Query 042899
Match_columns 93
No_of_seqs 105 out of 1337
Neff 10.6
Searched_HMMs 46136
Date Fri Mar 29 10:46:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042899.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042899hhsearch_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 4.4E-20 9.4E-25 102.8 12.0 75 1-75 42-116 (144)
2 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 1.9E-18 4.1E-23 107.7 10.4 74 1-74 277-350 (352)
3 KOG0122 Translation initiation 99.8 3.6E-18 7.8E-23 100.0 8.4 73 1-73 197-269 (270)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 1.2E-17 2.7E-22 104.1 10.0 75 1-75 11-85 (352)
5 TIGR01659 sex-lethal sex-letha 99.7 1.5E-17 3.2E-22 103.7 8.6 74 1-74 115-188 (346)
6 PF00076 RRM_1: RNA recognitio 99.7 2E-16 4.4E-21 77.9 9.1 65 1-66 6-70 (70)
7 TIGR01645 half-pint poly-U bin 99.7 2.2E-16 4.7E-21 103.7 10.9 75 1-75 212-286 (612)
8 TIGR01659 sex-lethal sex-letha 99.7 7.4E-16 1.6E-20 96.1 11.7 73 1-73 201-275 (346)
9 KOG0145 RNA-binding protein EL 99.7 1.4E-16 3E-21 94.7 7.6 76 1-76 49-124 (360)
10 KOG4207 Predicted splicing fac 99.7 4.2E-17 9.1E-22 93.8 5.1 72 1-72 21-92 (256)
11 KOG0113 U1 small nuclear ribon 99.7 3.5E-16 7.6E-21 94.0 9.1 75 1-75 109-183 (335)
12 PF14259 RRM_6: RNA recognitio 99.7 3.8E-15 8.2E-20 73.6 9.1 65 1-66 6-70 (70)
13 TIGR01645 half-pint poly-U bin 99.6 1.4E-15 3E-20 100.0 8.5 70 1-70 115-184 (612)
14 TIGR01628 PABP-1234 polyadenyl 99.6 3.3E-15 7.2E-20 98.2 10.0 73 1-73 8-80 (562)
15 KOG0149 Predicted RNA-binding 99.6 7.9E-16 1.7E-20 89.9 6.0 70 1-71 20-89 (247)
16 KOG0148 Apoptosis-promoting RN 99.6 1.9E-15 4.1E-20 90.0 7.5 74 1-74 70-143 (321)
17 smart00360 RRM RNA recognition 99.6 7.4E-15 1.6E-19 71.7 8.4 67 1-67 4-70 (71)
18 KOG0130 RNA-binding protein RB 99.6 1.6E-15 3.4E-20 82.3 6.3 74 2-75 81-154 (170)
19 KOG0121 Nuclear cap-binding pr 99.6 3E-15 6.5E-20 80.5 6.6 70 1-70 44-113 (153)
20 TIGR01628 PABP-1234 polyadenyl 99.6 5.1E-15 1.1E-19 97.3 8.5 73 1-74 293-365 (562)
21 TIGR01622 SF-CC1 splicing fact 99.6 1.1E-14 2.4E-19 93.6 9.9 71 1-71 194-264 (457)
22 smart00361 RRM_1 RNA recogniti 99.6 1.6E-14 3.6E-19 71.5 8.2 61 7-67 2-69 (70)
23 PLN03120 nucleic acid binding 99.6 2E-14 4.3E-19 85.9 9.4 69 1-73 12-80 (260)
24 TIGR01642 U2AF_lg U2 snRNP aux 99.6 2.1E-14 4.7E-19 93.3 10.3 73 1-73 303-375 (509)
25 KOG0125 Ataxin 2-binding prote 99.6 6.1E-15 1.3E-19 89.8 6.7 74 1-76 104-177 (376)
26 PF13893 RRM_5: RNA recognitio 99.6 4.3E-14 9.3E-19 67.0 8.3 56 10-70 1-56 (56)
27 KOG0145 RNA-binding protein EL 99.6 2.6E-14 5.5E-19 85.1 9.0 72 1-72 286-357 (360)
28 KOG0111 Cyclophilin-type pepti 99.6 1.8E-15 3.9E-20 88.0 4.0 79 1-79 18-96 (298)
29 KOG0107 Alternative splicing f 99.6 1.8E-14 4E-19 81.0 7.9 70 1-75 18-87 (195)
30 PLN03213 repressor of silencin 99.6 1.6E-14 3.4E-19 92.4 8.0 68 1-72 18-87 (759)
31 TIGR01622 SF-CC1 splicing fact 99.6 5.7E-14 1.2E-18 90.4 9.5 72 1-73 97-168 (457)
32 KOG0108 mRNA cleavage and poly 99.5 2.4E-14 5.2E-19 91.1 6.7 77 1-77 26-102 (435)
33 KOG0126 Predicted RNA-binding 99.5 6.4E-16 1.4E-20 87.4 -0.4 70 1-70 43-112 (219)
34 smart00362 RRM_2 RNA recogniti 99.5 1.8E-13 3.9E-18 66.9 8.5 66 1-68 7-72 (72)
35 KOG0144 RNA-binding protein CU 99.5 5E-14 1.1E-18 88.4 6.7 76 1-76 42-120 (510)
36 KOG0144 RNA-binding protein CU 99.5 2.7E-14 5.9E-19 89.6 5.3 76 1-77 132-210 (510)
37 TIGR01648 hnRNP-R-Q heterogene 99.5 8.6E-14 1.9E-18 91.4 7.8 69 1-70 66-135 (578)
38 PLN03121 nucleic acid binding 99.5 2.1E-13 4.5E-18 80.6 8.5 66 1-70 13-78 (243)
39 KOG0131 Splicing factor 3b, su 99.5 3.2E-14 7E-19 80.5 4.5 71 1-71 17-87 (203)
40 KOG0117 Heterogeneous nuclear 99.5 1.7E-13 3.8E-18 86.3 7.8 71 1-71 91-162 (506)
41 COG0724 RNA-binding proteins ( 99.5 4E-13 8.6E-18 80.3 8.8 72 1-72 123-194 (306)
42 cd00590 RRM RRM (RNA recogniti 99.5 1.4E-12 3.1E-17 64.0 9.2 68 1-69 7-74 (74)
43 TIGR01648 hnRNP-R-Q heterogene 99.5 5.6E-13 1.2E-17 87.6 9.4 68 1-76 241-310 (578)
44 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 9.3E-13 2E-17 85.5 9.4 68 1-73 283-351 (481)
45 KOG0114 Predicted RNA-binding 99.4 1.2E-12 2.7E-17 68.2 7.4 70 1-73 26-95 (124)
46 KOG0117 Heterogeneous nuclear 99.4 3.7E-13 8.1E-18 84.8 6.5 68 1-76 267-334 (506)
47 KOG0415 Predicted peptidyl pro 99.4 3.2E-13 7E-18 83.4 5.3 72 1-72 247-318 (479)
48 KOG0146 RNA-binding protein ET 99.4 2.9E-13 6.4E-18 80.9 4.2 74 1-74 293-366 (371)
49 KOG0148 Apoptosis-promoting RN 99.4 3.7E-12 8E-17 76.2 8.2 67 3-75 174-240 (321)
50 KOG0127 Nucleolar protein fibr 99.4 3.4E-12 7.3E-17 82.4 7.5 77 1-78 125-201 (678)
51 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.4 6.7E-12 1.5E-16 81.6 9.1 67 1-73 10-78 (481)
52 KOG0147 Transcriptional coacti 99.4 2.9E-12 6.2E-17 82.4 6.7 70 1-70 286-355 (549)
53 KOG0124 Polypyrimidine tract-b 99.3 1.4E-12 3.1E-17 81.0 4.6 67 2-68 122-188 (544)
54 KOG0131 Splicing factor 3b, su 99.3 3.5E-12 7.6E-17 72.4 5.6 77 1-77 104-181 (203)
55 KOG0105 Alternative splicing f 99.3 1.4E-11 3.1E-16 70.3 6.6 70 1-73 14-83 (241)
56 KOG0127 Nucleolar protein fibr 99.3 7.1E-12 1.5E-16 81.0 5.8 77 1-77 13-89 (678)
57 KOG4208 Nucleolar RNA-binding 99.3 3.2E-11 7E-16 69.6 6.8 73 1-73 57-130 (214)
58 TIGR01642 U2AF_lg U2 snRNP aux 99.2 8.1E-11 1.8E-15 76.8 8.7 65 8-72 434-501 (509)
59 KOG0123 Polyadenylate-binding 99.2 9.1E-11 2E-15 74.1 7.8 74 1-77 84-157 (369)
60 KOG0109 RNA-binding protein LA 99.2 8.9E-11 1.9E-15 71.0 7.2 65 1-73 10-74 (346)
61 KOG0123 Polyadenylate-binding 99.2 1.8E-10 3.9E-15 72.7 7.7 69 3-74 8-76 (369)
62 KOG4212 RNA-binding protein hn 99.2 1.4E-10 3E-15 73.6 6.8 70 1-71 52-122 (608)
63 KOG4661 Hsp27-ERE-TATA-binding 99.2 3.3E-10 7.2E-15 74.1 8.3 71 3-73 415-485 (940)
64 KOG0124 Polypyrimidine tract-b 99.2 1.2E-10 2.6E-15 72.6 6.0 72 2-73 219-290 (544)
65 KOG4206 Spliceosomal protein s 99.1 2.5E-10 5.4E-15 66.7 6.1 72 2-76 18-93 (221)
66 KOG0146 RNA-binding protein ET 99.1 3.3E-10 7.1E-15 68.1 6.3 74 2-76 28-104 (371)
67 KOG0109 RNA-binding protein LA 99.1 3.7E-10 8.1E-15 68.4 5.7 68 2-77 87-154 (346)
68 KOG4205 RNA-binding protein mu 99.0 2.6E-10 5.5E-15 70.4 3.8 75 1-76 14-88 (311)
69 KOG4205 RNA-binding protein mu 99.0 6.6E-10 1.4E-14 68.6 4.5 75 1-76 105-179 (311)
70 KOG0110 RNA-binding protein (R 99.0 4.4E-09 9.5E-14 69.8 8.2 71 1-71 523-596 (725)
71 KOG0110 RNA-binding protein (R 98.9 9E-10 1.9E-14 73.0 3.6 74 1-74 621-694 (725)
72 KOG0116 RasGAP SH3 binding pro 98.9 1.2E-08 2.7E-13 65.2 8.5 73 1-74 296-368 (419)
73 KOG0533 RRM motif-containing p 98.9 1.5E-08 3.3E-13 60.6 7.4 71 1-72 91-161 (243)
74 KOG0226 RNA-binding proteins [ 98.9 1.9E-09 4.1E-14 64.3 2.6 73 2-74 199-271 (290)
75 KOG0153 Predicted RNA-binding 98.8 8E-08 1.7E-12 59.6 7.8 65 2-72 237-302 (377)
76 KOG4209 Splicing factor RNPS1, 98.8 3.3E-08 7.3E-13 59.0 6.0 71 2-73 110-180 (231)
77 KOG1457 RNA binding protein (c 98.8 2.8E-07 6E-12 54.5 9.6 79 1-79 42-124 (284)
78 KOG0132 RNA polymerase II C-te 98.7 6.7E-08 1.4E-12 65.2 7.1 68 1-74 429-496 (894)
79 KOG4211 Splicing factor hnRNP- 98.7 7E-08 1.5E-12 62.1 6.7 68 1-72 18-85 (510)
80 KOG4212 RNA-binding protein hn 98.7 4.9E-08 1.1E-12 62.4 5.2 65 1-70 544-608 (608)
81 KOG4660 Protein Mei2, essentia 98.7 1.3E-08 2.7E-13 66.1 2.1 61 1-66 83-143 (549)
82 KOG0106 Alternative splicing f 98.7 5.7E-08 1.2E-12 57.2 4.5 65 1-73 9-73 (216)
83 KOG1548 Transcription elongati 98.6 2.2E-07 4.7E-12 57.7 6.6 70 1-71 142-219 (382)
84 KOG1190 Polypyrimidine tract-b 98.6 3.4E-07 7.3E-12 58.1 7.2 64 3-71 308-371 (492)
85 KOG0147 Transcriptional coacti 98.6 1.2E-07 2.6E-12 61.7 4.5 68 4-72 190-257 (549)
86 PF04059 RRM_2: RNA recognitio 98.5 2.2E-06 4.7E-11 44.8 8.0 72 1-72 9-86 (97)
87 KOG0151 Predicted splicing reg 98.5 8E-07 1.7E-11 59.8 7.4 72 1-72 182-256 (877)
88 KOG4454 RNA binding protein (R 98.4 4.3E-07 9.3E-12 53.5 3.3 66 3-70 19-84 (267)
89 KOG4211 Splicing factor hnRNP- 98.3 1.9E-06 4.2E-11 55.7 5.9 68 1-70 111-179 (510)
90 KOG1995 Conserved Zn-finger pr 98.3 5.9E-07 1.3E-11 56.0 3.4 74 1-74 74-155 (351)
91 KOG4210 Nuclear localization s 98.3 7.9E-07 1.7E-11 54.8 2.7 75 1-76 193-267 (285)
92 KOG0120 Splicing factor U2AF, 98.2 1.9E-06 4.1E-11 56.3 3.9 75 1-75 297-371 (500)
93 KOG2314 Translation initiation 98.1 1E-05 2.2E-10 53.4 5.1 60 9-69 80-140 (698)
94 COG5175 MOT2 Transcriptional r 98.1 1.6E-05 3.5E-10 49.8 5.7 60 11-70 138-200 (480)
95 KOG4307 RNA binding protein RB 98.0 4.5E-05 9.8E-10 51.7 6.7 68 1-69 875-943 (944)
96 KOG0120 Splicing factor U2AF, 98.0 6.5E-05 1.4E-09 49.4 7.3 67 8-74 424-493 (500)
97 KOG1548 Transcription elongati 97.9 0.00016 3.4E-09 45.4 7.5 60 8-71 291-350 (382)
98 PF08777 RRM_3: RNA binding mo 97.8 9.3E-05 2E-09 39.3 5.1 51 2-58 10-60 (105)
99 PF08952 DUF1866: Domain of un 97.8 0.00032 7E-09 39.2 6.9 56 8-72 51-106 (146)
100 KOG0106 Alternative splicing f 97.8 3.4E-05 7.3E-10 45.7 3.2 60 3-70 109-168 (216)
101 KOG1456 Heterogeneous nuclear 97.7 0.0003 6.6E-09 44.8 6.7 66 4-74 133-200 (494)
102 PF05172 Nup35_RRM: Nup53/35/4 97.7 0.00064 1.4E-08 35.8 7.0 66 6-72 18-91 (100)
103 KOG4206 Spliceosomal protein s 97.7 0.0003 6.5E-09 41.7 6.3 66 1-71 154-220 (221)
104 KOG1365 RNA-binding protein Fu 97.6 5.7E-05 1.2E-09 48.1 2.5 71 1-72 288-361 (508)
105 KOG1457 RNA binding protein (c 97.6 0.00029 6.2E-09 42.1 5.1 57 1-61 218-274 (284)
106 KOG2202 U2 snRNP splicing fact 97.5 6.2E-05 1.3E-09 45.4 1.7 63 8-71 83-146 (260)
107 PF14605 Nup35_RRM_2: Nup53/35 97.5 0.00042 9.1E-09 32.3 4.2 39 8-52 15-53 (53)
108 KOG1996 mRNA splicing factor [ 97.5 0.001 2.2E-08 41.3 6.8 64 8-71 301-365 (378)
109 KOG4849 mRNA cleavage factor I 97.5 0.00012 2.5E-09 46.3 2.7 64 1-64 88-153 (498)
110 KOG1456 Heterogeneous nuclear 97.3 0.0027 5.9E-08 40.7 7.0 64 5-73 300-363 (494)
111 KOG1190 Polypyrimidine tract-b 97.2 0.0015 3.4E-08 42.1 5.7 69 1-73 422-491 (492)
112 PF08675 RNA_bind: RNA binding 97.0 0.0056 1.2E-07 31.2 5.6 48 2-57 17-64 (87)
113 KOG0105 Alternative splicing f 96.9 0.012 2.5E-07 34.5 7.0 54 1-61 123-176 (241)
114 PF11608 Limkain-b1: Limkain b 96.9 0.0069 1.5E-07 30.9 5.3 53 8-70 21-74 (90)
115 PF10309 DUF2414: Protein of u 96.6 0.022 4.7E-07 27.4 5.4 45 4-55 15-62 (62)
116 KOG0112 Large RNA-binding prot 96.5 0.0067 1.4E-07 42.7 4.8 68 1-74 463-532 (975)
117 KOG1365 RNA-binding protein Fu 96.5 0.016 3.5E-07 37.4 6.1 66 1-68 169-238 (508)
118 PF04847 Calcipressin: Calcipr 96.5 0.033 7.2E-07 32.6 6.8 63 6-74 8-72 (184)
119 KOG0129 Predicted RNA-binding 96.5 0.01 2.2E-07 39.4 5.1 54 1-54 378-432 (520)
120 KOG2135 Proteins containing th 96.4 0.0024 5.1E-08 41.9 2.2 62 6-74 386-447 (526)
121 KOG3152 TBP-binding protein, a 96.4 0.0012 2.6E-08 40.0 0.8 64 1-64 82-157 (278)
122 KOG1855 Predicted RNA-binding 96.4 0.0019 4.2E-08 41.8 1.6 57 1-57 239-308 (484)
123 KOG0128 RNA-binding protein SA 96.4 0.0032 6.9E-08 43.9 2.7 70 2-72 745-814 (881)
124 KOG2193 IGF-II mRNA-binding pr 96.4 0.0024 5.2E-08 41.5 2.0 72 1-78 9-81 (584)
125 PF07576 BRAP2: BRCA1-associat 96.3 0.068 1.5E-06 28.7 7.1 57 4-62 24-81 (110)
126 KOG2068 MOT2 transcription fac 96.2 0.002 4.3E-08 40.5 0.7 60 12-71 99-161 (327)
127 PF03467 Smg4_UPF3: Smg-4/UPF3 96.2 0.025 5.5E-07 32.8 5.2 70 1-70 15-95 (176)
128 KOG4676 Splicing factor, argin 96.1 0.011 2.3E-07 38.2 3.8 68 1-69 15-85 (479)
129 KOG0128 RNA-binding protein SA 96.0 0.00064 1.4E-08 47.1 -2.0 68 1-68 675-742 (881)
130 PF03880 DbpA: DbpA RNA bindin 95.9 0.079 1.7E-06 26.2 5.8 58 4-70 12-74 (74)
131 KOG4285 Mitotic phosphoprotein 95.9 0.039 8.5E-07 34.6 5.4 56 8-70 211-267 (350)
132 KOG0129 Predicted RNA-binding 95.7 0.078 1.7E-06 35.4 6.5 53 1-54 267-325 (520)
133 PF15023 DUF4523: Protein of u 95.3 0.13 2.8E-06 29.0 5.6 53 9-69 106-158 (166)
134 KOG2416 Acinus (induces apopto 93.9 0.05 1.1E-06 37.1 2.3 60 5-70 456-519 (718)
135 KOG0112 Large RNA-binding prot 93.7 0.025 5.4E-07 40.0 0.6 70 1-71 380-449 (975)
136 KOG4307 RNA binding protein RB 93.2 0.056 1.2E-06 37.6 1.6 69 1-70 442-511 (944)
137 KOG4574 RNA-binding protein (c 93.1 0.1 2.2E-06 37.1 2.7 65 5-75 310-376 (1007)
138 PF11767 SET_assoc: Histone ly 93.0 0.54 1.2E-05 22.9 6.5 55 4-67 11-65 (66)
139 KOG0115 RNA-binding protein p5 91.7 0.28 6.1E-06 30.2 3.1 68 2-70 40-111 (275)
140 smart00596 PRE_C2HC PRE_C2HC d 91.0 0.57 1.2E-05 23.0 3.2 60 8-70 2-62 (69)
141 PF07530 PRE_C2HC: Associated 90.8 0.77 1.7E-05 22.5 3.7 60 8-70 2-62 (68)
142 KOG4660 Protein Mei2, essentia 90.6 0.96 2.1E-05 30.8 4.9 56 17-72 413-472 (549)
143 KOG0804 Cytoplasmic Zn-finger 88.6 2.4 5.3E-05 28.4 5.6 59 2-62 83-142 (493)
144 PF15513 DUF4651: Domain of un 87.5 1.8 3.8E-05 20.9 3.4 19 8-26 9-27 (62)
145 KOG2591 c-Mpl binding protein, 80.6 3.5 7.5E-05 28.5 3.7 59 2-67 184-246 (684)
146 KOG4210 Nuclear localization s 79.6 1.3 2.8E-05 27.8 1.5 63 7-69 102-164 (285)
147 PF11411 DNA_ligase_IV: DNA li 76.4 2.3 5E-05 18.1 1.4 15 4-18 20-34 (36)
148 KOG2193 IGF-II mRNA-binding pr 75.8 0.2 4.4E-06 33.1 -2.8 65 2-70 89-154 (584)
149 KOG4454 RNA binding protein (R 74.2 0.52 1.1E-05 28.6 -1.2 57 2-59 93-149 (267)
150 TIGR02542 B_forsyth_147 Bacter 64.1 4.7 0.0001 22.0 1.2 44 2-45 83-129 (145)
151 KOG2891 Surface glycoprotein [ 64.1 4.4 9.5E-05 25.7 1.2 22 5-26 173-194 (445)
152 KOG4483 Uncharacterized conser 62.0 25 0.00054 23.7 4.3 41 6-53 404-445 (528)
153 PF03468 XS: XS domain; Inter 61.3 20 0.00044 19.4 3.4 45 5-52 29-74 (116)
154 PF02714 DUF221: Domain of unk 55.5 26 0.00056 22.1 3.6 31 38-70 1-31 (325)
155 PF11823 DUF3343: Protein of u 54.6 25 0.00054 17.1 3.0 26 37-62 3-28 (73)
156 KOG4410 5-formyltetrahydrofola 53.2 48 0.001 21.3 4.4 38 1-44 338-376 (396)
157 KOG4019 Calcineurin-mediated s 51.7 50 0.0011 19.7 4.8 39 36-74 52-91 (193)
158 PF10281 Ish1: Putative stress 49.7 17 0.00036 15.3 1.5 18 4-21 3-20 (38)
159 PRK11901 hypothetical protein; 48.7 72 0.0016 20.8 4.7 52 5-58 254-307 (327)
160 PF03439 Spt5-NGN: Early trans 47.6 38 0.00082 17.1 3.7 27 33-59 42-68 (84)
161 KOG2253 U1 snRNP complex, subu 47.2 7.9 0.00017 27.3 0.5 56 5-69 52-107 (668)
162 KOG4365 Uncharacterized conser 42.4 4.1 8.9E-05 27.4 -1.4 68 2-70 12-79 (572)
163 PF10567 Nab6_mRNP_bdg: RNA-re 39.6 1E+02 0.0023 19.9 5.4 66 5-70 27-105 (309)
164 cd06405 PB1_Mekk2_3 The PB1 do 36.6 61 0.0013 16.3 6.8 55 5-68 20-75 (79)
165 PRK11634 ATP-dependent RNA hel 35.9 1.6E+02 0.0035 21.0 6.9 34 37-71 528-561 (629)
166 KOG4213 RNA-binding protein La 34.0 1.1E+02 0.0023 18.4 4.2 48 6-54 119-169 (205)
167 PRK10905 cell division protein 31.1 1.6E+02 0.0034 19.4 5.3 53 5-58 256-309 (328)
168 PF13046 DUF3906: Protein of u 31.1 72 0.0016 15.5 2.7 23 7-29 32-54 (64)
169 PHA01782 hypothetical protein 30.1 40 0.00087 19.7 1.4 21 1-21 63-83 (177)
170 KOG2675 Adenylate cyclase-asso 28.6 56 0.0012 22.3 2.1 7 37-43 147-153 (480)
171 KOG3432 Vacuolar H+-ATPase V1 27.8 72 0.0016 17.4 2.1 23 3-25 43-65 (121)
172 PF04026 SpoVG: SpoVG; InterP 27.6 97 0.0021 15.8 4.0 25 20-44 3-27 (84)
173 COG0225 MsrA Peptide methionin 27.5 1.1E+02 0.0025 18.0 3.0 25 46-70 111-135 (174)
174 COG5193 LHP1 La protein, small 26.9 64 0.0014 21.8 2.1 46 7-52 196-243 (438)
175 PF13405 EF-hand_6: EF-hand do 26.0 45 0.00097 12.9 0.9 11 5-15 17-27 (31)
176 PF12829 Mhr1: Transcriptional 24.7 1.2E+02 0.0026 15.9 3.0 22 35-56 51-72 (91)
177 PF03672 UPF0154: Uncharacteri 23.9 73 0.0016 15.5 1.5 17 3-19 30-46 (64)
178 PRK13259 regulatory protein Sp 23.9 1.3E+02 0.0027 15.9 3.8 25 20-44 3-27 (94)
179 PHA01632 hypothetical protein 23.8 76 0.0016 15.0 1.5 15 2-16 25-39 (64)
180 PF10905 DUF2695: Protein of u 23.7 96 0.0021 14.4 2.2 23 5-27 30-52 (53)
181 PF06014 DUF910: Bacterial pro 23.4 79 0.0017 15.3 1.6 17 7-23 4-20 (62)
182 PF15063 TC1: Thyroid cancer p 21.7 82 0.0018 15.9 1.5 17 4-20 36-52 (79)
183 PRK00523 hypothetical protein; 21.5 94 0.002 15.5 1.7 17 3-19 38-54 (72)
184 KOG2318 Uncharacterized conser 21.2 2.2E+02 0.0047 20.5 3.8 33 37-69 270-304 (650)
185 KOG2295 C2H2 Zn-finger protein 21.1 30 0.00066 24.2 -0.1 62 2-63 240-301 (648)
186 PF05573 NosL: NosL; InterPro 20.7 1.5E+02 0.0032 16.7 2.6 20 36-55 115-134 (149)
187 KOG2187 tRNA uracil-5-methyltr 20.6 1E+02 0.0023 21.6 2.2 39 34-72 62-100 (534)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.86 E-value=4.4e-20 Score=102.77 Aligned_cols=75 Identities=32% Similarity=0.511 Sum_probs=70.9
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRH 75 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~ 75 (93)
|++++++++|+++|.+||.|.++.++.++.+++++|||||+|.+.++|..|+..|++..+.|+.|+|.++.+...
T Consensus 42 L~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~~~~ 116 (144)
T PLN03134 42 LSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPANDRPS 116 (144)
T ss_pred CCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCcCCC
Confidence 688999999999999999999999999999999999999999999999999999999999999999999876554
No 2
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.79 E-value=1.9e-18 Score=107.74 Aligned_cols=74 Identities=31% Similarity=0.517 Sum_probs=70.5
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
||+++++++|+++|++||.|.+++|+.++.++.++|||||+|.+.++|.+|+..|||..++|+.|+|.+.....
T Consensus 277 L~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~~~ 350 (352)
T TIGR01661 277 LSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTNKA 350 (352)
T ss_pred CCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccCCC
Confidence 78899999999999999999999999999999999999999999999999999999999999999999986654
No 3
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.77 E-value=3.6e-18 Score=100.04 Aligned_cols=73 Identities=25% Similarity=0.475 Sum_probs=70.6
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
|+.++++++|+++|.+||.|.++.+.+|+.||.++|||||+|.+.++|.+||..|||.-+++-.|.|++++|.
T Consensus 197 Lsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP~ 269 (270)
T KOG0122|consen 197 LSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKPS 269 (270)
T ss_pred CccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCCC
Confidence 6788999999999999999999999999999999999999999999999999999999999999999999885
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.76 E-value=1.2e-17 Score=104.07 Aligned_cols=75 Identities=27% Similarity=0.503 Sum_probs=71.3
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRH 75 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~ 75 (93)
||.++++++|+++|+.||.|.+++|+.++.+++++|||||+|.+.++|.+|+..|+|..+.|+.|.|.++++...
T Consensus 11 Lp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~ 85 (352)
T TIGR01661 11 LPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSD 85 (352)
T ss_pred CCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeeccccc
Confidence 789999999999999999999999999999999999999999999999999999999999999999999876553
No 5
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.74 E-value=1.5e-17 Score=103.69 Aligned_cols=74 Identities=23% Similarity=0.423 Sum_probs=70.3
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
||+++++++|+++|..||.|..++|+.|+.+++++|||||+|.+.++|.+|+..|++..+.+++|+|.++++..
T Consensus 115 Lp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~ 188 (346)
T TIGR01659 115 LPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGG 188 (346)
T ss_pred CCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccc
Confidence 78999999999999999999999999999999999999999999999999999999999999999999987643
No 6
>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=99.72 E-value=2e-16 Score=77.85 Aligned_cols=65 Identities=34% Similarity=0.548 Sum_probs=61.1
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEE
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIF 66 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~ 66 (93)
||.++++++|+++|+.||.+..+.+..+ .++..+++|||.|.+.+++.+|+..++|..+.|+.|+
T Consensus 6 lp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 6 LPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp ETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 6889999999999999999999999887 6788999999999999999999999999999999875
No 7
>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=99.71 E-value=2.2e-16 Score=103.70 Aligned_cols=75 Identities=19% Similarity=0.288 Sum_probs=70.5
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRH 75 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~ 75 (93)
|++++++++|+++|+.||.|.++++..++.+++++|||||+|.+.+++.+|+..||+..++|+.|+|.++.++..
T Consensus 212 Lp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~pP~ 286 (612)
T TIGR01645 212 VHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPPD 286 (612)
T ss_pred CCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCCcc
Confidence 678899999999999999999999999998999999999999999999999999999999999999999876543
No 8
>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=99.70 E-value=7.4e-16 Score=96.13 Aligned_cols=73 Identities=21% Similarity=0.386 Sum_probs=67.3
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecC--eEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDV--RVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~--~~l~v~~~~~~ 73 (93)
||.++++++|+++|++||.|..++|+.++.+++.+++|||+|.+.++|.+|++.|++..+.+ ++|.|.+++..
T Consensus 201 Lp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~ 275 (346)
T TIGR01659 201 LPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEH 275 (346)
T ss_pred CCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCcc
Confidence 78899999999999999999999999999899999999999999999999999999998866 68888887543
No 9
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.69 E-value=1.4e-16 Score=94.66 Aligned_cols=76 Identities=25% Similarity=0.468 Sum_probs=72.8
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHY 76 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~ 76 (93)
||..+++++++.+|+..|+|++|++++|+.+|++.||+||.|-+..+|++|+..|||..+..+.|+|+|++|....
T Consensus 49 LPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs~~ 124 (360)
T KOG0145|consen 49 LPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSSDS 124 (360)
T ss_pred cccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCChhh
Confidence 6888999999999999999999999999999999999999999999999999999999999999999999987654
No 10
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.69 E-value=4.2e-17 Score=93.83 Aligned_cols=72 Identities=25% Similarity=0.418 Sum_probs=67.7
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
|.+-++.++|+.+|++||.|-+|.|++|+-|...+||+||.|+...+|+.|+.+|+|.+++|+.|.|+.|+-
T Consensus 21 LTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ary 92 (256)
T KOG4207|consen 21 LTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARY 92 (256)
T ss_pred eeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhc
Confidence 445688899999999999999999999999999999999999999999999999999999999999998853
No 11
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.69 E-value=3.5e-16 Score=94.00 Aligned_cols=75 Identities=24% Similarity=0.470 Sum_probs=70.5
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRH 75 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~ 75 (93)
|+++++|..|+..|..||.|..|+|+.++.||+++|||||+|....+...|.+..+|..|+|+.|.|.+-.....
T Consensus 109 LnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvERgRTv 183 (335)
T KOG0113|consen 109 LNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVERGRTV 183 (335)
T ss_pred ccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEecccccc
Confidence 688999999999999999999999999999999999999999999999999999999999999999998755443
No 12
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.66 E-value=3.8e-15 Score=73.56 Aligned_cols=65 Identities=35% Similarity=0.505 Sum_probs=59.1
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEE
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIF 66 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~ 66 (93)
||+++++++|.++|..+|.|..+.+..++. +..+++|||+|.+.+++.+|+..+++..++|+.|+
T Consensus 6 lp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 6 LPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp STTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 689999999999999999999999999876 89999999999999999999999998999999874
No 13
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.64 E-value=1.4e-15 Score=99.98 Aligned_cols=70 Identities=29% Similarity=0.440 Sum_probs=67.1
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
|++++++++|+++|..||.|.+++++.|+.+++++|||||+|.+.+++.+|+..|||..+.|+.|+|...
T Consensus 115 Lp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp 184 (612)
T TIGR01645 115 ISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 184 (612)
T ss_pred CCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence 6889999999999999999999999999999999999999999999999999999999999999999854
No 14
>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=99.64 E-value=3.3e-15 Score=98.19 Aligned_cols=73 Identities=29% Similarity=0.394 Sum_probs=69.2
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
||.++++++|+++|+.||.|.+|+|++|..+++++|||||.|.+.++|.+|+..+++..+.|+.|+|.++...
T Consensus 8 Lp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~ 80 (562)
T TIGR01628 8 LDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRD 80 (562)
T ss_pred CCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccccc
Confidence 7899999999999999999999999999999999999999999999999999999999999999999987543
No 15
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.63 E-value=7.9e-16 Score=89.86 Aligned_cols=70 Identities=33% Similarity=0.505 Sum_probs=64.4
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
|+|++..++|+++|++||+|++..|+.|+.+++++||+||+|.+.+.+.+|++ -..-.|+||+..+..+.
T Consensus 20 L~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~-dp~piIdGR~aNcnlA~ 89 (247)
T KOG0149|consen 20 LAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACK-DPNPIIDGRKANCNLAS 89 (247)
T ss_pred cccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhc-CCCCcccccccccchhh
Confidence 78999999999999999999999999999999999999999999999999998 35678999988887763
No 16
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.63 E-value=1.9e-15 Score=89.99 Aligned_cols=74 Identities=32% Similarity=0.570 Sum_probs=69.4
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
|..+++.++|++.|.+||.|.+.+|++|..|++++||+||.|....+|+.||..|||.=|++|.|+..++..+.
T Consensus 70 ls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp 143 (321)
T KOG0148|consen 70 LSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKP 143 (321)
T ss_pred cchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCc
Confidence 45678889999999999999999999999999999999999999999999999999999999999999986555
No 17
>smart00360 RRM RNA recognition motif.
Probab=99.63 E-value=7.4e-15 Score=71.71 Aligned_cols=67 Identities=33% Similarity=0.523 Sum_probs=62.3
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEE
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFV 67 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v 67 (93)
||..+++++|+++|..||.+..+.+..++.++.++++|||.|.+.+++..|+..+++..+.|+.+.|
T Consensus 4 l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v 70 (71)
T smart00360 4 LPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV 70 (71)
T ss_pred CCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence 5788999999999999999999999988777889999999999999999999999999999988876
No 18
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.63 E-value=1.6e-15 Score=82.28 Aligned_cols=74 Identities=24% Similarity=0.306 Sum_probs=68.7
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCC
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRH 75 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~ 75 (93)
...+++++|.+.|..||.|.++++..|+.||..+||++|+|.+...|.+|+..+||..+.+..|.|.++....+
T Consensus 81 HeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~gp 154 (170)
T KOG0130|consen 81 HEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVKGP 154 (170)
T ss_pred CcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEecCC
Confidence 35688999999999999999999999999999999999999999999999999999999999999999865444
No 19
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.62 E-value=3e-15 Score=80.49 Aligned_cols=70 Identities=27% Similarity=0.405 Sum_probs=66.0
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
|++-++|++|+++|+++|.|..|.+-.|+.+..+.|||||+|.+.++|..|++.+++..++.++|.+.+.
T Consensus 44 lSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 44 LSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred eeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence 4567899999999999999999999999999999999999999999999999999999999999999875
No 20
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.61 E-value=5.1e-15 Score=97.31 Aligned_cols=73 Identities=29% Similarity=0.543 Sum_probs=68.2
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
|+.++++++|+++|+.||.|.+++++.+ .++.++|||||+|.+.++|.+|+..+++..+.|+.|.|.++....
T Consensus 293 l~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~k~ 365 (562)
T TIGR01628 293 LDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQRKE 365 (562)
T ss_pred CCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccCcH
Confidence 5788999999999999999999999998 679999999999999999999999999999999999999987543
No 21
>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=99.61 E-value=1.1e-14 Score=93.60 Aligned_cols=71 Identities=34% Similarity=0.523 Sum_probs=67.9
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
|+.++++++|+++|..||.|..+.+..++.+++++|||||+|.+.++|.+|+..|+|..+.|+.|.|.++.
T Consensus 194 l~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 194 LHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ 264 (457)
T ss_pred CCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence 67889999999999999999999999999888999999999999999999999999999999999999975
No 22
>smart00361 RRM_1 RNA recognition motif.
Probab=99.60 E-value=1.6e-14 Score=71.45 Aligned_cols=61 Identities=34% Similarity=0.491 Sum_probs=54.9
Q ss_pred HHHHHHHhc----ccCCceEEE-EEecCCC--CCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEE
Q 042899 7 KEMLADAFS----QFGQVTKAT-IIMDIGK--NRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFV 67 (93)
Q Consensus 7 ~~~l~~~f~----~~G~i~~~~-i~~~~~~--~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v 67 (93)
+++|+++|. .||.+.++. +..++.+ +.++|++||.|.+.++|.+|+..|||..+.|+.|.+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 578888998 999999985 7777666 889999999999999999999999999999999876
No 23
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.60 E-value=2e-14 Score=85.90 Aligned_cols=69 Identities=16% Similarity=0.199 Sum_probs=62.7
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
|++.+++++|+++|+.||.|.++.|+.++. .+|||||+|.+.+++..|+. |+|..+.|+.|.|..+...
T Consensus 12 Ls~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~~ 80 (260)
T PLN03120 12 VSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAEDY 80 (260)
T ss_pred CCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccCC
Confidence 688999999999999999999999998753 46899999999999999996 9999999999999987543
No 24
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.59 E-value=2.1e-14 Score=93.31 Aligned_cols=73 Identities=16% Similarity=0.265 Sum_probs=69.0
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
||..+++++|+++|..||.|..+.++.++.++.++|||||+|.+.+.|..|+..|+|..++|+.|.|.++...
T Consensus 303 lp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~ 375 (509)
T TIGR01642 303 LPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVG 375 (509)
T ss_pred CCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccC
Confidence 6889999999999999999999999999889999999999999999999999999999999999999998643
No 25
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.59 E-value=6.1e-15 Score=89.76 Aligned_cols=74 Identities=26% Similarity=0.457 Sum_probs=65.7
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHY 76 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~ 76 (93)
+|+...+-||+.+|.+||.|.+|.|+.+. ..+|||+||+|++.+++++|..+|+|..+.||+|+|..+.++...
T Consensus 104 IPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATarV~n 177 (376)
T KOG0125|consen 104 IPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATARVHN 177 (376)
T ss_pred CCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchhhcc
Confidence 46667778999999999999999999873 567899999999999999999999999999999999998766443
No 26
>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=99.58 E-value=4.3e-14 Score=67.04 Aligned_cols=56 Identities=32% Similarity=0.540 Sum_probs=50.1
Q ss_pred HHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 10 LADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 10 l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
|.++|++||.|.++.+..+. ++++||+|.+.++|..|+..||+..+.|+.|+|.+|
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 67899999999999886553 579999999999999999999999999999999986
No 27
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.58 E-value=2.6e-14 Score=85.13 Aligned_cols=72 Identities=31% Similarity=0.509 Sum_probs=67.9
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
|.++++|.-||++|+.||.|..+++++|..+.+++||+||+..+.++|.-|+..|||..++++.|.|.+-..
T Consensus 286 Lspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtn 357 (360)
T KOG0145|consen 286 LSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTN 357 (360)
T ss_pred cCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecC
Confidence 567899999999999999999999999999999999999999999999999999999999999999998543
No 28
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.58 E-value=1.8e-15 Score=88.04 Aligned_cols=79 Identities=25% Similarity=0.437 Sum_probs=73.1
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHYNTD 79 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~~~~ 79 (93)
|..++++.-|...|-.||.|..|+++.|..+++++||+||+|...++|..||.-||+..+.|+.|.|.+++|..-.+++
T Consensus 18 ladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~kikegs 96 (298)
T KOG0111|consen 18 LADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPEKIKEGS 96 (298)
T ss_pred chHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCccccCCC
Confidence 3457889999999999999999999999999999999999999999999999999999999999999999988766544
No 29
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.58 E-value=1.8e-14 Score=81.04 Aligned_cols=70 Identities=17% Similarity=0.238 Sum_probs=63.1
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRH 75 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~ 75 (93)
|+..+++.||+..|..||.+..|.|..++ .|||||+|++..+|..|+..|+|..|+|..|.|+.+.....
T Consensus 18 L~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~r 87 (195)
T KOG0107|consen 18 LGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRPR 87 (195)
T ss_pred CCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCcc
Confidence 67789999999999999999999887664 58999999999999999999999999999999998865443
No 30
>PLN03213 repressor of silencing 3; Provisional
Probab=99.57 E-value=1.6e-14 Score=92.38 Aligned_cols=68 Identities=16% Similarity=0.254 Sum_probs=62.4
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCH--HHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTE--EEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~--~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
|++++++++|+..|+.||.|.++.|+ +.+| +|||||+|... ..+.+||..|||..+.|+.|+|..|++
T Consensus 18 LSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP 87 (759)
T PLN03213 18 LGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE 87 (759)
T ss_pred CCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence 68899999999999999999999998 4456 89999999976 689999999999999999999999865
No 31
>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=99.55 E-value=5.7e-14 Score=90.39 Aligned_cols=72 Identities=28% Similarity=0.356 Sum_probs=67.4
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
||..+++++|+++|+.||.|..|.++.++.+++++|||||+|.+.++|.+|+. |+|..+.|+.|.|..+...
T Consensus 97 lp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~~~~~ 168 (457)
T TIGR01622 97 LALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQSSQAE 168 (457)
T ss_pred CCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEeecchh
Confidence 68899999999999999999999999999999999999999999999999997 8999999999999876543
No 32
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.54 E-value=2.4e-14 Score=91.14 Aligned_cols=77 Identities=23% Similarity=0.456 Sum_probs=72.2
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHYN 77 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~~ 77 (93)
+|+++++++|..+|+..|.|..++++.|+.+|+.+||+|++|.+.+++.+|++.|||..+.|+.|+|.++.-...+.
T Consensus 26 ip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~~~~~ 102 (435)
T KOG0108|consen 26 IPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNRKNAE 102 (435)
T ss_pred CCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccccchhH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999986655543
No 33
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.54 E-value=6.4e-16 Score=87.43 Aligned_cols=70 Identities=24% Similarity=0.405 Sum_probs=66.4
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
||++.+|.||..+|++||.++.|.+++|+.||+++||||+.|.+..+..-|+.-|||..+.||.|+|...
T Consensus 43 l~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv 112 (219)
T KOG0126|consen 43 LPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV 112 (219)
T ss_pred CcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence 6889999999999999999999999999999999999999999999888888899999999999999865
No 34
>smart00362 RRM_2 RNA recognition motif.
Probab=99.54 E-value=1.8e-13 Score=66.93 Aligned_cols=66 Identities=32% Similarity=0.498 Sum_probs=59.8
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEE
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVD 68 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~ 68 (93)
||.++++++|+++|..||.+..+.+..++ +.+++++|++|.+.+.+..|+..+++..+.|+.+.|+
T Consensus 7 l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 7 LPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 57789999999999999999999888775 6788999999999999999999999999999988763
No 35
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.52 E-value=5e-14 Score=88.42 Aligned_cols=76 Identities=22% Similarity=0.376 Sum_probs=67.5
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCc-EecC--eEEEEEEecCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKM-LLDV--RVIFVDYVRPNRHY 76 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~-~~~~--~~l~v~~~~~~~~~ 76 (93)
+|+.++|+||+.+|++||.|.+|.+++|+.++.++|||||.|.+.+++.+|+.+|+.. ++-| .+|.|+++.....+
T Consensus 42 Iprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er 120 (510)
T KOG0144|consen 42 IPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERER 120 (510)
T ss_pred CCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhc
Confidence 5788999999999999999999999999999999999999999999999999988775 4544 78999998765544
No 36
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=2.7e-14 Score=89.60 Aligned_cols=76 Identities=22% Similarity=0.393 Sum_probs=67.4
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCc-Eec--CeEEEEEEecCCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKM-LLD--VRVIFVDYVRPNRHYN 77 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~-~~~--~~~l~v~~~~~~~~~~ 77 (93)
|+..++|.+++++|++||.|++|.|+++.. +.++||+||.|.+.+.|..||+.|||. ++. ..+|.|+|+.+..++.
T Consensus 132 lsK~~te~evr~iFs~fG~Ied~~ilrd~~-~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkdk~ 210 (510)
T KOG0144|consen 132 LSKQCTENEVREIFSRFGHIEDCYILRDPD-GLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKDKD 210 (510)
T ss_pred ccccccHHHHHHHHHhhCccchhhheeccc-ccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCCch
Confidence 456789999999999999999999999964 899999999999999999999999996 344 4789999998877654
No 37
>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=99.51 E-value=8.6e-14 Score=91.38 Aligned_cols=69 Identities=22% Similarity=0.333 Sum_probs=62.5
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEec-CeEEEEEEe
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLD-VRVIFVDYV 70 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~-~~~l~v~~~ 70 (93)
||+++++++|+++|+.+|.|..++|++| .+++++|||||+|.+.++|.+|+..||+..+. ++.|.|..+
T Consensus 66 Lp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 66 IPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred CCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence 7899999999999999999999999999 78999999999999999999999999998875 666666544
No 38
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.51 E-value=2.1e-13 Score=80.62 Aligned_cols=66 Identities=17% Similarity=0.167 Sum_probs=59.7
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
|++.+++++|+++|+.||.|.+++|+++. ...++|||+|.+.+.+..|+. |+|..|.++.|.|...
T Consensus 13 LS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~ 78 (243)
T PLN03121 13 LSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRW 78 (243)
T ss_pred CCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeC
Confidence 67899999999999999999999999884 445799999999999999995 9999999999988864
No 39
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.50 E-value=3.2e-14 Score=80.51 Aligned_cols=71 Identities=30% Similarity=0.352 Sum_probs=67.3
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
|+..++++.|+++|-+.|.+++++++.|+.++..+||||++|.+++++.-|++.||...+.|++|+|..+.
T Consensus 17 ld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas 87 (203)
T KOG0131|consen 17 LDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS 87 (203)
T ss_pred CCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence 56678999999999999999999999999999999999999999999999999999889999999999876
No 40
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.49 E-value=1.7e-13 Score=86.29 Aligned_cols=71 Identities=23% Similarity=0.367 Sum_probs=66.2
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEe-cCeEEEEEEec
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLL-DVRVIFVDYVR 71 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~-~~~~l~v~~~~ 71 (93)
||.++.|++|.-+|++.|.|-++++++|+.+|.++|||||+|.+.+.|+.|++.||+..| .|+.|.|+.+.
T Consensus 91 IPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Sv 162 (506)
T KOG0117|consen 91 IPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSV 162 (506)
T ss_pred CCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEee
Confidence 689999999999999999999999999999999999999999999999999999999976 57888888663
No 41
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.49 E-value=4e-13 Score=80.33 Aligned_cols=72 Identities=28% Similarity=0.537 Sum_probs=68.3
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
|+.++++++|+++|..||.+..+.+..++.+++.+|+|||.|.+.+++..|+..+++..+.|+.|.|..+..
T Consensus 123 L~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~ 194 (306)
T COG0724 123 LPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP 194 (306)
T ss_pred CCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence 678999999999999999999999999988999999999999999999999999999999999999998653
No 42
>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=99.48 E-value=1.4e-12 Score=64.00 Aligned_cols=68 Identities=34% Similarity=0.525 Sum_probs=61.4
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEE
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDY 69 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~ 69 (93)
||..+++++|+++|..+|.+..+.+..++.+ ..+++||+.|.+.+++..|+..+++..+.|+.+.|.+
T Consensus 7 l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 7 LPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 6788999999999999999999999887654 6789999999999999999999999999999988763
No 43
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.47 E-value=5.6e-13 Score=87.61 Aligned_cols=68 Identities=28% Similarity=0.439 Sum_probs=61.7
Q ss_pred CCcccCHHHHHHHhccc--CCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCC
Q 042899 1 VSFSTTKEMLADAFSQF--GQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHY 76 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~--G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~ 76 (93)
|+.++++++|+++|+.| |.|.+|.+++ +||||+|.+.++|.+|+..||+..+.|+.|+|.++++....
T Consensus 241 L~~~~tee~L~~~F~~f~~G~I~rV~~~r--------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~~~ 310 (578)
T TIGR01648 241 LMTTTTEEIIEKSFSEFKPGKVERVKKIR--------DYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVDKK 310 (578)
T ss_pred CCCCCCHHHHHHHHHhcCCCceEEEEeec--------CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCCcc
Confidence 67899999999999999 9999987654 49999999999999999999999999999999999876443
No 44
>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=99.46 E-value=9.3e-13 Score=85.52 Aligned_cols=68 Identities=18% Similarity=0.195 Sum_probs=61.8
Q ss_pred CCc-ccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 1 VSF-STTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~-~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
|++ .+++++|+++|+.||.|.+++++.++ +|+|||+|.+.++|..|+..|||..+.|+.|.|.+++..
T Consensus 283 L~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~ 351 (481)
T TIGR01649 283 LHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQ 351 (481)
T ss_pred CCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccc
Confidence 565 59999999999999999999998763 489999999999999999999999999999999998543
No 45
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.44 E-value=1.2e-12 Score=68.15 Aligned_cols=70 Identities=23% Similarity=0.377 Sum_probs=62.9
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
||++++.+++.++|++||.|..|+|-..+ ..+|-|||.|++..+|.+|+..|+|..++++.+.|-+-.+.
T Consensus 26 Lp~~ITseemydlFGkyg~IrQIRiG~~k---~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~ 95 (124)
T KOG0114|consen 26 LPFKITSEEMYDLFGKYGTIRQIRIGNTK---ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPE 95 (124)
T ss_pred CCccccHHHHHHHhhcccceEEEEecCcc---CcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHH
Confidence 78999999999999999999999886543 44789999999999999999999999999999999986543
No 46
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.44 E-value=3.7e-13 Score=84.83 Aligned_cols=68 Identities=31% Similarity=0.399 Sum_probs=63.1
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHY 76 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~ 76 (93)
|+.++|++.|++.|..||.+.+|+.++| |+||+|...++|.+|++.+||..+.|..|.|..|+|....
T Consensus 267 L~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~k~ 334 (506)
T KOG0117|consen 267 LMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVDKK 334 (506)
T ss_pred cchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceEEEEecCChhhh
Confidence 5678999999999999999999987765 9999999999999999999999999999999999987654
No 47
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=3.2e-13 Score=83.35 Aligned_cols=72 Identities=29% Similarity=0.475 Sum_probs=68.3
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
|.+.++.++|+-+|+.||.|..+.+++|..||.+..||||+|.+.+++.+|.-.|++..|..++|+|.++.+
T Consensus 247 LNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQS 318 (479)
T KOG0415|consen 247 LNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQS 318 (479)
T ss_pred cCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhh
Confidence 567788999999999999999999999999999999999999999999999999999999999999999854
No 48
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.41 E-value=2.9e-13 Score=80.94 Aligned_cols=74 Identities=24% Similarity=0.424 Sum_probs=68.5
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
||-+....+|.++|..||.|.+.++..|+.|+.+++|+||.|++..++..||..+||..|+.++|+|...+|+.
T Consensus 293 LPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRPkd 366 (371)
T KOG0146|consen 293 LPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRPKD 366 (371)
T ss_pred CchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCccc
Confidence 56677788999999999999999999999999999999999999999999999999999999999999877654
No 49
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.39 E-value=3.7e-12 Score=76.20 Aligned_cols=67 Identities=22% Similarity=0.459 Sum_probs=60.9
Q ss_pred cccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCC
Q 042899 3 FSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRH 75 (93)
Q Consensus 3 ~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~ 75 (93)
..+++++|++.|+.||.|.+|++..++ ||+||.|.+.+.|..||..+|+..+.|..+++.+-+....
T Consensus 174 ~~lte~~mr~~Fs~fG~I~EVRvFk~q------GYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~~~ 240 (321)
T KOG0148|consen 174 SGLTEDLMRQTFSPFGPIQEVRVFKDQ------GYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEGDD 240 (321)
T ss_pred ccccHHHHHHhcccCCcceEEEEeccc------ceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccCCC
Confidence 357899999999999999999998774 7999999999999999999999999999999998765543
No 50
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.37 E-value=3.4e-12 Score=82.42 Aligned_cols=77 Identities=26% Similarity=0.411 Sum_probs=69.1
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHYNT 78 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~~~ 78 (93)
||+.+...+|+.+|+.||.+..|.|++.+. ++.+|||||+|....+|..|+..+|+..++||+|.|.+|-+...+..
T Consensus 125 LPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d-gklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye~ 201 (678)
T KOG0127|consen 125 LPFKCKKPDLKNVFSNFGKVVEIVIPRKKD-GKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYED 201 (678)
T ss_pred CCcccCcHHHHHHHhhcceEEEEEcccCCC-CCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccccccc
Confidence 788999999999999999999999997765 66669999999999999999999999999999999999966655443
No 51
>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=99.37 E-value=6.7e-12 Score=81.57 Aligned_cols=67 Identities=16% Similarity=0.234 Sum_probs=60.2
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHh--CCcEecCeEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDM--NKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l--~~~~~~~~~l~v~~~~~~ 73 (93)
||+++++++|+++|+.||.|.++.++.+ +++|||+|.+.++|.+|+..+ ++..+.|+.|.|.++...
T Consensus 10 Lp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~ 78 (481)
T TIGR01649 10 LPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQ 78 (481)
T ss_pred CCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCc
Confidence 7899999999999999999999988753 369999999999999999864 678999999999998654
No 52
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.36 E-value=2.9e-12 Score=82.42 Aligned_cols=70 Identities=36% Similarity=0.596 Sum_probs=66.2
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
|.+++++++|+.+|..||.|..|.+.++..+|.++||+|++|.+.+++.+|+..|||..+-|+.|+|..-
T Consensus 286 LHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v 355 (549)
T KOG0147|consen 286 LHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVV 355 (549)
T ss_pred cccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEe
Confidence 5678999999999999999999999999889999999999999999999999999999999999998864
No 53
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.35 E-value=1.4e-12 Score=80.98 Aligned_cols=67 Identities=30% Similarity=0.462 Sum_probs=64.0
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEE
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVD 68 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~ 68 (93)
.++..|+.|+..|..||.|.+|.+-+|+.|++++||+||+|.-.+.+.-|++.+||..++||.|+|.
T Consensus 122 sfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVg 188 (544)
T KOG0124|consen 122 SFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVG 188 (544)
T ss_pred EEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCcccccc
Confidence 4677899999999999999999999999999999999999999999999999999999999999987
No 54
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.34 E-value=3.5e-12 Score=72.36 Aligned_cols=77 Identities=26% Similarity=0.399 Sum_probs=69.6
Q ss_pred CCcccCHHHHHHHhcccCCceE-EEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTK-ATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHYN 77 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~-~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~~ 77 (93)
|+++++|..|++.|+.||.+.. .++++++.++..++++|+.|.+.+.+.+|+..++|..++++++.|.++......+
T Consensus 104 Ld~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~~~kg 181 (203)
T KOG0131|consen 104 LDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFKKDTKG 181 (203)
T ss_pred cCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEecCCCc
Confidence 5678999999999999999865 4889999999999999999999999999999999999999999999997655443
No 55
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.30 E-value=1.4e-11 Score=70.32 Aligned_cols=70 Identities=11% Similarity=0.225 Sum_probs=61.8
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
||.++.+.+|+++|.+||.|..|.+-.. .....||||+|++..+|+.||..-+|..++|..|.|+++...
T Consensus 14 LP~diRekeieDlFyKyg~i~~ieLK~r---~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprgg 83 (241)
T KOG0105|consen 14 LPGDIREKEIEDLFYKYGRIREIELKNR---PGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGG 83 (241)
T ss_pred CCcchhhccHHHHHhhhcceEEEEeccC---CCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCC
Confidence 7889999999999999999999876433 334579999999999999999999999999999999998644
No 56
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.30 E-value=7.1e-12 Score=80.96 Aligned_cols=77 Identities=27% Similarity=0.527 Sum_probs=71.7
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHYN 77 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~~ 77 (93)
||++++.++|.++|+.+|+|..+.++.++.++.++||+||+|...+++..|+....+..+.|+.|.|..++.+....
T Consensus 13 lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r~e 89 (678)
T KOG0127|consen 13 LPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRARSE 89 (678)
T ss_pred CCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccccccch
Confidence 68899999999999999999999999999999999999999999999999999999999999999999987665543
No 57
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.26 E-value=3.2e-11 Score=69.59 Aligned_cols=73 Identities=26% Similarity=0.377 Sum_probs=64.5
Q ss_pred CCcccCHHHHHHHhccc-CCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQF-GQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~-G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
+|....+.++..+|.++ |.+.+.++-+++.||.++|||||+|.+.+.|.-|.+.||+..+.++.|.+.+.-|.
T Consensus 57 ~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe 130 (214)
T KOG4208|consen 57 IPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE 130 (214)
T ss_pred cccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence 35566778899999888 66677787799999999999999999999999999999999999999999987665
No 58
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.24 E-value=8.1e-11 Score=76.78 Aligned_cols=65 Identities=20% Similarity=0.289 Sum_probs=57.4
Q ss_pred HHHHHHhcccCCceEEEEEecC---CCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 8 EMLADAFSQFGQVTKATIIMDI---GKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 8 ~~l~~~f~~~G~i~~~~i~~~~---~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
++|++.|.+||.|..|.|+.+. .++...|++||.|.+.++|.+|+..|||..+.|+.|.+.|...
T Consensus 434 edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~v~~~~~~~ 501 (509)
T TIGR01642 434 EDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVVVAAFYGE 501 (509)
T ss_pred HHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEeCH
Confidence 5789999999999999998652 3345679999999999999999999999999999999998754
No 59
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.22 E-value=9.1e-11 Score=74.06 Aligned_cols=74 Identities=31% Similarity=0.515 Sum_probs=66.2
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHYN 77 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~~ 77 (93)
|+++++..+|.++|+.||.|++|++..+.. | ++|| ||+|.+.+.|.+|+..+||..+.++.|.|........+.
T Consensus 84 l~~~~~~~~~~d~f~~~g~ilS~kv~~~~~-g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~ 157 (369)
T KOG0123|consen 84 LDESIDNKSLYDTFSEFGNILSCKVATDEN-G-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEERE 157 (369)
T ss_pred CCcccCcHHHHHHHHhhcCeeEEEEEEcCC-C-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhc
Confidence 678899999999999999999999999864 4 8999 999999999999999999999999999998776655443
No 60
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.22 E-value=8.9e-11 Score=71.01 Aligned_cols=65 Identities=22% Similarity=0.396 Sum_probs=61.4
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
||.++++.+|+.+|++||++.+|.|+++ |+||..++...+..+|.-|++.+++|..|.|+-++.+
T Consensus 10 Lp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 10 LPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred CCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 6889999999999999999999999987 9999999999999999999999999999999988766
No 61
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.18 E-value=1.8e-10 Score=72.74 Aligned_cols=69 Identities=29% Similarity=0.367 Sum_probs=64.4
Q ss_pred cccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 3 FSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 3 ~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
+++++..|.++|+.+|.++.+++++|. + +-|||||.|.+..+|.+|+..+|...+.|++|++.++..+.
T Consensus 8 ~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~ 76 (369)
T KOG0123|consen 8 PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP 76 (369)
T ss_pred CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC
Confidence 578999999999999999999999997 5 99999999999999999999999999999999999886554
No 62
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.17 E-value=1.4e-10 Score=73.63 Aligned_cols=70 Identities=21% Similarity=0.336 Sum_probs=64.6
Q ss_pred CCcccCHHHHHHHh-cccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 1 VSFSTTKEMLADAF-SQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 1 L~~~~~~~~l~~~f-~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
+|+++.+.+|+++| .+.|.|..|.++.| .+++.+|++.|+|++.+.+++|++.||.+.+.|+.|.|+...
T Consensus 52 Ipyd~rWqdLKdLvrekvGev~yveLl~D-~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~ 122 (608)
T KOG4212|consen 52 IPYDYRWQDLKDLVREKVGEVEYVELLFD-ESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDH 122 (608)
T ss_pred CcchhhhHhHHHHHHHhcCceEeeeeecc-cCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccC
Confidence 58899999999999 47899999999998 479999999999999999999999999999999999998653
No 63
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.16 E-value=3.3e-10 Score=74.11 Aligned_cols=71 Identities=27% Similarity=0.440 Sum_probs=63.9
Q ss_pred cccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 3 FSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 3 ~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
..+...+|+.+|++||.|+..+++.+-.+.-.++|+||+..+..+|.+||..|+...++|+.|.|..++-.
T Consensus 415 stTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKNE 485 (940)
T KOG4661|consen 415 STTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKNE 485 (940)
T ss_pred cchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecccC
Confidence 34556799999999999999999998777788999999999999999999999999999999999987543
No 64
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.16 E-value=1.2e-10 Score=72.57 Aligned_cols=72 Identities=18% Similarity=0.286 Sum_probs=66.6
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
.++.+++||+..|+.||.|..|++-+++..+.++||+|++|.+......|+..+|-..++|.-|+|..+-.+
T Consensus 219 HpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vTP 290 (544)
T KOG0124|consen 219 HPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTP 290 (544)
T ss_pred CCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecccccCC
Confidence 467899999999999999999999999999999999999999999999999999999999999999877443
No 65
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.13 E-value=2.5e-10 Score=66.71 Aligned_cols=72 Identities=18% Similarity=0.317 Sum_probs=60.7
Q ss_pred CcccCHHHHHH----HhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCC
Q 042899 2 SFSTTKEMLAD----AFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHY 76 (93)
Q Consensus 2 ~~~~~~~~l~~----~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~ 76 (93)
+..+..++|+. +|+.||.|..|.... +.+.+|-|||.|++.+.+..|+..|+|..+.|+.+++.||+.+.+-
T Consensus 18 nekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdi 93 (221)
T KOG4206|consen 18 NEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDI 93 (221)
T ss_pred cccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccch
Confidence 33455566665 999999999987653 5788999999999999999999999999999999999999776653
No 66
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.11 E-value=3.3e-10 Score=68.13 Aligned_cols=74 Identities=18% Similarity=0.338 Sum_probs=63.6
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcE-ecC--eEEEEEEecCCCCC
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKML-LDV--RVIFVDYVRPNRHY 76 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~-~~~--~~l~v~~~~~~~~~ 76 (93)
...-+|+|++.+|..||.|.++.+.+.++ +.++|++||.|.+..++..||..|+|.. +-| ..|.|++++.+..|
T Consensus 28 ~kqq~e~dvrrlf~pfG~~~e~tvlrg~d-g~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ADTdkER 104 (371)
T KOG0146|consen 28 NKQQSEDDVRRLFQPFGNIEECTVLRGPD-GNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFADTDKER 104 (371)
T ss_pred cccccHHHHHHHhcccCCcceeEEecCCC-CCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEeccchHHH
Confidence 44568999999999999999999998864 8899999999999999999999999964 444 67999999776654
No 67
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.08 E-value=3.7e-10 Score=68.39 Aligned_cols=68 Identities=19% Similarity=0.341 Sum_probs=60.9
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCCC
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHYN 77 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~~ 77 (93)
.+..+..+|+..|.+||.+.++.|++| |+||.|.-.+++..|++.|++..+.|++++|+.+.++....
T Consensus 87 s~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlrta 154 (346)
T KOG0109|consen 87 SPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLRTA 154 (346)
T ss_pred CccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhcccccccccceeeeeeeccccccC
Confidence 345677899999999999999999886 99999999999999999999999999999999987766543
No 68
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.04 E-value=2.6e-10 Score=70.38 Aligned_cols=75 Identities=32% Similarity=0.460 Sum_probs=66.2
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHY 76 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~ 76 (93)
|+++++++.|++.|..||.+..+.+++++.+++.+||+||+|.+.+...+++. ..-+.+.|+.|.+..+.+....
T Consensus 14 isw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~av~r~~~ 88 (311)
T KOG4205|consen 14 LSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKRAVSREDQ 88 (311)
T ss_pred cCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccceeccCcccc
Confidence 67899999999999999999999999999999999999999998888877765 3557799999999988776644
No 69
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.00 E-value=6.6e-10 Score=68.59 Aligned_cols=75 Identities=25% Similarity=0.413 Sum_probs=68.0
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHY 76 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~ 76 (93)
|+.++++++++++|.+||.|..+.++.|..+.+.++|+||+|.+.+.+.+++. ...+.++++.+.|..|.|+...
T Consensus 105 ~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~pk~~~ 179 (311)
T KOG4205|consen 105 LPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAIPKEVM 179 (311)
T ss_pred cCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeeccchhhc
Confidence 57899999999999999999999999999999999999999999999999886 4678899999999999776643
No 70
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.99 E-value=4.4e-09 Score=69.85 Aligned_cols=71 Identities=30% Similarity=0.366 Sum_probs=62.0
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCC---CcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKN---RSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~---~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
|+++++.+++...|...|.|..+.|..-+... .+.||+||.|.+.++|..|++.|+|..++|+.|.|+++.
T Consensus 523 lnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 523 LNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE 596 (725)
T ss_pred CCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence 57889999999999999999998877554321 134999999999999999999999999999999999986
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.94 E-value=9e-10 Score=73.01 Aligned_cols=74 Identities=24% Similarity=0.489 Sum_probs=65.7
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
+|+..+-.+++.+|..||.+..++++.-...+.++|||||+|-+..++..|+.+|...-+.||+|.+++++...
T Consensus 621 ipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d~ 694 (725)
T KOG0110|consen 621 IPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKSDN 694 (725)
T ss_pred cchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhccch
Confidence 46777889999999999999999998765556679999999999999999999999888999999999987643
No 72
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.93 E-value=1.2e-08 Score=65.23 Aligned_cols=73 Identities=19% Similarity=0.322 Sum_probs=60.7
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
||++++..+|+++|..||.|....|..-.-.++..+|+||+|.+...+..+|.+ +-..++++.+.|+.-++..
T Consensus 296 lP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek~~~~ 368 (419)
T KOG0116|consen 296 LPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEKRPGF 368 (419)
T ss_pred CCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEeccccc
Confidence 789999999999999999999887765432345559999999999999999985 5778999999999765543
No 73
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.89 E-value=1.5e-08 Score=60.61 Aligned_cols=71 Identities=20% Similarity=0.404 Sum_probs=63.9
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
|++.++++||+++|..||.+..+.+..++ +|.+.|.|-|.|...+++..+++.|++..++|+.+++....+
T Consensus 91 L~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~ 161 (243)
T KOG0533|consen 91 LPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISS 161 (243)
T ss_pred CCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecC
Confidence 68899999999999999988888777775 689999999999999999999999999999999988887643
No 74
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.85 E-value=1.9e-09 Score=64.26 Aligned_cols=73 Identities=26% Similarity=0.391 Sum_probs=65.1
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
..+++.+-|-+.|.+|-....-++++++.+++++||+||.|.+..++..|++.++|..++.++|++..+....
T Consensus 199 gNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~wke 271 (290)
T KOG0226|consen 199 GNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSEWKE 271 (290)
T ss_pred cccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhhHHh
Confidence 3467888899999999888888899999999999999999999999999999999999999999888664443
No 75
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.77 E-value=8e-08 Score=59.61 Aligned_cols=65 Identities=25% Similarity=0.414 Sum_probs=55.5
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHH-hCCcEecCeEEEEEEecC
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVD-MNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~-l~~~~~~~~~l~v~~~~~ 72 (93)
...+++.+|++.|.+||.|..+.+.... ++|||+|.+...|+.|... ++...+.|.+|+|.+..+
T Consensus 237 ~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 237 NDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred ccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 3468899999999999999999887543 5999999999999988874 455579999999999887
No 76
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.77 E-value=3.3e-08 Score=59.02 Aligned_cols=71 Identities=23% Similarity=0.281 Sum_probs=63.5
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
++.++-+++...|..||.+..+.++.++.++.+++|+|++|.+.+....++. |++..+.++.+.+...+..
T Consensus 110 d~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r~~ 180 (231)
T KOG4209|consen 110 DFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKRTN 180 (231)
T ss_pred ccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeeeee
Confidence 4556667799999999999999999999988999999999999999999999 9999999999998876544
No 77
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.76 E-value=2.8e-07 Score=54.46 Aligned_cols=79 Identities=13% Similarity=0.197 Sum_probs=61.4
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEe-cCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEec---CeEEEEEEecCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIM-DIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLD---VRVIFVDYVRPNRHY 76 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~-~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~---~~~l~v~~~~~~~~~ 76 (93)
||.++...+|..+|..|-.-+...+-. ++..+-.+-++|++|.+..+|..|...|||..++ +..|+++++++...+
T Consensus 42 LP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElAKSNtK~ 121 (284)
T KOG1457|consen 42 LPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELAKSNTKR 121 (284)
T ss_pred CCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeehhcCccc
Confidence 678899999999999886555554433 2222334579999999999999999999999875 578999999887766
Q ss_pred CCC
Q 042899 77 NTD 79 (93)
Q Consensus 77 ~~~ 79 (93)
.+.
T Consensus 122 kr~ 124 (284)
T KOG1457|consen 122 KRR 124 (284)
T ss_pred ccC
Confidence 544
No 78
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.73 E-value=6.7e-08 Score=65.16 Aligned_cols=68 Identities=19% Similarity=0.402 Sum_probs=60.6
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
|+..+++.||.++|+.||.|.+|.++-+ +++|||......+|.+|+.+|+...+.++.|+|.++....
T Consensus 429 i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G 496 (894)
T KOG0132|consen 429 IPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKG 496 (894)
T ss_pred ccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCC
Confidence 5678999999999999999999977644 4799999999999999999999999999999999985443
No 79
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.72 E-value=7e-08 Score=62.12 Aligned_cols=68 Identities=25% Similarity=0.308 Sum_probs=58.5
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
|||+.|++||.++|+.+ .|.++.+. +.+++..|-|||+|.+.+++.+|++ .+...+.++-|.|-.+.+
T Consensus 18 LPwsat~~ei~~Ff~~~-~I~~~~~~--r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~~ 85 (510)
T KOG4211|consen 18 LPWSATEKEILDFFSNC-GIENLEIP--RRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAGG 85 (510)
T ss_pred CCccccHHHHHHHHhcC-ceeEEEEe--ccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccCC
Confidence 89999999999999999 56665444 4579999999999999999999998 578889999999987743
No 80
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.68 E-value=4.9e-08 Score=62.39 Aligned_cols=65 Identities=37% Similarity=0.467 Sum_probs=58.0
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
||.+.|+..|++-|..||.+....|+.+ ++.+| .|.|.+.++|+.|+..+++..+.|+.|+|.|.
T Consensus 544 lP~dfTWqmlrDKfre~G~v~yadime~---GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~ 608 (608)
T KOG4212|consen 544 LPFDFTWQMLRDKFREIGHVLYADIMEN---GKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTYF 608 (608)
T ss_pred CCccccHHHHHHHHHhccceehhhhhcc---CCccc--eEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence 7899999999999999999998887543 66666 78999999999999999999999999999873
No 81
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.66 E-value=1.3e-08 Score=66.15 Aligned_cols=61 Identities=16% Similarity=0.287 Sum_probs=54.3
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEE
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIF 66 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~ 66 (93)
||..+++++|+++|+.||+|..++.- -..++.+||+|.+..+|..|++.|++..+.|+.|+
T Consensus 83 l~~~Vsn~~L~~~f~~yGeir~ir~t-----~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 83 LPRSVSNDTLLRIFGAYGEIREIRET-----PNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCCcCCHHHHHHHHHhhcchhhhhcc-----cccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 68899999999999999999987543 33468999999999999999999999999998877
No 82
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.65 E-value=5.7e-08 Score=57.20 Aligned_cols=65 Identities=17% Similarity=0.365 Sum_probs=57.7
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
|++.+.+.+|+.+|..||.+.++.+.. +|+||.|.+..+|..|+..+++..+++..+.|++++..
T Consensus 9 ~~~~~~~~d~E~~f~~yg~~~d~~mk~--------gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~ 73 (216)
T KOG0106|consen 9 LPYRARERDVERFFKGYGKIPDADMKN--------GFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred cCCccchhHHHHHHhhccccccceeec--------ccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 578899999999999999998886643 58899999999999999999999999988888888754
No 83
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.62 E-value=2.2e-07 Score=57.74 Aligned_cols=70 Identities=17% Similarity=0.215 Sum_probs=64.0
Q ss_pred CCcccCHHHHHHHhcccCCce--------EEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 1 VSFSTTKEMLADAFSQFGQVT--------KATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~--------~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
||.++|.+++..+|+++|.|. .|++.++.. |+.+|=+.++|...+++.-|+..|++..+.|+.|+|+.|+
T Consensus 142 LP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~-G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAk 219 (382)
T KOG1548|consen 142 LPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQ-GKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAK 219 (382)
T ss_pred CCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCC-CCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhh
Confidence 789999999999999999886 577888754 9999999999999999999999999999999999999874
No 84
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.60 E-value=3.4e-07 Score=58.10 Aligned_cols=64 Identities=19% Similarity=0.256 Sum_probs=58.7
Q ss_pred cccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 3 FSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 3 ~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
..+|.+.|..+|+.||.|.+|+|..++. .-|.|.+.+...|.-|+..|+|..+.|+.|+|.+++
T Consensus 308 ~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 308 EAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred hccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 4578899999999999999999998754 489999999999999999999999999999999985
No 85
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.56 E-value=1.2e-07 Score=61.66 Aligned_cols=68 Identities=25% Similarity=0.298 Sum_probs=62.0
Q ss_pred ccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 4 STTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 4 ~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
.++..+|.++|+..|.|..|.++.|+.++.++|.+||+|.+.+.+..||. |.|..+.|.+|.|.....
T Consensus 190 r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~pv~vq~sEa 257 (549)
T KOG0147|consen 190 RNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPVIVQLSEA 257 (549)
T ss_pred cCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCceeEecccHH
Confidence 45678999999999999999999999999999999999999999999985 899999999999987533
No 86
>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=98.53 E-value=2.2e-06 Score=44.82 Aligned_cols=72 Identities=18% Similarity=0.269 Sum_probs=59.3
Q ss_pred CCcccCHHHHHHHhccc--CCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEec----CeEEEEEEecC
Q 042899 1 VSFSTTKEMLADAFSQF--GQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLD----VRVIFVDYVRP 72 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~--G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~----~~~l~v~~~~~ 72 (93)
+|...+.++|.+++... |....+.++.|..++.+.|||||.|.+.+.+.+....++|..+. .+.+.|.+|+-
T Consensus 9 IPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~yAri 86 (97)
T PF04059_consen 9 IPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEISYARI 86 (97)
T ss_pred CCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEehhHh
Confidence 47778888888887543 66678889999989999999999999999999999999998764 45667777753
No 87
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.51 E-value=8e-07 Score=59.78 Aligned_cols=72 Identities=17% Similarity=0.365 Sum_probs=62.6
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCC---CCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIG---KNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~---~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
|++.++++.|-..|+.||.+..++|+..+. ....+-++||.|-+..++.+|++.|+|..+.+..+++.++++
T Consensus 182 lnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWgk~ 256 (877)
T KOG0151|consen 182 LNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWGKA 256 (877)
T ss_pred CCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeeccccc
Confidence 578899999999999999999999987652 234456899999999999999999999999999999988854
No 88
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.37 E-value=4.3e-07 Score=53.50 Aligned_cols=66 Identities=23% Similarity=0.142 Sum_probs=57.6
Q ss_pred cccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 3 FSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 3 ~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
..++|+-|.++|-.-|.|.++.|..++. +..+ |+||.|+++....-|+..+||..+.+..+.+.+-
T Consensus 19 ~~v~eelL~ElfiqaGPV~kv~ip~~~d-~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r 84 (267)
T KOG4454|consen 19 SGVSEELLSELFIQAGPVYKVGIPSGQD-QEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLR 84 (267)
T ss_pred hhhhHHHHHHHhhccCceEEEeCCCCcc-CCCc-eeeeecccccchhhhhhhcccchhccchhhcccc
Confidence 4688999999999999999999988764 5555 9999999999999999999999988888777754
No 89
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.34 E-value=1.9e-06 Score=55.72 Aligned_cols=68 Identities=25% Similarity=0.307 Sum_probs=56.1
Q ss_pred CCcccCHHHHHHHhcccCCceE-EEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 1 VSFSTTKEMLADAFSQFGQVTK-ATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~-~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
||+.++++||.++|+..--+.. |.++.++ .++..|-|||.|.+.+.+++|+.. +...++.+-|.|..+
T Consensus 111 LPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 111 LPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVFRS 179 (510)
T ss_pred CCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEeehh
Confidence 7999999999999998854444 4556665 467899999999999999999874 667788888888876
No 90
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.33 E-value=5.9e-07 Score=55.95 Aligned_cols=74 Identities=20% Similarity=0.108 Sum_probs=65.9
Q ss_pred CCcccCHHHHHHHhcccCCce--------EEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 1 VSFSTTKEMLADAFSQFGQVT--------KATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~--------~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
|+..+++++|..+|.++|.|. .|.+.++++|++.++-|.|+|.+...++.|+..+++..+++..|+|..+..
T Consensus 74 ~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~~ 153 (351)
T KOG1995|consen 74 CPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAER 153 (351)
T ss_pred cCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhhh
Confidence 567889999999999999774 567788999999999999999999999999999999999999999988755
Q ss_pred CC
Q 042899 73 NR 74 (93)
Q Consensus 73 ~~ 74 (93)
..
T Consensus 154 r~ 155 (351)
T KOG1995|consen 154 RT 155 (351)
T ss_pred cc
Confidence 44
No 91
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.25 E-value=7.9e-07 Score=54.75 Aligned_cols=75 Identities=24% Similarity=0.349 Sum_probs=67.0
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRHY 76 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~~ 76 (93)
|+.++++++|+..|..+|.|..++++.++.++..++|+++.|........++.. +...+.++.+.+.+..+....
T Consensus 193 ~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~ 267 (285)
T KOG4210|consen 193 LDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPRPKS 267 (285)
T ss_pred cccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCCccc
Confidence 467889999999999999999999999999999999999999999999988876 677899999999998776554
No 92
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.21 E-value=1.9e-06 Score=56.34 Aligned_cols=75 Identities=16% Similarity=0.315 Sum_probs=67.1
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNRH 75 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~~ 75 (93)
||...++.++.+.+..||.+..-.+..+..++-++||||.+|.+......|+..|||..++++.|.|..+.....
T Consensus 297 lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~ 371 (500)
T KOG0120|consen 297 LPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGAS 371 (500)
T ss_pred CcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccch
Confidence 466678899999999999999888899988899999999999999999999999999999999999998865543
No 93
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=98.07 E-value=1e-05 Score=53.45 Aligned_cols=60 Identities=27% Similarity=0.435 Sum_probs=50.6
Q ss_pred HHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecC-eEEEEEE
Q 042899 9 MLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDV-RVIFVDY 69 (93)
Q Consensus 9 ~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~-~~l~v~~ 69 (93)
-|.++|+++|.++...++-+.. |..+||.|++|.+..+|..|++.|||..++. +.+.|..
T Consensus 80 vl~kvfsk~gk~vn~~~P~~e~-ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~~ 140 (698)
T KOG2314|consen 80 VLTKVFSKAGKIVNMYYPIDEE-GGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVRL 140 (698)
T ss_pred HHHHHHHhhccccceeeccCcc-CCeeeEEEEEecChhhHHHHHHhcccceecccceEEeeh
Confidence 4678899999999999988866 4489999999999999999999999998764 5555553
No 94
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.07 E-value=1.6e-05 Score=49.78 Aligned_cols=60 Identities=27% Similarity=0.423 Sum_probs=46.6
Q ss_pred HHHhcccCCceEEEEEecCCCC-Ccce--EEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 11 ADAFSQFGQVTKATIIMDIGKN-RSKG--YGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 11 ~~~f~~~G~i~~~~i~~~~~~~-~~~g--~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
.++|++||.|..|.+.+.-.+. ...+ -.|++|.+.++|.+||...+|..++|+-|+..|.
T Consensus 138 ~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~lkatYG 200 (480)
T COG5175 138 HEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVLKATYG 200 (480)
T ss_pred hhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceEeeecC
Confidence 4789999999888664321111 1112 3499999999999999999999999999999885
No 95
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.97 E-value=4.5e-05 Score=51.74 Aligned_cols=68 Identities=19% Similarity=0.287 Sum_probs=57.8
Q ss_pred CCcccCHHHHHHHhcccCCce-EEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEE
Q 042899 1 VSFSTTKEMLADAFSQFGQVT-KATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDY 69 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~-~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~ 69 (93)
+|++++-+||.++|..|-.+- +|.+-.+ +.|...|-|-|.|++.++|.+|...|++..|.++.+.+..
T Consensus 875 ~Pf~v~l~dI~~FF~dY~~~p~sI~~r~n-d~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 875 FPFDVTLEDIVEFFNDYEPDPNSIRIRRN-DDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred CCccccHHHHHHHhcccccCCCceeEeec-CCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 478899999999999996554 4444444 6699999999999999999999999999999999888764
No 96
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.96 E-value=6.5e-05 Score=49.41 Aligned_cols=67 Identities=16% Similarity=0.285 Sum_probs=54.9
Q ss_pred HHHHHHhcccCCceEEEEEecCCC---CCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 8 EMLADAFSQFGQVTKATIIMDIGK---NRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 8 ~~l~~~f~~~G~i~~~~i~~~~~~---~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
++++.-+++||.|..|.++++-.. .-..|-.||+|.+.+++.+|...|.|..+.++.+...|.....
T Consensus 424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYydeDk 493 (500)
T KOG0120|consen 424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDEDK 493 (500)
T ss_pred HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCHHH
Confidence 566677889999999999877222 2345778999999999999999999999999999999875543
No 97
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.87 E-value=0.00016 Score=45.42 Aligned_cols=60 Identities=23% Similarity=0.310 Sum_probs=51.2
Q ss_pred HHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 8 EMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 8 ~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
++|.+--.+||.+.++.+.- ..+.|.+.|.|.+.+.|..||+.|+|.-+.|+.|..+...
T Consensus 291 edl~eec~K~G~v~~vvv~d----~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~D 350 (382)
T KOG1548|consen 291 EDLTEECEKFGQVRKVVVYD----RHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIWD 350 (382)
T ss_pred HHHHHHHHHhCCcceEEEec----cCCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEeC
Confidence 56777778999999887642 3556899999999999999999999999999999888653
No 98
>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=97.81 E-value=9.3e-05 Score=39.31 Aligned_cols=51 Identities=35% Similarity=0.439 Sum_probs=31.9
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCc
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKM 58 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~ 58 (93)
+..++.++|+..|+.||.|..|.+...- .-|+|.|.+.+.|..++..+...
T Consensus 10 ~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 10 GEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp -SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHT
T ss_pred CCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHHHhc
Confidence 4567889999999999999988775442 38999999999999998865433
No 99
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.77 E-value=0.00032 Score=39.19 Aligned_cols=56 Identities=21% Similarity=0.356 Sum_probs=44.6
Q ss_pred HHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 8 EMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 8 ~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
.+|.+.|..||.+.-+++.-+ --.|+|.+...|.+|+. ++|..++|+.|.|+.-.+
T Consensus 51 ~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtp 106 (146)
T PF08952_consen 51 DELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTP 106 (146)
T ss_dssp HHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE---
T ss_pred HHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCc
Confidence 367788999999887777644 55799999999999998 899999999999997544
No 100
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.76 E-value=3.4e-05 Score=45.73 Aligned_cols=60 Identities=25% Similarity=0.361 Sum_probs=50.7
Q ss_pred cccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 3 FSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 3 ~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
..+++.+|.+.|..+|.+....+ ..+++||.|....++..|+..+++..+.++.|.+.+.
T Consensus 109 ~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~~ 168 (216)
T KOG0106|consen 109 LRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEKN 168 (216)
T ss_pred hhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccchhhcCceeeeccc
Confidence 45677899999999999854433 3359999999999999999999999999999999654
No 101
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.69 E-value=0.0003 Score=44.80 Aligned_cols=66 Identities=20% Similarity=0.250 Sum_probs=54.7
Q ss_pred ccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecC--eEEEEEEecCCC
Q 042899 4 STTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDV--RVIFVDYVRPNR 74 (93)
Q Consensus 4 ~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~--~~l~v~~~~~~~ 74 (93)
.++.+-|..+--..|++.+|.|... +-.-|.|+|++.+.|.+|...|||..|.. -.|+|+|++|..
T Consensus 133 pItvDVly~Icnp~GkVlRIvIfkk-----ngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~r 200 (494)
T KOG1456|consen 133 PITVDVLYTICNPQGKVLRIVIFKK-----NGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTR 200 (494)
T ss_pred ccchhhhhhhcCCCCceEEEEEEec-----cceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcce
Confidence 4677888899999999999987653 23478999999999999999999998654 578999997754
No 102
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=97.69 E-value=0.00064 Score=35.82 Aligned_cols=66 Identities=18% Similarity=0.214 Sum_probs=44.3
Q ss_pred CHHHHHHHhcccCCceEEE-EEecC------CCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCe-EEEEEEecC
Q 042899 6 TKEMLADAFSQFGQVTKAT-IIMDI------GKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVR-VIFVDYVRP 72 (93)
Q Consensus 6 ~~~~l~~~f~~~G~i~~~~-i~~~~------~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~-~l~v~~~~~ 72 (93)
....+.+.|++||.|.+.. +..+. .......+-.+.|++..+|.+|+. .||..+.|. .+-|.++++
T Consensus 18 ~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~mvGV~~~~~ 91 (100)
T PF05172_consen 18 ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLMVGVKPCDP 91 (100)
T ss_dssp GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEEEEEEE-HH
T ss_pred HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEEEEEEEcHH
Confidence 4467889999999997663 10000 001123488999999999999998 599999885 456777643
No 103
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.68 E-value=0.0003 Score=41.72 Aligned_cols=66 Identities=17% Similarity=0.329 Sum_probs=54.9
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEec-CeEEEEEEec
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLD-VRVIFVDYVR 71 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~-~~~l~v~~~~ 71 (93)
||.+++.+.+..+|..|.....++++... .+.+||+|.+...+..|...+++..+. ...+.|.+++
T Consensus 154 iP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a~ 220 (221)
T KOG4206|consen 154 IPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFAK 220 (221)
T ss_pred CCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceeccCceEEecccC
Confidence 57788899999999999998888877543 369999999999999999999998765 6677777654
No 104
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.58 E-value=5.7e-05 Score=48.09 Aligned_cols=71 Identities=20% Similarity=0.272 Sum_probs=57.3
Q ss_pred CCcccCHHHHHHHhcccCCc-e--EEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 1 VSFSTTKEMLADAFSQFGQV-T--KATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i-~--~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
||++.+.++|..+|..|-.- . .++++.+. .|+..|-|||.+.+.+++..|...........+-|.|.-+..
T Consensus 288 LPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S~ 361 (508)
T KOG1365|consen 288 LPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCSV 361 (508)
T ss_pred CChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeeccH
Confidence 68889999999999988633 2 37788774 488899999999999999999887766666788888876643
No 105
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.56 E-value=0.00029 Score=42.07 Aligned_cols=57 Identities=16% Similarity=0.168 Sum_probs=44.7
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEec
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLD 61 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~ 61 (93)
|..+++|++|+.+|+.|......+|... + .-.++|++|...+.+..|+..|+|..+.
T Consensus 218 l~~~~~ed~l~~~~~~~~gf~~l~~~~~---~-g~~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 218 LGPNCTEDELKQLLSRYPGFHILKIRAR---G-GMPVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred cCCCCCHHHHHHHHHhCCCceEEEEecC---C-CcceEeecHHHHHHHHHHHHHhhcceec
Confidence 4578999999999999987766655321 1 2258999999999999999999887653
No 106
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.48 E-value=6.2e-05 Score=45.36 Aligned_cols=63 Identities=21% Similarity=0.355 Sum_probs=51.3
Q ss_pred HHHHHHhc-ccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 8 EMLADAFS-QFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 8 ~~l~~~f~-~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
+++...|+ +||.|.++.|..+. .-...|=.+|.|...++|.+|+..||+.-+.|++|...++-
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 EDVFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSP 146 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecC
Confidence 34555555 89999988776553 34567888999999999999999999999999999998763
No 107
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.48 E-value=0.00042 Score=32.27 Aligned_cols=39 Identities=23% Similarity=0.489 Sum_probs=31.6
Q ss_pred HHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHH
Q 042899 8 EMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKAL 52 (93)
Q Consensus 8 ~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~ 52 (93)
+.+...|..+|.|.++.+... ..+.++.|.+..++.+|+
T Consensus 15 ~~vl~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 15 EEVLEHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred HHHHHHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 567789999999999877522 249999999999998874
No 108
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.47 E-value=0.001 Score=41.27 Aligned_cols=64 Identities=19% Similarity=0.214 Sum_probs=51.6
Q ss_pred HHHHHHhcccCCceEEEEEecCCCCCc-ceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 8 EMLADAFSQFGQVTKATIIMDIGKNRS-KGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 8 ~~l~~~f~~~G~i~~~~i~~~~~~~~~-~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
+++.....+||.+.+|.|...+..-.. ...-||+|...+.+.+|+.-|||..++|+.+...|..
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 466677889999998887766543333 2457999999999999999999999999998887754
No 109
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=97.46 E-value=0.00012 Score=46.28 Aligned_cols=64 Identities=16% Similarity=0.250 Sum_probs=55.3
Q ss_pred CCcccCHHHHHHHhcccC--CceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeE
Q 042899 1 VSFSTTKEMLADAFSQFG--QVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRV 64 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G--~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~ 64 (93)
|-|.++.+||.+.+...| .+.++++..++.+|+++||+++..-+....++.++.|...+++|..
T Consensus 88 L~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~ 153 (498)
T KOG4849|consen 88 LLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQS 153 (498)
T ss_pred eeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCC
Confidence 346788889998887766 6778888999999999999999999999999999999998998854
No 110
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.25 E-value=0.0027 Score=40.65 Aligned_cols=64 Identities=16% Similarity=0.212 Sum_probs=55.9
Q ss_pred cCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCC
Q 042899 5 TTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPN 73 (93)
Q Consensus 5 ~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~ 73 (93)
++.+.|..+|=.||.|++|++++.+. |-+.|+..+....++|+..||+..+-|..|.|..++..
T Consensus 300 ~N~drlFNl~ClYGNV~rvkFmkTk~-----gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~ 363 (494)
T KOG1456|consen 300 MNCDRLFNLFCLYGNVERVKFMKTKP-----GTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQN 363 (494)
T ss_pred cchhhhhhhhhhcCceeeEEEeeccc-----ceeEEEcCcHHHHHHHHHHhccCccccceEEEeecccc
Confidence 55678889999999999999987643 68899999999999999999999988889999987543
No 111
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.22 E-value=0.0015 Score=42.09 Aligned_cols=69 Identities=22% Similarity=0.280 Sum_probs=54.4
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCe-EEEEEEecCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVR-VIFVDYVRPN 73 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~-~l~v~~~~~~ 73 (93)
+|.+++|++++..|..-|..++.... .++.+.++++.+.+.+++..|+..+..+.++.. .++|++++..
T Consensus 422 ip~svsee~lk~~f~~~g~~vkafkf----f~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFSks~ 491 (492)
T KOG1190|consen 422 IPPSVSEEDLKNLFQEPGGQVKAFKF----FQKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFSKST 491 (492)
T ss_pred CCcccchhHHHHhhhcCCceEEeeee----cCCCcceeecccCChhHhhhhccccccccCCCCceEEEEeeccc
Confidence 57899999999999988876554322 234456999999999999999988888877654 7899998753
No 112
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=97.03 E-value=0.0056 Score=31.15 Aligned_cols=48 Identities=19% Similarity=0.295 Sum_probs=36.6
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCC
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNK 57 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~ 57 (93)
|.++...||.++|+.||.|. |.++.|- -|||.+...+.+..++..+..
T Consensus 17 PkeWK~~DI~qlFspfG~I~-VsWi~dT-------SAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 17 PKEWKTSDIYQLFSPFGQIY-VSWINDT-------SAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp -TT--HHHHHHHCCCCCCEE-EEEECTT-------EEEEEECCCHHHHHHHHHHTT
T ss_pred chHhhhhhHHHHhccCCcEE-EEEEcCC-------cEEEEeecHHHHHHHHHHhcc
Confidence 56777889999999999974 5565552 899999999999988877653
No 113
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=96.93 E-value=0.012 Score=34.48 Aligned_cols=54 Identities=20% Similarity=0.246 Sum_probs=47.8
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEec
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLD 61 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~ 61 (93)
||.+.++.+|++....-|.++...+.+| |.+.|+|-..++.+-|+..|+...+.
T Consensus 123 Lp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 123 LPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred CCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhcccccc
Confidence 7889999999999999999998888777 58899999999999999988876543
No 114
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=96.90 E-value=0.0069 Score=30.92 Aligned_cols=53 Identities=19% Similarity=0.112 Sum_probs=36.9
Q ss_pred HHHHHHhcccCC-ceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 8 EMLADAFSQFGQ-VTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 8 ~~l~~~f~~~G~-i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
..|++++.-+|. +..| . .+-|++.|.+.+.|.+|.+.|+|-.+-|+.|.|++.
T Consensus 21 ~RL~qLsdNCGGkVl~v---~-------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~ 74 (90)
T PF11608_consen 21 NRLRQLSDNCGGKVLSV---S-------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFS 74 (90)
T ss_dssp HHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS
T ss_pred HHHHHHhhccCCEEEEE---e-------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEc
Confidence 356667777764 3333 1 258999999999999999999999999999999986
No 115
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.55 E-value=0.022 Score=27.41 Aligned_cols=45 Identities=22% Similarity=0.248 Sum_probs=35.9
Q ss_pred ccCHHHHHHHhccc---CCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHh
Q 042899 4 STTKEMLADAFSQF---GQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDM 55 (93)
Q Consensus 4 ~~~~~~l~~~f~~~---G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l 55 (93)
+.+.++++.+|..| ....+|.++.|. -|-+.|.+.+.|.+|+..|
T Consensus 15 ~lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 15 ELSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred CCCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 46788999999988 234578888773 6789999999999998754
No 116
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.52 E-value=0.0067 Score=42.68 Aligned_cols=68 Identities=24% Similarity=0.297 Sum_probs=54.6
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecC--eEEEEEEecCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDV--RVIFVDYVRPNR 74 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~--~~l~v~~~~~~~ 74 (93)
|..++....|.+.|..||.|..|.+- +...|+++.|.+...+..|+..+-|..+++ +++.|.++.+..
T Consensus 463 lg~w~p~~~l~r~fd~fGpir~Idy~------hgq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~~ 532 (975)
T KOG0112|consen 463 LGPWSPVSRLNREFDRFGPIRIIDYR------HGQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPPG 532 (975)
T ss_pred CCCCChHHHHHHHhhccCcceeeecc------cCCcceeeecccCccchhhHHHHhcCcCCCCCcccccccccCCC
Confidence 34566778899999999999887553 233599999999999999999999999887 568888875543
No 117
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.51 E-value=0.016 Score=37.40 Aligned_cols=66 Identities=21% Similarity=0.247 Sum_probs=48.7
Q ss_pred CCcccCHHHHHHHhccc----CCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEE
Q 042899 1 VSFSTTKEMLADAFSQF----GQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVD 68 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~----G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~ 68 (93)
||++.++.++..+|..- |..+.+.++..+ .|+..|-||+.|..++++..|+.. +...++.|-|.+.
T Consensus 169 LPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIElF 238 (508)
T KOG1365|consen 169 LPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIELF 238 (508)
T ss_pred CCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHHHH
Confidence 78999999999999732 344556555543 589999999999999999999975 4444555544443
No 118
>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=96.46 E-value=0.033 Score=32.56 Aligned_cols=63 Identities=14% Similarity=0.134 Sum_probs=44.5
Q ss_pred CHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhC--CcEecCeEEEEEEecCCC
Q 042899 6 TKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMN--KMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 6 ~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~--~~~~~~~~l~v~~~~~~~ 74 (93)
....|+++|..++.+.....+... +-..|.|.+.+.|.++...|+ +..+.|..+++-++.+..
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sF------rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~ 72 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSF------RRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTP 72 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTT------TEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS
T ss_pred hHHHHHHHHHhcCCceEEEEcCCC------CEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccccc
Confidence 346789999999988877665432 367789999999999999988 899999999999885443
No 119
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.45 E-value=0.01 Score=39.36 Aligned_cols=54 Identities=30% Similarity=0.230 Sum_probs=48.9
Q ss_pred CCcccCHHHHHHHhc-ccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHH
Q 042899 1 VSFSTTKEMLADAFS-QFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVD 54 (93)
Q Consensus 1 L~~~~~~~~l~~~f~-~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~ 54 (93)
||.-++.++|..+|. -||.|+.+.|-.|++-+.++|-+-|+|.+.....+||.+
T Consensus 378 vprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 378 LPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred CCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 466678899999998 899999999999988899999999999999999999974
No 120
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=96.45 E-value=0.0024 Score=41.89 Aligned_cols=62 Identities=24% Similarity=0.265 Sum_probs=50.4
Q ss_pred CHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecCCC
Q 042899 6 TKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRPNR 74 (93)
Q Consensus 6 ~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~~~ 74 (93)
+-.+|...|.+||.|..|++-... -.|.|+|.+..++-.|-. ..+..|.++.|+|.+.++..
T Consensus 386 t~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnps~ 447 (526)
T KOG2135|consen 386 TIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNPSP 447 (526)
T ss_pred hHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchhc-cccceecCceeEEEEecCCc
Confidence 346788999999999999875542 378999999988866655 57889999999999987754
No 121
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=96.43 E-value=0.0012 Score=40.05 Aligned_cols=64 Identities=13% Similarity=0.147 Sum_probs=51.1
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCC--------CCcc----eEEEEEeCCHHHHHHHHHHhCCcEecCeE
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGK--------NRSK----GYGYMTSSTEEEAQKALVDMNKMLLDVRV 64 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~--------~~~~----g~~fv~f~~~~~~~~a~~~l~~~~~~~~~ 64 (93)
+|+.++..-|+++|+.||.|=+|.+.....+ +.++ .-+.|+|.+...|.++...||+..|+|+.
T Consensus 82 IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Iggkk 157 (278)
T KOG3152|consen 82 IPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIGGKK 157 (278)
T ss_pred CCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccCCCC
Confidence 5788899999999999999988877654433 2222 34578999999999999999999999864
No 122
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=96.40 E-value=0.0019 Score=41.81 Aligned_cols=57 Identities=21% Similarity=0.234 Sum_probs=43.5
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEec---CCCCC----------cceEEEEEeCCHHHHHHHHHHhCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMD---IGKNR----------SKGYGYMTSSTEEEAQKALVDMNK 57 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~---~~~~~----------~~g~~fv~f~~~~~~~~a~~~l~~ 57 (93)
||.+-.-+-|.++|+.+|.|..|+|+.. +.+.+ .+-+|+|+|...+.|.+|.+.++-
T Consensus 239 LP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~ 308 (484)
T KOG1855|consen 239 LPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP 308 (484)
T ss_pred CCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence 3444455789999999999999999876 33221 245789999999999999987744
No 123
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.40 E-value=0.0032 Score=43.87 Aligned_cols=70 Identities=23% Similarity=0.223 Sum_probs=58.0
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
|+..|.++++.++.+.|.+....++..+ .|+++|.+++.|.+..++.++....++..+.-..+.|..+.|
T Consensus 745 pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp 814 (881)
T KOG0128|consen 745 PFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP 814 (881)
T ss_pred CCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence 5667889999999999999988877764 599999999999999999999887777776666667766544
No 124
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.39 E-value=0.0024 Score=41.53 Aligned_cols=72 Identities=17% Similarity=0.246 Sum_probs=52.8
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcE-ecCeEEEEEEecCCCCCCC
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKML-LDVRVIFVDYVRPNRHYNT 78 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~-~~~~~l~v~~~~~~~~~~~ 78 (93)
|.+.++..+|+.+|+..-.-..-.++. ..||+|+.+.+..++.++++.++|.. +.|.++.+.++-+...+.+
T Consensus 9 L~p~~~psdl~svfg~ak~~~~g~fl~------k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkqrsr 81 (584)
T KOG2193|consen 9 LSPQVTPSDLESVFGDAKIPGSGQFLV------KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQRSR 81 (584)
T ss_pred cCCCCChHHHHHHhccccCCCCcceee------ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHHHHhh
Confidence 456778889999987541111111221 13799999999999999999999974 8999999998876655543
No 125
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=96.27 E-value=0.068 Score=28.69 Aligned_cols=57 Identities=16% Similarity=0.126 Sum_probs=42.2
Q ss_pred ccCHHHHHHHhccc-CCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecC
Q 042899 4 STTKEMLADAFSQF-GQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDV 62 (93)
Q Consensus 4 ~~~~~~l~~~f~~~-G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~ 62 (93)
-++.++|..+.+.+ ..|..++|+++. ..++-++.+.|.+...|......+||..+..
T Consensus 24 ~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 24 MTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred cccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 34445666555554 456678888763 3466788999999999999999999987654
No 126
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.16 E-value=0.002 Score=40.45 Aligned_cols=60 Identities=22% Similarity=0.314 Sum_probs=46.2
Q ss_pred HHhcccCCceEEEEEecCC--CC-CcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 12 DAFSQFGQVTKATIIMDIG--KN-RSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 12 ~~f~~~G~i~~~~i~~~~~--~~-~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
..|++||.|..|.+-.++. ++ -...-++|+|...+++..||...+|..+.|+.++..+..
T Consensus 99 eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka~~gt 161 (327)
T KOG2068|consen 99 EYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKASLGT 161 (327)
T ss_pred ccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHHhhCC
Confidence 5688999999987766552 11 122347999999999999999999999999887776653
No 127
>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=0.025 Score=32.77 Aligned_cols=70 Identities=10% Similarity=-0.004 Sum_probs=43.3
Q ss_pred CCcccCHHHHHHHhcc-cCCc---eEEE--EEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecC-----eEEEEEE
Q 042899 1 VSFSTTKEMLADAFSQ-FGQV---TKAT--IIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDV-----RVIFVDY 69 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~-~G~i---~~~~--i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~-----~~l~v~~ 69 (93)
||+..+++++++.+.. ++.- ..+. .............||+.|.+.+++......++|+.+.+ ....|++
T Consensus 15 LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg~~~~~~VE~ 94 (176)
T PF03467_consen 15 LPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSKGNEYPAVVEF 94 (176)
T ss_dssp E-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TTS-EEEEEEEE
T ss_pred CCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCCCCCcceeEEE
Confidence 7899999999987665 5443 2332 22221212235789999999999999999999987643 3456666
Q ss_pred e
Q 042899 70 V 70 (93)
Q Consensus 70 ~ 70 (93)
|
T Consensus 95 A 95 (176)
T PF03467_consen 95 A 95 (176)
T ss_dssp -
T ss_pred c
Confidence 5
No 128
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=96.13 E-value=0.011 Score=38.24 Aligned_cols=68 Identities=15% Similarity=0.219 Sum_probs=50.9
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCC---CCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEE
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGK---NRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDY 69 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~---~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~ 69 (93)
|.+.++.++++.+|+-.|.|..+.+.-+... ......|||-|.+...+..|-. |-..++-++.|.|..
T Consensus 15 ispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdraliv~p 85 (479)
T KOG4676|consen 15 ISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALIVRP 85 (479)
T ss_pred cCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEEEEe
Confidence 4567888999999999999998877643322 2334699999999887776654 777777777766654
No 129
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=95.99 E-value=0.00064 Score=47.09 Aligned_cols=68 Identities=19% Similarity=0.277 Sum_probs=51.8
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEE
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVD 68 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~ 68 (93)
|+..+.+.+|...|..+|.+..+++.--...++.+|.||+.|...+++.+++...+++.++...+.|+
T Consensus 675 l~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~gK~~v~i~ 742 (881)
T KOG0128|consen 675 LSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFGKISVAIS 742 (881)
T ss_pred cchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhhhhhhhee
Confidence 35567788999999999988877665444568899999999999999999998666665554444443
No 130
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=95.91 E-value=0.079 Score=26.22 Aligned_cols=58 Identities=16% Similarity=0.232 Sum_probs=32.4
Q ss_pred ccCHHHHHHHhcccCCce-----EEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 4 STTKEMLADAFSQFGQVT-----KATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 4 ~~~~~~l~~~f~~~G~i~-----~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
.++..+|..++...+.+. .|.+..+ |+|++.... .+..++..|++..+.|+.+.|+.|
T Consensus 12 g~~~~~iv~~i~~~~gi~~~~IG~I~I~~~--------~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 12 GLTPRDIVGAICNEAGIPGRDIGRIDIFDN--------FSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp T--HHHHHHHHHTCTTB-GGGEEEEEE-SS---------EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred CCCHHHHHHHHHhccCCCHHhEEEEEEeee--------EEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence 356667778877665443 5555433 888888764 778888889999999999998864
No 131
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=95.90 E-value=0.039 Score=34.58 Aligned_cols=56 Identities=29% Similarity=0.314 Sum_probs=42.7
Q ss_pred HHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeE-EEEEEe
Q 042899 8 EMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRV-IFVDYV 70 (93)
Q Consensus 8 ~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~-l~v~~~ 70 (93)
..|...|.+||.|++.....+ --|-+|.|.+..++.+||. .+|..|++.. |-|+.+
T Consensus 211 s~vL~~F~~cG~Vvkhv~~~n------gNwMhirYssr~~A~KALs-kng~ii~g~vmiGVkpC 267 (350)
T KOG4285|consen 211 SIVLNLFSRCGEVVKHVTPSN------GNWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKPC 267 (350)
T ss_pred hHHHHHHHhhCeeeeeecCCC------CceEEEEecchhHHHHhhh-hcCeeeccceEEeeeec
Confidence 467789999999987644322 2388999999999999998 5888888753 456553
No 132
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=95.73 E-value=0.078 Score=35.40 Aligned_cols=53 Identities=23% Similarity=0.372 Sum_probs=37.9
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCC---CCcce---EEEEEeCCHHHHHHHHHH
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGK---NRSKG---YGYMTSSTEEEAQKALVD 54 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~---~~~~g---~~fv~f~~~~~~~~a~~~ 54 (93)
||++++|++|...|..||.+. +.++..... .-.+| |+|+.|+++..+.+-+.+
T Consensus 267 lp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~a 325 (520)
T KOG0129|consen 267 LPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSA 325 (520)
T ss_pred CCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHH
Confidence 789999999999999999864 434421111 12356 999999998877766543
No 133
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=95.33 E-value=0.13 Score=29.02 Aligned_cols=53 Identities=13% Similarity=0.134 Sum_probs=38.7
Q ss_pred HHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEE
Q 042899 9 MLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDY 69 (93)
Q Consensus 9 ~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~ 69 (93)
.+...++.||.|..+...- +.-|.|.|.+...|-+|+.+++. ..-|..+...+
T Consensus 106 sV~~~Ls~fGpI~SVT~cG-------rqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsW 158 (166)
T PF15023_consen 106 SVIQRLSVFGPIQSVTLCG-------RQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSW 158 (166)
T ss_pred HHHHHHHhcCCcceeeecC-------CceEEEEehhhHHHHHHHHhhcC-CCCCceEEeec
Confidence 4556678999999886542 23789999999999999998765 34455555554
No 134
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=93.94 E-value=0.05 Score=37.06 Aligned_cols=60 Identities=23% Similarity=0.326 Sum_probs=44.4
Q ss_pred cCHHHHHHHhccc-CCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEe---cCeEEEEEEe
Q 042899 5 TTKEMLADAFSQF-GQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLL---DVRVIFVDYV 70 (93)
Q Consensus 5 ~~~~~l~~~f~~~-G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~---~~~~l~v~~~ 70 (93)
.|.-+|+.+++.- |.|... | +| +.+..|||.|.+.++|...+.+|+|..+ +.+.|.+.|.
T Consensus 456 FTlgQLkelL~rtgg~Vee~-W-mD----kIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~ 519 (718)
T KOG2416|consen 456 FTLGQLKELLGRTGGNVEEF-W-MD----KIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFV 519 (718)
T ss_pred chHHHHHHHHhhccCchHHH-H-HH----HhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeec
Confidence 4667899999844 445444 2 22 3457999999999999999999999764 3466777775
No 135
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=93.69 E-value=0.025 Score=40.03 Aligned_cols=70 Identities=13% Similarity=0.148 Sum_probs=54.7
Q ss_pred CCcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 1 VSFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
|+..+++.+|+..|..+|.+.+|.|-..+- +.---++|+.|.+.+.+.+++..+.+..|....+.+.+..
T Consensus 380 l~~kl~eseiR~af~e~gkve~VDiKtP~~-~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~ 449 (975)
T KOG0112|consen 380 LDSKLTESEIRPAFDESGKVEEVDIKTPHI-KTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQ 449 (975)
T ss_pred cccchhhhhhhhhhhhhccccccccccCCC-CcccchhhhhhhccccCcccchhhcCCccccCcccccccc
Confidence 456788899999999999999887765532 2333499999999999999999898888776666666553
No 136
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=93.20 E-value=0.056 Score=37.60 Aligned_cols=69 Identities=13% Similarity=0.042 Sum_probs=51.1
Q ss_pred CCcccCHHHHHHHhcccCCceE-EEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 1 VSFSTTKEMLADAFSQFGQVTK-ATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~~-~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
||..+++.++.++|...-.+++ |.+-..+ +++.++.+||.|...+...+|...-..+.++.+.|.|.-.
T Consensus 442 lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si 511 (944)
T KOG4307|consen 442 LPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSI 511 (944)
T ss_pred CCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCceEEEeech
Confidence 5677788889999988877776 5555544 5788899999999877777776544455567778888743
No 137
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=93.10 E-value=0.1 Score=37.06 Aligned_cols=65 Identities=22% Similarity=0.180 Sum_probs=53.4
Q ss_pred cCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcE--ecCeEEEEEEecCCCC
Q 042899 5 TTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKML--LDVRVIFVDYVRPNRH 75 (93)
Q Consensus 5 ~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~--~~~~~l~v~~~~~~~~ 75 (93)
.+...|.-++..||.+...+.+++-. ++.|.|.+.+.+..|+.+++|.. .-|-+.+|.+++.-.-
T Consensus 310 ~tSssL~~l~s~yg~v~s~wtlr~~N------~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~~ 376 (1007)
T KOG4574|consen 310 LTSSSLATLCSDYGSVASAWTLRDLN------MALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLPM 376 (1007)
T ss_pred chHHHHHHHHHhhcchhhheeccccc------chhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecccccc
Confidence 45567888999999999998877743 89999999999999999999986 4566789998876543
No 138
>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=93.03 E-value=0.54 Score=22.90 Aligned_cols=55 Identities=13% Similarity=0.091 Sum_probs=41.5
Q ss_pred ccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEE
Q 042899 4 STTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFV 67 (93)
Q Consensus 4 ~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v 67 (93)
.++-++++..|..|+- .+| ..++. --||.|.+..+|.+|....++..+-+..+.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~I--~~d~t------GfYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DRI--RDDRT------GFYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-ceE--EecCC------EEEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 4677899999999943 344 33432 4489999999999999998988877766654
No 139
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=91.68 E-value=0.28 Score=30.19 Aligned_cols=68 Identities=19% Similarity=0.286 Sum_probs=49.3
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCC----cEecCeEEEEEEe
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNK----MLLDVRVIFVDYV 70 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~----~~~~~~~l~v~~~ 70 (93)
..-++.+.+.+.|..||.|..-.+..| ..++..+-++|.|.....+.+|....+- .+..+++..|...
T Consensus 40 ~~~~sndll~~~f~~fg~~e~av~~vD-~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP~ 111 (275)
T KOG0115|consen 40 MQGASNDLLEQAFRRFGPIERAVAKVD-DRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEPM 111 (275)
T ss_pred chhhhhHHHHHhhhhcCccchheeeec-ccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCChh
Confidence 445777889999999999986555555 3578888999999998888888876522 2345555555543
No 140
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=91.00 E-value=0.57 Score=23.03 Aligned_cols=60 Identities=10% Similarity=0.098 Sum_probs=42.5
Q ss_pred HHHHHHhcccC-CceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 8 EMLADAFSQFG-QVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 8 ~~l~~~f~~~G-~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
.+|.+.|...| .+..++.+..+.++....+-+|......+... .|+=..+++.++.|+..
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~ 62 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERP 62 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecC
Confidence 35777888887 55677878777767677788888876544333 35556788888888743
No 141
>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=90.84 E-value=0.77 Score=22.46 Aligned_cols=60 Identities=8% Similarity=0.060 Sum_probs=41.6
Q ss_pred HHHHHHhcccC-CceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 8 EMLADAFSQFG-QVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 8 ~~l~~~f~~~G-~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
++|.+.|...| .+..+.-+..+.+.......||++....+... .|+=..+++..+.|+..
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~---i~~Ik~l~~~~V~vE~~ 62 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKE---IYKIKTLCGQRVKVERP 62 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccc---eeehHhhCCeEEEEecC
Confidence 45677777666 55677777776667777889999887655332 35556788888888854
No 142
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=90.57 E-value=0.96 Score=30.77 Aligned_cols=56 Identities=14% Similarity=0.250 Sum_probs=43.5
Q ss_pred cCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEe---cC-eEEEEEEecC
Q 042899 17 FGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLL---DV-RVIFVDYVRP 72 (93)
Q Consensus 17 ~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~---~~-~~l~v~~~~~ 72 (93)
.|.=..+.++.|..+..+-|||||.|-+...+..+.++++|+.+ .+ +.+.+.||+-
T Consensus 413 ~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArI 472 (549)
T KOG4660|consen 413 KGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARI 472 (549)
T ss_pred cCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhh
Confidence 34445677888887788889999999999999999999999753 33 4557777643
No 143
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=88.57 E-value=2.4 Score=28.38 Aligned_cols=59 Identities=14% Similarity=0.097 Sum_probs=45.7
Q ss_pred CcccCHHHHHHHhccc-CCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecC
Q 042899 2 SFSTTKEMLADAFSQF-GQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDV 62 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~-G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~ 62 (93)
|.-++..||-.|...+ -.|..+++++|.. -++=+..+.|.+..+|......+||..+..
T Consensus 83 P~~mt~~Dll~F~~~~~~~I~~irivRd~~--pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 83 PAYMTSHDLLRFCASFIKQISDIRIVRDGM--PNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred cccccHHHHHHHHHHHhhhhheeEEeecCC--CceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 4556777888887765 4678999998642 334577999999999999999999987654
No 144
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=87.53 E-value=1.8 Score=20.85 Aligned_cols=19 Identities=21% Similarity=0.356 Sum_probs=15.6
Q ss_pred HHHHHHhcccCCceEEEEE
Q 042899 8 EMLADAFSQFGQVTKATII 26 (93)
Q Consensus 8 ~~l~~~f~~~G~i~~~~i~ 26 (93)
.+|+++|+..|.|.-+.+.
T Consensus 9 ~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHhcCcEEEEEEc
Confidence 5799999999999866553
No 145
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=80.60 E-value=3.5 Score=28.53 Aligned_cols=59 Identities=17% Similarity=0.190 Sum_probs=39.0
Q ss_pred CcccCHHHHHHHhcc--cCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCC--cEecCeEEEE
Q 042899 2 SFSTTKEMLADAFSQ--FGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNK--MLLDVRVIFV 67 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~--~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~--~~~~~~~l~v 67 (93)
+..+-.++++.+|.. +-.+.+|.+--+. -=||+|++..||..|.+.|.. .++.|++|..
T Consensus 184 pettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKpImA 246 (684)
T KOG2591|consen 184 PETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKPIMA 246 (684)
T ss_pred CCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence 455667888888875 4455566544331 237999999999999886644 2466655433
No 146
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=79.62 E-value=1.3 Score=27.83 Aligned_cols=63 Identities=17% Similarity=-0.060 Sum_probs=42.9
Q ss_pred HHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEE
Q 042899 7 KEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDY 69 (93)
Q Consensus 7 ~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~ 69 (93)
+.+...++..+|......+.........++++++.|...+.+..++.........+..+....
T Consensus 102 ~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl 164 (285)
T KOG4210|consen 102 ESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDL 164 (285)
T ss_pred hccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCcc
Confidence 334556666777666555555556677889999999999999999985443455555544443
No 147
>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=76.44 E-value=2.3 Score=18.14 Aligned_cols=15 Identities=20% Similarity=0.481 Sum_probs=9.8
Q ss_pred ccCHHHHHHHhcccC
Q 042899 4 STTKEMLADAFSQFG 18 (93)
Q Consensus 4 ~~~~~~l~~~f~~~G 18 (93)
++++++|++.|.+..
T Consensus 20 Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 20 DTDEDQLKEVFNRIK 34 (36)
T ss_dssp ---HHHHHHHHHCS-
T ss_pred cCCHHHHHHHHHHhc
Confidence 678899999998764
No 148
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=75.78 E-value=0.2 Score=33.06 Aligned_cols=65 Identities=20% Similarity=0.254 Sum_probs=49.4
Q ss_pred CcccCHHHHHHHhcccCCceEEEE-EecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATI-IMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i-~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
|+...++-|..++..||.+..+.. ..+..+ -..-++|...+.+..++..++|..+.+..+++.|.
T Consensus 89 ppql~wevld~Ll~qyg~ve~~eqvnt~~et----avvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~Yi 154 (584)
T KOG2193|consen 89 PPQLQWEVLDSLLAQYGTVENCEQVNTDSET----AVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYI 154 (584)
T ss_pred CHHHHHHHHHHHHhccCCHhHhhhhccchHH----HHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccC
Confidence 445567888899999999987743 333322 23346788899999999999999999988888874
No 149
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=74.20 E-value=0.52 Score=28.57 Aligned_cols=57 Identities=25% Similarity=0.289 Sum_probs=45.3
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcE
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKML 59 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~ 59 (93)
+..++++.+...|+.-|.+..+++.++.+ ++++-+.++++........++..+++..
T Consensus 93 d~r~~~ei~~~v~s~a~p~~~~R~~~~~d-~rnrn~~~~~~qr~~~~P~~~~~y~~l~ 149 (267)
T KOG4454|consen 93 DERVTEEILYEVFSQAGPIEGVRIPTDND-GRNRNFGFVTYQRLCAVPFALDLYQGLE 149 (267)
T ss_pred hhhcchhhheeeecccCCCCCcccccccc-CCccCccchhhhhhhcCcHHhhhhcccC
Confidence 34567788888999999999998888765 7888899999988877777777666644
No 150
>TIGR02542 B_forsyth_147 Bacteroides forsythus 147-residue repeat. The longest predicted protein in Bacteroides forsythus ATCC 43037 is over 3000 residues long and lacks homology to other known proteins. Immediately after the signal sequence are four tandem repeats, approximately 147 residues long. This model describes that repeat. This model describes that repeat.
Probab=64.15 E-value=4.7 Score=22.05 Aligned_cols=44 Identities=14% Similarity=0.130 Sum_probs=29.4
Q ss_pred CcccCHHHHHHHhc---ccCCceEEEEEecCCCCCcceEEEEEeCCH
Q 042899 2 SFSTTKEMLADAFS---QFGQVTKATIIMDIGKNRSKGYGYMTSSTE 45 (93)
Q Consensus 2 ~~~~~~~~l~~~f~---~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~ 45 (93)
|+..+..+++++|. .|..|.+-++.+|-.-..+...||..|...
T Consensus 83 PYTlT~~e~r~iF~Epm~YQGITReQV~rdGLP~GsYRiCFrL~~~~ 129 (145)
T TIGR02542 83 PYTLTYNELRQIFREPMVYQGITREQVQRDGLPEGSYRICFRLFNAT 129 (145)
T ss_pred ceeeeHHHHHHHHhhhhhhccccHHHHhhcCCCCCceEEEEEEeccc
Confidence 45678889999996 455665555566544444556888888654
No 151
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=64.12 E-value=4.4 Score=25.66 Aligned_cols=22 Identities=27% Similarity=0.570 Sum_probs=18.6
Q ss_pred cCHHHHHHHhcccCCceEEEEE
Q 042899 5 TTKEMLADAFSQFGQVTKATII 26 (93)
Q Consensus 5 ~~~~~l~~~f~~~G~i~~~~i~ 26 (93)
.+++.|+..|..||.|..+.|+
T Consensus 173 pse~rlr~a~eafg~ir~vdip 194 (445)
T KOG2891|consen 173 PSEDRLRKAFEAFGEIRNVDIP 194 (445)
T ss_pred ChHHHHHHHHHHhccceecCCc
Confidence 4678899999999999887665
No 152
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=62.03 E-value=25 Score=23.65 Aligned_cols=41 Identities=22% Similarity=0.188 Sum_probs=32.2
Q ss_pred CHHHHHHHhcccCC-ceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHH
Q 042899 6 TKEMLADAFSQFGQ-VTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALV 53 (93)
Q Consensus 6 ~~~~l~~~f~~~G~-i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~ 53 (93)
-.+||...|..|+. --+|+|+-+. ++|..|.+...|..|+.
T Consensus 404 kteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt 445 (528)
T KOG4483|consen 404 KTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALT 445 (528)
T ss_pred ccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhh
Confidence 44688889998864 3577777663 89999999999888876
No 153
>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=61.26 E-value=20 Score=19.44 Aligned_cols=45 Identities=16% Similarity=0.274 Sum_probs=25.7
Q ss_pred cCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCC-HHHHHHHH
Q 042899 5 TTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSST-EEEAQKAL 52 (93)
Q Consensus 5 ~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~-~~~~~~a~ 52 (93)
.+.++|.+.|..|..+ +++.+.++ ..+.|+++|.|.. -.-...|.
T Consensus 29 ~~~~~l~~~l~~f~p~-kv~~l~~~--~gh~g~aiv~F~~~w~Gf~~A~ 74 (116)
T PF03468_consen 29 MSNEELLDKLAEFNPL-KVKPLYGK--QGHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp --SHHHHHHHHH---S-EEEEEEET--TEEEEEEEEE--SSHHHHHHHH
T ss_pred cCHHHHHHHHHhcCCc-eeEECcCC--CCCcEEEEEEECCChHHHHHHH
Confidence 3457899999999776 45556654 3678999999974 33444444
No 154
>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=55.51 E-value=26 Score=22.15 Aligned_cols=31 Identities=19% Similarity=0.067 Sum_probs=21.4
Q ss_pred EEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 38 GYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 38 ~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
|||+|++..+|+.+++.+.... .+.+.+..|
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~A 31 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPA 31 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeC
Confidence 6999999999999988544333 233455544
No 155
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=54.65 E-value=25 Score=17.07 Aligned_cols=26 Identities=27% Similarity=0.195 Sum_probs=20.2
Q ss_pred EEEEEeCCHHHHHHHHHHhCCcEecC
Q 042899 37 YGYMTSSTEEEAQKALVDMNKMLLDV 62 (93)
Q Consensus 37 ~~fv~f~~~~~~~~a~~~l~~~~~~~ 62 (93)
+.++.|.+..++.++-+.|....+..
T Consensus 3 ~~~i~F~st~~a~~~ek~lk~~gi~~ 28 (73)
T PF11823_consen 3 YYLITFPSTHDAMKAEKLLKKNGIPV 28 (73)
T ss_pred eEEEEECCHHHHHHHHHHHHHCCCcE
Confidence 67899999999999888776554433
No 156
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=53.16 E-value=48 Score=21.34 Aligned_cols=38 Identities=8% Similarity=0.010 Sum_probs=25.6
Q ss_pred CCcccCHHHHHHHhcccCCc-eEEEEEecCCCCCcceEEEEEeCC
Q 042899 1 VSFSTTKEMLADAFSQFGQV-TKATIIMDIGKNRSKGYGYMTSST 44 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i-~~~~i~~~~~~~~~~g~~fv~f~~ 44 (93)
|+.++...||+..+.+.+.. .++.+ ..+.+-||++|.+
T Consensus 338 l~rd~rv~dlk~~lr~~~~~pm~isw------kg~~~k~flh~~~ 376 (396)
T KOG4410|consen 338 LSRDIRVKDLKSELRKRECTPMSISW------KGHFGKCFLHFGN 376 (396)
T ss_pred CccccchHHHHHHHHhcCCCceeEee------ecCCcceeEecCC
Confidence 56777788898888877654 34433 2345688998865
No 157
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=51.74 E-value=50 Score=19.69 Aligned_cols=39 Identities=13% Similarity=0.186 Sum_probs=30.1
Q ss_pred eEEEEEeCCHHHHHHHHHHhCCcEecCe-EEEEEEecCCC
Q 042899 36 GYGYMTSSTEEEAQKALVDMNKMLLDVR-VIFVDYVRPNR 74 (93)
Q Consensus 36 g~~fv~f~~~~~~~~a~~~l~~~~~~~~-~l~v~~~~~~~ 74 (93)
+...+.|.+...+..|...+....+.|. .++.-++.+..
T Consensus 52 rrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ~~~ 91 (193)
T KOG4019|consen 52 RRVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQPGH 91 (193)
T ss_pred ceeEEeccChhHHHHHHHHhhhcccCCCceEEEEEccCCC
Confidence 4556789999999999998999988887 56666665543
No 158
>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=49.72 E-value=17 Score=15.34 Aligned_cols=18 Identities=11% Similarity=0.054 Sum_probs=14.5
Q ss_pred ccCHHHHHHHhcccCCce
Q 042899 4 STTKEMLADAFSQFGQVT 21 (93)
Q Consensus 4 ~~~~~~l~~~f~~~G~i~ 21 (93)
.++.++|+..+..+|...
T Consensus 3 tWs~~~L~~wL~~~gi~~ 20 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIPV 20 (38)
T ss_pred CCCHHHHHHHHHHcCCCC
Confidence 467899999999987653
No 159
>PRK11901 hypothetical protein; Reviewed
Probab=48.66 E-value=72 Score=20.83 Aligned_cols=52 Identities=10% Similarity=0.098 Sum_probs=32.2
Q ss_pred cCHHHHHHHhcccCCceEEEEEecCCCCCcceEE--EEEeCCHHHHHHHHHHhCCc
Q 042899 5 TTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYG--YMTSSTEEEAQKALVDMNKM 58 (93)
Q Consensus 5 ~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~--fv~f~~~~~~~~a~~~l~~~ 58 (93)
.+++.|..|....+ +..+++......|+ .+|. +-.|.+.++|..|+..|...
T Consensus 254 s~~~~L~~f~~~~~-L~~~~VYqT~RnGk-pWYVVvyG~Y~Sr~eAk~Ai~sLPa~ 307 (327)
T PRK11901 254 SRSDTLNAYAKKQN-LSHYHVYETKRDGK-PWYVLVSGNYASSAEAKRAIATLPAE 307 (327)
T ss_pred CCHHHHHHHHHHcC-cCceEEEEEEECCc-eEEEEEecCcCCHHHHHHHHHhCCHH
Confidence 34667777776664 44455544332233 2344 44788999999999987653
No 160
>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=47.62 E-value=38 Score=17.07 Aligned_cols=27 Identities=22% Similarity=0.464 Sum_probs=22.0
Q ss_pred CcceEEEEEeCCHHHHHHHHHHhCCcE
Q 042899 33 RSKGYGYMTSSTEEEAQKALVDMNKML 59 (93)
Q Consensus 33 ~~~g~~fv~f~~~~~~~~a~~~l~~~~ 59 (93)
..+||-||+-.+..++..|+..+.+..
T Consensus 42 ~lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 42 SLKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp TSTSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred CCceEEEEEeCCHHHHHHHHhccccee
Confidence 367999999999999999988766544
No 161
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=47.16 E-value=7.9 Score=27.27 Aligned_cols=56 Identities=11% Similarity=0.122 Sum_probs=41.5
Q ss_pred cCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEE
Q 042899 5 TTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDY 69 (93)
Q Consensus 5 ~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~ 69 (93)
+..+-+..++..+|.|...+.. .|+|..|....-...|+..+....+++..+.+..
T Consensus 52 ~s~~~~~~il~~~g~v~s~kr~---------~fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~ 107 (668)
T KOG2253|consen 52 VSQEFWKSILAKSGFVPSWKRD---------KFGFCEFLKHIGDLRASRLLTELNIDDQKLIENV 107 (668)
T ss_pred hhHHHHHHHHhhCCcchhhhhh---------hhcccchhhHHHHHHHHHHhcccCCCcchhhccc
Confidence 4455667777888887654332 2999999999999999998888888887665543
No 162
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.43 E-value=4.1 Score=27.41 Aligned_cols=68 Identities=3% Similarity=-0.154 Sum_probs=42.2
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
+..++++++.-.|..||-|..+..-..-..+.....+|++.... ++..++..+.-..+.+..+++..+
T Consensus 12 ~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~~-~~~~~i~~~k~q~~~~~~~r~~~~ 79 (572)
T KOG4365|consen 12 VASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKKA-NGPNYIQPQKRQTTFESQDRKAVS 79 (572)
T ss_pred ccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeecc-CcccccCHHHHhhhhhhhhhhhcC
Confidence 45677889999999999887665433333344556777776643 444455444444555655555554
No 163
>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=39.63 E-value=1e+02 Score=19.88 Aligned_cols=66 Identities=12% Similarity=0.210 Sum_probs=38.0
Q ss_pred cCHHHHHHHhcccCCceEEEEEecCC-------CCCcceEEEEEeCCHHHHHH----HHHHhCC--cEecCeEEEEEEe
Q 042899 5 TTKEMLADAFSQFGQVTKATIIMDIG-------KNRSKGYGYMTSSTEEEAQK----ALVDMNK--MLLDVRVIFVDYV 70 (93)
Q Consensus 5 ~~~~~l~~~f~~~G~i~~~~i~~~~~-------~~~~~g~~fv~f~~~~~~~~----a~~~l~~--~~~~~~~l~v~~~ 70 (93)
++--.+..-|..||.|+.|.+..+.. ..+...-..+.|-+...+.. .++.|.. ..+....|.+.+.
T Consensus 27 idLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~~L~S~~L~lsFV 105 (309)
T PF10567_consen 27 IDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKTKLKSESLTLSFV 105 (309)
T ss_pred ccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHHhcCCcceeEEEE
Confidence 33334556678899999999887641 12233466777776655433 2222222 2355666666664
No 164
>cd06405 PB1_Mekk2_3 The PB1 domain is present in the two mitogen-activated protein kinase kinases MEKK2 and MEKK3 which are two members of the signaling kinase cascade involved in angiogenesis and early cardiovascular development. The PB1 domain of MEKK2 (and/or MEKK3) interacts with the PB1 domain of another member of the kinase cascade Map2k5. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, f
Probab=36.63 E-value=61 Score=16.34 Aligned_cols=55 Identities=11% Similarity=0.120 Sum_probs=36.2
Q ss_pred cCHHHHHHH-hcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEE
Q 042899 5 TTKEMLADA-FSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVD 68 (93)
Q Consensus 5 ~~~~~l~~~-f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~ 68 (93)
+.-+||..- -..||....+....+ --.+-..+.++..+|++.++. ....+.+++-
T Consensus 20 vkf~dl~~kv~~afGq~mdl~ytn~--------eL~iPl~~Q~DLDkAie~ld~-s~~~ksLRil 75 (79)
T cd06405 20 VKFKDLQQKVTTAFGQPMDLHYTNN--------ELLIPLKNQEDLDRAIELLDR-SPHMKSLRIL 75 (79)
T ss_pred ccHHHHHHHHHHHhCCeeeEEEecc--------cEEEeccCHHHHHHHHHHHcc-CccccceeEe
Confidence 344555543 357888888766544 246788899999999998876 3333445443
No 165
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=35.94 E-value=1.6e+02 Score=21.01 Aligned_cols=34 Identities=3% Similarity=0.003 Sum_probs=27.8
Q ss_pred EEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEec
Q 042899 37 YGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVR 71 (93)
Q Consensus 37 ~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~ 71 (93)
|.||+... ..+...+..|++..+.|+.+.|+.++
T Consensus 528 ~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 561 (629)
T PRK11634 528 HSTIELPK-GMPGEVLQHFTRTRILNKPMNMQLLG 561 (629)
T ss_pred ceEEEcCh-hhHHHHHHHhccccccCCceEEEECC
Confidence 78888875 45777888899999999999999864
No 166
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=33.98 E-value=1.1e+02 Score=18.38 Aligned_cols=48 Identities=23% Similarity=0.127 Sum_probs=30.2
Q ss_pred CHHHHHHHhccc-CCceEEEEEecCCCC--CcceEEEEEeCCHHHHHHHHHH
Q 042899 6 TKEMLADAFSQF-GQVTKATIIMDIGKN--RSKGYGYMTSSTEEEAQKALVD 54 (93)
Q Consensus 6 ~~~~l~~~f~~~-G~i~~~~i~~~~~~~--~~~g~~fv~f~~~~~~~~a~~~ 54 (93)
++++|..+...- |.+.++.+-.. ..+ ..+|-.|++|.+.+.+.+++..
T Consensus 119 td~ql~~l~qw~~~k~~nv~mr~~-~~k~~~fkGsvkv~f~tk~qa~a~~~~ 169 (205)
T KOG4213|consen 119 TDDQLDDLNQWASGKGHNVKMRRH-GNKAHPFKGSVKVTFQTKEQAFANDDT 169 (205)
T ss_pred CHHHHHHHHHHhcccceEeecccc-CCCCCCCCCceEEEeecHHHHHhhhhh
Confidence 444444443322 57777765432 222 5678899999999998887653
No 167
>PRK10905 cell division protein DamX; Validated
Probab=31.08 E-value=1.6e+02 Score=19.36 Aligned_cols=53 Identities=9% Similarity=-0.029 Sum_probs=30.9
Q ss_pred cCHHHHHHHhcccCCceEEEEEecCCCCC-cceEEEEEeCCHHHHHHHHHHhCCc
Q 042899 5 TTKEMLADAFSQFGQVTKATIIMDIGKNR-SKGYGYMTSSTEEEAQKALVDMNKM 58 (93)
Q Consensus 5 ~~~~~l~~~f~~~G~i~~~~i~~~~~~~~-~~g~~fv~f~~~~~~~~a~~~l~~~ 58 (93)
.+++.|+.+..+.|. ....+......|+ -...-+-.|.+.++|.+|+..|...
T Consensus 256 Ss~~~l~~fakKlgL-~~y~vy~TtRnGkpWYVV~yG~YaSraeAk~AiakLPa~ 309 (328)
T PRK10905 256 SNYDNLNGWAKKENL-KNYVVYETTRNGQPWYVLVSGVYASKEEAKRAVSTLPAD 309 (328)
T ss_pred CCHHHHHHHHHHcCC-CceEEEEeccCCceEEEEEecCCCCHHHHHHHHHHCCHH
Confidence 345677777777653 3222332222233 1223345789999999999987643
No 168
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=31.06 E-value=72 Score=15.49 Aligned_cols=23 Identities=13% Similarity=0.160 Sum_probs=17.3
Q ss_pred HHHHHHHhcccCCceEEEEEecC
Q 042899 7 KEMLADAFSQFGQVTKATIIMDI 29 (93)
Q Consensus 7 ~~~l~~~f~~~G~i~~~~i~~~~ 29 (93)
+.+|.+.|-+...+..+.+...+
T Consensus 32 e~eler~fl~~P~v~e~~l~EKK 54 (64)
T PF13046_consen 32 EVELERHFLPLPEVKEVALYEKK 54 (64)
T ss_pred HHHhhhhccCCCCceEEEEEEEE
Confidence 45778888888888888776543
No 169
>PHA01782 hypothetical protein
Probab=30.14 E-value=40 Score=19.67 Aligned_cols=21 Identities=24% Similarity=0.474 Sum_probs=16.7
Q ss_pred CCcccCHHHHHHHhcccCCce
Q 042899 1 VSFSTTKEMLADAFSQFGQVT 21 (93)
Q Consensus 1 L~~~~~~~~l~~~f~~~G~i~ 21 (93)
||.......|.++|..||.|.
T Consensus 63 MPKGsRrnAL~~wlv~~Gkv~ 83 (177)
T PHA01782 63 MPKGSRRNALAEWLVKFGKVQ 83 (177)
T ss_pred ccccchhhHHHHHHHHhCCcc
Confidence 455666778999999999875
No 170
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=28.55 E-value=56 Score=22.28 Aligned_cols=7 Identities=14% Similarity=0.572 Sum_probs=3.2
Q ss_pred EEEEEeC
Q 042899 37 YGYMTSS 43 (93)
Q Consensus 37 ~~fv~f~ 43 (93)
++.|.+.
T Consensus 147 lgWVav~ 153 (480)
T KOG2675|consen 147 LGWVAVK 153 (480)
T ss_pred ceeEecC
Confidence 4444443
No 171
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=27.77 E-value=72 Score=17.37 Aligned_cols=23 Identities=35% Similarity=0.398 Sum_probs=16.9
Q ss_pred cccCHHHHHHHhcccCCceEEEE
Q 042899 3 FSTTKEMLADAFSQFGQVTKATI 25 (93)
Q Consensus 3 ~~~~~~~l~~~f~~~G~i~~~~i 25 (93)
..++.++|++.|..|-.-..+.|
T Consensus 43 ~~Tt~~eiedaF~~f~~RdDIaI 65 (121)
T KOG3432|consen 43 SKTTVEEIEDAFKSFTARDDIAI 65 (121)
T ss_pred ccCCHHHHHHHHHhhccccCeEE
Confidence 46889999999999865444433
No 172
>PF04026 SpoVG: SpoVG; InterPro: IPR007170 This is a stage V sporulation protein G. It is essential for sporulation and specific to stage V sporulation in Bacillus megaterium and Bacillus subtilis []. In B. subtilis, expression decreases after 30-60 minutes of cold shock [].; GO: 0030435 sporulation resulting in formation of a cellular spore; PDB: 2IA9_F 2I9X_B 2I9Z_A.
Probab=27.55 E-value=97 Score=15.83 Aligned_cols=25 Identities=16% Similarity=0.129 Sum_probs=18.1
Q ss_pred ceEEEEEecCCCCCcceEEEEEeCC
Q 042899 20 VTKATIIMDIGKNRSKGYGYMTSST 44 (93)
Q Consensus 20 i~~~~i~~~~~~~~~~g~~fv~f~~ 44 (93)
|.++++..-...++.+++|-|+|.+
T Consensus 3 itdVri~~~~~~~~lka~asV~~dd 27 (84)
T PF04026_consen 3 ITDVRIRKIEPEGKLKAFASVTFDD 27 (84)
T ss_dssp EEEEEEEETTSSSSEEEEEEEEETT
T ss_pred cEEEEEEEecCCCCEEEEEEEEECC
Confidence 4566666554458888999999986
No 173
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=27.52 E-value=1.1e+02 Score=18.02 Aligned_cols=25 Identities=8% Similarity=0.028 Sum_probs=13.6
Q ss_pred HHHHHHHHHhCCcEecCeEEEEEEe
Q 042899 46 EEAQKALVDMNKMLLDVRVIFVDYV 70 (93)
Q Consensus 46 ~~~~~a~~~l~~~~~~~~~l~v~~~ 70 (93)
..|.+.+..++.....+++|.++..
T Consensus 111 ~~a~~~~~~~q~~~~~~~~IvteI~ 135 (174)
T COG0225 111 AIAEASIEELQASGYFKKPIVTEIE 135 (174)
T ss_pred HHHHHHHHHHHHhccCCCCeEEEee
Confidence 3444555566554455556666654
No 174
>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=26.94 E-value=64 Score=21.78 Aligned_cols=46 Identities=17% Similarity=0.068 Sum_probs=35.7
Q ss_pred HHHHHHHhcc--cCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHH
Q 042899 7 KEMLADAFSQ--FGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKAL 52 (93)
Q Consensus 7 ~~~l~~~f~~--~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~ 52 (93)
.+++..+|.. .+.+..+.+-++......+|..|+.|.....+.+..
T Consensus 196 ~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~n 243 (438)
T COG5193 196 QEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFN 243 (438)
T ss_pred hhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHh
Confidence 4578888887 567777777666555677888999999999888775
No 175
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=26.03 E-value=45 Score=12.91 Aligned_cols=11 Identities=18% Similarity=0.057 Sum_probs=7.5
Q ss_pred cCHHHHHHHhc
Q 042899 5 TTKEMLADAFS 15 (93)
Q Consensus 5 ~~~~~l~~~f~ 15 (93)
++.+++..++.
T Consensus 17 I~~~el~~~l~ 27 (31)
T PF13405_consen 17 IDFEELRAILR 27 (31)
T ss_dssp EEHHHHHHHHH
T ss_pred CcHHHHHHHHH
Confidence 56677777766
No 176
>PF12829 Mhr1: Transcriptional regulation of mitochondrial recombination; InterPro: IPR024629 These proteins are involved in regulation of RNA polymerase II-dependent transcription. They are also involved in regulation of mitochondrial DNA recombination, maintenance, repair, and generation of homoplasmic cells [, , , ].
Probab=24.73 E-value=1.2e+02 Score=15.88 Aligned_cols=22 Identities=9% Similarity=0.012 Sum_probs=17.2
Q ss_pred ceEEEEEeCCHHHHHHHHHHhC
Q 042899 35 KGYGYMTSSTEEEAQKALVDMN 56 (93)
Q Consensus 35 ~g~~fv~f~~~~~~~~a~~~l~ 56 (93)
+.+|.|.|.+.+.+.++-..|.
T Consensus 51 ~pm~vv~f~~~~~g~~~yq~Lr 72 (91)
T PF12829_consen 51 RPMCVVNFPNYEVGVSAYQKLR 72 (91)
T ss_pred eEeEEEECCChHHHHHHHHHHH
Confidence 3599999999888888766543
No 177
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=23.94 E-value=73 Score=15.48 Aligned_cols=17 Identities=18% Similarity=0.335 Sum_probs=13.7
Q ss_pred cccCHHHHHHHhcccCC
Q 042899 3 FSTTKEMLADAFSQFGQ 19 (93)
Q Consensus 3 ~~~~~~~l~~~f~~~G~ 19 (93)
+-++|+.|+..+...|.
T Consensus 30 Ppine~mir~M~~QMG~ 46 (64)
T PF03672_consen 30 PPINEKMIRAMMMQMGR 46 (64)
T ss_pred CCCCHHHHHHHHHHhCC
Confidence 44788999999988875
No 178
>PRK13259 regulatory protein SpoVG; Reviewed
Probab=23.92 E-value=1.3e+02 Score=15.89 Aligned_cols=25 Identities=20% Similarity=0.061 Sum_probs=16.9
Q ss_pred ceEEEEEecCCCCCcceEEEEEeCC
Q 042899 20 VTKATIIMDIGKNRSKGYGYMTSST 44 (93)
Q Consensus 20 i~~~~i~~~~~~~~~~g~~fv~f~~ 44 (93)
|..+++..-...++.+++|-|+|.+
T Consensus 3 ITdVri~~~~~~g~lka~asit~dd 27 (94)
T PRK13259 3 VTDVRLRKVNTEGRMKAIVSITFDN 27 (94)
T ss_pred EEEEEEEEeCCCCcEEEEEEEEECC
Confidence 4555554333447888999998886
No 179
>PHA01632 hypothetical protein
Probab=23.81 E-value=76 Score=14.98 Aligned_cols=15 Identities=20% Similarity=0.251 Sum_probs=10.8
Q ss_pred CcccCHHHHHHHhcc
Q 042899 2 SFSTTKEMLADAFSQ 16 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~ 16 (93)
|...++++|+..+.+
T Consensus 25 p~kpteeelrkvlpk 39 (64)
T PHA01632 25 PQKPTEEELRKVLPK 39 (64)
T ss_pred CCCCCHHHHHHHHHH
Confidence 556788888877654
No 180
>PF10905 DUF2695: Protein of unknown function (DUF2695); InterPro: IPR024248 This bacterial family of proteins has no known function.
Probab=23.66 E-value=96 Score=14.43 Aligned_cols=23 Identities=9% Similarity=0.097 Sum_probs=16.3
Q ss_pred cCHHHHHHHhcccCCceEEEEEe
Q 042899 5 TTKEMLADAFSQFGQVTKATIIM 27 (93)
Q Consensus 5 ~~~~~l~~~f~~~G~i~~~~i~~ 27 (93)
++.+++.+.|...|.-..+.|+.
T Consensus 30 ~~~~~vl~~l~~nGg~CDCEVl~ 52 (53)
T PF10905_consen 30 LDWEDVLEWLRENGGYCDCEVLY 52 (53)
T ss_pred CCHHHHHHHHHHcCCCcceeeec
Confidence 45577888888888777666653
No 181
>PF06014 DUF910: Bacterial protein of unknown function (DUF910); InterPro: IPR009256 This family consists of several short bacterial proteins of unknown function.; PDB: 2NN4_A.
Probab=23.40 E-value=79 Score=15.26 Aligned_cols=17 Identities=12% Similarity=0.184 Sum_probs=9.9
Q ss_pred HHHHHHHhcccCCceEE
Q 042899 7 KEMLADAFSQFGQVTKA 23 (93)
Q Consensus 7 ~~~l~~~f~~~G~i~~~ 23 (93)
--|+.+++.+||.+..+
T Consensus 4 lyDVqQLLK~fG~~IY~ 20 (62)
T PF06014_consen 4 LYDVQQLLKKFGIIIYV 20 (62)
T ss_dssp HHHHHHHHHTTS-----
T ss_pred HHHHHHHHHHCCEEEEe
Confidence 45788899999887654
No 182
>PF15063 TC1: Thyroid cancer protein 1
Probab=21.68 E-value=82 Score=15.91 Aligned_cols=17 Identities=18% Similarity=0.296 Sum_probs=14.2
Q ss_pred ccCHHHHHHHhcccCCc
Q 042899 4 STTKEMLADAFSQFGQV 20 (93)
Q Consensus 4 ~~~~~~l~~~f~~~G~i 20 (93)
+++...|+.+|..-|..
T Consensus 36 ~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 36 NVNLDQLQRLFQKSGDK 52 (79)
T ss_pred ccCHHHHHHHHHHccch
Confidence 57788999999998865
No 183
>PRK00523 hypothetical protein; Provisional
Probab=21.46 E-value=94 Score=15.51 Aligned_cols=17 Identities=24% Similarity=0.436 Sum_probs=13.8
Q ss_pred cccCHHHHHHHhcccCC
Q 042899 3 FSTTKEMLADAFSQFGQ 19 (93)
Q Consensus 3 ~~~~~~~l~~~f~~~G~ 19 (93)
+-++|+.|+..+.+.|.
T Consensus 38 Ppine~mir~M~~QMGq 54 (72)
T PRK00523 38 PPITENMIRAMYMQMGR 54 (72)
T ss_pred cCCCHHHHHHHHHHhCC
Confidence 45788999999988875
No 184
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.25 E-value=2.2e+02 Score=20.49 Aligned_cols=33 Identities=9% Similarity=0.230 Sum_probs=26.8
Q ss_pred EEEEEeCCHHHHHHHHHHhCCcEecCe--EEEEEE
Q 042899 37 YGYMTSSTEEEAQKALVDMNKMLLDVR--VIFVDY 69 (93)
Q Consensus 37 ~~fv~f~~~~~~~~a~~~l~~~~~~~~--~l~v~~ 69 (93)
||.|.|.+...|......++|..+... .+-++|
T Consensus 270 yAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRF 304 (650)
T KOG2318|consen 270 YAVVECDSIETAKAVYEECDGIEFESSANKLDLRF 304 (650)
T ss_pred EEEEEecCchHHHHHHHhcCcceeccccceeeeee
Confidence 899999999999999999999987654 344444
No 185
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=21.12 E-value=30 Score=24.25 Aligned_cols=62 Identities=6% Similarity=-0.028 Sum_probs=40.7
Q ss_pred CcccCHHHHHHHhcccCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEecCe
Q 042899 2 SFSTTKEMLADAFSQFGQVTKATIIMDIGKNRSKGYGYMTSSTEEEAQKALVDMNKMLLDVR 63 (93)
Q Consensus 2 ~~~~~~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~ 63 (93)
+++++-.+|......+....+.-+-....-.....+..++|+.......|+.+||+..+...
T Consensus 240 ~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s~ 301 (648)
T KOG2295|consen 240 LPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRSN 301 (648)
T ss_pred CCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccccc
Confidence 45677778888877776555543332222233456778899888888888888888765543
No 186
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=20.67 E-value=1.5e+02 Score=16.69 Aligned_cols=20 Identities=15% Similarity=0.233 Sum_probs=15.0
Q ss_pred eEEEEEeCCHHHHHHHHHHh
Q 042899 36 GYGYMTSSTEEEAQKALVDM 55 (93)
Q Consensus 36 g~~fv~f~~~~~~~~a~~~l 55 (93)
|...+-|.+.++|.+.....
T Consensus 115 g~~~~aF~~~~~A~~F~~~~ 134 (149)
T PF05573_consen 115 GPDLIAFASKEDAEAFAKEH 134 (149)
T ss_dssp S--EEEES-HHHHHHHHHHT
T ss_pred CCcccccCCHHHHHHHHHHc
Confidence 57789999999999998875
No 187
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=20.58 E-value=1e+02 Score=21.58 Aligned_cols=39 Identities=23% Similarity=0.256 Sum_probs=31.5
Q ss_pred cceEEEEEeCCHHHHHHHHHHhCCcEecCeEEEEEEecC
Q 042899 34 SKGYGYMTSSTEEEAQKALVDMNKMLLDVRVIFVDYVRP 72 (93)
Q Consensus 34 ~~g~~fv~f~~~~~~~~a~~~l~~~~~~~~~l~v~~~~~ 72 (93)
...++++.|.+...+.+|+..++|....+..+.+.....
T Consensus 62 ~~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~~ 100 (534)
T KOG2187|consen 62 MPKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGAT 100 (534)
T ss_pred CCCceEEEEeccchhhhHHHHHhhhhhhcchhhhhhccc
Confidence 346999999999999999999999887776666665443
Done!