Query 004904
Match_columns 724
No_of_seqs 155 out of 227
Neff 2.9
Searched_HMMs 46136
Date Thu Mar 28 14:49:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004904.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004904hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2416 Acinus (induces apopto 100.0 3.3E-73 7.2E-78 613.8 31.7 620 1-722 1-689 (718)
2 PF00076 RRM_1: RNA recognitio 98.9 3.1E-09 6.7E-14 82.8 7.1 65 525-593 1-70 (70)
3 PLN03134 glycine-rich RNA-bind 98.9 1.8E-08 3.9E-13 94.3 10.8 85 509-598 22-112 (144)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 98.9 1E-08 2.2E-13 103.7 9.7 76 520-599 267-348 (352)
5 PF13893 RRM_5: RNA recognitio 98.8 1.2E-08 2.6E-13 79.6 6.9 55 539-597 1-56 (56)
6 TIGR01642 U2AF_lg U2 snRNP aux 98.7 4.7E-08 1E-12 104.0 8.3 81 519-603 406-505 (509)
7 smart00362 RRM_2 RNA recogniti 98.6 1.4E-07 3.1E-12 71.2 7.7 67 524-594 1-71 (72)
8 TIGR01661 ELAV_HUD_SF ELAV/HuD 98.6 1E-07 2.2E-12 96.5 8.6 75 521-599 2-82 (352)
9 TIGR01622 SF-CC1 splicing fact 98.6 1.7E-07 3.8E-12 98.7 9.4 76 519-598 183-264 (457)
10 PF14259 RRM_6: RNA recognitio 98.5 2.5E-07 5.5E-12 73.8 7.0 65 525-593 1-70 (70)
11 cd00590 RRM RRM (RNA recogniti 98.5 6E-07 1.3E-11 68.1 8.2 69 524-596 1-74 (74)
12 TIGR01659 sex-lethal sex-letha 98.5 4.1E-07 9E-12 96.2 9.6 77 519-599 104-186 (346)
13 KOG0121 Nuclear cap-binding pr 98.5 2.6E-07 5.7E-12 88.2 6.7 75 520-598 34-114 (153)
14 TIGR01622 SF-CC1 splicing fact 98.5 7E-07 1.5E-11 94.1 9.9 84 518-605 358-453 (457)
15 TIGR01628 PABP-1234 polyadenyl 98.5 5.7E-07 1.2E-11 98.1 9.5 80 519-602 282-366 (562)
16 smart00360 RRM RNA recognition 98.4 7.1E-07 1.5E-11 67.0 7.1 64 527-594 1-70 (71)
17 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.4 4.9E-07 1.1E-11 98.0 8.8 77 521-601 1-79 (481)
18 TIGR01642 U2AF_lg U2 snRNP aux 98.4 6.4E-07 1.4E-11 95.5 9.5 75 521-599 294-374 (509)
19 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.4 7.8E-07 1.7E-11 96.5 9.7 80 519-602 272-353 (481)
20 KOG0114 Predicted RNA-binding 98.4 1.2E-06 2.6E-11 81.5 9.4 87 520-610 16-105 (124)
21 COG0724 RNA-binding proteins ( 98.4 1.2E-06 2.7E-11 79.5 8.5 74 522-599 115-194 (306)
22 TIGR01659 sex-lethal sex-letha 98.4 1.2E-06 2.7E-11 92.7 9.6 76 522-599 193-274 (346)
23 TIGR01628 PABP-1234 polyadenyl 98.4 8.4E-07 1.8E-11 96.8 8.5 72 523-598 1-78 (562)
24 PF02037 SAP: SAP domain; Int 98.4 5.1E-07 1.1E-11 67.5 4.3 35 13-47 1-35 (35)
25 PLN03120 nucleic acid binding 98.4 1.5E-06 3.2E-11 90.0 9.2 73 522-599 4-79 (260)
26 KOG0122 Translation initiation 98.3 1.6E-06 3.4E-11 89.4 7.6 75 521-599 188-268 (270)
27 TIGR01648 hnRNP-R-Q heterogene 98.3 2.2E-06 4.8E-11 96.6 9.2 75 522-602 233-309 (578)
28 TIGR01645 half-pint poly-U bin 98.3 2.1E-06 4.5E-11 97.4 8.8 74 522-599 204-283 (612)
29 PLN03213 repressor of silencin 98.3 1.8E-06 3.9E-11 95.6 8.0 78 521-602 9-90 (759)
30 TIGR01645 half-pint poly-U bin 98.3 1.8E-06 4E-11 97.8 8.2 72 521-596 106-183 (612)
31 KOG0125 Ataxin 2-binding prote 98.1 4.1E-06 8.9E-11 89.2 6.2 74 523-600 97-174 (376)
32 smart00361 RRM_1 RNA recogniti 98.0 1.6E-05 3.4E-10 65.4 6.2 54 537-594 3-69 (70)
33 KOG0144 RNA-binding protein CU 97.9 8.8E-06 1.9E-10 89.1 5.1 82 520-602 122-208 (510)
34 smart00513 SAP Putative DNA-bi 97.9 1.1E-05 2.3E-10 60.0 3.7 35 13-47 1-35 (35)
35 KOG4661 Hsp27-ERE-TATA-binding 97.9 0.0012 2.5E-08 75.1 21.1 78 519-600 402-485 (940)
36 PLN03121 nucleic acid binding 97.9 4.7E-05 1E-09 78.4 8.6 74 520-598 3-79 (243)
37 TIGR01648 hnRNP-R-Q heterogene 97.8 4.8E-05 1E-09 86.1 8.7 63 521-583 57-124 (578)
38 KOG0108 mRNA cleavage and poly 97.8 4E-05 8.7E-10 84.2 7.8 82 520-605 15-103 (435)
39 KOG4207 Predicted splicing fac 97.8 3.3E-05 7.2E-10 78.7 6.1 75 520-598 11-91 (256)
40 KOG0107 Alternative splicing f 97.7 6.3E-05 1.4E-09 75.0 7.0 78 519-600 7-85 (195)
41 KOG4206 Spliceosomal protein s 97.7 0.00011 2.4E-09 75.0 7.9 76 521-600 8-90 (221)
42 KOG0144 RNA-binding protein CU 97.7 0.0001 2.3E-09 81.0 7.7 81 522-603 34-120 (510)
43 KOG4259 Putative nucleic acid- 97.6 6E-05 1.3E-09 77.3 3.8 39 11-49 4-42 (260)
44 KOG0130 RNA-binding protein RB 97.5 0.00015 3.2E-09 70.4 5.6 79 515-597 65-149 (170)
45 KOG0148 Apoptosis-promoting RN 97.5 0.00028 6E-09 74.3 8.0 79 514-596 156-234 (321)
46 KOG0117 Heterogeneous nuclear 97.5 0.00023 4.9E-09 78.6 6.9 75 523-603 260-334 (506)
47 PLN03124 poly [ADP-ribose] pol 97.4 9E-05 1.9E-09 84.8 2.8 42 14-55 3-44 (643)
48 KOG0113 U1 small nuclear ribon 97.3 0.00077 1.7E-08 71.7 8.3 89 515-607 94-188 (335)
49 KOG0146 RNA-binding protein ET 97.2 0.00072 1.6E-08 71.4 7.2 82 521-603 18-104 (371)
50 KOG4208 Nucleolar RNA-binding 97.2 0.0012 2.6E-08 67.2 7.7 84 516-603 43-134 (214)
51 KOG0126 Predicted RNA-binding 97.1 6.6E-05 1.4E-09 75.5 -1.3 76 520-599 33-114 (219)
52 KOG1457 RNA binding protein (c 97.1 0.0013 2.7E-08 68.2 7.8 77 521-598 33-116 (284)
53 KOG4212 RNA-binding protein hn 97.1 0.001 2.2E-08 73.7 7.1 76 516-596 530-607 (608)
54 KOG0111 Cyclophilin-type pepti 97.1 0.00037 8.1E-09 71.9 3.5 82 519-604 7-94 (298)
55 KOG0127 Nucleolar protein fibr 97.1 0.001 2.2E-08 75.2 6.9 77 523-603 293-381 (678)
56 PF04059 RRM_2: RNA recognitio 97.0 0.003 6.5E-08 57.3 8.2 81 523-603 2-90 (97)
57 KOG0123 Polyadenylate-binding 97.0 0.0011 2.3E-08 71.5 6.3 80 515-598 263-347 (369)
58 KOG0127 Nucleolar protein fibr 97.0 0.0014 3.1E-08 74.0 7.2 75 522-600 117-196 (678)
59 KOG0117 Heterogeneous nuclear 97.0 0.0022 4.8E-08 71.1 8.4 76 518-596 79-160 (506)
60 KOG0145 RNA-binding protein EL 96.9 0.0026 5.7E-08 67.1 8.0 72 523-598 279-356 (360)
61 KOG0132 RNA polymerase II C-te 96.9 0.0024 5.3E-08 74.4 8.4 64 518-581 417-480 (894)
62 KOG0110 RNA-binding protein (R 96.9 0.0045 9.7E-08 71.5 9.6 70 525-598 518-596 (725)
63 KOG0131 Splicing factor 3b, su 96.8 0.0018 4E-08 65.2 5.3 74 521-598 8-87 (203)
64 KOG0110 RNA-binding protein (R 96.8 0.0014 3E-08 75.5 5.0 78 521-602 612-695 (725)
65 KOG4660 Protein Mei2, essentia 96.4 0.0029 6.4E-08 71.3 4.3 65 519-583 72-137 (549)
66 KOG0147 Transcriptional coacti 96.4 0.0069 1.5E-07 68.4 6.8 88 514-605 435-533 (549)
67 KOG0123 Polyadenylate-binding 96.3 0.011 2.4E-07 64.0 7.9 71 525-600 79-153 (369)
68 KOG0105 Alternative splicing f 96.0 0.011 2.3E-07 60.3 5.5 74 521-598 5-81 (241)
69 KOG0120 Splicing factor U2AF, 95.9 0.014 3E-07 65.8 6.2 84 516-603 393-495 (500)
70 PF08777 RRM_3: RNA binding mo 95.8 0.023 5.1E-07 51.6 6.5 57 523-581 2-60 (105)
71 KOG0147 Transcriptional coacti 95.8 0.013 2.9E-07 66.2 5.9 70 525-598 281-356 (549)
72 KOG0153 Predicted RNA-binding 95.7 0.025 5.4E-07 61.5 6.9 82 515-599 221-302 (377)
73 KOG0109 RNA-binding protein LA 95.6 0.015 3.2E-07 62.2 5.1 76 518-599 74-149 (346)
74 KOG1190 Polypyrimidine tract-b 95.6 0.014 3.1E-07 64.5 4.7 78 526-605 154-233 (492)
75 KOG0131 Splicing factor 3b, su 95.5 0.023 5E-07 57.5 5.6 77 521-601 95-178 (203)
76 KOG0109 RNA-binding protein LA 95.2 0.018 4E-07 61.6 3.8 69 523-597 3-71 (346)
77 KOG0145 RNA-binding protein EL 95.1 0.049 1.1E-06 57.9 6.7 74 523-600 42-121 (360)
78 KOG0124 Polypyrimidine tract-b 95.1 0.026 5.7E-07 62.0 4.8 71 521-595 112-188 (544)
79 KOG4212 RNA-binding protein hn 95.0 0.062 1.3E-06 60.2 7.3 78 522-603 44-127 (608)
80 COG5175 MOT2 Transcriptional r 95.0 0.037 8.1E-07 60.3 5.5 78 524-605 116-208 (480)
81 KOG0149 Predicted RNA-binding 94.9 0.046 1E-06 57.0 5.7 57 523-579 13-75 (247)
82 KOG0148 Apoptosis-promoting RN 94.7 0.061 1.3E-06 57.3 6.1 68 525-596 65-138 (321)
83 KOG0146 RNA-binding protein ET 94.5 0.048 1E-06 58.2 4.8 74 519-596 282-361 (371)
84 PF04847 Calcipressin: Calcipr 94.2 0.062 1.3E-06 53.6 4.6 69 530-602 3-73 (184)
85 KOG1457 RNA binding protein (c 94.0 0.048 1E-06 56.9 3.6 74 520-594 208-283 (284)
86 KOG4246 Predicted DNA-binding 92.9 0.05 1.1E-06 64.4 1.9 46 10-55 643-688 (1194)
87 KOG0533 RRM motif-containing p 92.9 0.32 7E-06 50.8 7.4 76 520-599 81-161 (243)
88 KOG0116 RasGAP SH3 binding pro 92.7 0.21 4.6E-06 55.5 6.2 66 525-595 291-362 (419)
89 KOG1190 Polypyrimidine tract-b 92.1 0.44 9.6E-06 53.3 7.6 85 522-610 297-383 (492)
90 PF04696 Pinin_SDK_memA: pinin 92.1 0.061 1.3E-06 50.8 1.0 17 691-707 98-114 (131)
91 KOG2202 U2 snRNP splicing fact 91.9 0.078 1.7E-06 55.8 1.6 58 545-606 92-154 (260)
92 KOG1456 Heterogeneous nuclear 91.6 0.4 8.7E-06 53.2 6.6 77 526-604 126-203 (494)
93 KOG0151 Predicted splicing reg 91.0 0.87 1.9E-05 53.8 8.8 74 520-597 172-254 (877)
94 KOG4206 Spliceosomal protein s 91.0 0.89 1.9E-05 47.2 8.0 82 513-597 133-219 (221)
95 KOG0415 Predicted peptidyl pro 90.7 0.29 6.3E-06 54.0 4.5 78 518-599 235-318 (479)
96 PF14605 Nup35_RRM_2: Nup53/35 89.7 1 2.2E-05 36.7 5.8 50 524-574 3-52 (53)
97 KOG0106 Alternative splicing f 89.7 0.25 5.3E-06 50.9 2.8 66 523-594 100-165 (216)
98 KOG4209 Splicing factor RNPS1, 89.6 0.52 1.1E-05 48.6 5.0 65 519-584 98-168 (231)
99 PF11608 Limkain-b1: Limkain b 89.2 1.6 3.4E-05 40.1 7.1 70 523-600 3-77 (90)
100 KOG0120 Splicing factor U2AF, 88.5 0.36 7.8E-06 54.9 3.2 83 523-609 290-378 (500)
101 KOG0124 Polypyrimidine tract-b 88.2 0.91 2E-05 50.5 5.9 80 520-603 444-538 (544)
102 PF10309 DUF2414: Protein of u 87.0 1.9 4.1E-05 36.9 6.0 53 523-578 6-62 (62)
103 KOG4574 RNA-binding protein (c 86.4 0.53 1.1E-05 56.3 3.1 73 528-602 304-376 (1007)
104 KOG1924 RhoA GTPase effector D 86.2 2 4.4E-05 51.5 7.6 17 529-545 418-434 (1102)
105 KOG4454 RNA binding protein (R 84.6 0.77 1.7E-05 48.2 2.9 89 517-610 4-100 (267)
106 KOG4205 RNA-binding protein mu 84.0 1.3 2.9E-05 47.7 4.6 63 514-576 89-157 (311)
107 KOG4210 Nuclear localization s 83.9 0.93 2E-05 48.0 3.3 78 518-600 181-264 (285)
108 PF10208 Armet: Degradation ar 82.5 1.1 2.5E-05 44.3 3.1 38 8-45 99-138 (154)
109 KOG1855 Predicted RNA-binding 82.0 1.5 3.2E-05 49.5 4.0 63 521-583 230-312 (484)
110 KOG4205 RNA-binding protein mu 81.9 1.1 2.3E-05 48.4 2.9 57 521-577 5-67 (311)
111 PF03467 Smg4_UPF3: Smg-4/UPF3 80.2 1.8 3.9E-05 42.8 3.6 81 523-603 8-101 (176)
112 KOG4307 RNA binding protein RB 79.1 5.5 0.00012 47.5 7.4 74 519-596 864-943 (944)
113 KOG0112 Large RNA-binding prot 78.0 3 6.6E-05 50.5 5.1 79 519-599 452-530 (975)
114 KOG3152 TBP-binding protein, a 77.6 1.8 3.8E-05 46.3 2.8 63 521-583 73-153 (278)
115 KOG1996 mRNA splicing factor [ 76.8 4.8 0.0001 44.0 5.7 81 520-604 279-371 (378)
116 PF12949 HeH: HeH/LEM domain; 75.6 2.8 6.1E-05 32.4 2.7 31 14-44 2-34 (35)
117 KOG0129 Predicted RNA-binding 75.0 5.7 0.00012 45.7 6.0 58 520-577 368-432 (520)
118 KOG1548 Transcription elongati 73.7 8.6 0.00019 42.7 6.7 71 522-596 134-217 (382)
119 KOG1548 Transcription elongati 72.8 7.9 0.00017 43.0 6.2 76 515-594 258-346 (382)
120 PF08952 DUF1866: Domain of un 69.5 15 0.00032 36.4 6.6 83 513-602 18-109 (146)
121 KOG4676 Splicing factor, argin 68.7 6.8 0.00015 44.2 4.7 67 524-595 9-84 (479)
122 KOG1923 Rac1 GTPase effector F 67.0 12 0.00026 45.1 6.4 16 697-712 370-385 (830)
123 KOG3756 Pinin (desmosome-assoc 67.0 3.1 6.7E-05 45.5 1.7 17 691-707 230-246 (340)
124 KOG2068 MOT2 transcription fac 63.6 3 6.5E-05 45.6 0.8 62 541-606 99-169 (327)
125 KOG1456 Heterogeneous nuclear 62.5 13 0.00029 41.9 5.4 61 516-576 25-85 (494)
126 KOG4307 RNA binding protein RB 61.6 5.7 0.00012 47.4 2.6 84 515-602 427-516 (944)
127 PF11767 SET_assoc: Histone ly 58.8 27 0.00059 30.2 5.6 50 531-583 9-58 (66)
128 KOG2314 Translation initiation 58.2 12 0.00027 43.9 4.4 61 523-583 59-130 (698)
129 KOG0106 Alternative splicing f 58.1 9.4 0.0002 39.7 3.2 69 524-598 3-71 (216)
130 KOG1365 RNA-binding protein Fu 52.0 54 0.0012 37.4 7.9 83 521-607 279-369 (508)
131 KOG4410 5-formyltetrahydrofola 51.2 16 0.00034 40.1 3.6 63 520-583 328-392 (396)
132 PF03880 DbpA: DbpA RNA bindin 50.9 17 0.00037 30.9 3.1 61 531-596 10-73 (74)
133 KOG1924 RhoA GTPase effector D 48.4 73 0.0016 39.2 8.6 13 700-712 642-654 (1102)
134 KOG0226 RNA-binding proteins [ 46.3 28 0.00061 37.7 4.5 65 526-594 194-264 (290)
135 KOG4210 Nuclear localization s 44.1 29 0.00063 37.0 4.3 59 520-578 86-150 (285)
136 PF05172 Nup35_RRM: Nup53/35/4 42.0 57 0.0012 30.2 5.3 59 534-597 17-89 (100)
137 PF08675 RNA_bind: RNA binding 42.0 88 0.0019 29.0 6.3 54 523-579 10-63 (87)
138 KOG2135 Proteins containing th 41.2 15 0.00032 42.3 1.7 81 513-599 363-445 (526)
139 KOG4849 mRNA cleavage factor I 40.6 3E+02 0.0064 31.5 11.2 60 524-583 82-149 (498)
140 KOG4211 Splicing factor hnRNP- 40.1 66 0.0014 37.4 6.5 54 523-577 11-68 (510)
141 KOG4019 Calcineurin-mediated s 34.2 39 0.00084 35.0 3.2 72 529-603 22-93 (193)
142 KOG1995 Conserved Zn-finger pr 32.8 63 0.0014 36.1 4.7 79 519-598 63-155 (351)
143 PF07978 NIPSNAP: NIPSNAP ; I 32.8 87 0.0019 26.8 4.7 53 531-583 8-74 (102)
144 KOG4211 Splicing factor hnRNP- 29.8 1.6E+02 0.0035 34.4 7.4 84 520-608 101-190 (510)
145 KOG1365 RNA-binding protein Fu 26.4 2.1E+02 0.0046 33.0 7.4 84 522-610 161-253 (508)
146 TIGR00599 rad18 DNA repair pro 25.3 82 0.0018 35.6 4.1 36 14-49 267-302 (397)
147 KOG0112 Large RNA-binding prot 25.0 20 0.00044 43.9 -0.6 75 519-597 369-448 (975)
148 PRK10629 EnvZ/OmpR regulon mod 24.7 2.7E+02 0.0058 26.9 6.9 65 516-582 29-97 (127)
149 PRK15245 type III effector pho 22.3 32 0.0007 36.3 0.3 19 5-23 124-142 (241)
150 KOG0128 RNA-binding protein SA 22.3 22 0.00049 43.3 -0.9 154 434-594 573-741 (881)
151 PF07498 Rho_N: Rho terminatio 21.5 1.1E+02 0.0023 24.2 3.0 35 13-47 2-38 (43)
152 PF03536 VRP3: Salmonella viru 21.1 30 0.00064 36.6 -0.2 14 9-22 127-140 (240)
No 1
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=100.00 E-value=3.3e-73 Score=613.75 Aligned_cols=620 Identities=40% Similarity=0.569 Sum_probs=400.8
Q ss_pred CCCCCCCCCCCCCcccchhhHHHHHHHcccccCCchHHHHHHHHHHHHHHHHHhHHHHHH-----HHH-HHHhhhcCCCC
Q 004904 1 MSSPYPILDNRPIDQWKVTELKEELKRRKLKSSGKKDDLIRLLDQAIRIERENAEKEARK-----VAE-MEAAKDAFHGA 74 (724)
Q Consensus 1 mss~ypil~n~~~~~~kV~elk~el~~r~L~t~GlK~dL~~rL~~al~~e~~~~ekd~~~-----~a~-~~~~~~G~~~~ 74 (724)
|+|||++|+|++|..|+|++|+++|++|+|.+.| |.+|..||.+++.+|....+-..++ .+. ..-...|.|.+
T Consensus 1 ~~sp~e~~~~~s~~p~~v~~~~~~~~~rk~~e~e-k~e~e~~~~a~~~~eec~k~p~~sq~~~~a~~~~~er~~~~ad~~ 79 (718)
T KOG2416|consen 1 SSSPFEVLDNRSIDPWKVTELKEELKRRKLTERE-KEELERRLDAALRAEECEKEPINSQTVAAAEKANQERPVTVADRN 79 (718)
T ss_pred CCCcccccCcCCCcchhHHHHHHHHHHhhhcccc-chhHHHHHHHhhhhhhcccCCchhHHHHHHhhhhhhccccccCcc
Confidence 8999999999999999999999999999999999 9999999999999988655533331 111 22233444422
Q ss_pred CCCCCCcc--------cccccceeeccccccccchhhccccccccceeeecccCCC-CCCCCCCCCCcccccCCCCchhh
Q 004904 75 NITSQPVV--------EVKDAEVSVGSETAKDVLDVDAKRNEKVENVVVQLDINSF-APGFGPGEHQERDIRGDNNENVA 145 (724)
Q Consensus 75 ~~~~ds~~--------~~~~a~v~~~~~t~~~~~~~~~~~~~~~~~vv~~~d~~~~-~~~~~~~~~k~~~~~~~~~~~~s 145 (724)
-..+.+-. .-+|+++. .. + .+++..+....-+.+..++. .+-..|-+ .+.+
T Consensus 80 ~~~~~s~~~~~~rtes~~~d~~~~-~~-----p---~~~~~~~~dva~~~t~~~p~~~pp~~n~s-----------~ses 139 (718)
T KOG2416|consen 80 QTTPVSPVEAAFRTESTPVDAEKT-PE-----P---TQTKITTEDVAGVETTPAPVFSPPEVNAS-----------PSES 139 (718)
T ss_pred ccCCCCccccccccccCCCCcCCC-CC-----C---cccccccccccccccccCcccCCcccccC-----------cccc
Confidence 21222111 11222221 00 0 01111111111111111110 00000000 1112
Q ss_pred hhcccccccccccCCCCCCccCccccccceeeeecceeccceeeeeeecCCccccchhhhhhhhccccccCCCCcCCCCC
Q 004904 146 ALGQEKFQEGDMTGSINPARADDELGLQATTVETSTKLTENVVTEVALSGHTTVTESVVTEVAMSGQELQNSGTHGENVN 225 (724)
Q Consensus 146 ~~~qe~~~~~~~~g~~~~~~~~~~~~~~~~~~~t~~~~~~~v~~ev~~~~~~~~~d~~~~e~~~~~~~~~~~~~~~~~~~ 225 (724)
..+.+.-+.++..|....+. .-|.+. |. .-++.++..
T Consensus 140 r~~~~~~~a~dd~~~dsp~v---------------------------------srd~~v-E~---------ke~ks~qev 176 (718)
T KOG2416|consen 140 REDEKEKDARDDAGLDSPVV---------------------------------SRDAQV-ES---------KEHKSEQEV 176 (718)
T ss_pred hhhhhhhhhhhhhccccccc---------------------------------cccchh-hh---------ccccccccC
Confidence 22222224444444422211 111111 11 113344444
Q ss_pred ccccccccCCCcccccCCCCCCCCccccccCCCCCCccccccccCcceeecccccCcccccccccccccccccccccccc
Q 004904 226 TNIQLENEDSKPQLENEGLKTPHREDVLDATAPENQVSEVSAILGSQVKSDSISTDSISINEKIELKDNIIADNVKLELD 305 (724)
Q Consensus 226 ~~~~l~~~~~k~~l~n~~~k~~~~~~~~~~s~~~nqvsev~p~lg~qvk~~sistd~vsin~k~elkd~~~a~nv~le~~ 305 (724)
+...++....+ -|.+.++..++.+.||++++.++-|+-|++++|+.++++.|.+.+++++-+|+|+.|.+.
T Consensus 177 pTsgvd~~~q~---------ep~ee~~~~sss~~~~e~~~i~s~~l~vqs~~~~Er~~~~~~eAe~~etk~a~~~q~kq~ 247 (718)
T KOG2416|consen 177 PTSGVDGGDQK---------EPPEEAVLESSSMYNQESEVIPSTGLEVQSDCISERSVSNNEEAELKETKIADNVQLKQN 247 (718)
T ss_pred CCCCCcccccc---------cchhhhccCCCchhhhhccCCccchhhhhhhhhhcccccccccccccCCccccccchhhc
Confidence 44445444433 345788889999999999999999999999999999999999999999999999999998
Q ss_pred cccCCcccCCCCCcccCCCCCcCCCCCchhhhcccccccCccchhhhccccccCCCCcCCcccccCCCCCC--CCcccch
Q 004904 306 VNKSGMVEPSSGNVTAVGGESHPMDVEDPLEEKASVDEKDDNIATIAVMGKKIDSVDMGYSEKLNLDRSSG--DDSMEDD 383 (724)
Q Consensus 306 ~~k~~~v~pss~~~~~~g~~~~~~d~~~~~e~~~s~~~~~~~~~~~~~~~~~~~~~d~g~~eklnldrssg--d~smeed 383 (724)
..+++- ++. +-++.|.|+.+.+++.++.+.. .-.-....|-+.......|.++++|++|..| |.||| +
T Consensus 248 q~s~~e--est-----~~he~~de~pE~~~e~~ad~~d--~pdP~k~s~v~~t~g~Pa~~se~~~rkrkw~~~d~s~e-~ 317 (718)
T KOG2416|consen 248 QNSFQE--EST-----VVHESHDEDPEEPLEQKADVGD--GPDPAKASMVKETNGIPAGDSEKLNRKRKWGEKDESME-D 317 (718)
T ss_pred cccccC--Ccc-----cccccCCCCcccCCCcccccCC--CCchhhhhhhccCCCCCCcccccccccccccccccccc-c
Confidence 765554 554 4469999999999999999984 4444778888999999999999999999999 99999 8
Q ss_pred hhhhhcccCCCCchhhhcccccCCcccccccCCcccccCCccccccccccCCCCCCCCchhhccc--cccccccCCCchh
Q 004904 384 VLESKQIDSKDSSDEVRNRTEKNDVPVVKEESPVDVVGDGLSADIKHADVDDKSCPVIPAEKRKI--NDQEAVGNNEPSK 461 (724)
Q Consensus 384 ~~e~kq~ds~~~~d~~~~~~e~~~~~~~ke~~~~~~v~~~~s~~~~~~~~~~~~~~~~~~ekrk~--~~~~~v~n~ep~k 461 (724)
-++.+||....-.|- +-..+. .++|+ .++-...+.++.+...+. ..-+.++++ ++|+.+|++++.|
T Consensus 318 ~pe~~~ieT~slkd~----iadie~-~~~ee---~V~le~ageeE~e~n~D~----~~rs~~p~~paegqe~~~rdeeek 385 (718)
T KOG2416|consen 318 EPETKQIETISLKDK----IADIEM-LSKEE---SVALEDAGEEESEENKDH----LVRSDKPKLPAEGQEAVGRDEEEK 385 (718)
T ss_pred CCccccccchhhccc----chhhhc-cCcch---hhhhhccccccCCccccc----hhhccCCCCCccccccccccchhh
Confidence 899999876543332 222212 23332 222222233333322222 112333333 7899999999999
Q ss_pred hhhhcccCCCCCCCccCCC---CCCCCCCCccccccccccCCCCCCCCCCCccccCCCCCCCCCceEeecccCCCCCHHH
Q 004904 462 RQRRWNSESLKLPEQQSTT---PSSTPRDTLQPSMKRNFSRSDSAVSDDTPKERIVPPSPKSPTNSLRIDHFVRPFTLRA 538 (724)
Q Consensus 462 rqrrwn~~~~k~~~~~~~~---~~~tp~d~~~~~lrrs~sR~~S~~~~d~p~er~VpPs~hPpT~aLyI~NLvRPFT~~q 538 (724)
+| +||+...+++..+-.. |+.++.+. -+...+++....++.+ +.+|..+|+++++|++|||+||+||||+.|
T Consensus 386 e~-~~~~~~~~~~a~~e~v~a~ppa~~e~k---~~~v~~s~~~rsvS~~-~~~RvpSPsR~~~SnvlhI~nLvRPFTlgQ 460 (718)
T KOG2416|consen 386 ER-RWNSNSIKVPAAQETVSATPPATPESK---GLKVDFSRSDRSVSED-PKERVPSPSRKEPSNVLHIDNLVRPFTLGQ 460 (718)
T ss_pred hc-CcccccCCCchhhccccCCCCCCcccc---ccccccchhhhhhccC-ccccCCCCCCCCccceEeeecccccchHHH
Confidence 86 6999999999998876 55565543 3777788887777654 778989999999999999999999999999
Q ss_pred HHHHhcCcC-CeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecChhhhhhhccCCC---CCCC
Q 004904 539 VQELLGKTG-TFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVDPQEVKMRTEAPP---PSPA 614 (724)
Q Consensus 539 LkElLsetG-tI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~pEeV~~~Ie~e~---~~~a 614 (724)
|++||+++| .|+.||||+|||||||+|+|+++|.++|.||||++||++ |+|.|.+||...++|..++..-. +..+
T Consensus 461 LkelL~rtgg~Vee~WmDkIKShCyV~yss~eEA~atr~AlhnV~WP~s-NPK~L~adf~~~deld~hr~~led~~ae~~ 539 (718)
T KOG2416|consen 461 LKELLGRTGGNVEEFWMDKIKSHCYVSYSSVEEAAATREALHNVQWPPS-NPKHLIADFVRADELDKHRNGLEDLEAELP 539 (718)
T ss_pred HHHHHhhccCchHHHHHHHhhcceeEecccHHHHHHHHHHHhccccCCC-CCceeEeeecchhHHHHHhccchhcccccc
Confidence 999999765 566999999999999999999999999999999999999 57789999999999997653321 1111
Q ss_pred CC------CCCCCCCCCCCCCCCCCCCCCCCccccccCCCC--CCC--------------------------CCCCCCCC
Q 004904 615 AP------VSTGSAAPAPAAAPTSQPQPSPRQPAARQQLPP--PPT--------------------------LPPPPPIS 660 (724)
Q Consensus 615 A~------~s~~~t~pa~ap~p~~q~epsp~~~~~R~q~p~--p~s--------------------------lPppp~~~ 660 (724)
.. ...++.+...++.++.+. |.+.....|.+..+ ++. --.||.-+
T Consensus 540 ~e~~~~~~~~g~~~~~~qp~~q~v~r-p~~~~d~~rk~pra~~~h~~eR~r~~~~r~d~rs~e~er~~~r~k~~~~p~sR 618 (718)
T KOG2416|consen 540 KEGGGSQSSIGGPQPQHQPQAQTVSR-PNPPTDLPRKPPRAKPPHVVERLRNKDQRKDERSDEKERDRKRKKSETPPFSR 618 (718)
T ss_pred cccCcccccccCCcccCCCCCCCCCC-CCCccccCCCCcccCchhhhhhhhhhhhhhhhhhhhhhhhhhhhhcccCcccc
Confidence 00 001222221111111000 00000000000000 000 00011000
Q ss_pred CCcccccccC-------CCCCCCCCC--CCCCCccchhhhhhhhcCCCceeeeeCCHHHHHHHHHHhhhcc
Q 004904 661 NQAPARERFT-------LPPPPPLPE--KLDPPIVTLDDLFRKTKATPRIYYLPLSEEQVAAKLEARSKSS 722 (724)
Q Consensus 661 ~~p~~REr~~-------~p~ppp~p~--k~EpP~ktLDdLFRKTka~P~IYyLPLSeeqVa~Klaa~~k~~ 722 (724)
--.-.|||.. -+-+|+.++ +.|||+++||||||||+|.|||||||||++||++|+|++++..
T Consensus 619 gr~r~rerl~Rn~~a~sr~~~p~skek~EeEpPiklLDdLFkKTka~PcIYyLPLTeEqIAaKEAer~~k~ 689 (718)
T KOG2416|consen 619 GRGRMRERLPRNEEAESRPEPPPSKEKEEEEPPIKLLDDLFKKTKAIPCIYYLPLTEEQIAAKEAERNNKG 689 (718)
T ss_pred cchhhhhhccchhhhhccCCCCCccchhhcCcchhHHHHHHHhcccCCceeeecCCHHHHHHHHHHHhhhh
Confidence 0001122211 021333333 4679999999999999999999999999999999999987653
No 2
>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=98.93 E-value=3.1e-09 Score=82.78 Aligned_cols=65 Identities=18% Similarity=0.274 Sum_probs=60.3
Q ss_pred EeecccCCCCCHHHHHHHhcCcCCeeEEEec-----CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 525 LRIDHFVRPFTLRAVQELLGKTGTFTSFWMD-----HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 525 LyI~NLvRPFT~~qLkElLsetGtI~~FWLD-----~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
|||+||-.-+|..+|+++|+++|.|..++|- +-+++|||+|.+.++|.+|.+.|||..| +++.|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~----~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKI----NGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEE----TTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEE----CccCcC
Confidence 7999999999999999999999999988884 4789999999999999999999999999 777664
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=98.85 E-value=1.8e-08 Score=94.28 Aligned_cols=85 Identities=9% Similarity=0.119 Sum_probs=71.5
Q ss_pred CccccCCCCCCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCc
Q 004904 509 PKERIVPPSPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQ 582 (724)
Q Consensus 509 p~er~VpPs~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~v 582 (724)
|....+...+. .++.|||+||-.-+|..+|+++|.++|.|.++.| ++.|.||||+|.+.++|.+|...|+|..
T Consensus 22 ~~~~~~~~~~~-~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~ 100 (144)
T PLN03134 22 PVTSMLGSLRL-MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKE 100 (144)
T ss_pred ccccccccccC-CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCE
Confidence 33343444333 4557999999999999999999999999987666 3568999999999999999999999998
Q ss_pred CCCCCCCCcEEEeecC
Q 004904 583 WPPNNGGRPLVAEFVD 598 (724)
Q Consensus 583 WP~en~gR~LrVDFv~ 598 (724)
. .++.|+|++..
T Consensus 101 i----~Gr~l~V~~a~ 112 (144)
T PLN03134 101 L----NGRHIRVNPAN 112 (144)
T ss_pred E----CCEEEEEEeCC
Confidence 8 78899999875
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=98.85 E-value=1e-08 Score=103.73 Aligned_cols=76 Identities=17% Similarity=0.191 Sum_probs=68.4
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe--cC----ccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM--DH----IKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL--D~----IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
..+..|||+||-.-.+...|+++|+.+|.|.+..| |. -|++|||+|.+.++|.+|..+|||..+ +||.|+
T Consensus 267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~----~gr~i~ 342 (352)
T TIGR01661 267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTL----GNRVLQ 342 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEE----CCeEEE
Confidence 44567999999999999999999999999985544 43 699999999999999999999999999 899999
Q ss_pred EeecCh
Q 004904 594 AEFVDP 599 (724)
Q Consensus 594 VDFv~p 599 (724)
|+|.+.
T Consensus 343 V~~~~~ 348 (352)
T TIGR01661 343 VSFKTN 348 (352)
T ss_pred EEEccC
Confidence 999875
No 5
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=98.82 E-value=1.2e-08 Score=79.56 Aligned_cols=55 Identities=27% Similarity=0.444 Sum_probs=50.8
Q ss_pred HHHHhcCcCCeeEEEecCcc-ceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeec
Q 004904 539 VQELLGKTGTFTSFWMDHIK-THCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFV 597 (724)
Q Consensus 539 LkElLsetGtI~~FWLD~IK-SHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv 597 (724)
|+++|+++|.|..+.|..-+ ++|||+|.+.++|..|...|||..| .|+.|+|+|+
T Consensus 1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~----~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQF----NGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEE----TTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEE----CCcEEEEEEC
Confidence 67899999999999997777 9999999999999999999999999 8899999985
No 6
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.67 E-value=4.7e-08 Score=104.04 Aligned_cols=81 Identities=17% Similarity=0.283 Sum_probs=71.4
Q ss_pred CCCCceEeecccCCCCC----------HHHHHHHhcCcCCeeEEEecCc---------cceEEEEecCHHHHHHHHHHhc
Q 004904 519 KSPTNSLRIDHFVRPFT----------LRAVQELLGKTGTFTSFWMDHI---------KTHCYVTYSSVEEAIETRNALY 579 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT----------~~qLkElLsetGtI~~FWLD~I---------KSHCYVtFsSVEeA~aARsALh 579 (724)
..+|.+|+|.|++.+-. ...|+++|+.||.|..++|.+. +++|||.|.++++|.+|..+||
T Consensus 406 ~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~ln 485 (509)
T TIGR01642 406 GKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMN 485 (509)
T ss_pred CCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcC
Confidence 46789999999987632 3678999999999999999653 4789999999999999999999
Q ss_pred CCcCCCCCCCCcEEEeecChhhhh
Q 004904 580 NIQWPPNNGGRPLVAEFVDPQEVK 603 (724)
Q Consensus 580 G~vWP~en~gR~LrVDFv~pEeV~ 603 (724)
|..+ +||.|.+.|.+++.+.
T Consensus 486 Gr~~----~gr~v~~~~~~~~~~~ 505 (509)
T TIGR01642 486 GRKF----NDRVVVAAFYGEDCYK 505 (509)
T ss_pred CCEE----CCeEEEEEEeCHHHhh
Confidence 9999 8999999999998764
No 7
>smart00362 RRM_2 RNA recognition motif.
Probab=98.63 E-value=1.4e-07 Score=71.19 Aligned_cols=67 Identities=28% Similarity=0.402 Sum_probs=59.1
Q ss_pred eEeecccCCCCCHHHHHHHhcCcCCeeEEEecCc----cceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 524 SLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHI----KTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 524 aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~I----KSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
+|||+||-.-++..+|+++|.++|.|..++|-.- +++|||.|.+.++|.+|...|+|..| .++.|.|
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~----~~~~i~v 71 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKL----GGRPLRV 71 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEE----CCEEEee
Confidence 4899999999999999999999999987766444 59999999999999999999999998 5666665
No 8
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=98.62 E-value=1e-07 Score=96.53 Aligned_cols=75 Identities=17% Similarity=0.324 Sum_probs=67.9
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe--c----CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM--D----HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL--D----~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
+.+.|||+||-.-+|..+|+++|+++|.|.+++| | +-|+||||.|.+.++|.+|...|+|..+ .++.|+|
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l----~g~~i~v 77 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRL----QNKTIKV 77 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEE----CCeeEEE
Confidence 4689999999999999999999999999998888 3 4568999999999999999999999988 7888999
Q ss_pred eecCh
Q 004904 595 EFVDP 599 (724)
Q Consensus 595 DFv~p 599 (724)
.|..+
T Consensus 78 ~~a~~ 82 (352)
T TIGR01661 78 SYARP 82 (352)
T ss_pred Eeecc
Confidence 88743
No 9
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=98.58 E-value=1.7e-07 Score=98.67 Aligned_cols=76 Identities=14% Similarity=0.284 Sum_probs=69.6
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEec------CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcE
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMD------HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPL 592 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD------~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~L 592 (724)
+|.+++|||+||-.-+|..+|+++|..+|.|..+.|- +-|++|||+|.+.++|.+|..+|+|..+ .|+.|
T Consensus 183 ~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i----~g~~i 258 (457)
T TIGR01622 183 IPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFEL----AGRPI 258 (457)
T ss_pred CCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEE----CCEEE
Confidence 4568999999999999999999999999999877763 5689999999999999999999999988 78999
Q ss_pred EEeecC
Q 004904 593 VAEFVD 598 (724)
Q Consensus 593 rVDFv~ 598 (724)
+|.|+.
T Consensus 259 ~v~~a~ 264 (457)
T TIGR01622 259 KVGYAQ 264 (457)
T ss_pred EEEEcc
Confidence 999976
No 10
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=98.54 E-value=2.5e-07 Score=73.75 Aligned_cols=65 Identities=18% Similarity=0.302 Sum_probs=56.5
Q ss_pred EeecccCCCCCHHHHHHHhcCcCCeeEEEe--c---CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 525 LRIDHFVRPFTLRAVQELLGKTGTFTSFWM--D---HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 525 LyI~NLvRPFT~~qLkElLsetGtI~~FWL--D---~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
|||+||-+-.+..+|+++|..+|.|..+.| + +.|++|||.|.|.++|.+|...+||..| .|+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~----~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEI----DGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEE----TTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEE----CCEEcC
Confidence 799999999999999999999999987777 2 2589999999999999999999999999 777653
No 11
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=98.51 E-value=6e-07 Score=68.12 Aligned_cols=69 Identities=29% Similarity=0.422 Sum_probs=61.3
Q ss_pred eEeecccCCCCCHHHHHHHhcCcCCeeEEEecCc-----cceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 524 SLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHI-----KTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 524 aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~I-----KSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
+|+|+||--..+...|+++|..+|.|..++|-.- +++|||.|.+.++|..|...|+|..+ .++.+.|.|
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~----~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKEL----GGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeE----CCeEEEEeC
Confidence 4899999999999999999999999998888543 78999999999999999999999987 577787764
No 12
>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=98.50 E-value=4.1e-07 Score=96.22 Aligned_cols=77 Identities=16% Similarity=0.252 Sum_probs=68.6
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe--c----CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcE
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM--D----HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPL 592 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL--D----~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~L 592 (724)
.+..+.|||+||-.-+|..+|+++|..+|.|++++| | +-|++|||+|.+.++|.+|...|+|... .++.|
T Consensus 104 ~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l----~gr~i 179 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITV----RNKRL 179 (346)
T ss_pred CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCcc----CCcee
Confidence 346789999999999999999999999999998888 3 3468999999999999999999999988 67889
Q ss_pred EEeecCh
Q 004904 593 VAEFVDP 599 (724)
Q Consensus 593 rVDFv~p 599 (724)
+|.|..+
T Consensus 180 ~V~~a~p 186 (346)
T TIGR01659 180 KVSYARP 186 (346)
T ss_pred eeecccc
Confidence 9988654
No 13
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=98.48 E-value=2.6e-07 Score=88.17 Aligned_cols=75 Identities=20% Similarity=0.347 Sum_probs=68.4
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe--cCcc----ceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM--DHIK----THCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL--D~IK----SHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
..+++|||+||.+-.|+.|+.|||+..|.|...-| |+.| +||||.|.+-++|..|..-|+|... ..|+++
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrL----ddr~ir 109 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRL----DDRPIR 109 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcc----ccccee
Confidence 37899999999999999999999999999998888 5554 8999999999999999999999999 778999
Q ss_pred EeecC
Q 004904 594 AEFVD 598 (724)
Q Consensus 594 VDFv~ 598 (724)
+|+-.
T Consensus 110 ~D~D~ 114 (153)
T KOG0121|consen 110 IDWDA 114 (153)
T ss_pred eeccc
Confidence 99743
No 14
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=98.46 E-value=7e-07 Score=94.15 Aligned_cols=84 Identities=26% Similarity=0.378 Sum_probs=75.4
Q ss_pred CCCCCceEeecccCCCCCH----------HHHHHHhcCcCCeeEEEec--CccceEEEEecCHHHHHHHHHHhcCCcCCC
Q 004904 518 PKSPTNSLRIDHFVRPFTL----------RAVQELLGKTGTFTSFWMD--HIKTHCYVTYSSVEEAIETRNALYNIQWPP 585 (724)
Q Consensus 518 ~hPpT~aLyI~NLvRPFT~----------~qLkElLsetGtI~~FWLD--~IKSHCYVtFsSVEeA~aARsALhG~vWP~ 585 (724)
...++..|+|.||..|.+. ..|++.+++||.|+.+++. ...+++||.|.++++|.+|..+|||..|
T Consensus 358 ~~~~~~~l~l~n~~~~~~~~~~~~~~~~~~dv~~e~~k~G~v~~v~v~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~f-- 435 (457)
T TIGR01622 358 NNLATTCLVLSNMFDPATEEEPNFDNEILDDVKEECSKYGGVVHIYVDTKNSAGKIYLKFSSVDAALAAFQALNGRYF-- 435 (457)
T ss_pred CCCCCcEEEEecCCCCcccccchHHHHHHHHHHHHHHhcCCeeEEEEeCCCCceeEEEEECCHHHHHHHHHHhcCccc--
Confidence 4578999999999999884 5788889999999988884 6679999999999999999999999999
Q ss_pred CCCCCcEEEeecChhhhhhh
Q 004904 586 NNGGRPLVAEFVDPQEVKMR 605 (724)
Q Consensus 586 en~gR~LrVDFv~pEeV~~~ 605 (724)
+||.|.+.|++.+.+...
T Consensus 436 --~gr~i~~~~~~~~~~~~~ 453 (457)
T TIGR01622 436 --GGKMITAAFVVNDVYDMS 453 (457)
T ss_pred --CCeEEEEEEEcHHHHHhh
Confidence 999999999999987653
No 15
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=98.45 E-value=5.7e-07 Score=98.07 Aligned_cols=80 Identities=23% Similarity=0.309 Sum_probs=71.6
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe-----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM-----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL-----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
...++.|||+||-.-+|...|+++|+++|.|.+++| ++-|++|||.|++.++|.+|...|||..+ +||.|+
T Consensus 282 ~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~----~gk~l~ 357 (562)
T TIGR01628 282 KAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRML----GGKPLY 357 (562)
T ss_pred ccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCee----CCceeE
Confidence 345678999999999999999999999999997776 35689999999999999999999999888 899999
Q ss_pred EeecChhhh
Q 004904 594 AEFVDPQEV 602 (724)
Q Consensus 594 VDFv~pEeV 602 (724)
|.|+...+.
T Consensus 358 V~~a~~k~~ 366 (562)
T TIGR01628 358 VALAQRKEQ 366 (562)
T ss_pred EEeccCcHH
Confidence 999987553
No 16
>smart00360 RRM RNA recognition motif.
Probab=98.45 E-value=7.1e-07 Score=66.98 Aligned_cols=64 Identities=27% Similarity=0.372 Sum_probs=55.9
Q ss_pred ecccCCCCCHHHHHHHhcCcCCeeEEEecCc------cceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 527 IDHFVRPFTLRAVQELLGKTGTFTSFWMDHI------KTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 527 I~NLvRPFT~~qLkElLsetGtI~~FWLD~I------KSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
|+||-.-++..+|+++|.++|.|..++|-.- +++|||+|.+.++|.+|...|||..+ .++.|+|
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~----~~~~~~v 70 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKEL----DGRPLKV 70 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCee----CCcEEEe
Confidence 5788888999999999999999998887433 56999999999999999999999988 5666765
No 17
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.45 E-value=4.9e-07 Score=98.03 Aligned_cols=77 Identities=19% Similarity=0.201 Sum_probs=69.9
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHh--cCCcCCCCCCCCcEEEeecC
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNAL--YNIQWPPNNGGRPLVAEFVD 598 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsAL--hG~vWP~en~gR~LrVDFv~ 598 (724)
||++|||+||-.-.|..+|+++|..+|.|.++.|-+-|++|||.|.+.++|.+|.+.| +|..+ .|++|+|.|+.
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~k~~afVef~~~e~A~~Ai~~~~~~~~~l----~g~~l~v~~s~ 76 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPGKRQALVEFEDEESAKACVNFATSVPIYI----RGQPAFFNYST 76 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECCCCEEEEEeCchHHHHHHHHHhhcCCceE----cCeEEEEEecC
Confidence 6899999999999999999999999999999999778899999999999999999986 56666 78999999987
Q ss_pred hhh
Q 004904 599 PQE 601 (724)
Q Consensus 599 pEe 601 (724)
..+
T Consensus 77 ~~~ 79 (481)
T TIGR01649 77 SQE 79 (481)
T ss_pred Ccc
Confidence 554
No 18
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.45 E-value=6.4e-07 Score=95.50 Aligned_cols=75 Identities=16% Similarity=0.148 Sum_probs=68.6
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
..+.|||+||-.-+|..+|+++|..+|.|..|.| +.-|++|||.|.+.+.|..|..+|+|..+ .++.|.|
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~----~~~~l~v 369 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDT----GDNKLHV 369 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEE----CCeEEEE
Confidence 5678999999999999999999999999998887 34689999999999999999999999999 7888999
Q ss_pred eecCh
Q 004904 595 EFVDP 599 (724)
Q Consensus 595 DFv~p 599 (724)
.|+..
T Consensus 370 ~~a~~ 374 (509)
T TIGR01642 370 QRACV 374 (509)
T ss_pred EECcc
Confidence 99753
No 19
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.43 E-value=7.8e-07 Score=96.53 Aligned_cols=80 Identities=15% Similarity=0.133 Sum_probs=70.8
Q ss_pred CCCCceEeecccCC-CCCHHHHHHHhcCcCCeeEEEecC-ccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 519 KSPTNSLRIDHFVR-PFTLRAVQELLGKTGTFTSFWMDH-IKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 519 hPpT~aLyI~NLvR-PFT~~qLkElLsetGtI~~FWLD~-IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
.+++++|||+||-. -+|.+.|++||+.||.|..+-|-. -|++|||+|.+.++|.+|...|||..| .|+.|+|.|
T Consensus 272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l----~g~~l~v~~ 347 (481)
T TIGR01649 272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKL----FGKPLRVCP 347 (481)
T ss_pred CCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEE----CCceEEEEE
Confidence 57899999999997 699999999999999999776522 379999999999999999999999999 789999999
Q ss_pred cChhhh
Q 004904 597 VDPQEV 602 (724)
Q Consensus 597 v~pEeV 602 (724)
+..+.+
T Consensus 348 s~~~~~ 353 (481)
T TIGR01649 348 SKQQNV 353 (481)
T ss_pred cccccc
Confidence 865543
No 20
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.43 E-value=1.2e-06 Score=81.46 Aligned_cols=87 Identities=18% Similarity=0.279 Sum_probs=78.3
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecC---ccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDH---IKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~---IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
-.++.|||+||-+-+|.+..-++|+++|+|...+|+. .|+.+||.|+.+.+|.+|..-|.|-.. .++.|+|=|
T Consensus 16 evnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~----~~ryl~vly 91 (124)
T KOG0114|consen 16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNV----DNRYLVVLY 91 (124)
T ss_pred hhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhccccc----CCceEEEEe
Confidence 4689999999999999999999999999999999965 579999999999999999999999988 789999999
Q ss_pred cChhhhhhhccCCC
Q 004904 597 VDPQEVKMRTEAPP 610 (724)
Q Consensus 597 v~pEeV~~~Ie~e~ 610 (724)
-.+++.....+...
T Consensus 92 yq~~~~~~~~~~~k 105 (124)
T KOG0114|consen 92 YQPEDAFKLMDSRK 105 (124)
T ss_pred cCHHHHHHHHHhHH
Confidence 99988776655433
No 21
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=98.39 E-value=1.2e-06 Score=79.45 Aligned_cols=74 Identities=23% Similarity=0.349 Sum_probs=69.3
Q ss_pred CceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEe
Q 004904 522 TNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAE 595 (724)
Q Consensus 522 T~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVD 595 (724)
.++|||+||-.-+|..+|+++|.++|.|.++.| ...|++|||.|.+.+.|..|...|+|..| .++.|+|+
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~----~~~~~~v~ 190 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKEL----EGRPLRVQ 190 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeE----CCceeEee
Confidence 799999999999999999999999999987776 45679999999999999999999999999 89999999
Q ss_pred ecCh
Q 004904 596 FVDP 599 (724)
Q Consensus 596 Fv~p 599 (724)
+..+
T Consensus 191 ~~~~ 194 (306)
T COG0724 191 KAQP 194 (306)
T ss_pred cccc
Confidence 9876
No 22
>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=98.38 E-value=1.2e-06 Score=92.66 Aligned_cols=76 Identities=24% Similarity=0.366 Sum_probs=66.1
Q ss_pred CceEeecccCCCCCHHHHHHHhcCcCCeeEEEe--c----CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEe
Q 004904 522 TNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM--D----HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAE 595 (724)
Q Consensus 522 T~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL--D----~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVD 595 (724)
...|||+||-.-+|..+|+++|+++|.|+.+.| | +.|++|||+|.+.++|.+|..+|||..+.- ..++|+|.
T Consensus 193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g--~~~~l~V~ 270 (346)
T TIGR01659 193 DTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEG--GSQPLTVR 270 (346)
T ss_pred cceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCC--CceeEEEE
Confidence 457999999999999999999999999987666 3 456899999999999999999999999833 24689999
Q ss_pred ecCh
Q 004904 596 FVDP 599 (724)
Q Consensus 596 Fv~p 599 (724)
|+..
T Consensus 271 ~a~~ 274 (346)
T TIGR01659 271 LAEE 274 (346)
T ss_pred ECCc
Confidence 8875
No 23
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=98.38 E-value=8.4e-07 Score=96.79 Aligned_cols=72 Identities=18% Similarity=0.250 Sum_probs=65.1
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEe--c----CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM--D----HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL--D----~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
.+|||+||-..+|+.+|+++|+++|.|.++|| | +-+++|||.|.+.++|.+|.+.||+..+ .++.|+|.|
T Consensus 1 ~sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i----~gk~i~i~~ 76 (562)
T TIGR01628 1 ASLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRL----GGKPIRIMW 76 (562)
T ss_pred CeEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEE----CCeeEEeec
Confidence 37999999999999999999999999998877 3 3468999999999999999999999977 688999988
Q ss_pred cC
Q 004904 597 VD 598 (724)
Q Consensus 597 v~ 598 (724)
+.
T Consensus 77 s~ 78 (562)
T TIGR01628 77 SQ 78 (562)
T ss_pred cc
Confidence 75
No 24
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=98.36 E-value=5.1e-07 Score=67.47 Aligned_cols=35 Identities=49% Similarity=0.714 Sum_probs=32.1
Q ss_pred CcccchhhHHHHHHHcccccCCchHHHHHHHHHHH
Q 004904 13 IDQWKVTELKEELKRRKLKSSGKKDDLIRLLDQAI 47 (724)
Q Consensus 13 ~~~~kV~elk~el~~r~L~t~GlK~dL~~rL~~al 47 (724)
+..|+|.|||++|+++||.+.|-|++||+||.+++
T Consensus 1 l~~l~v~eLk~~l~~~gL~~~G~K~~Li~Rl~~~l 35 (35)
T PF02037_consen 1 LSKLTVAELKEELKERGLSTSGKKAELIERLKEHL 35 (35)
T ss_dssp TTTSHHHHHHHHHHHTTS-STSSHHHHHHHHHHHH
T ss_pred CCcCcHHHHHHHHHHCCCCCCCCHHHHHHHHHHhC
Confidence 46899999999999999999999999999999875
No 25
>PLN03120 nucleic acid binding protein; Provisional
Probab=98.36 E-value=1.5e-06 Score=90.00 Aligned_cols=73 Identities=14% Similarity=0.179 Sum_probs=66.2
Q ss_pred CceEeecccCCCCCHHHHHHHhcCcCCeeEEEe--cC-ccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecC
Q 004904 522 TNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM--DH-IKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVD 598 (724)
Q Consensus 522 T~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL--D~-IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~ 598 (724)
.++|||+||-.-.|..+|+++|+.+|.|.+++| |+ -+++|||+|.+.++|..|. .|+|..+ .++.|+|....
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~Al-lLnG~~l----~gr~V~Vt~a~ 78 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETAL-LLSGATI----VDQSVTITPAE 78 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHH-HhcCCee----CCceEEEEecc
Confidence 579999999999999999999999999999999 33 4689999999999999999 5999999 89999998865
Q ss_pred h
Q 004904 599 P 599 (724)
Q Consensus 599 p 599 (724)
.
T Consensus 79 ~ 79 (260)
T PLN03120 79 D 79 (260)
T ss_pred C
Confidence 3
No 26
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=98.29 E-value=1.6e-06 Score=89.43 Aligned_cols=75 Identities=19% Similarity=0.331 Sum_probs=70.2
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
-+++|+|.||.--.++..|++||..+|.|.+.+| +.-|+|+||+|.|-+.|.+|++-|+|.-| ..=.|+|
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gy----d~LILrv 263 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGY----DNLILRV 263 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCccc----ceEEEEE
Confidence 5688999999999999999999999999999998 77899999999999999999999999999 5668999
Q ss_pred eecCh
Q 004904 595 EFVDP 599 (724)
Q Consensus 595 DFv~p 599 (724)
+|+.|
T Consensus 264 EwskP 268 (270)
T KOG0122|consen 264 EWSKP 268 (270)
T ss_pred EecCC
Confidence 99876
No 27
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.28 E-value=2.2e-06 Score=96.57 Aligned_cols=75 Identities=13% Similarity=0.275 Sum_probs=69.2
Q ss_pred CceEeecccCCCCCHHHHHHHhcCc--CCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecCh
Q 004904 522 TNSLRIDHFVRPFTLRAVQELLGKT--GTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVDP 599 (724)
Q Consensus 522 T~aLyI~NLvRPFT~~qLkElLset--GtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~p 599 (724)
..+|||+||..-+|.++|+++|+++ |.|+++.+ +|.||||.|.+.++|.+|..+|||..+ .++.|+|+|+.+
T Consensus 233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~--~rgfAFVeF~s~e~A~kAi~~lnG~~i----~Gr~I~V~~Akp 306 (578)
T TIGR01648 233 VKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKK--IRDYAFVHFEDREDAVKAMDELNGKEL----EGSEIEVTLAKP 306 (578)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEe--ecCeEEEEeCCHHHHHHHHHHhCCCEE----CCEEEEEEEccC
Confidence 4789999999999999999999999 99998765 689999999999999999999999999 889999999987
Q ss_pred hhh
Q 004904 600 QEV 602 (724)
Q Consensus 600 EeV 602 (724)
..-
T Consensus 307 ~~~ 309 (578)
T TIGR01648 307 VDK 309 (578)
T ss_pred CCc
Confidence 543
No 28
>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=98.28 E-value=2.1e-06 Score=97.37 Aligned_cols=74 Identities=11% Similarity=0.165 Sum_probs=68.1
Q ss_pred CceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEe
Q 004904 522 TNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAE 595 (724)
Q Consensus 522 T~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVD 595 (724)
.+.|||+||-.-++..+|+++|+.||.|.++.| ++-|+||||.|.+.++|.+|..+|||..| +|+.|+|.
T Consensus 204 ~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~el----gGr~LrV~ 279 (612)
T TIGR01645 204 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDL----GGQYLRVG 279 (612)
T ss_pred cceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCee----CCeEEEEE
Confidence 468999999999999999999999999998777 34689999999999999999999999999 89999999
Q ss_pred ecCh
Q 004904 596 FVDP 599 (724)
Q Consensus 596 Fv~p 599 (724)
++-.
T Consensus 280 kAi~ 283 (612)
T TIGR01645 280 KCVT 283 (612)
T ss_pred ecCC
Confidence 8763
No 29
>PLN03213 repressor of silencing 3; Provisional
Probab=98.27 E-value=1.8e-06 Score=95.58 Aligned_cols=78 Identities=12% Similarity=0.180 Sum_probs=69.4
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe--cCccceEEEEecCH--HHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM--DHIKTHCYVTYSSV--EEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL--D~IKSHCYVtFsSV--EeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
.+-.|||+||.+-.|...|+.+|++||.|.++-| ..=|+|+||.|.+. .++.+|.++|+|..| .||.|+|.-
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEW----KGR~LKVNK 84 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVW----KGGRLRLEK 84 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCee----cCceeEEee
Confidence 4578999999999999999999999999998877 22389999999987 789999999999999 999999998
Q ss_pred cChhhh
Q 004904 597 VDPQEV 602 (724)
Q Consensus 597 v~pEeV 602 (724)
+-+-=+
T Consensus 85 AKP~YL 90 (759)
T PLN03213 85 AKEHYL 90 (759)
T ss_pred ccHHHH
Confidence 876533
No 30
>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=98.27 E-value=1.8e-06 Score=97.75 Aligned_cols=72 Identities=15% Similarity=0.167 Sum_probs=64.3
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
..+.|||+||-.-+|..+|+++|.++|.|.+++| ++-|+||||.|.+.++|.+|...|||..+ .||.|+|
T Consensus 106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i----~GR~IkV 181 (612)
T TIGR01645 106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQML----GGRNIKV 181 (612)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEE----ecceeee
Confidence 5678999999999999999999999999998887 35699999999999999999999999888 5666766
Q ss_pred ee
Q 004904 595 EF 596 (724)
Q Consensus 595 DF 596 (724)
.+
T Consensus 182 ~r 183 (612)
T TIGR01645 182 GR 183 (612)
T ss_pred cc
Confidence 43
No 31
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=98.11 E-value=4.1e-06 Score=89.22 Aligned_cols=74 Identities=16% Similarity=0.185 Sum_probs=66.8
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEe----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecC
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVD 598 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~ 598 (724)
+-|||.|+-|-|+..+|+.+|.++|.|.++=| -.=|+|+||||.+.++|.+||++|||++. .||.+-|.-.+
T Consensus 97 kRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~V----EGRkIEVn~AT 172 (376)
T KOG0125|consen 97 KRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVV----EGRKIEVNNAT 172 (376)
T ss_pred ceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhccee----eceEEEEeccc
Confidence 46999999999999999999999999987665 34499999999999999999999999999 78888888887
Q ss_pred hh
Q 004904 599 PQ 600 (724)
Q Consensus 599 pE 600 (724)
.-
T Consensus 173 ar 174 (376)
T KOG0125|consen 173 AR 174 (376)
T ss_pred hh
Confidence 65
No 32
>smart00361 RRM_1 RNA recognition motif.
Probab=97.99 E-value=1.6e-05 Score=65.41 Aligned_cols=54 Identities=19% Similarity=0.343 Sum_probs=46.5
Q ss_pred HHHHHHhc----CcCCeeEE---EecC------ccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 537 RAVQELLG----KTGTFTSF---WMDH------IKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 537 ~qLkElLs----etGtI~~F---WLD~------IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
..|+++|. .+|.|.++ +|++ .|++|||+|.+.++|.+|...|||..| .||.|++
T Consensus 3 ~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~----~gr~l~~ 69 (70)
T smart00361 3 EDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYF----DGRTVKA 69 (70)
T ss_pred hhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEE----CCEEEEe
Confidence 56788887 89999865 5643 589999999999999999999999999 8888875
No 33
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=97.94 E-value=8.8e-06 Score=89.09 Aligned_cols=82 Identities=23% Similarity=0.372 Sum_probs=73.1
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe----cCc-cceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM----DHI-KTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL----D~I-KSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
+.-+-|||+-|..-.|+..|+++|++||.|++.+| +++ |+++||+|++-|-|.+|..+|||.+==.. ..-+|+|
T Consensus 122 ~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeG-cs~PLVV 200 (510)
T KOG0144|consen 122 VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEG-CSQPLVV 200 (510)
T ss_pred ccchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeecc-CCCceEE
Confidence 45678999999999999999999999999999888 444 89999999999999999999999987555 4679999
Q ss_pred eecChhhh
Q 004904 595 EFVDPQEV 602 (724)
Q Consensus 595 DFv~pEeV 602 (724)
.|+++++=
T Consensus 201 kFADtqkd 208 (510)
T KOG0144|consen 201 KFADTQKD 208 (510)
T ss_pred EecccCCC
Confidence 99998753
No 34
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=97.92 E-value=1.1e-05 Score=59.96 Aligned_cols=35 Identities=46% Similarity=0.701 Sum_probs=32.1
Q ss_pred CcccchhhHHHHHHHcccccCCchHHHHHHHHHHH
Q 004904 13 IDQWKVTELKEELKRRKLKSSGKKDDLIRLLDQAI 47 (724)
Q Consensus 13 ~~~~kV~elk~el~~r~L~t~GlK~dL~~rL~~al 47 (724)
+..|+|.+||++|+.+||.+.|.|++|++||.+.+
T Consensus 1 ~~~l~~~~Lk~~l~~~gl~~~G~K~~Lv~Rl~~~~ 35 (35)
T smart00513 1 LAKLKVSELKDELKKRGLSTSGTKAELVDRLLEAL 35 (35)
T ss_pred CCcCcHHHHHHHHHHcCCCCCCCHHHHHHHHHHhC
Confidence 35789999999999999999999999999998753
No 35
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=97.92 E-value=0.0012 Score=75.05 Aligned_cols=78 Identities=17% Similarity=0.180 Sum_probs=65.7
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcE
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPL 592 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~L 592 (724)
.-..+-|+|.+|.--.....|+.||+.||.|++.-+ -..+-++|||++|.++|.+|.+-||-+.. .||.+
T Consensus 402 s~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTEL----HGrmI 477 (940)
T KOG4661|consen 402 STLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTEL----HGRMI 477 (940)
T ss_pred cccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhh----cceee
Confidence 456788999999999999999999999998875433 55677889999999999999999999888 78888
Q ss_pred EEeecChh
Q 004904 593 VAEFVDPQ 600 (724)
Q Consensus 593 rVDFv~pE 600 (724)
.|+-.-.|
T Consensus 478 SVEkaKNE 485 (940)
T KOG4661|consen 478 SVEKAKNE 485 (940)
T ss_pred eeeecccC
Confidence 77765444
No 36
>PLN03121 nucleic acid binding protein; Provisional
Probab=97.87 E-value=4.7e-05 Score=78.43 Aligned_cols=74 Identities=9% Similarity=0.064 Sum_probs=63.6
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEec---CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMD---HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD---~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
+-..+|||+||..-.|..+|+++|+.+|.|.+++|- .-+.+|||+|.+.++|..|. .|+|... .++++.|.-
T Consensus 3 ~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAl-lLnGa~l----~d~~I~It~ 77 (243)
T PLN03121 3 PGGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAV-LLSGATI----VDQRVCITR 77 (243)
T ss_pred CCceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHH-hcCCCee----CCceEEEEe
Confidence 345789999999999999999999999999999993 34579999999999998888 7999998 667777655
Q ss_pred cC
Q 004904 597 VD 598 (724)
Q Consensus 597 v~ 598 (724)
..
T Consensus 78 ~~ 79 (243)
T PLN03121 78 WG 79 (243)
T ss_pred Cc
Confidence 44
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=97.83 E-value=4.8e-05 Score=86.06 Aligned_cols=63 Identities=19% Similarity=0.241 Sum_probs=57.5
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe-----cCccceEEEEecCHHHHHHHHHHhcCCcC
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM-----DHIKTHCYVTYSSVEEAIETRNALYNIQW 583 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL-----D~IKSHCYVtFsSVEeA~aARsALhG~vW 583 (724)
..+.|||+||-+-++.++|+++|.++|.|..+.| ++-|++|||+|.+.++|.+|...|||...
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i 124 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEI 124 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCee
Confidence 4589999999999999999999999999987766 46689999999999999999999998766
No 38
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=97.83 E-value=4e-05 Score=84.23 Aligned_cols=82 Identities=15% Similarity=0.221 Sum_probs=76.1
Q ss_pred CCC-ceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcE
Q 004904 520 SPT-NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPL 592 (724)
Q Consensus 520 PpT-~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~L 592 (724)
|.. +.+||+|+-+-++..+|..+|++.|.|.+|.| |+.|+++|+.|.+.+.|.+|..-|+|... +||.|
T Consensus 15 ~~~~~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~----~gr~l 90 (435)
T KOG0108|consen 15 PGLSSSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEF----NGRKL 90 (435)
T ss_pred cccccceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCccc----CCceE
Confidence 444 99999999999999999999999999999999 89999999999999999999999999999 89999
Q ss_pred EEeecChhhhhhh
Q 004904 593 VAEFVDPQEVKMR 605 (724)
Q Consensus 593 rVDFv~pEeV~~~ 605 (724)
+++|....+-...
T Consensus 91 ~v~~~~~~~~~~~ 103 (435)
T KOG0108|consen 91 RVNYASNRKNAER 103 (435)
T ss_pred EeecccccchhHH
Confidence 9999988766543
No 39
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=97.80 E-value=3.3e-05 Score=78.74 Aligned_cols=75 Identities=15% Similarity=0.303 Sum_probs=69.2
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
--..+|.|+||..=-|.+.|+.+|.+||.|.++|| .+-++|+||.|-.-.+|..|.+||.|.+. .|+.|+
T Consensus 11 ~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~l----dgRelr 86 (256)
T KOG4207|consen 11 EGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVL----DGRELR 86 (256)
T ss_pred ccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceee----ccceee
Confidence 45679999999999999999999999999999999 45689999999999999999999999999 899998
Q ss_pred EeecC
Q 004904 594 AEFVD 598 (724)
Q Consensus 594 VDFv~ 598 (724)
|.|+-
T Consensus 87 Vq~ar 91 (256)
T KOG4207|consen 87 VQMAR 91 (256)
T ss_pred ehhhh
Confidence 87764
No 40
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=97.75 E-value=6.3e-05 Score=75.03 Aligned_cols=78 Identities=14% Similarity=0.255 Sum_probs=71.2
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCc-cceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeec
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHI-KTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFV 597 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~I-KSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv 597 (724)
++-.+-|||+||-.-.|...|...|..||.|-++||..- -+|+||.|.+.-+|.-|..+|+|..+ -+.-++|+++
T Consensus 7 ~~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~----cG~r~rVE~S 82 (195)
T KOG0107|consen 7 RNGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDI----CGSRIRVELS 82 (195)
T ss_pred cCCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccc----cCceEEEEee
Confidence 456788999999999999999999999999999999764 59999999999999999999999999 7888999998
Q ss_pred Chh
Q 004904 598 DPQ 600 (724)
Q Consensus 598 ~pE 600 (724)
.-.
T Consensus 83 ~G~ 85 (195)
T KOG0107|consen 83 TGR 85 (195)
T ss_pred cCC
Confidence 743
No 41
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.69 E-value=0.00011 Score=74.96 Aligned_cols=76 Identities=17% Similarity=0.399 Sum_probs=67.1
Q ss_pred CCceEeecccCCCCCHHHHHH----HhcCcCCeeE---EEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 521 PTNSLRIDHFVRPFTLRAVQE----LLGKTGTFTS---FWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkE----lLsetGtI~~---FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
+..+|||.||=.+...+.|+. ||+++|.|.. |---+.|+.|||+|.+++.|.+|..+|+|-.+ =||+++
T Consensus 8 pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpF----ygK~mr 83 (221)
T KOG4206|consen 8 PNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPF----YGKPMR 83 (221)
T ss_pred CCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcc----cCchhh
Confidence 334999999999999999998 7899998765 44578899999999999999999999999988 799999
Q ss_pred EeecChh
Q 004904 594 AEFVDPQ 600 (724)
Q Consensus 594 VDFv~pE 600 (724)
+-|+-..
T Consensus 84 iqyA~s~ 90 (221)
T KOG4206|consen 84 IQYAKSD 90 (221)
T ss_pred eecccCc
Confidence 9998643
No 42
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=97.66 E-value=0.0001 Score=81.00 Aligned_cols=81 Identities=25% Similarity=0.356 Sum_probs=67.1
Q ss_pred CceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEe
Q 004904 522 TNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAE 595 (724)
Q Consensus 522 T~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVD 595 (724)
+--|||+-+-|-.++.+|++||.+||.|..+-| +.-|++|||+|.+.++|-+|.+|||+..-=+. .-.++.|.
T Consensus 34 ~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG-~~~pvqvk 112 (510)
T KOG0144|consen 34 AVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPG-MHHPVQVK 112 (510)
T ss_pred hhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCC-CCcceeec
Confidence 446899999999999999999999999876655 45589999999999999999999999654333 24678888
Q ss_pred ecChhhhh
Q 004904 596 FVDPQEVK 603 (724)
Q Consensus 596 Fv~pEeV~ 603 (724)
|++-|.-.
T Consensus 113 ~Ad~E~er 120 (510)
T KOG0144|consen 113 YADGERER 120 (510)
T ss_pred ccchhhhc
Confidence 88776544
No 43
>KOG4259 consensus Putative nucleic acid-binding protein Hcc-1/proliferation associated cytokine-inducible protein, contains SAP domain [Cell cycle control, cell division, chromosome partitioning]
Probab=97.55 E-value=6e-05 Score=77.30 Aligned_cols=39 Identities=38% Similarity=0.523 Sum_probs=36.8
Q ss_pred CCCcccchhhHHHHHHHcccccCCchHHHHHHHHHHHHH
Q 004904 11 RPIDQWKVTELKEELKRRKLKSSGKKDDLIRLLDQAIRI 49 (724)
Q Consensus 11 ~~~~~~kV~elk~el~~r~L~t~GlK~dL~~rL~~al~~ 49 (724)
.++++|||.+||+||+.|||++.|-|++|+.||.+|+..
T Consensus 4 sD~kklkVa~LkeeLa~rGL~~~GNK~EL~~RLtaa~e~ 42 (260)
T KOG4259|consen 4 SDYKKLKVAELKEELAERGLSTAGNKAELVSRLTAATES 42 (260)
T ss_pred hhhhhccHHHHHHHHHHhcccccCChHHHHHHHHHHHHH
Confidence 358999999999999999999999999999999999876
No 44
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=97.51 E-value=0.00015 Score=70.44 Aligned_cols=79 Identities=14% Similarity=0.209 Sum_probs=70.8
Q ss_pred CCCCCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCC
Q 004904 515 PPSPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNG 588 (724)
Q Consensus 515 pPs~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~ 588 (724)
.|.++-.-=+|||.+.---.|+.++...|+.||.|..+.| +-+|++++|.|.+.++|.+|.++|||... -
T Consensus 65 gPqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~l----l 140 (170)
T KOG0130|consen 65 GPQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAEL----L 140 (170)
T ss_pred CCccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhh----h
Confidence 4566677788999999999999999999999999997766 45799999999999999999999999988 6
Q ss_pred CCcEEEeec
Q 004904 589 GRPLVAEFV 597 (724)
Q Consensus 589 gR~LrVDFv 597 (724)
+..+.|||+
T Consensus 141 ~q~v~VDw~ 149 (170)
T KOG0130|consen 141 GQNVSVDWC 149 (170)
T ss_pred CCceeEEEE
Confidence 778999986
No 45
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=97.50 E-value=0.00028 Score=74.32 Aligned_cols=79 Identities=13% Similarity=0.191 Sum_probs=71.6
Q ss_pred CCCCCCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 514 VPPSPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 514 VpPs~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
|=-..+|-.+++|++|+.-=+|.+.++.+|+.+|.|..+++=++|+++||.|++-|.|..|.-.|||... +|.+++
T Consensus 156 V~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~qGYaFVrF~tkEaAahAIv~mNntei----~G~~Vk 231 (321)
T KOG0148|consen 156 VYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQGYAFVRFETKEAAAHAIVQMNNTEI----GGQLVR 231 (321)
T ss_pred HhccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecccceEEEEecchhhHHHHHHHhcCcee----CceEEE
Confidence 3344567889999999999999999999999999999999999999999999999999999999999988 777777
Q ss_pred Eee
Q 004904 594 AEF 596 (724)
Q Consensus 594 VDF 596 (724)
+-.
T Consensus 232 CsW 234 (321)
T KOG0148|consen 232 CSW 234 (321)
T ss_pred Eec
Confidence 654
No 46
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=97.45 E-value=0.00023 Score=78.62 Aligned_cols=75 Identities=15% Similarity=0.333 Sum_probs=68.2
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecChhhh
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVDPQEV 602 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~pEeV 602 (724)
-+|||+||++-.|...|+++|++||.|.++ -+||.++||-|..-+.|.+|+..|+|... .|..|-|-++-|-.-
T Consensus 260 KvLYVRNL~~~tTeE~lk~~F~~~G~veRV--kk~rDYaFVHf~eR~davkAm~~~ngkel----dG~~iEvtLAKP~~k 333 (506)
T KOG0117|consen 260 KVLYVRNLMESTTEETLKKLFNEFGKVERV--KKPRDYAFVHFAEREDAVKAMKETNGKEL----DGSPIEVTLAKPVDK 333 (506)
T ss_pred eeeeeeccchhhhHHHHHHHHHhccceEEe--ecccceeEEeecchHHHHHHHHHhcCcee----cCceEEEEecCChhh
Confidence 589999999999999999999999999865 45699999999999999999999999999 899999999876544
Q ss_pred h
Q 004904 603 K 603 (724)
Q Consensus 603 ~ 603 (724)
+
T Consensus 334 ~ 334 (506)
T KOG0117|consen 334 K 334 (506)
T ss_pred h
Confidence 3
No 47
>PLN03124 poly [ADP-ribose] polymerase; Provisional
Probab=97.38 E-value=9e-05 Score=84.82 Aligned_cols=42 Identities=38% Similarity=0.581 Sum_probs=37.9
Q ss_pred cccchhhHHHHHHHcccccCCchHHHHHHHHHHHHHHHHHhH
Q 004904 14 DQWKVTELKEELKRRKLKSSGKKDDLIRLLDQAIRIERENAE 55 (724)
Q Consensus 14 ~~~kV~elk~el~~r~L~t~GlK~dL~~rL~~al~~e~~~~e 55 (724)
.+|||-|||+||++|||++.|||++|+.||++|+..|...+.
T Consensus 3 ~~~~v~~l~~~l~~~~~~~~g~k~~l~~rl~~~~~~e~~~~~ 44 (643)
T PLN03124 3 NKLKVDELRAALAKRGLDTTGLKAALVRRLDDAIAEDAKTAS 44 (643)
T ss_pred ccchhHHHHHHHHhcCCcccccchHHHHHHHhhhhhhhcccc
Confidence 378999999999999999999999999999999998874443
No 48
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=97.29 E-value=0.00077 Score=71.69 Aligned_cols=89 Identities=13% Similarity=0.195 Sum_probs=82.0
Q ss_pred CCCCCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCC
Q 004904 515 PPSPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNG 588 (724)
Q Consensus 515 pPs~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~ 588 (724)
+-+..-|-+||||..|-.-.++..|+..|..||.|..+.| ++.|++|||.|...-+-.+|+...+|+.+ .
T Consensus 94 p~a~gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~I----d 169 (335)
T KOG0113|consen 94 PNAIGDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKI----D 169 (335)
T ss_pred CcccCCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCcee----c
Confidence 3445568899999999999999999999999999998888 77899999999999999999999999999 8
Q ss_pred CCcEEEeecChhhhhhhcc
Q 004904 589 GRPLVAEFVDPQEVKMRTE 607 (724)
Q Consensus 589 gR~LrVDFv~pEeV~~~Ie 607 (724)
++-+.|||--.--|+-||-
T Consensus 170 grri~VDvERgRTvkgW~P 188 (335)
T KOG0113|consen 170 GRRILVDVERGRTVKGWLP 188 (335)
T ss_pred CcEEEEEeccccccccccc
Confidence 8899999999999999983
No 49
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=97.23 E-value=0.00072 Score=71.38 Aligned_cols=82 Identities=23% Similarity=0.280 Sum_probs=72.4
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe-----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEe
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM-----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAE 595 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL-----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVD 595 (724)
..+.|||+=|.+--.+++|+.||.-+|.|...-. ..-|+++||.|++..+|.++.++|||..-=+. ....|+|.
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpG-ASSSLVVK 96 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPG-ASSSLVVK 96 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCC-CccceEEE
Confidence 5678999999999999999999999999875443 67799999999999999999999999887666 45689999
Q ss_pred ecChhhhh
Q 004904 596 FVDPQEVK 603 (724)
Q Consensus 596 Fv~pEeV~ 603 (724)
|.+.|+-.
T Consensus 97 ~ADTdkER 104 (371)
T KOG0146|consen 97 FADTDKER 104 (371)
T ss_pred eccchHHH
Confidence 99998754
No 50
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=97.16 E-value=0.0012 Score=67.22 Aligned_cols=84 Identities=19% Similarity=0.255 Sum_probs=74.9
Q ss_pred CCCCCCCceEeecccCCCCCHHHHHHHhcCc-CCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCC
Q 004904 516 PSPKSPTNSLRIDHFVRPFTLRAVQELLGKT-GTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNG 588 (724)
Q Consensus 516 Ps~hPpT~aLyI~NLvRPFT~~qLkElLset-GtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~ 588 (724)
.+.......+||+.+..=|...++..+|+++ |++..|+| ++=|+++||.|.+.+-|.-|.+.|||--. .
T Consensus 43 ~p~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl----~ 118 (214)
T KOG4208|consen 43 KPEQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLL----M 118 (214)
T ss_pred CCccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhh----h
Confidence 3444566788999999999999999999998 78889999 77799999999999999999999999888 8
Q ss_pred CCcEEEeecChh-hhh
Q 004904 589 GRPLVAEFVDPQ-EVK 603 (724)
Q Consensus 589 gR~LrVDFv~pE-eV~ 603 (724)
+++|.+-|++|+ .+.
T Consensus 119 e~lL~c~vmppe~~v~ 134 (214)
T KOG4208|consen 119 EHLLECHVMPPEQKVE 134 (214)
T ss_pred hheeeeEEeCchhhhh
Confidence 999999999999 444
No 51
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.15 E-value=6.6e-05 Score=75.46 Aligned_cols=76 Identities=14% Similarity=0.217 Sum_probs=69.5
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
.-+.-+||+||-+-||+.+|-..|++||.|+.+-| ++-|+|||..|...-.-+=|.+-|+|... .||+|+
T Consensus 33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki----~gRtir 108 (219)
T KOG0126|consen 33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKI----LGRTIR 108 (219)
T ss_pred ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCcee----cceeEE
Confidence 56678999999999999999999999999998887 67799999999999999999999999999 899999
Q ss_pred EeecCh
Q 004904 594 AEFVDP 599 (724)
Q Consensus 594 VDFv~p 599 (724)
||-+..
T Consensus 109 VDHv~~ 114 (219)
T KOG0126|consen 109 VDHVSN 114 (219)
T ss_pred eeeccc
Confidence 998753
No 52
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.15 E-value=0.0013 Score=68.23 Aligned_cols=77 Identities=19% Similarity=0.359 Sum_probs=64.8
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCc-cceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHI-KTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~I-KSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
+-++|||.+|---.....|..||.++--.++-.| +++ |-.+||+|.|...|.+|+++|+|+++=++ .+..|+
T Consensus 33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE-~~stLh 111 (284)
T KOG1457|consen 33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPE-TGSTLH 111 (284)
T ss_pred ccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccc-cCceeE
Confidence 4689999999999999999999988644443333 222 58999999999999999999999999888 688999
Q ss_pred EeecC
Q 004904 594 AEFVD 598 (724)
Q Consensus 594 VDFv~ 598 (724)
++|.-
T Consensus 112 iElAK 116 (284)
T KOG1457|consen 112 IELAK 116 (284)
T ss_pred eeehh
Confidence 99974
No 53
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.10 E-value=0.001 Score=73.74 Aligned_cols=76 Identities=16% Similarity=0.232 Sum_probs=68.4
Q ss_pred CCCCCCCceEeecccCCCCCHHHHHHHhcCcCCee--EEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 516 PSPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFT--SFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 516 Ps~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~--~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
+...+-.|.++|+||-+-||.+.|+..|.++|.|. +. |.+=|+.+.|.|.|.+.|.+|+..|+|... .+|-+.
T Consensus 530 ~gaarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadi-me~GkskGVVrF~s~edAEra~a~Mngs~l----~Gr~I~ 604 (608)
T KOG4212|consen 530 VGAARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADI-MENGKSKGVVRFFSPEDAERACALMNGSRL----DGRNIK 604 (608)
T ss_pred ccccccccEEEEecCCccccHHHHHHHHHhccceehhhh-hccCCccceEEecCHHHHHHHHHHhccCcc----cCceee
Confidence 34456678899999999999999999999999986 44 788899999999999999999999999999 889999
Q ss_pred Eee
Q 004904 594 AEF 596 (724)
Q Consensus 594 VDF 596 (724)
|+|
T Consensus 605 V~y 607 (608)
T KOG4212|consen 605 VTY 607 (608)
T ss_pred eee
Confidence 987
No 54
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=97.10 E-value=0.00037 Score=71.92 Aligned_cols=82 Identities=12% Similarity=0.259 Sum_probs=74.4
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcE
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPL 592 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~L 592 (724)
+---++|||++|.--+|..-|.+.|--+|.|...-| .+-|+|+||+|.--|+|.+|.+-|++... -||.|
T Consensus 7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL----~Grti 82 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESEL----FGRTI 82 (298)
T ss_pred cccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhh----cceeE
Confidence 345689999999999999999999999999986665 67799999999999999999999999988 89999
Q ss_pred EEeecChhhhhh
Q 004904 593 VAEFVDPQEVKM 604 (724)
Q Consensus 593 rVDFv~pEeV~~ 604 (724)
+|.|+-|++++.
T Consensus 83 rVN~AkP~kike 94 (298)
T KOG0111|consen 83 RVNLAKPEKIKE 94 (298)
T ss_pred EEeecCCccccC
Confidence 999999998873
No 55
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=97.08 E-value=0.001 Score=75.22 Aligned_cols=77 Identities=16% Similarity=0.173 Sum_probs=65.5
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhc-----C-CcCCCCCCCC
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALY-----N-IQWPPNNGGR 590 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALh-----G-~vWP~en~gR 590 (724)
.+|||+||.+-.|...|++||+++|.|.+..| ++-|+.+||.|.+..+|..|..+.. | ..+ .||
T Consensus 293 ~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll----~GR 368 (678)
T KOG0127|consen 293 KTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLL----DGR 368 (678)
T ss_pred ceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEE----ecc
Confidence 58999999999999999999999999988777 7889999999999999999999883 3 344 478
Q ss_pred cEEEeecChhhhh
Q 004904 591 PLVAEFVDPQEVK 603 (724)
Q Consensus 591 ~LrVDFv~pEeV~ 603 (724)
.|.|..+=.-+-.
T Consensus 369 ~Lkv~~Av~RkeA 381 (678)
T KOG0127|consen 369 LLKVTLAVTRKEA 381 (678)
T ss_pred EEeeeeccchHHH
Confidence 8998876544333
No 56
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=97.02 E-value=0.003 Score=57.32 Aligned_cols=81 Identities=19% Similarity=0.357 Sum_probs=68.7
Q ss_pred ceEeecccCCCCCHHHHHHHhcCc--CCeeEEEe--cCc----cceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKT--GTFTSFWM--DHI----KTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLset--GtI~~FWL--D~I----KSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
++|.|+|+-.=+|...|.++|.++ |.+-=|+| |-- .++|||-|.+.+.|.+-..++||..||.-+..|.+.+
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i 81 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI 81 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence 589999999999999999999763 66655555 433 7999999999999999999999999999888899998
Q ss_pred eecChhhhh
Q 004904 595 EFVDPQEVK 603 (724)
Q Consensus 595 DFv~pEeV~ 603 (724)
.|+..+=.+
T Consensus 82 ~yAriQG~~ 90 (97)
T PF04059_consen 82 SYARIQGKD 90 (97)
T ss_pred ehhHhhCHH
Confidence 887655333
No 57
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=97.02 E-value=0.0011 Score=71.54 Aligned_cols=80 Identities=20% Similarity=0.271 Sum_probs=71.2
Q ss_pred CCCCCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe-----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCC
Q 004904 515 PPSPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM-----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGG 589 (724)
Q Consensus 515 pPs~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL-----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~g 589 (724)
.+........|||.|+-..++...|+++|+.+|+|+++|| ++-|+++||.|++.++|..|..-++|... .+
T Consensus 263 ~~~~~~~~~nl~vknld~~~~~e~L~~~f~~~GeI~s~kv~~~~~g~skG~gfV~fs~~eeA~~A~~~~n~~~i----~~ 338 (369)
T KOG0123|consen 263 KRSVSLQGANLYVKNLDETLSDEKLRKIFSSFGEITSAKVMVDENGKSKGFGFVEFSSPEEAKKAMTEMNGRLI----GG 338 (369)
T ss_pred hccccccccccccccCccccchhHHHHHHhcccceeeEEEEeccCCCccceEEEEcCCHHHHHHHHHhhChhhh----cC
Confidence 4445668889999999999999999999999999999999 66699999999999999999999999888 78
Q ss_pred CcEEEeecC
Q 004904 590 RPLVAEFVD 598 (724)
Q Consensus 590 R~LrVDFv~ 598 (724)
++|.+....
T Consensus 339 k~l~vav~q 347 (369)
T KOG0123|consen 339 KPLYVAVAQ 347 (369)
T ss_pred CchhhhHHh
Confidence 888765443
No 58
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=97.00 E-value=0.0014 Score=74.00 Aligned_cols=75 Identities=11% Similarity=0.212 Sum_probs=69.1
Q ss_pred CceEeecccCCCCCHHHHHHHhcCcCCeeEEEe-----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 522 TNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM-----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 522 T~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL-----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
---|.|+||-+-.....|+.+|+.+|.|....| .++.+|+||+|...-+|..|+..++|..+ .||++-|||
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i----~gR~VAVDW 192 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKI----DGRPVAVDW 192 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCcee----cCceeEEee
Confidence 446999999999999999999999999999988 66779999999999999999999999999 999999999
Q ss_pred cChh
Q 004904 597 VDPQ 600 (724)
Q Consensus 597 v~pE 600 (724)
+=+-
T Consensus 193 AV~K 196 (678)
T KOG0127|consen 193 AVDK 196 (678)
T ss_pred eccc
Confidence 7543
No 59
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=96.99 E-value=0.0022 Score=71.13 Aligned_cols=76 Identities=21% Similarity=0.259 Sum_probs=66.5
Q ss_pred CCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe--c----CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCc
Q 004904 518 PKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM--D----HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRP 591 (724)
Q Consensus 518 ~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL--D----~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~ 591 (724)
++|--+-+||+.|-|-+.++.|.-||.+-|.|-.++| | .=|+++||+|++-++|.+|..-||+..+ ++||+
T Consensus 79 ~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Ei---r~GK~ 155 (506)
T KOG0117|consen 79 PPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEI---RPGKL 155 (506)
T ss_pred CCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccc---cCCCE
Confidence 3477899999999999999999999999999987666 4 5599999999999999999999999988 35677
Q ss_pred EEEee
Q 004904 592 LVAEF 596 (724)
Q Consensus 592 LrVDF 596 (724)
|.|--
T Consensus 156 igvc~ 160 (506)
T KOG0117|consen 156 LGVCV 160 (506)
T ss_pred eEEEE
Confidence 77653
No 60
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=96.93 E-value=0.0026 Score=67.09 Aligned_cols=72 Identities=21% Similarity=0.253 Sum_probs=65.7
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCee------EEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFT------SFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~------~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
=-|||-||.---.+..|++||+.+|.|+ +|-.++-|+|+||+++.-+||.-|..+|+|-.. +.|.|-|.|
T Consensus 279 ~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~l----g~rvLQVsF 354 (360)
T KOG0145|consen 279 WCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRL----GDRVLQVSF 354 (360)
T ss_pred eEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccc----cceEEEEEE
Confidence 3479999999999999999999999875 455699999999999999999999999999999 899999999
Q ss_pred cC
Q 004904 597 VD 598 (724)
Q Consensus 597 v~ 598 (724)
-+
T Consensus 355 Kt 356 (360)
T KOG0145|consen 355 KT 356 (360)
T ss_pred ec
Confidence 65
No 61
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=96.93 E-value=0.0024 Score=74.36 Aligned_cols=64 Identities=13% Similarity=0.171 Sum_probs=60.8
Q ss_pred CCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCC
Q 004904 518 PKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNI 581 (724)
Q Consensus 518 ~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~ 581 (724)
..-.++||+|+.|-+-.+...|..+|.+||.|+++-|..-+.|+||++..-.+|.+|..+|.+.
T Consensus 417 isV~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~RqdA~kalqkl~n~ 480 (894)
T KOG0132|consen 417 ISVCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQDAEKALQKLSNV 480 (894)
T ss_pred eeEeeeeeeeccccchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhHHHHHHHHHhcc
Confidence 3467899999999999999999999999999999999999999999999999999999999865
No 62
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.85 E-value=0.0045 Score=71.54 Aligned_cols=70 Identities=23% Similarity=0.288 Sum_probs=67.2
Q ss_pred EeecccCCCCCHHHHHHHhcCcCCeeEEEecCcc---------ceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEe
Q 004904 525 LRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIK---------THCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAE 595 (724)
Q Consensus 525 LyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IK---------SHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVD 595 (724)
|||.||-+--|+..|..+|...|+|.++-|..-| +++||.|.+.+.|.+|+.+|+|.+. .|+.|.|.
T Consensus 518 lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvl----dGH~l~lk 593 (725)
T KOG0110|consen 518 LFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVL----DGHKLELK 593 (725)
T ss_pred hhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCcee----cCceEEEE
Confidence 9999999999999999999999999999997766 9999999999999999999999999 89999999
Q ss_pred ecC
Q 004904 596 FVD 598 (724)
Q Consensus 596 Fv~ 598 (724)
|+.
T Consensus 594 ~S~ 596 (725)
T KOG0110|consen 594 ISE 596 (725)
T ss_pred ecc
Confidence 987
No 63
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=96.79 E-value=0.0018 Score=65.19 Aligned_cols=74 Identities=14% Similarity=0.214 Sum_probs=67.3
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
--.+|||+||=-=++...|.|||-+.|.|++.+| +.-+++|||.|-+.|+|.-|..-|+++.. -||+|++
T Consensus 8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkL----YgrpIrv 83 (203)
T KOG0131|consen 8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKL----YGRPIRV 83 (203)
T ss_pred CCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHh----cCceeEE
Confidence 4578999999999999999999999999998888 55789999999999999999999999887 7899998
Q ss_pred eecC
Q 004904 595 EFVD 598 (724)
Q Consensus 595 DFv~ 598 (724)
.=++
T Consensus 84 ~kas 87 (203)
T KOG0131|consen 84 NKAS 87 (203)
T ss_pred Eecc
Confidence 8776
No 64
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.78 E-value=0.0014 Score=75.49 Aligned_cols=78 Identities=21% Similarity=0.258 Sum_probs=71.4
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEec------CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMD------HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD------~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
..+-|+|+|+.+=.+...|+.+|+.+|.|.+.+|- .-++||||.|-|..+|.+|+.||+++.. =||.|++
T Consensus 612 ~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHl----yGRrLVL 687 (725)
T KOG0110|consen 612 KGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHL----YGRRLVL 687 (725)
T ss_pred ccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccce----echhhhe
Confidence 37789999999999999999999999999999983 3489999999999999999999999888 7888999
Q ss_pred eecChhhh
Q 004904 595 EFVDPQEV 602 (724)
Q Consensus 595 DFv~pEeV 602 (724)
+|+..+..
T Consensus 688 EwA~~d~~ 695 (725)
T KOG0110|consen 688 EWAKSDNT 695 (725)
T ss_pred ehhccchH
Confidence 99988766
No 65
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=96.41 E-value=0.0029 Score=71.34 Aligned_cols=65 Identities=15% Similarity=0.194 Sum_probs=61.2
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCcc-ceEEEEecCHHHHHHHHHHhcCCcC
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIK-THCYVTYSSVEEAIETRNALYNIQW 583 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IK-SHCYVtFsSVEeA~aARsALhG~vW 583 (724)
.-++.+|.|-||-|-++...|+.+|+.||.|.+..+-..| +||||.|-+|-.|.+|..+|++...
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~ 137 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRREI 137 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHh
Confidence 4689999999999999999999999999999999998875 9999999999999999999998776
No 66
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=96.36 E-value=0.0069 Score=68.41 Aligned_cols=88 Identities=25% Similarity=0.339 Sum_probs=77.0
Q ss_pred CCCCCCCCCceEeecccCCCCCHH----------HHHHHhcCcCCeeEEEecCcc-ceEEEEecCHHHHHHHHHHhcCCc
Q 004904 514 VPPSPKSPTNSLRIDHFVRPFTLR----------AVQELLGKTGTFTSFWMDHIK-THCYVTYSSVEEAIETRNALYNIQ 582 (724)
Q Consensus 514 VpPs~hPpT~aLyI~NLvRPFT~~----------qLkElLsetGtI~~FWLD~IK-SHCYVtFsSVEeA~aARsALhG~v 582 (724)
+.|+--+||.-|.|.|+.-|-|+. +|.|--+.||.|..+++|..- ++.||.|.|++.|..|..||||--
T Consensus 435 ~~p~~~i~t~C~lL~nMFdpstete~n~d~eI~edV~Eec~k~g~v~hi~vd~ns~g~VYvrc~s~~~A~~a~~alhgrW 514 (549)
T KOG0147|consen 435 ASPAFDIPTQCLLLSNMFDPSTETEPNWDQEIREDVIEECGKHGKVCHIFVDKNSAGCVYVRCPSAEAAGTAVKALHGRW 514 (549)
T ss_pred cccccCCccHHHHHhhcCCcccccCcchhhHHHHHHHHHHHhcCCeeEEEEccCCCceEEEecCcHHHHHHHHHHHhhhh
Confidence 366666999999999999998863 455555789999999999998 999999999999999999999998
Q ss_pred CCCCCCCCcEEEeecChhhhhhh
Q 004904 583 WPPNNGGRPLVAEFVDPQEVKMR 605 (724)
Q Consensus 583 WP~en~gR~LrVDFv~pEeV~~~ 605 (724)
+ .||.+.+.|++.+.....
T Consensus 515 F----~gr~Ita~~~~~~~Y~~~ 533 (549)
T KOG0147|consen 515 F----AGRMITAKYLPLERYHSK 533 (549)
T ss_pred h----ccceeEEEEeehhhhhhh
Confidence 8 899999999998877554
No 67
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=96.32 E-value=0.011 Score=63.99 Aligned_cols=71 Identities=14% Similarity=0.241 Sum_probs=62.3
Q ss_pred EeecccCCCCCHHHHHHHhcCcCCeeEEEe----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecChh
Q 004904 525 LRIDHFVRPFTLRAVQELLGKTGTFTSFWM----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVDPQ 600 (724)
Q Consensus 525 LyI~NLvRPFT~~qLkElLsetGtI~~FWL----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~pE 600 (724)
+||.||-+-++-+.|..+|+.+|.|++.-+ +..|++ ||.|.+.++|.+|...|||..- +++.+.+.-...+
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll----~~kki~vg~~~~~ 153 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLL----NGKKIYVGLFERK 153 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCccc----CCCeeEEeeccch
Confidence 999999999999999999999999998877 558999 9999999999999999999998 6666665444333
No 68
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=96.01 E-value=0.011 Score=60.32 Aligned_cols=74 Identities=12% Similarity=0.233 Sum_probs=64.8
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCcc---ceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeec
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIK---THCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFV 597 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IK---SHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv 597 (724)
.++.+|++||---+..+.++.||.++|.|..+=|-... .||||.|...-+|.-|.-+-+|-.+ .+--|+|+|.
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdy----dg~rLRVEfp 80 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDY----DGCRLRVEFP 80 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhccccccc----CcceEEEEec
Confidence 57899999999999999999999999999988885443 6999999998888888888888888 7778999996
Q ss_pred C
Q 004904 598 D 598 (724)
Q Consensus 598 ~ 598 (724)
-
T Consensus 81 r 81 (241)
T KOG0105|consen 81 R 81 (241)
T ss_pred c
Confidence 4
No 69
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=95.86 E-value=0.014 Score=65.81 Aligned_cols=84 Identities=21% Similarity=0.343 Sum_probs=69.5
Q ss_pred CCCCCCCceEeecccCCCCCHHHHHHH---h-------cCcCCeeEEEecCc---------cceEEEEecCHHHHHHHHH
Q 004904 516 PSPKSPTNSLRIDHFVRPFTLRAVQEL---L-------GKTGTFTSFWMDHI---------KTHCYVTYSSVEEAIETRN 576 (724)
Q Consensus 516 Ps~hPpT~aLyI~NLvRPFT~~qLkEl---L-------setGtI~~FWLD~I---------KSHCYVtFsSVEeA~aARs 576 (724)
....++|.+|...|.|.|..+..-.++ | +.||.|...=|.+. =+.-||.|.|++++.+|++
T Consensus 393 q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~ 472 (500)
T KOG0120|consen 393 QMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAME 472 (500)
T ss_pred ccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHH
Confidence 456789999999999999876544333 2 56898887766555 3678999999999999999
Q ss_pred HhcCCcCCCCCCCCcEEEeecChhhhh
Q 004904 577 ALYNIQWPPNNGGRPLVAEFVDPQEVK 603 (724)
Q Consensus 577 ALhG~vWP~en~gR~LrVDFv~pEeV~ 603 (724)
+|+|.++ ++|.++..|.++++..
T Consensus 473 ~L~GrKF----~nRtVvtsYydeDkY~ 495 (500)
T KOG0120|consen 473 ELTGRKF----ANRTVVASYYDEDKYH 495 (500)
T ss_pred HccCcee----CCcEEEEEecCHHHhh
Confidence 9999999 8999999999999864
No 70
>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=95.84 E-value=0.023 Score=51.60 Aligned_cols=57 Identities=19% Similarity=0.336 Sum_probs=39.1
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCcc--ceEEEEecCHHHHHHHHHHhcCC
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIK--THCYVTYSSVEEAIETRNALYNI 581 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IK--SHCYVtFsSVEeA~aARsALhG~ 581 (724)
+.|+|.++--|.+...|+++|+++|.|. |+|-.+ +.|||-|.+.+.|.+++.++.-.
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~--yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVA--YVDFSRGDTEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EE--EEE--TT-SEEEEEESS---HHHHHHHHHHT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcc--eEEecCCCCEEEEEECCcchHHHHHHHHHhc
Confidence 5799999999999999999999999887 455444 89999999999999999998755
No 71
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=95.83 E-value=0.013 Score=66.18 Aligned_cols=70 Identities=16% Similarity=0.240 Sum_probs=62.9
Q ss_pred EeecccCCCCCHHHHHHHhcCcCCeeEEE------ecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecC
Q 004904 525 LRIDHFVRPFTLRAVQELLGKTGTFTSFW------MDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVD 598 (724)
Q Consensus 525 LyI~NLvRPFT~~qLkElLsetGtI~~FW------LD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~ 598 (724)
||++||=+.+|..+|+..|.-+|.|...- .++-|+|+|++|...+.|.+|...|||... .|++++|--++
T Consensus 281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfel----AGr~ikV~~v~ 356 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFEL----AGRLIKVSVVT 356 (549)
T ss_pred hhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhcccee----cCceEEEEEee
Confidence 99999999999999999999999986433 367899999999999999999999999888 89999976654
No 72
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=95.68 E-value=0.025 Score=61.54 Aligned_cols=82 Identities=17% Similarity=0.214 Sum_probs=68.5
Q ss_pred CCCCCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 515 PPSPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 515 pPs~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
.|+.--...+|||++|---+++..|+.||.+||.|.+..+-.-+..+||+|.|-++|..|..++-+ |=-- .|+-|.|
T Consensus 221 epPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n--~lvI-~G~Rl~i 297 (377)
T KOG0153|consen 221 EPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRKGCAFVTFTTREAAEKAAEKSFN--KLVI-NGFRLKI 297 (377)
T ss_pred CCCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecccccceeeehhhHHHHHHHHhhcc--eeee-cceEEEE
Confidence 344444667999999999999999999999999999999999999999999999999998887766 4333 4566887
Q ss_pred eecCh
Q 004904 595 EFVDP 599 (724)
Q Consensus 595 DFv~p 599 (724)
-+..+
T Consensus 298 ~Wg~~ 302 (377)
T KOG0153|consen 298 KWGRP 302 (377)
T ss_pred EeCCC
Confidence 77665
No 73
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=95.65 E-value=0.015 Score=62.23 Aligned_cols=76 Identities=17% Similarity=0.335 Sum_probs=69.4
Q ss_pred CCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeec
Q 004904 518 PKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFV 597 (724)
Q Consensus 518 ~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv 597 (724)
.+.++..||++|+..=.|.+.|++.|.++|.|... |-.|..+||-|.=++.|..|+..|+|.++ .|+.|+|..+
T Consensus 74 Ksk~stkl~vgNis~tctn~ElRa~fe~ygpviec--divkdy~fvh~d~~eda~~air~l~~~~~----~gk~m~vq~s 147 (346)
T KOG0109|consen 74 KSKASTKLHVGNISPTCTNQELRAKFEKYGPVIEC--DIVKDYAFVHFDRAEDAVEAIRGLDNTEF----QGKRMHVQLS 147 (346)
T ss_pred cCCCccccccCCCCccccCHHHhhhhcccCCceee--eeecceeEEEEeeccchHHHHhccccccc----ccceeeeeee
Confidence 35699999999999999999999999999998754 55799999999999999999999999999 8999999987
Q ss_pred Ch
Q 004904 598 DP 599 (724)
Q Consensus 598 ~p 599 (724)
+-
T Consensus 148 ts 149 (346)
T KOG0109|consen 148 TS 149 (346)
T ss_pred cc
Confidence 74
No 74
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=95.55 E-value=0.014 Score=64.51 Aligned_cols=78 Identities=15% Similarity=0.215 Sum_probs=62.2
Q ss_pred eecccCCCCCHHHHHHHhcCcCCeeEEEe-cCc-cceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecChhhhh
Q 004904 526 RIDHFVRPFTLRAVQELLGKTGTFTSFWM-DHI-KTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVDPQEVK 603 (724)
Q Consensus 526 yI~NLvRPFT~~qLkElLsetGtI~~FWL-D~I-KSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~pEeV~ 603 (724)
.|.|+++|.+++-|..+|++||.|...-. .+- -=.+.|+|...+.|..|+.||.|.-+|+. -=.||+||+---.+.
T Consensus 154 iie~m~ypVslDVLHqvFS~fG~VlKIiTF~Knn~FQALvQy~d~~sAq~AK~aLdGqnIyng--cCtLrId~Sklt~Ln 231 (492)
T KOG1190|consen 154 IIENMFYPVSLDVLHQVFSKFGFVLKIITFTKNNGFQALVQYTDAVSAQAAKLALDGQNIYNG--CCTLRIDFSKLTDLN 231 (492)
T ss_pred EeccceeeeEHHHHHHHHhhcceeEEEEEEecccchhhhhhccchhhHHHHHHhccCCcccCc--eeEEEeehhhcccce
Confidence 57999999999999999999998753211 111 12478999999999999999999999886 357999999776554
Q ss_pred hh
Q 004904 604 MR 605 (724)
Q Consensus 604 ~~ 605 (724)
-+
T Consensus 232 vK 233 (492)
T KOG1190|consen 232 VK 233 (492)
T ss_pred ee
Confidence 43
No 75
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=95.50 E-value=0.023 Score=57.53 Aligned_cols=77 Identities=12% Similarity=0.187 Sum_probs=67.4
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeE----EEe---cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTS----FWM---DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~----FWL---D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
.+.-|||+||-.-..+..|...|+.+|.|.. +++ ...|+++||.|.+-|.+.+|..+|+|.+. ..++.+
T Consensus 95 vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l----~nr~it 170 (203)
T KOG0131|consen 95 VGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYL----CNRPIT 170 (203)
T ss_pred ccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchh----cCCceE
Confidence 4477999999999999999999999998753 555 46899999999999999999999999999 778899
Q ss_pred EeecChhh
Q 004904 594 AEFVDPQE 601 (724)
Q Consensus 594 VDFv~pEe 601 (724)
++|.=.+.
T Consensus 171 v~ya~k~~ 178 (203)
T KOG0131|consen 171 VSYAFKKD 178 (203)
T ss_pred EEEEEecC
Confidence 99976443
No 76
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=95.16 E-value=0.018 Score=61.59 Aligned_cols=69 Identities=19% Similarity=0.179 Sum_probs=60.1
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeec
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFV 597 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv 597 (724)
.-|||+||-|+.+...|+.||.++|.|+.. |=||.++||-..+..+|.-|..-|||-.. +|..+.|+=+
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlEC--DIvKNYgFVHiEdktaaedairNLhgYtL----hg~nInVeaS 71 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLEC--DIVKNYGFVHIEDKTAAEDAIRNLHGYTL----HGVNINVEAS 71 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEee--eeecccceEEeecccccHHHHhhccccee----cceEEEEEec
Confidence 469999999999999999999999999864 56999999999999999999998888777 6666666544
No 77
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=95.11 E-value=0.049 Score=57.90 Aligned_cols=74 Identities=19% Similarity=0.366 Sum_probs=65.9
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEe--cCcc----ceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM--DHIK----THCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL--D~IK----SHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
.-|.|.-|-.-.|.+.||.||+.-|.|++.-| |+|+ +++||-|-...+|.+|.+.|+|+.. -.|.++|.|
T Consensus 42 TNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrL----Q~KTIKVSy 117 (360)
T KOG0145|consen 42 TNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRL----QNKTIKVSY 117 (360)
T ss_pred ceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceee----ccceEEEEe
Confidence 34778889999999999999999999998777 7776 4689999999999999999999999 678999999
Q ss_pred cChh
Q 004904 597 VDPQ 600 (724)
Q Consensus 597 v~pE 600 (724)
+-|.
T Consensus 118 ARPS 121 (360)
T KOG0145|consen 118 ARPS 121 (360)
T ss_pred ccCC
Confidence 8765
No 78
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=95.09 E-value=0.026 Score=61.96 Aligned_cols=71 Identities=15% Similarity=0.184 Sum_probs=63.6
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
--|.+|++-+.+-+.++.++..|.-+|.|.+.-| .+-|+|+||.|.=.|+|.-|.+.|||.-. +||-|+|
T Consensus 112 iMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~ml----GGRNiKV 187 (544)
T KOG0124|consen 112 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQML----GGRNIKV 187 (544)
T ss_pred HhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccc----cCccccc
Confidence 4577899999999999999999999999998766 56699999999999999999999999988 7777766
Q ss_pred e
Q 004904 595 E 595 (724)
Q Consensus 595 D 595 (724)
-
T Consensus 188 g 188 (544)
T KOG0124|consen 188 G 188 (544)
T ss_pred c
Confidence 4
No 79
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=94.96 E-value=0.062 Score=60.23 Aligned_cols=78 Identities=14% Similarity=0.224 Sum_probs=67.9
Q ss_pred CceEeecccCCCCCHHHHHHHhcC-cCCeeEE--Ee---cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEe
Q 004904 522 TNSLRIDHFVRPFTLRAVQELLGK-TGTFTSF--WM---DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAE 595 (724)
Q Consensus 522 T~aLyI~NLvRPFT~~qLkElLse-tGtI~~F--WL---D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVD 595 (724)
-+++||.|+-+-+....||.|+.+ -|.|+.+ .+ .+.|+++.|.|.+.|.+.+|.+.|+--.| ++|+|+|.
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~----~GR~l~vK 119 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEV----NGRELVVK 119 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccc----cCceEEEe
Confidence 456999999999999999999987 4787754 44 67899999999999999999999999999 89999998
Q ss_pred ecChhhhh
Q 004904 596 FVDPQEVK 603 (724)
Q Consensus 596 Fv~pEeV~ 603 (724)
=.+.++-.
T Consensus 120 Ed~d~q~~ 127 (608)
T KOG4212|consen 120 EDHDEQRD 127 (608)
T ss_pred ccCchhhh
Confidence 77776554
No 80
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.96 E-value=0.037 Score=60.34 Aligned_cols=78 Identities=18% Similarity=0.248 Sum_probs=59.6
Q ss_pred eEeecccCCCCCHHH----H--HHHhcCcCCeeEEEec-------CccceE--EEEecCHHHHHHHHHHhcCCcCCCCCC
Q 004904 524 SLRIDHFVRPFTLRA----V--QELLGKTGTFTSFWMD-------HIKTHC--YVTYSSVEEAIETRNALYNIQWPPNNG 588 (724)
Q Consensus 524 aLyI~NLvRPFT~~q----L--kElLsetGtI~~FWLD-------~IKSHC--YVtFsSVEeA~aARsALhG~vWP~en~ 588 (724)
-+||-+|--++-... | .++|++||.|..+-++ .--+|+ |++|++-|+|.++.+++.|.+. .
T Consensus 116 LvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~----D 191 (480)
T COG5175 116 LVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLL----D 191 (480)
T ss_pred eeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccc----c
Confidence 346666555554433 2 3689999999876664 445688 9999999999999999999999 8
Q ss_pred CCcEEEeecChhhhhhh
Q 004904 589 GRPLVAEFVDPQEVKMR 605 (724)
Q Consensus 589 gR~LrVDFv~pEeV~~~ 605 (724)
||.|++-|-+..=-...
T Consensus 192 Gr~lkatYGTTKYCtsY 208 (480)
T COG5175 192 GRVLKATYGTTKYCTSY 208 (480)
T ss_pred CceEeeecCchHHHHHH
Confidence 99999999886644443
No 81
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=94.88 E-value=0.046 Score=56.96 Aligned_cols=57 Identities=11% Similarity=0.127 Sum_probs=49.8
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhc
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALY 579 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALh 579 (724)
.-+||++|--=-+-+.|+.+|.++|.|+..-+ ++=|+++||||...++|.+|..--+
T Consensus 13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~ 75 (247)
T KOG0149|consen 13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN 75 (247)
T ss_pred EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC
Confidence 35799999999999999999999999875433 7889999999999999999987554
No 82
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=94.69 E-value=0.061 Score=57.32 Aligned_cols=68 Identities=12% Similarity=0.196 Sum_probs=57.7
Q ss_pred EeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 525 LRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 525 LyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
+|++.|+--++...||+.|..+|.|....+ .+-|+++||.|-.-++|..|...|+|.-. ++|.+|-..
T Consensus 65 vfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWl----G~R~IRTNW 138 (321)
T KOG0148|consen 65 VFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWL----GRRTIRTNW 138 (321)
T ss_pred EEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeee----ccceeeccc
Confidence 678999999999999999999999886666 77899999999999999999999999754 445554333
No 83
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=94.49 E-value=0.048 Score=58.17 Aligned_cols=74 Identities=18% Similarity=0.251 Sum_probs=65.4
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCee--EEEec----CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcE
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFT--SFWMD----HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPL 592 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~--~FWLD----~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~L 592 (724)
.|.-|-|||-.|-.-|.-..|-.+|--+|.|+ .+++| +-|-|+||.|.+...|.++..||||-++ +=|.|
T Consensus 282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQI----GMKRL 357 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQI----GMKRL 357 (371)
T ss_pred CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhh----hhhhh
Confidence 58899999999999999999999999999998 57775 5688999999999999999999999998 66667
Q ss_pred EEee
Q 004904 593 VAEF 596 (724)
Q Consensus 593 rVDF 596 (724)
+|..
T Consensus 358 KVQL 361 (371)
T KOG0146|consen 358 KVQL 361 (371)
T ss_pred hhhh
Confidence 6543
No 84
>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=94.17 E-value=0.062 Score=53.59 Aligned_cols=69 Identities=23% Similarity=0.297 Sum_probs=44.9
Q ss_pred cCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhc--CCcCCCCCCCCcEEEeecChhhh
Q 004904 530 FVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALY--NIQWPPNNGGRPLVAEFVDPQEV 602 (724)
Q Consensus 530 LvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALh--G~vWP~en~gR~LrVDFv~pEeV 602 (724)
|.+|-....|++||..++.+..|-.=+-=..+.|.|.+.+.|.+||..|| |... .|+.|++-|.....+
T Consensus 3 f~~~~~~~~l~~l~~~~~~~~~~~~L~sFrRi~v~f~~~~~A~~~r~~l~~~~~~~----~g~~l~~yf~~~~~~ 73 (184)
T PF04847_consen 3 FFQPDNLAELEELFSTYDPPVQFSPLKSFRRIRVVFESPESAQRARQLLHWDGTSF----NGKRLRVYFGQPTPI 73 (184)
T ss_dssp ------HHHHHHHHHTT-SS-EEEEETTTTEEEEE-SSTTHHHHHHHTST--TSEE----TTEE-EEE----SS-
T ss_pred ccChhhHHHHHHHHHhcCCceEEEEcCCCCEEEEEeCCHHHHHHHHHHhccccccc----CCCceEEEEcccccc
Confidence 56788889999999999988776543444578999999999999999999 7777 677899999965544
No 85
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=94.01 E-value=0.048 Score=56.94 Aligned_cols=74 Identities=14% Similarity=0.173 Sum_probs=58.1
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCcc--ceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIK--THCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IK--SHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
-+..+|||.||---+|++.|+.+|++|.....+.|-.-- --+||.|+.++.|..|+..|.|-..-... +.-|++
T Consensus 208 ~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg~~~s~~d-rgg~~i 283 (284)
T KOG1457|consen 208 RACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNLLSSSD-RGGMHI 283 (284)
T ss_pred hhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHHHHHHHHHHHHhhcceecccc-CCCccc
Confidence 478899999999999999999999997655544443333 34699999999999999999998885553 333443
No 86
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=92.93 E-value=0.05 Score=64.38 Aligned_cols=46 Identities=28% Similarity=0.309 Sum_probs=40.9
Q ss_pred CCCCcccchhhHHHHHHHcccccCCchHHHHHHHHHHHHHHHHHhH
Q 004904 10 NRPIDQWKVTELKEELKRRKLKSSGKKDDLIRLLDQAIRIERENAE 55 (724)
Q Consensus 10 n~~~~~~kV~elk~el~~r~L~t~GlK~dL~~rL~~al~~e~~~~e 55 (724)
+-.-|-|||.+||-||.-|+|.+||+|-+|++||.-+|.-|..+.+
T Consensus 643 kldpK~mKv~~lR~elegral~~KG~Ks~l~~rl~~~l~te~~~E~ 688 (1194)
T KOG4246|consen 643 KLDPKIMKVVVLRPELEGRALGMKGEKSDLPERLAIPLTTEPKEES 688 (1194)
T ss_pred ccCchhhhhhhhhhhhcccccccccchhhHHHHhhcccccchhhhh
Confidence 4457889999999999999999999999999999999988765444
No 87
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=92.87 E-value=0.32 Score=50.77 Aligned_cols=76 Identities=12% Similarity=0.244 Sum_probs=64.4
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe-----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM-----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL-----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
+-...|+|.||-+=++..+|+|||.++|.+..+-| .+-.+.|-|+|.--++|.++...+||+.. .|+++.+
T Consensus 81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~l----dG~~mk~ 156 (243)
T KOG0533|consen 81 TRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVAL----DGRPMKI 156 (243)
T ss_pred CCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCccc----CCceeee
Confidence 34467999999999999999999999998876666 56679999999999999999999999665 6787776
Q ss_pred eecCh
Q 004904 595 EFVDP 599 (724)
Q Consensus 595 DFv~p 599 (724)
.-+..
T Consensus 157 ~~i~~ 161 (243)
T KOG0533|consen 157 EIISS 161 (243)
T ss_pred EEecC
Confidence 65543
No 88
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=92.73 E-value=0.21 Score=55.55 Aligned_cols=66 Identities=17% Similarity=0.224 Sum_probs=56.5
Q ss_pred EeecccCCCCCHHHHHHHhcCcCCeeEEEecCcc------ceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEe
Q 004904 525 LRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIK------THCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAE 595 (724)
Q Consensus 525 LyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IK------SHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVD 595 (724)
||++||-+-.+..+|++.|..+|.|+.-.|..++ -++||+|.+.+++..+..|= |..-+++.|.|+
T Consensus 291 i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-----p~~ig~~kl~Ve 362 (419)
T KOG0116|consen 291 IFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-----PLEIGGRKLNVE 362 (419)
T ss_pred eEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-----ccccCCeeEEEE
Confidence 9999999999999999999999999976665544 78899999999999888876 666677778764
No 89
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=92.09 E-value=0.44 Score=53.32 Aligned_cols=85 Identities=15% Similarity=0.159 Sum_probs=74.1
Q ss_pred CceEeecccCC-CCCHHHHHHHhcCcCCeeEEEe-cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecCh
Q 004904 522 TNSLRIDHFVR-PFTLRAVQELLGKTGTFTSFWM-DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVDP 599 (724)
Q Consensus 522 T~aLyI~NLvR-PFT~~qLkElLsetGtI~~FWL-D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~p 599 (724)
++.|-+.||.- -.|++.|--+|+-||.|.++-| .+=|.++.|+|+..-.|.-|.+.|.|..| -+|.|+|-|+--
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd~ALIQmsd~~qAqLA~~hL~g~~l----~gk~lrvt~SKH 372 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKDNALIQMSDGQQAQLAMEHLEGHKL----YGKKLRVTLSKH 372 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCcceeeeecchhHHHHHHHHhhccee----cCceEEEeeccC
Confidence 78899999875 5799999999999999998766 66679999999999999999999999999 789999999987
Q ss_pred hhhhhhccCCC
Q 004904 600 QEVKMRTEAPP 610 (724)
Q Consensus 600 EeV~~~Ie~e~ 610 (724)
..|....+..+
T Consensus 373 ~~vqlp~egq~ 383 (492)
T KOG1190|consen 373 TNVQLPREGQE 383 (492)
T ss_pred ccccCCCCCCc
Confidence 77766554433
No 90
>PF04696 Pinin_SDK_memA: pinin/SDK/memA/ protein conserved region; InterPro: IPR006786 This conserved region is located adjacent and C-terminal to a N-terminal pinin/SKD domain IPR006787 from INTERPRO. Members of this family have very varied localisations within the eukaryotic cell. Pinin is known to localise at the desmosomes and is implicated in anchoring intermediate filaments to the desmosomal plaque []. SDK2/3 is a dynamically localised nuclear protein thought to be involved in modulation of alternative pre-mRNA splicing []. MemA is a tumour marker preferentially expressed in human melanoma cell lines. A common feature of the members of this family is that they may all participate in regulating protein-protein interactions [].
Probab=92.06 E-value=0.061 Score=50.80 Aligned_cols=17 Identities=53% Similarity=0.966 Sum_probs=15.4
Q ss_pred hhhhhcCCCceeeeeCC
Q 004904 691 LFRKTKATPRIYYLPLS 707 (724)
Q Consensus 691 LFRKTka~P~IYyLPLS 707 (724)
-|-+|+|.|+|||+|.-
T Consensus 98 ~fi~Tkt~P~iyy~P~k 114 (131)
T PF04696_consen 98 NFIRTKTEPHIYYLPWK 114 (131)
T ss_pred hhcccCCCCceeecccc
Confidence 58999999999999975
No 91
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=91.89 E-value=0.078 Score=55.77 Aligned_cols=58 Identities=28% Similarity=0.430 Sum_probs=52.5
Q ss_pred CcCCeeEEEe-----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecChhhhhhhc
Q 004904 545 KTGTFTSFWM-----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVDPQEVKMRT 606 (724)
Q Consensus 545 etGtI~~FWL-----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~pEeV~~~I 606 (724)
++|.|+.+=+ +.+++-.||.|-+.|+|.+|.+.|+|-.+ +|+++.++|++.-...+.+
T Consensus 92 kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~----~G~pi~ae~~pvT~~rea~ 154 (260)
T KOG2202|consen 92 KYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWY----NGRPIHAELSPVTDFREAI 154 (260)
T ss_pred HhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccc----cCCcceeeecCcCchhhhh
Confidence 6899887744 88999999999999999999999999999 9999999999988887655
No 92
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=91.63 E-value=0.4 Score=53.23 Aligned_cols=77 Identities=18% Similarity=0.231 Sum_probs=64.0
Q ss_pred eecccCCCCCHHHHHHHhcCcCCeeEEEe-cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecChhhhhh
Q 004904 526 RIDHFVRPFTLRAVQELLGKTGTFTSFWM-DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVDPQEVKM 604 (724)
Q Consensus 526 yI~NLvRPFT~~qLkElLsetGtI~~FWL-D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~pEeV~~ 604 (724)
-|-|-..|+|.+-|..+-.-.|.|.++-| -+---.+.|.|.|++.|.+|+.+|||..+=.. ==.|+++|+-|+.|.-
T Consensus 126 TIlNp~YpItvDVly~Icnp~GkVlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADIYsG--CCTLKIeyAkP~rlnV 203 (494)
T KOG1456|consen 126 TILNPQYPITVDVLYTICNPQGKVLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADIYSG--CCTLKIEYAKPTRLNV 203 (494)
T ss_pred EeecCccccchhhhhhhcCCCCceEEEEEEeccceeeEEeechhHHHHHHHhhccccccccc--ceeEEEEecCcceeee
Confidence 57899999999999999999999876544 33335799999999999999999999766333 3589999999998864
No 93
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=91.03 E-value=0.87 Score=53.82 Aligned_cols=74 Identities=12% Similarity=0.139 Sum_probs=64.7
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe---------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCC
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM---------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGR 590 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL---------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR 590 (724)
|-|.-||++||---++.++|-..|++||.|.+.-| ++-+-++||.|-+-.+|.+|..-|+|..+ .+.
T Consensus 172 P~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv----~~~ 247 (877)
T KOG0151|consen 172 PQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIV----MEY 247 (877)
T ss_pred CcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceee----eee
Confidence 57889999999999999999999999999876655 67778899999999999999999999988 566
Q ss_pred cEEEeec
Q 004904 591 PLVAEFV 597 (724)
Q Consensus 591 ~LrVDFv 597 (724)
.+++=|.
T Consensus 248 e~K~gWg 254 (877)
T KOG0151|consen 248 EMKLGWG 254 (877)
T ss_pred eeeeccc
Confidence 6665543
No 94
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=90.98 E-value=0.89 Score=47.24 Aligned_cols=82 Identities=16% Similarity=0.216 Sum_probs=68.2
Q ss_pred cCCCCC----CCCCceEeecccCCCCCHHHHHHHhcCcCCeeE-EEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCC
Q 004904 513 IVPPSP----KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTS-FWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNN 587 (724)
Q Consensus 513 ~VpPs~----hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~-FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en 587 (724)
.++|+. +|+..+|++.|+---.+...+..++.+++-... -||...+.-+||.|.+..+|..|+++|.|-..=.
T Consensus 133 ~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~~iAfve~~~d~~a~~a~~~lq~~~it~-- 210 (221)
T KOG4206|consen 133 NLPPPFLAQMAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRSGIAFVEFLSDRQASAAQQALQGFKITK-- 210 (221)
T ss_pred cCCCCccccCCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCCCceeEEecchhhhhHHHhhhhccceecc--
Confidence 344444 899999999999999999999999999877764 5667789999999999999999999999987732
Q ss_pred CCCcEEEeec
Q 004904 588 GGRPLVAEFV 597 (724)
Q Consensus 588 ~gR~LrVDFv 597 (724)
...+.+.|+
T Consensus 211 -~~~m~i~~a 219 (221)
T KOG4206|consen 211 -KNTMQITFA 219 (221)
T ss_pred -CceEEeccc
Confidence 335777765
No 95
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=90.71 E-value=0.29 Score=53.98 Aligned_cols=78 Identities=14% Similarity=0.191 Sum_probs=63.8
Q ss_pred CCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCc
Q 004904 518 PKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRP 591 (724)
Q Consensus 518 ~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~ 591 (724)
..||-+.|||+.|----|-..|.-+|+++|.|.+.=+ +--=.++||.|...+...+|+=.|.++.+ .-|-
T Consensus 235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLI----DDrR 310 (479)
T KOG0415|consen 235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLI----DDRR 310 (479)
T ss_pred cCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceee----ccce
Confidence 3589999999998655556678888999999875433 33346899999999999999999999999 5667
Q ss_pred EEEeecCh
Q 004904 592 LVAEFVDP 599 (724)
Q Consensus 592 LrVDFv~p 599 (724)
+.|||+.-
T Consensus 311 IHVDFSQS 318 (479)
T KOG0415|consen 311 IHVDFSQS 318 (479)
T ss_pred EEeehhhh
Confidence 99999864
No 96
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=89.74 E-value=1 Score=36.65 Aligned_cols=50 Identities=16% Similarity=0.279 Sum_probs=40.5
Q ss_pred eEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHH
Q 004904 524 SLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIET 574 (724)
Q Consensus 524 aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aA 574 (724)
.+-|.+|..- ....+..+|..+|.|+...++.-+...|+.|.+..+|.+|
T Consensus 3 wI~V~Gf~~~-~~~~vl~~F~~fGeI~~~~~~~~~~~~~l~y~~~~~ae~A 52 (53)
T PF14605_consen 3 WISVSGFPPD-LAEEVLEHFASFGEIVDIYVPESTNWMYLKYKSRKDAEKA 52 (53)
T ss_pred EEEEEeECch-HHHHHHHHHHhcCCEEEEEcCCCCcEEEEEECCHHHHHhh
Confidence 4556666533 3455677899999999999998899999999999999887
No 97
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=89.67 E-value=0.25 Score=50.91 Aligned_cols=66 Identities=15% Similarity=0.221 Sum_probs=57.3
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
+.|.+.||..=|....|+.+|...|.++..-+ ...++||.|++.+.|+++.+.|||... .++.|.+
T Consensus 100 ~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--~~~~~~v~Fs~~~da~ra~~~l~~~~~----~~~~l~~ 165 (216)
T KOG0106|consen 100 FRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--RRNFAFVEFSEQEDAKRALEKLDGKKL----NGRRISV 165 (216)
T ss_pred ceeeeccchhhhhHHHHhhhhcccCCCchhhh--hccccceeehhhhhhhhcchhccchhh----cCceeee
Confidence 45667888888888999999999999854434 889999999999999999999999999 7888888
No 98
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=89.55 E-value=0.52 Score=48.59 Aligned_cols=65 Identities=22% Similarity=0.232 Sum_probs=56.3
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCee------EEEecCccceEEEEecCHHHHHHHHHHhcCCcCC
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFT------SFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWP 584 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~------~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP 584 (724)
......+||+|+=+-.|..+++.++..+|.|. .-...+.|+++||.|.+.+.+..+.. |+|...|
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~ 168 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIP 168 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccc
Confidence 34567899999999999999999999998873 34446799999999999999999999 9999983
No 99
>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=89.20 E-value=1.6 Score=40.13 Aligned_cols=70 Identities=11% Similarity=0.117 Sum_probs=47.5
Q ss_pred ceEeecccCCCCCHHHHHHHhcC----c-CCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeec
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGK----T-GTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFV 597 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLse----t-GtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv 597 (724)
.-|||.||----....++.-|.+ + |.|.+. -.+.|++.|.+.+.|.+|...|+|..- -|..+.|.|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v----~~~tAilrF~~~~~A~RA~KRmegEdV----fG~kI~v~~~ 74 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV----SGGTAILRFPNQEFAERAQKRMEGEDV----FGNKISVSFS 74 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------TT-EEEEESSHHHHHHHHHHHTT--S----SSS--EEESS
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE----eCCEEEEEeCCHHHHHHHHHhhccccc----ccceEEEEEc
Confidence 46899999888889999988764 3 566665 259999999999999999999999654 4667999998
Q ss_pred Chh
Q 004904 598 DPQ 600 (724)
Q Consensus 598 ~pE 600 (724)
+..
T Consensus 75 ~~~ 77 (90)
T PF11608_consen 75 PKN 77 (90)
T ss_dssp --S
T ss_pred CCc
Confidence 743
No 100
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=88.46 E-value=0.36 Score=54.91 Aligned_cols=83 Identities=19% Similarity=0.244 Sum_probs=72.2
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEe--c----CccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM--D----HIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL--D----~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
+.+||+||--=|+..|++|+|..+|.+..|-+ | .=|++||..|.+..-.-.|.++|||... +.+.|+|-+
T Consensus 290 ~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~l----gd~~lvvq~ 365 (500)
T KOG0120|consen 290 NKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQL----GDKKLVVQR 365 (500)
T ss_pred chhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhh----cCceeEeeh
Confidence 45789999999999999999999999998877 3 4599999999999999999999999999 889999988
Q ss_pred cChhhhhhhccCC
Q 004904 597 VDPQEVKMRTEAP 609 (724)
Q Consensus 597 v~pEeV~~~Ie~e 609 (724)
+-+......+..+
T Consensus 366 A~~g~~~~~~~~~ 378 (500)
T KOG0120|consen 366 AIVGASNANVNFN 378 (500)
T ss_pred hhccchhccccCC
Confidence 8777666555555
No 101
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=88.18 E-value=0.91 Score=50.49 Aligned_cols=80 Identities=24% Similarity=0.382 Sum_probs=63.7
Q ss_pred CCCceEeecccCCCCCHHH-----HHHHhcCcCCeeEEEecCccc----------eEEEEecCHHHHHHHHHHhcCCcCC
Q 004904 520 SPTNSLRIDHFVRPFTLRA-----VQELLGKTGTFTSFWMDHIKT----------HCYVTYSSVEEAIETRNALYNIQWP 584 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~q-----LkElLsetGtI~~FWLD~IKS----------HCYVtFsSVEeA~aARsALhG~vWP 584 (724)
-.++.+.++|.+-|-..+. ++|--++||.|.++-|-+-|. ..||.|+.-.++-++..||+|..|
T Consensus 444 ~~S~VivLRNMV~P~DiDe~LegEi~EECgKfG~V~rViI~nekq~e~edaeiiVKIFVefS~~~e~~rak~ALdGRfF- 522 (544)
T KOG0124|consen 444 QESTVIVLRNMVDPKDIDEDLEGEITEECGKFGAVNRVIIYNEKQGEEEDAEIIVKIFVEFSIASETHRAKQALDGRFF- 522 (544)
T ss_pred ccCcEEEEeccCChhhhhhHHHHHHHHHHhcccceeEEEEEecccccccchhhhheeeeeechhhHHHHHHHhhcccee-
Confidence 4577888899999976553 444557799999888855554 469999999999999999999999
Q ss_pred CCCCCCcEEEeecChhhhh
Q 004904 585 PNNGGRPLVAEFVDPQEVK 603 (724)
Q Consensus 585 ~en~gR~LrVDFv~pEeV~ 603 (724)
+||.++++.-+++-++
T Consensus 523 ---gGr~VvAE~YDQ~~FD 538 (544)
T KOG0124|consen 523 ---GGRKVVAEVYDQERFD 538 (544)
T ss_pred ---cCceeehhhhhhhccc
Confidence 8998888877666543
No 102
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=87.02 E-value=1.9 Score=36.95 Aligned_cols=53 Identities=25% Similarity=0.469 Sum_probs=45.3
Q ss_pred ceEeecccCCCCCHHHHHHHhcCc----CCeeEEEecCccceEEEEecCHHHHHHHHHHh
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKT----GTFTSFWMDHIKTHCYVTYSSVEEAIETRNAL 578 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLset----GtI~~FWLD~IKSHCYVtFsSVEeA~aARsAL 578 (724)
.+|||++ +--|+-.+++.+|..| +...==|||- +.|=|.|.+.+.|.+|..+|
T Consensus 6 eavhirG-vd~lsT~dI~~y~~~y~~~~~~~~IEWIdD--tScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRG-VDELSTDDIKAYFSEYFDEEGPFRIEWIDD--TSCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEc-CCCCCHHHHHHHHHHhcccCCCceEEEecC--CcEEEEECCHHHHHHHHHcC
Confidence 5799999 5779999999999998 5554568875 78999999999999999876
No 103
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=86.38 E-value=0.53 Score=56.33 Aligned_cols=73 Identities=23% Similarity=0.273 Sum_probs=56.8
Q ss_pred cccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecChhhh
Q 004904 528 DHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVDPQEV 602 (724)
Q Consensus 528 ~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~pEeV 602 (724)
.|..--+|--.|..+...||.|.+.|+=+-=.|+.|.|++++.|+-|++||||..- .-.|-+-+|-|+-.-.+
T Consensus 304 ~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~N~alvs~~s~~sai~a~dAl~gkev--s~~g~Ps~V~~ak~~~~ 376 (1007)
T KOG4574|consen 304 ENNAVNLTSSSLATLCSDYGSVASAWTLRDLNMALVSFSSVESAILALDALQGKEV--SVTGAPSRVSFAKTLPM 376 (1007)
T ss_pred hcccccchHHHHHHHHHhhcchhhheecccccchhhhhHHHHHHHHhhhhhcCCcc--cccCCceeEEecccccc
Confidence 33333444445555667899999999988889999999999999999999999866 22467888888865544
No 104
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=86.24 E-value=2 Score=51.53 Aligned_cols=17 Identities=18% Similarity=0.528 Sum_probs=11.4
Q ss_pred ccCCCCCHHHHHHHhcC
Q 004904 529 HFVRPFTLRAVQELLGK 545 (724)
Q Consensus 529 NLvRPFT~~qLkElLse 545 (724)
-+.||-..+=+.+.+++
T Consensus 418 y~~rpqYykLIEecISq 434 (1102)
T KOG1924|consen 418 YYIRPQYYKLIEECISQ 434 (1102)
T ss_pred hhhhHHHHHHHHHHHHH
Confidence 36777777777776653
No 105
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=84.58 E-value=0.77 Score=48.24 Aligned_cols=89 Identities=9% Similarity=0.058 Sum_probs=70.6
Q ss_pred CCCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe-----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCc
Q 004904 517 SPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM-----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRP 591 (724)
Q Consensus 517 s~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL-----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~ 591 (724)
+..+.-++||+.||---.++.-|.|||-+.|.|..+-| ...| |+||-|...-.---|.+.|+|... -++.
T Consensus 4 aaae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l----~~~e 78 (267)
T KOG4454|consen 4 AAAEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDL----EEDE 78 (267)
T ss_pred CCcchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccchh----ccch
Confidence 34467889999999999999999999999999999988 3456 999999999999999999999887 4556
Q ss_pred EEEeec---ChhhhhhhccCCC
Q 004904 592 LVAEFV---DPQEVKMRTEAPP 610 (724)
Q Consensus 592 LrVDFv---~pEeV~~~Ie~e~ 610 (724)
+.+.|- ..+++...+..|.
T Consensus 79 ~q~~~r~G~shapld~r~~~ei 100 (267)
T KOG4454|consen 79 EQRTLRCGNSHAPLDERVTEEI 100 (267)
T ss_pred hhcccccCCCcchhhhhcchhh
Confidence 666653 3345555544444
No 106
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=84.02 E-value=1.3 Score=47.66 Aligned_cols=63 Identities=11% Similarity=0.116 Sum_probs=52.7
Q ss_pred CCCCCCCCCceEeecccCCCCCHHHHHHHhcCcCCee-EEEe-----cCccceEEEEecCHHHHHHHHH
Q 004904 514 VPPSPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFT-SFWM-----DHIKTHCYVTYSSVEEAIETRN 576 (724)
Q Consensus 514 VpPs~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~-~FWL-----D~IKSHCYVtFsSVEeA~aARs 576 (724)
..+..|..|..+||+.|.+-++...|+++|.++|.|. ..|| .+.|+|+||+|.+.+...+++.
T Consensus 89 ~~~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~ 157 (311)
T KOG4205|consen 89 TKVGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL 157 (311)
T ss_pred cccccccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc
Confidence 4455667899999999999999999999999999765 3444 6778999999999888776654
No 107
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=83.86 E-value=0.93 Score=47.96 Aligned_cols=78 Identities=22% Similarity=0.270 Sum_probs=64.1
Q ss_pred CCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCc
Q 004904 518 PKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRP 591 (724)
Q Consensus 518 ~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~ 591 (724)
..+...++++.||.+-++.+.|+.++..+|.|....+ ...|+++||.|.....+..++.. .+... .+++
T Consensus 181 ~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~----~~~~ 255 (285)
T KOG4210|consen 181 SGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSI----GGRP 255 (285)
T ss_pred cCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcc----cCcc
Confidence 3466677779999999999999999999999998777 45578889999999999999986 44444 5678
Q ss_pred EEEeecChh
Q 004904 592 LVAEFVDPQ 600 (724)
Q Consensus 592 LrVDFv~pE 600 (724)
++++|..+.
T Consensus 256 ~~~~~~~~~ 264 (285)
T KOG4210|consen 256 LRLEEDEPR 264 (285)
T ss_pred cccccCCCC
Confidence 888887654
No 108
>PF10208 Armet: Degradation arginine-rich protein for mis-folding; InterPro: IPR019345 This entry represents Armet proteins (aka mesencephalic astrocyte-derived neurotrophic factor or arginine-rich protein). Armet is a small protein of approximately 170 residues which contains four di-sulphide bridges that are highly conserved from nematodes to humans. Armet is a soluble protein resident in the endoplasmic reticulum and induced by ER stress. It appears to be involved with dealing with mis-folded proteins in the ER, thus in quality control of ER stress []. Armet from Rattus norvegicus (Rat) selectively promotes the survival of dopaminergic neurons of the ventral mid-brain. It modulates GABAergic transmission to the dopaminergic neurons of the substantia nigra, and enhances spontaneous, as well as evoked, GABAergic inhibitory postsynaptic currents in dopaminergic neurons [].; PDB: 2KVE_A 2KVD_A 2W51_A 2W50_B 2RQY_A.
Probab=82.52 E-value=1.1 Score=44.32 Aligned_cols=38 Identities=24% Similarity=0.408 Sum_probs=33.5
Q ss_pred CCCCCCcccchhhHHHHHHHcccccCCc--hHHHHHHHHH
Q 004904 8 LDNRPIDQWKVTELKEELKRRKLKSSGK--KDDLIRLLDQ 45 (724)
Q Consensus 8 l~n~~~~~~kV~elk~el~~r~L~t~Gl--K~dL~~rL~~ 45 (724)
|.+..+++|+|.+||.-|..+|+.-+|- |.|+|+|+.+
T Consensus 99 l~~~Dl~KlrVk~LK~iL~~~g~~C~GC~EK~dfv~ri~e 138 (154)
T PF10208_consen 99 LSTVDLKKLRVKQLKKILDDWGEDCKGCLEKSDFVRRIEE 138 (154)
T ss_dssp CCCTSTTTTCHHHHHHHHHHHTTT-SS-CSHHHHHHHCHC
T ss_pred hhhhHHhhCcHHHHHHHHHHcCCCCCCccchHHHHHHHHH
Confidence 5677999999999999999999999996 9999999875
No 109
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=81.97 E-value=1.5 Score=49.52 Aligned_cols=63 Identities=21% Similarity=0.424 Sum_probs=55.5
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCc-------------------cceEEEEecCHHHHHHHHHHhc-C
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHI-------------------KTHCYVTYSSVEEAIETRNALY-N 580 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~I-------------------KSHCYVtFsSVEeA~aARsALh-G 580 (724)
++++|-..||-----..-|..+|+..|.|..++|=+. |-|++|.|..++.|.+|+..|+ -
T Consensus 230 ~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~e 309 (484)
T KOG1855|consen 230 PSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNPE 309 (484)
T ss_pred ccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhchh
Confidence 7889999999777777889999999999999888544 7899999999999999999995 5
Q ss_pred CcC
Q 004904 581 IQW 583 (724)
Q Consensus 581 ~vW 583 (724)
..|
T Consensus 310 ~~w 312 (484)
T KOG1855|consen 310 QNW 312 (484)
T ss_pred hhh
Confidence 788
No 110
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=81.89 E-value=1.1 Score=48.41 Aligned_cols=57 Identities=19% Similarity=0.222 Sum_probs=49.4
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHH
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNA 577 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsA 577 (724)
..+.|||++|..-.+.+.|+++|+++|.|...-+ .+-|+|.||+|.+.+.-.++..+
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~ 67 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNA 67 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecc
Confidence 5688999999999999999999999999876555 56789999999988877777766
No 111
>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=80.23 E-value=1.8 Score=42.77 Aligned_cols=81 Identities=19% Similarity=0.238 Sum_probs=54.8
Q ss_pred ceEeecccCCCCCHHHHHHHhcC-cCCe---eEEE--e------cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCC-
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGK-TGTF---TSFW--M------DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGG- 589 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLse-tGtI---~~FW--L------D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~g- 589 (724)
.-|-|++|---+|..+|.+.|+. .|.- ..|. . ..+-|.||+.|.+.+....-+..++|..|=+..+.
T Consensus 8 ~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg~~ 87 (176)
T PF03467_consen 8 TKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSKGNE 87 (176)
T ss_dssp -EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TTS-E
T ss_pred ceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCCCCC
Confidence 46889999999999999997776 3333 1221 1 34569999999999999999999999999777544
Q ss_pred CcEEEeecChhhhh
Q 004904 590 RPLVAEFVDPQEVK 603 (724)
Q Consensus 590 R~LrVDFv~pEeV~ 603 (724)
....|+|++=..+-
T Consensus 88 ~~~~VE~Apyqk~p 101 (176)
T PF03467_consen 88 YPAVVEFAPYQKVP 101 (176)
T ss_dssp EEEEEEE-SS----
T ss_pred cceeEEEcchhccc
Confidence 36788999876663
No 112
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=79.05 E-value=5.5 Score=47.54 Aligned_cols=74 Identities=18% Similarity=0.177 Sum_probs=59.9
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCc----CCeeEEEe--cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcE
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKT----GTFTSFWM--DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPL 592 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLset----GtI~~FWL--D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~L 592 (724)
+|-.+.|-+.||-+-.+++++-++|.-| |.|..=|= +..-+-|.|.|.|.++|.+|..-|+|..+ ..|.+
T Consensus 864 ~pGp~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i----~nr~V 939 (944)
T KOG4307|consen 864 SPGPRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKI----RNRVV 939 (944)
T ss_pred CCCCeEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcc----cceeE
Confidence 4566699999999999999999999876 44442222 33458999999999999999999999998 66777
Q ss_pred EEee
Q 004904 593 VAEF 596 (724)
Q Consensus 593 rVDF 596 (724)
.++.
T Consensus 940 ~l~i 943 (944)
T KOG4307|consen 940 SLRI 943 (944)
T ss_pred EEEe
Confidence 7764
No 113
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=78.01 E-value=3 Score=50.47 Aligned_cols=79 Identities=15% Similarity=0.201 Sum_probs=66.5
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecC
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVD 598 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~ 598 (724)
.-+|.-|++++|--=.-..+|...|.++|.|...=+++--.++|+.|.+...|.++..-|.|.-. +.+.+.|+|||+.
T Consensus 452 st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq~yayi~yes~~~aq~a~~~~rgap~--G~P~~r~rvdla~ 529 (975)
T KOG0112|consen 452 STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQPYAYIQYESPPAAQAATHDMRGAPL--GGPPRRLRVDLAS 529 (975)
T ss_pred cccceeeccCCCCCCChHHHHHHHhhccCcceeeecccCCcceeeecccCccchhhHHHHhcCcC--CCCCccccccccc
Confidence 34667788888877777788888999999999988899999999999999999999999999766 4345669999986
Q ss_pred h
Q 004904 599 P 599 (724)
Q Consensus 599 p 599 (724)
+
T Consensus 530 ~ 530 (975)
T KOG0112|consen 530 P 530 (975)
T ss_pred C
Confidence 4
No 114
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=77.63 E-value=1.8 Score=46.26 Aligned_cols=63 Identities=14% Similarity=0.168 Sum_probs=55.8
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCc------------------cceEEEEecCHHHHHHHHHHhcCCc
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHI------------------KTHCYVTYSSVEEAIETRNALYNIQ 582 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~I------------------KSHCYVtFsSVEeA~aARsALhG~v 582 (724)
-|-.+||.|+--=+...-|+++|++||.|-++||-.= =+-++|.|-+--.|.++...|||..
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~ 152 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP 152 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence 6789999999999999999999999999999998221 1457899999999999999999998
Q ss_pred C
Q 004904 583 W 583 (724)
Q Consensus 583 W 583 (724)
+
T Consensus 153 I 153 (278)
T KOG3152|consen 153 I 153 (278)
T ss_pred c
Confidence 8
No 115
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=76.75 E-value=4.8 Score=43.99 Aligned_cols=81 Identities=23% Similarity=0.304 Sum_probs=60.7
Q ss_pred CCCceEeecccCCCCCH-----HHHHHHhcCcCCeeEEEecCc-------cceEEEEecCHHHHHHHHHHhcCCcCCCCC
Q 004904 520 SPTNSLRIDHFVRPFTL-----RAVQELLGKTGTFTSFWMDHI-------KTHCYVTYSSVEEAIETRNALYNIQWPPNN 587 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~-----~qLkElLsetGtI~~FWLD~I-------KSHCYVtFsSVEeA~aARsALhG~vWP~en 587 (724)
-+|..|..+|.|-+=.. ..+++-..+||.|..+-|=-| --..||.|+.+++|++|.--|+|.++
T Consensus 279 ~ptkvlllrnmVg~gevd~elede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyF---- 354 (378)
T KOG1996|consen 279 CPTKVLLLRNMVGAGEVDEELEDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYF---- 354 (378)
T ss_pred cchHHHHhhhhcCcccccHHHHHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCcee----
Confidence 35556667777766442 233444456898876555222 23579999999999999999999999
Q ss_pred CCCcEEEeecChhhhhh
Q 004904 588 GGRPLVAEFVDPQEVKM 604 (724)
Q Consensus 588 ~gR~LrVDFv~pEeV~~ 604 (724)
+||.+++-|-..+++..
T Consensus 355 GGr~v~A~Fyn~ekfs~ 371 (378)
T KOG1996|consen 355 GGRVVSACFYNLEKFSN 371 (378)
T ss_pred cceeeeheeccHHhhhh
Confidence 99999999999988764
No 116
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=75.61 E-value=2.8 Score=32.43 Aligned_cols=31 Identities=29% Similarity=0.498 Sum_probs=21.3
Q ss_pred cccchhhHHHHHHHcccc--cCCchHHHHHHHH
Q 004904 14 DQWKVTELKEELKRRKLK--SSGKKDDLIRLLD 44 (724)
Q Consensus 14 ~~~kV~elk~el~~r~L~--t~GlK~dL~~rL~ 44 (724)
+.|+|.+||..|..+|+. ++.-|+|||+-++
T Consensus 2 ~sltV~~Lk~iL~~~~I~~ps~AkKaeLv~L~~ 34 (35)
T PF12949_consen 2 KSLTVAQLKRILDEHGIEFPSNAKKAELVALFN 34 (35)
T ss_dssp TT--SHHHHHHHHHHT---SSS--SHHHHHH--
T ss_pred CcCcHHHHHHHHHHcCCCCCCCCCHHHHHHHHc
Confidence 679999999999999974 7889999998765
No 117
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=75.02 E-value=5.7 Score=45.70 Aligned_cols=58 Identities=21% Similarity=0.263 Sum_probs=50.8
Q ss_pred CCCceEeecccCCCCCHHHHHHHhc-CcCCeeEEEecC------ccceEEEEecCHHHHHHHHHH
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLG-KTGTFTSFWMDH------IKTHCYVTYSSVEEAIETRNA 577 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLs-etGtI~~FWLD~------IKSHCYVtFsSVEeA~aARsA 577 (724)
-+.+|+||+.|-||+|...|-.+|. .||.|...=||- +|+-+=|+|++..+=.+|.+|
T Consensus 368 DprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 368 DPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred CccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 5789999999999999999999998 689998666643 489999999999999999874
No 118
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=73.73 E-value=8.6 Score=42.74 Aligned_cols=71 Identities=17% Similarity=0.218 Sum_probs=59.4
Q ss_pred CceEeecccCCCCCHHHHHHHhcCcCCee----------EEEe---cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCC
Q 004904 522 TNSLRIDHFVRPFTLRAVQELLGKTGTFT----------SFWM---DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNG 588 (724)
Q Consensus 522 T~aLyI~NLvRPFT~~qLkElLsetGtI~----------~FWL---D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~ 588 (724)
...+||.||---.|.+.+.++++.+|.|. .||- +++|+-+...|.-.|.-.=|..-|++... .
T Consensus 134 Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~----r 209 (382)
T KOG1548|consen 134 NTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDEL----R 209 (382)
T ss_pred CceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccc----c
Confidence 34599999999999999999999998874 3444 78999888888888888888888999988 7
Q ss_pred CCcEEEee
Q 004904 589 GRPLVAEF 596 (724)
Q Consensus 589 gR~LrVDF 596 (724)
|+.|+|.-
T Consensus 210 g~~~rVer 217 (382)
T KOG1548|consen 210 GKKLRVER 217 (382)
T ss_pred CcEEEEeh
Confidence 88899753
No 119
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=72.79 E-value=7.9 Score=43.00 Aligned_cols=76 Identities=21% Similarity=0.280 Sum_probs=59.9
Q ss_pred CCCCCCCCceEeecccCCCCCH-------HHHHHHh----cCcCCeeEEEe--cCccceEEEEecCHHHHHHHHHHhcCC
Q 004904 515 PPSPKSPTNSLRIDHFVRPFTL-------RAVQELL----GKTGTFTSFWM--DHIKTHCYVTYSSVEEAIETRNALYNI 581 (724)
Q Consensus 515 pPs~hPpT~aLyI~NLvRPFT~-------~qLkElL----setGtI~~FWL--D~IKSHCYVtFsSVEeA~aARsALhG~ 581 (724)
.++.....+++.|.|+.-|..+ ..|++=| .++|.|.++-+ ..+.+-+-|.|.+-++|-.|...|||.
T Consensus 258 ~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR 337 (382)
T KOG1548|consen 258 DPSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGR 337 (382)
T ss_pred ccccccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCe
Confidence 4566678889999999777532 3344433 24899976555 588999999999999999999999999
Q ss_pred cCCCCCCCCcEEE
Q 004904 582 QWPPNNGGRPLVA 594 (724)
Q Consensus 582 vWP~en~gR~LrV 594 (724)
++ .||.|.+
T Consensus 338 ~f----dgRql~A 346 (382)
T KOG1548|consen 338 WF----DGRQLTA 346 (382)
T ss_pred ee----cceEEEE
Confidence 99 8888874
No 120
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=69.50 E-value=15 Score=36.43 Aligned_cols=83 Identities=18% Similarity=0.216 Sum_probs=49.0
Q ss_pred cCCCCCCCCCceEeecccC------CCCCHH---HHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcC
Q 004904 513 IVPPSPKSPTNSLRIDHFV------RPFTLR---AVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQW 583 (724)
Q Consensus 513 ~VpPs~hPpT~aLyI~NLv------RPFT~~---qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vW 583 (724)
.|-.++.||-.++.+.=+- -.|... +|-+.|+++|.++-.++.. .+.+|||.+-..|-+|.+ |+|++.
T Consensus 18 eVi~~~GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~--~~mwVTF~dg~sALaals-~dg~~v 94 (146)
T PF08952_consen 18 EVISSQGPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVG--DTMWVTFRDGQSALAALS-LDGIQV 94 (146)
T ss_dssp --S-----TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEET--TCEEEEESSCHHHHHHHH-GCCSEE
T ss_pred HHHHhcCCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeC--CeEEEEECccHHHHHHHc-cCCcEE
Confidence 3556667777666553333 234432 4444567899988666544 699999999999999986 899999
Q ss_pred CCCCCCCcEEEeecChhhh
Q 004904 584 PPNNGGRPLVAEFVDPQEV 602 (724)
Q Consensus 584 P~en~gR~LrVDFv~pEeV 602 (724)
+|+.|.+..-+++-+
T Consensus 95 ----~g~~l~i~LKtpdW~ 109 (146)
T PF08952_consen 95 ----NGRTLKIRLKTPDWL 109 (146)
T ss_dssp ----TTEEEEEEE------
T ss_pred ----CCEEEEEEeCCccHH
Confidence 899999999888755
No 121
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=68.73 E-value=6.8 Score=44.17 Aligned_cols=67 Identities=19% Similarity=0.367 Sum_probs=51.4
Q ss_pred eEeecccCCCCCHHHHHHHhcCcCCeeEE---------EecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 524 SLRIDHFVRPFTLRAVQELLGKTGTFTSF---------WMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 524 aLyI~NLvRPFT~~qLkElLsetGtI~~F---------WLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
+|++.|+.-..|-+|++.||+--|.|..+ -++-|.-.|||.|.+...+..|. -|.+.++ -++.|+|
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvf----vdraliv 83 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVF----VDRALIV 83 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhcccee----eeeeEEE
Confidence 89999999999999999999877776544 44777889999998877766554 4666666 4566655
Q ss_pred e
Q 004904 595 E 595 (724)
Q Consensus 595 D 595 (724)
-
T Consensus 84 ~ 84 (479)
T KOG4676|consen 84 R 84 (479)
T ss_pred E
Confidence 3
No 122
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=66.97 E-value=12 Score=45.10 Aligned_cols=16 Identities=31% Similarity=0.519 Sum_probs=11.8
Q ss_pred CCCceeeeeCCHHHHH
Q 004904 697 ATPRIYYLPLSEEQVA 712 (724)
Q Consensus 697 a~P~IYyLPLSeeqVa 712 (724)
..|.|.|+++-.-||.
T Consensus 370 ~~p~lnW~alKP~qv~ 385 (830)
T KOG1923|consen 370 KSPSLNWLALKPIQVK 385 (830)
T ss_pred cCCCccccccCccccc
Confidence 3688999998765553
No 123
>KOG3756 consensus Pinin (desmosome-associated protein) [Cytoskeleton]
Probab=66.95 E-value=3.1 Score=45.45 Aligned_cols=17 Identities=29% Similarity=0.784 Sum_probs=14.7
Q ss_pred hhhhhcCCCceeeeeCC
Q 004904 691 LFRKTKATPRIYYLPLS 707 (724)
Q Consensus 691 LFRKTka~P~IYyLPLS 707 (724)
-|-+|+|+|||||-|+-
T Consensus 230 ~~IRTKTkPhlFy~P~k 246 (340)
T KOG3756|consen 230 NYIRTKTKPHLFYRPVK 246 (340)
T ss_pred hhhhcCCCCceeecccc
Confidence 36789999999999974
No 124
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=63.62 E-value=3 Score=45.59 Aligned_cols=62 Identities=19% Similarity=0.245 Sum_probs=49.3
Q ss_pred HHhcCcCCeeEEEecCcc---------ceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecChhhhhhhc
Q 004904 541 ELLGKTGTFTSFWMDHIK---------THCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVDPQEVKMRT 606 (724)
Q Consensus 541 ElLsetGtI~~FWLD~IK---------SHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~pEeV~~~I 606 (724)
++|++||.|...-+.+-. -+.|+||...|+|.++....||.+. .++.|++-|-+.--=..|+
T Consensus 99 eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~----dg~~lka~~gttkycs~~l 169 (327)
T KOG2068|consen 99 EYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVD----DGRALKASLGTTKYCSFYL 169 (327)
T ss_pred ccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHh----hhhhhHHhhCCCcchhHHh
Confidence 467888988877775433 3689999999999999999999999 8888888887766554443
No 125
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=62.54 E-value=13 Score=41.90 Aligned_cols=61 Identities=16% Similarity=0.210 Sum_probs=55.0
Q ss_pred CCCCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHH
Q 004904 516 PSPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRN 576 (724)
Q Consensus 516 Ps~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARs 576 (724)
|-..+++-.+||++|-.-.++.+|-+.|+.+|.|...-+-.-|..+.|.|.+++.|..+..
T Consensus 25 phk~~~spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~~r~alvefedi~~akn~Vn 85 (494)
T KOG1456|consen 25 PHKPNPSPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPHKRQALVEFEDIEGAKNCVN 85 (494)
T ss_pred CCCCCCCceEEEeccccccchhHHHHHHhcCCceEEEEeccccceeeeeeccccchhhhee
Confidence 3344678899999999999999999999999999999999999999999999999988754
No 126
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=61.57 E-value=5.7 Score=47.43 Aligned_cols=84 Identities=10% Similarity=0.139 Sum_probs=71.3
Q ss_pred CCCCCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEE-e-----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCC
Q 004904 515 PPSPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFW-M-----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNG 588 (724)
Q Consensus 515 pPs~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FW-L-----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~ 588 (724)
.|.+|+++.+|||-.|-.=.+...+-.+|...-+|++|. | |+.++-+||.|-..+++-.|...-|-.+. +
T Consensus 427 vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~----G 502 (944)
T KOG4307|consen 427 VPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYP----G 502 (944)
T ss_pred CCCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchhhhccccccc----C
Confidence 567899999999999988888888888888888888753 3 88999999999998888877776666665 6
Q ss_pred CCcEEEeecChhhh
Q 004904 589 GRPLVAEFVDPQEV 602 (724)
Q Consensus 589 gR~LrVDFv~pEeV 602 (724)
-|.|+|+-++.+.+
T Consensus 503 ~r~irv~si~~~~m 516 (944)
T KOG4307|consen 503 HRIIRVDSIADYAM 516 (944)
T ss_pred ceEEEeechhhHHH
Confidence 78999999998877
No 127
>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=58.84 E-value=27 Score=30.24 Aligned_cols=50 Identities=18% Similarity=0.132 Sum_probs=39.2
Q ss_pred CCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcC
Q 004904 531 VRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQW 583 (724)
Q Consensus 531 vRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vW 583 (724)
+.+++...+|..|..++-. |+=.=||=-||+|.+..+|.++..+.+|...
T Consensus 9 ~~~~~v~d~K~~Lr~y~~~---~I~~d~tGfYIvF~~~~Ea~rC~~~~~~~~~ 58 (66)
T PF11767_consen 9 VHGVTVEDFKKRLRKYRWD---RIRDDRTGFYIVFNDSKEAERCFRAEDGTLF 58 (66)
T ss_pred CCCccHHHHHHHHhcCCcc---eEEecCCEEEEEECChHHHHHHHHhcCCCEE
Confidence 4688999999999987632 2222356679999999999999999998654
No 128
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=58.24 E-value=12 Score=43.86 Aligned_cols=61 Identities=20% Similarity=0.364 Sum_probs=48.6
Q ss_pred ceEeeccc--CCCCCHHHHHH----HhcCcCCeeEEEe-----cCccceEEEEecCHHHHHHHHHHhcCCcC
Q 004904 523 NSLRIDHF--VRPFTLRAVQE----LLGKTGTFTSFWM-----DHIKTHCYVTYSSVEEAIETRNALYNIQW 583 (724)
Q Consensus 523 ~aLyI~NL--vRPFT~~qLkE----lLsetGtI~~FWL-----D~IKSHCYVtFsSVEeA~aARsALhG~vW 583 (724)
+.+.|.|. +-|..+.-||. +|++.|.|+.+++ +.-|++.|+.|.+...|..|...|||...
T Consensus 59 ~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~l 130 (698)
T KOG2314|consen 59 SVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRL 130 (698)
T ss_pred eEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhccccee
Confidence 34455553 44555555555 4678999999999 67899999999999999999999999877
No 129
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=58.07 E-value=9.4 Score=39.69 Aligned_cols=69 Identities=16% Similarity=0.161 Sum_probs=58.3
Q ss_pred eEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecC
Q 004904 524 SLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVD 598 (724)
Q Consensus 524 aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~ 598 (724)
-+||++|.--....+|.++|..+|.|-.+-|-. +++||.|.+.-+|--|.--|||...+-+ .|.++|..
T Consensus 3 rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~--gf~fv~fed~rda~Dav~~l~~~~l~~e----~~vve~~r 71 (216)
T KOG0106|consen 3 RVYIGRLPYRARERDVERFFKGYGKIPDADMKN--GFGFVEFEDPRDADDAVHDLDGKELCGE----RLVVEHAR 71 (216)
T ss_pred ceeecccCCccchhHHHHHHhhccccccceeec--ccceeccCchhhhhcccchhcCceecce----eeeeeccc
Confidence 479999999999999999999999998876643 5669999999999999999999999444 37777754
No 130
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=51.96 E-value=54 Score=37.40 Aligned_cols=83 Identities=12% Similarity=0.109 Sum_probs=69.2
Q ss_pred CCceEeecccCCCCCHHHHHHHhcCcCCee---EEEe-----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcE
Q 004904 521 PTNSLRIDHFVRPFTLRAVQELLGKTGTFT---SFWM-----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPL 592 (724)
Q Consensus 521 pT~aLyI~NLvRPFT~~qLkElLsetGtI~---~FWL-----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~L 592 (724)
.++.|++++|-+-.|..++-.+|+.+-+-. ++.| ++.-+-+||.|.+.|.|.+|...-|...- ..|-+
T Consensus 279 ~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~m----k~RYi 354 (508)
T KOG1365|consen 279 SKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLM----KSRYI 354 (508)
T ss_pred CCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhc----ccceE
Confidence 388999999999999999999999876533 4566 78899999999999999999999998877 45666
Q ss_pred EEeecChhhhhhhcc
Q 004904 593 VAEFVDPQEVKMRTE 607 (724)
Q Consensus 593 rVDFv~pEeV~~~Ie 607 (724)
-|==++-||+.+.+-
T Consensus 355 Evfp~S~eeln~vL~ 369 (508)
T KOG1365|consen 355 EVFPCSVEELNEVLS 369 (508)
T ss_pred EEeeccHHHHHHHHh
Confidence 666678899987653
No 131
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=51.18 E-value=16 Score=40.14 Aligned_cols=63 Identities=10% Similarity=0.270 Sum_probs=51.0
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCee--EEEecCccceEEEEecCHHHHHHHHHHhcCCcC
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFT--SFWMDHIKTHCYVTYSSVEEAIETRNALYNIQW 583 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~--~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vW 583 (724)
++-.-+|++||.|-.+..+|+..|.+-|.+. --|- ...+.||.-|.+-..|.++..++...-|
T Consensus 328 ~~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk-g~~~k~flh~~~~~~~~~~~~~~~~~~~ 392 (396)
T KOG4410|consen 328 GAKTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK-GHFGKCFLHFGNRKGVPSTQDDMDKVLK 392 (396)
T ss_pred ccccceeeccCccccchHHHHHHHHhcCCCceeEeee-cCCcceeEecCCccCCCCCchHHHHHhc
Confidence 3444599999999999999999999887654 3454 4567899999998888888888877777
No 132
>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=50.94 E-value=17 Score=30.94 Aligned_cols=61 Identities=16% Similarity=0.138 Sum_probs=38.0
Q ss_pred CCCCCHHHHHHHhcCcCCeeEEEecCc---cceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEee
Q 004904 531 VRPFTLRAVQELLGKTGTFTSFWMDHI---KTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEF 596 (724)
Q Consensus 531 vRPFT~~qLkElLsetGtI~~FWLD~I---KSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDF 596 (724)
..=++...|-.+|...+.|.+=-|++| ..|+||.... +.|..+.++|+|..+ .|+.|++.-
T Consensus 10 ~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~~S~vev~~-~~a~~v~~~l~~~~~----~gk~v~ve~ 73 (74)
T PF03880_consen 10 KDGLTPRDIVGAICNEAGIPGRDIGRIDIFDNFSFVEVPE-EVAEKVLEALNGKKI----KGKKVRVER 73 (74)
T ss_dssp GGT--HHHHHHHHHTCTTB-GGGEEEEEE-SS-EEEEE-T-T-HHHHHHHHTT--S----SS----EEE
T ss_pred ccCCCHHHHHHHHHhccCCCHHhEEEEEEeeeEEEEEECH-HHHHHHHHHhcCCCC----CCeeEEEEE
Confidence 345778889999988877775555555 4899999765 488999999999999 888888764
No 133
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=48.41 E-value=73 Score=39.24 Aligned_cols=13 Identities=8% Similarity=0.562 Sum_probs=9.4
Q ss_pred ceeeeeCCHHHHH
Q 004904 700 RIYYLPLSEEQVA 712 (724)
Q Consensus 700 ~IYyLPLSeeqVa 712 (724)
.-||+=+.|++.+
T Consensus 642 ~cFWvkv~Edk~e 654 (1102)
T KOG1924|consen 642 NCFWVKVNEDKLE 654 (1102)
T ss_pred cceeeecchhhcc
Confidence 3578888887764
No 134
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=46.33 E-value=28 Score=37.68 Aligned_cols=65 Identities=9% Similarity=0.085 Sum_probs=49.3
Q ss_pred eecccCCCCCHHHHHHHhcCcC------CeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEE
Q 004904 526 RIDHFVRPFTLRAVQELLGKTG------TFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVA 594 (724)
Q Consensus 526 yI~NLvRPFT~~qLkElLsetG------tI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrV 594 (724)
|-+.|---.+..-|-..|.++- .|.+=+-++-|+++||.|.+.+++++|..-|+|.+- +.|++.+
T Consensus 194 fcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyV----gsrpikl 264 (290)
T KOG0226|consen 194 FCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYV----GSRPIKL 264 (290)
T ss_pred ecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhccccc----ccchhHh
Confidence 3344554566666666666542 355778899999999999999999999999999998 6666554
No 135
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=44.07 E-value=29 Score=37.03 Aligned_cols=59 Identities=5% Similarity=-0.022 Sum_probs=48.0
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeE------EEecCccceEEEEecCHHHHHHHHHHh
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTS------FWMDHIKTHCYVTYSSVEEAIETRNAL 578 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~------FWLD~IKSHCYVtFsSVEeA~aARsAL 578 (724)
...+++|++++..+.-......++.++|.... +-=+.+|+.||+-|.+.+++..+....
T Consensus 86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s 150 (285)
T KOG4210|consen 86 GSSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEES 150 (285)
T ss_pred cccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhh
Confidence 57899999999999988877777777886542 222789999999999999999987643
No 136
>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=42.03 E-value=57 Score=30.23 Aligned_cols=59 Identities=12% Similarity=0.066 Sum_probs=43.1
Q ss_pred CCHHHHHHHhcCcCCeeEEE-------------ecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcE-EEeec
Q 004904 534 FTLRAVQELLGKTGTFTSFW-------------MDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPL-VAEFV 597 (724)
Q Consensus 534 FT~~qLkElLsetGtI~~FW-------------LD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~L-rVDFv 597 (724)
-...+|-++|+++|+|.... +-.-..--.++|.+..+|.+|.. -||.++ ++..+ -|-|+
T Consensus 17 ~~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~----~g~~mvGV~~~ 89 (100)
T PF05172_consen 17 SASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIF----SGSLMVGVKPC 89 (100)
T ss_dssp GGHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEE----TTCEEEEEEE-
T ss_pred HHHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEE----cCcEEEEEEEc
Confidence 35677888999999998554 55667888999999999999886 588888 55533 35555
No 137
>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=42.00 E-value=88 Score=29.01 Aligned_cols=54 Identities=17% Similarity=0.377 Sum_probs=43.1
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhc
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALY 579 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALh 579 (724)
..+|+. |-.--...+|.+||+-+|.|.==|||- |.|||....-+.|..+..++.
T Consensus 10 HVFhlt-FPkeWK~~DI~qlFspfG~I~VsWi~d--TSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 10 HVFHLT-FPKEWKTSDIYQLFSPFGQIYVSWIND--TSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp CEEEEE---TT--HHHHHHHCCCCCCEEEEEECT--TEEEEEECCCHHHHHHHHHHT
T ss_pred eEEEEe-CchHhhhhhHHHHhccCCcEEEEEEcC--CcEEEEeecHHHHHHHHHHhc
Confidence 345555 555566778999999999999999986 799999999999999998885
No 138
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=41.19 E-value=15 Score=42.32 Aligned_cols=81 Identities=20% Similarity=0.186 Sum_probs=59.4
Q ss_pred cCCCCC--CCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCC
Q 004904 513 IVPPSP--KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGR 590 (724)
Q Consensus 513 ~VpPs~--hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR 590 (724)
.|++.. +.-+..|.+.-|--+ |...|..||+++|+|..+=++----|+.|||.+-.+|-+|. +.||.++ ++|
T Consensus 363 gv~g~~~~dhs~l~lek~~~gln-t~a~ln~hfA~fG~i~n~qv~~~~~~a~vTF~t~aeag~a~-~s~~avl----nnr 436 (526)
T KOG2135|consen 363 GVPGHAVVDHSPLALEKSPFGLN-TIADLNPHFAQFGEIENIQVDYSSLHAVVTFKTRAEAGEAY-ASHGAVL----NNR 436 (526)
T ss_pred CCCcchhcccchhhhhccCCCCc-hHhhhhhhhhhcCccccccccCchhhheeeeeccccccchh-cccccee----cCc
Confidence 355443 455566666555444 56778889999999998888766789999999999995543 4689888 788
Q ss_pred cEEEeecCh
Q 004904 591 PLVAEFVDP 599 (724)
Q Consensus 591 ~LrVDFv~p 599 (724)
.++|-+..+
T Consensus 437 ~iKl~whnp 445 (526)
T KOG2135|consen 437 FIKLFWHNP 445 (526)
T ss_pred eeEEEEecC
Confidence 888755543
No 139
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=40.62 E-value=3e+02 Score=31.54 Aligned_cols=60 Identities=15% Similarity=0.079 Sum_probs=49.8
Q ss_pred eEeecccCCCCCHHHHHHHhcCcCCe--e--EEEe----cCccceEEEEecCHHHHHHHHHHhcCCcC
Q 004904 524 SLRIDHFVRPFTLRAVQELLGKTGTF--T--SFWM----DHIKTHCYVTYSSVEEAIETRNALYNIQW 583 (724)
Q Consensus 524 aLyI~NLvRPFT~~qLkElLsetGtI--~--~FWL----D~IKSHCYVtFsSVEeA~aARsALhG~vW 583 (724)
.+||+||.-=-|-.+|-+.|..+|.- . .||= ++-|+|++|...|..+.+++++-|--..+
T Consensus 82 ~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~i 149 (498)
T KOG4849|consen 82 CCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTI 149 (498)
T ss_pred EEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhccccee
Confidence 68999999999999999999888852 2 4555 56799999999999999999998755444
No 140
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=40.09 E-value=66 Score=37.41 Aligned_cols=54 Identities=13% Similarity=0.255 Sum_probs=45.2
Q ss_pred ceEeecccCCCCCHHHHHHHhcCcCCeeEEEe----cCccceEEEEecCHHHHHHHHHH
Q 004904 523 NSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM----DHIKTHCYVTYSSVEEAIETRNA 577 (724)
Q Consensus 523 ~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL----D~IKSHCYVtFsSVEeA~aARsA 577 (724)
--++++.|-...|.+.|.++|+-.+ |..|-+ .+..+-+||.|.+.|++..|+..
T Consensus 11 ~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Alkk 68 (510)
T KOG4211|consen 11 FEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALKK 68 (510)
T ss_pred eEEEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHHh
Confidence 3467799999999999999998754 666666 56679999999999999998764
No 141
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=34.22 E-value=39 Score=34.98 Aligned_cols=72 Identities=18% Similarity=0.205 Sum_probs=50.6
Q ss_pred ccCCCCCHHHHHHHhcCcCCeeEEEecCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEEEeecChhhhh
Q 004904 529 HFVRPFTLRAVQELLGKTGTFTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLVAEFVDPQEVK 603 (724)
Q Consensus 529 NLvRPFT~~qLkElLsetGtI~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~LrVDFv~pEeV~ 603 (724)
-|+-...-..+.++|.++....-|-+=+-+.+--|.|++-+.|.+||-.||+..++-.+ .|+.-|..+.-+.
T Consensus 22 VF~~~~~k~~~~~lFrq~n~~~~fq~lrsfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~---~~k~yfaQ~~~~~ 93 (193)
T KOG4019|consen 22 VFVNREDKALFENLFRQINEDATFQLLRSFRRVRINFSNPEAAADARIKLHSTSFNGKN---ELKLYFAQPGHPE 93 (193)
T ss_pred hhccHHHHHHHHhHHhhhCcchHHHHHHhhceeEEeccChhHHHHHHHHhhhcccCCCc---eEEEEEccCCCcc
Confidence 34444444445556666666666666556667778999999999999999999994442 6887787766543
No 142
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=32.84 E-value=63 Score=36.12 Aligned_cols=79 Identities=13% Similarity=0.040 Sum_probs=63.0
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCee--------EEEe------cCccceEEEEecCHHHHHHHHHHhcCCcCC
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFT--------SFWM------DHIKTHCYVTYSSVEEAIETRNALYNIQWP 584 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~--------~FWL------D~IKSHCYVtFsSVEeA~aARsALhG~vWP 584 (724)
..-..++|+-+|.--.+.+.+-++|.+.|.|. ..|| .+.|+-|.|+|.+.-.|.+|..-+.|..+.
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~ 142 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC 142 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence 45567889999999999999999999888763 4666 677999999999999999999999998885
Q ss_pred CCCCCCcEEEeecC
Q 004904 585 PNNGGRPLVAEFVD 598 (724)
Q Consensus 585 ~en~gR~LrVDFv~ 598 (724)
. |.-+...+.+-+
T Consensus 143 g-n~ikvs~a~~r~ 155 (351)
T KOG1995|consen 143 G-NTIKVSLAERRT 155 (351)
T ss_pred C-CCchhhhhhhcc
Confidence 5 344444334433
No 143
>PF07978 NIPSNAP: NIPSNAP ; InterPro: IPR012577 Members of this family include many hypothetical proteins. It also includes members of the NIPSNAP family, which have putative roles in vesicular transport []. This domain is often found in duplicate.; PDB: 1VQY_D 2AP6_H.
Probab=32.77 E-value=87 Score=26.85 Aligned_cols=53 Identities=23% Similarity=0.578 Sum_probs=35.9
Q ss_pred CCCCCHHHHHHHhcC---------cCCeeEEEecCccc----eEEEEecCHHHHHHHHHHhc-CCcC
Q 004904 531 VRPFTLRAVQELLGK---------TGTFTSFWMDHIKT----HCYVTYSSVEEAIETRNALY-NIQW 583 (724)
Q Consensus 531 vRPFT~~qLkElLse---------tGtI~~FWLD~IKS----HCYVtFsSVEeA~aARsALh-G~vW 583 (724)
++|-+..++-+++.+ .+.+++||+..+.. +.+..|.+.++..++|.++. .-.|
T Consensus 8 l~pg~~~~~~~~~~~~~~~~~~~~g~~lvG~~~~~~G~~~~~~~l~~y~~~~~r~~~~~a~~~d~~w 74 (102)
T PF07978_consen 8 LKPGKMDEFLELFEEALIPRQKKHGGKLVGYWVTEVGPLNQVVHLWSYDDLAAREEAREALYADPEW 74 (102)
T ss_dssp ESTT-HHHHHHHHHHCCHHHHHHHH-EEEEEEEEEESBSSEEEEEEEES-HHHHHHHHHHHHH-HHH
T ss_pred ECCCCHHHHHHHHHHHHHHHHHHhCCceeEEEEeccCCCceEEEEEEcCCHHHHHHHHHHHHcCchH
Confidence 457777777666543 25688999955543 45667999999999999998 4555
No 144
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=29.78 E-value=1.6e+02 Score=34.45 Aligned_cols=84 Identities=15% Similarity=0.092 Sum_probs=62.0
Q ss_pred CCCceEeecccCCCCCHHHHHHHhcCcCCeeE---EEe---cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 520 SPTNSLRIDHFVRPFTLRAVQELLGKTGTFTS---FWM---DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 520 PpT~aLyI~NLvRPFT~~qLkElLsetGtI~~---FWL---D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
..--.++++.|-+-+|..+|.++|+---.+.. |=| .++-.-+||.|+|.+.|..|...-. ..+ +.|-+-
T Consensus 101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhr-e~i----GhRYIE 175 (510)
T KOG4211|consen 101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHR-ENI----GHRYIE 175 (510)
T ss_pred CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHH-Hhh----ccceEE
Confidence 45567899999999999999999985332221 333 3456789999999999999877533 333 566677
Q ss_pred EeecChhhhhhhccC
Q 004904 594 AEFVDPQEVKMRTEA 608 (724)
Q Consensus 594 VDFv~pEeV~~~Ie~ 608 (724)
|.=+..+++....+.
T Consensus 176 vF~Ss~~e~~~~~~~ 190 (510)
T KOG4211|consen 176 VFRSSRAEVKRAAGP 190 (510)
T ss_pred eehhHHHHHHhhccc
Confidence 777888888877644
No 145
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=26.36 E-value=2.1e+02 Score=32.95 Aligned_cols=84 Identities=17% Similarity=0.106 Sum_probs=57.8
Q ss_pred CceEeecccCCCCCHHHHHHHhcCc-----CCeeEEEe----cCccceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcE
Q 004904 522 TNSLRIDHFVRPFTLRAVQELLGKT-----GTFTSFWM----DHIKTHCYVTYSSVEEAIETRNALYNIQWPPNNGGRPL 592 (724)
Q Consensus 522 T~aLyI~NLvRPFT~~qLkElLset-----GtI~~FWL----D~IKSHCYVtFsSVEeA~aARsALhG~vWP~en~gR~L 592 (724)
.-++++++|-+-.|..++.++|+.. |+.--+++ ++.-+-+||.|...+.|..|...=.+.. ++|-+
T Consensus 161 qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~i-----GqRYI 235 (508)
T KOG1365|consen 161 QVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNI-----GQRYI 235 (508)
T ss_pred ceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHH-----hHHHH
Confidence 6688999999999999999999842 33323344 6678999999999999988765433221 23323
Q ss_pred EEeecChhhhhhhccCCC
Q 004904 593 VAEFVDPQEVKMRTEAPP 610 (724)
Q Consensus 593 rVDFv~pEeV~~~Ie~e~ 610 (724)
-+==++..||...|....
T Consensus 236 ElFRSTaaEvqqvlnr~~ 253 (508)
T KOG1365|consen 236 ELFRSTAAEVQQVLNREV 253 (508)
T ss_pred HHHHHhHHHHHHHHHhhc
Confidence 222356667776665554
No 146
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.25 E-value=82 Score=35.59 Aligned_cols=36 Identities=11% Similarity=0.200 Sum_probs=32.3
Q ss_pred cccchhhHHHHHHHcccccCCchHHHHHHHHHHHHH
Q 004904 14 DQWKVTELKEELKRRKLKSSGKKDDLIRLLDQAIRI 49 (724)
Q Consensus 14 ~~~kV~elk~el~~r~L~t~GlK~dL~~rL~~al~~ 49 (724)
.-|+-+.||.-|+..||.|.|=|..|++|-.+-+..
T Consensus 267 ~~l~~~~lr~kL~~lglpt~G~r~~l~~Rh~e~~~l 302 (397)
T TIGR00599 267 SLLTDSQIRKKLSELGLSTNGTRQLLQKRHNEWETL 302 (397)
T ss_pred hhcCHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHH
Confidence 346889999999999999999999999999987754
No 147
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=25.02 E-value=20 Score=43.91 Aligned_cols=75 Identities=9% Similarity=0.066 Sum_probs=63.1
Q ss_pred CCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEecCc--c---ceEEEEecCHHHHHHHHHHhcCCcCCCCCCCCcEE
Q 004904 519 KSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWMDHI--K---THCYVTYSSVEEAIETRNALYNIQWPPNNGGRPLV 593 (724)
Q Consensus 519 hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWLD~I--K---SHCYVtFsSVEeA~aARsALhG~vWP~en~gR~Lr 593 (724)
.-+|++||.+||=-=++..+++-.|.++|.|..+-|+.. | .++||.|.++..|-++...|.|... ..-.++
T Consensus 369 ~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I----~~g~~r 444 (975)
T KOG0112|consen 369 FRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLI----GNGTHR 444 (975)
T ss_pred hhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCcc----ccCccc
Confidence 358999999999999999999999999999998888665 3 6899999999999999999998777 323444
Q ss_pred Eeec
Q 004904 594 AEFV 597 (724)
Q Consensus 594 VDFv 597 (724)
+-|.
T Consensus 445 ~glG 448 (975)
T KOG0112|consen 445 IGLG 448 (975)
T ss_pred cccc
Confidence 4444
No 148
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=24.69 E-value=2.7e+02 Score=26.88 Aligned_cols=65 Identities=14% Similarity=0.130 Sum_probs=50.8
Q ss_pred CCCCCCCceEeecccCCC---CCHHHHHHHhcCcCC-eeEEEecCccceEEEEecCHHHHHHHHHHhcCCc
Q 004904 516 PSPKSPTNSLRIDHFVRP---FTLRAVQELLGKTGT-FTSFWMDHIKTHCYVTYSSVEEAIETRNALYNIQ 582 (724)
Q Consensus 516 Ps~hPpT~aLyI~NLvRP---FT~~qLkElLsetGt-I~~FWLD~IKSHCYVtFsSVEeA~aARsALhG~v 582 (724)
|...+...+|+|..-.+. -+..++..+|.+.|. +.+.-.+ .....|.|.+.++-.+|++.|....
T Consensus 29 PnlygedpavQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~~~--~~~~~irf~~~~~Ql~Ak~vL~~~L 97 (127)
T PRK10629 29 SALRQQESTLAIRAVHQGASLPDGFYVYQHLDANGIHIKSITPE--NDSLLIRFDSPEQSAAAKEVLDRTL 97 (127)
T ss_pred hhccCCCceEEEecCCCCCccchHHHHHHHHHHCCCCcceEEee--CCEEEEEECCHHHHHHHHHHHHHHc
Confidence 556677888888877555 677889999998885 4454443 3488999999999999999998765
No 149
>PRK15245 type III effector phosphothreonine lyase; Provisional
Probab=22.35 E-value=32 Score=36.31 Aligned_cols=19 Identities=32% Similarity=0.852 Sum_probs=15.0
Q ss_pred CCCCCCCCCcccchhhHHH
Q 004904 5 YPILDNRPIDQWKVTELKE 23 (724)
Q Consensus 5 ypil~n~~~~~~kV~elk~ 23 (724)
...-++-||+|||||++.-
T Consensus 124 lLfSeDSPiDKWKVTDM~r 142 (241)
T PRK15245 124 LLFSEDSPVDKWKVTDMER 142 (241)
T ss_pred hhcCCCCCcceeeeccccc
Confidence 3445788999999999864
No 150
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=22.34 E-value=22 Score=43.25 Aligned_cols=154 Identities=13% Similarity=0.211 Sum_probs=0.0
Q ss_pred CCCCCCCCchhhcc---ccccccccCCCchhhhh-hcccCCC----CCCCccCCC-CCCCCCCCccccccccccCCCCCC
Q 004904 434 DDKSCPVIPAEKRK---INDQEAVGNNEPSKRQR-RWNSESL----KLPEQQSTT-PSSTPRDTLQPSMKRNFSRSDSAV 504 (724)
Q Consensus 434 ~~~~~~~~~~ekrk---~~~~~~v~n~ep~krqr-rwn~~~~----k~~~~~~~~-~~~tp~d~~~~~lrrs~sR~~S~~ 504 (724)
+-.+.++.|..+.| -..+..-||-|++++=. |.+...- ++-+.-.+. ..++|.. +.+--|+..-..+.+
T Consensus 573 e~~s~~v~p~~~~ke~~~~~~k~~~~vekv~~p~~g~k~h~q~~~~~~~s~~~~~esat~pa~--~~~a~~~~av~~ad~ 650 (881)
T KOG0128|consen 573 EKESTNVYPEQQKKEIQRRQFKGEGNVEKVNGPKRGFKAHEQPQQQKVQSKHGSAESATVPAG--GALANRSAAVGLADA 650 (881)
T ss_pred hhcccCCCcchhhHHhhHHHhhcccccccccCccccccccccchhhhhhccccchhhcccccc--cccCCccccCCCCCc
Q ss_pred CCCCCccccCCCCCCCCCceEeecccCCCCCHHHHHHHhcCcCCeeEEEe------cCccceEEEEecCHHHHHHHHHHh
Q 004904 505 SDDTPKERIVPPSPKSPTNSLRIDHFVRPFTLRAVQELLGKTGTFTSFWM------DHIKTHCYVTYSSVEEAIETRNAL 578 (724)
Q Consensus 505 ~~d~p~er~VpPs~hPpT~aLyI~NLvRPFT~~qLkElLsetGtI~~FWL------D~IKSHCYVtFsSVEeA~aARsAL 578 (724)
..-...-+ |.|--.--.++.|+.||.--.....|+..++-+|++....+ +++|+.|||.|-..+.|.++..-.
T Consensus 651 ~~~~~~~k-vs~n~~R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~ 729 (881)
T KOG0128|consen 651 EEKEENFK-VSPNEIRDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFR 729 (881)
T ss_pred hhhhhccC-cCchHHHHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhh
Q ss_pred cCCcCCCCCCCCcEEE
Q 004904 579 YNIQWPPNNGGRPLVA 594 (724)
Q Consensus 579 hG~vWP~en~gR~LrV 594 (724)
.+... ++..|.+
T Consensus 730 d~~~~----gK~~v~i 741 (881)
T KOG0128|consen 730 DSCFF----GKISVAI 741 (881)
T ss_pred hhhhh----hhhhhhe
No 151
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=21.51 E-value=1.1e+02 Score=24.21 Aligned_cols=35 Identities=23% Similarity=0.302 Sum_probs=25.9
Q ss_pred CcccchhhHHHHHHHcccccC-C-chHHHHHHHHHHH
Q 004904 13 IDQWKVTELKEELKRRKLKSS-G-KKDDLIRLLDQAI 47 (724)
Q Consensus 13 ~~~~kV~elk~el~~r~L~t~-G-lK~dL~~rL~~al 47 (724)
++++.++||++--+..|+... + -|.|||..|..+.
T Consensus 2 L~~~~~~eL~~iAk~lgI~~~~~~~K~eLI~~Il~~q 38 (43)
T PF07498_consen 2 LKSMTLSELREIAKELGIEGYSKMRKQELIFAILKAQ 38 (43)
T ss_dssp HHCS-HHHHHHHHHCTT-TTGCCS-HHHHHHHHHHHH
T ss_pred cccCCHHHHHHHHHHcCCCCCCcCCHHHHHHHHHHHH
Confidence 467899999999999999543 3 4899999887664
No 152
>PF03536 VRP3: Salmonella virulence-associated 28kDa protein; InterPro: IPR003519 Salmonella typhimurium contains a 90kb plasmid that is associated with virulence. This plasmid encodes at least 6 genes needed by the bacterium for invading host macrophages during infection. These include the 70kDa mkaA protein [], a recognised virulence factor. Deletion studies into the virulence plasmid have shown that an open reading frame encoding a 28kDa protein was needed for successful invasion of the host. This protein, designated mkfA [], VRP4 [] or VirA [] by different groups, is utilised by the microbe upon entry into macrophages, although the exact mechanism is unclear.; PDB: 2Z8P_A 2Z8O_B 2Z8M_B 2Z8N_A 2P1W_A 2Q8Y_A 3I0U_B 3BO6_B.
Probab=21.12 E-value=30 Score=36.60 Aligned_cols=14 Identities=43% Similarity=1.201 Sum_probs=9.5
Q ss_pred CCCCCcccchhhHH
Q 004904 9 DNRPIDQWKVTELK 22 (724)
Q Consensus 9 ~n~~~~~~kV~elk 22 (724)
++-||+|||||++.
T Consensus 127 ~DSPvDKWKvTDm~ 140 (240)
T PF03536_consen 127 EDSPVDKWKVTDMS 140 (240)
T ss_dssp TT-S-SEEEEE-TT
T ss_pred CCCcchhhhcchhh
Confidence 67899999999975
Done!