=42.7
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhC---CCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSC---GTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL 105 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~---G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~ 105 (176)
...|+|.++. +.+.++|+.+|..| .....|.++-|. -|-|.|.+.+.|.+||
T Consensus 5 peavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt------ScNvvf~d~~~A~~AL 59 (62)
T PF10309_consen 5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT------SCNVVFKDEETAARAL 59 (62)
T ss_pred eceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC------cEEEEECCHHHHHHHH
Confidence 4679999996 57888999999998 124578888765 3889999999999998
No 121
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.22 E-value=0.00043 Score=60.98 Aligned_cols=77 Identities=19% Similarity=0.386 Sum_probs=67.4
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCC--eeeEE
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHG--RQLKV 119 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g--~~i~v 119 (176)
.....+.+||++|+.|+....|...|..||.|..|.+-.. ..||+|.|++...+++|+ .|.+..|.+ +.|.|
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg-----q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rv 525 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG-----QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRV 525 (975)
T ss_pred ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecccC-----CcceeeecccCccchhhHHHHhcCcCCCCCccccc
Confidence 4456788999999999999999999999999998877433 569999999999999999 799999976 77999
Q ss_pred EeccC
Q 030488 120 TVKRT 124 (176)
Q Consensus 120 ~~a~~ 124 (176)
.++..
T Consensus 526 dla~~ 530 (975)
T KOG0112|consen 526 DLASP 530 (975)
T ss_pred ccccC
Confidence 98864
No 122
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=96.81 E-value=0.0014 Score=55.49 Aligned_cols=75 Identities=19% Similarity=0.251 Sum_probs=60.1
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhh-CCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCee---CCeeeE
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQS-CGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESEL---HGRQLK 118 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~-~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~---~g~~i~ 118 (176)
...++.|||.||-.-.|.-.|+.++.. .|.|+..+| |+ .+..|||.|.+.++|.+.+ +||+... +.+.|.
T Consensus 441 ~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~Wm--Dk---IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~ 515 (718)
T KOG2416|consen 441 KEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWM--DK---IKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLI 515 (718)
T ss_pred CCccceEeeecccccchHHHHHHHHhhccCchHHHHH--HH---hhcceeEecccHHHHHHHHHHHhccccCCCCCceeE
Confidence 445788999999999999999999995 556666522 22 2668999999999999999 8999766 567888
Q ss_pred EEecc
Q 030488 119 VTVKR 123 (176)
Q Consensus 119 v~~a~ 123 (176)
+.+..
T Consensus 516 adf~~ 520 (718)
T KOG2416|consen 516 ADFVR 520 (718)
T ss_pred eeecc
Confidence 88764
No 123
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.69 E-value=0.0023 Score=48.94 Aligned_cols=75 Identities=23% Similarity=0.371 Sum_probs=62.4
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCC----CeeCCeeeEEEec
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNE----SELHGRQLKVTVK 122 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~----~~~~g~~i~v~~a 122 (176)
..|+|.||+.-++-+.|.+.|+.||+|+...++.|..++..+-++|.|...-.+.+|+ .++. .+..+...-|+..
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP~ 111 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEPM 111 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCChh
Confidence 7899999999999999999999999999888888878888889999999999999998 4532 2335566666554
No 124
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=96.68 E-value=0.0077 Score=47.11 Aligned_cols=61 Identities=23% Similarity=0.272 Sum_probs=48.7
Q ss_pred HHHHHHhhhCCCeeEEEEeeCCC-C-CceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 62 EEVQQHFQSCGTVNRVTIRTDKF-G-QPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 62 ~~l~~~f~~~G~i~~~~~~~~~~-g-~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
+++++-.++||.|..|.|.-..+ - .-.---||+|...++|.+|+ .||+..|+|+.+...+-
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fy 364 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFY 364 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheec
Confidence 46778889999999988776652 1 12234699999999999999 89999999998877654
No 125
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.68 E-value=0.0011 Score=57.13 Aligned_cols=77 Identities=13% Similarity=0.083 Sum_probs=64.3
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeE-EEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEe
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNR-VTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTV 121 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~-~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~ 121 (176)
.....|||-.||..+++.++.++|...-.|++ |.|....+++..+.|||.|..++++..|+ .-+.+.+..+.|+|..
T Consensus 432 ~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~s 510 (944)
T KOG4307|consen 432 GAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDS 510 (944)
T ss_pred CccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeec
Confidence 34678999999999999999999998777766 77776678888999999999988888877 4566677778888864
No 126
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.67 E-value=0.00082 Score=53.24 Aligned_cols=79 Identities=19% Similarity=0.321 Sum_probs=60.5
Q ss_pred CCCCEEEEcCCCCCCCHHHH---HHHhhhCCCeeEEEEeeCCC----CCceeEEEEEecCHHHHHHHH-HhCCCeeCCee
Q 030488 45 VDSRSVFVGNVDYSCTPEEV---QQHFQSCGTVNRVTIRTDKF----GQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQ 116 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l---~~~f~~~G~i~~~~~~~~~~----g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~ 116 (176)
.....+||-+|+.....+.+ .++|.+||.|..|.+..+.+ -....-++|+|...++|..|| ..++..++|+.
T Consensus 75 Vqknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~ 154 (327)
T KOG2068|consen 75 VQKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRA 154 (327)
T ss_pred hhhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhh
Confidence 34567888899887655544 46889999999998877651 122334899999999999999 79999999998
Q ss_pred eEEEecc
Q 030488 117 LKVTVKR 123 (176)
Q Consensus 117 i~v~~a~ 123 (176)
|+..+..
T Consensus 155 lka~~gt 161 (327)
T KOG2068|consen 155 LKASLGT 161 (327)
T ss_pred hHHhhCC
Confidence 7776553
No 127
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.59 E-value=0.00045 Score=60.85 Aligned_cols=81 Identities=22% Similarity=0.407 Sum_probs=66.5
Q ss_pred ccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 42 REEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 42 ~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
++...+.+||+|||+..+++.+|+..|..+|.|.+|.|-+.+-+....|+||.|.+.+.+-.|+ ++.+..|..-.+++.
T Consensus 367 DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~g 446 (975)
T KOG0112|consen 367 DDFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIG 446 (975)
T ss_pred cchhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCccccc
Confidence 3445689999999999999999999999999999999987765666779999999999988888 788877754444444
Q ss_pred ec
Q 030488 121 VK 122 (176)
Q Consensus 121 ~a 122 (176)
+.
T Consensus 447 lG 448 (975)
T KOG0112|consen 447 LG 448 (975)
T ss_pred cc
Confidence 43
No 128
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=96.42 E-value=0.014 Score=37.25 Aligned_cols=54 Identities=15% Similarity=0.264 Sum_probs=40.0
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLN 108 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~ 108 (176)
....||+ .|..+...||.++|+.||.| .|.++.|. -|||...+.+.+..++ .+.
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I-~VsWi~dT------SAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQI-YVSWINDT------SAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCE-EEEEECTT------EEEEEECCCHHHHHHHHHHT
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcE-EEEEEcCC------cEEEEeecHHHHHHHHHHhc
Confidence 3455665 99999999999999999998 55566543 5999999999999988 454
No 129
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.36 E-value=0.0041 Score=50.87 Aligned_cols=71 Identities=21% Similarity=0.417 Sum_probs=54.6
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCC-eeCCeeeEEEecc
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNES-ELHGRQLKVTVKR 123 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~-~~~g~~i~v~~a~ 123 (176)
..+|++||.+.++.++|..+|...-.-.+-.++.. .||+||.+.+...|.+|+ .+++. ++.|.++.|+.+-
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k-----~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv 74 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK-----SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSV 74 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeee-----cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchh
Confidence 46899999999999999999975411111112222 789999999999999999 67764 6899999998763
No 130
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.34 E-value=0.00017 Score=63.07 Aligned_cols=67 Identities=31% Similarity=0.501 Sum_probs=56.6
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHhCCCeeCC
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALHLNESELHG 114 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g 114 (176)
.++||+||+..+.+.+|...|..+|.|..+.+.-.. +++.+|.|+++|.+.+.+.+||+++...+-|
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 569999999999999999999999988877766333 6888999999999999999999765555544
No 131
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=96.18 E-value=0.078 Score=46.53 Aligned_cols=67 Identities=10% Similarity=0.210 Sum_probs=49.0
Q ss_pred EEEEcCC--CCCCCHHHHHHHhhhCCCe-----eEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 49 SVFVGNV--DYSCTPEEVQQHFQSCGTV-----NRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 49 ~i~v~~l--p~~~t~~~l~~~f~~~G~i-----~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
++|| |+ -..++..+|..++..-+.| -.|.|. ..|.||+.... .+...+ .|++..+.|+.|.|+
T Consensus 488 ~~~~-~~g~~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~-------~~~s~v~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 558 (629)
T PRK11634 488 LYRI-EVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLF-------ASHSTIELPKG-MPGEVLQHFTRTRILNKPMNMQ 558 (629)
T ss_pred EEEE-ecccccCCCHHHHHHHHHhhcCCChhhCCcEEEe-------CCceEEEcChh-hHHHHHHHhccccccCCceEEE
Confidence 3555 34 3468889999998876654 356665 45889998654 466777 799999999999999
Q ss_pred eccC
Q 030488 121 VKRT 124 (176)
Q Consensus 121 ~a~~ 124 (176)
.+..
T Consensus 559 ~~~~ 562 (629)
T PRK11634 559 LLGD 562 (629)
T ss_pred ECCC
Confidence 8753
No 132
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=96.15 E-value=0.0097 Score=43.69 Aligned_cols=78 Identities=15% Similarity=0.138 Sum_probs=47.5
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhh-CCCe---eEEEEeeCC--C-CCceeEEEEEecCHHHHHHHH-HhCCCeeCC--
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQS-CGTV---NRVTIRTDK--F-GQPKGYAYVEFLQSEAVQEAL-HLNESELHG-- 114 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~-~G~i---~~~~~~~~~--~-g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g-- 114 (176)
....+|.|++||+++|++++.+.+.. ++.- ..+.-.... . -....-|||.|.+.+++...+ .++++.|.+
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~k 84 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSK 84 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TT
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCC
Confidence 44578999999999999998887766 5544 233322222 1 223556999999999988888 799988743
Q ss_pred ---eeeEEEec
Q 030488 115 ---RQLKVTVK 122 (176)
Q Consensus 115 ---~~i~v~~a 122 (176)
....|++|
T Consensus 85 g~~~~~~VE~A 95 (176)
T PF03467_consen 85 GNEYPAVVEFA 95 (176)
T ss_dssp S-EEEEEEEE-
T ss_pred CCCcceeEEEc
Confidence 23455555
No 133
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=95.60 E-value=0.084 Score=37.21 Aligned_cols=73 Identities=19% Similarity=0.263 Sum_probs=53.9
Q ss_pred CCCCCEEEEcCCCCCCCH-H---HHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeE
Q 030488 44 EVDSRSVFVGNVDYSCTP-E---EVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLK 118 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~-~---~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~ 118 (176)
+.+..+|.|.=|..++.. + .+...++.||+|.+|.+.- +.-|.|.|.+..+|=.|+ +++. ..-|..+.
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG------rqsavVvF~d~~SAC~Av~Af~s-~~pgtm~q 155 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG------RQSAVVVFKDITSACKAVSAFQS-RAPGTMFQ 155 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC------CceEEEEehhhHHHHHHHHhhcC-CCCCceEE
Confidence 455678888876665432 3 4556678899999998863 456999999999999999 6665 55667777
Q ss_pred EEecc
Q 030488 119 VTVKR 123 (176)
Q Consensus 119 v~~a~ 123 (176)
+.+-.
T Consensus 156 CsWqq 160 (166)
T PF15023_consen 156 CSWQQ 160 (166)
T ss_pred eeccc
Confidence 77653
No 134
>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=95.41 E-value=0.35 Score=32.67 Aligned_cols=67 Identities=12% Similarity=0.125 Sum_probs=50.2
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCC-CeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCG-TVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHG 114 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G-~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g 114 (176)
...+.+...|..++.++|..+.+.+- .|..++|+++.+. ++-.+.+.|.+.++|+.-. .+||+.++.
T Consensus 13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~p-nrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTP-NRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCC-ceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 44555656666677777776666654 4678889877543 5678999999999999988 799988864
No 135
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=95.31 E-value=0.01 Score=49.25 Aligned_cols=73 Identities=16% Similarity=0.239 Sum_probs=58.6
Q ss_pred CCEEEEcCCCCC-CCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEeccC
Q 030488 47 SRSVFVGNVDYS-CTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 47 ~~~i~v~~lp~~-~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~~ 124 (176)
.+.|-+.-+|+. -|.++|..+|.+||.|..|.+-.. .-.|.|+|.+..+|-.|-..++..|+++.|+|.+-.+
T Consensus 372 hs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~-----~~~a~vTF~t~aeag~a~~s~~avlnnr~iKl~whnp 445 (526)
T KOG2135|consen 372 HSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS-----SLHAVVTFKTRAEAGEAYASHGAVLNNRFIKLFWHNP 445 (526)
T ss_pred cchhhhhccCCCCchHhhhhhhhhhcCccccccccCc-----hhhheeeeeccccccchhccccceecCceeEEEEecC
Confidence 444555555655 356899999999999999988554 3469999999999988888899999999999998654
No 136
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=95.25 E-value=0.12 Score=31.56 Aligned_cols=54 Identities=17% Similarity=0.340 Sum_probs=42.1
Q ss_pred CCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEE
Q 030488 58 SCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKV 119 (176)
Q Consensus 58 ~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v 119 (176)
.++-++++..|..|.- . +|..+++ | =||.|.+..+|++|. ..++..+-+..|.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~--~I~~d~t----G-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-D--RIRDDRT----G-FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-c--eEEecCC----E-EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 5788999999999954 2 3444543 2 489999999999999 78888888777654
No 137
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=95.07 E-value=0.058 Score=45.80 Aligned_cols=72 Identities=18% Similarity=0.290 Sum_probs=56.2
Q ss_pred CCCCEEEEcCCCCCCCHHHHHHHhhh--CCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhC--CCeeCCeeeEE
Q 030488 45 VDSRSVFVGNVDYSCTPEEVQQHFQS--CGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLN--ESELHGRQLKV 119 (176)
Q Consensus 45 ~~~~~i~v~~lp~~~t~~~l~~~f~~--~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~--~~~~~g~~i~v 119 (176)
.+.+.|.|.-||..+-+|+++.+|.. +-++.+|.+-.+. --||+|++..+|+.|. .|. -++|-|+.|..
T Consensus 173 ~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~------nWyITfesd~DAQqAykylreevk~fqgKpImA 246 (684)
T KOG2591|consen 173 HKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND------NWYITFESDTDAQQAYKYLREEVKTFQGKPIMA 246 (684)
T ss_pred cceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC------ceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence 34677889999999999999999985 5677888876543 3699999999999988 343 45777887766
Q ss_pred Eec
Q 030488 120 TVK 122 (176)
Q Consensus 120 ~~a 122 (176)
.++
T Consensus 247 RIK 249 (684)
T KOG2591|consen 247 RIK 249 (684)
T ss_pred hhh
Confidence 554
No 138
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=95.02 E-value=0.077 Score=39.23 Aligned_cols=60 Identities=18% Similarity=0.230 Sum_probs=43.7
Q ss_pred CHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhC--CCeeCCeeeEEEeccC
Q 030488 60 TPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLN--ESELHGRQLKVTVKRT 124 (176)
Q Consensus 60 t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~--~~~~~g~~i~v~~a~~ 124 (176)
..+.|+++|..++.+..+..... .+-..|.|.+.++|..|. .|+ +..+.|..|+|-++..
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s-----FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~ 70 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS-----FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQP 70 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT-----TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----
T ss_pred hHHHHHHHHHhcCCceEEEEcCC-----CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccc
Confidence 45789999999998877766543 455899999999999999 688 8999999999998853
No 139
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=94.91 E-value=0.03 Score=48.27 Aligned_cols=72 Identities=24% Similarity=0.314 Sum_probs=61.5
Q ss_pred ccCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEE
Q 030488 42 REEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVT 120 (176)
Q Consensus 42 ~~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~ 120 (176)
....+..++||+|+...+..+-++..+..+|.|.++.... |+|.+|........|+ .++...++|..+.+.
T Consensus 35 ~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~--------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~ 106 (668)
T KOG2253|consen 35 QPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK--------FGFCEFLKHIGDLRASRLLTELNIDDQKLIEN 106 (668)
T ss_pred cCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh--------hcccchhhHHHHHHHHHHhcccCCCcchhhcc
Confidence 3445678999999999999999999999999998776542 9999999999999999 688889999887776
Q ss_pred e
Q 030488 121 V 121 (176)
Q Consensus 121 ~ 121 (176)
.
T Consensus 107 ~ 107 (668)
T KOG2253|consen 107 V 107 (668)
T ss_pred c
Confidence 5
No 140
>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=94.67 E-value=0.19 Score=31.32 Aligned_cols=58 Identities=19% Similarity=0.405 Sum_probs=35.5
Q ss_pred CCCCHHHHHHHhhhCCC-----eeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 57 YSCTPEEVQQHFQSCGT-----VNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 57 ~~~t~~~l~~~f~~~G~-----i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
..++..+|..++...+. |-.|.|. ..|+||+-... .++.++ .|++..+.|+.|+|+.|
T Consensus 11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~-------~~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 11 DGLTPRDIVGAICNEAGIPGRDIGRIDIF-------DNFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp GT--HHHHHHHHHTCTTB-GGGEEEEEE--------SS-EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred cCCCHHHHHHHHHhccCCCHHhEEEEEEe-------eeEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence 35888999999987754 4577776 45899998764 577788 79999999999999875
No 141
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=94.17 E-value=0.12 Score=40.83 Aligned_cols=66 Identities=20% Similarity=0.218 Sum_probs=49.1
Q ss_pred EEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCeeCCe-eeEEEe
Q 030488 50 VFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESELHGR-QLKVTV 121 (176)
Q Consensus 50 i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~-~i~v~~ 121 (176)
|=|-++|+.- ..-|..+|++||.|.+.... . +-.+-+|.|.+.-+|++||..|++.|+|. .|-|..
T Consensus 200 VTVfGFppg~-~s~vL~~F~~cG~Vvkhv~~--~---ngNwMhirYssr~~A~KALskng~ii~g~vmiGVkp 266 (350)
T KOG4285|consen 200 VTVFGFPPGQ-VSIVLNLFSRCGEVVKHVTP--S---NGNWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKP 266 (350)
T ss_pred EEEeccCccc-hhHHHHHHHhhCeeeeeecC--C---CCceEEEEecchhHHHHhhhhcCeeeccceEEeeee
Confidence 4444677653 35677899999999775443 2 25588999999999999998899999885 344554
No 142
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=93.29 E-value=0.06 Score=47.80 Aligned_cols=71 Identities=23% Similarity=0.209 Sum_probs=59.3
Q ss_pred EEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCee--CCeeeEEEeccCC
Q 030488 50 VFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESEL--HGRQLKVTVKRTN 125 (176)
Q Consensus 50 i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~--~g~~i~v~~a~~~ 125 (176)
.++.|.+-+.+...|..+|.+||.|.+++..++ ...|.|+|.+.+.|-.|+ +++|+++ -|-+.+|.+|+..
T Consensus 301 ~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~-----~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~ 374 (1007)
T KOG4574|consen 301 QSLENNAVNLTSSSLATLCSDYGSVASAWTLRD-----LNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTL 374 (1007)
T ss_pred hhhhcccccchHHHHHHHHHhhcchhhheeccc-----ccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecccc
Confidence 344455556788889999999999999988777 668999999999999999 7999876 5778999998754
No 143
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=93.15 E-value=0.0075 Score=48.89 Aligned_cols=71 Identities=14% Similarity=0.102 Sum_probs=56.5
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEE
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVT 120 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~ 120 (176)
.++|+|++|+..+...++.++|..+|.|...++. .+...-+|.|+|....+...|+.+++.++.-+...+.
T Consensus 151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a---sk~~s~~c~~sf~~qts~~halr~~gre~k~qhsr~a 221 (479)
T KOG4676|consen 151 RRTREVQSLISAAILPESGESFERKGEVSYAHTA---SKSRSSSCSHSFRKQTSSKHALRSHGRERKRQHSRRA 221 (479)
T ss_pred Hhhhhhhcchhhhcchhhhhhhhhcchhhhhhhh---ccCCCcchhhhHhhhhhHHHHHHhcchhhhhhhhhhh
Confidence 4789999999999999999999999998766553 3334567889999998888999888888765444443
No 144
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=91.85 E-value=0.08 Score=41.88 Aligned_cols=77 Identities=19% Similarity=0.157 Sum_probs=61.3
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHhCCC-eeCCeeeEEEec
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALHLNES-ELHGRQLKVTVK 122 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~-~~~g~~i~v~~a 122 (176)
...++|++++.+.+.+.++..++..+|.+....+.... ...+++++.+.|...+.+..|+.+... .+.+..+...+.
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~ 165 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLN 165 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccc
Confidence 36789999999999999899999999987766665544 578899999999999999999976664 555555554443
No 145
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=91.59 E-value=0.95 Score=35.63 Aligned_cols=47 Identities=6% Similarity=0.169 Sum_probs=35.9
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCe-eEEEEeeCCCCCceeEEEEEecCH
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTV-NRVTIRTDKFGQPKGYAYVEFLQS 98 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i-~~~~~~~~~~g~~~g~afv~f~~~ 98 (176)
..-|+++|||.++...||+..+.+-+-+ .++.+.- +.+-||+.|.+.
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg-----~~~k~flh~~~~ 377 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKG-----HFGKCFLHFGNR 377 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCceeEeeec-----CCcceeEecCCc
Confidence 4559999999999999999999987654 3444422 266799999664
No 146
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.55 E-value=1.5 Score=37.82 Aligned_cols=79 Identities=22% Similarity=0.331 Sum_probs=60.5
Q ss_pred CCCCCEEEEcCCCCC-CCHHHHHHHhhhC----CCeeEEEEeeCCCCCc-------------------------------
Q 030488 44 EVDSRSVFVGNVDYS-CTPEEVQQHFQSC----GTVNRVTIRTDKFGQP------------------------------- 87 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~-~t~~~l~~~f~~~----G~i~~~~~~~~~~g~~------------------------------- 87 (176)
...+++|-|.|+.|. +...+|.-+|..| |.|.+|.|.....|+.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 345788999999997 7888999888865 5888888765432221
Q ss_pred -----------------eeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 88 -----------------KGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 88 -----------------~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
.=||.|+|.+.+.|.+.- .++|.++...-..+.+.
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLR 303 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLR 303 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeee
Confidence 247899999999999888 79999997766666554
No 147
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=90.27 E-value=1.7 Score=36.36 Aligned_cols=67 Identities=12% Similarity=0.160 Sum_probs=56.7
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCC-CeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCG-TVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHG 114 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G-~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g 114 (176)
...|+|=.+|..+|.-||-.|...+- .|.+++|++|.... +=.++|.|.+.++|...- .+||..|+.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pn-rymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPN-RYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCc-eEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 78899999999999999999998765 57899999865332 446899999999999999 799998864
No 148
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=89.96 E-value=0.53 Score=40.07 Aligned_cols=76 Identities=17% Similarity=0.243 Sum_probs=46.4
Q ss_pred CEEEEcCCCCCCCHHHHHHHhh-hCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCee---CC-eeeEEE
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQ-SCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESEL---HG-RQLKVT 120 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~-~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~---~g-~~i~v~ 120 (176)
+++.|.|+|...|...|...-. ..|.-..+.++.|- +..+.|||||.|.+.+++..+. +.|++.. .. +...+.
T Consensus 389 tt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~it 468 (549)
T KOG4660|consen 389 TTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASIT 468 (549)
T ss_pred hhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeee
Confidence 3344444444433333322222 24445566777775 5667999999999999999988 6888654 32 344555
Q ss_pred ecc
Q 030488 121 VKR 123 (176)
Q Consensus 121 ~a~ 123 (176)
+|+
T Consensus 469 YAr 471 (549)
T KOG4660|consen 469 YAR 471 (549)
T ss_pred hhh
Confidence 554
No 149
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.09 E-value=6.5 Score=32.58 Aligned_cols=62 Identities=15% Similarity=0.093 Sum_probs=48.7
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCe-eEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCe
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTV-NRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESE 111 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i-~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~ 111 (176)
..-.+.|-|-++|.....+||...|+.|+.- =+|.|+-+ -.||..|.+...|..||.+...+
T Consensus 388 ~dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDd------thalaVFss~~~AaeaLt~kh~~ 450 (528)
T KOG4483|consen 388 SDLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDD------THALAVFSSVNRAAEALTLKHDW 450 (528)
T ss_pred ccccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeec------ceeEEeecchHHHHHHhhccCce
Confidence 3356788899999999999999999999753 34555543 37999999999999999764333
No 150
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=83.81 E-value=0.14 Score=38.74 Aligned_cols=60 Identities=30% Similarity=0.468 Sum_probs=49.6
Q ss_pred CCCEEEEcC----CCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH
Q 030488 46 DSRSVFVGN----VDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL 105 (176)
Q Consensus 46 ~~~~i~v~~----lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~ 105 (176)
...+++.|+ |...++++.+.+.|++-+++..+++.++.+|+++.+.|+++.-..+.-.++
T Consensus 79 ~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnrn~~~~~~qr~~~~P~~~ 142 (267)
T KOG4454|consen 79 EQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDNDGRNRNFGFVTYQRLCAVPFAL 142 (267)
T ss_pred hhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccccCCccCccchhhhhhhcCcHHh
Confidence 356777787 777899999999999999999999998888999999999986655554555
No 151
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=83.77 E-value=1.1 Score=32.98 Aligned_cols=74 Identities=12% Similarity=0.210 Sum_probs=52.1
Q ss_pred CEEEEcCCCCCCCHH-----HHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCe-eeEEE
Q 030488 48 RSVFVGNVDYSCTPE-----EVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGR-QLKVT 120 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~-----~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~-~i~v~ 120 (176)
.++.+.+|+..+..+ ....+|.+|-+..-..+.+. .++.-|.|.+.+.|..|. .++...|.|. .++.-
T Consensus 11 ~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrs-----frrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~y 85 (193)
T KOG4019|consen 11 TAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRS-----FRRVRINFSNPEAAADARIKLHSTSFNGKNELKLY 85 (193)
T ss_pred ceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHh-----hceeEEeccChhHHHHHHHHhhhcccCCCceEEEE
Confidence 457777887764332 33455666655544444432 566789999999999999 8999999998 88888
Q ss_pred eccCCC
Q 030488 121 VKRTNV 126 (176)
Q Consensus 121 ~a~~~~ 126 (176)
++....
T Consensus 86 faQ~~~ 91 (193)
T KOG4019|consen 86 FAQPGH 91 (193)
T ss_pred EccCCC
Confidence 887544
No 152
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=83.59 E-value=0.084 Score=43.49 Aligned_cols=74 Identities=22% Similarity=0.260 Sum_probs=61.1
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEee-CCCCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEec
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRT-DKFGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVK 122 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~-~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a 122 (176)
..+.+-|.|+|+...++-|..++.+||.++.|..+. +.. ....-|+|...+.+..|| .+++..+....++|.+-
T Consensus 79 rsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~e---tavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~Yi 154 (584)
T KOG2193|consen 79 RSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSE---TAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYI 154 (584)
T ss_pred HhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchH---HHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccC
Confidence 356689999999999999999999999998886533 221 223457899999999999 89999999999999875
No 153
>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=81.45 E-value=3.4 Score=25.32 Aligned_cols=61 Identities=21% Similarity=0.342 Sum_probs=43.3
Q ss_pred HHHHHHhhhCC-CeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEeccC
Q 030488 62 EEVQQHFQSCG-TVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 62 ~~l~~~f~~~G-~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~~ 124 (176)
++|.+.|...| .|..+.-+..+ +......-||+.....+...+ ++=..++++.|+|+..+.
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~i--~~Ik~l~~~~V~vE~~~k 64 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKEI--YKIKTLCGQRVKVERPRK 64 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccce--eehHhhCCeEEEEecCCC
Confidence 56778888877 57777777766 567778888888765553332 444578899999997753
No 154
>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=79.80 E-value=4.2 Score=32.22 Aligned_cols=80 Identities=19% Similarity=0.303 Sum_probs=57.0
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC--------CCCceeEEEEEecCHHHHHHHH-----HhCC
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK--------FGQPKGYAYVEFLQSEAVQEAL-----HLNE 109 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~--------~g~~~g~afv~f~~~~~a~~a~-----~l~~ 109 (176)
++-.++.|...||..+++--.+...|-+||+|++|.++.+. .-+......+.|-+.+.+...- .|..
T Consensus 11 D~YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsE 90 (309)
T PF10567_consen 11 DEYRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSE 90 (309)
T ss_pred ccceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHH
Confidence 34557888899999999999999999999999999998765 2234567889998888765422 1221
Q ss_pred --CeeCCeeeEEEec
Q 030488 110 --SELHGRQLKVTVK 122 (176)
Q Consensus 110 --~~~~g~~i~v~~a 122 (176)
+.+.-..|.|.+.
T Consensus 91 fK~~L~S~~L~lsFV 105 (309)
T PF10567_consen 91 FKTKLKSESLTLSFV 105 (309)
T ss_pred HHHhcCCcceeEEEE
Confidence 3345555666543
No 155
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=77.74 E-value=8 Score=23.23 Aligned_cols=20 Identities=20% Similarity=0.458 Sum_probs=16.0
Q ss_pred HHHHHHhhhCCCeeEEEEee
Q 030488 62 EEVQQHFQSCGTVNRVTIRT 81 (176)
Q Consensus 62 ~~l~~~f~~~G~i~~~~~~~ 81 (176)
.+|+++|+..|.|.=+.+..
T Consensus 9 ~~iR~~fs~lG~I~vLYvn~ 28 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVNP 28 (62)
T ss_pred HHHHHHHHhcCcEEEEEEcc
Confidence 57999999999997665543
No 156
>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT. SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.
Probab=77.14 E-value=3.1 Score=28.38 Aligned_cols=48 Identities=23% Similarity=0.340 Sum_probs=28.0
Q ss_pred CCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCH-HHHHHHHHhC
Q 030488 59 CTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQS-EAVQEALHLN 108 (176)
Q Consensus 59 ~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~-~~a~~a~~l~ 108 (176)
.+.++|.+.|..|.+++ ++.+.+.. -+.|++.|.|.+. .-...|+.|+
T Consensus 29 ~~~~~l~~~l~~f~p~k-v~~l~~~~-gh~g~aiv~F~~~w~Gf~~A~~l~ 77 (116)
T PF03468_consen 29 MSNEELLDKLAEFNPLK-VKPLYGKQ-GHTGFAIVEFNKDWSGFKNAMRLE 77 (116)
T ss_dssp --SHHHHHHHHH---SE-EEEEEETT-EEEEEEEEE--SSHHHHHHHHHHH
T ss_pred cCHHHHHHHHHhcCCce-eEECcCCC-CCcEEEEEEECCChHHHHHHHHHH
Confidence 35578999999998874 55555544 4489999999653 4455666554
No 157
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=75.39 E-value=6.4 Score=24.19 Aligned_cols=60 Identities=18% Similarity=0.277 Sum_probs=42.2
Q ss_pred HHHHHHhhhCC-CeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEecc
Q 030488 62 EEVQQHFQSCG-TVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKR 123 (176)
Q Consensus 62 ~~l~~~f~~~G-~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~ 123 (176)
++|++.|...| ++..+.-+..+ +......-+|+.....+... .++=..|++++|.|+...
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~--Il~ik~Lg~~~V~VEr~~ 63 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE--ILNIKTLGGQRVTVERPH 63 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc--eEeehhhCCeeEEEecCc
Confidence 46788888888 67888877776 45666777888766543333 244457899999998764
No 158
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=67.19 E-value=8.5 Score=28.36 Aligned_cols=62 Identities=19% Similarity=0.183 Sum_probs=41.6
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCC--CceeEEEEEecCHHHHHHHHHhCC
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFG--QPKGYAYVEFLQSEAVQEALHLNE 109 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g--~~~g~afv~f~~~~~a~~a~~l~~ 109 (176)
....+++|.. +.+...++|.++-+ |.+..|.+.....+ ..+|-.||+|.+.+.|.+++.-+.
T Consensus 108 ~~~~r~v~~K--~td~ql~~l~qw~~--~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~~~e 171 (205)
T KOG4213|consen 108 GIKERTVYKK--ITDDQLDDLNQWAS--GKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDDTHE 171 (205)
T ss_pred HHHHhhhhcc--CCHHHHHHHHHHhc--ccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhhhhh
Confidence 3445667765 33344455555555 78888877554444 678999999999999999884343
No 159
>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=65.75 E-value=8.5 Score=24.88 Aligned_cols=32 Identities=22% Similarity=0.276 Sum_probs=24.6
Q ss_pred EEEEecCHHHHHHHHH--hCCCeeCCeeeEEEec
Q 030488 91 AYVEFLQSEAVQEALH--LNESELHGRQLKVTVK 122 (176)
Q Consensus 91 afv~f~~~~~a~~a~~--l~~~~~~g~~i~v~~a 122 (176)
|.|+|.+..-|+..+. -+...+++..+.|...
T Consensus 1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~ 34 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVS 34 (88)
T ss_pred CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEE
Confidence 6899999999999995 4555667777766644
No 160
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=64.71 E-value=8.7 Score=30.34 Aligned_cols=36 Identities=11% Similarity=0.363 Sum_probs=28.5
Q ss_pred CCCEEEEcCCCCC------------CCHHHHHHHhhhCCCeeEEEEee
Q 030488 46 DSRSVFVGNVDYS------------CTPEEVQQHFQSCGTVNRVTIRT 81 (176)
Q Consensus 46 ~~~~i~v~~lp~~------------~t~~~l~~~f~~~G~i~~~~~~~ 81 (176)
...+||+.+||-. .+++-|...|+.||.|..|.|+.
T Consensus 148 rpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipi 195 (445)
T KOG2891|consen 148 RPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPI 195 (445)
T ss_pred CCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcc
Confidence 3567888888753 35678999999999998888754
No 161
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=63.56 E-value=14 Score=27.59 Aligned_cols=57 Identities=28% Similarity=0.418 Sum_probs=40.0
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCC-CceeEEEEEecCHHH
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFG-QPKGYAYVEFLQSEA 100 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g-~~~g~afv~f~~~~~ 100 (176)
......+++.+++..++..++...|..+|.+....+...... ....+.++.+.....
T Consensus 222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 279 (306)
T COG0724 222 LEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKD 279 (306)
T ss_pred ccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHh
Confidence 445788999999999999999999999999977666555432 233333444433333
No 162
>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=61.24 E-value=21 Score=23.05 Aligned_cols=26 Identities=23% Similarity=0.383 Sum_probs=21.3
Q ss_pred cCCCCCEEEEcCCCCCCCHHHHHHHh
Q 030488 43 EEVDSRSVFVGNVDYSCTPEEVQQHF 68 (176)
Q Consensus 43 ~~~~~~~i~v~~lp~~~t~~~l~~~f 68 (176)
.....++|-|.|||...++++|++.+
T Consensus 48 ~~vs~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 48 SGVSKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred EcccCCEEEEeCCCCCCChhhheeeE
Confidence 44567899999999999999988543
No 163
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.31 E-value=1.9 Score=35.94 Aligned_cols=75 Identities=4% Similarity=-0.119 Sum_probs=58.8
Q ss_pred EEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeeeEEEeccC
Q 030488 49 SVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQLKVTVKRT 124 (176)
Q Consensus 49 ~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i~v~~a~~ 124 (176)
+-|+..||..++++++.-+|..||.|..+.+...- .+...-.+|++-.. +.+..|| .+....+.+..++|.++..
T Consensus 5 ~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~q~~~~~~~r~~~~~~ 81 (572)
T KOG4365|consen 5 KKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKRQTTFESQDRKAVSPS 81 (572)
T ss_pred hhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccCHHHHhhhhhhhhhhhcCch
Confidence 45677889999999999999999999888776544 35667778887654 4577888 6888888888888888753
No 164
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=59.78 E-value=1.1 Score=38.30 Aligned_cols=72 Identities=19% Similarity=0.182 Sum_probs=54.2
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH-HhCCCeeCCeee
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL-HLNESELHGRQL 117 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~-~l~~~~~~g~~i 117 (176)
..+++||.|++++++-++|..++..+--+..+.+...- ..+...+..|+|.---.+..|+ +||+.-+....+
T Consensus 230 ke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s~~~ 303 (648)
T KOG2295|consen 230 KECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRSNFL 303 (648)
T ss_pred HHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccccccc
Confidence 35779999999999999999999988666666554433 3445667888998777777777 788877765443
No 165
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=59.42 E-value=9.1 Score=29.41 Aligned_cols=33 Identities=21% Similarity=0.334 Sum_probs=28.4
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhhhCCCeeE
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQSCGTVNR 76 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~ 76 (176)
.....++|+-|||..+|++.|.++.+++|.+..
T Consensus 37 ~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~ 69 (261)
T KOG4008|consen 37 SNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQE 69 (261)
T ss_pred cccccceeeecccccccHHHHHHHHHHhhhhhh
Confidence 455688999999999999999999999986544
No 166
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=57.54 E-value=24 Score=30.22 Aligned_cols=59 Identities=19% Similarity=0.215 Sum_probs=44.6
Q ss_pred EEcCCCCCCC---HHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCeeCCeee
Q 030488 51 FVGNVDYSCT---PEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESELHGRQL 117 (176)
Q Consensus 51 ~v~~lp~~~t---~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i 117 (176)
+||||+.-.. ...+.++=.+||+|-.+++-. .-.|.-.+.+.|+.|+.-++..+.++..
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~--------~~~Vviss~~~akE~l~~~d~~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGS--------VPVVVISSYEAAKEVLVKQDLEFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecC--------ceEEEECCHHHHHHHHHhCCccccCCCC
Confidence 4888876543 355666667899998777732 2478888999999999888999988875
No 167
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=44.68 E-value=9.7 Score=31.52 Aligned_cols=60 Identities=17% Similarity=0.195 Sum_probs=48.4
Q ss_pred CCCEEEEcCCCCCCCHH--------HHHHHhhh--CCCeeEEEEeeCC-CCCceeEEEEEecCHHHHHHHH
Q 030488 46 DSRSVFVGNVDYSCTPE--------EVQQHFQS--CGTVNRVTIRTDK-FGQPKGYAYVEFLQSEAVQEAL 105 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~--------~l~~~f~~--~G~i~~~~~~~~~-~g~~~g~afv~f~~~~~a~~a~ 105 (176)
..+.+|+.+.....+.+ ++..+|.. .+++..+.+.++. ...++|..|++|...+.+++.+
T Consensus 173 ~qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~n 243 (438)
T COG5193 173 MQRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFN 243 (438)
T ss_pred HhhhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHh
Confidence 34667887777665544 89999998 6677888888777 6778899999999999999987
No 168
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=43.95 E-value=1.3e+02 Score=25.31 Aligned_cols=6 Identities=33% Similarity=0.302 Sum_probs=2.6
Q ss_pred eeEEEE
Q 030488 88 KGYAYV 93 (176)
Q Consensus 88 ~g~afv 93 (176)
.|.|++
T Consensus 342 ~G~ai~ 347 (456)
T PRK10590 342 TGEALS 347 (456)
T ss_pred CeeEEE
Confidence 344443
No 169
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=43.46 E-value=61 Score=20.81 Aligned_cols=49 Identities=14% Similarity=0.205 Sum_probs=30.5
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQ 97 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~ 97 (176)
..-||||+++..+.+.-...+.+..+. -++.++..... ..||+|-...+
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~-G~a~m~~~~~n-eqG~~~~t~G~ 73 (86)
T PF09707_consen 25 RPGVYVGNVSARVRERLWERVTEWIGD-GSAVMVWSDNN-EQGFDFRTLGD 73 (86)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHhhCCC-ccEEEEEccCC-CCCEEEEEeCC
Confidence 456999999988877655555554332 23344443333 68899988743
No 170
>PF14077 WD40_alt: Alternative WD40 repeat motif
Probab=43.12 E-value=29 Score=19.43 Aligned_cols=22 Identities=32% Similarity=0.735 Sum_probs=18.3
Q ss_pred ChhhHHHHHHHHHHHHHHHHhh
Q 030488 1 MKIRLKEMEEEATALRQMHAKV 22 (176)
Q Consensus 1 ~~~~~~e~e~~~~~~~~~~~~~ 22 (176)
+|.|..|+|++...++.+...+
T Consensus 16 l~vrv~eLEeEV~~LrKINrdL 37 (48)
T PF14077_consen 16 LRVRVSELEEEVRTLRKINRDL 37 (48)
T ss_pred heeeHHHHHHHHHHHHHHhHHH
Confidence 4678899999999999887654
No 171
>PF14893 PNMA: PNMA
Probab=43.11 E-value=26 Score=28.44 Aligned_cols=51 Identities=20% Similarity=0.321 Sum_probs=30.9
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhh-CCCeeEEEEeeCC--CCCceeEEEEEecC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQS-CGTVNRVTIRTDK--FGQPKGYAYVEFLQ 97 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~-~G~i~~~~~~~~~--~g~~~g~afv~f~~ 97 (176)
.+.|.|.+||.++++++|++.+.. .-++-..++.... ...+.--|+|+|..
T Consensus 18 ~r~lLv~giP~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~~~~~~aalve~~e 71 (331)
T PF14893_consen 18 QRALLVLGIPEDCEEAEIEEALQAALSPLGRYRVLGKMFRREENAKAALVEFAE 71 (331)
T ss_pred hhhheeecCCCCCCHHHHHHHHHHhhcccccceehhhHhhhhcccceeeeeccc
Confidence 467889999999999999888764 2222222332211 11123357888754
No 172
>PF11411 DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536 DNA ligase IV along with Xrcc4 functions in DNA non-homologous end joining. This process is required to mend double-strand breaks. Upon ligase binding to an Xrcc4 dimer, the helical tails unwind leading to a flat interaction surface []. ; GO: 0003910 DNA ligase (ATP) activity; PDB: 3II6_Y 2E2W_A 1IK9_C.
Probab=42.55 E-value=20 Score=19.03 Aligned_cols=16 Identities=6% Similarity=0.233 Sum_probs=10.3
Q ss_pred CCCCHHHHHHHhhhCC
Q 030488 57 YSCTPEEVQQHFQSCG 72 (176)
Q Consensus 57 ~~~t~~~l~~~f~~~G 72 (176)
.++++++|++.|.+..
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 3688999999998764
No 173
>PHA01632 hypothetical protein
Probab=41.58 E-value=32 Score=20.16 Aligned_cols=21 Identities=19% Similarity=0.319 Sum_probs=17.2
Q ss_pred EEEcCCCCCCCHHHHHHHhhh
Q 030488 50 VFVGNVDYSCTPEEVQQHFQS 70 (176)
Q Consensus 50 i~v~~lp~~~t~~~l~~~f~~ 70 (176)
|.|-.+|..-|+++|+..+.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 445688999999999988864
No 174
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=38.56 E-value=56 Score=25.60 Aligned_cols=33 Identities=9% Similarity=0.132 Sum_probs=24.6
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEE
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTI 79 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~ 79 (176)
.....|+|||++++..-|..++...-.+....+
T Consensus 95 ~~~~vVaNlPY~Isspii~kll~~~~~~~~~v~ 127 (259)
T COG0030 95 QPYKVVANLPYNISSPILFKLLEEKFIIQDMVL 127 (259)
T ss_pred CCCEEEEcCCCcccHHHHHHHHhccCccceEEE
Confidence 456679999999999999999887544433333
No 175
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=38.24 E-value=39 Score=27.85 Aligned_cols=66 Identities=18% Similarity=0.183 Sum_probs=44.5
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCC-eeEEEEeeCCC---CCceeEEEEEecCHHHHHHHH-HhCCCee
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGT-VNRVTIRTDKF---GQPKGYAYVEFLQSEAVQEAL-HLNESEL 112 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~-i~~~~~~~~~~---g~~~g~afv~f~~~~~a~~a~-~l~~~~~ 112 (176)
-..|.|.+||+..++.+|.+....+-. +....+..... ..-.+.|+|.|...++...-. .++++.+
T Consensus 7 ~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~if 77 (376)
T KOG1295|consen 7 KVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIF 77 (376)
T ss_pred ceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEE
Confidence 457889999999999998888777532 23333332221 122567899999999866666 4777655
No 176
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=37.19 E-value=1e+02 Score=19.12 Aligned_cols=62 Identities=16% Similarity=0.051 Sum_probs=38.4
Q ss_pred EEEcCCCCCCCHHHHHHHhhhCCCe----eEEEEeeCC--CCCceeEEEEEecCHHHHHHHHHhCCCe
Q 030488 50 VFVGNVDYSCTPEEVQQHFQSCGTV----NRVTIRTDK--FGQPKGYAYVEFLQSEAVQEALHLNESE 111 (176)
Q Consensus 50 i~v~~lp~~~t~~~l~~~f~~~G~i----~~~~~~~~~--~g~~~g~afv~f~~~~~a~~a~~l~~~~ 111 (176)
|-..+||..+|.++|.....+.-.+ ..|.++... ....+-||+.+=.|.+.+.++-...|..
T Consensus 3 mver~~p~~it~e~l~~~~~~~~~~~~~~~~V~w~~s~v~~d~~k~~Cly~Ap~~eaV~~~~~~aG~p 70 (77)
T PF14026_consen 3 MVERDFPGGITAEDLAAAHAKSCAVQAEMPGVQWLRSYVSEDDGKIFCLYEAPDEEAVREHARRAGLP 70 (77)
T ss_pred EEEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeEEEEEEEecCCCeEEEEEECCCHHHHHHHHHHcCCC
Confidence 3456788889999988777543211 233333322 1234778888888888887776444443
No 177
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=37.10 E-value=67 Score=21.16 Aligned_cols=50 Identities=20% Similarity=0.234 Sum_probs=29.7
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCH
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQS 98 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~ 98 (176)
..-||||+++..+.+.--..+-+.++. -++.++.. +....||.|-++.+.
T Consensus 27 ~~GVyVg~~S~rVRd~lW~~v~~~~~~-G~avmv~~-~~~eqG~~~~t~G~~ 76 (97)
T PRK11558 27 RAGVYVGDVSRRIREMIWQQVTQLAEE-GNVVMAWA-TNTESGFEFQTFGEN 76 (97)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCC-CcEEEEEc-CCCCCCcEEEecCCC
Confidence 456999999887776544444443432 23344442 233459999888653
No 178
>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=36.33 E-value=54 Score=26.05 Aligned_cols=32 Identities=25% Similarity=0.309 Sum_probs=22.7
Q ss_pred EEEEecCHHHHHHHHH-hCCCeeCCeeeEEEeccC
Q 030488 91 AYVEFLQSEAVQEALH-LNESELHGRQLKVTVKRT 124 (176)
Q Consensus 91 afv~f~~~~~a~~a~~-l~~~~~~g~~i~v~~a~~ 124 (176)
|||+|.+..+|+.|++ +.... ...+.|+.|-+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APe 33 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPE 33 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCC
Confidence 7999999999999995 33333 24457766643
No 179
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=34.81 E-value=2.1e+02 Score=24.61 Aligned_cols=61 Identities=15% Similarity=0.111 Sum_probs=40.2
Q ss_pred CEEEEcCCCCCCCHHHHHHHhh----hCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhC
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQ----SCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLN 108 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~----~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~ 108 (176)
..+-++.-..+.+.-+|..+|. .+|-|.++.|...+........++.|.+.+++..++ .+.
T Consensus 190 ~i~~~~~~~~~~~g~dl~~l~~Gs~GtlGIIt~atlkl~p~p~~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 190 EALTLGSDALDSPGFDLLALFTGSEGMLGVVTEVTVKLLPKPPVARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred cEEEeCCccCCCCccchHhhhccCCCccEEEEEEEEEEEcCCcceEEEEEECCCHHHHHHHHHHHH
Confidence 3444443222233456777665 577888888776654445667789999999999988 543
No 180
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=33.21 E-value=42 Score=25.99 Aligned_cols=24 Identities=17% Similarity=0.405 Sum_probs=21.2
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHhh
Q 030488 46 DSRSVFVGNVDYSCTPEEVQQHFQ 69 (176)
Q Consensus 46 ~~~~i~v~~lp~~~t~~~l~~~f~ 69 (176)
....++|+|||+.++..-|.+++.
T Consensus 96 ~~~~~vv~NlPy~is~~il~~ll~ 119 (262)
T PF00398_consen 96 NQPLLVVGNLPYNISSPILRKLLE 119 (262)
T ss_dssp SSEEEEEEEETGTGHHHHHHHHHH
T ss_pred CCceEEEEEecccchHHHHHHHhh
Confidence 456789999999999999999987
No 181
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=32.28 E-value=16 Score=22.32 Aligned_cols=26 Identities=19% Similarity=0.393 Sum_probs=18.4
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhh
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQ 69 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~ 69 (176)
...++++|||.||..+-.+.=..++.
T Consensus 24 s~tSr~vflG~IP~~W~~~~~~~~~k 49 (67)
T PF15407_consen 24 SLTSRRVFLGPIPEIWLQDHRKSWYK 49 (67)
T ss_pred HHcCceEEECCCChHHHHcCcchHHH
Confidence 44578999999998776655444443
No 182
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=30.66 E-value=52 Score=17.28 Aligned_cols=17 Identities=12% Similarity=0.305 Sum_probs=14.5
Q ss_pred CCCHHHHHHHhhhCCCe
Q 030488 58 SCTPEEVQQHFQSCGTV 74 (176)
Q Consensus 58 ~~t~~~l~~~f~~~G~i 74 (176)
.++.++|+.++..+|.+
T Consensus 3 tWs~~~L~~wL~~~gi~ 19 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIP 19 (38)
T ss_pred CCCHHHHHHHHHHcCCC
Confidence 47889999999999864
No 183
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=30.34 E-value=1.4e+02 Score=18.65 Aligned_cols=55 Identities=18% Similarity=0.191 Sum_probs=37.4
Q ss_pred EEEEcCCCCCCCHHHHHHHhhh-CC-CeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH
Q 030488 49 SVFVGNVDYSCTPEEVQQHFQS-CG-TVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL 105 (176)
Q Consensus 49 ~i~v~~lp~~~t~~~l~~~f~~-~G-~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~ 105 (176)
.-|+-.++...+..+|++.++. |+ .|..|....-+. ..--|||.+..-+.|...-
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~--~~KKA~VtL~~g~~a~~va 71 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPR--GEKKAYVKLAEEYAAEEIA 71 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCC--CceEEEEEECCCCcHHHHH
Confidence 3455568889999999999987 54 456665444332 2335999998777766543
No 184
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=28.70 E-value=27 Score=24.21 Aligned_cols=71 Identities=18% Similarity=0.136 Sum_probs=45.7
Q ss_pred EEEEcCCC--CCCCHHHHHHHhhhC-CCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCeeCCeeeEEEecc
Q 030488 49 SVFVGNVD--YSCTPEEVQQHFQSC-GTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESELHGRQLKVTVKR 123 (176)
Q Consensus 49 ~i~v~~lp--~~~t~~~l~~~f~~~-G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~~g~~i~v~~a~ 123 (176)
...|+.+. ..++...|...+... +....+.+..- ..++..+.|.+.+++..++......+++..|.+..-.
T Consensus 17 ~~lVg~~l~~~~~~~~~l~~~l~~~W~~~~~~~i~~l----~~~~fl~~F~~~~d~~~vl~~~p~~~~~~~~~l~~W~ 90 (153)
T PF14111_consen 17 LCLVGRVLSPKPISLSALEQELAKIWKLKGGVKIRDL----GDNLFLFQFESEEDRQRVLKGGPWNFNGHFLILQRWS 90 (153)
T ss_pred eEEEEEECCCCCCCHHHHHHHHHHHhCCCCcEEEEEe----CCCeEEEEEEeccceeEEEecccccccccchhhhhhc
Confidence 34455552 245677777777653 22223333221 1578999999999999999877788888777776543
No 185
>PF09702 Cas_Csa5: CRISPR-associated protein (Cas_Csa5); InterPro: IPR010157 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor family of Cas protein found in various species of Sulfolobus and Pyrococcus (all archaeal). It is found with two different CRISPR loci in Sulfolobus solfataricus.
Probab=27.92 E-value=81 Score=21.00 Aligned_cols=23 Identities=30% Similarity=0.508 Sum_probs=17.3
Q ss_pred CCCCCEEEEcCCCCCCCHHHHHHHhh
Q 030488 44 EVDSRSVFVGNVDYSCTPEEVQQHFQ 69 (176)
Q Consensus 44 ~~~~~~i~v~~lp~~~t~~~l~~~f~ 69 (176)
+.+++.++++.|| |.+|++.|+.
T Consensus 61 ekeg~~i~~g~lP---t~~eVe~Fl~ 83 (105)
T PF09702_consen 61 EKEGNYIIVGYLP---TDEEVEDFLD 83 (105)
T ss_pred cCCCCEEecCCCC---ChHHHHHHHH
Confidence 4566899999999 4567777765
No 186
>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=27.72 E-value=1.3e+02 Score=18.97 Aligned_cols=35 Identities=26% Similarity=0.400 Sum_probs=23.2
Q ss_pred CeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-HhCCCe
Q 030488 73 TVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HLNESE 111 (176)
Q Consensus 73 ~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l~~~~ 111 (176)
.|.++..+.+ .+||-|||=.+.+++..|+ .+.+..
T Consensus 33 ~I~Si~~~~~----lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 33 NIYSIFAPDS----LKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp ---EEEE-TT----STSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred ceEEEEEeCC----CceEEEEEeCCHHHHHHHHhccccee
Confidence 4555544432 4999999999999999999 566543
No 187
>PF00837 T4_deiodinase: Iodothyronine deiodinase; InterPro: IPR000643 Iodothyronine deiodinase (1.97.1.10 from EC) (DI) [] is the vertebrate enzyme responsible for the deiodination of the prohormone thyroxine (T4 or 3,5,3',5'-tetraiodothyronine) into the biologically active hormone T3 (3,5,3'-triiodothyronine) and of T3 into the inactive metabolite T2 (3,3'-diiodothyronine). All known DI are proteins of about 250 residues that contain a selenocysteine at their active site. Three types of DI are known, type II is essential for providing the brain with the appropriate levels of T3 during the critical period of development, and type III is essential for the regulation of thyroid hormone inactivation during embryological development.; GO: 0004800 thyroxine 5'-deiodinase activity, 0055114 oxidation-reduction process
Probab=27.27 E-value=84 Score=24.30 Aligned_cols=27 Identities=22% Similarity=0.561 Sum_probs=21.7
Q ss_pred CCCCEEEEcCC-CCCCCHHHHHHHhhhC
Q 030488 45 VDSRSVFVGNV-DYSCTPEEVQQHFQSC 71 (176)
Q Consensus 45 ~~~~~i~v~~l-p~~~t~~~l~~~f~~~ 71 (176)
.+++.+|+|+. |+....+||++++++|
T Consensus 209 ~~gkv~Y~Gg~GP~~y~~~e~r~~L~~~ 236 (237)
T PF00837_consen 209 QDGKVVYKGGPGPFGYSPEELREWLEKY 236 (237)
T ss_pred ECCEEEEeCCCCCCcCCHHHHHHHHHhc
Confidence 46778888888 6678889999988875
No 188
>PF11532 HnRNP_M: Heterogeneous nuclear ribonucleoprotein M; InterPro: IPR024666 Heterogeneous nuclear ribonucleoproteins (hnRNPs) bind directly to nascent RNA polymerase II transcripts and play an important role in both transcript-specific packaging and alternative splicing of pre-mRNAs []. hnRNP M proteins are an abundant group of hnRNPs that have been shown to bind avidly to poly(G) and poly(U) RNA homopolymers []. hnRNP M family members are able to induce exon skipping and promote exon inclusion, suggesting that the proteins may broadly contribute to the fidelity of splice site recognition and alternative splicing regulation []. This entry represents the N-terminal PY nuclear localisation signal of heterogeneous nuclear ribonucleoprotein M [].; PDB: 2OT8_C.
Probab=25.99 E-value=26 Score=17.59 Aligned_cols=8 Identities=38% Similarity=0.754 Sum_probs=1.1
Q ss_pred CCCCCCCC
Q 030488 168 MPMRYSPY 175 (176)
Q Consensus 168 ~~~r~~py 175 (176)
+..||.||
T Consensus 17 gg~rfEPY 24 (30)
T PF11532_consen 17 GGNRFEPY 24 (30)
T ss_dssp ------SS
T ss_pred CCcccccc
Confidence 44456555
No 189
>PF15063 TC1: Thyroid cancer protein 1
Probab=25.88 E-value=48 Score=20.77 Aligned_cols=28 Identities=25% Similarity=0.294 Sum_probs=23.2
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhhCCCe
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQSCGTV 74 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~~G~i 74 (176)
.++--+.||=.+++.+.|+.+|..-|..
T Consensus 25 ~RKkasaNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 25 SRKKASANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred HhhhhhhhhhhccCHHHHHHHHHHccch
Confidence 4455577888899999999999999965
No 190
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=25.68 E-value=97 Score=24.11 Aligned_cols=23 Identities=17% Similarity=0.198 Sum_probs=19.2
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhh
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQS 70 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~ 70 (176)
..+.|+|+|+.++..-|.+++..
T Consensus 106 ~~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 106 PLKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred cceEEEeCCccchHHHHHHHHhc
Confidence 35779999999998888888864
No 191
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=25.65 E-value=1.3e+02 Score=16.78 Aligned_cols=27 Identities=11% Similarity=0.059 Sum_probs=21.9
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhhCCCe
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQSCGTV 74 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~~G~i 74 (176)
..+++.+.....+.++|.+++..+|.-
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 457777776678899999999999863
No 192
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=24.99 E-value=95 Score=23.77 Aligned_cols=24 Identities=13% Similarity=0.153 Sum_probs=20.4
Q ss_pred EEEEcCCCCCCCHHHHHHHhhhCC
Q 030488 49 SVFVGNVDYSCTPEEVQQHFQSCG 72 (176)
Q Consensus 49 ~i~v~~lp~~~t~~~l~~~f~~~G 72 (176)
.+.|+|||+.++...|.+++..++
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPK 119 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCC
Confidence 478999999999999999997443
No 193
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=24.53 E-value=2e+02 Score=18.36 Aligned_cols=54 Identities=19% Similarity=0.223 Sum_probs=38.1
Q ss_pred EEEcCCCCCCCHHHHHHHhhh-CC-CeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH
Q 030488 50 VFVGNVDYSCTPEEVQQHFQS-CG-TVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL 105 (176)
Q Consensus 50 i~v~~lp~~~t~~~l~~~f~~-~G-~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~ 105 (176)
.|+--++...+..+|++.++. || .|.+|.....+.+ .-=|||.+....+|....
T Consensus 23 ~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~~~--~KKA~V~L~~g~~A~~va 78 (84)
T PRK14548 23 KLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPKG--EKKAYVKLAEEYDAEEIA 78 (84)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCC--cEEEEEEeCCCCcHHHHH
Confidence 444457889999999999997 55 4566665544322 335999998888777654
No 194
>KOG1232 consensus Proteins containing the FAD binding domain [Energy production and conversion]
Probab=24.29 E-value=1.1e+02 Score=25.58 Aligned_cols=51 Identities=18% Similarity=0.248 Sum_probs=39.7
Q ss_pred CCCCCCHHHHHHHhh----hCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH
Q 030488 55 VDYSCTPEEVQQHFQ----SCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL 105 (176)
Q Consensus 55 lp~~~t~~~l~~~f~----~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~ 105 (176)
|-.+-|--+|+.+|- ..|.|..+.|...+..++-..||+--++-+++++++
T Consensus 232 lRKDNTgydlkhLFIGSEGtlGVvT~vSil~~~kpksvn~af~gi~sf~~v~k~f 286 (511)
T KOG1232|consen 232 LRKDNTGYDLKHLFIGSEGTLGVVTKVSILAPPKPKSVNVAFIGIESFDDVQKVF 286 (511)
T ss_pred hcccCccccchhheecCCceeeEEeeEEEeecCCCcceeEEEEccccHHHHHHHH
Confidence 334556667888884 467889999988777788889999999988887765
No 195
>TIGR01873 cas_CT1978 CRISPR-associated endoribonuclease Cas2, E. coli subfamily. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents a minor branch of the Cas2 family of CRISPR-associated endonuclease, whereas most Cas2 proteins are modeled instead by TIGR01573. This form of Cas2 is characteristic for the Ecoli subtype of CRISPR/Cas locus.
Probab=24.15 E-value=65 Score=20.78 Aligned_cols=49 Identities=16% Similarity=0.155 Sum_probs=26.8
Q ss_pred CCEEEEcCCCCCCCHHHHHHHhhh-CCCeeEEEEeeCCCCCceeEEEEEecC
Q 030488 47 SRSVFVGNVDYSCTPEEVQQHFQS-CGTVNRVTIRTDKFGQPKGYAYVEFLQ 97 (176)
Q Consensus 47 ~~~i~v~~lp~~~t~~~l~~~f~~-~G~i~~~~~~~~~~g~~~g~afv~f~~ 97 (176)
..-||||+++..+.+.--..+-+. .+. -++.+... +....||.|-++.+
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~~-G~avm~~~-~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 25 RAGVYVGGVSASVRERIWDYLAQHCPPK-GSLVITWS-SNTCPGFEFFTLGE 74 (87)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCCC-ccEEEEEe-CCCCCCcEEEecCC
Confidence 456999999887776533333332 122 12333332 23346788887754
No 196
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=24.11 E-value=99 Score=26.04 Aligned_cols=38 Identities=21% Similarity=0.397 Sum_probs=28.8
Q ss_pred CCCCEEEEcCCCCC-CCHHHHHHHhhhC----CCeeEEEEeeC
Q 030488 45 VDSRSVFVGNVDYS-CTPEEVQQHFQSC----GTVNRVTIRTD 82 (176)
Q Consensus 45 ~~~~~i~v~~lp~~-~t~~~l~~~f~~~----G~i~~~~~~~~ 82 (176)
....+|-|-|+.|+ +...+|...|+.| |+|..|.|...
T Consensus 144 ~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iyps 186 (622)
T COG5638 144 NPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYPS 186 (622)
T ss_pred CcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEechh
Confidence 44677888899987 7788898888765 56777777554
No 197
>PF05189 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC), insert domain; InterPro: IPR013796 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea. RNA 3'-terminal phosphate cyclase (6.5.1.4 from EC) [, ] catalyses the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate These enzymes might be responsible for production of the cyclic phosphate RNA ends that are known to be required by many RNA ligases in both prokaryotes and eukaryotes. RNA cyclase is a protein of from 36 to 42 kDa. The best conserved region is a glycine-rich stretch of residues located in the central part of the sequence and which is reminiscent of various ATP, GTP or AMP glycine-rich loops. The crystal structure of RNA 3'-terminal phosphate cyclase shows that each molecule consists of two domains. The larger domain contains three repeats of a folding unit comprising two parallel alpha helices and a four-stranded beta sheet; this fold was previously identified in translation initiation factor 3 (IF3). The large domain is similar to one of the two domains of 5-enolpyruvylshikimate-3-phosphate synthase and UDP-N-acetylglucosamine enolpyruvyl transferase. The smaller domain uses a similar secondary structure element with different topology, observed in many other proteins such as thioredoxin []. Although the active site of this enzyme could not be unambiguously assigned, it can be mapped to a region surrounding His309, an adenylate acceptor, in which a number of amino acids are highly conserved in the enzyme from different sources []. This entry contains the insert-domain of approximately 100 amino acids.; PDB: 3TV1_B 3KGD_D 1QMI_D 1QMH_B 3TUX_A 3TUT_A 3TW3_A 3PQV_A.
Probab=23.44 E-value=1.7e+02 Score=19.02 Aligned_cols=47 Identities=13% Similarity=0.125 Sum_probs=26.8
Q ss_pred EEEEcCCCCCCCHHHH---HHHhhhCCCeeEEEE---eeCCCCCceeEEEEEe
Q 030488 49 SVFVGNVDYSCTPEEV---QQHFQSCGTVNRVTI---RTDKFGQPKGYAYVEF 95 (176)
Q Consensus 49 ~i~v~~lp~~~t~~~l---~~~f~~~G~i~~~~~---~~~~~g~~~g~afv~f 95 (176)
..|+.+||.++-+..+ +..|..+.+-..|.+ .......+.|++.+.+
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l~ 64 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISLV 64 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEEE
Confidence 4689999999887665 455555543333333 1123456677776554
No 198
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=22.19 E-value=1.1e+02 Score=24.36 Aligned_cols=22 Identities=27% Similarity=0.320 Sum_probs=18.8
Q ss_pred EEEEcCCCCCCCHHHHHHHhhh
Q 030488 49 SVFVGNVDYSCTPEEVQQHFQS 70 (176)
Q Consensus 49 ~i~v~~lp~~~t~~~l~~~f~~ 70 (176)
.+.|+|||+.++...|.+++..
T Consensus 103 d~VvaNlPY~Istpil~~ll~~ 124 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAH 124 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhc
Confidence 4778999999999988888864
No 199
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=22.04 E-value=3.8e+02 Score=22.23 Aligned_cols=50 Identities=16% Similarity=0.109 Sum_probs=36.0
Q ss_pred CCCHHHHHHHhhh----CCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHH-Hh
Q 030488 58 SCTPEEVQQHFQS----CGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEAL-HL 107 (176)
Q Consensus 58 ~~t~~~l~~~f~~----~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~-~l 107 (176)
+.+.-+|..+|.. +|-|.++.|...+........++.|.+.+++..++ .+
T Consensus 143 ~~~g~dl~~l~~Gs~GtlGiit~~~lkl~p~p~~~~~~~~~f~~~~~~~~~~~~~ 197 (413)
T TIGR00387 143 DVAGYDLTGLFVGSEGTLGIVTEATLKLLPKPENIVVALAFFDSIEKAMQAVYDI 197 (413)
T ss_pred CCCCCChhhhcccCCccceEEEEEEEEeecCCCccEEEEEECCCHHHHHHHHHHH
Confidence 3334467777753 67888888876665555667788999999999988 44
No 200
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=21.33 E-value=1.5e+02 Score=20.92 Aligned_cols=23 Identities=17% Similarity=0.280 Sum_probs=18.9
Q ss_pred CEEEEcCCCCCCCHHHHHHHhhh
Q 030488 48 RSVFVGNVDYSCTPEEVQQHFQS 70 (176)
Q Consensus 48 ~~i~v~~lp~~~t~~~l~~~f~~ 70 (176)
.-+.|+|+|+.++...|..++..
T Consensus 78 ~d~vi~n~Py~~~~~~i~~~l~~ 100 (169)
T smart00650 78 PYKVVGNLPYNISTPILFKLLEE 100 (169)
T ss_pred CCEEEECCCcccHHHHHHHHHhc
Confidence 34678999999998888888764
No 201
>PTZ00481 Membrane attack complex/ Perforin (MACPF) Superfamily; Provisional
Probab=21.28 E-value=99 Score=26.28 Aligned_cols=63 Identities=21% Similarity=0.267 Sum_probs=36.9
Q ss_pred EcCCCCCCCHHHHHHHhhhCCC--eeEEEEe--eCC-CC-CceeEEEEEec---CHHHHHHHH--HhCCCeeCC
Q 030488 52 VGNVDYSCTPEEVQQHFQSCGT--VNRVTIR--TDK-FG-QPKGYAYVEFL---QSEAVQEAL--HLNESELHG 114 (176)
Q Consensus 52 v~~lp~~~t~~~l~~~f~~~G~--i~~~~~~--~~~-~g-~~~g~afv~f~---~~~~a~~a~--~l~~~~~~g 114 (176)
|..||...+.+.-..+++.||. |.++.+- .+. |- +.+-++...|. +.++++.|| ++++..-+|
T Consensus 210 L~~LP~eYd~g~Y~~FIe~YGTHYITsv~LGG~VE~vTs~RtC~~slps~~~GlS~~qVk~cLn~ELqgn~~~G 283 (524)
T PTZ00481 210 IDALPEDYQPDVYNEFLNAWGTHISVDTFIGGMIEKQTVFKDCVFFTPQFNGGLSPEQVEQALRNELNGNPAEG 283 (524)
T ss_pred HHhcchhcCHHHHHHHHHhcCceEEEEeeEcCEEEEEeehhhhhhhchhhhcCCCHHHHHHHHHHHhcCCCCcc
Confidence 5678999999988999999984 2333320 011 00 11112222333 777889999 477665444
No 202
>PLN02655 ent-kaurene oxidase
Probab=21.09 E-value=2.3e+02 Score=23.73 Aligned_cols=54 Identities=15% Similarity=0.154 Sum_probs=35.2
Q ss_pred EEcCCCCCC---CHHHHHHHhhhCCCeeEEEEeeCCCCCceeEEEEEecCHHHHHHHHHhCCCee
Q 030488 51 FVGNVDYSC---TPEEVQQHFQSCGTVNRVTIRTDKFGQPKGYAYVEFLQSEAVQEALHLNESEL 112 (176)
Q Consensus 51 ~v~~lp~~~---t~~~l~~~f~~~G~i~~~~~~~~~~g~~~g~afv~f~~~~~a~~a~~l~~~~~ 112 (176)
+||||..-. -...+.+++.+||+|-.+.+. +.-.|...+.+.++.++.-+...+
T Consensus 9 ~iG~l~~~~~~~~~~~~~~~~~~yG~i~~~~~g--------~~~~vvv~~pe~~k~il~~~~~~f 65 (466)
T PLN02655 9 VIGNLLQLKEKKPHRTFTKWSEIYGPIYTIRTG--------ASSVVVLNSTEVAKEAMVTKFSSI 65 (466)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEEC--------CEeEEEeCCHHHHHHHHHhcCchh
Confidence 456653321 246788888999998776652 235777889998888884333333
No 203
>COG5584 Predicted small secreted protein [Function unknown]
Probab=20.97 E-value=2e+02 Score=18.93 Aligned_cols=30 Identities=13% Similarity=0.145 Sum_probs=21.9
Q ss_pred CCCCCCCHHHHHHHhhhCCCeeEEEEeeCC
Q 030488 54 NVDYSCTPEEVQQHFQSCGTVNRVTIRTDK 83 (176)
Q Consensus 54 ~lp~~~t~~~l~~~f~~~G~i~~~~~~~~~ 83 (176)
|++.+.--.-+++.|+++++|+...|...+
T Consensus 29 ~is~e~alk~vk~afk~~mnI~GSwI~~~p 58 (103)
T COG5584 29 NISRENALKVVKEAFKQFMNIKGSWIVYEP 58 (103)
T ss_pred ccChhHHHHHHHHHhcccCCcceeEEEEec
Confidence 445555566789999999999877666554
Done!