Query 032044
Match_columns 148
No_of_seqs 130 out of 1526
Neff 10.9
Searched_HMMs 46136
Date Fri Mar 29 08:50:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032044.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032044hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01659 sex-lethal sex-letha 100.0 6.1E-32 1.3E-36 188.1 17.9 141 1-146 133-275 (346)
2 TIGR01645 half-pint poly-U bin 100.0 3.8E-31 8.3E-36 193.3 18.5 146 1-146 133-284 (612)
3 KOG0148 Apoptosis-promoting RN 100.0 4.1E-30 8.8E-35 167.6 15.3 139 1-145 88-237 (321)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 100.0 3.2E-29 6.8E-34 176.7 20.1 146 1-146 115-349 (352)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 100.0 5.3E-29 1.1E-33 175.6 18.2 141 1-146 29-171 (352)
6 TIGR01622 SF-CC1 splicing fact 100.0 1.5E-28 3.3E-33 178.4 19.1 143 1-144 115-264 (457)
7 KOG0145 RNA-binding protein EL 100.0 1.6E-28 3.6E-33 159.7 11.1 140 2-146 68-209 (360)
8 TIGR01628 PABP-1234 polyadenyl 100.0 3.9E-27 8.5E-32 174.7 17.7 141 1-145 26-166 (562)
9 KOG0117 Heterogeneous nuclear 100.0 3E-27 6.4E-32 163.4 14.4 138 1-146 109-331 (506)
10 TIGR01628 PABP-1234 polyadenyl 100.0 1.9E-26 4.1E-31 171.1 17.7 144 1-146 204-364 (562)
11 KOG0144 RNA-binding protein CU 99.9 2.1E-27 4.5E-32 163.6 11.0 143 1-148 60-208 (510)
12 TIGR01642 U2AF_lg U2 snRNP aux 99.9 1.3E-25 2.8E-30 165.1 17.0 137 8-145 214-374 (509)
13 KOG0131 Splicing factor 3b, su 99.9 2.3E-26 5E-31 142.2 9.7 141 2-146 36-177 (203)
14 TIGR01648 hnRNP-R-Q heterogene 99.9 6.3E-25 1.4E-29 160.5 17.3 127 12-146 177-307 (578)
15 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.9 1.7E-24 3.7E-29 157.8 18.0 140 1-147 302-481 (481)
16 KOG0127 Nucleolar protein fibr 99.9 9.9E-25 2.1E-29 154.3 13.4 144 2-146 32-196 (678)
17 TIGR01642 U2AF_lg U2 snRNP aux 99.9 1E-23 2.3E-28 155.0 18.3 144 2-145 322-501 (509)
18 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.9 1.3E-23 2.8E-28 153.2 18.0 136 1-146 28-174 (481)
19 TIGR01648 hnRNP-R-Q heterogene 99.9 1.3E-23 2.7E-28 153.8 15.1 134 1-146 84-222 (578)
20 KOG0124 Polypyrimidine tract-b 99.9 6.1E-24 1.3E-28 144.4 10.1 143 2-144 140-288 (544)
21 KOG0123 Polyadenylate-binding 99.9 3.6E-22 7.9E-27 140.1 15.2 130 1-146 24-153 (369)
22 KOG0127 Nucleolar protein fibr 99.9 5.5E-22 1.2E-26 140.6 15.5 145 1-146 143-378 (678)
23 KOG0110 RNA-binding protein (R 99.9 6.9E-23 1.5E-27 148.6 11.1 147 1-147 541-694 (725)
24 KOG0145 RNA-binding protein EL 99.9 1.7E-21 3.8E-26 127.2 14.1 143 4-146 156-358 (360)
25 KOG0109 RNA-binding protein LA 99.9 1.8E-22 3.9E-27 133.3 9.1 123 1-146 28-150 (346)
26 TIGR01622 SF-CC1 splicing fact 99.9 5.3E-21 1.2E-25 139.1 17.7 140 1-144 212-446 (457)
27 KOG0147 Transcriptional coacti 99.9 1.6E-22 3.4E-27 143.2 8.3 143 1-144 205-356 (549)
28 PLN03134 glycine-rich RNA-bind 99.9 2.9E-21 6.3E-26 119.6 11.9 85 63-147 31-115 (144)
29 PF00076 RRM_1: RNA recognitio 99.8 8E-19 1.7E-23 96.3 10.4 70 69-139 1-70 (70)
30 KOG0122 Translation initiation 99.8 2.8E-19 6E-24 115.7 9.5 82 65-146 188-269 (270)
31 KOG4205 RNA-binding protein mu 99.8 1.4E-19 3E-24 123.6 8.3 144 1-146 32-176 (311)
32 KOG0123 Polyadenylate-binding 99.8 8.7E-19 1.9E-23 123.2 12.3 141 1-145 102-245 (369)
33 KOG0146 RNA-binding protein ET 99.8 5.3E-19 1.2E-23 116.1 9.9 83 65-147 284-366 (371)
34 KOG0121 Nuclear cap-binding pr 99.8 6.3E-19 1.4E-23 103.6 7.2 80 64-143 34-113 (153)
35 TIGR01659 sex-lethal sex-letha 99.8 2.8E-18 6.2E-23 120.0 10.9 85 62-146 103-187 (346)
36 KOG0144 RNA-binding protein CU 99.8 4.5E-18 9.9E-23 117.9 11.5 82 67-148 425-506 (510)
37 PF14259 RRM_6: RNA recognitio 99.8 9.2E-18 2E-22 92.1 9.8 70 69-139 1-70 (70)
38 KOG0148 Apoptosis-promoting RN 99.8 3E-18 6.5E-23 112.5 8.6 102 46-147 42-143 (321)
39 KOG0117 Heterogeneous nuclear 99.8 2.6E-17 5.6E-22 114.6 12.5 126 21-146 38-164 (506)
40 KOG0125 Ataxin 2-binding prote 99.7 1.7E-17 3.7E-22 111.6 9.7 84 61-146 91-174 (376)
41 KOG0107 Alternative splicing f 99.7 1.4E-17 3.1E-22 102.9 7.8 77 65-146 9-85 (195)
42 PLN03120 nucleic acid binding 99.7 1.2E-16 2.6E-21 106.0 10.4 75 66-144 4-78 (260)
43 TIGR01645 half-pint poly-U bin 99.7 6.7E-17 1.5E-21 119.1 10.2 81 64-144 105-185 (612)
44 KOG4211 Splicing factor hnRNP- 99.7 2.6E-16 5.6E-21 110.8 12.0 138 1-143 35-179 (510)
45 KOG0147 Transcriptional coacti 99.7 3E-16 6.4E-21 111.8 11.5 138 1-143 304-525 (549)
46 smart00362 RRM_2 RNA recogniti 99.7 5.6E-16 1.2E-20 84.8 9.6 72 68-141 1-72 (72)
47 KOG0113 U1 small nuclear ribon 99.7 5.5E-16 1.2E-20 103.2 11.0 85 62-146 97-181 (335)
48 KOG0114 Predicted RNA-binding 99.7 1.6E-15 3.4E-20 86.2 9.6 83 60-145 12-94 (124)
49 KOG4207 Predicted splicing fac 99.7 2.9E-16 6.4E-21 99.6 7.0 81 64-144 11-91 (256)
50 smart00360 RRM RNA recognition 99.7 1.4E-15 3.1E-20 82.9 8.9 71 71-141 1-71 (71)
51 KOG0149 Predicted RNA-binding 99.7 4.6E-16 1E-20 100.4 7.6 78 65-143 11-88 (247)
52 KOG1190 Polypyrimidine tract-b 99.7 5.9E-15 1.3E-19 102.1 13.2 136 2-146 325-491 (492)
53 KOG0105 Alternative splicing f 99.6 7.1E-16 1.5E-20 96.4 7.2 80 64-146 4-83 (241)
54 KOG4206 Spliceosomal protein s 99.6 9.7E-15 2.1E-19 94.0 12.3 127 13-144 48-220 (221)
55 PLN03213 repressor of silencin 99.6 2.6E-15 5.6E-20 106.4 9.9 78 64-145 8-87 (759)
56 cd00590 RRM RRM (RNA recogniti 99.6 9.9E-15 2.2E-19 80.2 10.4 74 68-142 1-74 (74)
57 KOG0108 mRNA cleavage and poly 99.6 1.8E-15 4E-20 107.7 8.1 80 67-146 19-98 (435)
58 PLN03121 nucleic acid binding 99.6 9.3E-15 2E-19 95.7 10.5 76 65-144 4-79 (243)
59 KOG0131 Splicing factor 3b, su 99.6 1.8E-15 3.9E-20 94.2 6.3 81 64-144 7-87 (203)
60 KOG0130 RNA-binding protein RB 99.6 2.9E-15 6.4E-20 89.1 6.6 81 64-144 70-150 (170)
61 KOG0126 Predicted RNA-binding 99.6 2.2E-16 4.8E-21 98.3 0.5 79 65-143 34-112 (219)
62 COG0724 RNA-binding proteins ( 99.6 2.2E-14 4.8E-19 97.7 10.3 79 66-144 115-193 (306)
63 PF13893 RRM_5: RNA recognitio 99.6 3.6E-14 7.8E-19 74.3 7.6 56 83-143 1-56 (56)
64 smart00361 RRM_1 RNA recogniti 99.6 5.4E-14 1.2E-18 76.9 8.5 62 80-141 2-70 (70)
65 KOG0111 Cyclophilin-type pepti 99.6 3.4E-15 7.4E-20 95.8 4.2 84 64-147 8-91 (298)
66 KOG0105 Alternative splicing f 99.6 2.1E-13 4.5E-18 85.5 11.9 112 15-133 43-175 (241)
67 KOG0106 Alternative splicing f 99.5 1.2E-14 2.5E-19 94.2 5.1 120 17-144 35-169 (216)
68 KOG1548 Transcription elongati 99.5 7.2E-13 1.6E-17 90.1 13.7 138 4-146 171-352 (382)
69 KOG0110 RNA-binding protein (R 99.5 1.4E-13 3E-18 101.0 10.4 126 19-144 423-596 (725)
70 KOG0120 Splicing factor U2AF, 99.5 1.8E-13 3.8E-18 98.4 10.2 143 2-144 316-490 (500)
71 KOG4206 Spliceosomal protein s 99.5 2.2E-13 4.9E-18 87.8 8.3 80 65-147 8-91 (221)
72 KOG1456 Heterogeneous nuclear 99.5 2.5E-12 5.3E-17 88.5 13.6 140 1-147 314-492 (494)
73 KOG1457 RNA binding protein (c 99.4 2.7E-12 5.9E-17 82.8 10.6 115 15-133 75-273 (284)
74 KOG0124 Polypyrimidine tract-b 99.4 1.1E-13 2.4E-18 94.9 4.4 77 66-142 113-189 (544)
75 KOG0120 Splicing factor U2AF, 99.4 3.3E-13 7.3E-18 97.0 6.8 132 14-146 220-369 (500)
76 KOG1365 RNA-binding protein Fu 99.4 1.5E-13 3.3E-18 94.6 4.8 139 3-144 193-360 (508)
77 KOG0109 RNA-binding protein LA 99.4 3.8E-13 8.2E-18 89.6 6.3 72 67-146 3-74 (346)
78 PLN03134 glycine-rich RNA-bind 99.4 5E-12 1.1E-16 78.5 8.2 56 1-56 60-115 (144)
79 KOG4212 RNA-binding protein hn 99.3 9.3E-12 2E-16 87.4 8.3 78 66-144 44-122 (608)
80 KOG4212 RNA-binding protein hn 99.3 1.1E-10 2.4E-15 82.1 13.4 139 2-142 72-290 (608)
81 KOG4208 Nucleolar RNA-binding 99.3 1.5E-11 3.3E-16 78.3 8.2 81 63-143 46-127 (214)
82 KOG0415 Predicted peptidyl pro 99.3 7.4E-12 1.6E-16 85.7 7.0 82 64-145 237-318 (479)
83 KOG0153 Predicted RNA-binding 99.3 2.3E-11 5E-16 83.0 8.8 78 63-146 225-303 (377)
84 KOG0132 RNA polymerase II C-te 99.3 1.4E-11 3E-16 91.6 7.6 76 65-146 420-495 (894)
85 KOG1190 Polypyrimidine tract-b 99.3 1.6E-10 3.4E-15 80.6 11.9 124 18-146 189-373 (492)
86 smart00361 RRM_1 RNA recogniti 99.3 4E-11 8.7E-16 65.5 6.8 49 1-49 18-69 (70)
87 KOG0226 RNA-binding proteins [ 99.2 2E-11 4.4E-16 80.1 5.6 139 4-143 128-267 (290)
88 KOG0533 RRM motif-containing p 99.2 6.9E-11 1.5E-15 78.4 8.2 82 64-146 81-162 (243)
89 KOG0122 Translation initiation 99.2 3.7E-11 8.1E-16 78.4 6.4 54 2-55 216-269 (270)
90 COG0724 RNA-binding proteins ( 99.2 3.4E-10 7.4E-15 77.0 10.5 126 2-127 142-286 (306)
91 PF13893 RRM_5: RNA recognitio 99.2 2E-10 4.3E-15 60.0 6.3 47 1-52 10-56 (56)
92 KOG1456 Heterogeneous nuclear 99.2 5.6E-09 1.2E-13 72.4 14.8 135 2-146 149-363 (494)
93 KOG0146 RNA-binding protein ET 99.2 1.4E-10 3E-15 76.9 6.6 83 63-146 16-101 (371)
94 KOG4205 RNA-binding protein mu 99.1 7.6E-11 1.7E-15 81.1 4.5 82 65-147 5-86 (311)
95 PF04059 RRM_2: RNA recognitio 99.1 2.3E-09 5.1E-14 61.6 9.6 80 67-146 2-87 (97)
96 KOG0111 Cyclophilin-type pepti 99.1 2E-10 4.4E-15 74.1 5.2 58 2-59 37-94 (298)
97 KOG4661 Hsp27-ERE-TATA-binding 99.1 5.7E-10 1.2E-14 81.1 7.7 79 66-144 405-483 (940)
98 KOG4208 Nucleolar RNA-binding 99.1 3.6E-10 7.7E-15 72.2 5.2 55 1-55 76-130 (214)
99 PF00076 RRM_1: RNA recognitio 99.0 1.5E-09 3.3E-14 59.0 6.0 47 1-48 24-70 (70)
100 KOG0116 RasGAP SH3 binding pro 99.0 2.1E-09 4.5E-14 76.8 7.8 80 66-146 288-367 (419)
101 KOG1457 RNA binding protein (c 99.0 8.9E-09 1.9E-13 66.8 9.8 83 64-146 32-118 (284)
102 KOG1548 Transcription elongati 99.0 5E-09 1.1E-13 71.8 9.1 80 64-144 132-219 (382)
103 KOG4207 Predicted splicing fac 99.0 5.3E-10 1.2E-14 71.5 4.0 53 1-53 39-91 (256)
104 KOG0128 RNA-binding protein SA 99.0 1.1E-10 2.5E-15 87.6 0.4 113 11-146 703-815 (881)
105 KOG0126 Predicted RNA-binding 99.0 3.3E-10 7.1E-15 71.1 2.1 52 2-53 62-113 (219)
106 smart00360 RRM RNA recognition 98.9 5.9E-09 1.3E-13 56.3 6.6 49 2-50 23-71 (71)
107 KOG0113 U1 small nuclear ribon 98.9 3.1E-09 6.7E-14 71.5 6.4 52 1-52 127-178 (335)
108 KOG4660 Protein Mei2, essentia 98.9 1E-09 2.3E-14 79.1 4.3 72 63-139 72-143 (549)
109 PF14259 RRM_6: RNA recognitio 98.9 4.4E-09 9.5E-14 57.3 5.9 46 2-48 25-70 (70)
110 KOG4210 Nuclear localization s 98.9 3.9E-09 8.5E-14 72.4 5.8 135 11-146 124-264 (285)
111 KOG0106 Alternative splicing f 98.9 2.8E-09 6E-14 69.5 4.5 70 68-145 3-72 (216)
112 KOG0108 mRNA cleavage and poly 98.9 4E-09 8.6E-14 75.8 5.7 54 2-55 45-98 (435)
113 KOG0129 Predicted RNA-binding 98.9 8.6E-08 1.9E-12 69.0 12.0 109 18-126 307-431 (520)
114 KOG4211 Splicing factor hnRNP- 98.8 3.6E-08 7.8E-13 70.5 8.6 77 64-144 8-84 (510)
115 KOG4209 Splicing factor RNPS1, 98.8 1.2E-08 2.5E-13 67.9 5.6 81 63-144 98-178 (231)
116 KOG0125 Ataxin 2-binding prote 98.8 2.8E-08 6E-13 67.8 6.7 53 1-55 122-174 (376)
117 KOG0149 Predicted RNA-binding 98.7 2.7E-08 5.9E-13 64.9 5.6 52 2-54 39-90 (247)
118 KOG1365 RNA-binding protein Fu 98.7 3.6E-07 7.8E-12 63.8 11.2 115 11-127 96-225 (508)
119 smart00362 RRM_2 RNA recogniti 98.7 6.8E-08 1.5E-12 52.2 6.2 47 2-50 26-72 (72)
120 KOG0130 RNA-binding protein RB 98.7 1.6E-08 3.5E-13 60.6 3.7 55 1-55 98-152 (170)
121 KOG0151 Predicted splicing reg 98.7 5.4E-08 1.2E-12 72.4 6.6 80 65-144 173-255 (877)
122 KOG0112 Large RNA-binding prot 98.7 1.7E-08 3.6E-13 76.7 3.9 131 2-146 399-531 (975)
123 PF08777 RRM_3: RNA binding mo 98.7 6.4E-08 1.4E-12 56.8 5.0 70 67-142 2-76 (105)
124 KOG4454 RNA binding protein (R 98.6 1.3E-08 2.8E-13 65.9 1.8 79 63-143 6-84 (267)
125 PF11608 Limkain-b1: Limkain b 98.6 3.6E-07 7.8E-12 50.5 7.1 69 68-146 4-77 (90)
126 PLN03121 nucleic acid binding 98.6 3.5E-07 7.6E-12 60.6 7.5 52 1-56 31-82 (243)
127 KOG4307 RNA binding protein RB 98.6 1.7E-07 3.7E-12 69.9 6.6 140 2-143 337-511 (944)
128 KOG4307 RNA binding protein RB 98.6 2.9E-07 6.3E-12 68.7 7.8 75 67-142 868-943 (944)
129 cd00590 RRM RRM (RNA recogniti 98.6 4.1E-07 8.9E-12 49.3 6.8 49 2-51 26-74 (74)
130 PLN03120 nucleic acid binding 98.6 3.6E-07 7.7E-12 61.4 7.4 51 1-55 30-80 (260)
131 KOG0121 Nuclear cap-binding pr 98.6 1.5E-07 3.3E-12 56.0 5.0 52 2-53 63-114 (153)
132 KOG0415 Predicted peptidyl pro 98.6 1.1E-07 2.3E-12 65.8 4.7 53 1-53 265-317 (479)
133 KOG0107 Alternative splicing f 98.5 2E-07 4.2E-12 58.5 4.7 40 16-55 46-85 (195)
134 KOG1995 Conserved Zn-finger pr 98.4 3.8E-07 8.3E-12 63.0 4.1 82 65-146 65-154 (351)
135 PLN03213 repressor of silencin 98.4 8.7E-07 1.9E-11 64.0 5.7 50 1-54 36-87 (759)
136 KOG0226 RNA-binding proteins [ 98.3 3.2E-07 6.9E-12 60.7 2.2 49 5-53 220-268 (290)
137 KOG4454 RNA binding protein (R 98.3 1.8E-07 3.9E-12 60.7 0.9 110 2-132 36-149 (267)
138 COG5175 MOT2 Transcriptional r 98.2 5.5E-06 1.2E-10 57.2 6.6 79 66-144 114-201 (480)
139 KOG0128 RNA-binding protein SA 98.2 5.1E-08 1.1E-12 73.8 -4.6 132 2-134 599-735 (881)
140 KOG3152 TBP-binding protein, a 98.1 1.8E-06 3.8E-11 57.3 2.4 73 65-137 73-157 (278)
141 PF14605 Nup35_RRM_2: Nup53/35 98.1 1.3E-05 2.8E-10 41.1 5.0 52 67-125 2-53 (53)
142 KOG0115 RNA-binding protein p5 98.1 1.9E-05 4.1E-10 52.6 6.5 103 28-143 5-111 (275)
143 PF05172 Nup35_RRM: Nup53/35/4 98.0 6.1E-05 1.3E-09 43.7 7.5 77 66-144 6-90 (100)
144 KOG1996 mRNA splicing factor [ 98.0 3.3E-05 7.1E-10 52.5 7.1 65 80-144 300-365 (378)
145 KOG2193 IGF-II mRNA-binding pr 98.0 2.2E-07 4.7E-12 65.7 -3.9 117 16-142 36-153 (584)
146 KOG2314 Translation initiation 98.0 4.3E-05 9.4E-10 56.2 7.4 77 64-141 56-139 (698)
147 KOG0114 Predicted RNA-binding 98.0 3.1E-05 6.7E-10 44.7 5.3 51 2-55 45-95 (124)
148 KOG2202 U2 snRNP splicing fact 97.9 4.8E-06 1E-10 55.3 2.0 62 81-143 83-145 (260)
149 PF08952 DUF1866: Domain of un 97.8 0.00016 3.4E-09 44.6 6.9 56 82-146 52-107 (146)
150 KOG0129 Predicted RNA-binding 97.8 0.00018 3.9E-09 52.4 8.1 66 63-129 256-327 (520)
151 KOG4209 Splicing factor RNPS1, 97.8 5.7E-05 1.2E-09 50.5 4.8 52 2-54 128-179 (231)
152 PF10309 DUF2414: Protein of u 97.6 0.00085 1.8E-08 35.3 7.0 55 66-128 5-62 (62)
153 KOG2591 c-Mpl binding protein, 97.6 0.00031 6.7E-09 51.8 6.8 72 64-142 173-248 (684)
154 PF08675 RNA_bind: RNA binding 97.6 0.00053 1.1E-08 38.1 6.0 55 67-130 10-64 (87)
155 PF11608 Limkain-b1: Limkain b 97.6 0.00023 5.1E-09 39.5 4.4 43 16-58 38-80 (90)
156 KOG2416 Acinus (induces apopto 97.5 0.00015 3.3E-09 53.8 4.3 78 62-145 440-521 (718)
157 KOG1855 Predicted RNA-binding 97.5 0.0008 1.7E-08 48.2 7.4 67 64-130 229-308 (484)
158 PF04059 RRM_2: RNA recognitio 97.5 0.00066 1.4E-08 39.2 5.8 49 5-53 33-85 (97)
159 KOG4849 mRNA cleavage factor I 97.5 0.00023 4.9E-09 49.7 4.3 78 65-142 79-158 (498)
160 PF07576 BRAP2: BRCA1-associat 97.4 0.0067 1.4E-07 35.9 9.4 68 66-135 13-81 (110)
161 KOG4676 Splicing factor, argin 97.4 0.00053 1.2E-08 48.6 5.5 77 66-143 7-86 (479)
162 PF03467 Smg4_UPF3: Smg-4/UPF3 97.3 0.00031 6.8E-09 45.2 3.9 79 65-143 6-95 (176)
163 KOG0132 RNA polymerase II C-te 97.2 0.00076 1.7E-08 51.7 5.3 73 16-88 456-528 (894)
164 KOG4676 Splicing factor, argin 97.1 0.0001 2.2E-09 52.0 -0.3 128 1-134 33-214 (479)
165 KOG2193 IGF-II mRNA-binding pr 97.0 0.0011 2.5E-08 47.5 3.8 73 67-146 2-76 (584)
166 KOG2068 MOT2 transcription fac 96.9 0.00031 6.6E-09 48.7 0.9 81 65-145 76-162 (327)
167 KOG4661 Hsp27-ERE-TATA-binding 96.9 0.0029 6.3E-08 47.2 5.3 54 1-54 431-484 (940)
168 KOG0804 Cytoplasmic Zn-finger 96.8 0.013 2.9E-07 42.5 8.2 68 66-135 74-142 (493)
169 KOG0153 Predicted RNA-binding 96.8 0.0031 6.8E-08 44.1 4.9 47 2-54 255-302 (377)
170 KOG2314 Translation initiation 96.7 0.0028 6.1E-08 47.1 4.2 48 2-50 91-139 (698)
171 PF07292 NID: Nmi/IFP 35 domai 96.5 0.0045 9.8E-08 35.0 3.4 68 20-88 1-74 (88)
172 KOG0533 RRM motif-containing p 96.5 0.011 2.4E-07 39.9 5.9 55 2-57 110-164 (243)
173 PF15023 DUF4523: Protein of u 96.3 0.026 5.7E-07 34.8 6.0 71 65-143 85-159 (166)
174 KOG2202 U2 snRNP splicing fact 96.2 0.0024 5.3E-08 42.8 1.4 40 15-54 108-147 (260)
175 KOG1995 Conserved Zn-finger pr 96.2 0.0034 7.4E-08 44.1 2.1 53 4-56 103-155 (351)
176 KOG4285 Mitotic phosphoprotein 95.9 0.079 1.7E-06 36.8 7.5 69 69-145 200-269 (350)
177 KOG0151 Predicted splicing reg 95.9 0.015 3.3E-07 44.6 4.4 52 2-53 201-255 (877)
178 KOG2135 Proteins containing th 95.8 0.0062 1.3E-07 44.4 2.1 73 66-145 372-445 (526)
179 PF04847 Calcipressin: Calcipr 95.8 0.046 9.9E-07 35.5 5.8 60 79-144 8-69 (184)
180 KOG0112 Large RNA-binding prot 95.6 0.0027 5.9E-08 49.5 -0.5 78 65-143 371-448 (975)
181 KOG4849 mRNA cleavage factor I 95.6 0.014 3E-07 41.2 2.9 51 2-52 109-159 (498)
182 KOG4660 Protein Mei2, essentia 95.5 0.015 3.2E-07 43.2 3.1 125 13-145 108-249 (549)
183 PF03880 DbpA: DbpA RNA bindin 95.0 0.23 4.9E-06 27.1 6.1 59 76-143 11-74 (74)
184 PF11767 SET_assoc: Histone ly 94.8 0.14 3.1E-06 27.3 4.8 30 20-49 36-65 (66)
185 PF11767 SET_assoc: Histone ly 94.7 0.32 7E-06 26.0 6.4 55 77-140 11-65 (66)
186 KOG2253 U1 snRNP complex, subu 94.7 0.033 7.2E-07 42.4 2.9 73 61-142 35-107 (668)
187 PF08952 DUF1866: Domain of un 94.5 0.1 2.2E-06 32.4 4.3 34 19-53 72-105 (146)
188 KOG0116 RasGAP SH3 binding pro 94.4 0.079 1.7E-06 38.8 4.3 50 2-52 315-364 (419)
189 KOG4574 RNA-binding protein (c 94.3 0.039 8.4E-07 43.3 2.6 71 69-145 301-373 (1007)
190 PF07576 BRAP2: BRCA1-associat 94.1 0.21 4.5E-06 29.7 5.0 40 2-43 41-80 (110)
191 COG5175 MOT2 Transcriptional r 94.0 0.17 3.7E-06 35.8 5.0 33 21-53 169-201 (480)
192 KOG1996 mRNA splicing factor [ 93.4 0.13 2.8E-06 35.7 3.6 51 3-53 314-365 (378)
193 PF14111 DUF4283: Domain of un 93.3 0.035 7.5E-07 34.7 0.7 83 16-99 54-138 (153)
194 KOG0804 Cytoplasmic Zn-finger 91.0 1.5 3.2E-05 32.4 6.7 41 2-44 102-142 (493)
195 KOG4210 Nuclear localization s 90.9 0.17 3.8E-06 35.3 2.0 77 65-141 87-163 (285)
196 PF03880 DbpA: DbpA RNA bindin 89.5 0.63 1.4E-05 25.4 3.1 34 18-52 41-74 (74)
197 KOG4410 5-formyltetrahydrofola 88.5 2.1 4.4E-05 29.9 5.5 46 67-118 331-377 (396)
198 PF05172 Nup35_RRM: Nup53/35/4 87.4 0.9 2E-05 26.5 2.9 37 15-52 52-89 (100)
199 PF07530 PRE_C2HC: Associated 85.5 3.2 7E-05 22.3 4.3 64 81-147 2-66 (68)
200 smart00596 PRE_C2HC PRE_C2HC d 85.0 2.7 5.9E-05 22.6 3.8 64 81-147 2-66 (69)
201 PF03468 XS: XS domain; Inter 82.4 8.4 0.00018 23.1 5.8 56 68-126 10-75 (116)
202 PF04847 Calcipressin: Calcipr 81.2 3.8 8.3E-05 26.7 4.1 37 17-53 31-69 (184)
203 KOG2318 Uncharacterized conser 81.1 14 0.0003 28.6 7.3 80 63-142 171-304 (650)
204 PF02714 DUF221: Domain of unk 80.6 6 0.00013 28.0 5.3 57 20-89 1-57 (325)
205 KOG2416 Acinus (induces apopto 79.1 3.6 7.8E-05 31.7 3.9 36 17-52 481-519 (718)
206 KOG1295 Nonsense-mediated deca 77.0 4.4 9.5E-05 29.4 3.7 69 65-133 6-77 (376)
207 KOG2068 MOT2 transcription fac 76.7 1.5 3.2E-05 31.1 1.3 52 2-54 107-162 (327)
208 KOG4483 Uncharacterized conser 76.1 12 0.00026 27.6 5.6 56 66-127 391-446 (528)
209 PF08777 RRM_3: RNA binding mo 73.9 4.3 9.3E-05 23.9 2.6 23 18-40 38-60 (105)
210 PF10567 Nab6_mRNP_bdg: RNA-re 71.5 16 0.00035 25.7 5.2 79 65-143 14-105 (309)
211 PF03439 Spt5-NGN: Early trans 70.0 7.6 0.00016 21.7 2.9 26 16-41 43-68 (84)
212 PRK13259 regulatory protein Sp 69.4 8.8 0.00019 22.1 3.1 26 1-26 2-27 (94)
213 KOG4019 Calcineurin-mediated s 68.5 12 0.00027 24.3 3.9 36 110-145 53-89 (193)
214 KOG2295 C2H2 Zn-finger protein 67.9 0.57 1.2E-05 35.4 -2.4 70 65-134 230-299 (648)
215 PF15513 DUF4651: Domain of un 66.8 17 0.00037 19.2 4.2 18 81-98 9-26 (62)
216 PF04026 SpoVG: SpoVG; InterP 65.9 12 0.00026 21.1 3.1 26 1-26 2-27 (84)
217 KOG2891 Surface glycoprotein [ 62.6 11 0.00023 26.4 3.0 85 62-146 145-268 (445)
218 PF11823 DUF3343: Protein of u 62.4 13 0.00029 20.0 2.9 24 110-133 3-26 (73)
219 COG2088 SpoVG Uncharacterized 62.2 16 0.00034 20.7 3.0 27 1-27 2-28 (95)
220 KOG3152 TBP-binding protein, a 60.8 1.8 3.8E-05 29.7 -0.9 27 20-46 131-157 (278)
221 PF14128 DUF4295: Domain of un 60.5 15 0.00033 18.2 2.5 18 3-23 18-35 (47)
222 KOG4008 rRNA processing protei 57.4 14 0.00031 25.2 2.8 32 65-96 39-70 (261)
223 PF15023 DUF4523: Protein of u 57.3 30 0.00066 21.8 4.0 37 15-52 123-159 (166)
224 TIGR02542 B_forsyth_147 Bacter 53.7 6.8 0.00015 23.5 0.8 45 74-118 82-129 (145)
225 PF12091 DUF3567: Protein of u 49.9 20 0.00044 20.2 2.2 17 76-92 60-76 (85)
226 PHA01632 hypothetical protein 45.3 32 0.00069 17.7 2.3 21 69-89 19-39 (64)
227 PF10281 Ish1: Putative stress 44.7 27 0.0006 16.1 2.0 17 77-93 3-19 (38)
228 KOG2135 Proteins containing th 40.4 19 0.0004 27.2 1.5 37 19-56 411-447 (526)
229 PRK08559 nusG transcription an 39.9 39 0.00084 21.3 2.7 24 16-39 45-68 (153)
230 KOG0862 Synaptobrevin/VAMP-lik 39.6 20 0.00044 24.0 1.4 15 13-27 105-119 (216)
231 PRK11901 hypothetical protein; 39.6 1.5E+02 0.0032 21.5 6.6 59 66-129 245-305 (327)
232 COG5193 LHP1 La protein, small 39.3 14 0.00031 27.2 0.8 60 67-126 175-244 (438)
233 PF14893 PNMA: PNMA 37.9 29 0.00064 25.0 2.1 24 66-89 18-41 (331)
234 PRK02302 hypothetical protein; 36.0 87 0.0019 17.9 3.9 39 85-132 21-59 (89)
235 PRK09937 stationary phase/star 35.2 26 0.00056 19.1 1.2 11 15-25 11-21 (74)
236 smart00457 MACPF membrane-atta 34.8 41 0.00088 22.0 2.3 23 70-92 29-51 (194)
237 COG5594 Uncharacterized integr 34.8 66 0.0014 26.3 3.7 38 15-52 355-393 (827)
238 PF05573 NosL: NosL; InterPro 34.5 79 0.0017 19.8 3.5 25 16-40 113-137 (149)
239 PF07066 DUF3882: Lactococcus 34.4 44 0.00096 21.1 2.2 22 1-22 3-24 (159)
240 PF15063 TC1: Thyroid cancer p 33.7 32 0.0007 18.9 1.4 26 67-92 26-51 (79)
241 PRK14998 cold shock-like prote 33.5 27 0.0006 19.0 1.2 12 15-26 11-22 (73)
242 KOG2187 tRNA uracil-5-methyltr 33.5 24 0.00053 27.0 1.2 72 69-144 28-99 (534)
243 PRK15464 cold shock-like prote 33.4 28 0.00061 18.8 1.2 12 15-26 14-25 (70)
244 PF13773 DUF4170: Domain of un 33.4 73 0.0016 17.2 2.7 30 113-142 30-59 (69)
245 PLN00039 photosystem II reacti 33.2 79 0.0017 18.9 3.0 29 2-32 14-42 (111)
246 COG0030 KsgA Dimethyladenosine 33.2 85 0.0018 21.9 3.7 27 67-93 96-122 (259)
247 PRK10905 cell division protein 33.2 1.9E+02 0.0041 21.0 5.7 59 66-129 247-307 (328)
248 PF09902 DUF2129: Uncharacteri 33.0 88 0.0019 17.0 3.7 39 85-132 15-53 (71)
249 TIGR00405 L26e_arch ribosomal 32.9 55 0.0012 20.2 2.6 26 15-40 36-61 (145)
250 PRK02886 hypothetical protein; 32.5 1E+02 0.0022 17.6 3.8 39 85-132 19-57 (87)
251 PRK15463 cold shock-like prote 32.4 29 0.00063 18.7 1.1 12 15-26 14-25 (70)
252 KOG4019 Calcineurin-mediated s 32.2 1.3E+02 0.0029 19.8 4.2 39 15-53 49-88 (193)
253 PRK09507 cspE cold shock prote 32.1 29 0.00062 18.6 1.1 11 16-26 14-24 (69)
254 PTZ00071 40S ribosomal protein 31.5 48 0.001 20.5 2.1 17 14-31 69-85 (132)
255 KOG4365 Uncharacterized conser 31.3 27 0.00059 26.2 1.1 50 68-117 5-54 (572)
256 PF08206 OB_RNB: Ribonuclease 31.3 43 0.00093 17.1 1.6 12 15-26 6-17 (58)
257 PRK10943 cold shock-like prote 31.2 31 0.00068 18.4 1.1 12 15-26 13-24 (69)
258 TIGR02381 cspD cold shock doma 31.2 33 0.00072 18.2 1.2 12 15-26 11-22 (68)
259 COG5594 Uncharacterized integr 31.0 84 0.0018 25.8 3.7 36 107-142 356-392 (827)
260 COG0445 GidA Flavin-dependent 30.5 2.8E+02 0.0061 22.1 7.1 84 17-100 236-335 (621)
261 PF12829 Mhr1: Transcriptional 29.3 1E+02 0.0022 17.7 3.0 52 75-130 21-73 (91)
262 KOG0156 Cytochrome P450 CYP2 s 28.6 1.4E+02 0.0031 22.9 4.6 59 70-138 36-97 (489)
263 COG0150 PurM Phosphoribosylami 28.0 26 0.00056 25.4 0.6 49 79-131 274-322 (345)
264 PRK10354 RNA chaperone/anti-te 27.4 36 0.00079 18.2 1.0 10 16-25 15-24 (70)
265 PRK09890 cold shock protein Cs 27.3 41 0.00089 18.0 1.2 10 16-25 15-24 (70)
266 PF14657 Integrase_AP2: AP2-li 27.3 84 0.0018 15.1 3.3 33 5-37 4-37 (46)
267 PF11411 DNA_ligase_IV: DNA li 27.3 55 0.0012 15.2 1.4 16 76-91 19-34 (36)
268 KOG4285 Mitotic phosphoprotein 27.2 1.3E+02 0.0028 21.7 3.7 42 11-53 226-268 (350)
269 PF01823 MACPF: MAC/Perforin d 26.2 56 0.0012 21.3 1.9 23 71-93 53-78 (212)
270 COG5470 Uncharacterized conser 25.8 1.5E+02 0.0032 17.3 4.6 44 82-125 24-70 (96)
271 PRK13611 photosystem II reacti 25.6 87 0.0019 18.5 2.3 26 2-29 14-39 (104)
272 cd00027 BRCT Breast Cancer Sup 25.4 1E+02 0.0022 15.3 3.4 26 68-93 3-28 (72)
273 KOG2318 Uncharacterized conser 25.3 1.8E+02 0.004 23.0 4.5 37 18-54 269-307 (650)
274 smart00540 LEM in nuclear memb 25.1 70 0.0015 15.6 1.6 16 77-92 5-20 (44)
275 PF09341 Pcc1: Transcription f 25.1 1.2E+02 0.0027 16.3 3.0 20 18-37 3-22 (76)
276 PF10567 Nab6_mRNP_bdg: RNA-re 24.2 1.8E+02 0.0039 20.8 4.0 38 2-39 174-213 (309)
277 PF08156 NOP5NT: NOP5NT (NUC12 23.9 65 0.0014 17.2 1.5 39 81-129 27-65 (67)
278 CHL00128 psbW photosystem II p 23.8 1.5E+02 0.0034 17.8 3.2 29 2-32 15-43 (113)
279 PF06613 KorB_C: KorB C-termin 23.6 1.1E+02 0.0023 16.1 2.2 21 5-26 20-40 (60)
280 PF00313 CSD: 'Cold-shock' DNA 23.0 80 0.0017 16.3 1.8 11 16-26 11-21 (66)
281 smart00738 NGN In Spt5p, this 22.8 69 0.0015 18.3 1.7 23 18-40 60-82 (106)
282 TIGR03047 PS_II_psb28 photosys 22.8 1.5E+02 0.0033 17.6 3.0 29 2-32 12-40 (109)
283 PF06014 DUF910: Bacterial pro 22.7 64 0.0014 17.1 1.3 15 80-94 4-18 (62)
284 KOG1134 Uncharacterized conser 22.5 1.3E+02 0.0027 24.6 3.4 28 106-133 303-330 (728)
285 KOG1134 Uncharacterized conser 22.4 1.5E+02 0.0032 24.2 3.8 37 15-53 303-339 (728)
286 PF15407 Spo7_2_N: Sporulation 22.4 35 0.00077 18.3 0.3 25 65-89 26-50 (67)
287 KOG4213 RNA-binding protein La 22.4 2.1E+02 0.0047 18.9 3.8 55 67-126 112-168 (205)
288 PF00398 RrnaAD: Ribosomal RNA 22.1 1.5E+02 0.0032 20.5 3.4 23 66-88 97-119 (262)
289 cd04458 CSP_CDS Cold-Shock Pro 22.0 60 0.0013 16.7 1.2 11 16-26 11-21 (65)
290 cd06257 DnaJ DnaJ domain or J- 21.9 99 0.0021 14.9 2.0 20 71-90 5-24 (55)
291 PF11387 DUF2795: Protein of u 21.8 1.1E+02 0.0025 14.6 2.2 22 71-92 1-22 (44)
292 TIGR03636 L23_arch archaeal ri 21.0 1.7E+02 0.0036 16.2 5.3 56 69-127 16-73 (77)
293 PF04127 DFP: DNA / pantothena 20.9 2.6E+02 0.0055 18.3 5.7 59 68-128 20-79 (185)
294 COG1278 CspC Cold shock protei 20.5 47 0.001 17.9 0.5 13 15-27 11-23 (67)
295 TIGR00755 ksgA dimethyladenosi 20.1 1.6E+02 0.0035 20.1 3.3 24 68-91 96-119 (253)
No 1
>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=100.00 E-value=6.1e-32 Score=188.13 Aligned_cols=141 Identities=30% Similarity=0.521 Sum_probs=128.3
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCH
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTT 80 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~ 80 (148)
.|++|+|++|+.+++++|||||+|.++++|++|+..|++..+.+++|.|.++.+.... ....+|||.|||.++++
T Consensus 133 ~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~~-----~~~~~lfV~nLp~~vte 207 (346)
T TIGR01659 133 PINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGGES-----IKDTNLYVTNLPRTITD 207 (346)
T ss_pred CEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccccc-----cccceeEEeCCCCcccH
Confidence 4789999999999999999999999999999999999999999999999988653321 23568999999999999
Q ss_pred HHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCC--eEEEEEeccCC
Q 032044 81 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEG--RAMRVSLAQGR 146 (148)
Q Consensus 81 ~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g--~~l~v~~~~~~ 146 (148)
++|+++|++||.|..+.++.+..++.++++|||+|.+.++|++|++.||+..+.| +.|.|.++..+
T Consensus 208 e~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~ 275 (346)
T TIGR01659 208 DQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEH 275 (346)
T ss_pred HHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCcc
Confidence 9999999999999999999998889999999999999999999999999998866 78999988654
No 2
>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=100.00 E-value=3.8e-31 Score=193.27 Aligned_cols=146 Identities=21% Similarity=0.404 Sum_probs=129.7
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCC------CCCCCCcceEEEcCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKL------PLYAETDFKLFVGNL 74 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~------~~~~~~~~~l~i~nl 74 (148)
.|.+|++++|+.+|+++|||||+|.+.++|+.|+..++|..+.|+.|.|.+........ .......++|||+||
T Consensus 133 ~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~~p~a~~~~~~~~~~~~~~~rLfVgnL 212 (612)
T TIGR01645 133 PIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASV 212 (612)
T ss_pred CEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccccccccccccccccccccccceEEeecC
Confidence 37899999999999999999999999999999999999999999999998654322111 111234578999999
Q ss_pred CCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 75 SWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 75 p~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
|+++++++|+++|+.||.|.++.+.+++.++.++|||||+|.+.++|.+|+..||+..++|+.|+|.++.++
T Consensus 213 p~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~p 284 (612)
T TIGR01645 213 HPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTP 284 (612)
T ss_pred CCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCC
Confidence 999999999999999999999999999888899999999999999999999999999999999999998653
No 3
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=4.1e-30 Score=167.63 Aligned_cols=139 Identities=27% Similarity=0.536 Sum_probs=126.5
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCC-----------CCCCCCcceE
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKL-----------PLYAETDFKL 69 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~-----------~~~~~~~~~l 69 (148)
.|.+.+|++|..|++++||+||.|...++|+.||..++|..++++.|+-.|+.++.... ......+++|
T Consensus 88 evS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~n~~~ltfdeV~NQssp~NtsV 167 (321)
T KOG0148|consen 88 EVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPSEMNGKPLTFDEVYNQSSPDNTSV 167 (321)
T ss_pred ccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCccccCCCCccHHHHhccCCCCCceE
Confidence 37789999999999999999999999999999999999999999999999997765322 1234578999
Q ss_pred EEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccC
Q 032044 70 FVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQG 145 (148)
Q Consensus 70 ~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~ 145 (148)
|++|++..+++++|++.|.+||+|..+++.++ +||+||.|++.|.|..|+-.+|+.+|.|..++..|-+.
T Consensus 168 Y~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe 237 (321)
T KOG0148|consen 168 YVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKE 237 (321)
T ss_pred EeCCcCccccHHHHHHhcccCCcceEEEEecc------cceEEEEecchhhHHHHHHHhcCceeCceEEEEecccc
Confidence 99999999999999999999999999999977 67999999999999999999999999999999988543
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.97 E-value=3.2e-29 Score=176.69 Aligned_cols=146 Identities=27% Similarity=0.465 Sum_probs=125.1
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecC--cEEEEeecCCCCCCC-------------------
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLG--RILRVNFSDKPKPKL------------------- 59 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~--~~i~v~~~~~~~~~~------------------- 59 (148)
+|..++++.+..++.++|||||+|.+.++|+.|+..|++..+.+ .++.+.++..+....
T Consensus 115 ~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~ 194 (352)
T TIGR01661 115 QIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNPSSSNSKGLLSQLEAVQNPQTTRV 194 (352)
T ss_pred CEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCCCCcCCchhcCchhhcccCcccCCC
Confidence 36788899998899999999999999999999999999998876 567777764332000
Q ss_pred --------------------------------------------------CC------------------CCCCcceEEE
Q 032044 60 --------------------------------------------------PL------------------YAETDFKLFV 71 (148)
Q Consensus 60 --------------------------------------------------~~------------------~~~~~~~l~i 71 (148)
.. ......+|||
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lfV 274 (352)
T TIGR01661 195 PLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHAAQRASPPATDGQTAGLAAGAQIAASDGAGYCIFV 274 (352)
T ss_pred CccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccccccccCCCccccccccccccCCCCCCCCCCCcEEEE
Confidence 00 0011236999
Q ss_pred cCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 72 GNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 72 ~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
+|||+.+++++|+++|++||.|.+++++.++.++.++|||||+|.+.++|..|+..|||..++|+.|+|.|...+
T Consensus 275 ~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~~ 349 (352)
T TIGR01661 275 YNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTNK 349 (352)
T ss_pred eCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccCC
Confidence 999999999999999999999999999999889999999999999999999999999999999999999998765
No 5
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.97 E-value=5.3e-29 Score=175.56 Aligned_cols=141 Identities=25% Similarity=0.518 Sum_probs=127.5
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCH
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTT 80 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~ 80 (148)
.|.+|+|++++.+|+++|||||+|.+.++|.+|+..|++..+.|++|.|.++.+.... ...++|||.|||..+++
T Consensus 29 ~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~~-----~~~~~l~v~~l~~~~~~ 103 (352)
T TIGR01661 29 EIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSDS-----IKGANLYVSGLPKTMTQ 103 (352)
T ss_pred CEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecccccc-----cccceEEECCccccCCH
Confidence 4789999999999999999999999999999999999999999999999998654322 23568999999999999
Q ss_pred HHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCC--eEEEEEeccCC
Q 032044 81 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEG--RAMRVSLAQGR 146 (148)
Q Consensus 81 ~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g--~~l~v~~~~~~ 146 (148)
++|+++|.+||.+..+.++.+..++.++|+|||+|.+.++|+.|+..|||..+.| .+|.+.++..+
T Consensus 104 ~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~ 171 (352)
T TIGR01661 104 HELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNP 171 (352)
T ss_pred HHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCCC
Confidence 9999999999999999999887778899999999999999999999999998877 67888887654
No 6
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.97 E-value=1.5e-28 Score=178.44 Aligned_cols=143 Identities=35% Similarity=0.608 Sum_probs=127.3
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCC-------CCCCCCcceEEEcC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKL-------PLYAETDFKLFVGN 73 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~-------~~~~~~~~~l~i~n 73 (148)
.|.+|++++++.+|+++|||||+|.+.++|.+|+. +++..+.|++|.|.++....... ........+|||+|
T Consensus 115 ~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~~~~~~~~~~~~~~~~~~~~p~~~~l~v~n 193 (457)
T TIGR01622 115 KVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQSSQAEKNRAAKAATHQPGDIPNFLKLYVGN 193 (457)
T ss_pred CeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEeecchhhhhhhhcccccCCCCCCCCEEEEcC
Confidence 47899999999999999999999999999999997 99999999999998765432211 11112368999999
Q ss_pred CCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 74 LSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 74 lp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
||..+++++|+++|++||.|..+.+..+..++.++|+|||+|.+.++|..|+..|+|..|.|+.|.|.++.
T Consensus 194 l~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 194 LHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ 264 (457)
T ss_pred CCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence 99999999999999999999999999998888899999999999999999999999999999999999965
No 7
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.96 E-value=1.6e-28 Score=159.74 Aligned_cols=140 Identities=28% Similarity=0.533 Sum_probs=127.9
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCHH
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTE 81 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~~ 81 (148)
|++|+++||+.+|++.||+||-|.+++||++|+..|||..+..++|+|.|+.+.... .....|||++||...+..
T Consensus 68 iEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs~~-----Ik~aNLYvSGlPktMtqk 142 (360)
T KOG0145|consen 68 IESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSSDS-----IKDANLYVSGLPKTMTQK 142 (360)
T ss_pred eeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCChhh-----hcccceEEecCCccchHH
Confidence 899999999999999999999999999999999999999999999999999765443 244579999999999999
Q ss_pred HHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCe--EEEEEeccCC
Q 032044 82 SLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGR--AMRVSLAQGR 146 (148)
Q Consensus 82 ~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~--~l~v~~~~~~ 146 (148)
+|+++|++||.|.-.+|..+.-++.++|.+||.|+....|++|+..|||..-.|. +|.|+++..+
T Consensus 143 elE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannP 209 (360)
T KOG0145|consen 143 ELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNP 209 (360)
T ss_pred HHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCc
Confidence 9999999999988888888888899999999999999999999999999887764 6999988644
No 8
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.96 E-value=3.9e-27 Score=174.75 Aligned_cols=141 Identities=27% Similarity=0.469 Sum_probs=125.5
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCH
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTT 80 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~ 80 (148)
.|.+|+|.+|+.|++++|||||+|.+.++|++|+..+++..+.|++|.|.|+...... ......+|||+|||.++++
T Consensus 26 ~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~~~---~~~~~~~vfV~nLp~~~~~ 102 (562)
T TIGR01628 26 PVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDPSL---RRSGVGNIFVKNLDKSVDN 102 (562)
T ss_pred CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccccccc---cccCCCceEEcCCCccCCH
Confidence 3789999999999999999999999999999999999999999999999997543221 2224557999999999999
Q ss_pred HHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccC
Q 032044 81 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQG 145 (148)
Q Consensus 81 ~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~ 145 (148)
++|+++|+.||.|..+.+..+ .++.++|+|||+|.+.++|++|+..+||..++|+.|.+....+
T Consensus 103 ~~L~~~F~~~G~i~~~~i~~~-~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~~~~ 166 (562)
T TIGR01628 103 KALFDTFSKFGNILSCKVATD-ENGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVYVGRFIK 166 (562)
T ss_pred HHHHHHHHhcCCcceeEeeec-CCCCcccEEEEEECCHHHHHHHHHHhcccEecCceEEEecccc
Confidence 999999999999999999887 4677899999999999999999999999999999999876543
No 9
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.95 E-value=3e-27 Score=163.39 Aligned_cols=138 Identities=31% Similarity=0.452 Sum_probs=116.5
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCee-cCcEEEEeecCCCC---------C-------------
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREY-LGRILRVNFSDKPK---------P------------- 57 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~-~~~~i~v~~~~~~~---------~------------- 57 (148)
+|.++++|+|+.+|.++|||||.|.+++.|+.|++.||+..| .|+.|.|..+.... .
T Consensus 109 ~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan~RLFiG~IPK~k~keeIlee~~kV 188 (506)
T KOG0117|consen 109 KIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVANCRLFIGNIPKTKKKEEILEEMKKV 188 (506)
T ss_pred ceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeecceeEeccCCccccHHHHHHHHHhh
Confidence 578999999999999999999999999999999999999987 47777775432210 0
Q ss_pred --------------------------------------------------------------CCCCCCCCcceEEEcCCC
Q 032044 58 --------------------------------------------------------------KLPLYAETDFKLFVGNLS 75 (148)
Q Consensus 58 --------------------------------------------------------------~~~~~~~~~~~l~i~nlp 75 (148)
..+.....-..|||+||+
T Consensus 189 teGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~ 268 (506)
T KOG0117|consen 189 TEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLM 268 (506)
T ss_pred CCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCChhhhhheeeeeeeccc
Confidence 000011123579999999
Q ss_pred CCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 76 WSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 76 ~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
.++|++.|++.|++||.|.++..+++ ||||.|.+.++|-+|++.+||++|+|..|.|.+++|.
T Consensus 269 ~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~ 331 (506)
T KOG0117|consen 269 ESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPV 331 (506)
T ss_pred hhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceEEEEecCCh
Confidence 99999999999999999999877644 9999999999999999999999999999999999875
No 10
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.95 E-value=1.9e-26 Score=171.11 Aligned_cols=144 Identities=36% Similarity=0.617 Sum_probs=127.2
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeec----CcEEEEeecCCCCCCC-------------CCCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYL----GRILRVNFSDKPKPKL-------------PLYA 63 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~----~~~i~v~~~~~~~~~~-------------~~~~ 63 (148)
.|.++.++++. +|.++|||||+|.+.++|.+|++.+++..+. |+.+.+.++....... ....
T Consensus 204 ~i~~~~i~~~~-~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v~~a~~k~er~~~~~~~~~~~~~~~~~~ 282 (562)
T TIGR01628 204 EITSAAVMKDG-SGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYVGRAQKRAEREAELRRKFEELQQERKMK 282 (562)
T ss_pred CEEEEEEEECC-CCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEeecccChhhhHHHHHhhHHhhhhhhhcc
Confidence 37789999985 7899999999999999999999999999999 9999998775443220 1113
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
....+|||+||+.++++++|+++|++||.|.++.++.+ .++.++|+|||+|.+.++|.+|+..+||..++|+.|.|.++
T Consensus 283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a 361 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALA 361 (562)
T ss_pred cCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEec
Confidence 35668999999999999999999999999999999988 67889999999999999999999999999999999999998
Q ss_pred cCC
Q 032044 144 QGR 146 (148)
Q Consensus 144 ~~~ 146 (148)
.++
T Consensus 362 ~~k 364 (562)
T TIGR01628 362 QRK 364 (562)
T ss_pred cCc
Confidence 765
No 11
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.95 E-value=2.1e-27 Score=163.61 Aligned_cols=143 Identities=29% Similarity=0.530 Sum_probs=126.2
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCee---cCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREY---LGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWS 77 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~---~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~ 77 (148)
.|.+|.|++|+.|+.++|||||.|.+.++|.+|+..|++... ...++.|+|+....++. ...++|||+-|+..
T Consensus 60 ~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er~----~~e~KLFvg~lsK~ 135 (510)
T KOG0144|consen 60 NVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERERI----VEERKLFVGMLSKQ 135 (510)
T ss_pred ceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhcc----ccchhhhhhhcccc
Confidence 378999999999999999999999999999999999988753 35778999887665543 34568999999999
Q ss_pred CCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCc-eeCC--eEEEEEeccCCCC
Q 032044 78 VTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGV-ELEG--RAMRVSLAQGRRS 148 (148)
Q Consensus 78 ~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~-~i~g--~~l~v~~~~~~~~ 148 (148)
++|.+++++|.+||.|+.+.|.++ ..+.+||+|||.|.+.+.|..|++.|||. .+.| .+|.|+|++++++
T Consensus 136 ~te~evr~iFs~fG~Ied~~ilrd-~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkd 208 (510)
T KOG0144|consen 136 CTENEVREIFSRFGHIEDCYILRD-PDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKD 208 (510)
T ss_pred ccHHHHHHHHHhhCccchhhheec-ccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCC
Confidence 999999999999999999999999 45889999999999999999999999995 5655 6899999988764
No 12
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.94 E-value=1.3e-25 Score=165.10 Aligned_cols=137 Identities=20% Similarity=0.395 Sum_probs=115.8
Q ss_pred eecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCC------------------------CCCC
Q 032044 8 LYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKL------------------------PLYA 63 (148)
Q Consensus 8 ~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~------------------------~~~~ 63 (148)
+.+...+.++|||||+|.+.++|..||. |+|..+.|.+|.|.......... ....
T Consensus 214 v~~~~~~~~kg~afVeF~~~e~A~~Al~-l~g~~~~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 292 (509)
T TIGR01642 214 VSSVNINKEKNFAFLEFRTVEEATFAMA-LDSIIYSNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVL 292 (509)
T ss_pred eEEEEECCCCCEEEEEeCCHHHHhhhhc-CCCeEeeCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCC
Confidence 3333445678999999999999999995 99999999999997543221000 0012
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
....+|||+|||..+++++|+++|+.||.|..+.++.+..++.++|||||+|.+.++|+.|+..|+|..++|+.|.|.++
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 34578999999999999999999999999999999999888999999999999999999999999999999999999997
Q ss_pred cC
Q 032044 144 QG 145 (148)
Q Consensus 144 ~~ 145 (148)
..
T Consensus 373 ~~ 374 (509)
T TIGR01642 373 CV 374 (509)
T ss_pred cc
Confidence 54
No 13
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.94 E-value=2.3e-26 Score=142.22 Aligned_cols=141 Identities=30% Similarity=0.527 Sum_probs=126.5
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCHH
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTE 81 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~~ 81 (148)
|.++.+.+|+.+...+||||++|.++++|+.|+.-|+...++|++|++..++..+... .....++|+||.+.+++.
T Consensus 36 Vv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas~~~~nl----~vganlfvgNLd~~vDe~ 111 (203)
T KOG0131|consen 36 VVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKASAHQKNL----DVGANLFVGNLDPEVDEK 111 (203)
T ss_pred eeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecccccccc----cccccccccccCcchhHH
Confidence 5688999999999999999999999999999999999999999999999887333332 233689999999999999
Q ss_pred HHHHHHhhcCCeeE-EEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 82 SLTQAFQEYGNVVG-ARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 82 ~l~~~f~~~g~v~~-~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
.|.+.|+.||.+.. -.+++++.++.+++++|+.|.+.+.+..|+..+||..++++++.|.++..+
T Consensus 112 ~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~ 177 (203)
T KOG0131|consen 112 LLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFKK 177 (203)
T ss_pred HHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEec
Confidence 99999999998654 477888899999999999999999999999999999999999999998654
No 14
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.94 E-value=6.3e-25 Score=160.54 Aligned_cols=127 Identities=27% Similarity=0.450 Sum_probs=111.1
Q ss_pred CCCCcccEEEEEeCCHHHHHHHHHHhCC--CeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCHHHHHHHHhh
Q 032044 12 ETGRSRGFAFVTMSTVEDCNAVIENLDG--REYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQE 89 (148)
Q Consensus 12 ~~~~~~g~afv~f~~~~~a~~a~~~l~~--~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~ 89 (148)
..++++|||||+|.+.++|..|++.|.. ..+.++.|.|.|+.+.....+.......+|||+|||.++++++|+++|++
T Consensus 177 ~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~~~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~ 256 (578)
T TIGR01648 177 DKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEEEVDEDVMAKVKILYVRNLMTTTTEEIIEKSFSE 256 (578)
T ss_pred ccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeecccccccccccccccEEEEeCCCCCCCHHHHHHHHHh
Confidence 3568899999999999999999988764 46789999999987765444444455678999999999999999999999
Q ss_pred c--CCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 90 Y--GNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 90 ~--g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
| |.|..+.++ +++|||+|.+.++|++|+..||+..|+|+.|+|.++.++
T Consensus 257 f~~G~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~ 307 (578)
T TIGR01648 257 FKPGKVERVKKI--------RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPV 307 (578)
T ss_pred cCCCceEEEEee--------cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCC
Confidence 9 999988765 448999999999999999999999999999999999774
No 15
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.93 E-value=1.7e-24 Score=157.78 Aligned_cols=140 Identities=21% Similarity=0.329 Sum_probs=115.8
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCC--------------------
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLP-------------------- 60 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~-------------------- 60 (148)
.|.+|++++++ +|+|||+|.+.++|..|+..|++..+.|++|.|.++.......+
T Consensus 302 ~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~~~~~~~~~~~~~~~~~~~d~~~~~~ 376 (481)
T TIGR01649 302 NVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQNVQPPREGQLDDGLTSYKDYSSSRN 376 (481)
T ss_pred CeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccccccCCCCCcCcCCCcccccccCCcc
Confidence 47889999874 58999999999999999999999999999999998754311000
Q ss_pred ------------CCCCCcceEEEcCCCCCCCHHHHHHHHhhcCC--eeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHH
Q 032044 61 ------------LYAETDFKLFVGNLSWSVTTESLTQAFQEYGN--VVGARVLYDGESGRSRGYGFVCYSTKAEMETALE 126 (148)
Q Consensus 61 ------------~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~--v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~ 126 (148)
....++.+|||.|||..+++++|+++|++||. +..+.+.... +..+++|||+|.+.++|.+|+.
T Consensus 377 ~r~~~~~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~~~~--~~~~~~gfVeF~~~e~A~~Al~ 454 (481)
T TIGR01649 377 HRFKKPGSANKNNIQPPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFFPKD--NERSKMGLLEWESVEDAVEALI 454 (481)
T ss_pred ccCCCcccccccccCCCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEEecCC--CCcceeEEEEcCCHHHHHHHHH
Confidence 00124568999999999999999999999998 7777775432 2357899999999999999999
Q ss_pred HhCCceeCCeE------EEEEeccCCC
Q 032044 127 SLNGVELEGRA------MRVSLAQGRR 147 (148)
Q Consensus 127 ~l~~~~i~g~~------l~v~~~~~~~ 147 (148)
.|||..|.|+. |+|.+++++.
T Consensus 455 ~ln~~~l~~~~~~~~~~lkv~fs~~~~ 481 (481)
T TIGR01649 455 ALNHHQLNEPNGSAPYHLKVSFSTSRI 481 (481)
T ss_pred HhcCCccCCCCCCccceEEEEeccCCC
Confidence 99999999884 9999998763
No 16
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.93 E-value=9.9e-25 Score=154.35 Aligned_cols=144 Identities=26% Similarity=0.493 Sum_probs=125.8
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCC---------------------
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLP--------------------- 60 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~--------------------- 60 (148)
|.-+.++.++.+++++|||||.|.-.+|++.|+....+..++|+.|.+.++.+......
T Consensus 32 ik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r~e~~~~~e~~~veK~~~q~~~~k~ 111 (678)
T KOG0127|consen 32 IKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRARSEEVEKGENKAVEKPIEQKRPTKA 111 (678)
T ss_pred cceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccccccchhcccccchhhhcccccCCcchh
Confidence 56678899998999999999999999999999999999999999999998765432220
Q ss_pred CCCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEE
Q 032044 61 LYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRV 140 (148)
Q Consensus 61 ~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v 140 (148)
....+..+|+|+|||+.+...+|..+|+.||.|..+.|++.++ ++.+|||||.|....+|..|+..+|+..|+|++|.|
T Consensus 112 ~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d-gklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAV 190 (678)
T KOG0127|consen 112 KVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD-GKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAV 190 (678)
T ss_pred hccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC-CCccceEEEEEeeHHHHHHHHHhccCceecCceeEE
Confidence 0112356899999999999999999999999999999998765 445599999999999999999999999999999999
Q ss_pred EeccCC
Q 032044 141 SLAQGR 146 (148)
Q Consensus 141 ~~~~~~ 146 (148)
.|+-++
T Consensus 191 DWAV~K 196 (678)
T KOG0127|consen 191 DWAVDK 196 (678)
T ss_pred eeeccc
Confidence 999765
No 17
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.92 E-value=1e-23 Score=155.03 Aligned_cols=144 Identities=20% Similarity=0.283 Sum_probs=118.2
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCC---------------------
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLP--------------------- 60 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~--------------------- 60 (148)
|+.+.+++++.+|.++|||||+|.+.++|..|+..|++..++|+.|.|.++........
T Consensus 322 i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 401 (509)
T TIGR01642 322 LKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGANQATIDTSNGMAPVTLLAKALSQSI 401 (509)
T ss_pred eeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccCCCCCCccccccccccccccccchhhh
Confidence 67889999999999999999999999999999999999999999999998753221100
Q ss_pred --CCCCCcceEEEcCCCCCC----------CHHHHHHHHhhcCCeeEEEEEEcC---CCCCceeEEEEEecCHHHHHHHH
Q 032044 61 --LYAETDFKLFVGNLSWSV----------TTESLTQAFQEYGNVVGARVLYDG---ESGRSRGYGFVCYSTKAEMETAL 125 (148)
Q Consensus 61 --~~~~~~~~l~i~nlp~~~----------~~~~l~~~f~~~g~v~~~~~~~~~---~~~~~~~~~fv~f~~~~~a~~a~ 125 (148)
....+..+|+|.|+.... ..++|++.|.+||.|..+.|++.. .++...|++||+|.+.++|++|+
T Consensus 402 ~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~ 481 (509)
T TIGR01642 402 LQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAM 481 (509)
T ss_pred ccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHH
Confidence 011245678999996431 236799999999999999998652 23445789999999999999999
Q ss_pred HHhCCceeCCeEEEEEeccC
Q 032044 126 ESLNGVELEGRAMRVSLAQG 145 (148)
Q Consensus 126 ~~l~~~~i~g~~l~v~~~~~ 145 (148)
..|||..++|+.|.+.|...
T Consensus 482 ~~lnGr~~~gr~v~~~~~~~ 501 (509)
T TIGR01642 482 EGMNGRKFNDRVVVAAFYGE 501 (509)
T ss_pred HHcCCCEECCeEEEEEEeCH
Confidence 99999999999999998653
No 18
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.92 E-value=1.3e-23 Score=153.19 Aligned_cols=136 Identities=18% Similarity=0.209 Sum_probs=111.8
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHh--CCCeecCcEEEEeecCCCCCCCCC-------CCCCcceEEE
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENL--DGREYLGRILRVNFSDKPKPKLPL-------YAETDFKLFV 71 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l--~~~~~~~~~i~v~~~~~~~~~~~~-------~~~~~~~l~i 71 (148)
+|.+|+++++ +|||||+|.+.++|+.|+..+ ++..+.|++|.|.|+......... ......+|+|
T Consensus 28 ~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~~~~~~~~~~~~~~~~~~~~v~v 101 (481)
T TIGR01649 28 PVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEIKRDGNSDFDSAGPNKVLRVIV 101 (481)
T ss_pred CeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCcccccCCCCcccCCCCCceEEEEE
Confidence 4778888854 479999999999999999864 678999999999998654322211 1122347899
Q ss_pred cCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCC--eEEEEEeccCC
Q 032044 72 GNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEG--RAMRVSLAQGR 146 (148)
Q Consensus 72 ~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g--~~l~v~~~~~~ 146 (148)
.||++++++++|+++|++||.|.++.+.++.. .++|||+|.+.++|.+|+..|||..|.| +.|+|.|++++
T Consensus 102 ~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~----~~~afVef~~~~~A~~A~~~Lng~~i~~~~~~l~v~~sk~~ 174 (481)
T TIGR01649 102 ENPMYPITLDVLYQIFNPYGKVLRIVTFTKNN----VFQALVEFESVNSAQHAKAALNGADIYNGCCTLKIEYAKPT 174 (481)
T ss_pred cCCCCCCCHHHHHHHHhccCCEEEEEEEecCC----ceEEEEEECCHHHHHHHHHHhcCCcccCCceEEEEEEecCC
Confidence 99999999999999999999999998876532 4689999999999999999999999965 58999998753
No 19
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.92 E-value=1.3e-23 Score=153.80 Aligned_cols=134 Identities=28% Similarity=0.460 Sum_probs=112.0
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeec-CcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYL-GRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVT 79 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~-~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~ 79 (148)
.|.+++|++| .+|+++|||||+|.+.++|++|++.|++..+. ++.+.+..+. ..++|||.|||.+++
T Consensus 84 ~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~-----------~~~rLFVgNLP~~~T 151 (578)
T TIGR01648 84 PIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISV-----------DNCRLFVGGIPKNKK 151 (578)
T ss_pred CEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccccc-----------cCceeEeecCCcchh
Confidence 4789999999 79999999999999999999999999999885 6766665442 356899999999999
Q ss_pred HHHHHHHHhhcCC-eeEEEE-EEcCCCCCceeEEEEEecCHHHHHHHHHHhCC--ceeCCeEEEEEeccCC
Q 032044 80 TESLTQAFQEYGN-VVGARV-LYDGESGRSRGYGFVCYSTKAEMETALESLNG--VELEGRAMRVSLAQGR 146 (148)
Q Consensus 80 ~~~l~~~f~~~g~-v~~~~~-~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~--~~i~g~~l~v~~~~~~ 146 (148)
+++|.+.|.+++. +..+.+ ......+++++||||+|.+.++|..|+..|+. ..+.|+.|.|.|+.++
T Consensus 152 eeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~ 222 (578)
T TIGR01648 152 REEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPE 222 (578)
T ss_pred hHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeeccc
Confidence 9999999999864 444333 33334567899999999999999999998864 4688999999998764
No 20
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.91 E-value=6.1e-24 Score=144.44 Aligned_cols=143 Identities=22% Similarity=0.441 Sum_probs=126.7
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCC------CCCCCcceEEEcCCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLP------LYAETDFKLFVGNLS 75 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~------~~~~~~~~l~i~nlp 75 (148)
|++|++.-|+.|++++|||||+|+-++.|+.|++.+|+..++|+.|+|.....-....+ .....-++|||..+.
T Consensus 140 IKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsNmpQAQpiID~vqeeAk~fnRiYVaSvH 219 (544)
T KOG0124|consen 140 IKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVH 219 (544)
T ss_pred cceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCCCcccchHHHHHHHHHHhhheEEeeecC
Confidence 78999999999999999999999999999999999999999999999985433211111 112245689999999
Q ss_pred CCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 76 WSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 76 ~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
++++++||+..|+-||.|.+|.+.+.+-.+..+||+|++|.+......|+..+|-..++|..|+|-.+-
T Consensus 220 pDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~v 288 (544)
T KOG0124|consen 220 PDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 288 (544)
T ss_pred CCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccccc
Confidence 999999999999999999999999998888899999999999999999999999999999999997763
No 21
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.90 E-value=3.6e-22 Score=140.13 Aligned_cols=130 Identities=29% Similarity=0.550 Sum_probs=118.3
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCH
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTT 80 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~ 80 (148)
.|.++++-+|. | +.|||||.|.++.+|.+|+..+|...+.|+++++-|+..-... ++|.||+++++.
T Consensus 24 ~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~~~----------~~i~nl~~~~~~ 90 (369)
T KOG0123|consen 24 PVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDPSL----------VFIKNLDESIDN 90 (369)
T ss_pred CceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCCce----------eeecCCCcccCc
Confidence 36799999997 6 9999999999999999999999999999999999998644332 999999999999
Q ss_pred HHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 81 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 81 ~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
.+|.++|+.||.|.++.+..+.. | .+|+ ||+|.+++.|++|+..+||..+.|+.|.+-...++
T Consensus 91 ~~~~d~f~~~g~ilS~kv~~~~~-g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~ 153 (369)
T KOG0123|consen 91 KSLYDTFSEFGNILSCKVATDEN-G-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERK 153 (369)
T ss_pred HHHHHHHHhhcCeeEEEEEEcCC-C-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccch
Confidence 99999999999999999998844 4 8899 99999999999999999999999999999776543
No 22
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.89 E-value=5.5e-22 Score=140.59 Aligned_cols=145 Identities=28% Similarity=0.484 Sum_probs=122.3
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCC--------------------
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLP-------------------- 60 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~-------------------- 60 (148)
+|.+|.|.+.+ .|+..|||||+|....+|..|+..+|+..|.|++|.|.|+..+.....
T Consensus 143 ~V~Ei~IP~k~-dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye~ta~~~~~s~Kk~~~eEed~e 221 (678)
T KOG0127|consen 143 KVVEIVIPRKK-DGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYEDTAHEEKQSLKKAVKEEEDKE 221 (678)
T ss_pred eEEEEEcccCC-CCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccccccccchhhhhhhhhccchhhhcc
Confidence 46788999775 566669999999999999999999999999999999999754311000
Q ss_pred -------------------------------------------------C----------------CCCCcceEEEcCCC
Q 032044 61 -------------------------------------------------L----------------YAETDFKLFVGNLS 75 (148)
Q Consensus 61 -------------------------------------------------~----------------~~~~~~~l~i~nlp 75 (148)
+ ......+|||+|||
T Consensus 222 ~~~d~~~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~~~k~~q~k~~~en~~~~~tVFvRNL~ 301 (678)
T KOG0127|consen 222 ADEDDGKDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKESDKKAQNKTTRENITEGKTVFVRNLP 301 (678)
T ss_pred cccccccccchhcccccccccccccccchhhhccccccccccccccccccccCcccchhccccccccccccceEEEecCC
Confidence 0 00012689999999
Q ss_pred CCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHh-----CC-ceeCCeEEEEEeccCC
Q 032044 76 WSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL-----NG-VELEGRAMRVSLAQGR 146 (148)
Q Consensus 76 ~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l-----~~-~~i~g~~l~v~~~~~~ 146 (148)
+++++++|.++|.+||.|.+..++.++.++.+.|.|||.|.++..|+.||... .| ..++|+.|.|..+-.|
T Consensus 302 fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~Lkv~~Av~R 378 (678)
T KOG0127|consen 302 FDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRLLKVTLAVTR 378 (678)
T ss_pred ccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccEEeeeeccch
Confidence 99999999999999999999999999999999999999999999999999866 23 7789999999987654
No 23
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.89 E-value=6.9e-23 Score=148.61 Aligned_cols=147 Identities=22% Similarity=0.397 Sum_probs=122.5
Q ss_pred CcceeEeeecCCC---CCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCC----CCCCCCcceEEEcC
Q 032044 1 MLSKLTVLYDRET---GRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKL----PLYAETDFKLFVGN 73 (148)
Q Consensus 1 ~i~~i~~~~~~~~---~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~----~~~~~~~~~l~i~n 73 (148)
+|.++.|..-+.. -.|.|||||+|.++++|+.|++.|+|..+.|..+.+.++....... .......+.|+|+|
T Consensus 541 ~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~~gK~~~~kk~~tKIlVRN 620 (725)
T KOG0110|consen 541 TVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKPASTVGKKKSKKKKGTKILVRN 620 (725)
T ss_pred eEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCccccccccccccccccceeeeec
Confidence 3556666665421 1356999999999999999999999999999999999987221111 11222346899999
Q ss_pred CCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCCC
Q 032044 74 LSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGRR 147 (148)
Q Consensus 74 lp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~~ 147 (148)
+|+..+..+++.+|..||.+..++++.-...+..+|+|||+|-++.+|..|+..|.+..+.|++|.++|+....
T Consensus 621 ipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d~ 694 (725)
T KOG0110|consen 621 IPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKSDN 694 (725)
T ss_pred cchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhccch
Confidence 99999999999999999999999998776667789999999999999999999999999999999999997653
No 24
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.88 E-value=1.7e-21 Score=127.17 Aligned_cols=143 Identities=29% Similarity=0.471 Sum_probs=122.3
Q ss_pred eeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecC--cEEEEeecCCCCCCCC---------------------
Q 032044 4 KLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLG--RILRVNFSDKPKPKLP--------------------- 60 (148)
Q Consensus 4 ~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~--~~i~v~~~~~~~~~~~--------------------- 60 (148)
--+|+-|..||.++|.+||.|+...+|+.|+..|||..=.| .+|.|+++..+.....
T Consensus 156 tSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannPsq~t~~a~ls~ly~sp~rr~~Gp~hh 235 (360)
T KOG0145|consen 156 TSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNPSQKTNQALLSQLYQSPARRYGGPMHH 235 (360)
T ss_pred hhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCcccccchhhhHHhhcCccccCCCcccc
Confidence 34677788899999999999999999999999999986554 4588887755422100
Q ss_pred -------------------------------------CCCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCC
Q 032044 61 -------------------------------------LYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGE 103 (148)
Q Consensus 61 -------------------------------------~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~ 103 (148)
.......+|||-||.++.++.-|.++|.+||.|..+.++++..
T Consensus 236 ~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~t 315 (360)
T KOG0145|consen 236 QAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFT 315 (360)
T ss_pred hhhhhccccccchhhhhccCCCccccccceeeeeccCCCCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCC
Confidence 0112356899999999999999999999999999999999998
Q ss_pred CCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 104 SGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 104 ~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
+++.+||+||.+.+.+.|..|+..|||+.++++.|.|.+...+
T Consensus 316 tnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtnk 358 (360)
T KOG0145|consen 316 TNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTNK 358 (360)
T ss_pred cccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecCC
Confidence 8999999999999999999999999999999999999996544
No 25
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.88 E-value=1.8e-22 Score=133.32 Aligned_cols=123 Identities=27% Similarity=0.497 Sum_probs=113.4
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCH
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTT 80 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~ 80 (148)
||.+|.|+++ ||||-.+++..|+.|++.|++..++|..|.|+-++.+ ...+.+|+|+|+.+.++.
T Consensus 28 kVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK-------sk~stkl~vgNis~tctn 92 (346)
T KOG0109|consen 28 KVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK-------SKASTKLHVGNISPTCTN 92 (346)
T ss_pred ceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecccc-------CCCccccccCCCCccccC
Confidence 5788888877 7999999999999999999999999999999988655 234568999999999999
Q ss_pred HHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 81 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 81 ~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
++++..|++||+|..+.|.++ |+||.|+..++|..|++.|++.++.|++++|+++.+|
T Consensus 93 ~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsr 150 (346)
T KOG0109|consen 93 QELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSR 150 (346)
T ss_pred HHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhcccccccccceeeeeeeccc
Confidence 999999999999999999855 8999999999999999999999999999999998876
No 26
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.88 E-value=5.3e-21 Score=139.13 Aligned_cols=140 Identities=24% Similarity=0.388 Sum_probs=114.9
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCC----------------------
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPK---------------------- 58 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~---------------------- 58 (148)
.|.+|.+++++.+|.++|||||+|.+.++|..|+..|+|..+.|++|.|.|+......
T Consensus 212 ~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 291 (457)
T TIGR01622 212 DIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDSTYLLDAANTFEDIDKQQQMGKNLNT 291 (457)
T ss_pred CeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccCCCccccchhhhccccccccCCcCCCc
Confidence 3788999999989999999999999999999999999999999999999994321000
Q ss_pred -------------C------------------------------C----------------C----CCCCcceEEEcCCC
Q 032044 59 -------------L------------------------------P----------------L----YAETDFKLFVGNLS 75 (148)
Q Consensus 59 -------------~------------------------------~----------------~----~~~~~~~l~i~nlp 75 (148)
. + . ......+|+|.|+.
T Consensus 292 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~n~~ 371 (457)
T TIGR01622 292 EEREQLMEKLDRDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGALAIMARNSFVPSTNNNLATTCLVLSNMF 371 (457)
T ss_pred cchHHHHHhhccCCCCccccCCCccchhhhhccccccccccccccccccccccccccCCCCCCcccCCCCCcEEEEecCC
Confidence 0 0 0 01234678888985
Q ss_pred CCCC----------HHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 76 WSVT----------TESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 76 ~~~~----------~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
.... .++|++.|.+||.|..+.+... ...|++||+|.+.++|..|++.|||..++|+.|.+.+..
T Consensus 372 ~~~~~~~~~~~~~~~~dv~~e~~k~G~v~~v~v~~~----~~~G~~fV~F~~~e~A~~A~~~lnGr~f~gr~i~~~~~~ 446 (457)
T TIGR01622 372 DPATEEEPNFDNEILDDVKEECSKYGGVVHIYVDTK----NSAGKIYLKFSSVDAALAAFQALNGRYFGGKMITAAFVV 446 (457)
T ss_pred CCcccccchHHHHHHHHHHHHHHhcCCeeEEEEeCC----CCceeEEEEECCHHHHHHHHHHhcCcccCCeEEEEEEEc
Confidence 5544 3689999999999999988633 357899999999999999999999999999999999864
No 27
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.88 E-value=1.6e-22 Score=143.21 Aligned_cols=143 Identities=31% Similarity=0.604 Sum_probs=125.8
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCC---------CCCCCcceEEE
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLP---------LYAETDFKLFV 71 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~---------~~~~~~~~l~i 71 (148)
||.+|.++.|+.+++++|.|||+|.+.+.+..|+. |.|..+.|.+|.|..+...+.... ....+...+|+
T Consensus 205 kVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~pv~vq~sEaeknr~a~~s~a~~~k~~~~p~~rl~v 283 (549)
T KOG0147|consen 205 KVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPVIVQLSEAEKNRAANASPALQGKGFTGPMRRLYV 283 (549)
T ss_pred CcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCceeEecccHHHHHHHHhccccccccccccchhhhhh
Confidence 68899999999999999999999999999999996 999999999999997754432211 01112233999
Q ss_pred cCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 72 GNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 72 ~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
+||..++++++++.+|++||.|..+.+.++..+|..+||+||+|.+.++|..|+..|||.++.|+.++|....
T Consensus 284 gnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~ 356 (549)
T KOG0147|consen 284 GNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVT 356 (549)
T ss_pred cccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEee
Confidence 9999999999999999999999999999998899999999999999999999999999999999999987643
No 28
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.87 E-value=2.9e-21 Score=119.65 Aligned_cols=85 Identities=42% Similarity=0.780 Sum_probs=79.8
Q ss_pred CCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 63 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 63 ~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
...+++|||.|||+++++++|+++|++||.|..+.++.++.++.+++||||+|.+.++|+.|+..||+..|+|+.|+|++
T Consensus 31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~ 110 (144)
T PLN03134 31 RLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNP 110 (144)
T ss_pred cCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence 34567899999999999999999999999999999999998999999999999999999999999999999999999999
Q ss_pred ccCCC
Q 032044 143 AQGRR 147 (148)
Q Consensus 143 ~~~~~ 147 (148)
+.++.
T Consensus 111 a~~~~ 115 (144)
T PLN03134 111 ANDRP 115 (144)
T ss_pred CCcCC
Confidence 87653
No 29
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=99.81 E-value=8e-19 Score=96.27 Aligned_cols=70 Identities=41% Similarity=0.785 Sum_probs=66.6
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEE
Q 032044 69 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMR 139 (148)
Q Consensus 69 l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~ 139 (148)
|||+|||+++++++|+++|++||.+..+.+..+ .++..+++|||+|.+.++|+.|+..++|..++|+.|+
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 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 799999999999999999999999999999887 6688899999999999999999999999999999886
No 30
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.81 E-value=2.8e-19 Score=115.69 Aligned_cols=82 Identities=24% Similarity=0.469 Sum_probs=79.5
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
..++|.|.||+.+.++++|+++|.+||.|.++.+.++..+|.++|||||.|.+.++|.+|+..|||+-+++-.|+|+|++
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwsk 267 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSK 267 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecC
Confidence 45789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CC
Q 032044 145 GR 146 (148)
Q Consensus 145 ~~ 146 (148)
|+
T Consensus 268 P~ 269 (270)
T KOG0122|consen 268 PS 269 (270)
T ss_pred CC
Confidence 86
No 31
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.81 E-value=1.4e-19 Score=123.59 Aligned_cols=144 Identities=27% Similarity=0.451 Sum_probs=126.9
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCC-CCCCCcceEEEcCCCCCCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLP-LYAETDFKLFVGNLSWSVT 79 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~-~~~~~~~~l~i~nlp~~~~ 79 (148)
.|.++.+++|+.+++++||+||+|++.+.+..++. .....+.++.+....+.+...... .......+++|++||.+++
T Consensus 32 ev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~av~r~~~~~~~~~~~tkkiFvGG~~~~~~ 110 (311)
T KOG4205|consen 32 EVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKRAVSREDQTKVGRHLRTKKIFVGGLPPDTT 110 (311)
T ss_pred ceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccceeccCcccccccccccceeEEEecCcCCCCc
Confidence 36789999999999999999999999999999997 456778999999988766554432 2223567899999999999
Q ss_pred HHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 80 TESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 80 ~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
+.++++.|.+||.|..+.++.+..+..+++++||.|.+++..++++. ..-+.++|+.+.|..+.++
T Consensus 111 e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~pk 176 (311)
T KOG4205|consen 111 EEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAIPK 176 (311)
T ss_pred hHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeeccch
Confidence 99999999999999999999999999999999999999999999987 7788999999999998876
No 32
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.81 E-value=8.7e-19 Score=123.20 Aligned_cols=141 Identities=28% Similarity=0.495 Sum_probs=122.7
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCC---CCCCcceEEEcCCCCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPL---YAETDFKLFVGNLSWS 77 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~---~~~~~~~l~i~nlp~~ 77 (148)
+|.||++.++. .| ++|| ||+|.+++.|++|+..+||..+.+++|+|............ ....-..+++.+++.+
T Consensus 102 ~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~~~~~~~~~~t~v~vk~~~~~ 178 (369)
T KOG0123|consen 102 NILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEEREAPLGEYKKRFTNVYVKNLEED 178 (369)
T ss_pred CeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhcccccchhhhhhhhheeccccc
Confidence 47899999996 56 9999 99999999999999999999999999999877654432211 3345567999999999
Q ss_pred CCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccC
Q 032044 78 VTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQG 145 (148)
Q Consensus 78 ~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~ 145 (148)
.+++.|.++|..+|.+.++.++.+ ..+.+++++||.|.++++|..|+..+++..+.+..+.|..+..
T Consensus 179 ~~~~~l~~~f~~~g~i~s~~v~~~-~~g~~~~~gfv~f~~~e~a~~av~~l~~~~~~~~~~~V~~aqk 245 (369)
T KOG0123|consen 179 STDEELKDLFSAYGSITSVAVMRD-SIGKSKGFGFVNFENPEDAKKAVETLNGKIFGDKELYVGRAQK 245 (369)
T ss_pred cchHHHHHhhcccCcceEEEEeec-CCCCCCCccceeecChhHHHHHHHhccCCcCCccceeeccccc
Confidence 999999999999999999999988 4466899999999999999999999999999998888877654
No 33
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.80 E-value=5.3e-19 Score=116.06 Aligned_cols=83 Identities=25% Similarity=0.532 Sum_probs=79.2
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
..|.|||-.||....+.+|-.+|-+||.|.+.++..++.++-+++++||.|+++.+|+.|++.+||..|+-++|+|++.+
T Consensus 284 eGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKR 363 (371)
T KOG0146|consen 284 EGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKR 363 (371)
T ss_pred CcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcC
Confidence 35889999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred CCC
Q 032044 145 GRR 147 (148)
Q Consensus 145 ~~~ 147 (148)
++.
T Consensus 364 Pkd 366 (371)
T KOG0146|consen 364 PKD 366 (371)
T ss_pred ccc
Confidence 874
No 34
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.79 E-value=6.3e-19 Score=103.58 Aligned_cols=80 Identities=26% Similarity=0.475 Sum_probs=76.8
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
..+++|||+||+..++|++|.++|+.+|.|..+.+-.++.+..|.|+|||+|.+.++|..|++.++|..++.++|++.|.
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999999885
No 35
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.78 E-value=2.8e-18 Score=119.97 Aligned_cols=85 Identities=27% Similarity=0.475 Sum_probs=79.5
Q ss_pred CCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEE
Q 032044 62 YAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVS 141 (148)
Q Consensus 62 ~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~ 141 (148)
.....++|||.|||+++++++|+++|..||.|..+.++.+..++.+++||||+|.++++|++|+..|++..+.+++|+|.
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~ 182 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS 182 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence 34467899999999999999999999999999999999998899999999999999999999999999999999999999
Q ss_pred eccCC
Q 032044 142 LAQGR 146 (148)
Q Consensus 142 ~~~~~ 146 (148)
++++.
T Consensus 183 ~a~p~ 187 (346)
T TIGR01659 183 YARPG 187 (346)
T ss_pred ccccc
Confidence 98653
No 36
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.78 E-value=4.5e-18 Score=117.94 Aligned_cols=82 Identities=27% Similarity=0.552 Sum_probs=77.8
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
..++|-+||.+.-+.+|-..|.+||.|.+.++.-++.++.++.|+||.|++...|+.|+..+||..|++++++|+..+++
T Consensus 425 anlfiyhlPqefgdq~l~~~f~pfG~Vlsakvfidk~tnlskcfgfvSyen~~sa~~aI~amngfQig~KrlkVQlk~~~ 504 (510)
T KOG0144|consen 425 ANLFIYHLPQEFGDQDLIATFQPFGGVLSAKVFIDKVTNLSKCFGFVSYENAQSAQNAISAMNGFQIGSKRLKVQLKRDR 504 (510)
T ss_pred cceeeeeCchhhhhHHHHHHhccccceeEEEEEEecccCHhhhcCcccccchhhhHHHHHHhcchhhccccceEEeeecc
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999998877
Q ss_pred CC
Q 032044 147 RS 148 (148)
Q Consensus 147 ~~ 148 (148)
.+
T Consensus 505 ~n 506 (510)
T KOG0144|consen 505 NN 506 (510)
T ss_pred CC
Confidence 53
No 37
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.77 E-value=9.2e-18 Score=92.12 Aligned_cols=70 Identities=39% Similarity=0.715 Sum_probs=64.6
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEE
Q 032044 69 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMR 139 (148)
Q Consensus 69 l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~ 139 (148)
|+|+|||+++++++|+++|..+|.|..+.+..++. +.++++|||+|.+.++|..|+..+++..++|+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 78999999999999999999999999999999866 88999999999999999999999999999999885
No 38
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.77 E-value=3e-18 Score=112.50 Aligned_cols=102 Identities=34% Similarity=0.626 Sum_probs=87.4
Q ss_pred EEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHH
Q 032044 46 ILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 125 (148)
Q Consensus 46 ~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~ 125 (148)
.++|.|+..+..........-.+++++.|...++.++|++.|.+||.|...++++|..+++++||+||.|.+.++|+.|+
T Consensus 42 e~~v~wa~~p~nQsk~t~~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI 121 (321)
T KOG0148|consen 42 ELKVNWATAPGNQSKPTSNQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAI 121 (321)
T ss_pred hhccccccCcccCCCCccccceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHH
Confidence 45566665553332223333457899999999999999999999999999999999999999999999999999999999
Q ss_pred HHhCCceeCCeEEEEEeccCCC
Q 032044 126 ESLNGVELEGRAMRVSLAQGRR 147 (148)
Q Consensus 126 ~~l~~~~i~g~~l~v~~~~~~~ 147 (148)
..|||.+|+++.|+..|+.++.
T Consensus 122 ~~MnGqWlG~R~IRTNWATRKp 143 (321)
T KOG0148|consen 122 QQMNGQWLGRRTIRTNWATRKP 143 (321)
T ss_pred HHhCCeeeccceeeccccccCc
Confidence 9999999999999999997763
No 39
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.76 E-value=2.6e-17 Score=114.64 Aligned_cols=126 Identities=22% Similarity=0.362 Sum_probs=101.3
Q ss_pred EEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEE
Q 032044 21 FVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLY 100 (148)
Q Consensus 21 fv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~ 100 (148)
.-...+.++|.++|..-.+..+.-..-.-++..++...........+-|||+.||.++.|++|.-+|++.|.|..+++++
T Consensus 38 ~~~~~~~eaal~al~E~tgy~l~ve~gqrk~ggPpP~weg~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMm 117 (506)
T KOG0117|consen 38 VAGVQSEEAALKALLERTGYTLVVENGQRKYGGPPPGWEGPPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMM 117 (506)
T ss_pred ccccccHHHHHHHHHHhcCceEEEeccccccCCCCCcccCCCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEee
Confidence 33444578889998876666653322222344444444444456778999999999999999999999999999999999
Q ss_pred cCCCCCceeEEEEEecCHHHHHHHHHHhCCcee-CCeEEEEEeccCC
Q 032044 101 DGESGRSRGYGFVCYSTKAEMETALESLNGVEL-EGRAMRVSLAQGR 146 (148)
Q Consensus 101 ~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i-~g~~l~v~~~~~~ 146 (148)
++.+|.++|||||+|++.+.|++|++.||+++| .|+.|.|..+..+
T Consensus 118 D~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan 164 (506)
T KOG0117|consen 118 DPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVAN 164 (506)
T ss_pred cccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeec
Confidence 999999999999999999999999999999998 5899998876543
No 40
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.74 E-value=1.7e-17 Score=111.58 Aligned_cols=84 Identities=27% Similarity=0.546 Sum_probs=76.6
Q ss_pred CCCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEE
Q 032044 61 LYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRV 140 (148)
Q Consensus 61 ~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v 140 (148)
.....+++|||+|+|+..-+.||+.+|++||.|.+|.|+.+. ..++|||||+|++.++|++|-..|||..+.|++|.|
T Consensus 91 ~s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEV 168 (376)
T KOG0125|consen 91 SSKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEV 168 (376)
T ss_pred CCCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEEEE
Confidence 345567899999999999999999999999999999999873 347999999999999999999999999999999999
Q ss_pred EeccCC
Q 032044 141 SLAQGR 146 (148)
Q Consensus 141 ~~~~~~ 146 (148)
.-+..+
T Consensus 169 n~ATar 174 (376)
T KOG0125|consen 169 NNATAR 174 (376)
T ss_pred eccchh
Confidence 988765
No 41
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.74 E-value=1.4e-17 Score=102.87 Aligned_cols=77 Identities=32% Similarity=0.590 Sum_probs=71.2
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
..++|||+||+..+++.+|...|..||.+..+.+..+ |.|||||+|+++.+|+.|+..|+|..|+|..++|+++.
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn-----PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~ 83 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN-----PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELST 83 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec-----CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeec
Confidence 3678999999999999999999999999999988765 58899999999999999999999999999999999986
Q ss_pred CC
Q 032044 145 GR 146 (148)
Q Consensus 145 ~~ 146 (148)
-+
T Consensus 84 G~ 85 (195)
T KOG0107|consen 84 GR 85 (195)
T ss_pred CC
Confidence 43
No 42
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.72 E-value=1.2e-16 Score=106.00 Aligned_cols=75 Identities=20% Similarity=0.285 Sum_probs=69.8
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
.++|||+|||+.+++++|+++|+.||.|..+.++.++. ++|+|||+|.++++|+.|+. |+|..|.|+.|.|.++.
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAE 78 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEecc
Confidence 46899999999999999999999999999999987753 47899999999999999996 99999999999999986
No 43
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.72 E-value=6.7e-17 Score=119.13 Aligned_cols=81 Identities=26% Similarity=0.596 Sum_probs=76.4
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
...++|||+|||+++++++|+++|.+||.|.++.+++++.++.++|||||+|.+.++|+.|+..|||..++|+.|+|...
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp 184 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 184 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence 35679999999999999999999999999999999999999999999999999999999999999999999999999864
Q ss_pred c
Q 032044 144 Q 144 (148)
Q Consensus 144 ~ 144 (148)
.
T Consensus 185 ~ 185 (612)
T TIGR01645 185 S 185 (612)
T ss_pred c
Confidence 3
No 44
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=99.71 E-value=2.6e-16 Score=110.85 Aligned_cols=138 Identities=22% Similarity=0.268 Sum_probs=107.2
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCC------CCCCCcceEEEcCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLP------LYAETDFKLFVGNL 74 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~------~~~~~~~~l~i~nl 74 (148)
+|+++ +..+.+|+..|=|||+|.+++++++|++ .+...+..+.|.|-.+........ ........|.+++|
T Consensus 35 ~I~~~--~~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~~~e~d~~~~~~g~~s~~~d~vVRLRGL 111 (510)
T KOG4211|consen 35 GIENL--EIPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAGGAEADWVMRPGGPNSSANDGVVRLRGL 111 (510)
T ss_pred ceeEE--EEeccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccCCccccccccCCCCCCCCCCceEEecCC
Confidence 46664 4444589999999999999999999998 688899999999987654432211 11235668999999
Q ss_pred CCCCCHHHHHHHHhhcCCeeE-EEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 75 SWSVTTESLTQAFQEYGNVVG-ARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 75 p~~~~~~~l~~~f~~~g~v~~-~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
|+.|+++||.++|+..-.+.. +.++.+ ..+++.|.|||.|.+.+.|+.|++ -|...|+-+-|.|-.+
T Consensus 112 Pfscte~dI~~FFaGL~Iv~~gi~l~~d-~rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 112 PFSCTEEDIVEFFAGLEIVPDGILLPMD-QRGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVFRS 179 (510)
T ss_pred CccCcHHHHHHHhcCCcccccceeeecc-CCCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEeehh
Confidence 999999999999998866555 334444 456789999999999999999998 5666777777776554
No 45
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.70 E-value=3e-16 Score=111.79 Aligned_cols=138 Identities=26% Similarity=0.356 Sum_probs=108.0
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCC-----------------------
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKP----------------------- 57 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~----------------------- 57 (148)
+|+.|.+.+|..||+++|||||+|...++|..|+..|||..+.|+.|.|........
T Consensus 304 ~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~~~~~a~~~~~d~D~~d~~gl~~~~ 383 (549)
T KOG0147|consen 304 KIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERVDTKEAAVTQFDFDEDDRQGLSLGS 383 (549)
T ss_pred cceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeecccccccccccccchhhcccccccc
Confidence 478899999988999999999999999999999999999999999999864221100
Q ss_pred --------------------------------------------CCCCCC-------CCcceEEEcCCCCCCCH------
Q 032044 58 --------------------------------------------KLPLYA-------ETDFKLFVGNLSWSVTT------ 80 (148)
Q Consensus 58 --------------------------------------------~~~~~~-------~~~~~l~i~nlp~~~~~------ 80 (148)
....+. .++.++.++|+-...++
T Consensus 384 ~g~~Ql~~kla~~~~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~~i~t~C~lL~nMFdpstete~n~d 463 (549)
T KOG0147|consen 384 GGRNQLMAKLAEGKGRSLPSTAISALLLLAKLASAAQFNGVVRVRSVDPADASPAFDIPTQCLLLSNMFDPSTETEPNWD 463 (549)
T ss_pred ccHHHHHHHHhccCCccccchhhhHHHhccccchHHhhcCCcCccccCccccccccCCccHHHHHhhcCCcccccCcchh
Confidence 000011 23345667777433222
Q ss_pred ----HHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 81 ----ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 81 ----~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
+|+.+.|.+||.|..|.+.++ +.|+.||.|.+.+.|..|+..|||.|+.|+.|.+.|-
T Consensus 464 ~eI~edV~Eec~k~g~v~hi~vd~n-----s~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~ 525 (549)
T KOG0147|consen 464 QEIREDVIEECGKHGKVCHIFVDKN-----SAGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYL 525 (549)
T ss_pred hHHHHHHHHHHHhcCCeeEEEEccC-----CCceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEe
Confidence 578889999999988877544 2378999999999999999999999999999998874
No 46
>smart00362 RRM_2 RNA recognition motif.
Probab=99.69 E-value=5.6e-16 Score=84.83 Aligned_cols=72 Identities=40% Similarity=0.760 Sum_probs=66.3
Q ss_pred eEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEE
Q 032044 68 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVS 141 (148)
Q Consensus 68 ~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~ 141 (148)
+|+|+|||..++.++|+++|.+||.+..+.+..++ +.++++|||+|.+.+.|+.|+..+++..+.|+.+.|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 48999999999999999999999999999888665 6678999999999999999999999999999998874
No 47
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.69 E-value=5.5e-16 Score=103.18 Aligned_cols=85 Identities=28% Similarity=0.649 Sum_probs=80.0
Q ss_pred CCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEE
Q 032044 62 YAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVS 141 (148)
Q Consensus 62 ~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~ 141 (148)
...+-+||||.-|++++++..|+..|+.||.|..+.++.+..+++++|||||+|+++-+...|.+..+|..|+|+.|.|.
T Consensus 97 ~gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VD 176 (335)
T KOG0113|consen 97 IGDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVD 176 (335)
T ss_pred cCCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEE
Confidence 34677899999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred eccCC
Q 032044 142 LAQGR 146 (148)
Q Consensus 142 ~~~~~ 146 (148)
+-+.+
T Consensus 177 vERgR 181 (335)
T KOG0113|consen 177 VERGR 181 (335)
T ss_pred ecccc
Confidence 86543
No 48
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.67 E-value=1.6e-15 Score=86.22 Aligned_cols=83 Identities=27% Similarity=0.442 Sum_probs=73.6
Q ss_pred CCCCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEE
Q 032044 60 PLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMR 139 (148)
Q Consensus 60 ~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~ 139 (148)
..++.....|||.|||+.++.+++.++|.+||.|..+++--.+ .-+|-|||.|++..+|.+|+.+|+|..++++.+.
T Consensus 12 rlppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k---~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~ 88 (124)
T KOG0114|consen 12 RLPPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK---ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLV 88 (124)
T ss_pred CCChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCcc---CcCceEEEEehHhhhHHHHHHHhcccccCCceEE
Confidence 3455567789999999999999999999999999999996443 3578999999999999999999999999999999
Q ss_pred EEeccC
Q 032044 140 VSLAQG 145 (148)
Q Consensus 140 v~~~~~ 145 (148)
|-+-++
T Consensus 89 vlyyq~ 94 (124)
T KOG0114|consen 89 VLYYQP 94 (124)
T ss_pred EEecCH
Confidence 988654
No 49
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.66 E-value=2.9e-16 Score=99.62 Aligned_cols=81 Identities=33% Similarity=0.603 Sum_probs=77.2
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
.....|.|.||.+.++.++|+.+|++||.|-.|.|++++.+..++|||||.|....+|+.|+..|+|..++|+.|+|++|
T Consensus 11 ~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~a 90 (256)
T KOG4207|consen 11 EGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMA 90 (256)
T ss_pred ccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhh
Confidence 45568999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred c
Q 032044 144 Q 144 (148)
Q Consensus 144 ~ 144 (148)
+
T Consensus 91 r 91 (256)
T KOG4207|consen 91 R 91 (256)
T ss_pred h
Confidence 4
No 50
>smart00360 RRM RNA recognition motif.
Probab=99.66 E-value=1.4e-15 Score=82.91 Aligned_cols=71 Identities=41% Similarity=0.783 Sum_probs=66.0
Q ss_pred EcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEE
Q 032044 71 VGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVS 141 (148)
Q Consensus 71 i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~ 141 (148)
|+|||..+++++|+++|.+||.+..+.+..++.++.++++|||+|.+.+.|..|+..+++..++|+.+.|+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 57899999999999999999999999998887778889999999999999999999999999999998874
No 51
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.66 E-value=4.6e-16 Score=100.44 Aligned_cols=78 Identities=36% Similarity=0.674 Sum_probs=69.6
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
.-++|||+||++.+..+.|++.|++||.|....++.++.+++++||+||+|.+.+.|.+|++. -+-.|+|++.-+.++
T Consensus 11 ~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNcnlA 88 (247)
T KOG0149|consen 11 TFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANCNLA 88 (247)
T ss_pred eEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccccccchh
Confidence 345899999999999999999999999999999999999999999999999999999999983 344678887666664
No 52
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=99.66 E-value=5.9e-15 Score=102.11 Aligned_cols=136 Identities=26% Similarity=0.418 Sum_probs=111.9
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCC--------------------
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPL-------------------- 61 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~-------------------- 61 (148)
|..|+|++++.+. |+|+|.+...|+-|++.|+|..++|++|+|.+++......+.
T Consensus 325 VqRVkil~nkkd~-----ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~vqlp~egq~d~glT~dy~~spLhrf 399 (492)
T KOG1190|consen 325 VQRVKILYNKKDN-----ALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNVQLPREGQEDQGLTKDYGNSPLHRF 399 (492)
T ss_pred eEEEEeeecCCcc-----eeeeecchhHHHHHHHHhhcceecCceEEEeeccCccccCCCCCCccccccccCCCCchhhc
Confidence 6789999998754 999999999999999999999999999999998764321110
Q ss_pred ----------CCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCc
Q 032044 62 ----------YAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGV 131 (148)
Q Consensus 62 ----------~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~ 131 (148)
...++.++++.|+|.++++++++..|..-|...+...... +.+.++++.+.+.+.|..|+-.+|++
T Consensus 400 kkpgsKN~~ni~PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff~----kd~kmal~q~~sveeA~~ali~~hnh 475 (492)
T KOG1190|consen 400 KKPGSKNYQNIFPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQ----KDRKMALPQLESVEEAIQALIDLHNH 475 (492)
T ss_pred cCcccccccccCCchhheeeccCCcccchhHHHHhhhcCCceEEeeeecC----CCcceeecccCChhHhhhhccccccc
Confidence 1134578999999999999999999999887655443322 23568999999999999999999999
Q ss_pred eeCCe-EEEEEeccCC
Q 032044 132 ELEGR-AMRVSLAQGR 146 (148)
Q Consensus 132 ~i~g~-~l~v~~~~~~ 146 (148)
.+++. .++|+++++.
T Consensus 476 ~lgen~hlRvSFSks~ 491 (492)
T KOG1190|consen 476 YLGENHHLRVSFSKST 491 (492)
T ss_pred cCCCCceEEEEeeccc
Confidence 99765 9999998763
No 53
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.65 E-value=7.1e-16 Score=96.39 Aligned_cols=80 Identities=20% Similarity=0.440 Sum_probs=71.6
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
..+++||++|||.++-+.+|+++|.+||.|..|.+... ..+..||||+|+++.+|+.|+..-+|+.++|.+|+|+++
T Consensus 4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r---~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfp 80 (241)
T KOG0105|consen 4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNR---PGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFP 80 (241)
T ss_pred cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccC---CCCCCeeEEEecCccchhhhhhcccccccCcceEEEEec
Confidence 45679999999999999999999999999999887532 235679999999999999999999999999999999998
Q ss_pred cCC
Q 032044 144 QGR 146 (148)
Q Consensus 144 ~~~ 146 (148)
+.-
T Consensus 81 rgg 83 (241)
T KOG0105|consen 81 RGG 83 (241)
T ss_pred cCC
Confidence 754
No 54
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.64 E-value=9.7e-15 Score=93.98 Aligned_cols=127 Identities=22% Similarity=0.433 Sum_probs=106.8
Q ss_pred CCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCC---------------------------------
Q 032044 13 TGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKL--------------------------------- 59 (148)
Q Consensus 13 ~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~--------------------------------- 59 (148)
+.+.+|.|||.|.+.+.|..|+..|+|..+.|+++.+.|+.......
T Consensus 48 t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~ 127 (221)
T KOG4206|consen 48 TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFY 127 (221)
T ss_pred CCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhccCceeccccCccccccccccCCccccccccc
Confidence 66899999999999999999999999999999999999875421100
Q ss_pred ------------CCCCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHH
Q 032044 60 ------------PLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 127 (148)
Q Consensus 60 ------------~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~ 127 (148)
.....+...+++.|+|...+.+.+..+|.+|.....++++.. -.+.|||+|.+...|..|.+.
T Consensus 128 ~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~-----~~~iAfve~~~d~~a~~a~~~ 202 (221)
T KOG4206|consen 128 NMNRMNLPPPFLAQMAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPP-----RSGIAFVEFLSDRQASAAQQA 202 (221)
T ss_pred ccccccCCCCccccCCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccC-----CCceeEEecchhhhhHHHhhh
Confidence 011345678999999999999999999999999999988754 256899999999999999999
Q ss_pred hCCceeC-CeEEEEEecc
Q 032044 128 LNGVELE-GRAMRVSLAQ 144 (148)
Q Consensus 128 l~~~~i~-g~~l~v~~~~ 144 (148)
+.+..|- ...+.+.+++
T Consensus 203 lq~~~it~~~~m~i~~a~ 220 (221)
T KOG4206|consen 203 LQGFKITKKNTMQITFAK 220 (221)
T ss_pred hccceeccCceEEecccC
Confidence 9998886 7778877764
No 55
>PLN03213 repressor of silencing 3; Provisional
Probab=99.64 E-value=2.6e-15 Score=106.42 Aligned_cols=78 Identities=23% Similarity=0.436 Sum_probs=71.5
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCH--HHHHHHHHHhCCceeCCeEEEEE
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTK--AEMETALESLNGVELEGRAMRVS 141 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~--~~a~~a~~~l~~~~i~g~~l~v~ 141 (148)
....+|||+||++.+++++|+..|..||.|..+.|+ +.+| +|||||+|.+. ..+.+|+..|||..+.|+.|+|.
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVN 83 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLE 83 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEe
Confidence 345689999999999999999999999999999998 4455 99999999977 78999999999999999999999
Q ss_pred eccC
Q 032044 142 LAQG 145 (148)
Q Consensus 142 ~~~~ 145 (148)
.+++
T Consensus 84 KAKP 87 (759)
T PLN03213 84 KAKE 87 (759)
T ss_pred eccH
Confidence 9876
No 56
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=99.63 E-value=9.9e-15 Score=80.22 Aligned_cols=74 Identities=43% Similarity=0.776 Sum_probs=67.8
Q ss_pred eEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 68 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 68 ~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
+|+|+|||..+++++|.++|..+|.+..+.+...+.+ .++++|||+|.+.++|+.|+..+++..++|+.+.|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 4889999999999999999999999999998877544 6789999999999999999999999999999998864
No 57
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.62 E-value=1.8e-15 Score=107.68 Aligned_cols=80 Identities=36% Similarity=0.723 Sum_probs=77.5
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
+.++|+|+|+++++++|.++|+..|.|.++++..|+.+|+++||||++|.+.++|..|++.|||.++.|++|+|.|+..+
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999997654
No 58
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.62 E-value=9.3e-15 Score=95.70 Aligned_cols=76 Identities=18% Similarity=0.265 Sum_probs=68.6
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
...+|+|+||++.+++++|+++|+.||.|..+.++.+. ...++|||+|.++++++.|+. |+|..|.|++|.|....
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRWG 79 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeCc
Confidence 34689999999999999999999999999999999774 345799999999999999996 99999999999988743
No 59
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.61 E-value=1.8e-15 Score=94.22 Aligned_cols=81 Identities=36% Similarity=0.545 Sum_probs=77.7
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
....+||++||+..++++.|.++|-+.|+|..+.+++++.++.++||||++|.++++|+-|++-||...+.|++|+|..+
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka 86 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA 86 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence 45679999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred c
Q 032044 144 Q 144 (148)
Q Consensus 144 ~ 144 (148)
.
T Consensus 87 s 87 (203)
T KOG0131|consen 87 S 87 (203)
T ss_pred c
Confidence 6
No 60
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.61 E-value=2.9e-15 Score=89.06 Aligned_cols=81 Identities=28% Similarity=0.518 Sum_probs=77.1
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
.....|+|.++....++++|.+.|..||.|..+.+-.++.+|-.+|||+|+|.+.+.|+.|+..+||..+.|..|.|.||
T Consensus 70 VEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~ 149 (170)
T KOG0130|consen 70 VEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWC 149 (170)
T ss_pred eeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEE
Confidence 35568999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred c
Q 032044 144 Q 144 (148)
Q Consensus 144 ~ 144 (148)
-
T Consensus 150 F 150 (170)
T KOG0130|consen 150 F 150 (170)
T ss_pred E
Confidence 4
No 61
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.59 E-value=2.2e-16 Score=98.26 Aligned_cols=79 Identities=28% Similarity=0.693 Sum_probs=75.3
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
.+.-|||+|||+.+|+-||--.|++||.|..+.++++..+|+++||||+.|++..+...|+.-|||..|.|+.|+|...
T Consensus 34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv 112 (219)
T KOG0126|consen 34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV 112 (219)
T ss_pred cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence 3457999999999999999999999999999999999999999999999999999999999999999999999999875
No 62
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.58 E-value=2.2e-14 Score=97.70 Aligned_cols=79 Identities=47% Similarity=0.799 Sum_probs=75.8
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
..+|||+|||..+++++|.++|.+||.+..+.+..++.++.++|+|||+|.+.++|..|+..++|..+.|+.|.|.++.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 5899999999999999999999999999999999998889999999999999999999999999999999999999954
No 63
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=99.56 E-value=3.6e-14 Score=74.34 Aligned_cols=56 Identities=32% Similarity=0.676 Sum_probs=49.8
Q ss_pred HHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 83 LTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 83 l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
|.++|++||.|..+.+.... +++|||+|.+.++|+.|++.|||..++|++|+|+||
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 67899999999999886442 578999999999999999999999999999999986
No 64
>smart00361 RRM_1 RNA recognition motif.
Probab=99.56 E-value=5.4e-14 Score=76.95 Aligned_cols=62 Identities=21% Similarity=0.464 Sum_probs=54.0
Q ss_pred HHHHHHHHh----hcCCeeEEE-EEEcCCC--CCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEE
Q 032044 80 TESLTQAFQ----EYGNVVGAR-VLYDGES--GRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVS 141 (148)
Q Consensus 80 ~~~l~~~f~----~~g~v~~~~-~~~~~~~--~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~ 141 (148)
+++|+++|. +||.+.++. +..++.+ +.++|+|||+|.+.++|+.|+..|||..++|+.|.++
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence 467788887 999999985 6666555 7789999999999999999999999999999999763
No 65
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.56 E-value=3.4e-15 Score=95.77 Aligned_cols=84 Identities=33% Similarity=0.585 Sum_probs=80.1
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
...++|||++|...+++.-|...|=+||.|..+.++.+..+++.||++||+|...++|..|+.-+|+.++.|+.|+|.++
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~A 87 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLA 87 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeec
Confidence 45679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCC
Q 032044 144 QGRR 147 (148)
Q Consensus 144 ~~~~ 147 (148)
+|.+
T Consensus 88 kP~k 91 (298)
T KOG0111|consen 88 KPEK 91 (298)
T ss_pred CCcc
Confidence 8864
No 66
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.56 E-value=2.1e-13 Score=85.46 Aligned_cols=112 Identities=29% Similarity=0.415 Sum_probs=94.6
Q ss_pred CcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCC---------------------CCCCCCCcceEEEcC
Q 032044 15 RSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPK---------------------LPLYAETDFKLFVGN 73 (148)
Q Consensus 15 ~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~---------------------~~~~~~~~~~l~i~n 73 (148)
....||||+|++..+|+.|+-.-++..+.|+.|.|+++...... -++.......+.|++
T Consensus 43 g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsG 122 (241)
T KOG0105|consen 43 GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSG 122 (241)
T ss_pred CCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEec
Confidence 45789999999999999999999999999999999987543221 122233556899999
Q ss_pred CCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCcee
Q 032044 74 LSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVEL 133 (148)
Q Consensus 74 lp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i 133 (148)
||++-+++||++++.+-|.|....+.++. .+.|+|-..++.+-|+..|+...+
T Consensus 123 Lp~SgSWQDLKDHmReaGdvCfadv~rDg-------~GvV~~~r~eDMkYAvr~ld~~~~ 175 (241)
T KOG0105|consen 123 LPPSGSWQDLKDHMREAGDVCFADVQRDG-------VGVVEYLRKEDMKYAVRKLDDQKF 175 (241)
T ss_pred CCCCCchHHHHHHHHhhCCeeeeeeeccc-------ceeeeeeehhhHHHHHHhhccccc
Confidence 99999999999999999999888887662 689999999999999999987554
No 67
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.53 E-value=1.2e-14 Score=94.25 Aligned_cols=120 Identities=31% Similarity=0.524 Sum_probs=99.6
Q ss_pred ccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCC---------------CCCCCCCCcceEEEcCCCCCCCHH
Q 032044 17 RGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKP---------------KLPLYAETDFKLFVGNLSWSVTTE 81 (148)
Q Consensus 17 ~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~---------------~~~~~~~~~~~l~i~nlp~~~~~~ 81 (148)
.||+||+|.+..+|..|+..+++..+.+-.+.++++....- ....+....+.+.+.+++..+.++
T Consensus 35 ~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~~~g~~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~q 114 (216)
T KOG0106|consen 35 NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRRGRGRPRGGDRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQ 114 (216)
T ss_pred cccceeccCchhhhhcccchhcCceecceeeeeecccccccccCCCCCCCccchhhccCCcccccceeeeccchhhhhHH
Confidence 47899999999999999999999999998888888764211 011223456789999999999999
Q ss_pred HHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 82 SLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 82 ~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
+|.++|.++|.+....+ ..+.+||+|...++|..|+..|++..+.|++|.+....
T Consensus 115 dl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~~~ 169 (216)
T KOG0106|consen 115 DLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEKNS 169 (216)
T ss_pred HHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccchhhcCceeeecccC
Confidence 99999999999854433 34579999999999999999999999999999985543
No 68
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=99.53 E-value=7.2e-13 Score=90.11 Aligned_cols=138 Identities=23% Similarity=0.344 Sum_probs=110.5
Q ss_pred eeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCC--------------------------
Q 032044 4 KLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKP-------------------------- 57 (148)
Q Consensus 4 ~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~-------------------------- 57 (148)
.|++.++. .|..+|-|.+.|-..+++..|+.-|++..+.|+.|+|+.+.-...
T Consensus 171 k~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~ 249 (382)
T KOG1548|consen 171 KVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKL 249 (382)
T ss_pred eEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhhhhccCcCcccccccccccHHHHHHHHHhh
Confidence 47888885 699999999999999999999999999999999999985432100
Q ss_pred -------CCCCCCCCcceEEEcCCCCC----CC-------HHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHH
Q 032044 58 -------KLPLYAETDFKLFVGNLSWS----VT-------TESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKA 119 (148)
Q Consensus 58 -------~~~~~~~~~~~l~i~nlp~~----~~-------~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~ 119 (148)
..+......++|.+.|+... .+ .++|.+-+.+||+|.++.+.-. .|.|.+-|.|.+.+
T Consensus 250 ~dw~pd~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~----hPdGvvtV~f~n~e 325 (382)
T KOG1548|consen 250 LDWRPDRDDPSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDR----HPDGVVTVSFRNNE 325 (382)
T ss_pred cccCCCccccccccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEecc----CCCceeEEEeCChH
Confidence 01223345678999998432 12 3577788999999999877522 36788999999999
Q ss_pred HHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 120 EMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 120 ~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
.|+.|++.|+|.+++|+.|..++...+
T Consensus 326 eA~~ciq~m~GR~fdgRql~A~i~DG~ 352 (382)
T KOG1548|consen 326 EADQCIQTMDGRWFDGRQLTASIWDGK 352 (382)
T ss_pred HHHHHHHHhcCeeecceEEEEEEeCCc
Confidence 999999999999999999999886543
No 69
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.52 E-value=1.4e-13 Score=100.97 Aligned_cols=126 Identities=23% Similarity=0.355 Sum_probs=102.7
Q ss_pred EEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCC-------------CC-------------------CC----
Q 032044 19 FAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPK-------------LP-------------------LY---- 62 (148)
Q Consensus 19 ~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~-------------~~-------------------~~---- 62 (148)
-|+|+|.++.+|+.|.+.+....+...++++.|+....-. .. ..
T Consensus 423 ~aiv~fl~p~eAr~Afrklaysr~k~~plyle~aP~dvf~~~pka~~~~~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~ 502 (725)
T KOG0110|consen 423 GAIVEFLNPLEARKAFRKLAYSRFKSAPLYLEWAPEDVFTEDPKADDLSAESRSKMEENPSERVSAEDGQVEEDKDPTEE 502 (725)
T ss_pred eeeeeecCccchHHHHHHhchhhhccCccccccChhhhccCCccccccccccccccccCcceecccccccccccCCcccc
Confidence 3999999999999999999999999999988875321000 00 00
Q ss_pred ---------CCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCC---CCceeEEEEEecCHHHHHHHHHHhCC
Q 032044 63 ---------AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGES---GRSRGYGFVCYSTKAEMETALESLNG 130 (148)
Q Consensus 63 ---------~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~---~~~~~~~fv~f~~~~~a~~a~~~l~~ 130 (148)
....++||+.||+++.+.+++...|...|.|.++.|.+.++. -.+.|||||+|.++++|+.|++.|+|
T Consensus 503 ss~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqg 582 (725)
T KOG0110|consen 503 SSLARVAEDEETETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQG 582 (725)
T ss_pred ccchhhhhccccchhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcC
Confidence 012234999999999999999999999999999988765432 12349999999999999999999999
Q ss_pred ceeCCeEEEEEecc
Q 032044 131 VELEGRAMRVSLAQ 144 (148)
Q Consensus 131 ~~i~g~~l~v~~~~ 144 (148)
..++|..|.++++.
T Consensus 583 tvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 583 TVLDGHKLELKISE 596 (725)
T ss_pred ceecCceEEEEecc
Confidence 99999999999987
No 70
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=1.8e-13 Score=98.45 Aligned_cols=143 Identities=20% Similarity=0.264 Sum_probs=106.1
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCC-------------------C
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPL-------------------Y 62 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~-------------------~ 62 (148)
+...+++.|..+|-++||||.+|-+......|+..|||+.++++++.+..+-........ .
T Consensus 316 lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~~~~~~~~~~~~~~~~i~~~~~q~~ 395 (500)
T KOG0120|consen 316 LKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGASNANVNFNISQSQVPGIPLLMTQMA 395 (500)
T ss_pred chhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccchhccccCCccccccccchhhhcccC
Confidence 345678888888999999999999999999999999999999999999866443221111 1
Q ss_pred CCCcceEEEcCC--CCCC-C-------HHHHHHHHhhcCCeeEEEEEEc-CCC--CCceeEEEEEecCHHHHHHHHHHhC
Q 032044 63 AETDFKLFVGNL--SWSV-T-------TESLTQAFQEYGNVVGARVLYD-GES--GRSRGYGFVCYSTKAEMETALESLN 129 (148)
Q Consensus 63 ~~~~~~l~i~nl--p~~~-~-------~~~l~~~f~~~g~v~~~~~~~~-~~~--~~~~~~~fv~f~~~~~a~~a~~~l~ 129 (148)
..+...|.+.|+ |..+ . .++++.-|.+||.|..|.+++. ... ....|-.||+|.+.+++++|+..|+
T Consensus 396 g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~ 475 (500)
T KOG0120|consen 396 GIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELT 475 (500)
T ss_pred CCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHcc
Confidence 112223333333 1111 1 1456677789999999998776 222 2335667999999999999999999
Q ss_pred CceeCCeEEEEEecc
Q 032044 130 GVELEGRAMRVSLAQ 144 (148)
Q Consensus 130 ~~~i~g~~l~v~~~~ 144 (148)
|.+++|+.|...|..
T Consensus 476 GrKF~nRtVvtsYyd 490 (500)
T KOG0120|consen 476 GRKFANRTVVASYYD 490 (500)
T ss_pred CceeCCcEEEEEecC
Confidence 999999999999864
No 71
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.49 E-value=2.2e-13 Score=87.76 Aligned_cols=80 Identities=23% Similarity=0.519 Sum_probs=72.9
Q ss_pred CcceEEEcCCCCCCCHHHHHH----HHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEE
Q 032044 65 TDFKLFVGNLSWSVTTESLTQ----AFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRV 140 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~----~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v 140 (148)
++.+|||.||+..+..++|+. +|++||.|..|... .+.+.+|.|||.|.+.+.|-.|+..|+|..+.|+.+++
T Consensus 8 pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~---kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mri 84 (221)
T KOG4206|consen 8 PNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAF---KTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRI 84 (221)
T ss_pred CCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEec---CCCCccCceEEEecChhHHHHHHHHhcCCcccCchhhe
Confidence 444999999999999999988 99999999998776 44668999999999999999999999999999999999
Q ss_pred EeccCCC
Q 032044 141 SLAQGRR 147 (148)
Q Consensus 141 ~~~~~~~ 147 (148)
+||+.+.
T Consensus 85 qyA~s~s 91 (221)
T KOG4206|consen 85 QYAKSDS 91 (221)
T ss_pred ecccCcc
Confidence 9998764
No 72
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=99.49 E-value=2.5e-12 Score=88.55 Aligned_cols=140 Identities=19% Similarity=0.212 Sum_probs=109.3
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCC-----------------------
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKP----------------------- 57 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~----------------------- 57 (148)
+|+.|++|+.+. |.|.||+.+..++++|+..||+..+.|.+|.+.++.....
T Consensus 314 NV~rvkFmkTk~-----gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~~v~~~~pflLpDgSpSfKdys~SkN 388 (494)
T KOG1456|consen 314 NVERVKFMKTKP-----GTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQNFVSPVQPFLLPDGSPSFKDYSGSKN 388 (494)
T ss_pred ceeeEEEeeccc-----ceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccccccccCCceecCCCCcchhhcccccc
Confidence 478999999863 6799999999999999999999999999999987653211
Q ss_pred ---------CCCCCCCCcceEEEcCCCCCCCHHHHHHHHhhcCC-eeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHH
Q 032044 58 ---------KLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGN-VVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 127 (148)
Q Consensus 58 ---------~~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~-v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~ 127 (148)
.......+++.|+.-|.|..++|+.|-++|...+. ..++++...+ +. ....+.++|++.++|.+|+..
T Consensus 389 nRFssp~qAsKNrIq~Ps~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvFp~k-se-rSssGllEfe~~s~Aveal~~ 466 (494)
T KOG1456|consen 389 NRFSSPEQASKNRIQPPSNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVFPLK-SE-RSSSGLLEFENKSDAVEALMK 466 (494)
T ss_pred cccCChhHhhcccccCCcceeEEecCCCccCHHHHHHHhhhcCCCcceEEeeccc-cc-ccccceeeeehHHHHHHHHHH
Confidence 11122347789999999999999999999997764 3455554332 22 234589999999999999999
Q ss_pred hCCceeCC------eEEEEEeccCCC
Q 032044 128 LNGVELEG------RAMRVSLAQGRR 147 (148)
Q Consensus 128 l~~~~i~g------~~l~v~~~~~~~ 147 (148)
+|.+.|.+ ..+++.++.+++
T Consensus 467 ~NH~pi~~p~gs~PfilKlcfsts~~ 492 (494)
T KOG1456|consen 467 LNHYPIEGPNGSFPFILKLCFSTSKH 492 (494)
T ss_pred hccccccCCCCCCCeeeeeeeccccc
Confidence 99999865 357777776653
No 73
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.44 E-value=2.7e-12 Score=82.75 Aligned_cols=115 Identities=21% Similarity=0.292 Sum_probs=88.0
Q ss_pred CcccEEEEEeCCHHHHHHHHHHhCCCeec---CcEEEEeecCCCCCCC-------CC-----------------------
Q 032044 15 RSRGFAFVTMSTVEDCNAVIENLDGREYL---GRILRVNFSDKPKPKL-------PL----------------------- 61 (148)
Q Consensus 15 ~~~g~afv~f~~~~~a~~a~~~l~~~~~~---~~~i~v~~~~~~~~~~-------~~----------------------- 61 (148)
-.+.+||+.|.+.+.|..|+..|||+.|+ +.++++++++...... +.
T Consensus 75 ~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElAKSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd 154 (284)
T KOG1457|consen 75 VCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELAKSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHD 154 (284)
T ss_pred cccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeehhcCcccccCCCCCCCCCCccccccccChhhcccchhhcc
Confidence 34579999999999999999999999986 7788998754311000 00
Q ss_pred ---------------------------------------------------CCCCcceEEEcCCCCCCCHHHHHHHHhhc
Q 032044 62 ---------------------------------------------------YAETDFKLFVGNLSWSVTTESLTQAFQEY 90 (148)
Q Consensus 62 ---------------------------------------------------~~~~~~~l~i~nlp~~~~~~~l~~~f~~~ 90 (148)
....-.+|||.||.+++++++|+.+|+.|
T Consensus 155 ~~l~~p~~l~~~~~a~al~~~~~t~~~~l~a~~~~~P~a~a~l~ks~q~~~~~~acstlfianl~~~~~ed~l~~~~~~~ 234 (284)
T KOG1457|consen 155 EGLSDPDELQEPGNADALKENDTTKSEALSAPDSKAPSANAHLEKSSQGGSGARACSTLFIANLGPNCTEDELKQLLSRY 234 (284)
T ss_pred ccccCccccCCccccccCCCccccchhhhhhhhhcCCcccchhhhhhcccccchhhhhHhhhccCCCCCHHHHHHHHHhC
Confidence 00012479999999999999999999999
Q ss_pred CCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCcee
Q 032044 91 GNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVEL 133 (148)
Q Consensus 91 g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i 133 (148)
......++.- .+ .-..||++|++.+.|..|+..|.|..|
T Consensus 235 ~gf~~l~~~~---~~-g~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 235 PGFHILKIRA---RG-GMPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred CCceEEEEec---CC-CcceEeecHHHHHHHHHHHHHhhccee
Confidence 8776665531 12 234799999999999999999999766
No 74
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.44 E-value=1.1e-13 Score=94.95 Aligned_cols=77 Identities=27% Similarity=0.627 Sum_probs=74.3
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
.|++||+.+.+.+.++.|+..|.+||+|.++.+.+++-+++.+|||||+|+-++.|+.|+..+||..++|+.|+|..
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr 189 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 189 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999864
No 75
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=99.43 E-value=3.3e-13 Score=97.05 Aligned_cols=132 Identities=23% Similarity=0.470 Sum_probs=111.9
Q ss_pred CCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCC------------------CCCCCCCCcceEEEcCCC
Q 032044 14 GRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKP------------------KLPLYAETDFKLFVGNLS 75 (148)
Q Consensus 14 ~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~------------------~~~~~~~~~~~l~i~nlp 75 (148)
...+++||++|.+.+.|..++. +++..+.|.++++.-...... .........+.+++++||
T Consensus 220 n~~~nfa~ie~~s~~~at~~~~-~~~~~f~g~~~~~~r~~d~~~~p~~~~~~~~~~~~~~~~~~t~~~~~~~ki~v~~lp 298 (500)
T KOG0120|consen 220 NLEKNFAFIEFRSISEATEAMA-LDGIIFEGRPLKIRRPHDYQPVPGITLSPSQLGKVGLLPASTDVPDSPNKIFVGGLP 298 (500)
T ss_pred cccccceeEEecCCCchhhhhc-ccchhhCCCCceecccccccCCccchhhhccccccCCcccccCcccccchhhhccCc
Confidence 4567899999999999999997 788888898888863322111 111123356789999999
Q ss_pred CCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 76 WSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 76 ~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
..++++++.+.+..||.+....++.+..++.++||||.+|.++.....|+..|||..++++.|.|+.+-..
T Consensus 299 ~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g 369 (500)
T KOG0120|consen 299 LYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVG 369 (500)
T ss_pred CccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhcc
Confidence 99999999999999999999999999888999999999999999999999999999999999999987543
No 76
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=99.43 E-value=1.5e-13 Score=94.64 Aligned_cols=139 Identities=15% Similarity=0.212 Sum_probs=104.3
Q ss_pred ceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCC-------------------CC-------
Q 032044 3 SKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDK-------------------PK------- 56 (148)
Q Consensus 3 ~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~-------------------~~------- 56 (148)
+.|-++..+ +|+.+|-|||.|..+++|+.|+.+ +...++.+.|.+..+.. ..
T Consensus 193 egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIElFRSTaaEvqqvlnr~~s~pLi~~~~sp~~p~~p 270 (508)
T KOG1365|consen 193 EGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIELFRSTAAEVQQVLNREVSEPLIPGLTSPLLPGGP 270 (508)
T ss_pred cceEEEECC-CCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHHHHHHhHHHHHHHHHhhccccccCCCCCCCCCCCc
Confidence 345556654 899999999999999999999984 44455555444422110 00
Q ss_pred CCCCCCCCCcceEEEcCCCCCCCHHHHHHHHhhcCC-eeE--EEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCcee
Q 032044 57 PKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGN-VVG--ARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVEL 133 (148)
Q Consensus 57 ~~~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~-v~~--~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i 133 (148)
...........+|.+++||+..+.++|.++|..|.. +.. +.+..+ ..|.+.|-|||+|.+.++|..|.+..|....
T Consensus 271 ~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N-~qGrPSGeAFIqm~nae~a~aaaqk~hk~~m 349 (508)
T KOG1365|consen 271 ARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLN-GQGRPSGEAFIQMRNAERARAAAQKCHKKLM 349 (508)
T ss_pred cccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEc-CCCCcChhhhhhhhhhHHHHHHHHHHHHhhc
Confidence 001122334678999999999999999999999864 333 677777 5688999999999999999999999998888
Q ss_pred CCeEEEEEecc
Q 032044 134 EGRAMRVSLAQ 144 (148)
Q Consensus 134 ~g~~l~v~~~~ 144 (148)
.++.|.|-.+.
T Consensus 350 k~RYiEvfp~S 360 (508)
T KOG1365|consen 350 KSRYIEVFPCS 360 (508)
T ss_pred ccceEEEeecc
Confidence 88888887764
No 77
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.43 E-value=3.8e-13 Score=89.63 Aligned_cols=72 Identities=33% Similarity=0.647 Sum_probs=68.6
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
.+|||+|||...++.+|+.+|++||.|..+.|+++ ||||..++...|+.|++-|||+.|+|..|.|+-++++
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 47999999999999999999999999999999976 8999999999999999999999999999999998776
No 78
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.37 E-value=5e-12 Score=78.48 Aligned_cols=56 Identities=41% Similarity=0.648 Sum_probs=52.2
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPK 56 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~ 56 (148)
.|++++++.++.+++++|||||+|.+.++|+.|+..+++..+.+++|.|.++....
T Consensus 60 ~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~~~ 115 (144)
T PLN03134 60 DVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPANDRP 115 (144)
T ss_pred CeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCcCC
Confidence 47899999999999999999999999999999999999999999999999986544
No 79
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.33 E-value=9.3e-12 Score=87.38 Aligned_cols=78 Identities=29% Similarity=0.516 Sum_probs=72.0
Q ss_pred cceEEEcCCCCCCCHHHHHHHHh-hcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQ-EYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~-~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
.+.+||.|+|++..+++|++++. +-|.|.++.+..+ ..++++|+|.|+|+++|.+++|+..||.+.++|+.|.|+-..
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D-~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~ 122 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFD-ESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDH 122 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecc-cCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccC
Confidence 44599999999999999999998 5789999999988 669999999999999999999999999999999999998654
No 80
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.32 E-value=1.1e-10 Score=82.11 Aligned_cols=139 Identities=30% Similarity=0.456 Sum_probs=110.6
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCC------------------------
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKP------------------------ 57 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~------------------------ 57 (148)
|+=|.++.|. +|+++|+|.|||.+++.+++|++.|+...+.|++|.++-....+.
T Consensus 72 v~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d~q~~~~~~~~r~g~~~f~~~~~~q~G~ 150 (608)
T KOG4212|consen 72 VEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHDEQRDQYGRIVRDGGGGFGGGGGVQGGN 150 (608)
T ss_pred eEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCchhhhhhhheeeccCcccccCcceeccc
Confidence 5567888894 899999999999999999999999999999999999964322100
Q ss_pred -----------------------CCC---------------------------------CCCCCcceEEEcCCCCCCCHH
Q 032044 58 -----------------------KLP---------------------------------LYAETDFKLFVGNLSWSVTTE 81 (148)
Q Consensus 58 -----------------------~~~---------------------------------~~~~~~~~l~i~nlp~~~~~~ 81 (148)
... -.+.--.+++|.||.+.+...
T Consensus 151 ~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~Flr~~h~f~pPl~~k~fvanl~~~vg~~ 230 (608)
T KOG4212|consen 151 GGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSASFLRSLHIFSPPLHNKVFVANLDYKVGNK 230 (608)
T ss_pred ccccccCCCCccccCCCCcccccccccccCccccccccccchhhhcccchhhhhhhccCCCCCccceeeeeccccccchH
Confidence 000 001123468999999999999
Q ss_pred HHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 82 SLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 82 ~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
.|.+.|.-.|.+..+.+--++. +..+|+|.++|..+-.|-.|+..+++.-+.+++..++.
T Consensus 231 kL~qvfgmAGkv~~vdf~idKe-G~s~G~~vi~y~hpveavqaIsml~~~g~~~~~~~~Rl 290 (608)
T KOG4212|consen 231 KLKQVFGMAGKVQSVDFSIDKE-GNSRGFAVIEYDHPVEAVQAISMLDRQGLFDRRMTVRL 290 (608)
T ss_pred HHHHHhccceeeeeeceeeccc-cccCCeeEEEecchHHHHHHHHhhccCCCccccceeec
Confidence 9999999999999888776643 57889999999999999999999987665666655554
No 81
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.32 E-value=1.5e-11 Score=78.34 Aligned_cols=81 Identities=20% Similarity=0.385 Sum_probs=73.2
Q ss_pred CCCcceEEEcCCCCCCCHHHHHHHHhhc-CCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEE
Q 032044 63 AETDFKLFVGNLSWSVTTESLTQAFQEY-GNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVS 141 (148)
Q Consensus 63 ~~~~~~l~i~nlp~~~~~~~l~~~f~~~-g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~ 141 (148)
......+++..+|..+.+.++...|.++ |.+...++.++..||.++|||||+|++.+.|..|...||++-+.|+-|.+.
T Consensus 46 ~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~ 125 (214)
T KOG4208|consen 46 QEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECH 125 (214)
T ss_pred cCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeE
Confidence 3355679999999999999999999998 678888888999999999999999999999999999999999999988887
Q ss_pred ec
Q 032044 142 LA 143 (148)
Q Consensus 142 ~~ 143 (148)
+-
T Consensus 126 vm 127 (214)
T KOG4208|consen 126 VM 127 (214)
T ss_pred Ee
Confidence 64
No 82
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.31 E-value=7.4e-12 Score=85.73 Aligned_cols=82 Identities=28% Similarity=0.473 Sum_probs=77.9
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
.+.+.|||=.|.+-++.++|.-+|+.||.|.++.++++..+|.+..||||+|++.+++++|.-.|++.-|++++|+|.++
T Consensus 237 PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFS 316 (479)
T KOG0415|consen 237 PPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFS 316 (479)
T ss_pred CCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehh
Confidence 46678999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred cC
Q 032044 144 QG 145 (148)
Q Consensus 144 ~~ 145 (148)
.+
T Consensus 317 QS 318 (479)
T KOG0415|consen 317 QS 318 (479)
T ss_pred hh
Confidence 64
No 83
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.30 E-value=2.3e-11 Score=82.98 Aligned_cols=78 Identities=23% Similarity=0.465 Sum_probs=68.0
Q ss_pred CCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHh-CCceeCCeEEEEE
Q 032044 63 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL-NGVELEGRAMRVS 141 (148)
Q Consensus 63 ~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l-~~~~i~g~~l~v~ 141 (148)
.....+|||++|-..+++.+|+++|.+||.+.++.+... ++.|||+|.+.+.|+.|...+ +...|+|.+|.|.
T Consensus 225 D~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~ 298 (377)
T KOG0153|consen 225 DTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIK 298 (377)
T ss_pred ccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc------cccceeeehhhHHHHHHHHhhcceeeecceEEEEE
Confidence 345678999999999999999999999999999988744 448999999999999998755 5567899999999
Q ss_pred eccCC
Q 032044 142 LAQGR 146 (148)
Q Consensus 142 ~~~~~ 146 (148)
|.++.
T Consensus 299 Wg~~~ 303 (377)
T KOG0153|consen 299 WGRPK 303 (377)
T ss_pred eCCCc
Confidence 98873
No 84
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.28 E-value=1.4e-11 Score=91.60 Aligned_cols=76 Identities=25% Similarity=0.531 Sum_probs=70.3
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
.++||||++|+..+++.||.++|+.||.|.++.++- ++++|||.+.+..+|.+|++.|+++.+.++.|++.|+.
T Consensus 420 ~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~------~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~ 493 (894)
T KOG0132|consen 420 CSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP------PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAV 493 (894)
T ss_pred eeeeeeeccccchhhHHHHHHHHHhcccceeEeecc------CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeec
Confidence 478999999999999999999999999999998763 47899999999999999999999999999999999986
Q ss_pred CC
Q 032044 145 GR 146 (148)
Q Consensus 145 ~~ 146 (148)
.+
T Consensus 494 g~ 495 (894)
T KOG0132|consen 494 GK 495 (894)
T ss_pred cC
Confidence 54
No 85
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=99.27 E-value=1.6e-10 Score=80.60 Aligned_cols=124 Identities=28% Similarity=0.432 Sum_probs=98.0
Q ss_pred cEEEEEeCCHHHHHHHHHHhCCCeec--CcEEEEeecCCCCC---------------CCCC-------------------
Q 032044 18 GFAFVTMSTVEDCNAVIENLDGREYL--GRILRVNFSDKPKP---------------KLPL------------------- 61 (148)
Q Consensus 18 g~afv~f~~~~~a~~a~~~l~~~~~~--~~~i~v~~~~~~~~---------------~~~~------------------- 61 (148)
-.|+|+|.+.+.|+.|...|+|..|. .+++++.|+..... ..+.
T Consensus 189 FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~Sklt~LnvKynndkSRDyTnp~LP~gd~~p~l~~~~~aa~~~~~ 268 (492)
T KOG1190|consen 189 FQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFSKLTDLNVKYNNDKSRDYTNPDLPVGDGQPSLDQLMAAAFGSVP 268 (492)
T ss_pred hhhhhhccchhhHHHHHHhccCCcccCceeEEEeehhhcccceeeccccccccccCCCCCCCccccccchhhhccccccc
Confidence 45999999999999999999998874 47788876532100 0000
Q ss_pred ------------------------CCCCcceEEEcCCCC-CCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEec
Q 032044 62 ------------------------YAETDFKLFVGNLSW-SVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYS 116 (148)
Q Consensus 62 ------------------------~~~~~~~l~i~nlp~-~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~ 116 (148)
....++.|.+.||.. .+|.+.|..+|.-||.|.++.|..+.. ..|+|.|.
T Consensus 269 ~~~g~p~aip~~~~~a~~a~~~~~~~~~n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQms 343 (492)
T KOG1190|consen 269 AVHGAPLAIPSGAAGANAADGKIESPSANVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMS 343 (492)
T ss_pred cccCCcccCCccchhhcccccccccCCCceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeec
Confidence 000136677777755 589999999999999999999987742 46999999
Q ss_pred CHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 117 TKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 117 ~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
+...|+.|+..|+|..+.|++|+|.+++-.
T Consensus 344 d~~qAqLA~~hL~g~~l~gk~lrvt~SKH~ 373 (492)
T KOG1190|consen 344 DGQQAQLAMEHLEGHKLYGKKLRVTLSKHT 373 (492)
T ss_pred chhHHHHHHHHhhcceecCceEEEeeccCc
Confidence 999999999999999999999999998643
No 86
>smart00361 RRM_1 RNA recognition motif.
Probab=99.26 E-value=4e-11 Score=65.54 Aligned_cols=49 Identities=27% Similarity=0.513 Sum_probs=43.5
Q ss_pred CcceeE-eeecCCC--CCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEE
Q 032044 1 MLSKLT-VLYDRET--GRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRV 49 (148)
Q Consensus 1 ~i~~i~-~~~~~~~--~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v 49 (148)
+|.+|. ++.++.+ +.++|||||+|.+.++|.+|+..|+|..+.|+.|.+
T Consensus 18 ~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 18 EVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred CeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 356774 7777777 899999999999999999999999999999999876
No 87
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=99.23 E-value=2e-11 Score=80.06 Aligned_cols=139 Identities=24% Similarity=0.446 Sum_probs=114.4
Q ss_pred eeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCC-CCCCCCCCCCCcceEEEcCCCCCCCHHH
Q 032044 4 KLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDK-PKPKLPLYAETDFKLFVGNLSWSVTTES 82 (148)
Q Consensus 4 ~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~-~~~~~~~~~~~~~~l~i~nlp~~~~~~~ 82 (148)
..+++++. -+.-++.+|+.|....+-.++-..-++..+...+++..-... ..+....+.....+||++.|.-.++.+-
T Consensus 128 ktk~v~~~-p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a~gtswedPsl~ew~~~DfRIfcgdlgNevnd~v 206 (290)
T KOG0226|consen 128 KTKLVRDR-PQPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRLAAGTSWEDPSLAEWDEDDFRIFCGDLGNEVNDDV 206 (290)
T ss_pred hhhhhhcC-CCccCcccccCcchhhhhhhhccccccccccCcceeeccccccCCcccccCccccceeecccccccccHHH
Confidence 34455554 467788999999988888888776677777777655543322 2344456677788999999999999999
Q ss_pred HHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 83 LTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 83 l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
|...|.+|-......++++..+++.+||+||.|.+..++..|++.++|..++.+.|+++.+
T Consensus 207 l~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS 267 (290)
T KOG0226|consen 207 LARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKS 267 (290)
T ss_pred HHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhh
Confidence 9999999988888889999999999999999999999999999999999999999887764
No 88
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.23 E-value=6.9e-11 Score=78.44 Aligned_cols=82 Identities=32% Similarity=0.570 Sum_probs=73.9
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
..+.+|+|.|||+.+.++||+++|..||.+..+.+.++ ..+.+.|.|-|.|...++|..|++.++|..++|+.+.+...
T Consensus 81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~-~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i 159 (243)
T KOG0533|consen 81 TRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYD-RAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEII 159 (243)
T ss_pred CCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccC-CCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEe
Confidence 34578999999999999999999999998888888888 45888899999999999999999999999999999998886
Q ss_pred cCC
Q 032044 144 QGR 146 (148)
Q Consensus 144 ~~~ 146 (148)
.++
T Consensus 160 ~~~ 162 (243)
T KOG0533|consen 160 SSP 162 (243)
T ss_pred cCc
Confidence 554
No 89
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.22 E-value=3.7e-11 Score=78.42 Aligned_cols=54 Identities=39% Similarity=0.663 Sum_probs=51.2
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKP 55 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~ 55 (148)
|..|.+.+|+.||.++|||||.|.+.++|.+|+..|+|.-++.--|.|+|+.++
T Consensus 216 i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP~ 269 (270)
T KOG0122|consen 216 ITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKPS 269 (270)
T ss_pred cceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCCC
Confidence 678999999999999999999999999999999999999999999999999764
No 90
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.20 E-value=3.4e-10 Score=77.04 Aligned_cols=126 Identities=30% Similarity=0.467 Sum_probs=92.3
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCC----CCCCC---------------CCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDK----PKPKL---------------PLY 62 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~----~~~~~---------------~~~ 62 (148)
|..+.+..++.+|.++|||||+|.+.++|..|+..+++..+.|+++.|.+... ..... ...
T Consensus 142 ~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 221 (306)
T COG0724 142 VKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQPASQPRSELSNNLDASFAKKLSRGKALL 221 (306)
T ss_pred eeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccccccccccccccccchhhhcccccccccc
Confidence 46789999988999999999999999999999999999999999999998532 11111 112
Q ss_pred CCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHH
Q 032044 63 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 127 (148)
Q Consensus 63 ~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~ 127 (148)
......+++.+++...+..++...|..+|.+....+........+....++.+.....+......
T Consensus 222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 286 (306)
T COG0724 222 LEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNSR 286 (306)
T ss_pred ccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhcc
Confidence 23456799999999999999999999999886665554433232333333444444444444443
No 91
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=99.16 E-value=2e-10 Score=59.98 Aligned_cols=47 Identities=40% Similarity=0.819 Sum_probs=40.8
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeec
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFS 52 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~ 52 (148)
+|++|.+..++ +++|||+|.+.++|+.|++.|++..+.|++|.|.|+
T Consensus 10 ~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 10 EVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp -EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred cEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 36677776654 689999999999999999999999999999999885
No 92
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=99.16 E-value=5.6e-09 Score=72.38 Aligned_cols=135 Identities=19% Similarity=0.281 Sum_probs=105.3
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeec--CcEEEEeecCCCCCC---------------------
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYL--GRILRVNFSDKPKPK--------------------- 58 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~--~~~i~v~~~~~~~~~--------------------- 58 (148)
|..|-|++. +| =.|+|||++.+.|++|...|||..|+ -++++|+|+.+.+..
T Consensus 149 VlRIvIfkk--ng---VQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~rlnV~knd~DtwDyTlp~~~~~~~ 223 (494)
T KOG1456|consen 149 VLRIVIFKK--NG---VQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTRLNVQKNDKDTWDYTLPDLRGPYD 223 (494)
T ss_pred eEEEEEEec--cc---eeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcceeeeeecCCccccccCCCCCCCCC
Confidence 445555554 33 36999999999999999999999874 588999987653110
Q ss_pred --CC------------------------------------------------------CCCCCcceEEEcCCCCC-CCHH
Q 032044 59 --LP------------------------------------------------------LYAETDFKLFVGNLSWS-VTTE 81 (148)
Q Consensus 59 --~~------------------------------------------------------~~~~~~~~l~i~nlp~~-~~~~ 81 (148)
.. ....+.+.+.|-+|... .+.+
T Consensus 224 ~g~~~~~r~~~p~~~~~~pss~~G~h~~y~sg~~~~p~~~~P~r~~~~~~~~~g~a~p~g~~~g~VmMVyGLdh~k~N~d 303 (494)
T KOG1456|consen 224 PGRNHYDRQRQPAPLGYHPSSRGGGHSGYYSGDRHGPPHPPPSRYRDGYRDGRGYASPGGGAPGCVMMVYGLDHGKMNCD 303 (494)
T ss_pred CCCCCCccccCCCccCCChhhcCCCCCCCcccccCCCCCCCCCCCccccccCCCCCCCCCCCCCcEEEEEeccccccchh
Confidence 00 00113456888888765 6778
Q ss_pred HHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 82 SLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 82 ~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
.|..+|=.||.|.++.+++.. .|-|.|++.+....++|+..||+..+-|.+|.+..+++.
T Consensus 304 rlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~ 363 (494)
T KOG1456|consen 304 RLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQN 363 (494)
T ss_pred hhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceEEEeecccc
Confidence 899999999999999998763 457999999999999999999999999999999987653
No 93
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.15 E-value=1.4e-10 Score=76.90 Aligned_cols=83 Identities=33% Similarity=0.558 Sum_probs=73.0
Q ss_pred CCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCc-eeCC--eEEE
Q 032044 63 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGV-ELEG--RAMR 139 (148)
Q Consensus 63 ~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~-~i~g--~~l~ 139 (148)
....++|||+.|...-.|+|++.+|.+||.+.++.+.+.+ .+.++|++||.|.+.-+|+.|+..|||- .+-| ..|.
T Consensus 16 g~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLV 94 (371)
T KOG0146|consen 16 GGDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLV 94 (371)
T ss_pred CccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceE
Confidence 3367799999999999999999999999999999998884 4788999999999999999999999984 4555 5799
Q ss_pred EEeccCC
Q 032044 140 VSLAQGR 146 (148)
Q Consensus 140 v~~~~~~ 146 (148)
|++++..
T Consensus 95 VK~ADTd 101 (371)
T KOG0146|consen 95 VKFADTD 101 (371)
T ss_pred EEeccch
Confidence 9998654
No 94
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.12 E-value=7.6e-11 Score=81.10 Aligned_cols=82 Identities=38% Similarity=0.686 Sum_probs=75.5
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
..++++|++|++.++++.|++.|.+||.+..+.+++++.++.+++++||+|.+++....++. ...+.|+|+.|.+..+-
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~av 83 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKRAV 83 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccceecc
Confidence 67899999999999999999999999999999999999999999999999999999998887 66778999999988887
Q ss_pred CCC
Q 032044 145 GRR 147 (148)
Q Consensus 145 ~~~ 147 (148)
++.
T Consensus 84 ~r~ 86 (311)
T KOG4205|consen 84 SRE 86 (311)
T ss_pred Ccc
Confidence 764
No 95
>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=99.11 E-value=2.3e-09 Score=61.59 Aligned_cols=80 Identities=20% Similarity=0.232 Sum_probs=68.6
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhc--CCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeC----CeEEEE
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEY--GNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELE----GRAMRV 140 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~--g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~----g~~l~v 140 (148)
+||.|+|+|...+.++|.+++... |....+.++.+..++.+.|||||.|.+++.|....+.++|..+. .+.+.+
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 589999999999999999999753 45667777888788889999999999999999999999998774 577888
Q ss_pred EeccCC
Q 032044 141 SLAQGR 146 (148)
Q Consensus 141 ~~~~~~ 146 (148)
.+|+-+
T Consensus 82 ~yAriQ 87 (97)
T PF04059_consen 82 SYARIQ 87 (97)
T ss_pred ehhHhh
Confidence 887643
No 96
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=2e-10 Score=74.10 Aligned_cols=58 Identities=34% Similarity=0.618 Sum_probs=53.9
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKL 59 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~ 59 (148)
|.+|.+..|..+++++|||||+|...++|..|+..+|+..+.|++|+|.++.+.+...
T Consensus 37 I~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~kike 94 (298)
T KOG0111|consen 37 IKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPEKIKE 94 (298)
T ss_pred hhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCccccC
Confidence 6789999999999999999999999999999999999999999999999998776543
No 97
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.08 E-value=5.7e-10 Score=81.08 Aligned_cols=79 Identities=39% Similarity=0.598 Sum_probs=73.6
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
.+.|||.+|...+-..+|+.+|++||.|....++.+-.+...++|+||++.+...|.+||..||-.++.|+.|.|..+.
T Consensus 405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 4679999999999999999999999999999999887777789999999999999999999999999999999998864
No 98
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.06 E-value=3.6e-10 Score=72.19 Aligned_cols=55 Identities=18% Similarity=0.388 Sum_probs=50.5
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKP 55 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~ 55 (148)
+|..+++.|++.||.|+|||||+|.+++.|.-|-+.||++.|+++-+.|.+-.+.
T Consensus 76 ~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe 130 (214)
T KOG4208|consen 76 TVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE 130 (214)
T ss_pred eeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence 3567888899999999999999999999999999999999999999999987655
No 99
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=99.01 E-value=1.5e-09 Score=58.98 Aligned_cols=47 Identities=32% Similarity=0.704 Sum_probs=42.9
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEE
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILR 48 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~ 48 (148)
.|..+.++.+ .++.++|||||+|.+.++|+.|++.+++..+.|++|+
T Consensus 24 ~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 24 KIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp TEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred hccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 3678888998 6889999999999999999999999999999999875
No 100
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.00 E-value=2.1e-09 Score=76.81 Aligned_cols=80 Identities=24% Similarity=0.470 Sum_probs=67.6
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccC
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQG 145 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~ 145 (148)
..+|||.|||.+++..+|.++|.+||.|....|..-...++..+||||+|.+.+.++.|+. .+-..++|++|.|+-.++
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~-Asp~~ig~~kl~Veek~~ 366 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIE-ASPLEIGGRKLNVEEKRP 366 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhh-cCccccCCeeEEEEeccc
Confidence 3459999999999999999999999999998886543223334899999999999999999 558889999999987665
Q ss_pred C
Q 032044 146 R 146 (148)
Q Consensus 146 ~ 146 (148)
.
T Consensus 367 ~ 367 (419)
T KOG0116|consen 367 G 367 (419)
T ss_pred c
Confidence 3
No 101
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.00 E-value=8.9e-09 Score=66.79 Aligned_cols=83 Identities=20% Similarity=0.382 Sum_probs=68.2
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEc-CCCCCceeEEEEEecCHHHHHHHHHHhCCceeC---CeEEE
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYD-GESGRSRGYGFVCYSTKAEMETALESLNGVELE---GRAMR 139 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~-~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~---g~~l~ 139 (148)
..-++|||.+||.++-..+|..+|..|..-+...+... +.....+.+||++|.+.+.|..|+..|||..++ +..|+
T Consensus 32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLh 111 (284)
T KOG1457|consen 32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLH 111 (284)
T ss_pred cccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeE
Confidence 34689999999999999999999999876666555443 222334579999999999999999999999986 78899
Q ss_pred EEeccCC
Q 032044 140 VSLAQGR 146 (148)
Q Consensus 140 v~~~~~~ 146 (148)
+++++++
T Consensus 112 iElAKSN 118 (284)
T KOG1457|consen 112 IELAKSN 118 (284)
T ss_pred eeehhcC
Confidence 9988654
No 102
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=99.00 E-value=5e-09 Score=71.78 Aligned_cols=80 Identities=23% Similarity=0.523 Sum_probs=70.7
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCee--------EEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCC
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVV--------GARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEG 135 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~--------~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g 135 (148)
..+..|||+|||.++|.+++.++|+++|.|. .+.+.++ ..|..+|-|++.|-..++...|++.|++..+.|
T Consensus 132 ~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd-~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg 210 (382)
T KOG1548|consen 132 KVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRD-NQGKLKGDALCCYIKRESVELAIKILDEDELRG 210 (382)
T ss_pred ccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEec-CCCCccCceEEEeecccHHHHHHHHhCcccccC
Confidence 3456799999999999999999999999764 3566777 458899999999999999999999999999999
Q ss_pred eEEEEEecc
Q 032044 136 RAMRVSLAQ 144 (148)
Q Consensus 136 ~~l~v~~~~ 144 (148)
+.|+|+.|+
T Consensus 211 ~~~rVerAk 219 (382)
T KOG1548|consen 211 KKLRVERAK 219 (382)
T ss_pred cEEEEehhh
Confidence 999999875
No 103
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=98.99 E-value=5.3e-10 Score=71.53 Aligned_cols=53 Identities=34% Similarity=0.537 Sum_probs=49.3
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSD 53 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~ 53 (148)
.|-+|.|.+|+.|++++|||||-|....+|+.|++.|+|..++|+.|.|+.+.
T Consensus 39 ~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar 91 (256)
T KOG4207|consen 39 RVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR 91 (256)
T ss_pred cccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence 36789999999999999999999999999999999999999999999988653
No 104
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=98.97 E-value=1.1e-10 Score=87.56 Aligned_cols=113 Identities=20% Similarity=0.265 Sum_probs=96.9
Q ss_pred CCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCHHHHHHHHhhc
Q 032044 11 RETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEY 90 (148)
Q Consensus 11 ~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~ 90 (148)
..+++.+|+||++|..++++.+|+....+..++ ...++|+|.|+..|.++++.++..+
T Consensus 703 ~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g----------------------K~~v~i~g~pf~gt~e~~k~l~~~~ 760 (881)
T KOG0128|consen 703 KNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG----------------------KISVAISGPPFQGTKEELKSLASKT 760 (881)
T ss_pred hhccccccceeeEeecCCchhhhhhhhhhhhhh----------------------hhhhheeCCCCCCchHHHHhhcccc
Confidence 456789999999999999999999855555443 1258899999999999999999999
Q ss_pred CCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 91 GNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 91 g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
|.+.+.+++.. ..|+|+|.+++.|.++.++.+++...++..++.+.+.+..+++.
T Consensus 761 gn~~~~~~vt~-r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp~ 815 (881)
T KOG0128|consen 761 GNVTSLRLVTV-RAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNPE 815 (881)
T ss_pred CCccccchhhh-hccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCCc
Confidence 99999888777 45889999999999999999999999998888887777776553
No 105
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.96 E-value=3.3e-10 Score=71.08 Aligned_cols=52 Identities=31% Similarity=0.646 Sum_probs=48.9
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSD 53 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~ 53 (148)
|.+|.++||+.||+|+||||+.|.+..+-..|+..|||..+.|++|+|....
T Consensus 62 ~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~ 113 (219)
T KOG0126|consen 62 IVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS 113 (219)
T ss_pred eEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence 5789999999999999999999999999999999999999999999998543
No 106
>smart00360 RRM RNA recognition motif.
Probab=98.94 E-value=5.9e-09 Score=56.27 Aligned_cols=49 Identities=39% Similarity=0.756 Sum_probs=44.6
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEe
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVN 50 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~ 50 (148)
|..+.+..++.++.++|||||+|.+.++|..|+..+++..+.|+.+.|+
T Consensus 23 v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 23 IESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred EeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 6788899988789999999999999999999999999999999988763
No 107
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.94 E-value=3.1e-09 Score=71.46 Aligned_cols=52 Identities=27% Similarity=0.523 Sum_probs=49.2
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeec
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFS 52 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~ 52 (148)
.|+.|.+++|+.||+++|||||+|..+.+...|-...+|..|.|+.|.|.+-
T Consensus 127 ~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE 178 (335)
T KOG0113|consen 127 PIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE 178 (335)
T ss_pred cceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence 4889999999999999999999999999999999999999999999999753
No 108
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.94 E-value=1e-09 Score=79.13 Aligned_cols=72 Identities=31% Similarity=0.436 Sum_probs=63.7
Q ss_pred CCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEE
Q 032044 63 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMR 139 (148)
Q Consensus 63 ~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~ 139 (148)
.....+|+|-|||.++++++|+.+|+.||.|..++.- ...++.+||+|.|..+|+.|++.|++.+|.|+.+.
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t-----~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRET-----PNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcc-----cccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 3456789999999999999999999999999986443 23578999999999999999999999999998877
No 109
>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=98.94 E-value=4.4e-09 Score=57.32 Aligned_cols=46 Identities=43% Similarity=0.771 Sum_probs=42.4
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEE
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILR 48 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~ 48 (148)
|..+.+..++. |+++|+|||+|.+.++|..|+..+++..+.|+.|+
T Consensus 25 v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 25 VEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 67899999976 99999999999999999999999998999999874
No 110
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.90 E-value=3.9e-09 Score=72.38 Aligned_cols=135 Identities=23% Similarity=0.347 Sum_probs=107.2
Q ss_pred CCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCC-----CCCCCCCCCcceEE-EcCCCCCCCHHHHH
Q 032044 11 RETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPK-----PKLPLYAETDFKLF-VGNLSWSVTTESLT 84 (148)
Q Consensus 11 ~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~-----~~~~~~~~~~~~l~-i~nlp~~~~~~~l~ 84 (148)
.....++|++.+.|...+.+..|+.........++.+......... .........+.+++ +.+++..+++++|.
T Consensus 124 ~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~~~~~~~~n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~ 203 (285)
T KOG4210|consen 124 EDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNTRRGLRPKNKLSRLSSGPSDTIFFVGELDFSLTRDDLK 203 (285)
T ss_pred ccccccccceeeccccHHHHHHHHHhhhccccccccccCcccccccccccchhcccccCccccceeecccccccchHHHh
Confidence 3456899999999999999999998544445555554443332221 11122333455666 99999999999999
Q ss_pred HHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 85 QAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 85 ~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
..|..+|.+..++++..+.++...+++|+.|.....+..++.. .+..+.+.++.+....++
T Consensus 204 ~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 264 (285)
T KOG4210|consen 204 EHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPR 264 (285)
T ss_pred hhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCC
Confidence 9999999999999999999999999999999999999999987 888999999999987766
No 111
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.88 E-value=2.8e-09 Score=69.51 Aligned_cols=70 Identities=27% Similarity=0.621 Sum_probs=64.2
Q ss_pred eEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccC
Q 032044 68 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQG 145 (148)
Q Consensus 68 ~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~ 145 (148)
.+||+++|+...+.++.++|..||.+..+.+. .|++||+|.+..+|..|+-.+|+..++|-.+.+.++..
T Consensus 3 rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~ 72 (216)
T KOG0106|consen 3 RVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARG 72 (216)
T ss_pred ceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCceecceeeeeecccc
Confidence 68999999999999999999999999887664 45789999999999999999999999998899999874
No 112
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.88 E-value=4e-09 Score=75.78 Aligned_cols=54 Identities=39% Similarity=0.774 Sum_probs=51.0
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKP 55 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~ 55 (148)
|.+++++.|+.||+++||||++|.+.++|..|++.|++..+.|++++|.|....
T Consensus 45 v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 45 VLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred cceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 678999999999999999999999999999999999999999999999987543
No 113
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=98.87 E-value=8.6e-08 Score=68.99 Aligned_cols=109 Identities=16% Similarity=0.231 Sum_probs=82.4
Q ss_pred cEEEEEeCCHHHHHHHHHHhCC----Ce-------ecCcEEEEeecCCCCC----CCCCCCCCcceEEEcCCCCCCCHHH
Q 032044 18 GFAFVTMSTVEDCNAVIENLDG----RE-------YLGRILRVNFSDKPKP----KLPLYAETDFKLFVGNLSWSVTTES 82 (148)
Q Consensus 18 g~afv~f~~~~~a~~a~~~l~~----~~-------~~~~~i~v~~~~~~~~----~~~~~~~~~~~l~i~nlp~~~~~~~ 82 (148)
||+|+.|.++..++.-+..... .. +..+.+.|.+...... ....+-++.+||||++||..++.++
T Consensus 307 ~YvflvFe~E~sV~~Ll~aC~~~~~~~yf~vss~~~k~k~VQIrPW~laDs~fv~d~sq~lDprrTVFVGgvprpl~A~e 386 (520)
T KOG0129|consen 307 GYVFLVFEDERSVQSLLSACSEGEGNYYFKVSSPTIKDKEVQIRPWVLADSDFVLDHNQPIDPRRTVFVGGLPRPLTAEE 386 (520)
T ss_pred cEEEEEecchHHHHHHHHHHhhcccceEEEEecCcccccceeEEeeEeccchhhhccCcccCccceEEecCCCCcchHHH
Confidence 4999999999999887764322 11 1122233332221111 1233455778999999999999999
Q ss_pred HHHHHh-hcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHH
Q 032044 83 LTQAFQ-EYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALE 126 (148)
Q Consensus 83 l~~~f~-~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~ 126 (148)
|..+|+ -||.|..+.|-.|+.-+.|+|.|-|+|.+.+.-.+||.
T Consensus 387 LA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs 431 (520)
T KOG0129|consen 387 LAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS 431 (520)
T ss_pred HHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence 999999 69999999999888888899999999999999999987
No 114
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.82 E-value=3.6e-08 Score=70.50 Aligned_cols=77 Identities=23% Similarity=0.441 Sum_probs=63.9
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
....-|.+++||+++|++||+++|+.++ |..+.+. +.++++.|-|||+|.+.+++++|++ .+-..+..+-|.|-.+
T Consensus 8 ~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~--r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 8 STAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIP--RRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTA 83 (510)
T ss_pred CcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEe--ccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEcc
Confidence 3455789999999999999999999995 6665444 4568899999999999999999999 6777777788877665
Q ss_pred c
Q 032044 144 Q 144 (148)
Q Consensus 144 ~ 144 (148)
.
T Consensus 84 ~ 84 (510)
T KOG4211|consen 84 G 84 (510)
T ss_pred C
Confidence 3
No 115
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.81 E-value=1.2e-08 Score=67.95 Aligned_cols=81 Identities=27% Similarity=0.474 Sum_probs=74.3
Q ss_pred CCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 63 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 63 ~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
......++++|+.+.++.+++..+|+.||.+..+.+..+...+.+++++||+|.+.+..+.++. |++-.+.|..+.+.+
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~ 176 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTL 176 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeee
Confidence 3456689999999999999999999999999999999998888899999999999999999999 999999999988887
Q ss_pred cc
Q 032044 143 AQ 144 (148)
Q Consensus 143 ~~ 144 (148)
.+
T Consensus 177 ~r 178 (231)
T KOG4209|consen 177 KR 178 (231)
T ss_pred ee
Confidence 54
No 116
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=98.78 E-value=2.8e-08 Score=67.83 Aligned_cols=53 Identities=26% Similarity=0.471 Sum_probs=47.9
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKP 55 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~ 55 (148)
+|.+|.|+.+. . .|||||||.|++.+||++|-++|+|..+.|++|.|..+...
T Consensus 122 ~VldVEIIfNE-R-GSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATar 174 (376)
T KOG0125|consen 122 KVLDVEIIFNE-R-GSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATAR 174 (376)
T ss_pred ceeeEEEEecc-C-CCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchh
Confidence 57899999983 3 49999999999999999999999999999999999977643
No 117
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=98.74 E-value=2.7e-08 Score=64.95 Aligned_cols=52 Identities=27% Similarity=0.455 Sum_probs=45.1
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDK 54 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~ 54 (148)
|.+..|+.|+.||+|+|||||.|.+.++|.+|+.. .+-.|+|++..|..+..
T Consensus 39 I~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNcnlA~l 90 (247)
T KOG0149|consen 39 IVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANCNLASL 90 (247)
T ss_pred eEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccccccchhhh
Confidence 77899999999999999999999999999999983 33457999988886654
No 118
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=98.74 E-value=3.6e-07 Score=63.84 Aligned_cols=115 Identities=18% Similarity=0.231 Sum_probs=84.2
Q ss_pred CCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCC--------CCC---CCCCCCcceEEEcCCCCCCC
Q 032044 11 RETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPK--------PKL---PLYAETDFKLFVGNLSWSVT 79 (148)
Q Consensus 11 ~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~--------~~~---~~~~~~~~~l~i~nlp~~~~ 79 (148)
...|+..|.|.|.|.+.+.-+-|+. .+...+.++.|.+-.+.... ..+ ..+...--.|.+++||++++
T Consensus 96 ~~qgrRnge~lvrf~d~e~Rdlalk-Rhkhh~g~ryievYka~ge~f~~iagg~s~e~~~flsk~~qvivRmRGLPfdat 174 (508)
T KOG1365|consen 96 NAQGRRNGEALVRFVDPEGRDLALK-RHKHHMGTRYIEVYKATGEEFLKIAGGTSNEAAPFLSKENQVIVRMRGLPFDAT 174 (508)
T ss_pred hhhhccccceEEEecCchhhhhhhH-hhhhhccCCceeeeccCchhheEecCCccccCCCCCCcccceEEEecCCCCCcc
Confidence 3467888999999999999999997 56777777777775332211 111 11222345688999999999
Q ss_pred HHHHHHHHhhcC----CeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHH
Q 032044 80 TESLTQAFQEYG----NVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 127 (148)
Q Consensus 80 ~~~l~~~f~~~g----~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~ 127 (148)
+.++.++|.+-. ....+.++.. ..|++.|-|||.|..+++|+.|+..
T Consensus 175 ~~dVv~FF~~~cpv~~g~egvLFV~r-pdgrpTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 175 ALDVVEFFGPPCPVTGGTEGVLFVTR-PDGRPTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred hHHHHHhcCCCCcccCCccceEEEEC-CCCCcccceEEEecCHHHHHHHHHH
Confidence 999999997432 3445555544 4588999999999999999999973
No 119
>smart00362 RRM_2 RNA recognition motif.
Probab=98.73 E-value=6.8e-08 Score=52.19 Aligned_cols=47 Identities=40% Similarity=0.695 Sum_probs=41.4
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEe
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVN 50 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~ 50 (148)
|..+.+..++ +.++|+|||+|.+.++|+.|+..+++..+.|+++.++
T Consensus 26 v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 26 IESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred EEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 5677888776 7899999999999999999999999999999988763
No 120
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.72 E-value=1.6e-08 Score=60.65 Aligned_cols=55 Identities=29% Similarity=0.538 Sum_probs=50.5
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKP 55 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~ 55 (148)
.|+.|.+-.|+-||=.+|||+|+|.+.+.|+.|+..+|+..+.++++.|.|+-..
T Consensus 98 eiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~ 152 (170)
T KOG0130|consen 98 EIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVK 152 (170)
T ss_pred cccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEec
Confidence 3678888899999999999999999999999999999999999999999987543
No 121
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.70 E-value=5.4e-08 Score=72.45 Aligned_cols=80 Identities=28% Similarity=0.536 Sum_probs=70.8
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCC---CCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEE
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGES---GRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVS 141 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~---~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~ 141 (148)
..+.+|++||++.++++.|...|..||++.++.+++.+.. ...+.++||-|-+..+|++|+..|+|..+.+..+++-
T Consensus 173 ~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~g 252 (877)
T KOG0151|consen 173 QTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLG 252 (877)
T ss_pred cccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeec
Confidence 3467999999999999999999999999999999876422 3456789999999999999999999999999999998
Q ss_pred ecc
Q 032044 142 LAQ 144 (148)
Q Consensus 142 ~~~ 144 (148)
|.+
T Consensus 253 Wgk 255 (877)
T KOG0151|consen 253 WGK 255 (877)
T ss_pred ccc
Confidence 874
No 122
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.69 E-value=1.7e-08 Score=76.69 Aligned_cols=131 Identities=17% Similarity=0.265 Sum_probs=106.8
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCHH
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTE 81 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~~ 81 (148)
|++|.|-+-+ -++...|||+.|.+.+++-.|...+.+..|....+.+.+... .......+++++|+.++...
T Consensus 399 ve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~~-------kst~ttr~~sgglg~w~p~~ 470 (975)
T KOG0112|consen 399 VEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQP-------KSTPTTRLQSGGLGPWSPVS 470 (975)
T ss_pred ccccccccCC-CCcccchhhhhhhccccCcccchhhcCCccccCccccccccc-------ccccceeeccCCCCCCChHH
Confidence 5566665553 456778999999999999999999999888777766666543 22355679999999999999
Q ss_pred HHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCC--eEEEEEeccCC
Q 032044 82 SLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEG--RAMRVSLAQGR 146 (148)
Q Consensus 82 ~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g--~~l~v~~~~~~ 146 (148)
.+...|..||.|..|.+-.. ..|+|+.|++...|+.|+..+-|..++| +.++|.++.+.
T Consensus 471 ~l~r~fd~fGpir~Idy~hg------q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~ 531 (975)
T KOG0112|consen 471 RLNREFDRFGPIRIIDYRHG------QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPP 531 (975)
T ss_pred HHHHHhhccCcceeeecccC------CcceeeecccCccchhhHHHHhcCcCCCCCcccccccccCC
Confidence 99999999999988766433 3489999999999999999999999986 67888887653
No 123
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=98.66 E-value=6.4e-08 Score=56.85 Aligned_cols=70 Identities=21% Similarity=0.388 Sum_probs=44.1
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCC-----ceeCCeEEEEE
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNG-----VELEGRAMRVS 141 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~-----~~i~g~~l~v~ 141 (148)
+.|++.+++..++.++|++.|++||.|.+|.+..+ ...|||.|.+++.|+.|+..+.. ..+.+..+.++
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G------~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~ 75 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG------DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLE 75 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC------CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEE
Confidence 46889999999999999999999999999887654 22699999999999999987643 45666666555
Q ss_pred e
Q 032044 142 L 142 (148)
Q Consensus 142 ~ 142 (148)
.
T Consensus 76 v 76 (105)
T PF08777_consen 76 V 76 (105)
T ss_dssp -
T ss_pred E
Confidence 4
No 124
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.64 E-value=1.3e-08 Score=65.86 Aligned_cols=79 Identities=24% Similarity=0.336 Sum_probs=70.0
Q ss_pred CCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 63 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 63 ~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
+....+|+|.|+...++++-|.++|-+-|+|.++.|..+.+ +.++ +|||.|.++...+-|++.+||..+.|..+.+.+
T Consensus 6 ae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d-~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~ 83 (267)
T KOG4454|consen 6 AEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQD-QEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTL 83 (267)
T ss_pred cchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCcc-CCCc-eeeeecccccchhhhhhhcccchhccchhhccc
Confidence 34567999999999999999999999999999999988755 4445 999999999999999999999999998888876
Q ss_pred c
Q 032044 143 A 143 (148)
Q Consensus 143 ~ 143 (148)
-
T Consensus 84 r 84 (267)
T KOG4454|consen 84 R 84 (267)
T ss_pred c
Confidence 4
No 125
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=98.63 E-value=3.6e-07 Score=50.51 Aligned_cols=69 Identities=22% Similarity=0.335 Sum_probs=46.5
Q ss_pred eEEEcCCCCCCCHHHHH----HHHhhcCC-eeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 68 KLFVGNLSWSVTTESLT----QAFQEYGN-VVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 68 ~l~i~nlp~~~~~~~l~----~~f~~~g~-v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
.|+|.|||.+.+...|+ .++..+|. |..+ . .+.|+|.|.+.+.|.+|.+.|+|-.+-|++|.|++
T Consensus 4 ~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~--------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~ 73 (90)
T PF11608_consen 4 LLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--S--------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSF 73 (90)
T ss_dssp EEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEES
T ss_pred EEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--e--------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEE
Confidence 68999999998887655 55557764 4443 1 24699999999999999999999999999999999
Q ss_pred ccCC
Q 032044 143 AQGR 146 (148)
Q Consensus 143 ~~~~ 146 (148)
....
T Consensus 74 ~~~~ 77 (90)
T PF11608_consen 74 SPKN 77 (90)
T ss_dssp S--S
T ss_pred cCCc
Confidence 7433
No 126
>PLN03121 nucleic acid binding protein; Provisional
Probab=98.59 E-value=3.5e-07 Score=60.55 Aligned_cols=52 Identities=10% Similarity=0.140 Sum_probs=45.4
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPK 56 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~ 56 (148)
+|++|+|+++. +.+++|||+|.++++|+.|+. |+|..|.+++|.|.......
T Consensus 31 ~I~~V~I~~D~---et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~~~y~ 82 (243)
T PLN03121 31 AIEHVEIIRSG---EYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRWGQYE 82 (243)
T ss_pred CeEEEEEecCC---CcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeCcccc
Confidence 58899999984 455899999999999999996 99999999999999876543
No 127
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.59 E-value=1.7e-07 Score=69.87 Aligned_cols=140 Identities=13% Similarity=0.053 Sum_probs=104.1
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCC------------------------
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKP------------------------ 57 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~------------------------ 57 (148)
|.+..|..+...+-..|-++|.|....++++|+. .+.+.+-++.+.+.......-
T Consensus 337 ~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~~-rn~~~~~~R~~q~~P~g~~~~~~a~~~~~~~~~~~~~~~hg~p~~ 415 (944)
T KOG4307|consen 337 AQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAFT-RNPSDDVNRPFQTGPPGNLGRNGAPPFQAGVPPPVIQNNHGRPIA 415 (944)
T ss_pred ccccchhhhhcCCCcCCceEEEecCcchHHHHHh-cCchhhhhcceeecCCCccccccCccccccCCCCcccccCCCCCC
Confidence 3445556665555558999999999999999997 566677777777764322100
Q ss_pred ----------CCCCCCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeE-EEEEEcCCCCCceeEEEEEecCHHHHHHHHH
Q 032044 58 ----------KLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVG-ARVLYDGESGRSRGYGFVCYSTKAEMETALE 126 (148)
Q Consensus 58 ----------~~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~-~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~ 126 (148)
..+.+.....+|||..||..+++.++.++|.....|+. |.+.+. .+++.++.|||.|..++.+..|..
T Consensus 416 ~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~-P~~~~~~~afv~F~~~~a~~~a~~ 494 (944)
T KOG4307|consen 416 PPRAMVRPGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRL-PTDLLRPAAFVAFIHPTAPLTASS 494 (944)
T ss_pred CcccccCCCCCCCCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccC-Ccccccchhhheeccccccchhhh
Confidence 00112234568999999999999999999998777766 555444 557778899999999999999998
Q ss_pred HhCCceeCCeEEEEEec
Q 032044 127 SLNGVELEGRAMRVSLA 143 (148)
Q Consensus 127 ~l~~~~i~g~~l~v~~~ 143 (148)
.-+.+.++.+.|+|+..
T Consensus 495 ~~~k~y~G~r~irv~si 511 (944)
T KOG4307|consen 495 VKTKFYPGHRIIRVDSI 511 (944)
T ss_pred cccccccCceEEEeech
Confidence 77777788889998764
No 128
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.59 E-value=2.9e-07 Score=68.66 Aligned_cols=75 Identities=21% Similarity=0.391 Sum_probs=66.1
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhcCCee-EEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEYGNVV-GARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~g~v~-~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
+.|-+.|+|++++.+||.++|..|-.+- +|.+-++ +.|.+.|.|-|-|++.+.|..|...|++..|.++.|.+.+
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~n-d~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRN-DDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeec-CCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 4789999999999999999999996543 4444444 7799999999999999999999999999999999998875
No 129
>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=98.59 E-value=4.1e-07 Score=49.30 Aligned_cols=49 Identities=41% Similarity=0.763 Sum_probs=42.9
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEee
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNF 51 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~ 51 (148)
|..+.+..++.+ .++|+|||+|.+.++|..|+..+++..+.|+.+.+.+
T Consensus 26 i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 26 VESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred EEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 567788887644 7899999999999999999999999999999998764
No 130
>PLN03120 nucleic acid binding protein; Provisional
Probab=98.58 E-value=3.6e-07 Score=61.37 Aligned_cols=51 Identities=12% Similarity=0.231 Sum_probs=45.3
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKP 55 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~ 55 (148)
+|++|.|++++. ++|||||+|.++++|..|+. |++..+.|+.|.|.++...
T Consensus 30 ~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~~ 80 (260)
T PLN03120 30 DIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAEDY 80 (260)
T ss_pred CeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccCC
Confidence 588999998863 56999999999999999996 9999999999999987643
No 131
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=98.58 E-value=1.5e-07 Score=56.03 Aligned_cols=52 Identities=19% Similarity=0.413 Sum_probs=46.9
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSD 53 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~ 53 (148)
|..|-+-.|+.+...-|||||+|.+.++|..|+..+++..+..++|.+.|.-
T Consensus 63 irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~ 114 (153)
T KOG0121|consen 63 IRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDA 114 (153)
T ss_pred hheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccc
Confidence 5566667788899999999999999999999999999999999999998753
No 132
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=1.1e-07 Score=65.75 Aligned_cols=53 Identities=28% Similarity=0.456 Sum_probs=50.6
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSD 53 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~ 53 (148)
+|.+|.+++|..||.+.-||||+|.+.+++++|.-+|++..|.++.|+|.++.
T Consensus 265 ~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQ 317 (479)
T KOG0415|consen 265 KIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQ 317 (479)
T ss_pred cceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhh
Confidence 58899999999999999999999999999999999999999999999999864
No 133
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=98.53 E-value=2e-07 Score=58.46 Aligned_cols=40 Identities=33% Similarity=0.590 Sum_probs=36.8
Q ss_pred cccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCC
Q 032044 16 SRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKP 55 (148)
Q Consensus 16 ~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~ 55 (148)
..|||||||.+..||+.|+..|+|..|.|..+.|+.+...
T Consensus 46 PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~ 85 (195)
T KOG0107|consen 46 PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGR 85 (195)
T ss_pred CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCC
Confidence 4589999999999999999999999999999999987644
No 134
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.40 E-value=3.8e-07 Score=63.04 Aligned_cols=82 Identities=26% Similarity=0.387 Sum_probs=73.6
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCee--------EEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCe
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVV--------GARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGR 136 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~--------~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~ 136 (148)
...+|++.++|..+++++|.++|.++|.|. .+.+.++..++.+++-|.|.|++...|+.|+.-+++..+.|.
T Consensus 65 ~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn 144 (351)
T KOG1995|consen 65 DNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGN 144 (351)
T ss_pred ccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCC
Confidence 456899999999999999999999998653 356777888999999999999999999999999999999999
Q ss_pred EEEEEeccCC
Q 032044 137 AMRVSLAQGR 146 (148)
Q Consensus 137 ~l~v~~~~~~ 146 (148)
.|+|.++..+
T Consensus 145 ~ikvs~a~~r 154 (351)
T KOG1995|consen 145 TIKVSLAERR 154 (351)
T ss_pred Cchhhhhhhc
Confidence 9999888655
No 135
>PLN03213 repressor of silencing 3; Provisional
Probab=98.38 E-value=8.7e-07 Score=63.98 Aligned_cols=50 Identities=18% Similarity=0.399 Sum_probs=43.8
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCH--HHHHHHHHHhCCCeecCcEEEEeecCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTV--EDCNAVIENLDGREYLGRILRVNFSDK 54 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~--~~a~~a~~~l~~~~~~~~~i~v~~~~~ 54 (148)
.|.++.|++. +| +|||||+|.+. .++.+|+..|+|..+.|+.|+|..+.+
T Consensus 36 sVkdVEIpRE--TG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP 87 (759)
T PLN03213 36 TVDAVEFVRT--KG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE 87 (759)
T ss_pred CeeEEEEecc--cC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence 4788999944 66 99999999987 679999999999999999999987654
No 136
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.32 E-value=3.2e-07 Score=60.74 Aligned_cols=49 Identities=24% Similarity=0.508 Sum_probs=45.0
Q ss_pred eEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecC
Q 032044 5 LTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSD 53 (148)
Q Consensus 5 i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~ 53 (148)
-++++|+-||+++||+||.|.+..++..|++.++|..++.++|..+.+.
T Consensus 220 akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~ 268 (290)
T KOG0226|consen 220 AKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSE 268 (290)
T ss_pred ccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhh
Confidence 4789999999999999999999999999999999999999998887543
No 137
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.31 E-value=1.8e-07 Score=60.66 Aligned_cols=110 Identities=25% Similarity=0.414 Sum_probs=87.3
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcC----CCCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGN----LSWS 77 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~n----lp~~ 77 (148)
|.++.|..++ .+..+ ||||.|.++-.+..|+..+||..+.+.++.+.+- .++ |...
T Consensus 36 V~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r------------------~G~shapld~r 95 (267)
T KOG4454|consen 36 VYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLR------------------CGNSHAPLDER 95 (267)
T ss_pred eEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhhcccc------------------cCCCcchhhhh
Confidence 3455555564 55555 9999999999999999999999999999888743 233 5556
Q ss_pred CCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCce
Q 032044 78 VTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVE 132 (148)
Q Consensus 78 ~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~ 132 (148)
.+++.+...+..-|++..+++..+.+ +.++.++|+++........++....+..
T Consensus 96 ~~~ei~~~v~s~a~p~~~~R~~~~~d-~rnrn~~~~~~qr~~~~P~~~~~y~~l~ 149 (267)
T KOG4454|consen 96 VTEEILYEVFSQAGPIEGVRIPTDND-GRNRNFGFVTYQRLCAVPFALDLYQGLE 149 (267)
T ss_pred cchhhheeeecccCCCCCcccccccc-CCccCccchhhhhhhcCcHHhhhhcccC
Confidence 78888889999999999999988755 7788889999988888888887666644
No 138
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.23 E-value=5.5e-06 Score=57.25 Aligned_cols=79 Identities=20% Similarity=0.341 Sum_probs=61.2
Q ss_pred cceEEEcCCCCCCCHHH------HHHHHhhcCCeeEEEEEEcCCC-CCcee--EEEEEecCHHHHHHHHHHhCCceeCCe
Q 032044 66 DFKLFVGNLSWSVTTES------LTQAFQEYGNVVGARVLYDGES-GRSRG--YGFVCYSTKAEMETALESLNGVELEGR 136 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~------l~~~f~~~g~v~~~~~~~~~~~-~~~~~--~~fv~f~~~~~a~~a~~~l~~~~i~g~ 136 (148)
..-+||-++|+.+..++ -.++|.+||.|..+.+-+.-.+ +...+ -.||+|.+.++|.+|++..+|..++|+
T Consensus 114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr 193 (480)
T COG5175 114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGR 193 (480)
T ss_pred cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCc
Confidence 34589999999887776 3489999999998877543211 11112 249999999999999999999999999
Q ss_pred EEEEEecc
Q 032044 137 AMRVSLAQ 144 (148)
Q Consensus 137 ~l~v~~~~ 144 (148)
.|+..|-.
T Consensus 194 ~lkatYGT 201 (480)
T COG5175 194 VLKATYGT 201 (480)
T ss_pred eEeeecCc
Confidence 99988743
No 139
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=98.16 E-value=5.1e-08 Score=73.78 Aligned_cols=132 Identities=16% Similarity=0.169 Sum_probs=97.0
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCC-----CCcceEEEcCCCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYA-----ETDFKLFVGNLSW 76 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~-----~~~~~l~i~nlp~ 76 (148)
|++|++......-....++++++....+++.|.. ..+..+.++...+..+.+......... ....+++++||++
T Consensus 599 vekv~~p~~g~k~h~q~~~~~~~s~~~~~esat~-pa~~~~a~~~~av~~ad~~~~~~~~kvs~n~~R~~~~~fvsnl~~ 677 (881)
T KOG0128|consen 599 VEKVNGPKRGFKAHEQPQQQKVQSKHGSAESATV-PAGGALANRSAAVGLADAEEKEENFKVSPNEIRDLIKIFVSNLSP 677 (881)
T ss_pred cccccCccccccccccchhhhhhccccchhhccc-ccccccCCccccCCCCCchhhhhccCcCchHHHHHHHHHHhhcch
Confidence 4555555422222333378899999999998886 567777888888777655543222111 2346899999999
Q ss_pred CCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeC
Q 032044 77 SVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELE 134 (148)
Q Consensus 77 ~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~ 134 (148)
.+.+.+|...|.++|.+..+.+.-..+.+..+|+||++|..++++.+|+....++.++
T Consensus 678 ~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 678 KMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred hhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 9999999999999998877766545566788999999999999999999866655544
No 140
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=98.12 E-value=1.8e-06 Score=57.32 Aligned_cols=73 Identities=19% Similarity=0.298 Sum_probs=61.3
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCC--------CCc----eeEEEEEecCHHHHHHHHHHhCCce
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGES--------GRS----RGYGFVCYSTKAEMETALESLNGVE 132 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~--------~~~----~~~~fv~f~~~~~a~~a~~~l~~~~ 132 (148)
....||++++|+..+...|+++|..||.|-.+.+.....+ +.+ -.-|.|+|.+-..|......||+..
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 4568999999999999999999999999999888665443 222 2346799999999999999999999
Q ss_pred eCCeE
Q 032044 133 LEGRA 137 (148)
Q Consensus 133 i~g~~ 137 (148)
|+|+.
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 99864
No 141
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=98.11 E-value=1.3e-05 Score=41.07 Aligned_cols=52 Identities=21% Similarity=0.366 Sum_probs=41.4
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHH
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETAL 125 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~ 125 (148)
+.|-|.|.|++.. +.+..+|..||.|..+.+.. .....+|.|.++.+|++|+
T Consensus 2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~------~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVPE------STNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcCC------CCcEEEEEECCHHHHHhhC
Confidence 4688899998765 56666889999999887751 2347899999999999985
No 142
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=98.07 E-value=1.9e-05 Score=52.58 Aligned_cols=103 Identities=28% Similarity=0.369 Sum_probs=83.9
Q ss_pred HHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCc
Q 032044 28 EDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRS 107 (148)
Q Consensus 28 ~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~ 107 (148)
.-|..|-..|++....++.+.+.|+.. ..|+|.||+..++.+.+.+.|+.||++....+..+ +.+.+
T Consensus 5 t~ae~ak~eLd~~~~~~~~lr~rfa~~------------a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD-~r~k~ 71 (275)
T KOG0115|consen 5 TLAEIAKRELDGRFPKGRSLRVRFAMH------------AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVD-DRGKP 71 (275)
T ss_pred cHHHHHHHhcCCCCCCCCceEEEeecc------------ceEEEEecchhhhhHHHHHhhhhcCccchheeeec-ccccc
Confidence 346677778899999999999999864 26999999999999999999999999988777766 55778
Q ss_pred eeEEEEEecCHHHHHHHHHHhCC----ceeCCeEEEEEec
Q 032044 108 RGYGFVCYSTKAEMETALESLNG----VELEGRAMRVSLA 143 (148)
Q Consensus 108 ~~~~fv~f~~~~~a~~a~~~l~~----~~i~g~~l~v~~~ 143 (148)
.+-++|.|.....|.+|+..++. ....+...-|.+.
T Consensus 72 t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP~ 111 (275)
T KOG0115|consen 72 TREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEPM 111 (275)
T ss_pred cccchhhhhcchhHHHHHHHhccCccccCCCCCccCCChh
Confidence 88899999999999999987743 3344555555443
No 143
>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=98.04 E-value=6.1e-05 Score=43.73 Aligned_cols=77 Identities=17% Similarity=0.244 Sum_probs=51.1
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcCCeeEEE-EEEcC------CCCCceeEEEEEecCHHHHHHHHHHhCCceeCCe-E
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGAR-VLYDG------ESGRSRGYGFVCYSTKAEMETALESLNGVELEGR-A 137 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~-~~~~~------~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~-~ 137 (148)
..-|.|-|.|+. ....+.+.|++||.|.... ..++. ........-.|+|.++.+|++||+ -||..++|. .
T Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~m 83 (100)
T PF05172_consen 6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLM 83 (100)
T ss_dssp CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEE
T ss_pred CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEE
Confidence 345888899988 5678999999999987664 00000 001123467899999999999999 999999885 5
Q ss_pred EEEEecc
Q 032044 138 MRVSLAQ 144 (148)
Q Consensus 138 l~v~~~~ 144 (148)
+-|.+++
T Consensus 84 vGV~~~~ 90 (100)
T PF05172_consen 84 VGVKPCD 90 (100)
T ss_dssp EEEEE-H
T ss_pred EEEEEcH
Confidence 5577763
No 144
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=98.03 E-value=3.3e-05 Score=52.51 Aligned_cols=65 Identities=17% Similarity=0.213 Sum_probs=53.3
Q ss_pred HHHHHHHHhhcCCeeEEEEEEcCCCCCce-eEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 80 TESLTQAFQEYGNVVGARVLYDGESGRSR-GYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 80 ~~~l~~~f~~~g~v~~~~~~~~~~~~~~~-~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
++++.+.|++||.|..+.|...+...... .--||+|...+.|.+|+-.|||..++|+.+...+.+
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 35788899999999999887665443322 236999999999999999999999999999987754
No 145
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.99 E-value=2.2e-07 Score=65.69 Aligned_cols=117 Identities=27% Similarity=0.392 Sum_probs=95.2
Q ss_pred cccEEEEEeCCHHHHHHHHHHhCCC-eecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCHHHHHHHHhhcCCee
Q 032044 16 SRGFAFVTMSTVEDCNAVIENLDGR-EYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVV 94 (148)
Q Consensus 16 ~~g~afv~f~~~~~a~~a~~~l~~~-~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~ 94 (148)
-.|||||...+..-|.+|++.+++. .+.|+.+.+..+.+++. .++.+-|+|+|+...++-+..++..||.+.
T Consensus 36 k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkq-------rsrk~Qirnippql~wevld~Ll~qyg~ve 108 (584)
T KOG2193|consen 36 KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQ-------RSRKIQIRNIPPQLQWEVLDSLLAQYGTVE 108 (584)
T ss_pred ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHHH-------HhhhhhHhcCCHHHHHHHHHHHHhccCCHh
Confidence 3589999999999999999999886 68899999988765543 334688999999999999999999999988
Q ss_pred EEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 95 GARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 95 ~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
.+..... ++. ....=++|...+.++.|+..++|..+.+..+.+.|
T Consensus 109 ~~eqvnt-~~e--tavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~Y 153 (584)
T KOG2193|consen 109 NCEQVNT-DSE--TAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGY 153 (584)
T ss_pred Hhhhhcc-chH--HHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhccc
Confidence 8765322 211 11233788899999999999999999988888776
No 146
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.98 E-value=4.3e-05 Score=56.21 Aligned_cols=77 Identities=29% Similarity=0.405 Sum_probs=60.8
Q ss_pred CCcceEEEcCCCCCCCH------HHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCe-
Q 032044 64 ETDFKLFVGNLSWSVTT------ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGR- 136 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~------~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~- 136 (148)
.-...|.|.|+|.--.. .-|..+|+++|.+....++.+.. |..+|+.|++|.+..+|+.|++.|||+.++-+
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~-ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknH 134 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE-GGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNH 134 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc-CCeeeEEEEEecChhhHHHHHHhcccceecccc
Confidence 34567899999874332 34668899999999888887755 44899999999999999999999999998754
Q ss_pred EEEEE
Q 032044 137 AMRVS 141 (148)
Q Consensus 137 ~l~v~ 141 (148)
...|.
T Consensus 135 tf~v~ 139 (698)
T KOG2314|consen 135 TFFVR 139 (698)
T ss_pred eEEee
Confidence 44443
No 147
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.97 E-value=3.1e-05 Score=44.68 Aligned_cols=51 Identities=22% Similarity=0.348 Sum_probs=43.7
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKP 55 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~ 55 (148)
|..|+|-..+ ..+|.|||.|++..+|.+|+..|+|..+.++.+.|.+..+.
T Consensus 45 IrQIRiG~~k---~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~ 95 (124)
T KOG0114|consen 45 IRQIRIGNTK---ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPE 95 (124)
T ss_pred eEEEEecCcc---CcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHH
Confidence 5566666655 46799999999999999999999999999999999988654
No 148
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.95 E-value=4.8e-06 Score=55.34 Aligned_cols=62 Identities=24% Similarity=0.383 Sum_probs=49.5
Q ss_pred HHHHHHHh-hcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 81 ESLTQAFQ-EYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 81 ~~l~~~f~-~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
+++...++ +||.|..+.+..+.. .-..|-+||.|...++|++|++.||+.+++|++|...++
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl~-~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~ 145 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNLG-DHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS 145 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccc-hhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence 34455555 899998887765522 224678999999999999999999999999999998875
No 149
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.82 E-value=0.00016 Score=44.57 Aligned_cols=56 Identities=30% Similarity=0.535 Sum_probs=44.1
Q ss_pred HHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCC
Q 032044 82 SLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGR 146 (148)
Q Consensus 82 ~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~ 146 (148)
+|.+.|..||.+.-+++.-+ .-+|+|.+.+.|.+|+. ++|.+++|+.|.|++..+.
T Consensus 52 ~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtpd 107 (146)
T PF08952_consen 52 ELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTPD 107 (146)
T ss_dssp HHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE----
T ss_pred HHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCcc
Confidence 67778889998877776532 36899999999999999 9999999999999987653
No 150
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.81 E-value=0.00018 Score=52.44 Aligned_cols=66 Identities=21% Similarity=0.504 Sum_probs=49.9
Q ss_pred CCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEE--cC-CCCCcee---EEEEEecCHHHHHHHHHHhC
Q 032044 63 AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLY--DG-ESGRSRG---YGFVCYSTKAEMETALESLN 129 (148)
Q Consensus 63 ~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~--~~-~~~~~~~---~~fv~f~~~~~a~~a~~~l~ 129 (148)
...+++|++++||++++|+.|...|..||.+ .+.+.. +. ..-.++| |+|+.|+++...+.-+..+.
T Consensus 256 ~~~S~KVFvGGlp~dise~~i~~~F~~FGs~-~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~ 327 (520)
T KOG0129|consen 256 PRYSRKVFVGGLPWDITEAQINASFGQFGSV-KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS 327 (520)
T ss_pred cccccceeecCCCccccHHHHHhhcccccce-EeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHh
Confidence 4467899999999999999999999999974 344441 11 1123456 99999999998887776554
No 151
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.77 E-value=5.7e-05 Score=50.54 Aligned_cols=52 Identities=31% Similarity=0.530 Sum_probs=46.8
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDK 54 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~ 54 (148)
|..+.+..++.+|.++|||||+|.+.+.+..|+. |++..+.+..+.+.+..-
T Consensus 128 i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r~ 179 (231)
T KOG4209|consen 128 INRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKRT 179 (231)
T ss_pred ccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeeee
Confidence 4567899999999999999999999999999999 999999999999986543
No 152
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.63 E-value=0.00085 Score=35.31 Aligned_cols=55 Identities=16% Similarity=0.209 Sum_probs=43.6
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhc---CCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHh
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEY---GNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESL 128 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~---g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l 128 (148)
+..|+|+|+.. ++.++|..+|..| .....+.++-+. .|=|.|.+.+.|.+|+..|
T Consensus 5 peavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 45799999855 7889999999998 134677777553 3779999999999999754
No 153
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=97.60 E-value=0.00031 Score=51.81 Aligned_cols=72 Identities=8% Similarity=0.254 Sum_probs=57.9
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhh--cCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCC--ceeCCeEEE
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQE--YGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNG--VELEGRAMR 139 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~--~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~--~~i~g~~l~ 139 (148)
...|.+.|+-+|.+...++++.+|+. +..+.++.+..+.. =||+|++..||+.|.+.|.. .+|.|+.|.
T Consensus 173 ~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~n-------WyITfesd~DAQqAykylreevk~fqgKpIm 245 (684)
T KOG2591|consen 173 HKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDN-------WYITFESDTDAQQAYKYLREEVKTFQGKPIM 245 (684)
T ss_pred cceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCc-------eEEEeecchhHHHHHHHHHHHHHhhcCcchh
Confidence 35667888999999999999999985 55677777765522 58999999999999998865 567888777
Q ss_pred EEe
Q 032044 140 VSL 142 (148)
Q Consensus 140 v~~ 142 (148)
.++
T Consensus 246 ARI 248 (684)
T KOG2591|consen 246 ARI 248 (684)
T ss_pred hhh
Confidence 665
No 154
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=97.58 E-value=0.00053 Score=38.10 Aligned_cols=55 Identities=15% Similarity=0.303 Sum_probs=39.8
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCC
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNG 130 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~ 130 (148)
...++. .|..+-..||.++|++||.|. +.++-+ ..|||...+.+.|..++..+.-
T Consensus 10 HVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~d-------TSAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 10 HVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWIND-------TSAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp CEEEEE---TT--HHHHHHHCCCCCCEE-EEEECT-------TEEEEEECCCHHHHHHHHHHTT
T ss_pred eEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcC-------CcEEEEeecHHHHHHHHHHhcc
Confidence 345555 999999999999999999874 344422 2599999999999999987753
No 155
>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=97.56 E-value=0.00023 Score=39.55 Aligned_cols=43 Identities=23% Similarity=0.379 Sum_probs=30.3
Q ss_pred cccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCC
Q 032044 16 SRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPK 58 (148)
Q Consensus 16 ~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~ 58 (148)
+.+.|+|.|.+.+.|.+|...++|..+.|..|.+.+.......
T Consensus 38 ~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~~r~~ 80 (90)
T PF11608_consen 38 SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPKNREF 80 (90)
T ss_dssp -TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--S---
T ss_pred eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCCcccc
Confidence 3478999999999999999999999999999999998655443
No 156
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=97.51 E-value=0.00015 Score=53.76 Aligned_cols=78 Identities=21% Similarity=0.240 Sum_probs=61.8
Q ss_pred CCCCcceEEEcCCCCCCCHHHHHHHHhhc-CCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCcee---CCeE
Q 032044 62 YAETDFKLFVGNLSWSVTTESLTQAFQEY-GNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVEL---EGRA 137 (148)
Q Consensus 62 ~~~~~~~l~i~nlp~~~~~~~l~~~f~~~-g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i---~g~~ 137 (148)
....++.|||.||-..+|.-+|+.++..- |.|....|-+ -+..|||.|.+.+.|......|||... +++.
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDk------IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~ 513 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDK------IKSHCYVSYSSVEEAAATREALHNVQWPPSNPKH 513 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHHHHHH------hhcceeEecccHHHHHHHHHHHhccccCCCCCce
Confidence 45567899999999999999999999954 4455552211 244699999999999999999999765 5688
Q ss_pred EEEEeccC
Q 032044 138 MRVSLAQG 145 (148)
Q Consensus 138 l~v~~~~~ 145 (148)
|.+.|...
T Consensus 514 L~adf~~~ 521 (718)
T KOG2416|consen 514 LIADFVRA 521 (718)
T ss_pred eEeeecch
Confidence 88888653
No 157
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.48 E-value=0.0008 Score=48.22 Aligned_cols=67 Identities=22% Similarity=0.268 Sum_probs=56.1
Q ss_pred CCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEc---CCCCC----------ceeEEEEEecCHHHHHHHHHHhCC
Q 032044 64 ETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYD---GESGR----------SRGYGFVCYSTKAEMETALESLNG 130 (148)
Q Consensus 64 ~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~---~~~~~----------~~~~~fv~f~~~~~a~~a~~~l~~ 130 (148)
-++++|.+.|||.+-..+.|.++|..+|.|..|+|... +.+.. .+-.|+|+|...+.|.+|...++.
T Consensus 229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~ 308 (484)
T KOG1855|consen 229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP 308 (484)
T ss_pred cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence 36789999999999999999999999999999999866 22211 134689999999999999997754
No 158
>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=97.47 E-value=0.00066 Score=39.20 Aligned_cols=49 Identities=12% Similarity=0.369 Sum_probs=39.5
Q ss_pred eEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeec----CcEEEEeecC
Q 032044 5 LTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYL----GRILRVNFSD 53 (148)
Q Consensus 5 i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~----~~~i~v~~~~ 53 (148)
+.+..|-.++.+.|||||-|.++++|......++|..+. .+...+.|+.
T Consensus 33 ~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~yAr 85 (97)
T PF04059_consen 33 FYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEISYAR 85 (97)
T ss_pred EEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEehhH
Confidence 456778888999999999999999999999999998774 3444555543
No 159
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=97.45 E-value=0.00023 Score=49.72 Aligned_cols=78 Identities=24% Similarity=0.480 Sum_probs=65.8
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcC--CeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYG--NVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g--~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
...++||+||-|++|++||.+.+..-| .+..+.+..++-+|-++|||+|-..+....++.+..|-.++|.|..-.|-.
T Consensus 79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~ 158 (498)
T KOG4849|consen 79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLS 158 (498)
T ss_pred ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeec
Confidence 345799999999999999999998776 366677777778888999999999999999999998888999886555543
No 160
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=97.39 E-value=0.0067 Score=35.95 Aligned_cols=68 Identities=12% Similarity=0.176 Sum_probs=49.8
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcC-CeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCC
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYG-NVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEG 135 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g-~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g 135 (148)
...+.+...|+..+.++|..+...+- .|..+++.++. ..++-.+++.|.+.++|+.....+||+.++.
T Consensus 13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 34455555666666677776666654 36777887763 2356678999999999999999999988764
No 161
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.38 E-value=0.00053 Score=48.58 Aligned_cols=77 Identities=18% Similarity=0.166 Sum_probs=60.0
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCC---CceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESG---RSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~---~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
...|.|.||.+.++.++++.+|...|.|..+.++.+.... ...-.|||.|.+...+..|.- |.+..+=|+.|.|.+
T Consensus 7 ~~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdraliv~p 85 (479)
T KOG4676|consen 7 LGVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALIVRP 85 (479)
T ss_pred CceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEEEEe
Confidence 3479999999999999999999999999998887543321 234589999999998887755 777766666666654
Q ss_pred c
Q 032044 143 A 143 (148)
Q Consensus 143 ~ 143 (148)
.
T Consensus 86 ~ 86 (479)
T KOG4676|consen 86 Y 86 (479)
T ss_pred c
Confidence 3
No 162
>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=97.35 E-value=0.00031 Score=45.19 Aligned_cols=79 Identities=10% Similarity=0.110 Sum_probs=49.0
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhh-cCCe---eEEEEEEc--CCCCCceeEEEEEecCHHHHHHHHHHhCCceeCC---
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQE-YGNV---VGARVLYD--GESGRSRGYGFVCYSTKAEMETALESLNGVELEG--- 135 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~-~g~v---~~~~~~~~--~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g--- 135 (148)
...+|.|++||++++++++.+.+.+ ++.- .++.-... ........-|||.|.+.++.......++|+.+-+
T Consensus 6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg 85 (176)
T PF03467_consen 6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSKG 85 (176)
T ss_dssp ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TTS
T ss_pred cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCCC
Confidence 4458999999999999999997776 5543 22221111 1112224568999999999999999999977632
Q ss_pred --eEEEEEec
Q 032044 136 --RAMRVSLA 143 (148)
Q Consensus 136 --~~l~v~~~ 143 (148)
.+..|++|
T Consensus 86 ~~~~~~VE~A 95 (176)
T PF03467_consen 86 NEYPAVVEFA 95 (176)
T ss_dssp -EEEEEEEE-
T ss_pred CCcceeEEEc
Confidence 34555554
No 163
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=97.23 E-value=0.00076 Score=51.66 Aligned_cols=73 Identities=21% Similarity=0.345 Sum_probs=51.8
Q ss_pred cccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCHHHHHHHHh
Q 032044 16 SRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQ 88 (148)
Q Consensus 16 ~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~ 88 (148)
++|+|||.+...++|.+|+.+|.+..+.++.|++.|+...-...+....-...+=|.-+|+.--..+++.+++
T Consensus 456 ~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~kse~k~~wD~~lGVt~IP~~kLt~dl~~~~e 528 (894)
T KOG0132|consen 456 PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGPKSEYKDYWDVELGVTYIPWEKLTDDLEAWCE 528 (894)
T ss_pred CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCcchhhhhhhhcccCeeEeehHhcCHHHHHhhh
Confidence 4589999999999999999999999999999999998765544421111111122333576655556676665
No 164
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.10 E-value=0.0001 Score=52.03 Aligned_cols=128 Identities=16% Similarity=0.140 Sum_probs=89.5
Q ss_pred CcceeEeeecCCC---CCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCC-CCC-----------------
Q 032044 1 MLSKLTVLYDRET---GRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPK-PKL----------------- 59 (148)
Q Consensus 1 ~i~~i~~~~~~~~---~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~-~~~----------------- 59 (148)
+|.+++++-+..+ ......|||-|.+.+.+..|.. |.++.+-++-+.|.++.... +..
T Consensus 33 kI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdraliv~p~~~~~~p~r~af~~l~~~navprll~ 111 (479)
T KOG4676|consen 33 KIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALIVRPYGDEVIPDRFAFVELADQNAVPRLLP 111 (479)
T ss_pred ccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEEEEecCCCCCccHHHHHhcCcccccccccC
Confidence 4566666653221 2455689999999999999987 77888777777776543211 000
Q ss_pred ---------CC----------------C--------CCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCC
Q 032044 60 ---------PL----------------Y--------AETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGR 106 (148)
Q Consensus 60 ---------~~----------------~--------~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~ 106 (148)
+. + ..-..++++.+|+..+...++.+.|..+|.+.+..+... .
T Consensus 112 pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~~A~kleeirRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask----~ 187 (479)
T KOG4676|consen 112 PDGVLPGDRPLTKINHSPNAILKTPELPPQAAAKKLEEIRRTREVQSLISAAILPESGESFERKGEVSYAHTASK----S 187 (479)
T ss_pred CCCccCCCCccccccCCccceecCCCCChHhhhhhhHHHHhhhhhhcchhhhcchhhhhhhhhcchhhhhhhhcc----C
Confidence 00 0 001357999999999999999999999999887766533 2
Q ss_pred ceeEEEEEecCHHHHHHHHHHhCCceeC
Q 032044 107 SRGYGFVCYSTKAEMETALESLNGVELE 134 (148)
Q Consensus 107 ~~~~~fv~f~~~~~a~~a~~~l~~~~i~ 134 (148)
...+|-++|........|+. .+|..+.
T Consensus 188 ~s~~c~~sf~~qts~~halr-~~gre~k 214 (479)
T KOG4676|consen 188 RSSSCSHSFRKQTSSKHALR-SHGRERK 214 (479)
T ss_pred CCcchhhhHhhhhhHHHHHH-hcchhhh
Confidence 34467899999888888888 6776554
No 165
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.96 E-value=0.0011 Score=47.51 Aligned_cols=73 Identities=32% Similarity=0.461 Sum_probs=57.3
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhcCCe-eEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCc-eeCCeEEEEEecc
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEYGNV-VGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGV-ELEGRAMRVSLAQ 144 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~g~v-~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~-~i~g~~l~v~~~~ 144 (148)
..+|++||.+..+..++..+|...-.. ..-.++ ..||+|+...+...|.+|++.++|. ++.|+++.+..+-
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~-------k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv 74 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV-------KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSV 74 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceee-------ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchh
Confidence 368999999999999999999865211 111122 2569999999999999999999985 7889999888765
Q ss_pred CC
Q 032044 145 GR 146 (148)
Q Consensus 145 ~~ 146 (148)
++
T Consensus 75 ~k 76 (584)
T KOG2193|consen 75 PK 76 (584)
T ss_pred hH
Confidence 44
No 166
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.94 E-value=0.00031 Score=48.74 Aligned_cols=81 Identities=20% Similarity=0.357 Sum_probs=60.3
Q ss_pred CcceEEEcCCCCCCCHHHHH---HHHhhcCCeeEEEEEEcCC--C-CCceeEEEEEecCHHHHHHHHHHhCCceeCCeEE
Q 032044 65 TDFKLFVGNLSWSVTTESLT---QAFQEYGNVVGARVLYDGE--S-GRSRGYGFVCYSTKAEMETALESLNGVELEGRAM 138 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~---~~f~~~g~v~~~~~~~~~~--~-~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l 138 (148)
...-+|+-+|+.....+.+. +.|.+||.|..+.+..++. . ......++|+|...++|..|+...+|...+|+.+
T Consensus 76 qknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~l 155 (327)
T KOG2068|consen 76 QKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRAL 155 (327)
T ss_pred hhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhh
Confidence 33457888888777665554 5778889998887776542 1 1123347999999999999999999999999887
Q ss_pred EEEeccC
Q 032044 139 RVSLAQG 145 (148)
Q Consensus 139 ~v~~~~~ 145 (148)
++.+...
T Consensus 156 ka~~gtt 162 (327)
T KOG2068|consen 156 KASLGTT 162 (327)
T ss_pred HHhhCCC
Confidence 7766543
No 167
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=96.86 E-value=0.0029 Score=47.22 Aligned_cols=54 Identities=28% Similarity=0.424 Sum_probs=47.0
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDK 54 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~ 54 (148)
||.-.+++.+.-+-..+-|+||.+.+.++|.++|..|+.+.++|+.|.|+.+..
T Consensus 431 KVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKN 484 (940)
T KOG4661|consen 431 KVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKN 484 (940)
T ss_pred ceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeeccc
Confidence 456678888877766777999999999999999999999999999999987654
No 168
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=96.84 E-value=0.013 Score=42.52 Aligned_cols=68 Identities=18% Similarity=0.265 Sum_probs=58.2
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcC-CeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCC
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYG-NVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEG 135 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g-~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g 135 (148)
+..|.|-.+|...+-.||..|+..+- .|..+++++++ -.++-..+|.|.+..+|......+||..++.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~--~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDG--MPNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecC--CCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 77899999999999999999999765 48889998853 2345568999999999999999999988763
No 169
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.82 E-value=0.0031 Score=44.11 Aligned_cols=47 Identities=23% Similarity=0.387 Sum_probs=37.2
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHH-hCCCeecCcEEEEeecCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIEN-LDGREYLGRILRVNFSDK 54 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~-l~~~~~~~~~i~v~~~~~ 54 (148)
|++|.++.. +++|||+|.+..+|+.|.+. ++...|.|+.|.|.|...
T Consensus 255 irsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 255 IRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred eeeEEeecc------cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 445555544 36999999999999998875 455678999999999877
No 170
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=96.70 E-value=0.0028 Score=47.10 Aligned_cols=48 Identities=21% Similarity=0.479 Sum_probs=37.8
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeec-CcEEEEe
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYL-GRILRVN 50 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~-~~~i~v~ 50 (148)
|..+.+..+.. |..+||.|++|.+..+|+.|+..|+|..+. +.+..+.
T Consensus 91 ~vn~~~P~~e~-ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~ 139 (698)
T KOG2314|consen 91 IVNMYYPIDEE-GGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVR 139 (698)
T ss_pred ccceeeccCcc-CCeeeEEEEEecChhhHHHHHHhcccceecccceEEee
Confidence 44555666754 459999999999999999999999999885 4555553
No 171
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=96.52 E-value=0.0045 Score=35.03 Aligned_cols=68 Identities=12% Similarity=0.147 Sum_probs=46.7
Q ss_pred EEEEeCCHHHHHHHHHHhCCC--eecCcEEEEeecCC--CCCC--CCCCCCCcceEEEcCCCCCCCHHHHHHHHh
Q 032044 20 AFVTMSTVEDCNAVIENLDGR--EYLGRILRVNFSDK--PKPK--LPLYAETDFKLFVGNLSWSVTTESLTQAFQ 88 (148)
Q Consensus 20 afv~f~~~~~a~~a~~~l~~~--~~~~~~i~v~~~~~--~~~~--~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~ 88 (148)
|.|.|.++.-|+..+.. ... .+.++.+.+....- .... .-.....+++|.+.|+|...++++|++.++
T Consensus 1 AlITF~e~~VA~~i~~~-~~~~v~l~~~~~~V~v~P~~~~~~~k~qv~~~vs~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKK-KKHPVPLEDCCVRVKVSPVTLGHLQKFQVFSGVSKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred CEEEeCcHHHHHHHHhC-CEEEEEECCEEEEEEEEeEecCCceEEEEEEcccCCEEEEeCCCCCCChhhheeeEE
Confidence 68999999999998873 333 45666665653322 1111 112344677999999999999999988765
No 172
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=96.52 E-value=0.011 Score=39.88 Aligned_cols=55 Identities=29% Similarity=0.540 Sum_probs=46.6
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKP 57 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~ 57 (148)
++.+-+-+++ .|++.|.|=|.|...++|..|++.+++..+.|.++.+.....+..
T Consensus 110 ~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~~~ 164 (243)
T KOG0533|consen 110 LKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSPSQ 164 (243)
T ss_pred ceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCccc
Confidence 3455667775 899999999999999999999999999999999999987655443
No 173
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=96.31 E-value=0.026 Score=34.79 Aligned_cols=71 Identities=13% Similarity=0.172 Sum_probs=50.3
Q ss_pred CcceEEEcC----CCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEE
Q 032044 65 TDFKLFVGN----LSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRV 140 (148)
Q Consensus 65 ~~~~l~i~n----lp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v 140 (148)
+-.+|.++= +.+.-+...+...++.||+|.++... .+..|.|.|.+..+|-.|+..++. ...|..+.-
T Consensus 85 PMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-------GrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qC 156 (166)
T PF15023_consen 85 PMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-------GRQSAVVVFKDITSACKAVSAFQS-RAPGTMFQC 156 (166)
T ss_pred CceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-------CCceEEEEehhhHHHHHHHHhhcC-CCCCceEEe
Confidence 445677754 44444445566777899999988664 244699999999999999998877 445555555
Q ss_pred Eec
Q 032044 141 SLA 143 (148)
Q Consensus 141 ~~~ 143 (148)
.|-
T Consensus 157 sWq 159 (166)
T PF15023_consen 157 SWQ 159 (166)
T ss_pred ecc
Confidence 553
No 174
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=96.22 E-value=0.0024 Score=42.82 Aligned_cols=40 Identities=30% Similarity=0.478 Sum_probs=36.4
Q ss_pred CcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCC
Q 032044 15 RSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDK 54 (148)
Q Consensus 15 ~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~ 54 (148)
.-.|=+||.|..+++|+.|+..||+..+.|++|+.+++..
T Consensus 108 hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pv 147 (260)
T KOG2202|consen 108 HLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPV 147 (260)
T ss_pred hhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCc
Confidence 5667799999999999999999999999999999998754
No 175
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=96.20 E-value=0.0034 Score=44.06 Aligned_cols=53 Identities=26% Similarity=0.529 Sum_probs=47.5
Q ss_pred eeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCC
Q 032044 4 KLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPK 56 (148)
Q Consensus 4 ~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~ 56 (148)
.|.+-+++.|++.+|-|.|.|.+...|+.|+.-+++..+.+.+|.|..+....
T Consensus 103 ki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~~r~ 155 (351)
T KOG1995|consen 103 KIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAERRT 155 (351)
T ss_pred chhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhhhcc
Confidence 46778899999999999999999999999999999999999999998776543
No 176
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=95.91 E-value=0.079 Score=36.76 Aligned_cols=69 Identities=19% Similarity=0.255 Sum_probs=51.3
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCe-EEEEEeccC
Q 032044 69 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGR-AMRVSLAQG 145 (148)
Q Consensus 69 l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~-~l~v~~~~~ 145 (148)
|.|-+.|+.- ..-|...|.+||.|.+.... .+-.+-+|.|.+.-+|++|+. -+|..|+|. .|-|+.|..
T Consensus 200 VTVfGFppg~-~s~vL~~F~~cG~Vvkhv~~------~ngNwMhirYssr~~A~KALs-kng~ii~g~vmiGVkpCtD 269 (350)
T KOG4285|consen 200 VTVFGFPPGQ-VSIVLNLFSRCGEVVKHVTP------SNGNWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKPCTD 269 (350)
T ss_pred EEEeccCccc-hhHHHHHHHhhCeeeeeecC------CCCceEEEEecchhHHHHhhh-hcCeeeccceEEeeeecCC
Confidence 5566777763 45778899999998776443 123377899999999999999 899999875 456666543
No 177
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=95.88 E-value=0.015 Score=44.59 Aligned_cols=52 Identities=17% Similarity=0.417 Sum_probs=43.8
Q ss_pred cceeEeeecCCC---CCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecC
Q 032044 2 LSKLTVLYDRET---GRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSD 53 (148)
Q Consensus 2 i~~i~~~~~~~~---~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~ 53 (148)
|.+++|+.-+.. .+.+.+|||.|-+..+|++|+..|+|..+.+..+++.|..
T Consensus 201 lasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWgk 255 (877)
T KOG0151|consen 201 LASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWGK 255 (877)
T ss_pred ccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeecccc
Confidence 456777765432 3667799999999999999999999999999999999984
No 178
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=95.82 E-value=0.0062 Score=44.39 Aligned_cols=73 Identities=21% Similarity=0.319 Sum_probs=58.4
Q ss_pred cceEEEcCCCCCC-CHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 66 DFKLFVGNLSWSV-TTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 66 ~~~l~i~nlp~~~-~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
.+.+-+.-.|... +..+|..+|.+||.|..|.+-... -.|.|+|.+.-+|-+|.. .++..|+|+.|+|.|-+
T Consensus 372 hs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whn 444 (526)
T KOG2135|consen 372 HSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHN 444 (526)
T ss_pred cchhhhhccCCCCchHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchhc-cccceecCceeEEEEec
Confidence 3455566666664 447899999999999988775442 258999999999988888 89999999999999976
Q ss_pred C
Q 032044 145 G 145 (148)
Q Consensus 145 ~ 145 (148)
+
T Consensus 445 p 445 (526)
T KOG2135|consen 445 P 445 (526)
T ss_pred C
Confidence 5
No 179
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=95.81 E-value=0.046 Score=35.53 Aligned_cols=60 Identities=22% Similarity=0.285 Sum_probs=43.3
Q ss_pred CHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhC--CceeCCeEEEEEecc
Q 032044 79 TTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLN--GVELEGRAMRVSLAQ 144 (148)
Q Consensus 79 ~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~--~~~i~g~~l~v~~~~ 144 (148)
..+.|+++|..++.+....+.+. -+-..|.|.+.+.|..|...|+ +..+.|..+++-++.
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~ 69 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQ 69 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE---
T ss_pred hHHHHHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcc
Confidence 45789999999998766655533 2237899999999999999999 999999999998874
No 180
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=95.58 E-value=0.0027 Score=49.52 Aligned_cols=78 Identities=23% Similarity=0.292 Sum_probs=63.0
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
...+|+++||+..+++.+|+..|..+|.+..+.|-.... +.-..++||.|.+...+..|...+.+..|....+++.+.
T Consensus 371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~-~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG 448 (975)
T KOG0112|consen 371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHI-KTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLG 448 (975)
T ss_pred hhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCC-CcccchhhhhhhccccCcccchhhcCCccccCccccccc
Confidence 357899999999999999999999999999998865422 222347999999999999999999988776555555443
No 181
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=95.55 E-value=0.014 Score=41.15 Aligned_cols=51 Identities=18% Similarity=0.339 Sum_probs=44.1
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeec
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFS 52 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~ 52 (148)
+.++++.-++.+|+++|||++...+..++.+.++-|....++|+.-.|..+
T Consensus 109 ~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~ 159 (498)
T KOG4849|consen 109 FADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSY 159 (498)
T ss_pred HhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeecc
Confidence 346788888889999999999999999999999999999999887666543
No 182
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=95.52 E-value=0.015 Score=43.22 Aligned_cols=125 Identities=18% Similarity=0.169 Sum_probs=74.7
Q ss_pred CCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCC-----------------CCCCCCCCcceEEEcCCC
Q 032044 13 TGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKP-----------------KLPLYAETDFKLFVGNLS 75 (148)
Q Consensus 13 ~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~-----------------~~~~~~~~~~~l~i~nlp 75 (148)
|-...|..||+|.+..+|+.|+..|++..|.|+.+.......... ......+....++.- |+
T Consensus 108 t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~p~a~s~pgg~~~~~~~g~-l~ 186 (549)
T KOG4660|consen 108 TPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIKRPGGARRAMGLQSGTSFLNHFGSPLANSPPGGWPRGQLFGM-LS 186 (549)
T ss_pred ccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhcCCCcccccchhcccchhhhhccchhhcCCCCCCcCCcceee-ec
Confidence 445678999999999999999999999999999888322211110 011111122233333 88
Q ss_pred CCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccC
Q 032044 76 WSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQG 145 (148)
Q Consensus 76 ~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~ 145 (148)
+..+..-++..+.-+|.+.. +. ++.-...-+++|.+..++..+.... |..+.|......++.+
T Consensus 187 P~~s~~~~~~~~~~~~~~~~-~~-----~~~~~hq~~~~~~~~~s~a~~~~~~-G~~~s~~~~v~t~S~~ 249 (549)
T KOG4660|consen 187 PTRSSILLEHISSVDGSSPG-RE-----TPLLNHQRFVEFADNRSYAFSEPRG-GFLISNSSGVITFSGP 249 (549)
T ss_pred cchhhhhhhcchhccCcccc-cc-----ccchhhhhhhhhccccchhhcccCC-ceecCCCCceEEecCC
Confidence 88777556666666665543 21 1211224567777777774444422 6666666666555543
No 183
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=94.96 E-value=0.23 Score=27.14 Aligned_cols=59 Identities=24% Similarity=0.357 Sum_probs=33.3
Q ss_pred CCCCHHHHHHHHhhcCCe-----eEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEec
Q 032044 76 WSVTTESLTQAFQEYGNV-----VGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLA 143 (148)
Q Consensus 76 ~~~~~~~l~~~f~~~g~v-----~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~ 143 (148)
..++..+|..++...+.+ -.+.+.. .++||+.... .|+.++..|++..+.|++++|+.+
T Consensus 11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~--------~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 11 DGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------NFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp GT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------S-EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred cCCCHHHHHHHHHhccCCCHHhEEEEEEee--------eEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence 346677888888766543 3444532 2688887654 788999999999999999999875
No 184
>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=94.79 E-value=0.14 Score=27.35 Aligned_cols=30 Identities=7% Similarity=0.295 Sum_probs=27.0
Q ss_pred EEEEeCCHHHHHHHHHHhCCCeecCcEEEE
Q 032044 20 AFVTMSTVEDCNAVIENLDGREYLGRILRV 49 (148)
Q Consensus 20 afv~f~~~~~a~~a~~~l~~~~~~~~~i~v 49 (148)
-||.|++..+|+++....++..+.+..+.+
T Consensus 36 fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 36 FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 699999999999999999999988877765
No 185
>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=94.69 E-value=0.32 Score=26.01 Aligned_cols=55 Identities=18% Similarity=0.312 Sum_probs=41.9
Q ss_pred CCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEE
Q 032044 77 SVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRV 140 (148)
Q Consensus 77 ~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v 140 (148)
.++-++++..+..|+- .. +..+ . .| =||.|.+.++|++|....+|..+.+..+.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~--I~~d-~----tG-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DR--IRDD-R----TG-FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-ce--EEec-C----CE-EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 3567899999999963 23 3333 2 12 489999999999999999999988877654
No 186
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=94.67 E-value=0.033 Score=42.36 Aligned_cols=73 Identities=18% Similarity=0.214 Sum_probs=61.0
Q ss_pred CCCCCcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEE
Q 032044 61 LYAETDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRV 140 (148)
Q Consensus 61 ~~~~~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v 140 (148)
.+..+..+++++|+.+.+..+-++.++..+|.|.+.... .|||..|........|+..++...++|..+.+
T Consensus 35 ~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~---------~fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~ 105 (668)
T KOG2253|consen 35 QPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD---------KFGFCEFLKHIGDLRASRLLTELNIDDQKLIE 105 (668)
T ss_pred cCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh---------hhcccchhhHHHHHHHHHHhcccCCCcchhhc
Confidence 344566799999999999999999999999987654332 17999999999999999999999999887766
Q ss_pred Ee
Q 032044 141 SL 142 (148)
Q Consensus 141 ~~ 142 (148)
..
T Consensus 106 ~~ 107 (668)
T KOG2253|consen 106 NV 107 (668)
T ss_pred cc
Confidence 54
No 187
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=94.47 E-value=0.1 Score=32.43 Aligned_cols=34 Identities=26% Similarity=0.426 Sum_probs=30.0
Q ss_pred EEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecC
Q 032044 19 FAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSD 53 (148)
Q Consensus 19 ~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~ 53 (148)
.-+|.|.+.++|.+|+. ++|..+.|+.+.|..-.
T Consensus 72 ~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKt 105 (146)
T PF08952_consen 72 TMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKT 105 (146)
T ss_dssp CEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE--
T ss_pred eEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCC
Confidence 47999999999999998 89999999999998654
No 188
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=94.40 E-value=0.079 Score=38.80 Aligned_cols=50 Identities=22% Similarity=0.270 Sum_probs=38.4
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeec
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFS 52 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~ 52 (148)
|+...|......++...||||+|.+.++++.|+. .+...++++++.|+--
T Consensus 315 Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~-Asp~~ig~~kl~Veek 364 (419)
T KOG0116|consen 315 IKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIE-ASPLEIGGRKLNVEEK 364 (419)
T ss_pred ccccceEEeccCCCcCceEEEEEeecchhhhhhh-cCccccCCeeEEEEec
Confidence 4455555543344555999999999999999998 4688899999999843
No 189
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=94.30 E-value=0.039 Score=43.29 Aligned_cols=71 Identities=31% Similarity=0.412 Sum_probs=56.7
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCcee--CCeEEEEEeccC
Q 032044 69 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVEL--EGRAMRVSLAQG 145 (148)
Q Consensus 69 l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i--~g~~l~v~~~~~ 145 (148)
..+.|.+-..+-.-|..+|.+||.+.+.+..++-. .|.|+|.+.+.|..|+..++|.++ .|.+.+|.+++.
T Consensus 301 ~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~N------~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~ 373 (1007)
T KOG4574|consen 301 QSLENNAVNLTSSSLATLCSDYGSVASAWTLRDLN------MALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKT 373 (1007)
T ss_pred hhhhcccccchHHHHHHHHHhhcchhhheeccccc------chhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccc
Confidence 44445555666677889999999999988776632 689999999999999999999875 577888888753
No 190
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=94.14 E-value=0.21 Score=29.67 Aligned_cols=40 Identities=13% Similarity=0.395 Sum_probs=33.8
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeec
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYL 43 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~ 43 (148)
|+.++|+++.. .++-.+.+.|.+.++|+.....+||..+.
T Consensus 41 i~~~riird~~--pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 41 IEHIRIIRDGT--PNRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred EEEEEEeeCCC--CceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 56788888743 36777899999999999999999998874
No 191
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=93.99 E-value=0.17 Score=35.75 Aligned_cols=33 Identities=33% Similarity=0.603 Sum_probs=31.1
Q ss_pred EEEeCCHHHHHHHHHHhCCCeecCcEEEEeecC
Q 032044 21 FVTMSTVEDCNAVIENLDGREYLGRILRVNFSD 53 (148)
Q Consensus 21 fv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~ 53 (148)
||.|.+.++|.+|+...+|..++|+-|+..|..
T Consensus 169 YITy~~kedAarcIa~vDgs~~DGr~lkatYGT 201 (480)
T COG5175 169 YITYSTKEDAARCIAEVDGSLLDGRVLKATYGT 201 (480)
T ss_pred EEEecchHHHHHHHHHhccccccCceEeeecCc
Confidence 999999999999999999999999999998754
No 192
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=93.41 E-value=0.13 Score=35.67 Aligned_cols=51 Identities=20% Similarity=0.353 Sum_probs=37.8
Q ss_pred ceeEeeecCCCCCccc-EEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecC
Q 032044 3 SKLTVLYDRETGRSRG-FAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSD 53 (148)
Q Consensus 3 ~~i~~~~~~~~~~~~g-~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~ 53 (148)
..|-|.-.+..-.... --||+|...++|.+|+-.|||..|+|+.+...|..
T Consensus 314 ~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 314 GNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred eeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 3344444433222222 46999999999999999999999999999887764
No 193
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=93.26 E-value=0.035 Score=34.69 Aligned_cols=83 Identities=12% Similarity=0.083 Sum_probs=59.5
Q ss_pred cccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCC-CCCCCCCCCcceEEEcCCCCC-CCHHHHHHHHhhcCCe
Q 032044 16 SRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPK-PKLPLYAETDFKLFVGNLSWS-VTTESLTQAFQEYGNV 93 (148)
Q Consensus 16 ~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~-~~~~~~~~~~~~l~i~nlp~~-~~~~~l~~~f~~~g~v 93 (148)
..++..++|.+.+++..++. .....+.+..+.+....+.. .........+.=|.|.|||.. .+++-+..+.+.+|.+
T Consensus 54 ~~~~fl~~F~~~~d~~~vl~-~~p~~~~~~~~~l~~W~~~~~~~~~~~~~~~vWVri~glP~~~~~~~~~~~i~~~iG~~ 132 (153)
T PF14111_consen 54 GDNLFLFQFESEEDRQRVLK-GGPWNFNGHFLILQRWSPDFNPSEVKFEHIPVWVRIYGLPLHLWSEEILKAIGSKIGEP 132 (153)
T ss_pred CCCeEEEEEEeccceeEEEe-cccccccccchhhhhhcccccccccceeccchhhhhccCCHHHhhhHHHHHHHHhcCCe
Confidence 45789999999999999997 45566777777776554322 222222223445888999998 7778899999999998
Q ss_pred eEEEEE
Q 032044 94 VGARVL 99 (148)
Q Consensus 94 ~~~~~~ 99 (148)
..+...
T Consensus 133 i~vD~~ 138 (153)
T PF14111_consen 133 IEVDEN 138 (153)
T ss_pred EEEEcC
Confidence 877543
No 194
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=91.04 E-value=1.5 Score=32.45 Aligned_cols=41 Identities=15% Similarity=0.408 Sum_probs=34.7
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecC
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNAVIENLDGREYLG 44 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~ 44 (148)
|.+|+++||.. -++-...|.|.+..+|...-..+||..|..
T Consensus 102 I~~irivRd~~--pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 102 ISDIRIVRDGM--PNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred hheeEEeecCC--CceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 78899999643 356678999999999999999999998753
No 195
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=90.89 E-value=0.17 Score=35.25 Aligned_cols=77 Identities=26% Similarity=0.206 Sum_probs=59.8
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEE
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVS 141 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~ 141 (148)
...+.+++++...+.+.+...++..+|......+.........++++++.|...+.+..|+.....+...++.+...
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~d 163 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKD 163 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCc
Confidence 46789999999999999899999999977666666555667788999999999999999998443345555444433
No 196
>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=89.45 E-value=0.63 Score=25.36 Aligned_cols=34 Identities=29% Similarity=0.552 Sum_probs=19.9
Q ss_pred cEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeec
Q 032044 18 GFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFS 52 (148)
Q Consensus 18 g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~ 52 (148)
.|+||+-... .|..++..+++..+.|+++.++.+
T Consensus 41 ~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 41 NFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp S-EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred eEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence 3688887655 788899999999999999998753
No 197
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=88.54 E-value=2.1 Score=29.87 Aligned_cols=46 Identities=13% Similarity=0.218 Sum_probs=35.2
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhcCCe-eEEEEEEcCCCCCceeEEEEEecCH
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEYGNV-VGARVLYDGESGRSRGYGFVCYSTK 118 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~g~v-~~~~~~~~~~~~~~~~~~fv~f~~~ 118 (148)
.-|++.|||.++.-.||+..+.+.+.+ .++.+ . .+.+-||+.|.+.
T Consensus 331 ~di~~~nl~rd~rv~dlk~~lr~~~~~pm~isw--k----g~~~k~flh~~~~ 377 (396)
T KOG4410|consen 331 TDIKLTNLSRDIRVKDLKSELRKRECTPMSISW--K----GHFGKCFLHFGNR 377 (396)
T ss_pred cceeeccCccccchHHHHHHHHhcCCCceeEee--e----cCCcceeEecCCc
Confidence 459999999999999999999987642 33333 2 2466799999664
No 198
>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=87.36 E-value=0.9 Score=26.48 Aligned_cols=37 Identities=11% Similarity=0.246 Sum_probs=29.1
Q ss_pred CcccEEEEEeCCHHHHHHHHHHhCCCeecCcE-EEEeec
Q 032044 15 RSRGFAFVTMSTVEDCNAVIENLDGREYLGRI-LRVNFS 52 (148)
Q Consensus 15 ~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~-i~v~~~ 52 (148)
.....--|.|.++.+|++||. .||..+.|.- +-|.+.
T Consensus 52 ~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~mvGV~~~ 89 (100)
T PF05172_consen 52 SGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLMVGVKPC 89 (100)
T ss_dssp CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEEEEEEE-
T ss_pred CCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEEEEEEEc
Confidence 345678999999999999998 7999998754 446655
No 199
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=85.47 E-value=3.2 Score=22.30 Aligned_cols=64 Identities=17% Similarity=0.243 Sum_probs=44.1
Q ss_pred HHHHHHHhhcCC-eeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCCC
Q 032044 81 ESLTQAFQEYGN-VVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGRR 147 (148)
Q Consensus 81 ~~l~~~f~~~g~-v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~~ 147 (148)
++|.+-|...|- +..+.-+..+.+..+...-||++....+..++ ++=..+++..|.|+..+.++
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~i---~~Ik~l~~~~V~vE~~~k~~ 66 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKEI---YKIKTLCGQRVKVERPRKRR 66 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccce---eehHhhCCeEEEEecCCCCC
Confidence 578888888774 66666666665666777788888766553332 44456788889988876654
No 200
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=85.04 E-value=2.7 Score=22.65 Aligned_cols=64 Identities=17% Similarity=0.185 Sum_probs=43.1
Q ss_pred HHHHHHHhhcCC-eeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEeccCCC
Q 032044 81 ESLTQAFQEYGN-VVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQGRR 147 (148)
Q Consensus 81 ~~l~~~f~~~g~-v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~~~~ 147 (148)
.+|.+.|...|- +..+.-+..++++.|...-+|+.....+-.. .++=..++|.++.|+....++
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~k~~ 66 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPHKRK 66 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCcccC
Confidence 478888998884 6677767776766666677787765432222 344456788888888766554
No 201
>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT. SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.
Probab=82.37 E-value=8.4 Score=23.11 Aligned_cols=56 Identities=16% Similarity=0.343 Sum_probs=31.3
Q ss_pred eEEEcCCCCC---------CCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEec-CHHHHHHHHH
Q 032044 68 KLFVGNLSWS---------VTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYS-TKAEMETALE 126 (148)
Q Consensus 68 ~l~i~nlp~~---------~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~-~~~~a~~a~~ 126 (148)
++.|.|+|.. .+.+.|.+.|..|.++ .+....++. .+.|++.|+|. +-.--..|+.
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~-kv~~l~~~~--gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPL-KVKPLYGKQ--GHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---S-EEEEEEETT--EEEEEEEEE--SSHHHHHHHHH
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCc-eeEECcCCC--CCcEEEEEEECCChHHHHHHHH
Confidence 5666677543 3557899999999775 455555543 57899999997 5555555655
No 202
>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=81.25 E-value=3.8 Score=26.74 Aligned_cols=37 Identities=24% Similarity=0.304 Sum_probs=29.1
Q ss_pred ccEEEEEeCCHHHHHHHHHHhC--CCeecCcEEEEeecC
Q 032044 17 RGFAFVTMSTVEDCNAVIENLD--GREYLGRILRVNFSD 53 (148)
Q Consensus 17 ~g~afv~f~~~~~a~~a~~~l~--~~~~~~~~i~v~~~~ 53 (148)
-+-..|.|.+.++|..|...++ +..+.|..+.+.++.
T Consensus 31 FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~ 69 (184)
T PF04847_consen 31 FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQ 69 (184)
T ss_dssp TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE---
T ss_pred CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcc
Confidence 3568999999999999999999 899999999998774
No 203
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.12 E-value=14 Score=28.61 Aligned_cols=80 Identities=20% Similarity=0.406 Sum_probs=57.8
Q ss_pred CCCcceEEEcCCCCC-CCHHHHHHHHhhc----CCeeEEEEEEcC----------CCCC---------------------
Q 032044 63 AETDFKLFVGNLSWS-VTTESLTQAFQEY----GNVVGARVLYDG----------ESGR--------------------- 106 (148)
Q Consensus 63 ~~~~~~l~i~nlp~~-~~~~~l~~~f~~~----g~v~~~~~~~~~----------~~~~--------------------- 106 (148)
....++|-|-|+.|+ +...+|.-+|..| |.|.+|.|.... -+|+
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 456778999999997 6778888888755 467777764321 0111
Q ss_pred ----------------ceeEEEEEecCHHHHHHHHHHhCCceeCC--eEEEEEe
Q 032044 107 ----------------SRGYGFVCYSTKAEMETALESLNGVELEG--RAMRVSL 142 (148)
Q Consensus 107 ----------------~~~~~fv~f~~~~~a~~a~~~l~~~~i~g--~~l~v~~ 142 (148)
..=||.|+|.+...|......++|.++.. ..+-++|
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRF 304 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRF 304 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeee
Confidence 11278899999999999999999998864 4555554
No 204
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=80.63 E-value=6 Score=28.03 Aligned_cols=57 Identities=23% Similarity=0.288 Sum_probs=37.3
Q ss_pred EEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCCCCCCCCCCCcceEEEcCCCCCCCHHHHHHHHhh
Q 032044 20 AFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPKPKLPLYAETDFKLFVGNLSWSVTTESLTQAFQE 89 (148)
Q Consensus 20 afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~l~i~nlp~~~~~~~l~~~f~~ 89 (148)
|||.|++..+|+.|.+.+.... ...+.++.+.++. -|.=.||..+..+..++..+..
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APeP~-----------DI~W~NL~~~~~~r~~R~~~~~ 57 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPEPD-----------DIIWENLSISSKQRFLRRIIVN 57 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCCcc-----------cccccccCCChHHHHHHHHHHH
Confidence 7999999999999998443332 2334555544332 3556778777777666655543
No 205
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=79.14 E-value=3.6 Score=31.71 Aligned_cols=36 Identities=25% Similarity=0.414 Sum_probs=30.5
Q ss_pred ccEEEEEeCCHHHHHHHHHHhCCCee---cCcEEEEeec
Q 032044 17 RGFAFVTMSTVEDCNAVIENLDGREY---LGRILRVNFS 52 (148)
Q Consensus 17 ~g~afv~f~~~~~a~~a~~~l~~~~~---~~~~i~v~~~ 52 (148)
+..|||.|.+.++|......|+|..+ +.+.|.+.|.
T Consensus 481 KShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~ 519 (718)
T KOG2416|consen 481 KSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFV 519 (718)
T ss_pred hcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeec
Confidence 45799999999999999999999987 4566777764
No 206
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=76.99 E-value=4.4 Score=29.40 Aligned_cols=69 Identities=16% Similarity=0.220 Sum_probs=48.1
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCC-eeEEEEEEcCCC--CCceeEEEEEecCHHHHHHHHHHhCCcee
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGN-VVGARVLYDGES--GRSRGYGFVCYSTKAEMETALESLNGVEL 133 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~-v~~~~~~~~~~~--~~~~~~~fv~f~~~~~a~~a~~~l~~~~i 133 (148)
..+.+.+..||+..++.++.+...++-. +....+...... ....+.+||.|..+.+.......++|+.+
T Consensus 6 ~~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~if 77 (376)
T KOG1295|consen 6 AKVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIF 77 (376)
T ss_pred cceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEE
Confidence 3457889999999999999998888642 222222211111 11235679999999999999999999765
No 207
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=76.74 E-value=1.5 Score=31.10 Aligned_cols=52 Identities=23% Similarity=0.389 Sum_probs=37.4
Q ss_pred cceeEeeecCC----CCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCC
Q 032044 2 LSKLTVLYDRE----TGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDK 54 (148)
Q Consensus 2 i~~i~~~~~~~----~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~ 54 (148)
|.+|..-.++. .+-+- -++|.|...++|..|+..-+|..+.|+.++..+...
T Consensus 107 i~ki~~~~~~S~~s~~~~~~-s~yITy~~~eda~rci~~v~g~~~dg~~lka~~gtt 162 (327)
T KOG2068|consen 107 INKIVKNKDPSSSSSSGGTC-SVYITYEEEEDADRCIDDVDGFVDDGRALKASLGTT 162 (327)
T ss_pred ceEEeecCCcccccCCCCCC-cccccccchHhhhhHHHHhhhHHhhhhhhHHhhCCC
Confidence 44555555542 12222 379999999999999999999999998877765543
No 208
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.10 E-value=12 Score=27.56 Aligned_cols=56 Identities=21% Similarity=0.258 Sum_probs=43.8
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHH
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 127 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~ 127 (148)
.+.|-|-++|...-.+||...|..|+. ..+.|.+-. ...+|..|.+...|..|+..
T Consensus 391 pHVlEIydfp~efkteDll~~f~~yq~-kgfdIkWvD-----dthalaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 391 PHVLEIYDFPDEFKTEDLLKAFETYQN-KGFDIKWVD-----DTHALAVFSSVNRAAEALTL 446 (528)
T ss_pred cceeEeccCchhhccHHHHHHHHHhhc-CCceeEEee-----cceeEEeecchHHHHHHhhc
Confidence 467899999999999999999999975 233333332 22599999999999999983
No 209
>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=73.93 E-value=4.3 Score=23.86 Aligned_cols=23 Identities=22% Similarity=0.302 Sum_probs=15.9
Q ss_pred cEEEEEeCCHHHHHHHHHHhCCC
Q 032044 18 GFAFVTMSTVEDCNAVIENLDGR 40 (148)
Q Consensus 18 g~afv~f~~~~~a~~a~~~l~~~ 40 (148)
.-|+|-|.++++|+.|+..+...
T Consensus 38 ~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 38 TEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp SEEEEEESS---HHHHHHHHHHT
T ss_pred CEEEEEECCcchHHHHHHHHHhc
Confidence 35999999999999999866443
No 210
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=71.52 E-value=16 Score=25.72 Aligned_cols=79 Identities=11% Similarity=0.232 Sum_probs=54.4
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcC-------CCCCceeEEEEEecCHHHHHHHH----HHhCC--c
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDG-------ESGRSRGYGFVCYSTKAEMETAL----ESLNG--V 131 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~-------~~~~~~~~~fv~f~~~~~a~~a~----~~l~~--~ 131 (148)
..+.|.++|+..+++-..+..-|-+||+|+++.++.+. ...+......+-|-+.+.|.... +.|.. .
T Consensus 14 rTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~ 93 (309)
T PF10567_consen 14 RTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKT 93 (309)
T ss_pred eeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHH
Confidence 44568899999999888888999999999999988664 11223456788888888776543 33332 2
Q ss_pred eeCCeEEEEEec
Q 032044 132 ELEGRAMRVSLA 143 (148)
Q Consensus 132 ~i~g~~l~v~~~ 143 (148)
.+....|.+.+.
T Consensus 94 ~L~S~~L~lsFV 105 (309)
T PF10567_consen 94 KLKSESLTLSFV 105 (309)
T ss_pred hcCCcceeEEEE
Confidence 345555555543
No 211
>PF03439 Spt5-NGN: Early transcription elongation factor of RNA pol II, NGN section; InterPro: IPR005100 Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4 []. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit []. ; PDB: 3H7H_B 3QQC_D 3P8B_B 2EXU_A.
Probab=69.99 E-value=7.6 Score=21.72 Aligned_cols=26 Identities=15% Similarity=0.348 Sum_probs=22.1
Q ss_pred cccEEEEEeCCHHHHHHHHHHhCCCe
Q 032044 16 SRGFAFVTMSTVEDCNAVIENLDGRE 41 (148)
Q Consensus 16 ~~g~afv~f~~~~~a~~a~~~l~~~~ 41 (148)
.+||-|||=.+++++..|++.+.+..
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred CceEEEEEeCCHHHHHHHHhccccee
Confidence 78999999999999999998765544
No 212
>PRK13259 regulatory protein SpoVG; Reviewed
Probab=69.37 E-value=8.8 Score=22.13 Aligned_cols=26 Identities=12% Similarity=0.229 Sum_probs=21.0
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMST 26 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~ 26 (148)
+|++|++..=...|+-+|||-|.|.+
T Consensus 2 ~ITdVri~~~~~~g~lka~asit~dd 27 (94)
T PRK13259 2 EVTDVRLRKVNTEGRMKAIVSITFDN 27 (94)
T ss_pred eEEEEEEEEeCCCCcEEEEEEEEECC
Confidence 47788887755568999999999876
No 213
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=68.55 E-value=12 Score=24.33 Aligned_cols=36 Identities=17% Similarity=0.242 Sum_probs=29.7
Q ss_pred EEEEEecCHHHHHHHHHHhCCceeCCe-EEEEEeccC
Q 032044 110 YGFVCYSTKAEMETALESLNGVELEGR-AMRVSLAQG 145 (148)
Q Consensus 110 ~~fv~f~~~~~a~~a~~~l~~~~i~g~-~l~v~~~~~ 145 (148)
..-|.|.+++.|..|...+++..+.|. .+..-++.+
T Consensus 53 rvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ~ 89 (193)
T KOG4019|consen 53 RVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQP 89 (193)
T ss_pred eeEEeccChhHHHHHHHHhhhcccCCCceEEEEEccC
Confidence 345889999999999999999999887 777666654
No 214
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=67.85 E-value=0.57 Score=35.43 Aligned_cols=70 Identities=13% Similarity=0.162 Sum_probs=49.1
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeC
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELE 134 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~ 134 (148)
..+.++++|++++++..+|...|..+..+..+.+-............+|+|...-....|+-.||+..+.
T Consensus 230 ke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~ 299 (648)
T KOG2295|consen 230 KECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLR 299 (648)
T ss_pred HHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccc
Confidence 3467999999999999999999999876666544322111122345678998766677777777776554
No 215
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=66.82 E-value=17 Score=19.16 Aligned_cols=18 Identities=22% Similarity=0.370 Sum_probs=14.7
Q ss_pred HHHHHHHhhcCCeeEEEE
Q 032044 81 ESLTQAFQEYGNVVGARV 98 (148)
Q Consensus 81 ~~l~~~f~~~g~v~~~~~ 98 (148)
.+|+++|+..|.|.-+-+
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 689999999999865544
No 216
>PF04026 SpoVG: SpoVG; InterPro: IPR007170 This is a stage V sporulation protein G. It is essential for sporulation and specific to stage V sporulation in Bacillus megaterium and Bacillus subtilis []. In B. subtilis, expression decreases after 30-60 minutes of cold shock [].; GO: 0030435 sporulation resulting in formation of a cellular spore; PDB: 2IA9_F 2I9X_B 2I9Z_A.
Probab=65.86 E-value=12 Score=21.10 Aligned_cols=26 Identities=19% Similarity=0.319 Sum_probs=20.7
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCC
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMST 26 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~ 26 (148)
+|++|+|-.=...|+-+|||-|.|.+
T Consensus 2 ~itdVri~~~~~~~~lka~asV~~dd 27 (84)
T PF04026_consen 2 KITDVRIRKIEPEGKLKAFASVTFDD 27 (84)
T ss_dssp -EEEEEEEETTSSSSEEEEEEEEETT
T ss_pred ccEEEEEEEecCCCCEEEEEEEEECC
Confidence 46788888865568999999999976
No 217
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=62.60 E-value=11 Score=26.41 Aligned_cols=85 Identities=18% Similarity=0.430 Sum_probs=52.0
Q ss_pred CCCCcceEEEcCCCCC------------CCHHHHHHHHhhcCCeeEEEEEEc-----CCCCCcee-----EE--------
Q 032044 62 YAETDFKLFVGNLSWS------------VTTESLTQAFQEYGNVVGARVLYD-----GESGRSRG-----YG-------- 111 (148)
Q Consensus 62 ~~~~~~~l~i~nlp~~------------~~~~~l~~~f~~~g~v~~~~~~~~-----~~~~~~~~-----~~-------- 111 (148)
+...+.+||+.++|-. .+++.|+..|+.||.|..+.|+.- .-+++..| ++
T Consensus 145 pgerpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffe 224 (445)
T KOG2891|consen 145 PGERPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFE 224 (445)
T ss_pred CCCCCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHH
Confidence 4456678999888753 356789999999999988877432 11233322 22
Q ss_pred -EEEecCHHHHHHHHHHhCCcee----CC----eEEEEEeccCC
Q 032044 112 -FVCYSTKAEMETALESLNGVEL----EG----RAMRVSLAQGR 146 (148)
Q Consensus 112 -fv~f~~~~~a~~a~~~l~~~~i----~g----~~l~v~~~~~~ 146 (148)
||.|-.......|+..|.|..+ +| ..++|.+.+++
T Consensus 225 ayvqfmeykgfa~amdalr~~k~akk~d~~ffqanvkvdfdrsr 268 (445)
T KOG2891|consen 225 AYVQFMEYKGFAQAMDALRGMKLAKKGDDGFFQANVKVDFDRSR 268 (445)
T ss_pred HHHHHHHHHhHHHHHHHHhcchHHhhcCCcccccccccccchhh
Confidence 2344444455667777777543 33 24666666554
No 218
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=62.42 E-value=13 Score=19.98 Aligned_cols=24 Identities=13% Similarity=0.238 Sum_probs=19.9
Q ss_pred EEEEEecCHHHHHHHHHHhCCcee
Q 032044 110 YGFVCYSTKAEMETALESLNGVEL 133 (148)
Q Consensus 110 ~~fv~f~~~~~a~~a~~~l~~~~i 133 (148)
+.++.|.+..+|.+|-+.|....+
T Consensus 3 ~~~i~F~st~~a~~~ek~lk~~gi 26 (73)
T PF11823_consen 3 YYLITFPSTHDAMKAEKLLKKNGI 26 (73)
T ss_pred eEEEEECCHHHHHHHHHHHHHCCC
Confidence 578999999999999988876544
No 219
>COG2088 SpoVG Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]
Probab=62.23 E-value=16 Score=20.75 Aligned_cols=27 Identities=15% Similarity=0.288 Sum_probs=22.6
Q ss_pred CcceeEeeecCCCCCcccEEEEEeCCH
Q 032044 1 MLSKLTVLYDRETGRSRGFAFVTMSTV 27 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv~f~~~ 27 (148)
.|++++|.+-...|+-+.|+-|.|.+.
T Consensus 2 ~iTdVRirkv~~dgrmkA~vsvT~D~e 28 (95)
T COG2088 2 EITDVRIRKVDTDGRMKAYVSVTLDNE 28 (95)
T ss_pred cceeEEEEEecCCCcEEEEEEEEecce
Confidence 478999999777899999999988753
No 220
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=60.77 E-value=1.8 Score=29.65 Aligned_cols=27 Identities=15% Similarity=0.201 Sum_probs=25.0
Q ss_pred EEEEeCCHHHHHHHHHHhCCCeecCcE
Q 032044 20 AFVTMSTVEDCNAVIENLDGREYLGRI 46 (148)
Q Consensus 20 afv~f~~~~~a~~a~~~l~~~~~~~~~ 46 (148)
|.|+|.+...|......||+..|+|+.
T Consensus 131 GWvEF~~KrvAK~iAe~Lnn~~Iggkk 157 (278)
T KOG3152|consen 131 GWVEFISKRVAKRIAELLNNTPIGGKK 157 (278)
T ss_pred HHHHHHHHHHHHHHHHHhCCCccCCCC
Confidence 689999999999999999999999876
No 221
>PF14128 DUF4295: Domain of unknown function (DUF4295)
Probab=60.46 E-value=15 Score=18.15 Aligned_cols=18 Identities=17% Similarity=0.444 Sum_probs=13.2
Q ss_pred ceeEeeecCCCCCcccEEEEE
Q 032044 3 SKLTVLYDRETGRSRGFAFVT 23 (148)
Q Consensus 3 ~~i~~~~~~~~~~~~g~afv~ 23 (148)
.-|++++++.|| .|.|.+
T Consensus 18 KvIkmVKSpKTG---aYtFkE 35 (47)
T PF14128_consen 18 KVIKMVKSPKTG---AYTFKE 35 (47)
T ss_pred EEEEEEeCCCCc---ceEEEE
Confidence 347888888776 677765
No 222
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=57.41 E-value=14 Score=25.16 Aligned_cols=32 Identities=25% Similarity=0.248 Sum_probs=27.2
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhhcCCeeEE
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQEYGNVVGA 96 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~ 96 (148)
...++++-|+|..++++.|.++.++.|.+...
T Consensus 39 eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 39 EKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred cccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 44589999999999999999999999865544
No 223
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=57.29 E-value=30 Score=21.77 Aligned_cols=37 Identities=11% Similarity=0.253 Sum_probs=29.1
Q ss_pred CcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeec
Q 032044 15 RSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFS 52 (148)
Q Consensus 15 ~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~ 52 (148)
.++-.|.|.|.+..+|=.|+..++. ...|..+.+.|-
T Consensus 123 cGrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsWq 159 (166)
T PF15023_consen 123 CGRQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSWQ 159 (166)
T ss_pred cCCceEEEEehhhHHHHHHHHhhcC-CCCCceEEeecc
Confidence 3445699999999999999997766 556777777764
No 224
>TIGR02542 B_forsyth_147 Bacteroides forsythus 147-residue repeat. The longest predicted protein in Bacteroides forsythus ATCC 43037 is over 3000 residues long and lacks homology to other known proteins. Immediately after the signal sequence are four tandem repeats, approximately 147 residues long. This model describes that repeat. This model describes that repeat.
Probab=53.75 E-value=6.8 Score=23.45 Aligned_cols=45 Identities=24% Similarity=0.370 Sum_probs=30.5
Q ss_pred CCCCCCHHHHHHHHhh---cCCeeEEEEEEcCCCCCceeEEEEEecCH
Q 032044 74 LSWSVTTESLTQAFQE---YGNVVGARVLYDGESGRSRGYGFVCYSTK 118 (148)
Q Consensus 74 lp~~~~~~~l~~~f~~---~g~v~~~~~~~~~~~~~~~~~~fv~f~~~ 118 (148)
-|+.++..+++++|.. |-.|.+-.+.++.....+-..||..|...
T Consensus 82 ~PYTlT~~e~r~iF~Epm~YQGITReQV~rdGLP~GsYRiCFrL~~~~ 129 (145)
T TIGR02542 82 PPYTLTYNELRQIFREPMVYQGITREQVQRDGLPEGSYRICFRLFNAT 129 (145)
T ss_pred CceeeeHHHHHHHHhhhhhhccccHHHHhhcCCCCCceEEEEEEeccc
Confidence 5888999999999984 55555544555533333455788888754
No 225
>PF12091 DUF3567: Protein of unknown function (DUF3567); InterPro: IPR021951 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 90 amino acids in length. This protein has a conserved EIVDK sequence motif.
Probab=49.90 E-value=20 Score=20.19 Aligned_cols=17 Identities=18% Similarity=0.190 Sum_probs=12.5
Q ss_pred CCCCHHHHHHHHhhcCC
Q 032044 76 WSVTTESLTQAFQEYGN 92 (148)
Q Consensus 76 ~~~~~~~l~~~f~~~g~ 92 (148)
...+.+++.+++.+|..
T Consensus 60 ~~Pt~EevDdfL~~y~~ 76 (85)
T PF12091_consen 60 SEPTQEEVDDFLGGYDA 76 (85)
T ss_pred cCCCHHHHHHHHHHHHH
Confidence 34577888888888853
No 226
>PHA01632 hypothetical protein
Probab=45.27 E-value=32 Score=17.66 Aligned_cols=21 Identities=14% Similarity=0.322 Sum_probs=16.8
Q ss_pred EEEcCCCCCCCHHHHHHHHhh
Q 032044 69 LFVGNLSWSVTTESLTQAFQE 89 (148)
Q Consensus 69 l~i~nlp~~~~~~~l~~~f~~ 89 (148)
+.|.-+|...++++|+..+.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 556788999999999977653
No 227
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=44.74 E-value=27 Score=16.08 Aligned_cols=17 Identities=12% Similarity=0.106 Sum_probs=14.6
Q ss_pred CCCHHHHHHHHhhcCCe
Q 032044 77 SVTTESLTQAFQEYGNV 93 (148)
Q Consensus 77 ~~~~~~l~~~f~~~g~v 93 (148)
+++.++|++.+..+|.+
T Consensus 3 tWs~~~L~~wL~~~gi~ 19 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIP 19 (38)
T ss_pred CCCHHHHHHHHHHcCCC
Confidence 57899999999999854
No 228
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=40.38 E-value=19 Score=27.23 Aligned_cols=37 Identities=16% Similarity=0.254 Sum_probs=31.3
Q ss_pred EEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecCCCC
Q 032044 19 FAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSDKPK 56 (148)
Q Consensus 19 ~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~~~~ 56 (148)
.|.|.|.+..+|-.|-. .++..|.++.|++.|..+..
T Consensus 411 ~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnps~ 447 (526)
T KOG2135|consen 411 HAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNPSP 447 (526)
T ss_pred hheeeeeccccccchhc-cccceecCceeEEEEecCCc
Confidence 48999999999977665 58999999999999987643
No 229
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=39.95 E-value=39 Score=21.29 Aligned_cols=24 Identities=13% Similarity=0.313 Sum_probs=20.5
Q ss_pred cccEEEEEeCCHHHHHHHHHHhCC
Q 032044 16 SRGFAFVTMSTVEDCNAVIENLDG 39 (148)
Q Consensus 16 ~~g~afv~f~~~~~a~~a~~~l~~ 39 (148)
..||-||+....+++..++..+.+
T Consensus 45 fpGYVfVe~~~~~~~~~~i~~v~~ 68 (153)
T PRK08559 45 LKGYVLVEAESKGAVEEAIRGIPH 68 (153)
T ss_pred CCcEEEEEEEChHHHHHHHhcCCC
Confidence 689999999988999999976544
No 230
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.58 E-value=20 Score=24.03 Aligned_cols=15 Identities=33% Similarity=0.563 Sum_probs=12.3
Q ss_pred CCCcccEEEEEeCCH
Q 032044 13 TGRSRGFAFVTMSTV 27 (148)
Q Consensus 13 ~~~~~g~afv~f~~~ 27 (148)
+..++.||||+|.+-
T Consensus 105 ~~~~RPY~FieFD~~ 119 (216)
T KOG0862|consen 105 QPASRPYAFIEFDTF 119 (216)
T ss_pred CccCCCeeEEehhHH
Confidence 337899999999874
No 231
>PRK11901 hypothetical protein; Reviewed
Probab=39.56 E-value=1.5e+02 Score=21.55 Aligned_cols=59 Identities=17% Similarity=0.231 Sum_probs=38.7
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEE--EEEecCHHHHHHHHHHhC
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYG--FVCYSTKAEMETALESLN 129 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~--fv~f~~~~~a~~a~~~l~ 129 (148)
..+|-|..+ ..++.|..+..+++ +..+.+.+....|. .+|. |-.|.+.++|..|+..|-
T Consensus 245 ~YTLQL~Aa---s~~~~L~~f~~~~~-L~~~~VYqT~RnGk-pWYVVvyG~Y~Sr~eAk~Ai~sLP 305 (327)
T PRK11901 245 HYTLQLSSA---SRSDTLNAYAKKQN-LSHYHVYETKRDGK-PWYVLVSGNYASSAEAKRAIATLP 305 (327)
T ss_pred CeEEEeecC---CCHHHHHHHHHHcC-cCceEEEEEEECCc-eEEEEEecCcCCHHHHHHHHHhCC
Confidence 345666554 45788888888875 34455554433333 3444 447899999999998774
No 232
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=39.29 E-value=14 Score=27.18 Aligned_cols=60 Identities=15% Similarity=0.053 Sum_probs=43.4
Q ss_pred ceEEEcCCCCCCCHH--------HHHHHHhh--cCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHH
Q 032044 67 FKLFVGNLSWSVTTE--------SLTQAFQE--YGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALE 126 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~--------~l~~~f~~--~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~ 126 (148)
+.+|+.+.+.....+ ++...|.+ .+++..+..-++......+|..|++|...+.++++..
T Consensus 175 r~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 175 RDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 456666666654444 89999998 5566666665554445567888999999999999874
No 233
>PF14893 PNMA: PNMA
Probab=37.90 E-value=29 Score=25.04 Aligned_cols=24 Identities=17% Similarity=0.191 Sum_probs=20.5
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhh
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQE 89 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~ 89 (148)
-+.|.|.++|.+|++.+|++.+..
T Consensus 18 ~r~lLv~giP~dc~~~ei~e~l~~ 41 (331)
T PF14893_consen 18 QRALLVLGIPEDCEEAEIEEALQA 41 (331)
T ss_pred hhhheeecCCCCCCHHHHHHHHHH
Confidence 346899999999999999988764
No 234
>PRK02302 hypothetical protein; Provisional
Probab=36.03 E-value=87 Score=17.92 Aligned_cols=39 Identities=28% Similarity=0.491 Sum_probs=27.0
Q ss_pred HHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCce
Q 032044 85 QAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVE 132 (148)
Q Consensus 85 ~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~ 132 (148)
.-+.+||.|..+.- ...|+ |.|.+.++++..+..|....
T Consensus 21 r~LrkfG~I~Y~Sk--------k~kYv-vlYvn~~~~e~~~~kl~~l~ 59 (89)
T PRK02302 21 RKLSKYGDIVYHSK--------RSRYL-VLYVNKEDVEQKLEELSKLK 59 (89)
T ss_pred HHHhhcCcEEEEec--------cccEE-EEEECHHHHHHHHHHHhcCC
Confidence 45678998876522 12244 66789999999998887643
No 235
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=35.20 E-value=26 Score=19.14 Aligned_cols=11 Identities=27% Similarity=0.776 Sum_probs=8.0
Q ss_pred CcccEEEEEeC
Q 032044 15 RSRGFAFVTMS 25 (148)
Q Consensus 15 ~~~g~afv~f~ 25 (148)
..+||+||+=.
T Consensus 11 ~~KGfGFI~~~ 21 (74)
T PRK09937 11 NAKGFGFICPE 21 (74)
T ss_pred CCCCeEEEeeC
Confidence 35799999544
No 236
>smart00457 MACPF membrane-attack complex / perforin.
Probab=34.84 E-value=41 Score=21.97 Aligned_cols=23 Identities=13% Similarity=0.254 Sum_probs=20.1
Q ss_pred EEcCCCCCCCHHHHHHHHhhcCC
Q 032044 70 FVGNLSWSVTTESLTQAFQEYGN 92 (148)
Q Consensus 70 ~i~nlp~~~~~~~l~~~f~~~g~ 92 (148)
.+.+||...+......+++.||.
T Consensus 29 ~l~~Lp~~~~~~~~~~fi~~yGT 51 (194)
T smart00457 29 ALRDLPDQYNRGAYARFIDKYGT 51 (194)
T ss_pred HHHhCccccCHHHHHHHHHHhCC
Confidence 35688999999999999999996
No 237
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=34.84 E-value=66 Score=26.32 Aligned_cols=38 Identities=11% Similarity=0.193 Sum_probs=25.7
Q ss_pred CcccEEEEEeCCHHHHHHHHHHhCCCeecCcE-EEEeec
Q 032044 15 RSRGFAFVTMSTVEDCNAVIENLDGREYLGRI-LRVNFS 52 (148)
Q Consensus 15 ~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~-i~v~~~ 52 (148)
...++|||+|++...|+.|-+..-.....+.. +.+.++
T Consensus 355 t~~~~~FItFkSq~~Aq~~aQ~~~~sr~~~~~~v~iapa 393 (827)
T COG5594 355 TPTKSGFITFKSQASAQIAAQSQIYSRVLGKLKVEIAPA 393 (827)
T ss_pred CccccEEEEEehhHHHHHHHHhhhhhhhhcceeeeecCC
Confidence 34668999999999999988854344433333 555443
No 238
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=34.49 E-value=79 Score=19.78 Aligned_cols=25 Identities=20% Similarity=0.407 Sum_probs=17.5
Q ss_pred cccEEEEEeCCHHHHHHHHHHhCCC
Q 032044 16 SRGFAFVTMSTVEDCNAVIENLDGR 40 (148)
Q Consensus 16 ~~g~afv~f~~~~~a~~a~~~l~~~ 40 (148)
.=|...+-|.+.++|++......|.
T Consensus 113 pMg~~~~aF~~~~~A~~F~~~~GG~ 137 (149)
T PF05573_consen 113 PMGPDLIAFASKEDAEAFAKEHGGK 137 (149)
T ss_dssp TTS--EEEES-HHHHHHHHHHTEEE
T ss_pred CCCCcccccCCHHHHHHHHHHcCCE
Confidence 4468999999999999999865443
No 239
>PF07066 DUF3882: Lactococcus phage M3 protein; InterPro: IPR009773 This family consists of several Lactococcus bacteriophage 712, middle-3 (M3) proteins of around 160 residues in length. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The function of this family is unknown.
Probab=34.41 E-value=44 Score=21.07 Aligned_cols=22 Identities=23% Similarity=0.410 Sum_probs=15.4
Q ss_pred CcceeEeeecCCCCCcccEEEE
Q 032044 1 MLSKLTVLYDRETGRSRGFAFV 22 (148)
Q Consensus 1 ~i~~i~~~~~~~~~~~~g~afv 22 (148)
++-++.+......|..+||||-
T Consensus 3 ~~LslD~STs~~~~~gTG~A~~ 24 (159)
T PF07066_consen 3 KVLSLDFSTSSKKGEGTGWAFF 24 (159)
T ss_pred eeEEEEEecccCCCCCceeEEe
Confidence 3556777776666778888875
No 240
>PF15063 TC1: Thyroid cancer protein 1
Probab=33.67 E-value=32 Score=18.94 Aligned_cols=26 Identities=27% Similarity=0.298 Sum_probs=22.2
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhcCC
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEYGN 92 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~g~ 92 (148)
++--+.|+..+++...|+.+|..-|.
T Consensus 26 RKkasaNIFe~vn~~qlqrLF~~sGD 51 (79)
T PF15063_consen 26 RKKASANIFENVNLDQLQRLFQKSGD 51 (79)
T ss_pred hhhhhhhhhhccCHHHHHHHHHHccc
Confidence 44557888999999999999999985
No 241
>PRK14998 cold shock-like protein CspD; Provisional
Probab=33.53 E-value=27 Score=18.97 Aligned_cols=12 Identities=25% Similarity=0.681 Sum_probs=8.5
Q ss_pred CcccEEEEEeCC
Q 032044 15 RSRGFAFVTMST 26 (148)
Q Consensus 15 ~~~g~afv~f~~ 26 (148)
..+||+||.=.+
T Consensus 11 ~~kGfGFI~~~~ 22 (73)
T PRK14998 11 NAKGFGFICPEG 22 (73)
T ss_pred CCCceEEEecCC
Confidence 357999995543
No 242
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=33.50 E-value=24 Score=27.04 Aligned_cols=72 Identities=14% Similarity=0.248 Sum_probs=45.6
Q ss_pred EEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEEEEEecc
Q 032044 69 LFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAMRVSLAQ 144 (148)
Q Consensus 69 l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l~v~~~~ 144 (148)
..+.+.|...-...+...+..... .. .... .......++++.|++++.+.+|+..++|.-..+..+++....
T Consensus 28 ~~~e~~~~~~~q~~~~k~~~~~~~--~~-~s~t-k~~~~~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~ 99 (534)
T KOG2187|consen 28 ISIEMIPTFIGQKQLNKVLLKILR--DV-KSKT-KLPKMPKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGA 99 (534)
T ss_pred cceeccCchhhhhHHHhhhhhhcc--cc-cccC-CCCCCCCceEEEEeccchhhhHHHHHhhhhhhcchhhhhhcc
Confidence 445556666655555555544211 11 1111 112235689999999999999999999988877777766544
No 243
>PRK15464 cold shock-like protein CspH; Provisional
Probab=33.40 E-value=28 Score=18.78 Aligned_cols=12 Identities=33% Similarity=0.492 Sum_probs=8.7
Q ss_pred CcccEEEEEeCC
Q 032044 15 RSRGFAFVTMST 26 (148)
Q Consensus 15 ~~~g~afv~f~~ 26 (148)
..+||+||+=.+
T Consensus 14 ~~KGfGFI~~~~ 25 (70)
T PRK15464 14 RKSGKGFIIPSD 25 (70)
T ss_pred CCCCeEEEccCC
Confidence 367999996554
No 244
>PF13773 DUF4170: Domain of unknown function (DUF4170)
Probab=33.36 E-value=73 Score=17.20 Aligned_cols=30 Identities=13% Similarity=0.090 Sum_probs=24.1
Q ss_pred EEecCHHHHHHHHHHhCCceeCCeEEEEEe
Q 032044 113 VCYSTKAEMETALESLNGVELEGRAMRVSL 142 (148)
Q Consensus 113 v~f~~~~~a~~a~~~l~~~~i~g~~l~v~~ 142 (148)
--|.+.+.|..|.+...+..+++...+.-+
T Consensus 30 G~fp~y~~A~~aWrakAq~TVDnA~mRYfI 59 (69)
T PF13773_consen 30 GIFPDYASAYAAWRAKAQRTVDNAHMRYFI 59 (69)
T ss_pred ecCCChHHHHHHHHHHHhCchhcceeeEEE
Confidence 467889999999999888888887666544
No 245
>PLN00039 photosystem II reaction center Psb28 protein; Provisional
Probab=33.23 E-value=79 Score=18.90 Aligned_cols=29 Identities=14% Similarity=0.284 Sum_probs=22.9
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHH
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNA 32 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~ 32 (148)
|-+|++.+++ +| +.|.|...|..+..-..
T Consensus 14 vp~VrLtRsr-dg-~~g~a~f~F~~p~~l~~ 42 (111)
T PLN00039 14 VPDVRLTRSR-DG-TNGTAIFVFDQPSVFDS 42 (111)
T ss_pred CCceEEEEcc-CC-CccEEEEEECCchhhcc
Confidence 5678999997 44 78889999999876544
No 246
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=33.21 E-value=85 Score=21.91 Aligned_cols=27 Identities=19% Similarity=0.192 Sum_probs=21.9
Q ss_pred ceEEEcCCCCCCCHHHHHHHHhhcCCe
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQEYGNV 93 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~~~g~v 93 (148)
....|+|||++++..-+..+++..-.+
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~ 122 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFII 122 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCcc
Confidence 467899999999999999888765433
No 247
>PRK10905 cell division protein DamX; Validated
Probab=33.16 E-value=1.9e+02 Score=20.97 Aligned_cols=59 Identities=19% Similarity=0.184 Sum_probs=36.6
Q ss_pred cceEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEE--EEEecCHHHHHHHHHHhC
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYG--FVCYSTKAEMETALESLN 129 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~--fv~f~~~~~a~~a~~~l~ 129 (148)
..+|-|..+. +.+.++++..++|. ....+......|.+ +|. +-.|.+.++|++|+..|-
T Consensus 247 ~YTLQL~A~S---s~~~l~~fakKlgL-~~y~vy~TtRnGkp-WYVV~yG~YaSraeAk~AiakLP 307 (328)
T PRK10905 247 HYTLQLSSSS---NYDNLNGWAKKENL-KNYVVYETTRNGQP-WYVLVSGVYASKEEAKRAVSTLP 307 (328)
T ss_pred ceEEEEEecC---CHHHHHHHHHHcCC-CceEEEEeccCCce-EEEEEecCCCCHHHHHHHHHHCC
Confidence 3456655444 55788888888864 33334333333432 333 447899999999998774
No 248
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=32.99 E-value=88 Score=17.03 Aligned_cols=39 Identities=18% Similarity=0.389 Sum_probs=26.9
Q ss_pred HHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCce
Q 032044 85 QAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVE 132 (148)
Q Consensus 85 ~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~ 132 (148)
.-+..||.|..+.-- ..|+ +.|.+.++++..+..+....
T Consensus 15 r~L~kfG~i~Y~Skk--------~kYv-vlYvn~~~~e~~~~kl~~l~ 53 (71)
T PF09902_consen 15 RQLRKFGDIHYVSKK--------MKYV-VLYVNEEDVEEIIEKLKKLK 53 (71)
T ss_pred HhHhhcccEEEEECC--------ccEE-EEEECHHHHHHHHHHHhcCC
Confidence 456789988765221 2244 56779999999998887654
No 249
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=32.92 E-value=55 Score=20.24 Aligned_cols=26 Identities=19% Similarity=0.202 Sum_probs=21.1
Q ss_pred CcccEEEEEeCCHHHHHHHHHHhCCC
Q 032044 15 RSRGFAFVTMSTVEDCNAVIENLDGR 40 (148)
Q Consensus 15 ~~~g~afv~f~~~~~a~~a~~~l~~~ 40 (148)
...||-||++...++...++....+.
T Consensus 36 ~fpGYvFV~~~~~~~~~~~i~~~~gv 61 (145)
T TIGR00405 36 SLKGYILVEAETKIDMRNPIIGVPHV 61 (145)
T ss_pred CCCcEEEEEEECcHHHHHHHhCCCCE
Confidence 48899999999888888888766553
No 250
>PRK02886 hypothetical protein; Provisional
Probab=32.47 E-value=1e+02 Score=17.58 Aligned_cols=39 Identities=21% Similarity=0.384 Sum_probs=26.9
Q ss_pred HHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCce
Q 032044 85 QAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVE 132 (148)
Q Consensus 85 ~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~ 132 (148)
.-+..||.|..+.-- ..|+ |.|.+.++++..+..|....
T Consensus 19 r~LrkyG~I~Y~Skr--------~kYv-vlYvn~~~~e~~~~kl~~l~ 57 (87)
T PRK02886 19 KQLRKFGNVHYVSKR--------LKYA-VLYCDMEQVEDIMNKLSSLP 57 (87)
T ss_pred HHHhhcCcEEEEecc--------ccEE-EEEECHHHHHHHHHHHhcCC
Confidence 456789988765221 2244 66789999999998887644
No 251
>PRK15463 cold shock-like protein CspF; Provisional
Probab=32.38 E-value=29 Score=18.68 Aligned_cols=12 Identities=25% Similarity=0.282 Sum_probs=8.6
Q ss_pred CcccEEEEEeCC
Q 032044 15 RSRGFAFVTMST 26 (148)
Q Consensus 15 ~~~g~afv~f~~ 26 (148)
..+||+||+=.+
T Consensus 14 ~~kGfGFI~~~~ 25 (70)
T PRK15463 14 GKSGKGLITPSD 25 (70)
T ss_pred CCCceEEEecCC
Confidence 357999996544
No 252
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=32.24 E-value=1.3e+02 Score=19.82 Aligned_cols=39 Identities=21% Similarity=0.267 Sum_probs=30.7
Q ss_pred CcccEEEEEeCCHHHHHHHHHHhCCCeecCc-EEEEeecC
Q 032044 15 RSRGFAFVTMSTVEDCNAVIENLDGREYLGR-ILRVNFSD 53 (148)
Q Consensus 15 ~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~-~i~v~~~~ 53 (148)
++.+.--|-|.++..|..|.-.+++..+.|. .+..-++.
T Consensus 49 rsfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ 88 (193)
T KOG4019|consen 49 RSFRRVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQ 88 (193)
T ss_pred HhhceeEEeccChhHHHHHHHHhhhcccCCCceEEEEEcc
Confidence 4556778899999999999999999999887 55554443
No 253
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=32.06 E-value=29 Score=18.59 Aligned_cols=11 Identities=45% Similarity=0.890 Sum_probs=8.0
Q ss_pred cccEEEEEeCC
Q 032044 16 SRGFAFVTMST 26 (148)
Q Consensus 16 ~~g~afv~f~~ 26 (148)
.+||+||+=.+
T Consensus 14 ~kGyGFI~~~~ 24 (69)
T PRK09507 14 SKGFGFITPED 24 (69)
T ss_pred CCCcEEEecCC
Confidence 57999996543
No 254
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=31.54 E-value=48 Score=20.48 Aligned_cols=17 Identities=18% Similarity=0.616 Sum_probs=10.7
Q ss_pred CCcccEEEEEeCCHHHHH
Q 032044 14 GRSRGFAFVTMSTVEDCN 31 (148)
Q Consensus 14 ~~~~g~afv~f~~~~~a~ 31 (148)
|.+.|||.| |++.+++.
T Consensus 69 g~StG~a~I-Yds~e~~k 85 (132)
T PTZ00071 69 GKTTGFGLI-YDNLAALK 85 (132)
T ss_pred ceEEEEEEE-ECCHHHHH
Confidence 577888877 45555443
No 255
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.28 E-value=27 Score=26.21 Aligned_cols=50 Identities=6% Similarity=-0.175 Sum_probs=37.1
Q ss_pred eEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecC
Q 032044 68 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYST 117 (148)
Q Consensus 68 ~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~ 117 (148)
..++..+|...++.++.-.|..||.|.-+.....-+.+.....+|++-..
T Consensus 5 ~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~ 54 (572)
T KOG4365|consen 5 KKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK 54 (572)
T ss_pred hhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec
Confidence 45678889999999999999999988776654443445556677776543
No 256
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=31.26 E-value=43 Score=17.11 Aligned_cols=12 Identities=33% Similarity=0.714 Sum_probs=8.5
Q ss_pred CcccEEEEEeCC
Q 032044 15 RSRGFAFVTMST 26 (148)
Q Consensus 15 ~~~g~afv~f~~ 26 (148)
..+|||||.-.+
T Consensus 6 ~~~GfGFv~~~~ 17 (58)
T PF08206_consen 6 HPKGFGFVIPDD 17 (58)
T ss_dssp -SSS-EEEEECT
T ss_pred EcCCCEEEEECC
Confidence 367999999887
No 257
>PRK10943 cold shock-like protein CspC; Provisional
Probab=31.24 E-value=31 Score=18.45 Aligned_cols=12 Identities=42% Similarity=0.852 Sum_probs=8.6
Q ss_pred CcccEEEEEeCC
Q 032044 15 RSRGFAFVTMST 26 (148)
Q Consensus 15 ~~~g~afv~f~~ 26 (148)
..+||+||+=.+
T Consensus 13 ~~kGfGFI~~~~ 24 (69)
T PRK10943 13 ESKGFGFITPAD 24 (69)
T ss_pred CCCCcEEEecCC
Confidence 357999996544
No 258
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=31.23 E-value=33 Score=18.24 Aligned_cols=12 Identities=25% Similarity=0.681 Sum_probs=9.0
Q ss_pred CcccEEEEEeCC
Q 032044 15 RSRGFAFVTMST 26 (148)
Q Consensus 15 ~~~g~afv~f~~ 26 (148)
..+||+||.=.+
T Consensus 11 ~~kGfGFI~~~~ 22 (68)
T TIGR02381 11 NAKGFGFICPEG 22 (68)
T ss_pred CCCCeEEEecCC
Confidence 357999997665
No 259
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=30.98 E-value=84 Score=25.78 Aligned_cols=36 Identities=17% Similarity=0.204 Sum_probs=24.7
Q ss_pred ceeEEEEEecCHHHHHHHHHHhCCc-eeCCeEEEEEe
Q 032044 107 SRGYGFVCYSTKAEMETALESLNGV-ELEGRAMRVSL 142 (148)
Q Consensus 107 ~~~~~fv~f~~~~~a~~a~~~l~~~-~i~g~~l~v~~ 142 (148)
+.+.|||+|++.-.|+.|.+..-+. .+.+.++.+-+
T Consensus 356 ~~~~~FItFkSq~~Aq~~aQ~~~~sr~~~~~~v~iap 392 (827)
T COG5594 356 PTKSGFITFKSQASAQIAAQSQIYSRVLGKLKVEIAP 392 (827)
T ss_pred ccccEEEEEehhHHHHHHHHhhhhhhhhcceeeeecC
Confidence 3557999999999999999965443 33444344433
No 260
>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]
Probab=30.54 E-value=2.8e+02 Score=22.09 Aligned_cols=84 Identities=13% Similarity=0.122 Sum_probs=55.5
Q ss_pred ccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEE---eecC-----------CC--CCCCCCCCCCcceEEEcCCCCCCCH
Q 032044 17 RGFAFVTMSTVEDCNAVIENLDGREYLGRILRV---NFSD-----------KP--KPKLPLYAETDFKLFVGNLSWSVTT 80 (148)
Q Consensus 17 ~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v---~~~~-----------~~--~~~~~~~~~~~~~l~i~nlp~~~~~ 80 (148)
+--||+.+.++..-+---..|+...+++-.|.- +|+. .. +.-.++.......+|+.+|+.+..+
T Consensus 236 Qi~C~iT~Tn~~TH~iIr~Nl~rSpmysG~Ieg~GPRYCPSIEDKIvrF~dK~~HqIFlEPEGl~~~evY~nGlSTSlP~ 315 (621)
T COG0445 236 QIPCYITYTNEKTHEIIRDNLHRSPMYSGEIEGVGPRYCPSIEDKIVRFADKERHQIFLEPEGLDTDEVYPNGLSTSLPE 315 (621)
T ss_pred ccceeeecCChHHHHHHHHhhhhCchhcccccccCCCCCCCHHHhhccCCCCccceEEecCCCCCCceEecCcccccCCH
Confidence 446999999998877777777777776544432 1211 11 1112233445678999999999998
Q ss_pred HHHHHHHhhcCCeeEEEEEE
Q 032044 81 ESLTQAFQEYGNVVGARVLY 100 (148)
Q Consensus 81 ~~l~~~f~~~g~v~~~~~~~ 100 (148)
+-=.++....-..+.+.+.+
T Consensus 316 dVQ~~~irsipGlEna~i~r 335 (621)
T COG0445 316 DVQEQIIRSIPGLENAEILR 335 (621)
T ss_pred HHHHHHHHhCcccccceeec
Confidence 77677777766677776653
No 261
>PF12829 Mhr1: Transcriptional regulation of mitochondrial recombination; InterPro: IPR024629 These proteins are involved in regulation of RNA polymerase II-dependent transcription. They are also involved in regulation of mitochondrial DNA recombination, maintenance, repair, and generation of homoplasmic cells [, , , ].
Probab=29.31 E-value=1e+02 Score=17.70 Aligned_cols=52 Identities=13% Similarity=0.075 Sum_probs=30.4
Q ss_pred CCCCCHHHHHHHHhhcCCe-eEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCC
Q 032044 75 SWSVTTESLTQAFQEYGNV-VGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNG 130 (148)
Q Consensus 75 p~~~~~~~l~~~f~~~g~v-~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~ 130 (148)
-+.++...|..-|..-|.- ....+-+| .=+..|-|.|.+.+.+..|.+.|..
T Consensus 21 ~p~l~~~~i~~Q~~~~gkk~~pp~lRkD----~W~pm~vv~f~~~~~g~~~yq~Lre 73 (91)
T PF12829_consen 21 TPNLDNNQILKQFPFPGKKNKPPSLRKD----YWRPMCVVNFPNYEVGVSAYQKLRE 73 (91)
T ss_pred CcccChhHHHHhccCCCcccCCchhccc----cceEeEEEECCChHHHHHHHHHHHH
Confidence 4455666666555544421 11111111 1245799999999999999886643
No 262
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=28.61 E-value=1.4e+02 Score=22.91 Aligned_cols=59 Identities=22% Similarity=0.229 Sum_probs=41.3
Q ss_pred EEcCCCCCC---CHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCceeCCeEE
Q 032044 70 FVGNLSWSV---TTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGVELEGRAM 138 (148)
Q Consensus 70 ~i~nlp~~~---~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~~i~g~~l 138 (148)
.|+||+.-. ....+.++-++||++-.+++-.. -.|-..+.+.|.+++. -++..+.|++.
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~~---------~~Vviss~~~akE~l~-~~d~~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGSV---------PVVVISSYEAAKEVLV-KQDLEFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecCc---------eEEEECCHHHHHHHHH-hCCccccCCCC
Confidence 356665432 34567777789999886666322 3577889999999998 66777777764
No 263
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=28.04 E-value=26 Score=25.35 Aligned_cols=49 Identities=22% Similarity=0.240 Sum_probs=36.7
Q ss_pred CHHHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhCCc
Q 032044 79 TTESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLNGV 131 (148)
Q Consensus 79 ~~~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~~~ 131 (148)
+...+.+.+.+.|.+..-.+.+.- +-|.+|+-...+++++++++.|.+.
T Consensus 274 ~~p~iF~~i~~~G~v~~~EM~rtF----NmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 274 PPPPIFKWLQKAGNVEREEMYRTF----NMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred CCcHHHHHHHHhcCCCHHHHHHHh----cCccceEEEEcHHHHHHHHHHHHhc
Confidence 346788888888877654443322 3678999999999999999999864
No 264
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=27.41 E-value=36 Score=18.22 Aligned_cols=10 Identities=40% Similarity=0.932 Sum_probs=7.6
Q ss_pred cccEEEEEeC
Q 032044 16 SRGFAFVTMS 25 (148)
Q Consensus 16 ~~g~afv~f~ 25 (148)
.+||+||+=.
T Consensus 15 ~kGfGFI~~~ 24 (70)
T PRK10354 15 DKGFGFITPD 24 (70)
T ss_pred CCCcEEEecC
Confidence 5799999644
No 265
>PRK09890 cold shock protein CspG; Provisional
Probab=27.34 E-value=41 Score=18.04 Aligned_cols=10 Identities=40% Similarity=0.932 Sum_probs=7.7
Q ss_pred cccEEEEEeC
Q 032044 16 SRGFAFVTMS 25 (148)
Q Consensus 16 ~~g~afv~f~ 25 (148)
.+||+||+=.
T Consensus 15 ~kGfGFI~~~ 24 (70)
T PRK09890 15 DKGFGFITPD 24 (70)
T ss_pred CCCcEEEecC
Confidence 5799999654
No 266
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=27.30 E-value=84 Score=15.05 Aligned_cols=33 Identities=21% Similarity=0.332 Sum_probs=22.3
Q ss_pred eEe-eecCCCCCcccEEEEEeCCHHHHHHHHHHh
Q 032044 5 LTV-LYDRETGRSRGFAFVTMSTVEDCNAVIENL 37 (148)
Q Consensus 5 i~~-~~~~~~~~~~g~afv~f~~~~~a~~a~~~l 37 (148)
+.+ -.++.+|+.+-.--=-|.+..+|..++..+
T Consensus 4 ~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~ 37 (46)
T PF14657_consen 4 YRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKI 37 (46)
T ss_pred EEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHH
Confidence 344 366667766654444489999999988754
No 267
>PF11411 DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536 DNA ligase IV along with Xrcc4 functions in DNA non-homologous end joining. This process is required to mend double-strand breaks. Upon ligase binding to an Xrcc4 dimer, the helical tails unwind leading to a flat interaction surface []. ; GO: 0003910 DNA ligase (ATP) activity; PDB: 3II6_Y 2E2W_A 1IK9_C.
Probab=27.29 E-value=55 Score=15.19 Aligned_cols=16 Identities=13% Similarity=0.270 Sum_probs=9.7
Q ss_pred CCCCHHHHHHHHhhcC
Q 032044 76 WSVTTESLTQAFQEYG 91 (148)
Q Consensus 76 ~~~~~~~l~~~f~~~g 91 (148)
.++++++|++.|.+.+
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 4568889999988653
No 268
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=27.21 E-value=1.3e+02 Score=21.67 Aligned_cols=42 Identities=12% Similarity=0.176 Sum_probs=30.5
Q ss_pred CCCCCcccEEEEEeCCHHHHHHHHHHhCCCeecCcE-EEEeecC
Q 032044 11 RETGRSRGFAFVTMSTVEDCNAVIENLDGREYLGRI-LRVNFSD 53 (148)
Q Consensus 11 ~~~~~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~-i~v~~~~ 53 (148)
..++..-.+-.|.|.+.-+|++||. .+|+.|.|.. |-|..+.
T Consensus 226 hv~~~ngNwMhirYssr~~A~KALs-kng~ii~g~vmiGVkpCt 268 (350)
T KOG4285|consen 226 HVTPSNGNWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKPCT 268 (350)
T ss_pred eecCCCCceEEEEecchhHHHHhhh-hcCeeeccceEEeeeecC
Confidence 3444455688999999999999998 5888876644 4455543
No 269
>PF01823 MACPF: MAC/Perforin domain; InterPro: IPR020864 The membrane attack complex/perforin (MACPF) domain is conserved in bacteria, fungi, mammals and plants. It was originally identified and named as being common to five complement components (C6, C7, C8-alpha, C8-beta, and C9) and perforin. These molecules perform critical functions in innate and adaptive immunity. The MAC family proteins and perforin are known to participate in lytic pore formation. In response to pathogen infection, a sequential and highly specific interaction between the constituent elements occurs to form transmembrane channels which are known as the membrane-attack complex (MAC).Only a few other MACPF proteins have been characterised and several are thought to form pores for invasion or protection [, , ]. Examples are proteins from malarial parasites [], the cytolytic toxins from sea anemones [], and proteins that provide plant immunity [, ]. Functionally uncharacterised MACPF proteins are also evident in pathogenic bacteria such as Chlamydia spp [] and Photorhabdus luminescens (Xenorhabdus luminescens) []. The MACPF domain is commonly found to be associated with other N- and C-terminal domains, such as TSP1 (see PDOC50092 from PROSITEDOC), LDLRA (see PDOC00929 from PROSITEDOC), EGF-like (see PDOC00021 from PROSITEDOC),Sushi/CCP/SCR (see PDOC50923 from PROSITEDOC), FIMAC or C2 (see PDOC00380 from PROSITEDOC). They probably control or target MACPF function [, ]. The MACPF domain oligomerizes, undergoes conformational change, and is required for lytic activity. The MACPF domain consists of a central kinked four-stranded antiparallel beta sheet surrounded by alpha helices and beta strands, forming two structural segments. Overall, the MACPF domain has a thin L-shaped appearance. MACPF domains exhibit limited sequence similarity but contain a signature [YW]-G-[TS]-H-[FY]-x(6)-G-G motif [, , ]. Some proteins known to contain a MACPF domain are listed below: Vertebrate complement proteins C6 to C9. Complement factors C6 to C9 assemble to form a scaffold, the membrane attack complex (MAC), that permits C9 polymerisation into pores that lyse Gram-negative pathogens [, ]. Vertebrate perforin. It is delivered by natural killer cells and cytotoxic T lymphocytes and forms oligomeric pores (12 to 18 monomers) in the plasma membrane of either virus-infected or transformed cells. Arabidopsis thaliana (Mouse-ear cress) constitutively activated cell death 1 (CAD1) protein. It is likely to act as a mediator that recognises plant signals for pathogen infection []. Arabidopsis thaliana (Mouse-ear cress) necrotic spotted lesions 1 (NSL1) protein []. Venomous sea anemone Phyllodiscus semoni (Night anemone) toxins PsTX-60A and PsTX-60B []. Venomous sea anemone Actineria villosa (Okinawan sea anemone) toxin AvTX-60A []. Plasmodium sporozoite microneme protein essential for cell traversal 2 (SPECT2). It is essential for the membrane-wounding activity of the sporozoite and is involved in its traversal of the sinusoidal cell layer prior to hepatocyte-infection []. P. luminescens Plu-MACPF. Although nonlytic, it was shown to bind to cell membranes []. Chlamydial putative uncharacterised protein CT153 []. ; PDB: 2QP2_A 3OJY_B 3NSJ_A 4E0S_B 3T5O_A 4A5W_B 2QQH_A 2RD7_A.
Probab=26.15 E-value=56 Score=21.29 Aligned_cols=23 Identities=17% Similarity=0.388 Sum_probs=16.8
Q ss_pred EcCCCCCCCHHH---HHHHHhhcCCe
Q 032044 71 VGNLSWSVTTES---LTQAFQEYGNV 93 (148)
Q Consensus 71 i~nlp~~~~~~~---l~~~f~~~g~v 93 (148)
+.+||...+..+ ..++|..||.-
T Consensus 53 l~~L~~~~~~~~~~~y~~f~~~yGTH 78 (212)
T PF01823_consen 53 LNALPAEYNSDNTDEYYRFFDKYGTH 78 (212)
T ss_dssp HHTSHSS--HHHHHHHHHHHHHH-SE
T ss_pred HHhhCcccCccchHHHHHHHHHhCcE
Confidence 677888888888 78899999973
No 270
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=25.80 E-value=1.5e+02 Score=17.28 Aligned_cols=44 Identities=11% Similarity=0.112 Sum_probs=24.4
Q ss_pred HHHHHHhhcCCe---eEEEEEEcCCCCCceeEEEEEecCHHHHHHHH
Q 032044 82 SLTQAFQEYGNV---VGARVLYDGESGRSRGYGFVCYSTKAEMETAL 125 (148)
Q Consensus 82 ~l~~~f~~~g~v---~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~ 125 (148)
.+...|++||.- ..-.+..-.....+.....|+|.+.+.|..+.
T Consensus 24 ~~~~a~~~~Ggr~LvRGG~v~~lEG~w~ptr~vviEFps~~~ar~~y 70 (96)
T COG5470 24 KAKPAIEKFGGRYLVRGGEVETLEGEWRPTRNVVIEFPSLEAARDCY 70 (96)
T ss_pred HhHHHHHHhCCeeEeeCCCeeeccCCCCcccEEEEEcCCHHHHHHHh
Confidence 345677888751 11111111111233557899999999887764
No 271
>PRK13611 photosystem II reaction center protein Psb28; Provisional
Probab=25.64 E-value=87 Score=18.48 Aligned_cols=26 Identities=23% Similarity=0.456 Sum_probs=20.3
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHH
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVED 29 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~ 29 (148)
|-+|++.+++ +| ++|.|...|..+..
T Consensus 14 ~p~VrLtRsr-dg-~~g~a~f~F~~~~~ 39 (104)
T PRK13611 14 PTQVRLLKSK-TG-KRGSAIFRFEDLKS 39 (104)
T ss_pred CCceEEEEcc-CC-CccEEEEEEcCCcc
Confidence 4478888886 44 78889999999665
No 272
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=25.38 E-value=1e+02 Score=15.25 Aligned_cols=26 Identities=12% Similarity=0.133 Sum_probs=21.5
Q ss_pred eEEEcCCCCCCCHHHHHHHHhhcCCe
Q 032044 68 KLFVGNLSWSVTTESLTQAFQEYGNV 93 (148)
Q Consensus 68 ~l~i~nlp~~~~~~~l~~~f~~~g~v 93 (148)
.+++.+.....+..+|.+.+..+|..
T Consensus 3 ~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 3 TFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred EEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 56777777678899999999999973
No 273
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.34 E-value=1.8e+02 Score=22.97 Aligned_cols=37 Identities=30% Similarity=0.437 Sum_probs=30.2
Q ss_pred cEEEEEeCCHHHHHHHHHHhCCCeec--CcEEEEeecCC
Q 032044 18 GFAFVTMSTVEDCNAVIENLDGREYL--GRILRVNFSDK 54 (148)
Q Consensus 18 g~afv~f~~~~~a~~a~~~l~~~~~~--~~~i~v~~~~~ 54 (148)
-||.|+|.+.+.|...-...+|..+. +..+-++|...
T Consensus 269 YyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRFIPD 307 (650)
T KOG2318|consen 269 YYAVVECDSIETAKAVYEECDGIEFESSANKLDLRFIPD 307 (650)
T ss_pred EEEEEEecCchHHHHHHHhcCcceeccccceeeeeecCC
Confidence 48999999999999999999999885 55566666543
No 274
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=25.10 E-value=70 Score=15.56 Aligned_cols=16 Identities=19% Similarity=0.490 Sum_probs=13.7
Q ss_pred CCCHHHHHHHHhhcCC
Q 032044 77 SVTTESLTQAFQEYGN 92 (148)
Q Consensus 77 ~~~~~~l~~~f~~~g~ 92 (148)
.++.++|+..+.+||.
T Consensus 5 ~LSd~eL~~~L~~~G~ 20 (44)
T smart00540 5 RLSDAELRAELKQYGL 20 (44)
T ss_pred HcCHHHHHHHHHHcCC
Confidence 4678999999999984
No 275
>PF09341 Pcc1: Transcription factor Pcc1; InterPro: IPR015419 Pcc1 is a proposed transcription factor involved in the expression of genes regulated by alpha-factor and galactose; component of the EKC/KEOPS protein complex with Kae1, Gon7, Bud32, and Cgi121; related to human cancer-testis antigens [].; PDB: 2BNR_C 2P5W_C 3KLA_C 2F54_C 2P5E_C 2F53_C 3ENO_E 3ENC_B.
Probab=25.09 E-value=1.2e+02 Score=16.25 Aligned_cols=20 Identities=10% Similarity=0.077 Sum_probs=15.2
Q ss_pred cEEEEEeCCHHHHHHHHHHh
Q 032044 18 GFAFVTMSTVEDCNAVIENL 37 (148)
Q Consensus 18 g~afv~f~~~~~a~~a~~~l 37 (148)
...-|.|.+++.|+.+...+
T Consensus 3 ~~l~i~f~s~~~A~ii~~sL 22 (76)
T PF09341_consen 3 FTLEIPFESEEKAEIIYRSL 22 (76)
T ss_dssp EEEEEE-SSHHHHHHHHHHH
T ss_pred EEEEEEeCCHHHHHHHHHHh
Confidence 45778999999998887755
No 276
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=24.20 E-value=1.8e+02 Score=20.82 Aligned_cols=38 Identities=16% Similarity=0.304 Sum_probs=29.6
Q ss_pred cceeEeeecCCC--CCcccEEEEEeCCHHHHHHHHHHhCC
Q 032044 2 LSKLTVLYDRET--GRSRGFAFVTMSTVEDCNAVIENLDG 39 (148)
Q Consensus 2 i~~i~~~~~~~~--~~~~g~afv~f~~~~~a~~a~~~l~~ 39 (148)
|++|.++..... .=++.||.+.|-+...|.+.+..+..
T Consensus 174 lEsIDlVna~~~~~~Fp~~YaILtFlnIsMAiEV~dYlk~ 213 (309)
T PF10567_consen 174 LESIDLVNADEPSKHFPKNYAILTFLNISMAIEVLDYLKS 213 (309)
T ss_pred EEEEEEeccCcccccCCcceEEEeehhHHhHHHHHHHHHh
Confidence 578888874333 34567999999999999999987753
No 277
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=23.87 E-value=65 Score=17.17 Aligned_cols=39 Identities=10% Similarity=0.208 Sum_probs=26.0
Q ss_pred HHHHHHHhhcCCeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHHhC
Q 032044 81 ESLTQAFQEYGNVVGARVLYDGESGRSRGYGFVCYSTKAEMETALESLN 129 (148)
Q Consensus 81 ~~l~~~f~~~g~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~l~ 129 (148)
+++.+.|..++....+ + +-.+|..|.+.++|-.++..+.
T Consensus 27 ~~v~~~~~~~~~f~k~--v--------kL~aF~pF~s~~~ALe~~~ais 65 (67)
T PF08156_consen 27 EEVQKSFSDPEKFSKI--V--------KLKAFSPFKSAEEALENANAIS 65 (67)
T ss_pred HHHHHHHcCHHHHhhh--h--------hhhhccCCCCHHHHHHHHHHhh
Confidence 5777777765433222 1 1148999999999988887654
No 278
>CHL00128 psbW photosystem II protein W; Reviewed
Probab=23.81 E-value=1.5e+02 Score=17.76 Aligned_cols=29 Identities=17% Similarity=0.233 Sum_probs=22.8
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHH
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNA 32 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~ 32 (148)
|-+|++.+++ +| +.|.|...|..+..-..
T Consensus 15 ip~VrLtRsr-dg-~~g~a~f~F~~p~al~~ 43 (113)
T CHL00128 15 IPDVRLTRSR-DG-STGTATFRFKNPNILDK 43 (113)
T ss_pred CCceEEEEcc-CC-CceEEEEEECCchhhhh
Confidence 5678999997 33 77889999999887544
No 279
>PF06613 KorB_C: KorB C-terminal beta-barrel domain; InterPro: IPR010575 This domain is found in several KorB transcriptional repressor proteins. The korB gene is a major regulatory element in the replication and maintenance of broad host-range plasmid RK2. It negatively controls the replication gene trfA, the host-lethal determinants kilA and kilB, and the korA-korB operon []. This family is found in conjunction with IPR003115 from INTERPRO.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1IGQ_B 1IGU_A.
Probab=23.65 E-value=1.1e+02 Score=16.10 Aligned_cols=21 Identities=24% Similarity=0.472 Sum_probs=13.6
Q ss_pred eEeeecCCCCCcccEEEEEeCC
Q 032044 5 LTVLYDRETGRSRGFAFVTMST 26 (148)
Q Consensus 5 i~~~~~~~~~~~~g~afv~f~~ 26 (148)
.+++.++ ..-+.|+|.+.|.+
T Consensus 20 arllLnr-Rps~~G~~WiKyED 40 (60)
T PF06613_consen 20 ARLLLNR-RPSSEGLAWIKYED 40 (60)
T ss_dssp EEE-TTB---SSTTEEEEEETT
T ss_pred hhhhhcc-CCCcCCeEEEEEcc
Confidence 4566664 33578999999987
No 280
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=22.96 E-value=80 Score=16.32 Aligned_cols=11 Identities=27% Similarity=0.812 Sum_probs=8.5
Q ss_pred cccEEEEEeCC
Q 032044 16 SRGFAFVTMST 26 (148)
Q Consensus 16 ~~g~afv~f~~ 26 (148)
.+||+||.-.+
T Consensus 11 ~kgyGFI~~~~ 21 (66)
T PF00313_consen 11 EKGYGFITSDD 21 (66)
T ss_dssp TTTEEEEEETT
T ss_pred CCCceEEEEcc
Confidence 46899998765
No 281
>smart00738 NGN In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold. In Spt5p, this domain may confer affinity for Spt4p.Spt4p
Probab=22.84 E-value=69 Score=18.29 Aligned_cols=23 Identities=22% Similarity=0.403 Sum_probs=18.1
Q ss_pred cEEEEEeCCHHHHHHHHHHhCCC
Q 032044 18 GFAFVTMSTVEDCNAVIENLDGR 40 (148)
Q Consensus 18 g~afv~f~~~~~a~~a~~~l~~~ 40 (148)
||-||++...++.-.++..+.+.
T Consensus 60 GYvFv~~~~~~~~~~~i~~~~~v 82 (106)
T smart00738 60 GYIFVEADLEDEVWTAIRGTPGV 82 (106)
T ss_pred CEEEEEEEeCCcHHHHHhcCCCc
Confidence 99999998777777777766553
No 282
>TIGR03047 PS_II_psb28 photosystem II reaction center protein Psb28. Members of this protein family are the Psb28 protein of photosystem II. Two different protein families, apparently without homology between them, have been designated PsbW. Cyanobacterial proteins previously designated PsbW are members of the family described here. However, while members of the plant PsbW family are not found (so far) in Cyanobacteria, members of the present family do occur in plants. We therefore support the alternative designation that has emerged for this protein family, Psp28, rather than PsbW.
Probab=22.82 E-value=1.5e+02 Score=17.63 Aligned_cols=29 Identities=14% Similarity=0.336 Sum_probs=22.8
Q ss_pred cceeEeeecCCCCCcccEEEEEeCCHHHHHH
Q 032044 2 LSKLTVLYDRETGRSRGFAFVTMSTVEDCNA 32 (148)
Q Consensus 2 i~~i~~~~~~~~~~~~g~afv~f~~~~~a~~ 32 (148)
|-+|++.+++. | ++|.|...|..+..-..
T Consensus 12 ip~VrLtRsrd-g-~~g~a~f~F~~p~al~~ 40 (109)
T TIGR03047 12 IPDVRLTRSRD-G-GTGTALFRFENPKALDK 40 (109)
T ss_pred CCceEEEEccC-C-CceEEEEEECCchhhhh
Confidence 56789999973 3 67889999999877544
No 283
>PF06014 DUF910: Bacterial protein of unknown function (DUF910); InterPro: IPR009256 This family consists of several short bacterial proteins of unknown function.; PDB: 2NN4_A.
Probab=22.73 E-value=64 Score=17.07 Aligned_cols=15 Identities=13% Similarity=0.437 Sum_probs=10.0
Q ss_pred HHHHHHHHhhcCCee
Q 032044 80 TESLTQAFQEYGNVV 94 (148)
Q Consensus 80 ~~~l~~~f~~~g~v~ 94 (148)
--|+.+++++||.+.
T Consensus 4 lyDVqQLLK~fG~~I 18 (62)
T PF06014_consen 4 LYDVQQLLKKFGIII 18 (62)
T ss_dssp HHHHHHHHHTTS---
T ss_pred HHHHHHHHHHCCEEE
Confidence 357899999998643
No 284
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=22.47 E-value=1.3e+02 Score=24.61 Aligned_cols=28 Identities=11% Similarity=0.210 Sum_probs=22.1
Q ss_pred CceeEEEEEecCHHHHHHHHHHhCCcee
Q 032044 106 RSRGYGFVCYSTKAEMETALESLNGVEL 133 (148)
Q Consensus 106 ~~~~~~fv~f~~~~~a~~a~~~l~~~~i 133 (148)
...+.|||+|++...|+.|.+..++...
T Consensus 303 ~~~~~aFVtf~sr~~A~~~aq~~~~~~~ 330 (728)
T KOG1134|consen 303 KPLPAAFVTFKSRYGAAVAAQTQQSLNP 330 (728)
T ss_pred CCCceEEEEEEeeHHHHHHHHhhhcCCC
Confidence 3467899999999999999996555433
No 285
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=22.44 E-value=1.5e+02 Score=24.23 Aligned_cols=37 Identities=14% Similarity=0.102 Sum_probs=25.1
Q ss_pred CcccEEEEEeCCHHHHHHHHHHhCCCeecCcEEEEeecC
Q 032044 15 RSRGFAFVTMSTVEDCNAVIENLDGREYLGRILRVNFSD 53 (148)
Q Consensus 15 ~~~g~afv~f~~~~~a~~a~~~l~~~~~~~~~i~v~~~~ 53 (148)
+..+.|||+|.+.-.|+.|.+....... ....++++.
T Consensus 303 ~~~~~aFVtf~sr~~A~~~aq~~~~~~~--~~w~~~~AP 339 (728)
T KOG1134|consen 303 KPLPAAFVTFKSRYGAAVAAQTQQSLNP--TKWLTEFAP 339 (728)
T ss_pred CCCceEEEEEEeeHHHHHHHHhhhcCCC--CceEEEecC
Confidence 5678999999999999999885333322 333444444
No 286
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=22.40 E-value=35 Score=18.29 Aligned_cols=25 Identities=12% Similarity=0.213 Sum_probs=18.4
Q ss_pred CcceEEEcCCCCCCCHHHHHHHHhh
Q 032044 65 TDFKLFVGNLSWSVTTESLTQAFQE 89 (148)
Q Consensus 65 ~~~~l~i~nlp~~~~~~~l~~~f~~ 89 (148)
.+++++|+++|..|-++.=...+..
T Consensus 26 tSr~vflG~IP~~W~~~~~~~~~k~ 50 (67)
T PF15407_consen 26 TSRRVFLGPIPEIWLQDHRKSWYKS 50 (67)
T ss_pred cCceEEECCCChHHHHcCcchHHHH
Confidence 5678999999998877654444443
No 287
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=22.39 E-value=2.1e+02 Score=18.88 Aligned_cols=55 Identities=16% Similarity=0.169 Sum_probs=33.5
Q ss_pred ceEEEcCCCCCCCHHHHHHHHh-hcCCeeEEEEEEcCCC-CCceeEEEEEecCHHHHHHHHH
Q 032044 67 FKLFVGNLSWSVTTESLTQAFQ-EYGNVVGARVLYDGES-GRSRGYGFVCYSTKAEMETALE 126 (148)
Q Consensus 67 ~~l~i~nlp~~~~~~~l~~~f~-~~g~v~~~~~~~~~~~-~~~~~~~fv~f~~~~~a~~a~~ 126 (148)
++++.. .+++++.++.. .-|.+..+.+-...+. -..+|..||+|.+.+.|..++.
T Consensus 112 r~v~~K-----~td~ql~~l~qw~~~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~ 168 (205)
T KOG4213|consen 112 RTVYKK-----ITDDQLDDLNQWASGKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDD 168 (205)
T ss_pred hhhhcc-----CCHHHHHHHHHHhcccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhh
Confidence 445554 34444444443 1267777766443221 1346788999999999988776
No 288
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=22.06 E-value=1.5e+02 Score=20.46 Aligned_cols=23 Identities=26% Similarity=0.492 Sum_probs=20.2
Q ss_pred cceEEEcCCCCCCCHHHHHHHHh
Q 032044 66 DFKLFVGNLSWSVTTESLTQAFQ 88 (148)
Q Consensus 66 ~~~l~i~nlp~~~~~~~l~~~f~ 88 (148)
...+.++|||+.++..-|..++.
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~ 119 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLE 119 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHH
T ss_pred CceEEEEEecccchHHHHHHHhh
Confidence 45688999999999999999887
No 289
>cd04458 CSP_CDS Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.
Probab=22.03 E-value=60 Score=16.74 Aligned_cols=11 Identities=36% Similarity=0.839 Sum_probs=8.4
Q ss_pred cccEEEEEeCC
Q 032044 16 SRGFAFVTMST 26 (148)
Q Consensus 16 ~~g~afv~f~~ 26 (148)
.+||+||.=.+
T Consensus 11 ~kGfGFI~~~~ 21 (65)
T cd04458 11 EKGFGFITPDD 21 (65)
T ss_pred CCCeEEEecCC
Confidence 47899997665
No 290
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=21.92 E-value=99 Score=14.95 Aligned_cols=20 Identities=10% Similarity=0.282 Sum_probs=16.0
Q ss_pred EcCCCCCCCHHHHHHHHhhc
Q 032044 71 VGNLSWSVTTESLTQAFQEY 90 (148)
Q Consensus 71 i~nlp~~~~~~~l~~~f~~~ 90 (148)
|-+++.+++.++|+..|...
T Consensus 5 vLgl~~~~~~~~ik~~y~~l 24 (55)
T cd06257 5 ILGVPPDASDEEIKKAYRKL 24 (55)
T ss_pred HcCCCCCCCHHHHHHHHHHH
Confidence 45788899999999888764
No 291
>PF11387 DUF2795: Protein of unknown function (DUF2795); InterPro: IPR021527 This family of proteins has no known function.
Probab=21.83 E-value=1.1e+02 Score=14.65 Aligned_cols=22 Identities=9% Similarity=0.308 Sum_probs=18.1
Q ss_pred EcCCCCCCCHHHHHHHHhhcCC
Q 032044 71 VGNLSWSVTTESLTQAFQEYGN 92 (148)
Q Consensus 71 i~nlp~~~~~~~l~~~f~~~g~ 92 (148)
++++++..+.++|.+.....|.
T Consensus 1 L~~~dyPa~k~~Lv~~A~~~gA 22 (44)
T PF11387_consen 1 LKGVDYPADKDELVRHARRNGA 22 (44)
T ss_pred CCCCCCCCCHHHHHHHHHHcCC
Confidence 3678888999999998888775
No 292
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=21.01 E-value=1.7e+02 Score=16.20 Aligned_cols=56 Identities=11% Similarity=0.112 Sum_probs=38.1
Q ss_pred EEEcCCCCCCCHHHHHHHHhh-cC-CeeEEEEEEcCCCCCceeEEEEEecCHHHHHHHHHH
Q 032044 69 LFVGNLSWSVTTESLTQAFQE-YG-NVVGARVLYDGESGRSRGYGFVCYSTKAEMETALES 127 (148)
Q Consensus 69 l~i~nlp~~~~~~~l~~~f~~-~g-~v~~~~~~~~~~~~~~~~~~fv~f~~~~~a~~a~~~ 127 (148)
-|.-.++...+..+|++.++. || .|..+....-+. ...-|||++...+.|......
T Consensus 16 ~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~---~~KKA~VtL~~g~~a~~va~k 73 (77)
T TIGR03636 16 KLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPR---GEKKAYVKLAEEYAAEEIASR 73 (77)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCC---CceEEEEEECCCCcHHHHHHh
Confidence 445557889999999999997 55 255555543322 233599999887777766543
No 293
>PF04127 DFP: DNA / pantothenate metabolism flavoprotein; InterPro: IPR007085 This entry represents the C-terminal domain found in DNA/pantothenate metabolism flavoproteins, which affects synthesis of DNA and pantothenate metabolism. These proteins contain ATP, phosphopantothenate, and cysteine binding sites. The structure of this domain has been determined in human phosphopantothenoylcysteine (PPC) synthetase [] and as the PPC synthase domain (CoaB) from the Escherichia coli coenzyme A bifunctional protein CoaBC []. This domain adopts a 3-layer alpha/beta/alpha fold with mixed beta-sheets, which topologically resembles a combination of Rossmann-like and ribokinase-like folds. The structure of these proteins predicts a ping pong mechanism with initial formation of an acyladenylate intermediate, followed by release of pyrophosphate and attack by cysteine to form the final products PPC and AMP. ; PDB: 1U7W_A 1U7U_A 1U80_C 1U7Z_A 1P9O_B 2GK4_A.
Probab=20.92 E-value=2.6e+02 Score=18.34 Aligned_cols=59 Identities=19% Similarity=0.183 Sum_probs=40.5
Q ss_pred eEEEcCCCCCCCHHHHHHHHhhcCCeeEEEEEEcCCC-CCceeEEEEEecCHHHHHHHHHHh
Q 032044 68 KLFVGNLSWSVTTESLTQAFQEYGNVVGARVLYDGES-GRSRGYGFVCYSTKAEMETALESL 128 (148)
Q Consensus 68 ~l~i~nlp~~~~~~~l~~~f~~~g~v~~~~~~~~~~~-~~~~~~~fv~f~~~~~a~~a~~~l 128 (148)
.-+|.|.+..-.-..|-+.+...|. .+.++..+.+ ..|.+.-.+.+.+.++...++..+
T Consensus 20 VR~ItN~SSG~~G~~lA~~~~~~Ga--~V~li~g~~~~~~p~~~~~i~v~sa~em~~~~~~~ 79 (185)
T PF04127_consen 20 VRFITNRSSGKMGAALAEEAARRGA--EVTLIHGPSSLPPPPGVKVIRVESAEEMLEAVKEL 79 (185)
T ss_dssp SEEEEES--SHHHHHHHHHHHHTT---EEEEEE-TTS----TTEEEEE-SSHHHHHHHHHHH
T ss_pred ceEecCCCcCHHHHHHHHHHHHCCC--EEEEEecCccccccccceEEEecchhhhhhhhccc
Confidence 5788999999888999999998884 4555555432 225578899999999988888754
No 294
>COG1278 CspC Cold shock proteins [Transcription]
Probab=20.53 E-value=47 Score=17.88 Aligned_cols=13 Identities=31% Similarity=0.636 Sum_probs=9.0
Q ss_pred CcccEEEEEeCCH
Q 032044 15 RSRGFAFVTMSTV 27 (148)
Q Consensus 15 ~~~g~afv~f~~~ 27 (148)
..+||+||+=.+.
T Consensus 11 ~~KGfGFI~p~~G 23 (67)
T COG1278 11 ATKGFGFITPEDG 23 (67)
T ss_pred CCCcceEcCCCCC
Confidence 3578999866554
No 295
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=20.13 E-value=1.6e+02 Score=20.07 Aligned_cols=24 Identities=13% Similarity=0.252 Sum_probs=20.1
Q ss_pred eEEEcCCCCCCCHHHHHHHHhhcC
Q 032044 68 KLFVGNLSWSVTTESLTQAFQEYG 91 (148)
Q Consensus 68 ~l~i~nlp~~~~~~~l~~~f~~~g 91 (148)
-+.++|+|+.++..-+..++..+|
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPK 119 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCC
Confidence 478999999999999999886544
Done!